Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold334
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1116604
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.28
Warning! 144470 characters in sequence are not A, C, G, or T
File 4 of 6
Found at i:433138 original size:62 final size:62
Alignment explanation
Indices: 433041--433229 Score: 351
Period size: 62 Copynumber: 3.0 Consensus size: 62
433031 ACTATCAGTA
*
433041 CATGAAGATTATCTCTGACCAAGGATCATGCAGGTACTTACCTTATACACATGTAGATAATG
1 CATGAAGATTATCTCTGACCAAGGATCATGCAGGTACTAACCTTATACACATGTAGATAATG
*
433103 CATGAAGATTATCTCTGACCGAGGATCATGCAGGTACTAACCTTATACACATGTAGATAATG
1 CATGAAGATTATCTCTGACCAAGGATCATGCAGGTACTAACCTTATACACATGTAGATAATG
*
433165 CATGAAGATTATCTCTCACCAAGGATCATGCAGGTACTAACCTTATACACATGTAGATAATG
1 CATGAAGATTATCTCTGACCAAGGATCATGCAGGTACTAACCTTATACACATGTAGATAATG
433227 CAT
1 CAT
433230 ACAGTAAGGA
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 123 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (62 bp):
CATGAAGATTATCTCTGACCAAGGATCATGCAGGTACTAACCTTATACACATGTAGATAATG
Found at i:435901 original size:167 final size:168
Alignment explanation
Indices: 435307--436216 Score: 1347
Period size: 168 Copynumber: 5.4 Consensus size: 168
435297 AAAAACTGGT
* * *
435307 TGCATGGTTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTTATGGCCCCTGGGTCAGG
1 TGCATGGTTATGATGTCCATGAAGCCCTCTACCTAAATTGTGAAATTCATGACCCCTGGGTCAGG
* * *
435372 GGTTCTGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTTTTAAATCTTGGAAAATC
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
* * * * *
435437 TTCTTCTTTACTACCATATATATTTTTTGAAAACTAGA
131 TTCTTCTCTACTCCCATATATATTTGTTAAAAACTAAA
* * * * *
435475 TGCATGATTATGATGTCCATAAAGCCCTCTACCTAAATTGTGAAATTCATGACCTCTAGGTCAAG
1 TGCATGGTTATGATGTCCATGAAGCCCTCTACCTAAATTGTGAAATTCATGACCCCTGGGTCAGG
*
435540 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTATTAAATCTTAGAAAATC
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
* *
435605 TTCTTCTCTACTACCATATATATTTGTTAAAAAATAAA
131 TTCTTCTCTACTCCCATATATATTTGTTAAAAACTAAA
* * * * *
435643 TGCATGATTATGATGTCCATGAGGCCCTCTATCAAAATTGTGAAATTCGTGACCCCTGGGTCAGG
1 TGCATGGTTATGATGTCCATGAAGCCCTCTACCTAAATTGTGAAATTCATGACCCCTGGGTCAGG
435708 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
*
435773 TTCTTCTCTACTCCCATATATATTT-TTTAAAACTAAA
131 TTCTTCTCTACTCCCATATATATTTGTTAAAAACTAAA
** *
435810 TGCATGGTTATGATGTCCATGAAGCCCTCTAATTAAATTGTGAAATTCATGACCCCTCGGTCAGG
1 TGCATGGTTATGATGTCCATGAAGCCCTCTACCTAAATTGTGAAATTCATGACCCCTGGGTCAGG
*
435875 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTGAAAATGTTTTAAATCTTAGAAAATC
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
435940 TTCTTCTCTACTCCCATATATATTTGTTAAAAACTAAA
131 TTCTTCTCTACTCCCATATATATTTGTTAAAAACTAAA
*
435978 TGCATGGTTATGATGTCCATGAGGCCCTCTACCTAAATTGTGAAATTCATGACCCCTGGGTCAGG
1 TGCATGGTTATGATGTCCATGAAGCCCTCTACCTAAATTGTGAAATTCATGACCCCTGGGTCAGG
* * * *
436043 TGTTCAGGCTCTAGGGTGGAGCCAATATGGCCAAATAGTGAAAATGTTTTAAATCTTAAAAAATC
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
* * * ** ** *
436108 TTCTTCTCTACTCCCACAAATGTGGGCAAAAAACTGAA
131 TTCTTCTCTACTCCCATATATATTTGTTAAAAACTAAA
* * * * * * * *
436146 TACATGGTTATGATATCCA-CAATCTCCTTTACCTAAATTGTGAAATTTATGGCCCCTGGGTCAT
1 TGCATGGTTATGATGTCCATGAAGC-CCTCTACCTAAATTGTGAAATTCATGACCCCTGGGTCAG
436210 GGGTTCA
65 GGGTTCA
436217 TGACATGAGG
Statistics
Matches: 677, Mismatches: 63, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
167 159 0.23
168 518 0.77
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (168 bp):
TGCATGGTTATGATGTCCATGAAGCCCTCTACCTAAATTGTGAAATTCATGACCCCTGGGTCAGG
GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
TTCTTCTCTACTCCCATATATATTTGTTAAAAACTAAA
Found at i:435959 original size:335 final size:336
Alignment explanation
Indices: 435307--436123 Score: 1375
Period size: 335 Copynumber: 2.4 Consensus size: 336
435297 AAAAACTGGT
* * *
435307 TGCATGGTTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTTATGGCCCCTGGGTCAGG
1 TGCATGGTTATGATGTCCATGAGGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
* * *
435372 GGTTCTGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTTTTAAATCTTGGAAAATC
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
* * *
435437 TTCTTCTTTACTACCATATATATTTTTTGAAAACTAGATGCATGATTATGATGTCCATAAAGCCC
131 TTCTTCTCTACTCCCATATATATTTTTTGAAAACTAAATGCATGATTATGATGTCCATAAAGCCC
* *
435502 TCTACCTAAATTGTGAAATTCATGACCTCTAGGTCAAGGGTTCAGGCTCTAGGGTGGGGCCAATA
196 TCTAACTAAATTGTGAAATTCATGACCCCTAGGTCAAGGGTTCAGGCTCTAGGGTGGGGCCAATA
435567 TGGCCAAATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTACTACCATATATATTTGT
261 TGGCCAAATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTACTACCATATATATTTGT
435632 TAAAAAATAAA
326 TAAAAAATAAA
* * *
435643 TGCATGATTATGATGTCCATGAGGCCCTCTATCAAAATTGTGAAATTCGTGACCCCTGGGTCAGG
1 TGCATGGTTATGATGTCCATGAGGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
435708 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
* *
435773 TTCTTCTCTACTCCCATATATATTTTTT-AAAACTAAATGCATGGTTATGATGTCCATGAAGCCC
131 TTCTTCTCTACTCCCATATATATTTTTTGAAAACTAAATGCATGATTATGATGTCCATAAAGCCC
* * *
435837 TCTAATTAAATTGTGAAATTCATGACCCCTCGGTCAGGGGTTCAGGCTCTAGGGTGGGGCCAATA
196 TCTAACTAAATTGTGAAATTCATGACCCCTAGGTCAAGGGTTCAGGCTCTAGGGTGGGGCCAATA
* * *
435902 TGGCCAAATAGTGAAAATGTTTTAAATCTTAGAAAATCTTCTTCTCTACTCCCATATATATTTGT
261 TGGCCAAATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTACTACCATATATATTTGT
*
435967 TAAAAACTAAA
326 TAAAAAATAAA
*
435978 TGCATGGTTATGATGTCCATGAGGCCCTCTACCTAAATTGTGAAATTCATGACCCCTGGGTCAGG
1 TGCATGGTTATGATGTCCATGAGGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
* * * *
436043 TGTTCAGGCTCTAGGGTGGAGCCAATATGGCCAAATAGTGAAAATGTTTTAAATCTTAAAAAATC
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
436108 TTCTTCTCTACTCCCA
131 TTCTTCTCTACTCCCA
436124 CAAATGTGGG
Statistics
Matches: 450, Mismatches: 31, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
335 303 0.67
336 147 0.33
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (336 bp):
TGCATGGTTATGATGTCCATGAGGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGGGTCAGG
GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCAAATAGTAAAAATGTTTTAAATCTTAGAAAATC
TTCTTCTCTACTCCCATATATATTTTTTGAAAACTAAATGCATGATTATGATGTCCATAAAGCCC
TCTAACTAAATTGTGAAATTCATGACCCCTAGGTCAAGGGTTCAGGCTCTAGGGTGGGGCCAATA
TGGCCAAATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCTCTACTACCATATATATTTGT
TAAAAAATAAA
Found at i:436594 original size:4 final size:4
Alignment explanation
Indices: 436579--436620 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
436569 ATCACCCGTT
* *
436579 GTCC GT-C GTCC GTCC GTCC GTCC GTCT GTCT GTCC GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
436621 TGTAAACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.00, C:0.43, G:0.26, T:0.31
Consensus pattern (4 bp):
GTCC
Found at i:436621 original size:12 final size:12
Alignment explanation
Indices: 436579--436623 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
436569 ATCACCCGTT
436579 GTCCGTC-GTCC
1 GTCCGTCTGTCC
*
436590 GTCCGTCCGTCC
1 GTCCGTCTGTCC
*
436602 GTCTGTCTGTCC
1 GTCCGTCTGTCC
436614 GTCCGTCTGT
1 GTCCGTCTGT
436624 AAACTTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 7 0.23
12 23 0.77
ACGTcount: A:0.00, C:0.40, G:0.27, T:0.33
Consensus pattern (12 bp):
GTCCGTCTGTCC
Found at i:437071 original size:166 final size:166
Alignment explanation
Indices: 436793--437091 Score: 544
Period size: 166 Copynumber: 1.8 Consensus size: 166
436783 GCATGTTTTT
*
436793 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATAGA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAAAATTTACACAAAAGCTTGTATAGA
*
436858 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGAGGCCCCAGGCGGGGTT
66 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACAAAAACTGAGGCCCCAGGCGGGGTT
436923 CAAAGTTTAACATAGAAATACATAGAAAAATGTTTA
131 CAAAGTTTAACATAGAAATACATAGAAAAATGTTTA
* * *
436959 AAAAATCTTCTTCTCAATAACCACTGCACCAGAAATGCCAAAATTTACACAAAAGCTTTTATATA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAAAATTTACACAAAAGCTTGTATAGA
*
437024 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACAAAAACTGGGGCCCCAGGCGGGGTT
66 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACAAAAACTGAGGCCCCAGGCGGGGTT
437089 CAA
131 CAA
437092 NAAAATGGAT
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
166 127 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (166 bp):
AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAAAATTTACACAAAAGCTTGTATAGA
TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACAAAAACTGAGGCCCCAGGCGGGGTT
CAAAGTTTAACATAGAAATACATAGAAAAATGTTTA
Found at i:437284 original size:4 final size:4
Alignment explanation
Indices: 437269--437310 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
437259 ATCACCCGTT
* *
437269 GTCC GT-C GTCC GTCC GTCC GTCC GTCT GTCT GTCC GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
437311 TGTAAACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.00, C:0.43, G:0.26, T:0.31
Consensus pattern (4 bp):
GTCC
Found at i:437311 original size:12 final size:12
Alignment explanation
Indices: 437269--437313 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
437259 ATCACCCGTT
437269 GTCCGTC-GTCC
1 GTCCGTCTGTCC
*
437280 GTCCGTCCGTCC
1 GTCCGTCTGTCC
*
437292 GTCTGTCTGTCC
1 GTCCGTCTGTCC
437304 GTCCGTCTGT
1 GTCCGTCTGT
437314 AAACTTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 7 0.23
12 23 0.77
ACGTcount: A:0.00, C:0.40, G:0.27, T:0.33
Consensus pattern (12 bp):
GTCCGTCTGTCC
Found at i:437761 original size:166 final size:167
Alignment explanation
Indices: 437483--438337 Score: 1369
Period size: 167 Copynumber: 5.1 Consensus size: 167
437473 GCATGTTTTT
* *
437483 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATAGA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTTTATATA
*
437548 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGAGGCCCCAGGCGGGGTT
66 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
437613 CAAAGTTTAACATAGAAATACATA-GAAAAATGTTTA
131 CAAAGTTTAACATAGAAATACATATGAAAAATGTTTA
* *
437649 AAAAATCTTCTTCTCAATAACCACTGCACCAGAAATGCCAAAATTTACACAAAAGCTTTTATATA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTTTATATA
*
437714 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACAAAAACTGGGGCCCCAGGCGGGGTT
66 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
*
437779 CAAAGTTTAACATAGAACTACATATGAAAAATGTTTA
131 CAAAGTTTAACATAGAAATACATATGAAAAATGTTTA
437816 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTT-TAT
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTT-TTATAT
*
437880 ATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCATGCGGGGT
65 ATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGT
* * *
437945 TCAAAGTTTAGCATAGAAATACCT-TAGGAAAATGTTTA
130 TCAAAGTTTAACATAGAAATACATAT-GAAAAATGTTTA
* *
437983 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAAT-TTTAACACAAAAGCTTGTATGT
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTT-ACACAAAAGCTTTTATAT
* * *
438047 ATAATGAAAATTCTAAATTGTAGAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGT
65 ATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGT
* **** *
438112 TCAAAGTTTAACATAGAAATACATAGGGTGCATGTTTTT
130 TCAAAGTTTAACATAGAAATACATATGAAAAATG-TTTA
*
438151 AAAAATCTTTTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTTTATATA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTTTATATA
* * *
438216 TAGTGAAAATTCTAAATTGTAAAAAATAGTGACCCTCGGACTAAAACTGGGGCCCCAGGCGGGGT
66 TAGTGAAGATTCTAAATTGT-AAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGT
* *
438281 TTAAAGTTTAACATAGAACTACATATGAAAAATGTTT-
130 TCAAAGTTTAACATAGAAATACATATGAAAAATGTTTA
*
438318 AAAAATTTTCTTCTCAAGAA
1 AAAAATCTTCTTCTCAAGAA
438338 ATGTAATGTT
Statistics
Matches: 636, Mismatches: 44, Indels: 17
0.91 0.06 0.02
Matches are distributed among these distances:
166 152 0.24
167 328 0.52
168 85 0.13
169 71 0.11
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (167 bp):
AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTTTATATA
TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
CAAAGTTTAACATAGAAATACATATGAAAAATGTTTA
Found at i:440141 original size:20 final size:20
Alignment explanation
Indices: 440112--440156 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
440102 CCACTCCCCA
*
440112 CCATCTTCTAGTGGGCATGT
1 CCATCATCTAGTGGGCATGT
440132 CCATCATCTAGTGGGCATGT
1 CCATCATCTAGTGGGCATGT
440152 CCATC
1 CCATC
440157 CAATGCCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (20 bp):
CCATCATCTAGTGGGCATGT
Found at i:440393 original size:37 final size:37
Alignment explanation
Indices: 440375--440546 Score: 317
Period size: 37 Copynumber: 4.6 Consensus size: 37
440365 AGGATTTTTC
*
440375 TGAGATATTCACTGACCTGATTGGTTTGAAATTTTGG
1 TGAGATATTCACTGACCTGATTGGTTTGAGATTTTGG
440412 TGAGATATTCACTGACCTGATTGGTTTGAGATTTTGG
1 TGAGATATTCACTGACCTGATTGGTTTGAGATTTTGG
* *
440449 TGAGCTATTCACTGACATGATTGGTTTGAGATTTTGG
1 TGAGATATTCACTGACCTGATTGGTTTGAGATTTTGG
440486 TGAGATATTCACTGACCTGATTGGTTTGAGATTTTGG
1 TGAGATATTCACTGACCTGATTGGTTTGAGATTTTGG
440523 TGAGATATTCACTGACCTGATTGG
1 TGAGATATTCACTGACCTGATTGG
440547 CATCAGAAGC
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 130 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.40
Consensus pattern (37 bp):
TGAGATATTCACTGACCTGATTGGTTTGAGATTTTGG
Found at i:442429 original size:104 final size:104
Alignment explanation
Indices: 442244--442787 Score: 935
Period size: 104 Copynumber: 5.2 Consensus size: 104
442234 TGATGACAGC
*
442244 CACCACAAACAGGTCCCAGTGGTAGGCGGCACCCTTCTTTAATCTGGTGAAAATCATACAAATGT
1 CACCACAAACGGGTCCCAGTGGTAGGCGGCACCCTTCTTTAATCTGGTGAAAATCATACAAATGT
* *
442309 TTACTTAAACAGTGGTATTCAAACCTTGGCTACATAAAA
66 TTACTTAAACAGTGGTATTTAAACCTTGGCTATATAAAA
* *
442348 CACCGCAAACGGGTCCCAGTGGTAGGTGGCACCCTTCTTTAATCTGGTGAAAATCATACAAATGT
1 CACCACAAACGGGTCCCAGTGGTAGGCGGCACCCTTCTTTAATCTGGTGAAAATCATACAAATGT
*
442413 TTACTTAAACAGTGGTATTTAAACCTTGGCTATATAATA
66 TTACTTAAACAGTGGTATTTAAACCTTGGCTATATAAAA
* *
442452 CACCACAAACGGGTCCCAGTGGTATGCAGCACCCTTCTTTAATCTGGTGAAAATCATACAAATGT
1 CACCACAAACGGGTCCCAGTGGTAGGCGGCACCCTTCTTTAATCTGGTGAAAATCATACAAATGT
* *
442517 TTACTTAAACAGTGGTATTTAAACATTGGCTTTATAAAA
66 TTACTTAAACAGTGGTATTTAAACCTTGGCTATATAAAA
*
442556 CACCGCAAACGGGTCCCAGTGGTAGGCGGCACCCTTCTTTAATCTGGTGAAAATCATACAAATGT
1 CACCACAAACGGGTCCCAGTGGTAGGCGGCACCCTTCTTTAATCTGGTGAAAATCATACAAATGT
442621 TTACTTAAACAGTGGTATTTAAACCTTGGCTATATAAAA
66 TTACTTAAACAGTGGTATTTAAACCTTGGCTATATAAAA
* * *
442660 CACCGCAAACGGGTCCCAGTGGTAGGTGGCGCCCTTCTTTAATCTGGTGAAAATCATACAAATGT
1 CACCACAAACGGGTCCCAGTGGTAGGCGGCACCCTTCTTTAATCTGGTGAAAATCATACAAATGT
* *
442725 TTACTTAAACAGTGGTAATTAAACCTTGGCTATATAAAT
66 TTACTTAAACAGTGGTATTTAAACCTTGGCTATATAAAA
*
442764 CACCACAAACAGGTCCCAGTGGTA
1 CACCACAAACGGGTCCCAGTGGTA
442788 CTACTAGGCA
Statistics
Matches: 416, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 416 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (104 bp):
CACCACAAACGGGTCCCAGTGGTAGGCGGCACCCTTCTTTAATCTGGTGAAAATCATACAAATGT
TTACTTAAACAGTGGTATTTAAACCTTGGCTATATAAAA
Found at i:443282 original size:32 final size:33
Alignment explanation
Indices: 443246--443309 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
443236 ACTTCTCTAA
443246 AGATACATACTATGGACTTCTCCGT-AGCACAC
1 AGATACATACTATGGACTTCTCCGTAAGCACAC
* * *
443278 AGATACGTACTGTGGACTTCTCTGTAAGCACA
1 AGATACATACTATGGACTTCTCCGTAAGCACA
443310 AACCAGAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (33 bp):
AGATACATACTATGGACTTCTCCGTAAGCACAC
Found at i:443555 original size:32 final size:32
Alignment explanation
Indices: 443517--443769 Score: 398
Period size: 32 Copynumber: 7.9 Consensus size: 32
443507 TTTTCAGAAG
* * * *
443517 ACACAGATACCTACTGTAGACTTCTCTTATCT
1 ACACAGATACATACTGTGGACTTCTCTGATCC
443549 ACACAGATACATACTGTGGACTTCTCTGATCC
1 ACACAGATACATACTGTGGACTTCTCTGATCC
* * *
443581 ATACAGATACGTACTGTGAACTTCTCTGATCC
1 ACACAGATACATACTGTGGACTTCTCTGATCC
*
443613 ACACAGATACATACTGTAGACTTCTCTGATCC
1 ACACAGATACATACTGTGGACTTCTCTGATCC
443645 ACACAGATACATACTGTGGACTTCTCTGATCC
1 ACACAGATACATACTGTGGACTTCTCTGATCC
* *
443677 ACACAGATACTTACTGTAGACTTCTCTGATCC
1 ACACAGATACATACTGTGGACTTCTCTGATCC
*
443709 ACACAGATACTTACTGTGGACTTCTCTGATCC
1 ACACAGATACATACTGTGGACTTCTCTGATCC
*
443741 ACACAGATACTTACTGTGGACTTCTCTGA
1 ACACAGATACATACTGTGGACTTCTCTGA
443770 ACACATAGGA
Statistics
Matches: 206, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 206 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (32 bp):
ACACAGATACATACTGTGGACTTCTCTGATCC
Found at i:446554 original size:27 final size:27
Alignment explanation
Indices: 446524--446603 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 27
446514 AATTAGTTTT
446524 TAGATAACTGGAAATGTAATCAATATC
1 TAGATAACTGGAAATGTAATCAATATC
* * * * *
446551 TAGATCACTGGAGATGTGATCAAAATG
1 TAGATAACTGGAAATGTAATCAATATC
* * * *
446578 AAGATAAATAGAAATGTATTCAATAT
1 TAGATAACTGGAAATGTAATCAATAT
446604 AACTGGCGAT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.29
Consensus pattern (27 bp):
TAGATAACTGGAAATGTAATCAATATC
Found at i:447587 original size:21 final size:21
Alignment explanation
Indices: 447557--447604 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
447547 TTTTTTGGCT
*
447557 TTGCAAGAGCTATCATATACG
1 TTGCACGAGCTATCATATACG
* * *
447578 TTGCACGAGCTCTCATCTTCG
1 TTGCACGAGCTATCATATACG
447599 TTGCAC
1 TTGCAC
447605 CTTGTACTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (21 bp):
TTGCACGAGCTATCATATACG
Found at i:447728 original size:43 final size:43
Alignment explanation
Indices: 447603--447872 Score: 434
Period size: 43 Copynumber: 6.2 Consensus size: 43
447593 TCTTCGTTGC
* *
447603 ACCTTGTACTTATATTTGTTACATCACAGGGAGGATAAGGAATG
1 ACCTTGTACTTATA-TTGATACATCACAGAGAGGATAAGGAATG
* *
447647 ACCTTGTACTTATATTTGTTACATCACAGAGAGAATAAGGAATG
1 ACCTTGTACTTATA-TTGATACATCACAGAGAGGATAAGGAATG
*
447691 ACCTTGTACTTATATTGATACATCACAGAGAGTATAAGGAATG
1 ACCTTGTACTTATATTGATACATCACAGAGAGGATAAGGAATG
447734 ACCTTGTACTTATATTGATACATCACAGAGAGGATAAGGAATG
1 ACCTTGTACTTATATTGATACATCACAGAGAGGATAAGGAATG
* *
447777 ACCTTGTACTTATATTGATACATCACAGAGAGTATAAGGAATA
1 ACCTTGTACTTATATTGATACATCACAGAGAGGATAAGGAATG
447820 ACCTTGTACTTATATT-AGTACATCACAGAGAGGATAAGGAATG
1 ACCTTGTACTTATATTGA-TACATCACAGAGAGGATAAGGAATG
*
447863 ACGTTGTACT
1 ACCTTGTACT
447873 CACCATCCCT
Statistics
Matches: 215, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
42 1 0.00
43 158 0.73
44 56 0.26
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (43 bp):
ACCTTGTACTTATATTGATACATCACAGAGAGGATAAGGAATG
Found at i:451421 original size:15 final size:16
Alignment explanation
Indices: 451396--451444 Score: 73
Period size: 15 Copynumber: 3.1 Consensus size: 16
451386 AAGCAAATTT
451396 ACTCTTGATCTCTCGA
1 ACTCTTGATCTCTCGA
451412 ACTC-TGATCTCTCGA
1 ACTCTTGATCTCTCGA
*
451427 AGTTCTTGATCTCTCGA
1 A-CTCTTGATCTCTCGA
451444 A
1 A
451445 GTAAAACCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 12 0.40
16 6 0.20
17 12 0.40
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (16 bp):
ACTCTTGATCTCTCGA
Found at i:451436 original size:17 final size:17
Alignment explanation
Indices: 451398--451446 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
451388 GCAAATTTAC
*
451398 TCTTGATCTCTCGAA-C
1 TCTTGATCTCTCGAAGT
451414 TC-TGATCTCTCGAAGT
1 TCTTGATCTCTCGAAGT
451430 TCTTGATCTCTCGAAGT
1 TCTTGATCTCTCGAAGT
451447 AAAACCTGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 12 0.40
16 4 0.13
17 14 0.47
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (17 bp):
TCTTGATCTCTCGAAGT
Found at i:454202 original size:45 final size:45
Alignment explanation
Indices: 454132--455123 Score: 1140
Period size: 45 Copynumber: 22.4 Consensus size: 45
454122 ATTGTTCAAT
* * *
454132 AACTTGTATG-AACAGATTGTCTTGTACATTGATCATTGGTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* *
454176 AACTTGTCTGTAACAGAGTGACTTGTACATTGATCA-TGCTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * *
454220 AACTTGTCTGTAACAGAATAACTTGTACATTGATCATTTGTAGAA
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * * *
454265 AACTTGACTGTAACAGAATGACTTGTATATTAATCATTAGTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * *
454310 CACTTATCTGTAACAGAATGACTTGTGCATT--T-A-T-G-A-AG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
** * * *
454348 AACTTAACTATAACA-AACTGACTTGTAGATTGATCATTGGAAGAG
1 AACTTGTCTGTAACAGAA-TGACTTGTACATTGATCATTGGTAGAG
* *
454393 AACTTGTCTGTAACAGAATGACTTGTACATTGACCATTGGTAAAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* *
454438 AACTTGTCTGTAACAGAATGACTTGTACATTTATCATTGCTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * * * * * *
454483 AAATTGCCTGTAGCAGAATGACTTGTACATTGATCAATAGAAGAA
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* *
454528 AACTTGTCTGAAACAGAATGACTTGTACATTGATCATTAGTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * * * * *
454573 AACTTGACTGTAACTGAGTGACTTTTACATTTATCATTGCTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
*
454618 AACTTGTCTGTAACAGAATAACTTGTACATTG---A-T-G-A-AG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * * *
454656 ATCTTGTCTGTAACAGAGTGACTTGTACATTGACCATTGGTAAAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * * * *
454701 AACTTGTCTGTAACAGAGTTAGTTGTACATTGA-CGATTGGTAAAA
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATC-ATTGGTAGAG
*
454746 AACTTGTCTGTAACAGAATGACTTGTAAATTGATCATTGGTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * *
454791 AACTTGTCTGTAACAGAATGACTTGTACATTAATCACTAGTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * *
454836 AACTTGTCTGTAACAGAGTGACTTGTACATTTATCATTGCTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * *
454881 AACTTGTCTATAACAAAATGACTTGTACATTGATCATTGGTAGAA
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* *
454926 AACTTGTCTGTAACAGAGTGACTTGTACATTTATCATTGGTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * *
454971 AACTTGTATGTAACAGAGTGACTTGTACATTGACCATTGGTTA-AG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGG-TAGAG
* * * * * * *
455016 AAATTGTCTGCAATAGAATGTCTTGTACATTAATCACTGGCAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
* * * *
455061 AACTTGTCTGTAACAGAATGACTTGAACATTAATCACTAGTAGAG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
*
455106 AAATTGTCTGTAACAGAA
1 AACTTGTCTGTAACAGAA
455124 CGATTCGTAA
Statistics
Matches: 805, Mismatches: 121, Indels: 43
0.83 0.12 0.04
Matches are distributed among these distances:
37 2 0.00
38 56 0.07
39 2 0.00
40 2 0.00
41 4 0.00
42 4 0.00
43 3 0.00
44 54 0.07
45 673 0.84
46 5 0.01
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (45 bp):
AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGGTAGAG
Found at i:454551 original size:135 final size:135
Alignment explanation
Indices: 454132--456071 Score: 1405
Period size: 135 Copynumber: 14.4 Consensus size: 135
454122 ATTGTTCAAT
* * * * * *
454132 AACTTGTATG-AACAGATTGTCTTGTACATTGATCATTGGTAGAGAACTTGTCTGTAACAGAGTG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAATG
* *
454196 ACTTGTACATTGATCA-TGCTAGAGAACTTGTCTGTAACAGAATAACTTGTACATTGATCATTTG
66 ACTTGTACATTGATCATTGCTAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGG
454260 TAGAA
131 TAGAA
* * * * * *
454265 AACTTGACTGTAACAGAATGACTTGTATATTAATCATTAGTAGAGCACTTATCTGTAACAGAATG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAATG
* ** * *
454330 ACTTGTGCATT--T-A-TG--A-AGAACTTAACTATAACA-AACTGACTTGTAGATTGATCATTG
66 ACTTGTACATTGATCATTGCTAGAGAACTTGTCTGTAACAGAA-TGACTTGTACATTGATCATTG
* *
454387 GAAGAG
130 GTAGAA
* *
454393 AACTTGTCTGTAACAGAATGACTTGTACATTGACCATTGGTAAAGAACTTGTCTGTAACAGAATG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAATG
* * * * * *
454458 ACTTGTACATTTATCATTGCTAGAGAAATTGCCTGTAGCAGAATGACTTGTACATTGATCAATAG
66 ACTTGTACATTGATCATTGCTAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGG
*
454523 AAGAA
131 TAGAA
* * * * *
454528 AACTTGTCTGAAACAGAATGACTTGTACATTGATCATTAGTAGAGAACTTGACTGTAACTGAGTG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAATG
* * *
454593 ACTTTTACATTTATCATTGCTAGAGAACTTGTCTGTAACAGAATAACTTGTACATTG---A-T-G
66 ACTTGTACATTGATCATTGCTAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGG
*
454653 -A-AG
131 TAGAA
* * * * * *
454656 ATCTTGTCTGTAACAGAGTGACTTGTACATTGACCATTGGTAAAGAACTTGTCTGTAACAGAGTT
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAATG
* * * * *
454721 AGTTGTACATTGA-CGATTGGTAAAAAACTTGTCTGTAACAGAATGACTTGTAAATTGATCATTG
66 ACTTGTACATTGATC-ATTGCTAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATCATTG
*
454785 GTAGAG
130 GTAGAA
* * * *
454791 AACTTGTCTGTAACAGAATGACTTGTACATTAATCACTAGTAGAGAACTTGTCTGTAACAGAGTG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAATG
* * *
454856 ACTTGTACATTTATCATTGCTAGAGAACTTGTCTATAACAAAATGACTTGTACATTGATCATTGG
66 ACTTGTACATTGATCATTGCTAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGG
454921 TAGAA
131 TAGAA
* * * * * *
454926 AACTTGTCTGTAACAGAGTGACTTGTACATTTATCATTGGTAGAGAACTTGTATGTAACAGAGTG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAATG
* * * * * * * *
454991 ACTTGTACATTGACCATTGGTTA-AGAAATTGTCTGCAATAGAATGTCTTGTACATTAATCACTG
66 ACTTGTACATTGATCATT-GCTAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATCATTG
* *
455055 GCAGAG
130 GTAGAA
* * * * *
455061 AACTTGTCTGTAACAGAATGACTTGAACATTAATCACTAGTAGAGAAATTGTCTGTAACAGAACG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGT-----AAC-
* * * *
455126 ATTCGTAACAGAGTGACTTGTACATTTATCATTGCTA-ATGAAATTGCCTGTAGCAGAATGACTT
60 A---G----A-A-TGACTTGTACATTGATCATTGCTAGA-GAACTTGTCTGTAACAGAATGACTT
* *
455190 GTACATTGATCAATAGTAGAA
115 GTACATTGATCATTGGTAGAA
* * * * *
455211 AACTTGTCTGAAACAGAATGACTTGTACATTGATCATTAGTAGAGAACTTGACTGTAACTGAGTG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAATG
* * * *
455276 ACTTGTACATTGACCATTGGTTA-AGAACTTGTCTGTAACAGAGTGAGTTGTACATTGA-CGATT
66 ACTTGTACATTGATCATT-GCTAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATC-ATT
*
455339 GGTAAAA
129 GGTAGAA
*
455346 AACTTGTCTGTAACAGAATGACTTGTACATTG---A-T-G--AAGAACTTGACTGTAACAGAATG
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAATG
* *
455404 ACTTGTACATTGATCATTGGTAGAGAACTTGTCTGTAACAGAGAATTGAC-TGTAACA--GAGTG
66 ACTTGTACATTGATCATTGCTAGAGAACTTGTCTGTAAC--AGAA-TGACTTGT-ACATTGA-TC
*
455466 ACTT--T--TA
126 A-TTGGTAGAA
* * * * * * * **
455473 CA-TTGATCATTGCT-AGAGAA--A-TT-T-C-CTGTAACA-GAGTGACTAGCACATTGATCACT
1 AACTTG-TC--TG-TAACAGAATGACTTGTACATTG-ATCATTAGT-A-AAGAAC-TTG-TCTGT
* * * * * *
455529 AATAGAGAACTTGTC-TGTAACA--GAGTGACTTG-TACATTGACCATTG---GT-AGAGAACTT
57 -A-ACAGAA--TGACTTGT-ACATTGA-TCA-TTGCTAGA--GAAC-TTGTCTGTAACAGAA--T
* **
455586 GTC-TGTAACAAAATGTCTTG-TACATTAATCACTTGTAGA
110 GACTTGT-AC---A----TTGAT-CATTGGT-A---G-A-A
* *
455625 GAACTTGTCTGTAACAGAATGACTTGTACA---ATGA-T-G--AAGAACTTGACTGTAACA-AAT
1 -AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAA-
* * * * * * *
455682 TGACTTGCACATTGATCATTGGTAGTGGACTTGTCTGTAACAGAATGACTTGTTCATTGATTACT
64 TGACTTGTACATTGATCATTGCTAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATCATT
* *
455747 AGTAGAG
129 GGTAGAA
* * *
455754 AACCTGTCTGTAACAGAGTGACTTGTACATTGATCATTAGCAGAA-AACTTGTCTGTAACAGAAT
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTA-AAGAACTTGTCTGTAACAGAAT
* * * * *
455818 GACTTGTACATTGGTCATTGGTAGAGAA-TTGACTGTAACAGAGTGACTTTTACATTGATCATTG
65 GACTTGTACATTGATCATTGCTAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATCATTG
*
455882 CTAGAGA
130 GTAGA-A
* * * *
455889 AA-TT-TCCTGTAACAGAGTGACTTGCACATTGATCACTAATAGAA-AACTTGTCTGTAACAGAA
1 AACTTGT-CTGTAACAGAATGACTTGTACATTGATCATTAGTA-AAGAACTTGTCTGTAACAGAA
* * * *
455951 TGACTT-TACATTGATCATTAG-TTGAGAACTTGTTTTTAACA-AAGTGACTTGTACATTGACCA
64 TGACTTGTACATTGATCATT-GCTAGAGAACTTGTCTGTAACAGAA-TGACTTGTACATTGATCA
*
456013 TTGGTAGAG
127 TTGGTAGAA
*
456022 AACTTGTCTGTAACAGAATGACTTGTACATTGCTCATT-GTAAGAGAACTT
1 AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAA-AGAACTT
456072 AACAGAGTGA
Statistics
Matches: 1446, Mismatches: 232, Indels: 257
0.75 0.12 0.13
Matches are distributed among these distances:
123 2 0.00
124 1 0.00
125 1 0.00
126 5 0.00
127 12 0.01
128 288 0.20
129 12 0.01
130 12 0.01
131 19 0.01
132 12 0.01
133 38 0.03
134 225 0.16
135 570 0.39
136 23 0.02
137 11 0.01
138 10 0.01
139 4 0.00
140 9 0.01
141 4 0.00
142 17 0.01
143 14 0.01
144 12 0.01
145 4 0.00
146 2 0.00
147 3 0.00
148 5 0.00
149 4 0.00
150 105 0.07
151 7 0.00
152 2 0.00
153 6 0.00
154 5 0.00
155 1 0.00
156 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (135 bp):
AACTTGTCTGTAACAGAATGACTTGTACATTGATCATTAGTAAAGAACTTGTCTGTAACAGAATG
ACTTGTACATTGATCATTGCTAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATCATTGG
TAGAA
Found at i:455169 original size:60 final size:60
Alignment explanation
Indices: 455070--455183 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
455060 GAACTTGTCT
*
455070 GTAACAGAATGACTTGAACATTAATCACTAGTAGAGAAATTGTCTGTAACAGAACGATTC
1 GTAACAGAATGACTTGAACATTAATCACTAGTAGAGAAATTGCCTGTAACAGAACGATTC
* * * * *
455130 GTAACAGAGTGACTTGTACATTTATCA-TTGCTA-ATGAAATTGCCTGTAGCAGAA
1 GTAACAGAATGACTTGAACATTAATCACTAG-TAGA-GAAATTGCCTGTAACAGAA
455184 TGACTTGTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 3 0.07
60 43 0.93
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (60 bp):
GTAACAGAATGACTTGAACATTAATCACTAGTAGAGAAATTGCCTGTAACAGAACGATTC
Found at i:455228 original size:45 final size:45
Alignment explanation
Indices: 455130--455445 Score: 355
Period size: 45 Copynumber: 7.2 Consensus size: 45
455120 AGAACGATTC
* * * * *
455130 GTAACAGAGTGACTTGTACATTTATCATTGCTA-ATGAAATTGCCT
1 GTAACAGAATGACTTGTACATTGATCATTGGTAGA-GAACTTGTCT
* * * *
455175 GTAGCAGAATGACTTGTACATTGATCAATAGTAGAAAACTTGTCT
1 GTAACAGAATGACTTGTACATTGATCATTGGTAGAGAACTTGTCT
* * *
455220 GAAACAGAATGACTTGTACATTGATCATTAGTAGAGAACTTGACT
1 GTAACAGAATGACTTGTACATTGATCATTGGTAGAGAACTTGTCT
* * *
455265 GTAACTGAGTGACTTGTACATTGACCATTGGTTA-AGAACTTGTCT
1 GTAACAGAATGACTTGTACATTGATCATTGG-TAGAGAACTTGTCT
* * * *
455310 GTAACAGAGTGAGTTGTACATTGA-CGATTGGTAAAAAACTTGTCT
1 GTAACAGAATGACTTGTACATTGATC-ATTGGTAGAGAACTTGTCT
*
455355 GTAACAGAATGACTTGTACATTG---A-T-G-A-AGAACTTGACT
1 GTAACAGAATGACTTGTACATTGATCATTGGTAGAGAACTTGTCT
455393 GTAACAGAATGACTTGTACATTGATCATTGGTAGAGAACTTGTCT
1 GTAACAGAATGACTTGTACATTGATCATTGGTAGAGAACTTGTCT
455438 GTAACAGA
1 GTAACAGA
455446 GAATTGACTG
Statistics
Matches: 232, Mismatches: 28, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
38 32 0.14
39 1 0.00
40 1 0.00
41 2 0.01
42 2 0.01
43 1 0.00
44 4 0.02
45 186 0.80
46 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (45 bp):
GTAACAGAATGACTTGTACATTGATCATTGGTAGAGAACTTGTCT
Found at i:455252 original size:150 final size:150
Alignment explanation
Indices: 454980--455269 Score: 393
Period size: 150 Copynumber: 1.9 Consensus size: 150
454970 GAACTTGTAT
* * * *
454980 GTAACAGAGTGACTTGTACATTGACCATTGGTTAAGAAATTGTCTGCAATAGAATGTCTTGTACA
1 GTAACAGAGTGACTTGTACATTGACCATTGGCTAAGAAATTGCCTGCAACAGAATGACTTGTACA
* * * *
455045 TTAATCACTGGCAGAGAACTTGTCTGTAACAGAATGACTTGAACATTAATCACTAGTAGAGAAAT
66 TTAATCAATAGCAGAAAACTTGTCTGAAACAGAATGACTTGAACATTAATCACTAGTAGAGAAAT
*
455110 TGTCTGTAACAGAACGATTC
131 TGACTGTAACAGAACGATTC
* * * *
455130 GTAACAGAGTGACTTGTACATTTATCATT-GCTAATGAAATTGCCTGTAGCAGAATGACTTGTAC
1 GTAACAGAGTGACTTGTACATTGACCATTGGCTAA-GAAATTGCCTGCAACAGAATGACTTGTAC
* * * * * *
455194 ATTGATCAATAGTAGAAAACTTGTCTGAAACAGAATGACTTGTACATTGATCATTAGTAGAGAAC
65 ATTAATCAATAGCAGAAAACTTGTCTGAAACAGAATGACTTGAACATTAATCACTAGTAGAGAAA
455259 TTGACTGTAAC
130 TTGACTGTAAC
455270 TGAGTGACTT
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
149 4 0.03
150 116 0.97
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (150 bp):
GTAACAGAGTGACTTGTACATTGACCATTGGCTAAGAAATTGCCTGCAACAGAATGACTTGTACA
TTAATCAATAGCAGAAAACTTGTCTGAAACAGAATGACTTGAACATTAATCACTAGTAGAGAAAT
TGACTGTAACAGAACGATTC
Found at i:455269 original size:195 final size:195
Alignment explanation
Indices: 454935--455317 Score: 477
Period size: 195 Copynumber: 2.0 Consensus size: 195
454925 AAACTTGTCT
* * * *
454935 GTAACAGAGTGACTTGTACATTTATCATTGGTAGAGAACTTGTATGTAACAGAGTGACTTGTACA
1 GTAACAGAGTGACTTGTACATTTATCATTGCTAGAGAAATTGCATGTAACAGAATGACTTGTACA
* * * * * *
455000 TTGACCATTGGTTAAGAAATTGTCTGCAATAGAATGTCTTGTACATTAATCACTGGCAGAGAACT
66 TTGACCAATAGTTAAGAAATTGTCTGAAACAGAATGACTTGTACATTAATCACTAGCAGAGAACT
* *
455065 TGTCTGTAACAGAATGACTTGAACATTAATCACTAG-TAGAGAAATTGTCTGTAACAGAACGATT
131 TGACTGTAACAGAATGACTTGAACATTAACCACTAGTTA-AGAAATTGTCTGTAACAGAACGATT
455129 C
195 C
* *
455130 GTAACAGAGTGACTTGTACATTTATCATTGCTA-ATGAAATTGCCTGTAGCAGAATGACTTGTAC
1 GTAACAGAGTGACTTGTACATTTATCATTGCTAGA-GAAATTGCATGTAACAGAATGACTTGTAC
* * * *
455194 ATTGATCAATAG-T-AGAAAACTTGTCTGAAACAGAATGACTTGTACATTGATCATTAGTAGAGA
65 ATTGACCAATAGTTAAG-AAA-TTGTCTGAAACAGAATGACTTGTACATTAATCACTAGCAGAGA
* * * * * * *
455257 ACTTGACTGTAACTGAGTGACTTGTACATTGACCATTGGTTAAGAACTTGTCTGTAACAGA
128 ACTTGACTGTAACAGAATGACTTGAACATTAACCACTAGTTAAGAAATTGTCTGTAACAGA
455318 GTGAGTTGTA
Statistics
Matches: 159, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
193 2 0.01
194 5 0.03
195 150 0.94
196 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (195 bp):
GTAACAGAGTGACTTGTACATTTATCATTGCTAGAGAAATTGCATGTAACAGAATGACTTGTACA
TTGACCAATAGTTAAGAAATTGTCTGAAACAGAATGACTTGTACATTAATCACTAGCAGAGAACT
TGACTGTAACAGAATGACTTGAACATTAACCACTAGTTAAGAAATTGTCTGTAACAGAACGATTC
Found at i:455371 original size:19 final size:19
Alignment explanation
Indices: 455347--455409 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
455337 TTGGTAAAAA
455347 ACTTGTCTGTAACAGAATG
1 ACTTGTCTGTAACAGAATG
* *
455366 ACTTGTACAT-TGA-TGAA-G
1 ACTTGT-C-TGTAACAGAATG
*
455384 AACTTGACTGTAACAGAATG
1 -ACTTGTCTGTAACAGAATG
455404 ACTTGT
1 ACTTGT
455410 ACATTGATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 1 0.03
18 4 0.12
19 22 0.69
20 4 0.12
21 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (19 bp):
ACTTGTCTGTAACAGAATG
Found at i:455458 original size:17 final size:18
Alignment explanation
Indices: 455425--455463 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
455415 GATCATTGGT
*
455425 AGAGAACTTGTCTGTAAC
1 AGAGAACTTGACTGTAAC
455443 AGAGAA-TTGACTGTAAC
1 AGAGAACTTGACTGTAAC
455460 AGAG
1 AGAG
455464 TGACTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (18 bp):
AGAGAACTTGACTGTAAC
Found at i:455462 original size:62 final size:63
Alignment explanation
Indices: 455382--455508 Score: 195
Period size: 62 Copynumber: 2.0 Consensus size: 63
455372 ACATTGATGA
* *
455382 AGAACTTGACTGTAACAGAATGACTTGTACATTGATCATTGGTAGAGAACTTGT-CTGTAACAG
1 AGAACTTGACTGTAACAGAATGACTTGTACATTGATCATTGCTAGAGAAATT-TCCTGTAACAG
* *
455445 AGAA-TTGACTGTAACAGAGTGACTTTTACATTGATCATTGCTAGAGAAATTTCCTGTAACAG
1 AGAACTTGACTGTAACAGAATGACTTGTACATTGATCATTGCTAGAGAAATTTCCTGTAACAG
455507 AG
1 AG
455509 TGACTAGCAC
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
61 1 0.02
62 54 0.92
63 4 0.07
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (63 bp):
AGAACTTGACTGTAACAGAATGACTTGTACATTGATCATTGCTAGAGAAATTTCCTGTAACAG
Found at i:455506 original size:45 final size:44
Alignment explanation
Indices: 455443--456071 Score: 650
Period size: 45 Copynumber: 14.2 Consensus size: 44
455433 TGTCTGTAAC
* *
455443 AGAGAA-TTGACTGTAACAGAGTGACTTTTACATTGATCATTGCT
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATTG-T
* * * **
455487 AGAGAAATT-TCCTGTAACAGAGTGACTAGCACATTGATCACTAAT
1 AGAGAACTTGT-CTGTAACAGAGTGACTTGTACATTGATCA-TTGT
*
455532 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGACCATTGGT
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATT-GT
* * * *
455577 AGAGAACTTGTCTGTAACAAAATGTCTTGTACATTAATCACTTGT
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCA-TTGT
* *
455622 AGAGAACTTGTCTGTAACAGAATGACTTGTACA---ATGA-TG-
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATTGT
* * * *
455661 A-AGAACTTGACTGTAACAAATTGACTTGCACATTGATCATTGGT
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATT-GT
* * * * * *
455705 AGTGGACTTGTCTGTAACAGAATGACTTGTTCATTGATTACTAGT
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCA-TTGT
* *
455750 AGAGAACCTGTCTGTAACAGAGTGACTTGTACATTGATCATTAGC
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATT-GT
* * *
455795 AGAAAACTTGTCTGTAACAGAATGACTTGTACATTGGTCATTGGT
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATT-GT
* *
455840 AGAGAA-TTGACTGTAACAGAGTGACTTTTACATTGATCATTGCT
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATTG-T
* * **
455884 AGAGAAATT-TCCTGTAACAGAGTGACTTGCACATTGATCACTAAT
1 AGAGAACTTGT-CTGTAACAGAGTGACTTGTACATTGATCA-TTGT
* *
455929 AGAAAACTTGTCTGTAACAGAATGACTT-TACATTGATCATTAGT
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATT-GT
* * * * *
455973 TGAGAACTTGTTTTTAACAAAGTGACTTGTACATTGACCATTGGT
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATT-GT
* *
456018 AGAGAACTTGTCTGTAACAGAATGACTTGTACATTGCTCATTGT
1 AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATTGT
456062 AAGAGAACTT
1 -AGAGAACTT
456072 AACAGAGTGA
Statistics
Matches: 483, Mismatches: 79, Indels: 45
0.80 0.13 0.07
Matches are distributed among these distances:
38 27 0.06
39 1 0.00
40 2 0.00
41 3 0.01
42 4 0.01
43 3 0.01
44 82 0.17
45 354 0.73
46 7 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (44 bp):
AGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGATCATTGT
Found at i:455675 original size:38 final size:38
Alignment explanation
Indices: 455624--455697 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
455614 TCACTTGTAG
* *
455624 AGAACTTGTCTGTAACAGAA-TGACTTGTACAATGATGA
1 AGAACTTGACTGTAACA-AATTGACTTGCACAATGATGA
*
455662 AGAACTTGACTGTAACAAATTGACTTGCACATTGAT
1 AGAACTTGACTGTAACAAATTGACTTGCACAATGAT
455698 CATTGGTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 2 0.06
38 30 0.94
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (38 bp):
AGAACTTGACTGTAACAAATTGACTTGCACAATGATGA
Found at i:456071 original size:134 final size:134
Alignment explanation
Indices: 455443--456071 Score: 683
Period size: 134 Copynumber: 4.7 Consensus size: 134
455433 TGTCTGTAAC
* * * * *
455443 AGAGAA-TTGACTGTAACAGAGTGACTTTTACATTGATCATTGCTAGAGAAATT-TCCTGTAACA
1 AGAGAACTTGTCTGTAACAAAGTGACTTGTACATTGATCATTGGTAGAGAACTTGT-CTGTAACA
* * * * *
455506 GAGTGACTAGCACATTGATCACTAATAGAGAACTTGTCTGTAACAGAGTGACTTGTACATTGACC
65 GAGTGACTTGTACATTGATCACTGA-AGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATC
455571 ATTGGT
129 ATTGGT
* * *
455577 AGAGAACTTGTCTGTAACAAAATGTCTTGTACATTAATCACTT-GTAGAGAACTTGTCTGTAACA
1 AGAGAACTTGTCTGTAACAAAGTGACTTGTACATTGATCA-TTGGTAGAGAACTTGTCTGTAACA
* * * *
455641 GAATGACTTGTACA---ATGA-TG-A-AGAACTTGACTGTAACA-AATTGACTTGCACATTGATC
65 GAGTGACTTGTACATTGATCACTGAAGAGAACTTGTCTGTAACAGAA-TGACTTGTACATTGATC
455699 ATTGGT
129 ATTGGT
* * * * * * *
455705 AGTGGACTTGTCTGTAACAGAA-TGACTTGTTCATTGATTACTAGTAGAGAACCTGTCTGTAACA
1 AGAGAACTTGTCTGTAACA-AAGTGACTTGTACATTGATCATTGGTAGAGAACTTGTCTGTAACA
* * * *
455769 GAGTGACTTGTACATTGATCATTAGCAGAAAACTTGTCTGTAACAGAATGACTTGTACATTGGTC
65 GAGTGACTTGTACATTGATCACT-GAAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATC
455834 ATTGGT
129 ATTGGT
* * * * *
455840 AGAGAA-TTGACTGTAACAGAGTGACTTTTACATTGATCATTGCTAGAGAAATT-TCCTGTAACA
1 AGAGAACTTGTCTGTAACAAAGTGACTTGTACATTGATCATTGGTAGAGAACTTGT-CTGTAACA
* * *
455903 GAGTGACTTGCACATTGATCACTAATAGAAAACTTGTCTGTAACAGAATGACTT-TACATTGATC
65 GAGTGACTTGTACATTGATCACTGA-AGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATC
*
455967 ATTAGT
129 ATTGGT
* * * *
455973 TGAGAACTTGTTTTTAACAAAGTGACTTGTACATTGACCATTGGTAGAGAACTTGTCTGTAACAG
1 AGAGAACTTGTCTGTAACAAAGTGACTTGTACATTGATCATTGGTAGAGAACTTGTCTGTAACAG
* * *
456038 AATGACTTGTACATTGCTCATTGTAAGAGAACTT
66 AGTGACTTGTACATTGATCACTG-AAGAGAACTT
456072 AACAGAGTGA
Statistics
Matches: 411, Mismatches: 64, Indels: 40
0.80 0.12 0.08
Matches are distributed among these distances:
127 2 0.00
128 101 0.25
129 3 0.01
131 4 0.01
132 4 0.01
133 22 0.05
134 173 0.42
135 97 0.24
136 5 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (134 bp):
AGAGAACTTGTCTGTAACAAAGTGACTTGTACATTGATCATTGGTAGAGAACTTGTCTGTAACAG
AGTGACTTGTACATTGATCACTGAAGAGAACTTGTCTGTAACAGAATGACTTGTACATTGATCAT
TGGT
Found at i:459174 original size:22 final size:24
Alignment explanation
Indices: 459039--459620 Score: 317
Period size: 24 Copynumber: 24.1 Consensus size: 24
459029 TTGAGTTATG
*
459039 TCTGTTACTTGTAATGAGTCTGAT
1 TCTGTTACTTGTAATGAGTCTGTT
459063 TCTGTTACTTGTAA-GAAGTCTGTT
1 TCTGTTACTTGTAATG-AGTCTGTT
** * * *
459087 TCCATTTCTTGTAATTATGGCCTGTCT
1 TCTGTTACTTGTAATGA--GTCTGT-T
* * *
459114 T-TGGTACATGTAATAAGTCTGTT
1 TCTGTTACTTGTAATGAGTCTGTT
*** *
459137 TAAATTCCTTGTAATGAGT-T-TT
1 TCTGTTACTTGTAATGAGTCTGTT
*
459159 TCTGTTACTTGAAATGAGTCTGTT
1 TCTGTTACTTGTAATGAGTCTGTT
459183 TCTGTTACTTGTAATGAGTCTGTT
1 TCTGTTACTTGTAATGAGTCTGTT
* * *
459207 T-TGATTTCTTGTAATTATAGTTTGTCT
1 TCTG-TTACTTGTAA-T-GAGTCTGT-T
* * *
459234 T-TGTTACATGTAATAAGTATGTT
1 TCTGTTACTTGTAATGAGTCTGTT
* * *
459257 TCAGTTACTTGTAATAAGTTTGTAT
1 TCTGTTACTTGTAATGAGTCTGT-T
** * *
459282 T-TAATAGTTGTAATGAGTTTGTT
1 TCTGTTACTTGTAATGAGTCTGTT
* **
459305 TCTGTTACTTATTGTGAGTCTG--
1 TCTGTTACTTGTAATGAGTCTGTT
* *
459327 TCTGTATAACTTGTAATGATTCTGAT
1 TCTGT-T-ACTTGTAATGAGTCTGTT
* * *
459353 TCAGGTACTTGTAA-GTAATCTGTT
1 TCTGTTACTTGTAATG-AGTCTGTT
* * * *
459377 TCAGTTACTTGTTATGAGTATGCT
1 TCTGTTACTTGTAATGAGTCTGTT
* *
459401 TCAGTTACTTGTAATGAGTCTGCCT
1 TCTGTTACTTGTAATGAGTCTG-TT
* ** ***
459426 T-TATTACTTGGGATGAGTCTACC
1 TCTGTTACTTGTAATGAGTCTGTT
* *
459449 TCTATTACTAGTAATGAGTCTGTT
1 TCTGTTACTTGTAATGAGTCTGTT
* * *
459473 TCTGTTAATTGTAATAAGTCTATT
1 TCTGTTACTTGTAATGAGTCTGTT
* * *
459497 TCTGTTTCTTGTAATTACCTTCTGTT
1 TCTGTTACTTGTAATGA--GTCTGTT
* *
459523 TTTGTTAC-TGCAAATGAGTCTGTT
1 TCTGTTACTTG-TAATGAGTCTGTT
* * *
459547 TCAGTAACTTGTAATAAGTCTGCTT
1 TCTGTTACTTGTAATGAGTCTG-TT
*** **
459572 TAAATT-CTTGTAATGAGTCTGCC
1 TCTGTTACTTGTAATGAGTCTGTT
* *
459595 TCTTTTACTTGTAATGAGTTTGTT
1 TCTGTTACTTGTAATGAGTCTGTT
459619 TC
1 TC
459621 ACTGTTTCAG
Statistics
Matches: 423, Mismatches: 106, Indels: 58
0.72 0.18 0.10
Matches are distributed among these distances:
22 21 0.05
23 18 0.04
24 314 0.74
25 18 0.04
26 46 0.11
27 6 0.01
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.47
Consensus pattern (24 bp):
TCTGTTACTTGTAATGAGTCTGTT
Found at i:459646 original size:80 final size:80
Alignment explanation
Indices: 459542--459772 Score: 293
Period size: 84 Copynumber: 2.8 Consensus size: 80
459532 GCAAATGAGT
* * * * * * * *
459542 CTGTTTCAGTAACTTGTAATAAGTCTGCTTTAAATT-CTTGTAATGAGTCTGCCTCTTTTACTTG
1 CTGTTTCAGTTACTTGTTACAAGTCTAC-TTCAGTTACTTGTAATGAGTCTGTCTCTATTACTTG
459606 TAATGAGTTTGTTTCA
65 TAATGAGTTTGTTTCA
* *
459622 CTGTTTCAGTTACTTGTTACAAGTCTACTTCAGTTAGTTTTAATGAGTCGATCTGTCTCTATTAC
1 CTGTTTCAGTTACTTGTTACAAGTCTACTTCAGTTACTTGTAATGA---G-TCTGTCTCTATTAC
459687 TTGTAATGAGTTTGTTTCA
62 TTGTAATGAGTTTGTTTCA
* * *
459706 CTGTTTCATTTACTCGTTACTAGTCTACTTCAGTTACTTGTAATGAGTCTGTCTCTATTACTTGT
1 CTGTTTCAGTTACTTGTTACAAGTCTACTTCAGTTACTTGTAATGAGTCTGTCTCTATTACTTGT
459771 AA
66 AA
459773 AGAGACTGTT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
79 5 0.04
80 52 0.40
81 1 0.01
83 1 0.01
84 72 0.55
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (80 bp):
CTGTTTCAGTTACTTGTTACAAGTCTACTTCAGTTACTTGTAATGAGTCTGTCTCTATTACTTGT
AATGAGTTTGTTTCA
Found at i:462751 original size:67 final size:67
Alignment explanation
Indices: 462665--462935 Score: 492
Period size: 67 Copynumber: 4.1 Consensus size: 67
462655 AAGCTGTGTT
*
462665 GCTGAAGAACACCTACTATAACCTTAGTCTCTCTTTGACAGCAAAAAGGATATAGCAATGCTATG
1 GCTGAAGAACATCTACTATAACCTTAGTCTCTCTTTGACAGCAAAAAGGATATAGCAATGCTATG
462730 TA
66 TA
462732 GCTGAAGAACATCTACTATAACCTTAGTCTCTCTTTGACAGCAAAAAGGATATAGCAATGCTATG
1 GCTGAAGAACATCTACTATAACCTTAGTCTCTCTTTGACAGCAAAAAGGATATAGCAATGCTATG
462797 TA
66 TA
*
462799 GCTGAAGAACATCTACTATAACCTTAGTCTCTCTTTGACAGCAAAAAGGATATAGCAATGCTGTG
1 GCTGAAGAACATCTACTATAACCTTAGTCTCTCTTTGACAGCAAAAAGGATATAGCAATGCTATG
462864 TA
66 TA
* *
462866 GCTGAAGAACATCTACTATAACCTTAGTCTCTC--TAACAGCAAAAAGGATATAGCAATGCTGTG
1 GCTGAAGAACATCTACTATAACCTTAGTCTCTCTTTGACAGCAAAAAGGATATAGCAATGCTATG
462929 TA
66 TA
462931 GCTGA
1 GCTGA
462936 TGAAGAAGGG
Statistics
Matches: 201, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
65 36 0.18
67 165 0.82
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (67 bp):
GCTGAAGAACATCTACTATAACCTTAGTCTCTCTTTGACAGCAAAAAGGATATAGCAATGCTATG
TA
Found at i:463000 original size:73 final size:73
Alignment explanation
Indices: 462896--463615 Score: 675
Period size: 73 Copynumber: 9.9 Consensus size: 73
462886 ACCTTAGTCT
* * * * *
462896 CTCTAACAGCAAAAAGGATATAGCAATGCTGTGTAGCTGATGAAGAAGGGCATATTTTATAACCT
1 CTCTGACAGCAACAAGAATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATAACCT
462961 TATACTTC
66 TATACTTC
* * *
462969 CT-TGGACATCAACAAGAATGTAGCAAAGCTGTG-A--AGATGAAGAA---CATATTTTATGACC
1 CTCT-GACAGCAACAAGAATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATAACC
*
463027 TTGGT-C--C
65 TT-ATACTTC
* * * * * * * *
463034 CTCTGACAGCAATAAAAATGTAGCAAAGCTTTGTAGGTGATAAAGAAGGACATATTCTATACCCT
1 CTCTGACAGCAACAAGAATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATAACCT
*
463099 TATACTTT
66 TATACTTC
** * * * *
463107 CTCTGACAGCAGTAGGGATGTAGCAAAGCTGTGTAGCTGATGGAGAAAGGCATATTTTATAACCT
1 CTCTGACAGCAACAAGAATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATAACCT
463172 TATACTTC
66 TATACTTC
* * * * * *
463180 ATCTGACAGCAGA-AGGGATGTAGCAAAGATGTGTAGCTGATGGAGAAAGGCATATTTTATAACC
1 CTCTGACAGCA-ACAAGAATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATAACC
463244 TTAGT-C--C
65 TTA-TACTTC
* * * * *
463251 CTCTTACAGCAACAATG-ATGTAGCAAACCTGTGTAGCTGATAAAGAAGGACATATTTTATAACT
1 CTCTGACAGCAACAA-GAATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATAACC
*
463315 TTATACTTT
65 TTATACTTC
* * * *
463324 CTCTGACAGCAACAAGTATGTAACAAAGCTGTATAGTTG-TGACTAGAGAAGGGCATATTTTATA
1 CTCTGACAGCAACAAGAATGTAGCAAAGCTGTGTAGCTGATG---A-AGAAGGGCATATTTTATA
*
463388 ACTTTATACTTC
62 ACCTTATACTTC
* * * *
463400 CTTTGACAGCAGCAAGGATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATACCCT
1 CTCTGACAGCAACAAGAATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATAACCT
*
463465 TATACTTT
66 TATACTTC
* * * *
463473 CTCTGACATCAACAAGAATGTAGCAAAGCTGTATAGTTG-TGACTAGAGAAGGGCATATTTTTTA
1 CTCTGACAGCAACAAGAATGTAGCAAAGCTGTGTAGCTGATG---A-AGAAGGGCATATTTTATA
*
463537 CCCTTATACTTC
62 ACCTTATACTTC
* * * ** *
463549 CTTTGAC-GTCAAAAAGAATGTAGCAAAGCTGTGAAGCTGATGAAGAAGAACAAATTTTATAACC
1 CTCTGACAG-CAACAAGAATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATAACC
463613 TTA
65 TTA
463616 GTCCCTCTTA
Statistics
Matches: 533, Mismatches: 83, Indels: 62
0.79 0.12 0.09
Matches are distributed among these distances:
65 28 0.05
66 2 0.00
67 16 0.03
68 9 0.02
70 12 0.02
71 69 0.13
72 7 0.01
73 260 0.49
74 3 0.01
75 2 0.00
76 121 0.23
77 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (73 bp):
CTCTGACAGCAACAAGAATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATAACCT
TATACTTC
Found at i:463043 original size:138 final size:140
Alignment explanation
Indices: 462697--463615 Score: 608
Period size: 149 Copynumber: 6.5 Consensus size: 140
462687 CTTAGTCTCT
* * * * * * **
462697 CTTTGACAGCAAAAAGGATATAGCAATGCTATGT--AGCTGAAGAACATCTACTATAACCTTAGT
1 CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTACAGATGAAGAACATATTTTATAACCTTA-T
* * * * * **
462760 -CTCTCTTTGACAGCAAAAAGGATATAGCAATGCTATGTAGC--TGAAGAA---CATCTACTATA
65 ACTC-CTCTGACAGCAAAAAGGATGTAGCAAAGCTGTGTAGCTGTGAAGAAGGGCATATTTTATA
462819 ACCTTAGT-C-TC
129 ACCTTA-TACTTC
* * * * * **
462830 TCTTTGACAGCAAAAAGGATATAGCAATGCTGTGT--AGCTGAAGAACATCTACTATAACCTTAG
1 -CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTACAGATGAAGAACATATTTTATAACCTTA-
* * *
462893 T-CT-CTCTAACAGCAAAAAGGATATAGCAATGCTGTGTAGCTGATGAAGAAGGGCATATTTTAT
64 TACTCCTCTGACAGCAAAAAGGATGTAGCAAAGCTGTGTAGCTG-TGAAGAAGGGCATATTTTAT
462956 AACCTTATACTTC
128 AACCTTATACTTC
* * * * *
462969 CTTGGACATCAACAAGAATGTAGCAAAGCTGTG-A-AGATGAAGAACATATTTTATGACCTTGGT
1 CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTACAGATGAAGAACATATTTTATAACCTT-AT
* * * * * *
463032 -C-CCTCTGACAGCAATAAA-AATGTAGCAAAGCTTTGTAGGTGATAAAGAAGGACATATTCTAT
65 ACTCCTCTGACAGCAA-AAAGGATGTAGCAAAGCTGTGTAGCTG-TGAAGAAGGGCATATTTTAT
* *
463094 ACCCTTATACTTT
128 AACCTTATACTTC
* ** * * *
463107 CTCTGACAGCAGTAGGGATGTAGCAAAGCTGTGTAGCTGATGGAGAAAGGCATATTTTATAACCT
1 CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTA-CAGATGAAG-AA--CATATTTTATAACCT
* * * * * *
463172 TATACTTCATCTGACAGCAGAAGGGATGTAGCAAAGATGTGTAGCTGATGGAGAAAGGCATATTT
62 TATAC-TCCTCTGACAGCAAAAAGGATGTAGCAAAGCTGTGTAGCTG-TGAAGAAGGGCATATTT
463237 TATAACCTTAGT-C--C
125 TATAACCTTA-TACTTC
* * * * *
463251 CTCTT-ACAGCAACAATGATGTAGCAAACCTGTGTAGCTGATAAAGAAGGACATATTTTATAACT
1 CT-TTGACAGCAACAAGGATGTAGCAAAGCTGTGTA-CAGAT---GAAGAACATATTTTATAACC
* * * * * *
463315 TTATACTTTCTCTGACAGCAACAAGTATGTAACAAAGCTGTATAGTTGTGACTAGAGAAGGGCAT
61 TTATAC-TCCTCTGACAGCAAAAAGGATGTAGCAAAGCTGTGTAGCTGTG---A-AGAAGGGCAT
*
463380 ATTTTATAACTTTATACTTC
121 ATTTTATAACCTTATACTTC
* * *
463400 CTTTGACAGCAGCAAGGATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATACCCT
1 CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTA-CAGATGAAGAA---CATATTTTATAACCT
* * * * * *
463465 TATACTTTCTCTGACATCAACAAGAATGTAGCAAAGCTGTATAGTTGTGACTAGAGAAGGGCATA
62 TATAC-TCCTCTGACAGCAAAAAGGATGTAGCAAAGCTGTGTAGCTGTG---A-AGAAGGGCATA
* *
463530 TTTTTTACCCTTATACTTC
122 TTTTATAACCTTATACTTC
* * * * *
463549 CTTTGAC-GTCAAAAAGAATGTAGCAAAGCTGTGAAGCTGATGAAGAAGAACAAATTTTATAACC
1 CTTTGACAG-CAACAAGGATGTAGCAAAGCTGTGTA-C--A-GATGAAGAACATATTTTATAACC
463613 TTA
61 TTA
463616 GTCCCTCTTA
Statistics
Matches: 646, Mismatches: 97, Indels: 69
0.80 0.12 0.08
Matches are distributed among these distances:
132 34 0.05
134 64 0.10
135 7 0.01
137 1 0.00
138 149 0.23
139 6 0.01
141 6 0.01
142 2 0.00
143 3 0.00
144 100 0.15
145 3 0.00
146 60 0.09
147 27 0.04
148 3 0.00
149 173 0.27
152 8 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (140 bp):
CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTACAGATGAAGAACATATTTTATAACCTTATA
CTCCTCTGACAGCAAAAAGGATGTAGCAAAGCTGTGTAGCTGTGAAGAAGGGCATATTTTATAAC
CTTATACTTC
Found at i:463454 original size:149 final size:146
Alignment explanation
Indices: 462831--463615 Score: 715
Period size: 149 Copynumber: 5.5 Consensus size: 146
462821 CTTAGTCTCT
* * * * **
462831 CTTTGACAGCAAAAAGGATATAGCAATGCTGTGTAGC---TGAAG-A--ACATCTACTATAACCT
1 CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGACATATTTTATAACCT
* * * * * * *
462890 TAGT-C--TCTCTAACAGCAAAAAGGATATAGCAATGCTGTGTAGCTGAT-GAAGAAGGGCATAT
66 TA-TACTTTCTCTGACAGCAACAAGAATGTAGCAAAGCTGTATAGGTGATAG-AGAAGGGCATAT
462951 TTTATAACCTTATACTTC
129 TTTATAACCTTATACTTC
* * * * *
462969 CTTGGACATCAACAAGAATGTAGCAAAGCTGTG-A--AGATGAAG-A--ACATATTTTATGACCT
1 CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGACATATTTTATAACCT
* * * * * * * *
463028 TGGT-C--CCTCTGACAGCAATAAAAATGTAGCAAAGCTTTGTAGGTGATAAAGAAGGACATATT
66 T-ATACTTTCTCTGACAGCAACAAGAATGTAGCAAAGCTGTATAGGTGATAGAGAAGGGCATATT
* * *
463090 CTATACCCTTATACTTT
130 TTATAACCTTATACTTC
* ** * *
463107 CTCTGACAGCAGTAGGGATGTAGCAAAGCTGTGTAGCTGATGGAGAAAGG-CATATTTTATAACC
1 CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTAGCTGATGAAG-AAGGACATATTTTATAACC
* * * * * * *
463171 TTATAC-TTCATCTGACAGCAGA-AGGGATGTAGCAAAGATGTGTAGCTGATGGAGAAAGGCATA
65 TTATACTTTC-TCTGACAGCA-ACAAGAATGTAGCAAAGCTGTATAGGTGATAGAGAAGGGCATA
463234 TTTTATAACCTTAGT-C--C
128 TTTTATAACCTTA-TACTTC
* * * *
463251 CTCTT-ACAGCAACAATGATGTAGCAAACCTGTGTAGCTGATAAAGAAGGACATATTTTATAACT
1 CT-TTGACAGCAACAAGGATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGACATATTTTATAACC
* *
463315 TTATACTTTCTCTGACAGCAACAAGTATGTAACAAAGCTGTATAGTTGTGACTAGAGAAGGGCAT
65 TTATACTTTCTCTGACAGCAACAAGAATGTAGCAAAGCTGTATAG--GTGA-TAGAGAAGGGCAT
*
463380 ATTTTATAACTTTATACTTC
127 ATTTTATAACCTTATACTTC
* * *
463400 CTTTGACAGCAGCAAGGATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGGCATATTTTATACCCT
1 CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGACATATTTTATAACCT
*
463465 TATACTTTCTCTGACATCAACAAGAATGTAGCAAAGCTGTATAGTTGTGACTAGAGAAGGGCATA
66 TATACTTTCTCTGACAGCAACAAGAATGTAGCAAAGCTGTATAG--GTGA-TAGAGAAGGGCATA
* *
463530 TTTTTTACCCTTATACTTC
128 TTTTATAACCTTATACTTC
* * * * *
463549 CTTTGAC-GTCAAAAAGAATGTAGCAAAGCTGTGAAGCTGATGAAGAAGAACAAATTTTATAACC
1 CTTTGACAG-CAACAAGGATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGACATATTTTATAACC
463613 TTA
65 TTA
463616 GTCCCTCTTA
Statistics
Matches: 529, Mismatches: 89, Indels: 47
0.80 0.13 0.07
Matches are distributed among these distances:
137 1 0.00
138 133 0.25
139 1 0.00
141 6 0.01
143 7 0.01
144 98 0.19
145 5 0.01
146 57 0.11
147 27 0.05
148 3 0.01
149 191 0.36
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (146 bp):
CTTTGACAGCAACAAGGATGTAGCAAAGCTGTGTAGCTGATGAAGAAGGACATATTTTATAACCT
TATACTTTCTCTGACAGCAACAAGAATGTAGCAAAGCTGTATAGGTGATAGAGAAGGGCATATTT
TATAACCTTATACTTC
Found at i:464248 original size:182 final size:178
Alignment explanation
Indices: 463931--464292 Score: 679
Period size: 182 Copynumber: 2.0 Consensus size: 178
463921 TTTTTTAAAT
463931 TAAGTAACACTGTTTGTGATAATCTAGAACTCAATATTTCAAATCAAAATATTACAAAATATATA
1 TAAGTAACACTGTTTGTGATAATCTAGAACTCAATATTTCAAATCAAAATATTACAAAATATATA
463996 TATATAGTTTGTTATTTAAATTAATCTCTTTTTTATCAGTTCTGATGAATATCAGCTATATGACT
66 TATATAGTTTGTTATTTAAATTAATCTCTTTTTTATCAGTTCTGATGAATATCAGCTATATGACT
*
464061 CCATTACCTCTTACAGTTTAGAATTTGTATATATTAAACCCAATTATG
131 CCATTACCTCTTACAGTTTAGAATTTGCATATATTAAACCCAATTATG
464109 TNAAGTAACACTGTTTGTGATAATCTAGAACTCAATATTTCAAATCAAAATATTACAAAATATAT
1 T-AAGTAACACTGTTTGTGATAATCTAGAACTCAATATTTCAAATCAAAATATTAC-AAA-ATAT
464174 ATATATTATAGTTTGTTATTTAAATTAATCTCTTTTTTATCAGTTCTGATGAATATCAGCTATAT
63 ATATA-TATAGTTTGTTATTTAAATTAATCTCTTTTTTATCAGTTCTGATGAATATCAGCTATAT
464239 GACTCCATTACCTCTTACAGTTTAGAATTTGCATATATTAAACCCAATTATG
127 GACTCCATTACCTCTTACAGTTTAGAATTTGCATATATTAAACCCAATTATG
464291 TA
1 TA
464293 CACAGGAACA
Statistics
Matches: 179, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
178 1 0.01
179 54 0.30
180 3 0.02
181 10 0.06
182 111 0.62
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (178 bp):
TAAGTAACACTGTTTGTGATAATCTAGAACTCAATATTTCAAATCAAAATATTACAAAATATATA
TATATAGTTTGTTATTTAAATTAATCTCTTTTTTATCAGTTCTGATGAATATCAGCTATATGACT
CCATTACCTCTTACAGTTTAGAATTTGCATATATTAAACCCAATTATG
Found at i:466012 original size:31 final size:31
Alignment explanation
Indices: 465974--466128 Score: 165
Period size: 31 Copynumber: 4.9 Consensus size: 31
465964 CAGTAGGAGT
465974 GTAGGACCTGATCCATGGGAACCACACAACA
1 GTAGGACCTGATCCATGGGAACCACACAACA
466005 GTAGGACCTGATCCATGGGAACCACACAACA
1 GTAGGACCTGATCCATGGGAACCACACAACA
* * *
466036 GTAGGA-CTGGATCCATAGAAACCACAGAACA
1 GTAGGACCT-GATCCATGGGAACCACACAACA
*
466067 -TCAGGA-CTGGAT-CACTCAGGGAACCACACAGCA
1 GT-AGGACCT-GATCCA-T--GGGAACCACACAACA
* * *
466100 GTAGGACTTGTTCCATGGGAACCATACAA
1 GTAGGACCTGATCCATGGGAACCACACAA
466129 TTGTGTATTA
Statistics
Matches: 105, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
30 5 0.05
31 78 0.74
33 18 0.17
34 4 0.04
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.15
Consensus pattern (31 bp):
GTAGGACCTGATCCATGGGAACCACACAACA
Found at i:466073 original size:62 final size:62
Alignment explanation
Indices: 465974--466361 Score: 178
Period size: 62 Copynumber: 6.1 Consensus size: 62
465964 CAGTAGGAGT
* *
465974 GTAGGACCTGATCCATGGGAACCACACAACAGTAGGACCT-GATC-C-ATGGGAACCACACAACA
1 GTAGGA-CTGATCCATAGAAACCACACAACAGTAGGA-CTGGATCACTA-GGGAACCACACAACA
* *
466036 GTAGGACTGGATCCATAGAAACCACAGAACA-TCAGGACTGGATCACTCAGGGAACCACACAGCA
1 GTAGGACT-GATCCATAGAAACCACACAACAGT-AGGACTGGATCACT-AGGGAACCACACAACA
* * * * ** * * * *
466100 GTAGGACTTGTTCCATGGGAACCATACAATTGT-GTATTAGA--ACTATGGTG-ACCAGA-AAGC
1 GTAGGAC-TGATCCATAGAAACCACACAACAGTAGGACTGGATCACTA-GG-GAACCACACAA-C
466160 A
62 A
* * * * * **
466161 GTAGGACTAGATTACTTGGAAA-CACACATC---AGGACTGGGTCACT-TTGAACCACACAACA
1 GTAGGACT-GA-TCCATAGAAACCACACAACAGTAGGACTGGATCACTAGGGAACCACACAACA
* * * * * *
466220 GTATGGGTGTAGGGCTTGAACCATGGTAACCACACACCAGAAGGACTGGATCACT-GGAAACCAC
1 GTA---G-G-A---C-TGATCCATAGAAACCACACAACAGTAGGACTGGATCACTAGGGAACCAC
466284 ACAACA
57 ACAACA
* * *
466290 GTAGGACTGGATCCATGGAAACCACACAACA-TCAGGACTAGATCACTCAGGGAACCACACAGCA
1 GTAGGACT-GATCCATAGAAACCACACAACAGT-AGGACTGGATCACT-AGGGAACCACACAACA
466354 GTAGGACT
1 GTAGGACT
466362 TGGTCACAGG
Statistics
Matches: 245, Mismatches: 46, Indels: 68
0.68 0.13 0.19
Matches are distributed among these distances:
58 1 0.00
59 14 0.06
60 5 0.02
61 34 0.14
62 75 0.31
63 7 0.03
64 58 0.24
65 4 0.02
66 7 0.03
67 11 0.04
68 1 0.00
70 28 0.11
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (62 bp):
GTAGGACTGATCCATAGAAACCACACAACAGTAGGACTGGATCACTAGGGAACCACACAACA
Found at i:466285 original size:31 final size:31
Alignment explanation
Indices: 466247--466384 Score: 147
Period size: 31 Copynumber: 4.4 Consensus size: 31
466237 GAACCATGGT
* *
466247 AACCACACACCAGAAGGACTGGATCACTGGA
1 AACCACACAACAGTAGGACTGGATCACTGGA
466278 AACCACACAACAGTAGGACTGGATC-CATGGA
1 AACCACACAACAGTAGGACTGGATCAC-TGGA
* *
466309 AACCACACAACA-TCAGGACTAGATCACTCAGGG
1 AACCACACAACAGT-AGGACTGGATCACT--GGA
* * *
466342 AACCACACAGCAGTAGGACTTGG-TCACAGGG
1 AACCACACAACAGTAGGAC-TGGATCACTGGA
466373 AACCACACAACA
1 AACCACACAACA
466385 CAGTGTTGTA
Statistics
Matches: 92, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
30 2 0.02
31 64 0.70
32 1 0.01
33 22 0.24
34 3 0.03
ACGTcount: A:0.39, C:0.29, G:0.21, T:0.11
Consensus pattern (31 bp):
AACCACACAACAGTAGGACTGGATCACTGGA
Found at i:466379 original size:64 final size:62
Alignment explanation
Indices: 466240--466384 Score: 168
Period size: 64 Copynumber: 2.3 Consensus size: 62
466230 AGGGCTTGAA
* * *
466240 CCATGGTAACCACACACCAGAAGGACTGGATCACTGGAAACCACACAACAGTAGGACTGGAT
1 CCATGGAAACCACACAACAGAAGGACTAGATCACTGGAAACCACACAACAGTAGGACTGGAT
** * *
466302 CCATGGAAACCACACAACATCAGGACTAGATCACTCAGGGAACCACACAGCAGTAGGACTTGG-T
1 CCATGGAAACCACACAACAGAAGGACTAGATCACT--GGAAACCACACAACAGTAGGAC-TGGAT
*
466366 CACA-GGGAACCACACAACA
1 C-CATGGAAACCACACAACA
466385 CAGTGTTGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
62 30 0.42
64 36 0.51
65 5 0.07
ACGTcount: A:0.38, C:0.29, G:0.21, T:0.12
Consensus pattern (62 bp):
CCATGGAAACCACACAACAGAAGGACTAGATCACTGGAAACCACACAACAGTAGGACTGGAT
Found at i:466387 original size:36 final size:37
Alignment explanation
Indices: 466346--466422 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 37
466336 TCAGGGAACC
466346 ACACA-GCAGTAGGACTTGGT-CACAGGGAACCACACA
1 ACACAGGCAGTAGGAC-TGGTCCACAGGGAACCACACA
** *
466382 ACACAGTGTTGTAGGACTGGTCCACAGGGAACCTCACA
1 ACACAG-GCAGTAGGACTGGTCCACAGGGAACCACACA
466420 ACA
1 ACA
466423 GTAGGACTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 5 0.14
37 4 0.11
38 26 0.74
ACGTcount: A:0.34, C:0.27, G:0.25, T:0.14
Consensus pattern (37 bp):
ACACAGGCAGTAGGACTGGTCCACAGGGAACCACACA
Found at i:466427 original size:31 final size:31
Alignment explanation
Indices: 466247--466432 Score: 137
Period size: 31 Copynumber: 5.7 Consensus size: 31
466237 GAACCATGGT
* * * *
466247 AACCACACACCAGAAGGACTGGAT-CACTGGA
1 AACCACACAACAGTAGGACTGG-TCCACAGGG
* *
466278 AACCACACAACAGTAGGACTGGATCCA-TGGA
1 AACCACACAACAGTAGGACTGG-TCCACAGGG
* *
466309 AACCACACAACA-TCAGGACTAGATCACTCAGGG
1 AACCACACAACAGT-AGGACT-GGTC-CACAGGG
*
466342 AACCACACAGCAGTAGGACTTGGT-CACAGGG
1 AACCACACAACAGTAGGAC-TGGTCCACAGGG
466373 AACCACACAACACAGTGTTGTAGGACTGGTCCACAGGG
1 AACCACAC-A-ACA-----GTAGGACTGGTCCACAGGG
*
466411 AACCTCACAACAGTAGGACTGG
1 AACCACACAACAGTAGGACTGG
466433 ATCAAGTAAA
Statistics
Matches: 129, Mismatches: 11, Indels: 30
0.76 0.06 0.18
Matches are distributed among these distances:
30 1 0.01
31 70 0.54
32 5 0.04
33 22 0.17
34 2 0.02
36 3 0.02
37 5 0.04
38 21 0.16
ACGTcount: A:0.36, C:0.27, G:0.24, T:0.13
Consensus pattern (31 bp):
AACCACACAACAGTAGGACTGGTCCACAGGG
Found at i:466711 original size:31 final size:31
Alignment explanation
Indices: 466624--466711 Score: 115
Period size: 31 Copynumber: 2.8 Consensus size: 31
466614 CTTGAACCAT
*
466624 ATGGCAACCACACAACAGTAGGACTAAATCCC
1 ATGG-AACCACACAACAGTAGGACTGAATCCC
* * *
466656 TTGGAACCACACAGCAGTAGGACTGTAT-CC
1 ATGGAACCACACAACAGTAGGACTGAATCCC
466686 ATGGAAACCACACAACAGTAGGACTG
1 ATGG-AACCACACAACAGTAGGACTG
466712 GATTAAACAG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
30 5 0.10
31 41 0.84
32 3 0.06
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.15
Consensus pattern (31 bp):
ATGGAACCACACAACAGTAGGACTGAATCCC
Found at i:468767 original size:43 final size:43
Alignment explanation
Indices: 468694--468862 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 43
468684 CCCTCCTTCC
* **
468694 CACTCCTGATTT-TTTTCCAGTTGGGATCTAC-CTTTTCCTTTT
1 CACTCCTGATTTGTTTTCCTGTTGAAATCTACAC-TTTCCTTTT
* * *
468736 TACTCCTGCTTTGTTTTCCTGTTGAAATCTACACTTTCCTTTG
1 CACTCCTGATTTGTTTTCCTGTTGAAATCTACACTTTCCTTTT
* * * * * * *
468779 CCCTTCTGATTTTTTTTCCATCTGGGAA-CTACCCTTTCCTTTT
1 CACTCCTGATTTGTTTTCC-TGTTGAAATCTACACTTTCCTTTT
468822 CACTCCTGATTTGTTTTCCTGTTGAAATCTACACTTTCCTT
1 CACTCCTGATTTGTTTTCCTGTTGAAATCTACACTTTCCTT
468863 CCCACTTTTA
Statistics
Matches: 100, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
42 15 0.15
43 79 0.79
44 6 0.06
ACGTcount: A:0.14, C:0.27, G:0.11, T:0.49
Consensus pattern (43 bp):
CACTCCTGATTTGTTTTCCTGTTGAAATCTACACTTTCCTTTT
Found at i:468811 original size:86 final size:85
Alignment explanation
Indices: 468699--468862 Score: 267
Period size: 86 Copynumber: 1.9 Consensus size: 85
468689 CTTCCCACTC
* * * *
468699 CTGATTTTTTTCCAGTTGGGATCTACCTTTTCCTTTTTACTCCTGCTTTGTTTTCCTGTTGAAAT
1 CTGATTTTTTTCCAGTTGGGAACTACCCTTTCCTTTTCACTCCTGATTTGTTTTCCTGTTGAAAT
468764 CTACACTTTCCTTTGCCCTT
66 CTACACTTTCCTTTGCCCTT
468784 CTGATTTTTTTTCCA-TCTGGGAACTACCCTTTCCTTTTCACTCCTGATTTGTTTTCCTGTTGAA
1 CTGA-TTTTTTTCCAGT-TGGGAACTACCCTTTCCTTTTCACTCCTGATTTGTTTTCCTGTTGAA
468848 ATCTACACTTTCCTT
64 ATCTACACTTTCCTT
468863 CCCACTTTTA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
85 5 0.07
86 68 0.93
ACGTcount: A:0.13, C:0.26, G:0.11, T:0.49
Consensus pattern (85 bp):
CTGATTTTTTTCCAGTTGGGAACTACCCTTTCCTTTTCACTCCTGATTTGTTTTCCTGTTGAAAT
CTACACTTTCCTTTGCCCTT
Found at i:469047 original size:93 final size:92
Alignment explanation
Indices: 468891--469066 Score: 250
Period size: 93 Copynumber: 1.9 Consensus size: 92
468881 TTCCCTTTCC
*
468891 TTCCCACTCCTAATTTGTTTAACCATCTTGGAACTATACCCTTTCCTTCCCACTCCTGATTTTTT
1 TTCCCACTCCTAATTTGTTT-ACCATCTGGGAAC-ATACCCTTTCCTTCCCACTCCTGA--TTTT
* *
468956 TTTTTCATTTGGGAACTACCGGGTACCTTCA
62 TTTTCCATCTGGGAACTACCGGGTACCTTCA
468987 TTCCCACTCCTGATATTT-TTT-CCATCTGGGAAC-TACCCTTTCCTTCCCACTCCTGATTTTTT
1 TTCCCACTCCT-A-ATTTGTTTACCATCTGGGAACATACCCTTTCCTTCCCACTCCTGATTTTTT
469049 TTCCATCTGGGAACTACC
64 TTCCATCTGGGAACTACC
469067 CTTTCCTTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
91 22 0.29
93 23 0.31
95 11 0.15
96 11 0.15
97 4 0.05
98 4 0.05
ACGTcount: A:0.18, C:0.31, G:0.10, T:0.41
Consensus pattern (92 bp):
TTCCCACTCCTAATTTGTTTACCATCTGGGAACATACCCTTTCCTTCCCACTCCTGATTTTTTTT
CCATCTGGGAACTACCGGGTACCTTCA
Found at i:469118 original size:42 final size:42
Alignment explanation
Indices: 468883--469095 Score: 228
Period size: 43 Copynumber: 4.7 Consensus size: 42
468873 AATTTCTTTT
* * *
468883 CCCTTTCCTTCCCACTCCTAATTTGTTTAACCATCTTGGAACTATA
1 CCCTTTCCTTCCCACTCCTGATTT-TTT-TCCATCTGGGAAC--TA
* *
468929 CCCTTTCCTTCCCACTCCTGATTTTTTTTTTTCATTTGGGAACTA
1 CCCTTTCCTTCCCACTCCTGA---TTTTTTTCCATCTGGGAACTA
* *
468974 CCGGGTACCTTCATTCCCACTCCTGATATTTTTTCCATCTGGGAACTA
1 CC-----CTTTCCTTCCCACTCCTGAT-TTTTTTCCATCTGGGAACTA
469022 CCCTTTCCTTCCCACTCCTGATTTTTTTTCCATCTGGGAACTA
1 CCCTTTCCTTCCCACTCCTGA-TTTTTTTCCATCTGGGAACTA
*
469065 CCCTTTCCTTCCCAATCCTGATTTTTTTCCA
1 CCCTTTCCTTCCCACTCCTGATTTTTTTCCA
469096 GTTGAGATTT
Statistics
Matches: 145, Mismatches: 12, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
42 10 0.07
43 57 0.39
44 1 0.01
45 4 0.03
46 20 0.14
47 10 0.07
48 23 0.16
49 3 0.02
50 17 0.12
ACGTcount: A:0.16, C:0.33, G:0.09, T:0.42
Consensus pattern (42 bp):
CCCTTTCCTTCCCACTCCTGATTTTTTTCCATCTGGGAACTA
Found at i:476008 original size:20 final size:20
Alignment explanation
Indices: 475983--476023 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
475973 TAGTAATCTG
475983 TTATTGTTAATAAATATTGA
1 TTATTGTTAATAAATATTGA
476003 TTATTGTTAATAAATATTGA
1 TTATTGTTAATAAATATTGA
476023 T
1 T
476024 AAGTAATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
TTATTGTTAATAAATATTGA
Found at i:477653 original size:41 final size:41
Alignment explanation
Indices: 477595--477766 Score: 326
Period size: 41 Copynumber: 4.2 Consensus size: 41
477585 ATATCTAAAT
*
477595 GTGATTGACTGTGTCTTGACCTCCATTATTTACATGTTACAG
1 GTGA-TGACTATGTCTTGACCTCCATTATTTACATGTTACAG
477637 GTGATGACTATGTCTTGACCTCCATTATTTACATGTTACAG
1 GTGATGACTATGTCTTGACCTCCATTATTTACATGTTACAG
477678 GTGATGACTATGTCTTGACCTCCATTATTTACATGTTACAG
1 GTGATGACTATGTCTTGACCTCCATTATTTACATGTTACAG
477719 GTGATGACTATGTCTTGACCTCCATTATTTACATGTTACAG
1 GTGATGACTATGTCTTGACCTCCATTATTTACATGTTACAG
477760 GTGATGA
1 GTGATGA
477767 TTACAGAACT
Statistics
Matches: 129, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
41 125 0.97
42 4 0.03
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (41 bp):
GTGATGACTATGTCTTGACCTCCATTATTTACATGTTACAG
Found at i:478511 original size:22 final size:22
Alignment explanation
Indices: 478456--478945 Score: 474
Period size: 22 Copynumber: 22.9 Consensus size: 22
478446 AATAACCACC
* *
478456 ATCTCATCTGTACAATTACTTT
1 ATCTCCTCTGTACAATTACATT
* *
478478 ATTTACTCTGTA-ATATTACATT
1 ATCTCCTCTGTACA-ATTACATT
*
478500 ATCTCCTTTGTACAATTACATT
1 ATCTCCTCTGTACAATTACATT
* *
478522 ATCTCCTCTTTGCAATTACATT
1 ATCTCCTCTGTACAATTACATT
* *
478544 ATCTGCTCTGTACACTTACATT
1 ATCTCCTCTGTACAATTACATT
* *
478566 ATCTCCTC--TAGAGTTACATT
1 ATCTCCTCTGTACAATTACATT
*
478586 ATCTACTCTGTACAATTACATT
1 ATCTCCTCTGTACAATTACATT
* *
478608 ATCTCCTGTGTAC-ACTAGCATT
1 ATCTCCTCTGTACAATTA-CATT
* * *
478630 GTCTCCT-T-TGCAATTACGTT
1 ATCTCCTCTGTACAATTACATT
* * *
478650 ATCTACTCTGTTCACTTACATT
1 ATCTCCTCTGTACAATTACATT
* * *
478672 ATCTCTTCTGCATAATTACATT
1 ATCTCCTCTGTACAATTACATT
* * *
478694 ATC-CCTTCTGTATAATTAAATA
1 ATCTCC-TCTGTACAATTACATT
* *
478716 ATCTCCTTTGTACACTTACATT
1 ATCTCCTCTGTACAATTACATT
* * *
478738 ATCT-C-CTGTCCAGTTTCATT
1 ATCTCCTCTGTACAATTACATT
*
478758 ATCTCCTCTGTACAATTAAATT
1 ATCTCCTCTGTACAATTACATT
* *
478780 ATCTCCTCAGTAGAATTACATT
1 ATCTCCTCTGTACAATTACATT
* *
478802 AT-T-TTCTGTACACTTACATT
1 ATCTCCTCTGTACAATTACATT
478822 ATCT-C-CTGTACAATTACATT
1 ATCTCCTCTGTACAATTACATT
* *
478842 ATCTCCTCAGTACAATTACGTT
1 ATCTCCTCTGTACAATTACATT
478864 ATCT-C-CTGTACAATTACATT
1 ATCTCCTCTGTACAATTACATT
* *
478884 ATCACCTCTGTATAATTACATT
1 ATCTCCTCTGTACAATTACATT
478906 ATCTCCTCTGTACAATTACATT
1 ATCTCCTCTGTACAATTACATT
478928 ATCT-C-CTGTACAATTACA
1 ATCTCCTCTGTACAATTACA
478946 GGACCAATAG
Statistics
Matches: 379, Mismatches: 72, Indels: 36
0.78 0.15 0.07
Matches are distributed among these distances:
20 104 0.27
21 18 0.05
22 254 0.67
23 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (22 bp):
ATCTCCTCTGTACAATTACATT
Found at i:478596 original size:42 final size:41
Alignment explanation
Indices: 478456--478945 Score: 337
Period size: 42 Copynumber: 11.5 Consensus size: 41
478446 AATAACCACC
* * *
478456 ATCTCATCTGTACAATTACTTTATTTACTCT-GTAATATTACATT
1 ATCTC-TCTGTACAATTACATTATCTCCTCTAG--A-ATTACATT
* *
478500 ATCTCCTTTGTACAATTACATTATCTCCTCTTTGCAATTACATT
1 ATCT-CTCTGTACAATTACATTATCTCCTC-TAG-AATTACATT
* *
478544 ATCTGCTCTGTACACTTACATTATCTCCTCTAGAGTTACATT
1 ATCT-CTCTGTACAATTACATTATCTCCTCTAGAATTACATT
* *
478586 ATCTACTCTGTACAATTACATTATCTCCTGT-GTACACTAGCATT
1 ATCT-CTCTGTACAATTACATTATCTCCTCTAG-A-ATTA-CATT
* * * * * *
478630 GTCTC-CTTTGCAATTACGTTATCTACTCT-GTTCACTTACATT
1 ATCTCTCTGTACAATTACATTATCTCCTCTAG---AATTACATT
* * * * *
478672 ATCTCTTCTGCATAATTACATTATC-CCTTCTGTATAATTAAATA
1 ATCTC-TCTGTACAATTACATTATCTCC-TC--TAGAATTACATT
* * * ** * *
478716 ATCTCCTTTGTACACTTACATTATCTCCTGTCCAGTTTCATT
1 ATCT-CTCTGTACAATTACATTATCTCCTCTAGAATTACATT
*
478758 ATCTCCTCTGTACAATTAAATTATCTCCTCAGTAGAATTACATT
1 ATCT-CTCTGTACAATTACATTATCTCCTC--TAGAATTACATT
* * * *
478802 AT-TTTCTGTACACTTACATTATCTCCTGTACAATTACATT
1 ATCTCTCTGTACAATTACATTATCTCCTCTAGAATTACATT
* * * *
478842 ATCTCCTCAGTACAATTACGTTATCTCCTGTACAATTACATT
1 ATCT-CTCTGTACAATTACATTATCTCCTCTAGAATTACATT
* * *
478884 ATCACCTCTGTATAATTACATTATCTCCTCTGTACAATTACATT
1 ATC-TCTCTGTACAATTACATTATCTCCTC--TAGAATTACATT
478928 ATCTC-CTGTACAATTACA
1 ATCTCTCTGTACAATTACA
478946 GGACCAATAG
Statistics
Matches: 353, Mismatches: 70, Indels: 48
0.75 0.15 0.10
Matches are distributed among these distances:
40 13 0.04
41 2 0.01
42 187 0.53
43 10 0.03
44 133 0.38
45 6 0.02
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (41 bp):
ATCTCTCTGTACAATTACATTATCTCCTCTAGAATTACATT
Found at i:478607 original size:64 final size:63
Alignment explanation
Indices: 478456--478945 Score: 445
Period size: 64 Copynumber: 7.7 Consensus size: 63
478446 AATAACCACC
* * * *
478456 ATCTCATCTGTACAATTACTTTATTTACTCTGTA-ATATTACATTATCTCCTTTGTACAATTACA
1 ATCTCCTCTGTACAATTACATTATCT-CTCTGTACA-ATTACATTATCTCC--TCTACAATTACA
478520 TT
62 TT
* * * * *
478522 ATCTCCTCTTTGCAATTACATTATCTGCTCTGTACACTTACATTATCTCCTCTAGAGTTACATT
1 ATCTCCTCTGTACAATTACATTATCT-CTCTGTACAATTACATTATCTCCTCTACAATTACATT
* * * * * * *
478586 ATCTACTCTGTACAATTACATTATCTCCTGTGTAC-ACTAGCATTGTCTCCTTTGCAATTACGTT
1 ATCTCCTCTGTACAATTACATTATCT-CTCTGTACAATTA-CATTATCTCCTCTACAATTACATT
* * * * * * *
478650 ATCTACTCTGTTCACTTACATTATCTCTTCTGCATAATTACATTATC-CCTTCTGTATAATTAAA
1 ATCTCCTCTGTACAATTACATTATCTC-TCTGTACAATTACATTATCTCC-TC--TACAATTACA
*
478714 TA
62 TT
* * * * * *
478716 ATCTCCTTTGTACACTTACATTATCTC-CTGTCCAGTTTCATTATCTCCTCTGTACAATTAAATT
1 ATCTCCTCTGTACAATTACATTATCTCTCTGTACAATTACATTATCTCCTC--TACAATTACATT
* * * * *
478780 ATCTCCTCAGTAGAATTACATTAT-TTTCTGTACACTTACATTATCTCCTGTACAATTACATT
1 ATCTCCTCTGTACAATTACATTATCTCTCTGTACAATTACATTATCTCCTCTACAATTACATT
* * * *
478842 ATCTCCTCAGTACAATTACGTTATCTC-CTGTACAATTACATTATCACCTCTGTATAATTACATT
1 ATCTCCTCTGTACAATTACATTATCTCTCTGTACAATTACATTATCTCCTC--TACAATTACATT
478906 ATCTCCTCTGTACAATTACATTATCTC-CTGTACAATTACA
1 ATCTCCTCTGTACAATTACATTATCTCTCTGTACAATTACA
478946 GGACCAATAG
Statistics
Matches: 347, Mismatches: 65, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
62 53 0.15
63 7 0.02
64 209 0.60
65 5 0.01
66 72 0.21
67 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (63 bp):
ATCTCCTCTGTACAATTACATTATCTCTCTGTACAATTACATTATCTCCTCTACAATTACATT
Found at i:480845 original size:61 final size:61
Alignment explanation
Indices: 480725--480850 Score: 175
Period size: 61 Copynumber: 2.1 Consensus size: 61
480715 TGATTTGTGT
* * * * *
480725 ATGGTGTGTACATTTTGATTGGCTTGTTGGGGGTTTCTCTCTTTTGTAGATTTTCATTTTN
1 ATGGTGTGTACATTTTGATTGGCTTGTTAGGAGTTTCTCTCTGTTGTAGATTCTCATTTTC
480786 ATGGTGTGTACATTTTGATTGGCTTG-TAGGAGTTTCCTCTCTGTTGTAGA-TCTCAATTTTC
1 ATGGTGTGTACATTTTGATTGGCTTGTTAGGAGTTT-CTCTCTGTTGTAGATTCTC-ATTTTC
480847 ATGG
1 ATGG
480851 CATGGGTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
60 10 0.17
61 48 0.83
ACGTcount: A:0.14, C:0.12, G:0.25, T:0.48
Consensus pattern (61 bp):
ATGGTGTGTACATTTTGATTGGCTTGTTAGGAGTTTCTCTCTGTTGTAGATTCTCATTTTC
Found at i:481969 original size:9 final size:9
Alignment explanation
Indices: 481951--482002 Score: 63
Period size: 9 Copynumber: 6.0 Consensus size: 9
481941 AGGGTTTCTT
481951 AAAAAGAAG
1 AAAAAGAAG
*
481960 AAAGAGAAG
1 AAAAAGAAG
481969 AAAAAGAAG
1 AAAAAGAAG
481978 -AAAA-AAG
1 AAAAAGAAG
* *
481985 AGAAGGAAG
1 AAAAAGAAG
481994 AAAAAGAAG
1 AAAAAGAAG
482003 CTCAGTCATC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 3 0.09
8 6 0.17
9 26 0.74
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:482103 original size:25 final size:25
Alignment explanation
Indices: 482064--483568 Score: 1414
Period size: 25 Copynumber: 58.6 Consensus size: 25
482054 TACACATACT
*
482064 CACATATACCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
* * *
482089 CAAATGTACCTGCATACAACACAGT
1 CACATGTACCAGCATACAACACAGA
* *
482114 CACACGTACTAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
482139 CACATGTACCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
482164 CACATGTACCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
* * *
482189 CATATGTACCTGCATACAACACAGT
1 CACATGTACCAGCATACAACACAGA
* * **
482214 C-TATATA-CA--ATACAACACACT
1 CACATGTACCAGCATACAACACAGA
** * *
482235 CACATACACTATCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
** * **
482260 CGTATGTACCTGCATACAACACACT
1 CACATGTACCAGCATACAACACAGA
** * *
482285 CACATACACTATCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
* * *
482310 CAAATGTACCTGCATACAACACAGT
1 CACATGTACCAGCATACAACACAGA
* *
482335 CACACGTACCAGCATACAACACAGT
1 CACATGTACCAGCATACAACACAGA
*
482360 CACATGTACCAGCATACAACACGGA
1 CACATGTACCAGCATACAACACAGA
* *
482385 TACATGTGA-CAGCATACAAGACAGA
1 CACATGT-ACCAGCATACAACACAGA
* *
482410 CACATGTGATC-GTATACAACACAGA
1 CACATGT-ACCAGCATACAACACAGA
*
482435 CACATGTGCCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
* *
482460 CACATGTGA-CAGTATACAACACATA
1 CACATGT-ACCAGCATACAACACAGA
* *
482485 CACATGTACATGAACCAACATACAACAGAGA
1 CACATG----T--ACCAGCATACAACACAGA
*
482516 CACATGTACCAGCATACAACATAGAA
1 CACATGTACCAGCATACAACACAG-A
* * *
482542 CATATACATGTGCCAACATACAACAGAGA
1 C----ACATGTACCAGCATACAACACAGA
*
482571 CACATGTACTAGCATACAACACAG-
1 CACATGTACCAGCATACAACACAGA
* * * *
482595 C-C--NTACAAGACAGAC-ACACAGT
1 CACATGTACCAG-CATACAACACAGA
* * *
482617 CACACGTACCAGCATACAACATAGT
1 CACATGTACCAGCATACAACACAGA
*
482642 CACATGTACCAGCATACAACACGGA
1 CACATGTACCAGCATACAACACAGA
* *
482667 TACATGTGA-CAGCATACAAGACAGA
1 CACATGT-ACCAGCATACAACACAGA
* *
482692 CACATGTGATCATATACTAATACAACACAGA
1 CACATGT-A-C-CA-GC--ATACAACACAGA
* *
482723 CAAATGTGCCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
* *
482748 CACATGTGA-CAGTATACAACACATA
1 CACATGT-ACCAGCATACAACACAGA
* *
482773 CACATGTACATGAACCAACATACAACAGAGA
1 CACATG----T--ACCAGCATACAACACAGA
* *
482804 CACATGTACCAACATACAACACAAA
1 CACATGTACCAGCATACAACACAGA
* *
482829 CACATGTACCAACATACAAAACAGA
1 CACATGTACCAGCATACAACACAGA
* *
482854 TACATGTGA-CAGCATA-AACACAAA
1 CACATGT-ACCAGCATACAACACAGA
* *
482878 CACATGTACCAACATACAAAACAGA
1 CACATGTACCAGCATACAACACAGA
*
482903 TACATGTGA-CAGCATACAACACAGA
1 CACATGT-ACCAGCATACAACACAGA
*
482928 CACATGTACCAGCATACAACATAGAA
1 CACATGTACCAGCATACAACACAG-A
* *
482954 CATATACATGTGCCAGCATACAACAGAGA
1 C----ACATGTACCAGCATACAACACAGA
*
482983 CACATGTACCAGCATACAACACAGC
1 CACATGTACCAGCATACAACACAGA
*
483008 CACATGTGCCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
*
483033 CACGTGTACCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
*
483058 CACATGTGA-CAGCATACAACAGAGA
1 CACATGT-ACCAGCATACAACACAGA
*
483083 CACATGTACCAGCATACAACATAGAA
1 CACATGTACCAGCATACAACACAG-A
* *
483109 CATATACATGTGCCAGCATACAACAGAGA
1 C----ACATGTACCAGCATACAACACAGA
483138 CACATGTACCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
*
483163 CACATGTACCAGCATACAACACAGC
1 CACATGTACCAGCATACAACACAGA
*
483188 CACATGTGCCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
*
483213 CACGTGTACCAGCATACAACACAGACA
1 CACATGTACCAGCATACAACACAG--A
*
483240 CATGAACATGTACCAGCATTCAACACAGA
1 C----ACATGTACCAGCATACAACACAGA
*
483269 CACATGTGA-CAGTATACAACACAGA
1 CACATGT-ACCAGCATACAACACAGA
* *
483294 CACATGTACCAGCATGCAACATAGAA
1 CACATGTACCAGCATACAACACAG-A
* *
483320 CATGTACATGTGCCAGCATACAACACAGC
1 C----ACATGTACCAGCATACAACACAGA
483349 CACATGTACCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
*
483374 CACATGTACCAGCATGCAACACAGA
1 CACATGTACCAGCATACAACACAGA
* *
483399 CACATGTACCAGCATGCAACATAGAA
1 CACATGTACCAGCATACAACACAG-A
* *
483425 CATGTACATGTGCCAGCATACAACACAGC
1 C----ACATGTACCAGCATACAACACAGA
483454 CACATGTACCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
*
483479 CACATGTGCCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
* *
483504 CACGTGAACCAGCATACAACACAGA
1 CACATGTACCAGCATACAACACAGA
483529 CACATGTGA-CAGCATACAACACAGA
1 CACATGT-ACCAGCATACAACACAGA
483554 CACATGTGA-CAGCAT
1 CACATGT-ACCAGCAT
483569 TTAACACGCA
Statistics
Matches: 1230, Mismatches: 175, Indels: 150
0.79 0.11 0.10
Matches are distributed among these distances:
21 23 0.02
22 9 0.01
23 5 0.00
24 32 0.03
25 944 0.77
26 18 0.01
27 5 0.00
28 2 0.00
29 14 0.01
30 104 0.08
31 74 0.06
ACGTcount: A:0.43, C:0.29, G:0.13, T:0.15
Consensus pattern (25 bp):
CACATGTACCAGCATACAACACAGA
Found at i:482346 original size:171 final size:171
Alignment explanation
Indices: 482061--483477 Score: 557
Period size: 180 Copynumber: 7.9 Consensus size: 171
482051 TCATACACAT
* * **
482061 ACTCACATATACCAGCATACAACACAGACAAATGTACCTGCATACAACACAGTCACACGTACTAG
1 ACTCACATACACCAGCATACAACACAGACAAATGTACCTGCATACAACACACTCACACACACTAG
* *
482126 CATACAACACAGACACATGTACCAGCATACAACACAGACACATGTACCAGCATACAACACAGACA
66 CATACAACACAGACAAATGTACCAGCATACAACACAGACACACGTACCAGCATACAACACAGACA
* *
482191 TATGTACCTGCATACAACACAGTCTATATACAATACAACAC
131 CATGTACCAGCATACAACACAGTCTATATACAATACAACAC
* * ** * *
482232 ACTCACATACACTATCATACAACACAGACGTATGTACCTGCATACAACACACTCACATACACTAT
1 ACTCACATACACCAGCATACAACACAGACAAATGTACCTGCATACAACACACTCACACACACTAG
* * *
482297 CATACAACACAGACAAATGTACCTGCATACAACACAGTCACACGTACCAGCATACAACACAGTCA
66 CATACAACACAGACAAATGTACCAGCATACAACACAGACACACGTACCAGCATACAACACAGACA
* * *
482362 CATGTACCAGCATACAACACGGATAC-ATGTGACAGCATACAAGAC
131 CATGTACCAGCATACAACACAG-T-CTATAT-ACA--ATACAACAC
** ** * * * * * ** ***
482407 AGACACATGTGATC-GTATACAACACAGACACATGTGCCAGCATACAACACAGACACATGTGAC-
1 ACTCACAT-ACACCAGCATACAACACAGACAAATGTACCTGCATACAACACACTCACA-CACACT
* * * * * *
482470 AGTATACAACACATACACATGTACATGAACCAACATACAACAGAGACACATGTACCAGCATACAA
64 AGCATACAACAC--AGACA---A-ATGTACCAGCATACAACACAGACACACGTACCAGCATACAA
* * * * * * *
482535 CATAGAACATATACATGTGCCAACATACAACAGAGACACATGTACTAGCATACAACAC
123 CACAG-AC----ACATGTACCAGCATACAACACAGTC-TATATAC-A--ATACAACAC
* * * * * * * * * *** *
482593 A-GC-CNTACA--AGACAGAC-ACACAGTCACACGTACCAGCATACAACATAGTCACATGTACCA
1 ACTCACATACACCAG-CATACAACACAGACAAATGTACCTGCATACAACACACTCACACACACTA
* * * * * * *
482653 GCATACAACACGGATACATGTGA-CAGCATACAAGACAGACACATGTGATCATATACTAATACAA
65 GCATACAACACAGACAAATGT-ACCAGCATACAACACAGACACACGT-A-C-CA-GC--ATACAA
* * * * *
482717 CACAGACAAATGTGCCAGCATACAACACAGACACATGTGACAGTATACAACAC
123 CACAGACACATGTACCAGCATACAACACAGTC-TATAT-ACA--ATACAACAC
* * * ** ** *
482770 A-TACACATGTACATGAACCAACATACAACAGAGACACATGTACCAACATACAACACAAACACAT
1 ACT-CACA--TAC----ACCAGCATACAACACAGACAAATGTACCTGCATACAACACACTCACAC
** * * * * * * * *
482834 GTACCAACATACAAAACAGATACATGTGA-CAGCATA-AACACAAACACATGTACCAACATACAA
59 ACACTAGCATACAACACAGACAAATGT-ACCAGCATACAACACAGACACACGTACCAGCATACAA
* * * * * *
482897 AACAGATACATGTGA-CAGCATACAACACAGACACATGTACCAGCATACAACAT
123 CACAGACACATGT-ACCAGCATACAACACAGTC-TATATA-CA--ATACAACAC
** * * * * **
482950 AGAACATATACATGTGCCAGCATACAACAGAGACACATGTACCAGCATACAACACAGC-CACATG
1 A-CTCACATACA----CCAGCATACAACACAGACAAATGTACCTGCATACAACACA-CTCACACA
** * ** *
483014 TGCCAGCATACAACACAGACACGTGTACCAGCATACAACACAGACACATGTGA-CAGCATACAAC
60 CACTAGCATACAACACAGACAAATGTACCAGCATACAACACAGACACACGT-ACCAGCATACAAC
* * * * *
483078 AGAGACACATGTACCAGCATACAACATAGAACATATACATGTGCCAGCATACAACAG
124 ACAGACACATGTACCAGCATACAACACAG-TC-TAT--A--T-ACA--ATACAACAC
** ** * * **** *
483135 AGACACATGTACCAGCATACAACACAGACACATGTACCAGCATACAACACAGC-CACATGTGCCA
1 ACTCACATACACCAGCATACAACACAGACAAATGTACCTGCATACAACACA-CTCACACACACTA
** *
483199 GCATACAACACAGACACGTGTACCAGCATACAACACAGACACATGAACATGTACCAGCATTCAAC
65 GCATACAACACAGACAAATGTACCAGCATACAACACAGACAC----AC--GTACCAGCATACAAC
* * * * * *
483264 ACAGACACATGTGA-CAGTATACAACACAGACACATGTACCAGCATGCAACAT
124 ACAGACACATGT-ACCAGCATACAACACAGTC-TATATA-CA--ATACAACAC
** * * * ** **
483316 A-GAACATGTACATGTGCCAGCATACAACACAGCCACATGTACCAGCATACAACACAGACACATG
1 ACTCACA--TACA----CCAGCATACAACACAGACAAATGTACCTGCATACAACACACTCACACA
* * * * * * * *
483380 TACCAGCATGCAACACAGACACATGTACCAGCATGCAACATAGAACATGTACATGTGCCAGCATA
60 CACTAGCATACAACACAGACAAATGTACCAGCATACAACACAG-AC----ACACGTACCAGCATA
*
483445 CAACACAGCCACATGTACCAGCATACAACACAG
120 CAACACAGACACATGTACCAGCATACAACACAG
483478 ACACATGTGC
Statistics
Matches: 1004, Mismatches: 158, Indels: 154
0.76 0.12 0.12
Matches are distributed among these distances:
171 134 0.13
172 4 0.00
173 4 0.00
175 60 0.06
176 26 0.03
177 46 0.05
178 5 0.00
179 79 0.08
180 199 0.20
181 68 0.07
182 58 0.06
183 5 0.00
184 12 0.01
185 63 0.06
186 171 0.17
187 68 0.07
191 2 0.00
ACGTcount: A:0.43, C:0.29, G:0.13, T:0.15
Consensus pattern (171 bp):
ACTCACATACACCAGCATACAACACAGACAAATGTACCTGCATACAACACACTCACACACACTAG
CATACAACACAGACAAATGTACCAGCATACAACACAGACACACGTACCAGCATACAACACAGACA
CATGTACCAGCATACAACACAGTCTATATACAATACAACAC
Found at i:482562 original size:30 final size:31
Alignment explanation
Indices: 482473--482575 Score: 94
Period size: 30 Copynumber: 3.5 Consensus size: 31
482463 ATGTGACAGT
* * * *
482473 ATACAACACATACACATGTACATGAACCAAC
1 ATACAACAGAGACACATATACATGTACCAAC
*
482504 ATACAACAGAG--AC----ACATGTACCAGC
1 ATACAACAGAGACACATATACATGTACCAAC
* *
482529 ATACAACATAGA-ACATATACATGTGCCAAC
1 ATACAACAGAGACACATATACATGTACCAAC
482559 ATACAACAGAGACACAT
1 ATACAACAGAGACACAT
482576 GTACTAGCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
25 20 0.34
26 2 0.03
29 2 0.03
30 21 0.36
31 13 0.22
ACGTcount: A:0.48, C:0.26, G:0.11, T:0.16
Consensus pattern (31 bp):
ATACAACAGAGACACATATACATGTACCAAC
Found at i:482920 original size:155 final size:156
Alignment explanation
Indices: 482073--483535 Score: 863
Period size: 155 Copynumber: 9.5 Consensus size: 156
482063 TCACATATAC
* * * *
482073 CAGCATACAACACAGACAAATGTACCTGCATACAACACAGTCACACGT-ACTAGCATACAACACA
1 CAGCATACAACACAGACACATGTACCAGCATACAACACAGACACATGTGAC-AGCATACAACACA
* *
482137 GACACATGTACCAGC-A--TACA-AC-AC-AGACACATGTACCAGCATACAACACAGACATATGT
65 GACACATGTACCAGCAACCAACATACAACAAGACACATGTACCAGCATACAACACAGACACATGT
* * * *
482196 ACCTGCATACAACACAGTC-TATAT-A
130 ACCAGCATACAACACAGACACATGTGA
** ** * * ** *
482221 CA--ATACAACACACTCACATACACTATCATACAACACAGACGTATGT-ACCTGCATACAACACA
1 CAGCATACAACACAGACACATGTACCAGCATACAACACAGACACATGTGA-CAGCATACAACACA
** * * * * * *
482283 CTCACA--T---A-C-ACTATCATACAACACAGACAAATGTACCTGCATACAACACAGTCACACG
65 GACACATGTACCAGCAACCAACATACAACA-AGACACATGTACCAGCATACAACACAGACACATG
*
482341 TACCAGCATACAACACAGTCACATGT-A
129 TACCAGCATACAACACAGACACATGTGA
* * * *
482368 CCAGCATACAACACGGATACATGTGA-CAGCATACAAGACAGACACATGTGATC-GTATACAACA
1 -CAGCATACAACACAGACACATGT-ACCAGCATACAACACAGACACATGTGA-CAGCATACAACA
* * * *
482431 CAGACACATGTGCCAGC-A--TACA-AC-AC-AGACACATGTGA-CAGTATACAACACATACACA
63 CAGACACATGTACCAGCAACCAACATACAACAAGACACATGT-ACCAGCATACAACACAGACACA
* *
482489 TGTACATGAACCAACATACAACAGAGACACATGT-A
127 TG----T--ACCAGCATACAACACAGACACATGTGA
* * * *
482524 CCAGCATACAACATAGAACATATACATGTGCCAACATACAACAGAGACACATGT-ACTAGCATAC
1 -CAGCATACAACACAG-AC----ACATGTACCAGCATACAACACAGACACATGTGAC-AGCATAC
* * * * * *
482588 AACACAG-C-C--NTACAAG--A-CAGAC--AC-AC-AGTCACACGTACCAGCATACAACATAGT
59 AACACAGACACATGTACCAGCAACCA-ACATACAACAAGACACATGTACCAGCATACAACACAGA
* *
482642 CACATGTACCAGCATACAACACGGATACATGTGA
123 CACATGTACCAGCATACAACACAGACACATGTGA
* * * * *
482676 CAGCATACAAGACAGACACATGTGATCATATACTAATACAACACAGACAAATGTGCCAGCATACA
1 CAGCATACAACACAGACACATGT-A-C-CA-GC--ATACAACACAGACACATGTGACAGCATACA
* * * * * * *
482741 ACACAGACACATGTGA-CAGTATACAACACATAC-ACATG-TACATGAACCAACATACAACAGAG
60 ACACAGACACATGT-ACCAGCA-ACCA-ACATACAACAAGACACATGTACCAGCATACAACACAG
* *
482803 ACACATGTACCAACATACAACACAAACACATGT-A
122 ACACATGTACCAGCATACAACACAGACACATGTGA
* * * * * *
482837 CCAACATACAAAACAGATACATGTGA-CAGCATA-AACACAAACACATGT-ACCAACATACAAAA
1 -CAGCATACAACACAGACACATGT-ACCAGCATACAACACAGACACATGTGA-CAGCATACAACA
* * *
482899 CAGATACATGT----G--A-CAGCATACAACACAGACACATGTACCAGCATACAACATAGAACAT
63 CAGACACATGTACCAGCAACCAACATACAACA-AGACACATGTACCAGCATACAACACAG-AC--
* *
482957 ATACATGTGCCAGCATACAACAGAGACACATGT-A
124 --ACATGTACCAGCATACAACACAGACACATGTGA
* * *
482991 CCAGCATACAACACAGCCACATGTGCCAGCATACAACACAGACACGTGT-ACCAGCATACAACAC
1 -CAGCATACAACACAGACACATGTACCAGCATACAACACAGACACATGTGA-CAGCATACAACAC
* *
483055 AGACACATGT----G--A-CAGCATACAACAGAGACACATGTACCAGCATACAACATAGAACATA
64 AGACACATGTACCAGCAACCAACATACAACA-AGACACATGTACCAGCATACAACACAG-AC---
* *
483113 TACATGTGCCAGCATACAACAGAGACACATGT-A
124 -ACATGTACCAGCATACAACACAGACACATGTGA
* *
483146 CCAGCATACAACACAGACACATGTACCAGCATACAACACAGCCACATGTGCCAGCATACAACACA
1 -CAGCATACAACACAGACACATGTACCAGCATACAACACAGACACATGTGACAGCATACAACACA
* * * * *
483211 GACACGTGTACCAGCATA-CAACACAGACACATGA-ACATGTACCAGCATTCAACACAGACACAT
65 GACACATGTACCAGCA-ACCAACATACA-ACAAGACACATGTACCAGCATACAACACAGACACAT
*
483274 GTGA-CAGTATACAACACAGACACATGT-A
128 GT-ACCAGCATACAACACAGACACATGTGA
* * * *
483302 CCAGCATGCAACATAGAACATGTACATGTGCCAGCATACAACACAGCCACATGT-ACCAGCATAC
1 -CAGCATACAACACAG-AC----ACATGTACCAGCATACAACACAGACACATGTGA-CAGCATAC
** * *
483366 AACACAGACACATGTACCAGC-A--TGCA-AC-AC-AGACACATGTACCAGCATGCAACATAGAA
59 AACACAGACACATGTACCAGCAACCAACATACAACAAGACACATGTACCAGCATACAACACAG-A
* *
483425 CATGTACATGTGCCAGCATACAACACAGCCACATGT-A
123 C----ACATGTACCAGCATACAACACAGACACATGTGA
*
483462 CCAGCATACAACACAGACACATGTGCCAGCATACAACACAGACAC--GTGAACCAGCATACAACA
1 -CAGCATACAACACAGACACATGTACCAGCATACAACACAGACACATGTG-A-CAGCATACAACA
483525 CAGACACATGT
63 CAGACACATGT
483536 GACAGCATAC
Statistics
Matches: 1061, Mismatches: 160, Indels: 181
0.76 0.11 0.13
Matches are distributed among these distances:
140 2 0.00
141 1 0.00
142 2 0.00
143 2 0.00
144 3 0.00
146 108 0.10
147 9 0.01
148 7 0.01
149 21 0.02
150 78 0.07
151 39 0.04
152 35 0.03
153 7 0.01
154 61 0.06
155 290 0.27
156 91 0.09
157 39 0.04
158 5 0.00
159 8 0.01
160 49 0.05
161 118 0.11
162 82 0.08
163 4 0.00
ACGTcount: A:0.43, C:0.29, G:0.13, T:0.15
Consensus pattern (156 bp):
CAGCATACAACACAGACACATGTACCAGCATACAACACAGACACATGTGACAGCATACAACACAG
ACACATGTACCAGCAACCAACATACAACAAGACACATGTACCAGCATACAACACAGACACATGTA
CCAGCATACAACACAGACACATGTGA
Found at i:489487 original size:43 final size:43
Alignment explanation
Indices: 489426--489556 Score: 244
Period size: 43 Copynumber: 3.0 Consensus size: 43
489416 AACAGACCAG
489426 GTCTGGAACAGACTGTGATAATATCCTGATCAGATACATCCTT
1 GTCTGGAACAGACTGTGATAATATCCTGATCAGATACATCCTT
489469 GTCTGGAACAGACTGTGATAATATCCTGATCAGATACATCCTT
1 GTCTGGAACAGACTGTGATAATATCCTGATCAGATACATCCTT
* *
489512 GTCTGGAACAGACTGTGATAATATCCTTATCAGATACATTCTT
1 GTCTGGAACAGACTGTGATAATATCCTGATCAGATACATCCTT
489555 GT
1 GT
489557 ACTACCTTTT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (43 bp):
GTCTGGAACAGACTGTGATAATATCCTGATCAGATACATCCTT
Found at i:490085 original size:54 final size:54
Alignment explanation
Indices: 489956--490085 Score: 143
Period size: 54 Copynumber: 2.4 Consensus size: 54
489946 TTGTAAAGAC
* * * * * * * *
489956 AGTAAACGAGCAAATCTAACAACTAATTTTGATTAGATTGATGTTTGTGTAGCG
1 AGTAAGCGAGCAGATCTAACATCGAATTTGGATTACATTGATGTATGTGTAACG
* * * *
490010 AGTAAGCAAGCTGGTCTAACATCGAATTTGGATTACATTGATGTATGTGTAATG
1 AGTAAGCGAGCAGATCTAACATCGAATTTGGATTACATTGATGTATGTGTAACG
*
490064 AGTAAGCGAGCAGATCAAACAT
1 AGTAAGCGAGCAGATCTAACAT
490086 TCTAATTAAT
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (54 bp):
AGTAAGCGAGCAGATCTAACATCGAATTTGGATTACATTGATGTATGTGTAACG
Found at i:492261 original size:15 final size:16
Alignment explanation
Indices: 492231--492267 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
492221 TGAATTTCAG
*
492231 AGAATTCATCTGTTGT
1 AGAATTAATCTGTTGT
492247 AGAATTAAT-TGTTGT
1 AGAATTAATCTGTTGT
492262 AGAATT
1 AGAATT
492268 CTTCTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (16 bp):
AGAATTAATCTGTTGT
Found at i:492729 original size:42 final size:42
Alignment explanation
Indices: 492670--492751 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
492660 CTGTATGGTT
492670 CTTCTGTCTACTTATTGCTTTGTAGAGGTAAGTACATGCCGG
1 CTTCTGTCTACTTATTGCTTTGTAGAGGTAAGTACATGCCGG
492712 CTTCTGTCTACTTATTGCTTTGTAGAGGTAAGTACATGCC
1 CTTCTGTCTACTTATTGCTTTGTAGAGGTAAGTACATGCC
492752 AGTCTCCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (42 bp):
CTTCTGTCTACTTATTGCTTTGTAGAGGTAAGTACATGCCGG
Found at i:493141 original size:66 final size:66
Alignment explanation
Indices: 493031--493199 Score: 257
Period size: 66 Copynumber: 2.6 Consensus size: 66
493021 GCTTCTTATT
* * * * *
493031 ATCAGAGCTTAAACATTGAAGTATTAGACGAAACCTTAAATGAAGATATAAAATTTATTTACTCT
1 ATCAGAGCTAAAACATTGAAATATTAGACAAAACCTTAAATGAAGATATAAAATCTATTCACTCT
493096 C
66 C
*
493097 ATCAGAGCTAAAACATTGAAATATTAGACAAAACCTTAATTGAAGATATAAAATCTATTCACTCT
1 ATCAGAGCTAAAACATTGAAATATTAGACAAAACCTTAAATGAAGATATAAAATCTATTCACTCT
493162 C
66 C
* * *
493163 ATCAGGGCTAAAGCATTGAAATATTAGACAGAACCTT
1 ATCAGAGCTAAAACATTGAAATATTAGACAAAACCTT
493200 TAATCAAATC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 94 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (66 bp):
ATCAGAGCTAAAACATTGAAATATTAGACAAAACCTTAAATGAAGATATAAAATCTATTCACTCT
C
Found at i:493589 original size:31 final size:31
Alignment explanation
Indices: 493551--493613 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
493541 CAAATTCATA
*
493551 GAACTTTTAGACACAGTGAGTACTATGTAAT
1 GAACTTTTAGACACAGTGAGTACAATGTAAT
*
493582 GAACTTTTAGATACAGTGAGTACAATGTAAT
1 GAACTTTTAGACACAGTGAGTACAATGTAAT
493613 G
1 G
493614 CACAGCTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (31 bp):
GAACTTTTAGACACAGTGAGTACAATGTAAT
Found at i:502916 original size:26 final size:26
Alignment explanation
Indices: 502880--503792 Score: 1092
Period size: 26 Copynumber: 35.1 Consensus size: 26
502870 AGTACTGACC
* *
502880 GTGTCAACAGTGAGAAAGCATTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
*
502906 GTGTCAGCAGTGAGAAAGCACTGACA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
* *
502932 GTGTCAGCAATGAGAAAGCACTAGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
* * *
502958 GTGACAACAGTGAGAAAGCATTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
* *
502984 GTGTCAACAGTGAGAAAGCACTGACA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
** *
503010 GT-AAAGGCAGTGAGAAAGCATTGGCA
1 GTGTCA-GCAGTGAGAAAGCACTGGCA
*
503036 GTG-AAGGCAGTGAGAAAGCACTGGCA
1 GTGTCA-GCAGTGAGAAAGCACTGGCA
* *
503062 GTG-AAGGCAGTGAGAAAGCACTAGCA
1 GTGTCA-GCAGTGAGAAAGCACTGGCA
* * *
503088 GTGACAACAGTGAGAAAGCATTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
* *
503114 GTGTCAACAGTGAGAAAGCACTGACA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
**
503140 GT-AAAGGCAGTGAGAAAGCACTGGCA
1 GTGTCA-GCAGTGAGAAAGCACTGGCA
*
503166 GTGTCAGCAGTGAGAAAGCACTAGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
** * *
503192 GTGAAAGCAGTAAGAAAGTACTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
*
503218 GTGTCAGCAAG-GAGAAAGCACTGACA
1 GTGTCAGC-AGTGAGAAAGCACTGGCA
*
503244 GTGTCAGCAATGAGAAAGCACTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
*
503270 GTGTCAGCAGTGAGGAAGCACTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
* *
503296 GTGTCAGCAGTGAGGAAGCACTAGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
503322 GTGTCAGCAGTGAGAAAGCACTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
* *
503348 GTGTCAGCAGTGAGGAAGCACTAGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
** * *
503374 GTGGAAGCAGTAAGAAAGTACTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
*
503400 GTGTCAGCAAG-GAGAAAGCACTGACA
1 GTGTCAGC-AGTGAGAAAGCACTGGCA
* * * *
503426 GTGTCAACAGTGAGGAAGTACTAGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
* *
503452 CTG-AAGGCAGTGAGAAAGCACTGGCA
1 GTGTCA-GCAGTGAGAAAGCACTGGCA
*
503478 GTGTTAGCAGTGAGAAAGCACTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
*
503504 GTGTTAGCAGTGAGAAAGCACTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
* *
503530 GTGTCAGCAGTGAGGAAGCACTAGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
503556 GTGTCAGCAGTGAGAAAGCACTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
*
503582 GTGTCAGCAGTGAGAAAGCACTAGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
*
503608 GTGTCAGCAGTGAGAAAGCACTAGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
*
503634 GTGTCAACAGTGAGAAAGCACTGGCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
* *
503660 GTG-AAGGTAGTGAGAAAGCACTGGCA
1 GTGTCA-GCAGTGAGAAAGCACTGGCA
* * *
503686 GTG-AAGGCAGTGAGAAAGTACTAGCA
1 GTGTCA-GCAGTGAGAAAGCACTGGCA
* *
503712 GTGTCAGCAGTGAGAAAGCATTGTCA
1 GTGTCAGCAGTGAGAAAGCACTGGCA
*
503738 GTGTCAGCAGTGATG-AGGCACTGGCA
1 GTGTCAGCAGTGA-GAAAGCACTGGCA
*
503764 GTG-AAGGCAGTGAGAAAGCACTGGCA
1 GTGTCA-GCAGTGAGAAAGCACTGGCA
503790 GTG
1 GTG
503793 AGCACTAAAT
Statistics
Matches: 769, Mismatches: 102, Indels: 32
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.01
26 751 0.98
27 9 0.01
ACGTcount: A:0.35, C:0.17, G:0.33, T:0.15
Consensus pattern (26 bp):
GTGTCAGCAGTGAGAAAGCACTGGCA
Found at i:505332 original size:15 final size:16
Alignment explanation
Indices: 505293--505334 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
505283 AATGGTAGAA
*
505293 GGGCGAAAATTACACG
1 GGGCAAAAATTACACG
*
505309 GAGCAAAAATTACACG
1 GGGCAAAAATTACACG
505325 GGGCAAAAAT
1 GGGCAAAAAT
505335 AACCCTGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.12
Consensus pattern (16 bp):
GGGCAAAAATTACACG
Found at i:509789 original size:288 final size:287
Alignment explanation
Indices: 509273--509847 Score: 1123
Period size: 288 Copynumber: 2.0 Consensus size: 287
509263 TATTTTCTCC
509273 AGTCGTTCTTTCGCTTGTTTCTCTGCAGTTTCCAAAGTTTTGGCTTTCTCCTCTAGTCGTTTGTT
1 AGTCGTTCTTTCGCTTGTTTCTCTGCAGTTTCCAAAGTTTTGGCTTTCTCCTCTAGTCGTTTGTT
*
509338 TGCATGCTCAGCTTCCTCCCTCTGTATGCTCTCGTACTGTTTCTCATACTCCCACACAAGCTCAG
66 GGCATGCTCAGCTTCCTCCCTCTGTATGCTCTCGTACTGTTTCTCATACTCCCACACAAGCTCAG
509403 GCTTGCTCTGTTTCATGCTGCCCGGGTCAGCGGGAGTCTCAACTCGTAGGGACACAGTAGGCTTT
131 GCTTGCTCTGTTTCATGCTGCCCGGGTCAGCGGGAGTCTCAACTCGTAGGGACACAGTAGGCTTT
509468 AAAATGTCTCTTTCTTGTGTAAACACATATTTAAACAGTTTAAAGTGTCTGAGATAGGTCTGGAA
196 AAAATGTCTCTTTCTTGTGTAAACACATATTTAAACAGTTTAAAGTGTCTGAGATAGGTCTGGAA
509533 TACAAAGTCTGTGTAAATAGGAAAATT
261 TACAAAGTCTGTGTAAATAGGAAAATT
509560 NAGTCGTTCTTTCGCTTGTTTCTCTGCAGTTTCCAAAGTTTTGGCTTTCTCCTCTAGTCGTTTGT
1 -AGTCGTTCTTTCGCTTGTTTCTCTGCAGTTTCCAAAGTTTTGGCTTTCTCCTCTAGTCGTTTGT
*
509625 TGGCATGCTCAGCTTCCTCCCTCTGTATGCTCTCGTACTGTTTCTCATACTCCCACACAAGCTCG
65 TGGCATGCTCAGCTTCCTCCCTCTGTATGCTCTCGTACTGTTTCTCATACTCCCACACAAGCTCA
509690 GGCTTGCTCTGTTTCATGCTGCCCGGGTCAGCGGGAGTCTCAACTCGTAGGGACACAGTAGGCTT
130 GGCTTGCTCTGTTTCATGCTGCCCGGGTCAGCGGGAGTCTCAACTCGTAGGGACACAGTAGGCTT
509755 TAAAATGTCTCTTTCTTGTGTAAACACATATTTAAACAGTTTAAAGTGTCTGAGATAGGTCTGGA
195 TAAAATGTCTCTTTCTTGTGTAAACACATATTTAAACAGTTTAAAGTGTCTGAGATAGGTCTGGA
509820 ATACAAAGTCTGTGTAAATAGGAAAATT
260 ATACAAAGTCTGTGTAAATAGGAAAATT
509848 TCTTTGACCA
Statistics
Matches: 285, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
288 285 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (287 bp):
AGTCGTTCTTTCGCTTGTTTCTCTGCAGTTTCCAAAGTTTTGGCTTTCTCCTCTAGTCGTTTGTT
GGCATGCTCAGCTTCCTCCCTCTGTATGCTCTCGTACTGTTTCTCATACTCCCACACAAGCTCAG
GCTTGCTCTGTTTCATGCTGCCCGGGTCAGCGGGAGTCTCAACTCGTAGGGACACAGTAGGCTTT
AAAATGTCTCTTTCTTGTGTAAACACATATTTAAACAGTTTAAAGTGTCTGAGATAGGTCTGGAA
TACAAAGTCTGTGTAAATAGGAAAATT
Found at i:515075 original size:20 final size:20
Alignment explanation
Indices: 515046--515083 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
515036 GAGAGAATTT
*
515046 CCCTGTTTTCCTGAGTTTGA
1 CCCTGATTTCCTGAGTTTGA
515066 CCCTGATTTCCTGAGTTT
1 CCCTGATTTCCTGAGTTT
515084 AACGCTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.26, G:0.18, T:0.45
Consensus pattern (20 bp):
CCCTGATTTCCTGAGTTTGA
Found at i:515098 original size:20 final size:19
Alignment explanation
Indices: 515046--515098 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
515036 GAGAGAATTT
*
515046 CCCTGTTTTCCTGAGTTTGA
1 CCCTG-TTTCCTGAGTTTAA
515066 CCCTGATTTCCTGAGTTTAA
1 CCCTG-TTTCCTGAGTTTAA
*
515086 CGCTGTTTACCTG
1 CCCTGTTT-CCTG
515099 TAGGTGGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.42
Consensus pattern (19 bp):
CCCTGTTTCCTGAGTTTAA
Found at i:518647 original size:37 final size:37
Alignment explanation
Indices: 518595--518739 Score: 272
Period size: 37 Copynumber: 3.9 Consensus size: 37
518585 GTGTTAAACA
* *
518595 GTTTGAACCCCTATTGATCCTGTCTTTAACAGCTTTG
1 GTTTGAACCCTTATTGATCCTGTCTTTGACAGCTTTG
518632 GTTTGAACCCTTATTGATCCTGTCTTTGACAGCTTTG
1 GTTTGAACCCTTATTGATCCTGTCTTTGACAGCTTTG
518669 GTTTGAACCCTTATTGATCCTGTCTTTGACAGCTTTG
1 GTTTGAACCCTTATTGATCCTGTCTTTGACAGCTTTG
518706 GTTTGAACCCTTATTGATCCTGTCTTTGACAGCT
1 GTTTGAACCCTTATTGATCCTGTCTTTGACAGCT
518740 GTGTTCAGTG
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (37 bp):
GTTTGAACCCTTATTGATCCTGTCTTTGACAGCTTTG
Found at i:519947 original size:63 final size:63
Alignment explanation
Indices: 519869--520040 Score: 326
Period size: 63 Copynumber: 2.7 Consensus size: 63
519859 TGAGGAGTTT
*
519869 TATTAGCCAATAGATGGTCAGGTAAGGAGTTGTATTAGCCAATAGACTGTCAGATGAGGCATG
1 TATTAGCCAATAGATGGTCAGGTAAGGAGTTGTATTAGCCAATAGACTATCAGATGAGGCATG
519932 TATTAGCCAATAGATGGTCAGGTAAGGAGTTGTATTAGCCAATAGACTATCAGATGAGGCATG
1 TATTAGCCAATAGATGGTCAGGTAAGGAGTTGTATTAGCCAATAGACTATCAGATGAGGCATG
*
519995 TATTAGCCAATAGATTGTCAGGTAAGGAGTTGTATTAGCCAATAGA
1 TATTAGCCAATAGATGGTCAGGTAAGGAGTTGTATTAGCCAATAGA
520041 TTGTGAAGAT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 107 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (63 bp):
TATTAGCCAATAGATGGTCAGGTAAGGAGTTGTATTAGCCAATAGACTATCAGATGAGGCATG
Found at i:520029 original size:95 final size:94
Alignment explanation
Indices: 519853--520041 Score: 240
Period size: 95 Copynumber: 2.0 Consensus size: 94
519843 AAGATCGATT
* * * *
519853 GTCAGGTGAGGAGTTTTATTAGCCAATAGATGGTCAGGTAAGGAGTTGTATTAGCCAATAGACTG
1 GTCAGGTAAGGAGTTGTATTAGCCAATAGATGATCAGATAAGGAG-TGTATTAGCCAATAGACTG
*
519918 TCAGATGAGGCATGTATTAGCCAATAGATG
65 TCAGATAAGGCATGTATTAGCCAATAGATG
* *
519948 GTCAGGTAAGGAGTTGTATTAGCCAATAGACT-ATCAGATGAGGCA-TGTATTAGCCAATAGATT
1 GTCAGGTAAGGAGTTGTATTAGCCAATAGA-TGATCAGATAAGG-AGTGTATTAGCCAATAGACT
*
520011 GTCAGGTAAGG-AGTTGTATTAGCCAATAGAT
64 GTCAGATAAGGCA--TGTATTAGCCAATAGAT
520042 TGTGAAGATT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
93 1 0.01
94 26 0.32
95 53 0.65
96 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (94 bp):
GTCAGGTAAGGAGTTGTATTAGCCAATAGATGATCAGATAAGGAGTGTATTAGCCAATAGACTGT
CAGATAAGGCATGTATTAGCCAATAGATG
Found at i:520042 original size:32 final size:32
Alignment explanation
Indices: 519849--520044 Score: 247
Period size: 32 Copynumber: 6.2 Consensus size: 32
519839 TGGGAAGATC
* *
519849 GATTGTCAGGTGAGGAGTTTTATTAGCCAATA
1 GATTGTCAGGTAAGGAGTTGTATTAGCCAATA
*
519881 GATGGTCAGGTAAGGAGTTGTATTAGCCAATA
1 GATTGTCAGGTAAGGAGTTGTATTAGCCAATA
* * *
519913 GACTGTCAGATGAGGCA--TGTATTAGCCAATA
1 GATTGTCAGGTAAGG-AGTTGTATTAGCCAATA
*
519944 GATGGTCAGGTAAGGAGTTGTATTAGCCAATA
1 GATTGTCAGGTAAGGAGTTGTATTAGCCAATA
* * * *
519976 GACTATCAGATGAGGCA--TGTATTAGCCAATA
1 GATTGTCAGGTAAGG-AGTTGTATTAGCCAATA
520007 GATTGTCAGGTAAGGAGTTGTATTAGCCAATA
1 GATTGTCAGGTAAGGAGTTGTATTAGCCAATA
520039 GATTGT
1 GATTGT
520045 GAAGATTTGT
Statistics
Matches: 138, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
30 2 0.01
31 50 0.36
32 84 0.61
33 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (32 bp):
GATTGTCAGGTAAGGAGTTGTATTAGCCAATA
Found at i:522249 original size:43 final size:43
Alignment explanation
Indices: 522187--522946 Score: 1216
Period size: 43 Copynumber: 17.7 Consensus size: 43
522177 ACACAACATG
* * * *
522187 TGTAACT-AGATGATATGATACAAATATTTCTGTGACACAAATT
1 TGTAACTGA-ATGACATGATACAAGTATTTCTGTGATACAGATT
*
522230 AGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
*
522273 TGTAACTGAATGACATGATACAAGAATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
* * *
522316 AGTAACTGAATGTCATAATACAAGTATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
* *
522359 AGTAACTGAATGACATCATACAAGTATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
522402 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
*
522445 TGTAACTGAATGACATGATACAAGAATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
* * * *
522488 AGTTACTGAATGTCATGATACAAGAATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
522531 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
522574 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
*
522617 TGTAACTGAATGACATGATACAAGAATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
* * * * *
522660 AGTTACTGAATGTCATGATACAAGAATTTCTGTGATACATATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
* * *
522703 AGTAACTGAATGTCATGATACAAGAATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
522746 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
** *
522789 TGTAACCAAATGACATGATACAAGAATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
*
522832 TGTAACCGAATGACATGATACAAGTATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
* *
522875 AGAAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
1 TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
*
522918 TGTAACTGAATGACATGATACAAGAATTT
1 TGTAACTGAATGACATGATACAAGTATTT
522947 TTGTAACATA
Statistics
Matches: 672, Mismatches: 44, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
43 671 1.00
44 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (43 bp):
TGTAACTGAATGACATGATACAAGTATTTCTGTGATACAGATT
Found at i:527074 original size:60 final size:60
Alignment explanation
Indices: 526976--527101 Score: 234
Period size: 60 Copynumber: 2.1 Consensus size: 60
526966 CACCAAGTGC
* *
526976 TTGTTTAACTGTGTTGTCATTAATTACACGTGAAACTGTTAACCTGTTTGACAGATTGAT
1 TTGTATAACTGTGTTGTCACTAATTACACGTGAAACTGTTAACCTGTTTGACAGATTGAT
527036 TTGTATAACTGTGTTGTCACTAATTACACGTGAAACTGTTAACCTGTTTGACAGATTGAT
1 TTGTATAACTGTGTTGTCACTAATTACACGTGAAACTGTTAACCTGTTTGACAGATTGAT
527096 TTGTAT
1 TTGTAT
527102 TGTGTTTAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.41
Consensus pattern (60 bp):
TTGTATAACTGTGTTGTCACTAATTACACGTGAAACTGTTAACCTGTTTGACAGATTGAT
Found at i:527476 original size:20 final size:20
Alignment explanation
Indices: 527451--527490 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
527441 CCAATGACAT
*
527451 TGTAAATCTATGATACTGTA
1 TGTAAACCTATGATACTGTA
*
527471 TGTAAACCTGTGATACTGTA
1 TGTAAACCTATGATACTGTA
527491 AACACCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTAAACCTATGATACTGTA
Found at i:527678 original size:32 final size:32
Alignment explanation
Indices: 527641--527702 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
527631 ACACTAATCA
* *
527641 GTGACACAGTTAACAACTGACACTTTAAACCT
1 GTGACACAGTTAACAACCGACACTGTAAACCT
* *
527673 GTGACACTGTTAACCACCGACACTGTAAAC
1 GTGACACAGTTAACAACCGACACTGTAAAC
527703 TATTAACATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (32 bp):
GTGACACAGTTAACAACCGACACTGTAAACCT
Found at i:527819 original size:16 final size:16
Alignment explanation
Indices: 527798--528082 Score: 137
Period size: 16 Copynumber: 18.0 Consensus size: 16
527788 TTATAAATCA
*
527798 GTAAACCCCTGACACC
1 GTAAACCCCTGACACT
*
527814 GTAAACCCCTGACACC
1 GTAAACCCCTGACACT
*
527830 GTAAACCTCTGACACT
1 GTAAACCCCTGACACT
* *
527846 GTCAACCTCTGACACT
1 GTAAACCCCTGACACT
**
527862 GTAAACTACTGACACT
1 GTAAACCCCTGACACT
* * *
527878 GTAAA-CACTGATATT
1 GTAAACCCCTGACACT
* * *
527893 GTTAACCACTGGCACT
1 GTAAACCCCTGACACT
**
527909 GTAAACCTTTGACACT
1 GTAAACCCCTGACACT
* ***
527925 GTAAGCTGAT-ACACT
1 GTAAACCCCTGACACT
** ***
527940 GTAAACCAATGATGTT
1 GTAAACCCCTGACACT
** ** *
527956 AAAAACCAATGA-TCT
1 GTAAACCCCTGACACT
* *
527971 GAAAACCCCTGACACA
1 GTAAACCCCTGACACT
* *
527987 GTAAACCACTGACACC
1 GTAAACCCCTGACACT
* ** *
528003 ATAAACCTATGACATT
1 GTAAACCCCTGACACT
*
528019 GTAAACCTCTGACACT
1 GTAAACCCCTGACACT
**
528035 GTAAACTACTGACACT
1 GTAAACCCCTGACACT
* *
528051 GTAAAACACTG-CTACT
1 GTAAACCCCTGAC-ACT
**
528067 GTAAACTGCTGACACT
1 GTAAACCCCTGACACT
528083 TTGAATCAGT
Statistics
Matches: 210, Mismatches: 54, Indels: 10
0.77 0.20 0.04
Matches are distributed among these distances:
15 34 0.16
16 175 0.83
17 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.23
Consensus pattern (16 bp):
GTAAACCCCTGACACT
Found at i:527963 original size:63 final size:63
Alignment explanation
Indices: 527832--528072 Score: 179
Period size: 63 Copynumber: 3.8 Consensus size: 63
527822 CTGACACCGT
* * * **
527832 AAACCTCTGACACTGTCAACCTCTGACACTGTAAACTACTGACACTGTAAACACTGATATTGT
1 AAACCACTGACACTGTAAACCTCTGACACTGTAAACTACTGACACTGTAAACAATGATATTAA
* * * * *
527895 TAACCACTGGCACTGTAAACCTTTGACACTGTAAGCTGA-T-ACACTGTAAACCAATGATGTTAA
1 AAACCACTGACACTGTAAACCTCTGACACTGTAAACT-ACTGACACTGTAAA-CAATGATATTAA
* * * * * * ** * * **
527958 AAACCAATGA-TCTGAAAACCCCTGACACAGTAAACCACTGACACCATAAACCTATGACATTGT
1 AAACCACTGACACTGTAAACCTCTGACACTGTAAACTACTGACACTGTAAA-CAATGATATTAA
*
528021 AAACCTCTGACACTGTAAA-CTACTGACACTGTAAAAC-ACTG-CTACTGTAAAC
1 AAACCACTGACACTGTAAACCT-CTGACACTGT-AAACTACTGAC-ACTGTAAAC
528073 TGCTGACACT
Statistics
Matches: 135, Mismatches: 35, Indels: 16
0.73 0.19 0.09
Matches are distributed among these distances:
61 1 0.01
62 30 0.22
63 74 0.55
64 26 0.19
65 4 0.03
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (63 bp):
AAACCACTGACACTGTAAACCTCTGACACTGTAAACTACTGACACTGTAAACAATGATATTAA
Found at i:530341 original size:61 final size:61
Alignment explanation
Indices: 530246--531516 Score: 1982
Period size: 61 Copynumber: 20.9 Consensus size: 61
530236 CCCAGGGAGC
* *
530246 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGTGTATAGTATATAGTATAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* *
530307 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAAGAGTATAGTATATAGTATAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* * * *
530368 GGCAGGTATCTAGAGAAGGTTACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* *
530429 GGCAGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGTGTATAGTATATAGTAGAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
*
530490 GGCTGGTATCTAGAGAAGGTTAGGCT-C-CTGATTAATAGGAGTATAGTATATAGTAGAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* *
530549 GGCTGGTATCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* *
530610 GGCTGGTATCTAGAGAAGGTTAGGCT-C-CTGATTAATAGAAGTATAGTATATAGTAGAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* *
530669 GGCTGGTATCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTACAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* *
530730 GGCTGGTATCTAGAGAAGGTTAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* *
530791 GGCTGGTATCTAGAGAAGGTAATGCTCCTCTGATTAATAGGAGTATAGTATAAAGTAGAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
*
530852 GGCTGTTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* * *
530913 GGCTGGTATCTAGAGAAGGGAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGC
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* * * * *
530974 GGCTGGGATCTAGAGAAGGGAACGCTCCTCTGATTAATAAGAGTATAGTATATAGTATAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* * * *
531035 GGCTGGGATCTAGAGAAGGTTAGGCT-C-CTGATTTATAGGAGTATAGTATATAGTAGAGC
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* * * * *
531094 GGCTGGGATCTAGAGAAGGGAACGCTCCTCTGATTAATAAGAGTATAGTATATAGTATAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
*
531155 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* * *
531216 GGCTGGTATGTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATACTAGTAGTATATAGTATA
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAG-----TA-TAGTATATAGTAGA
531281 GT
60 GT
* *
531283 GGCTGGTATCTAGAGAAGGTTAGGCT-C-CTGATTAATAGGAGTATAGTATATAGTAGAGC
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* *
531342 GGCTGGTATCTAGAGAAGGTAACGCTCCTCTGATTAATAAGAGTATAGTATATAGTAGAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
*
531403 GGCTGGTATCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
* *
531464 GGCTGGTATCTAGAGAAGGTAATGCTCCTCTGTTTAATAGGAGTATAGTATAT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATAT
531517 GCCTGTAGTA
Statistics
Matches: 1122, Mismatches: 74, Indels: 28
0.92 0.06 0.02
Matches are distributed among these distances:
59 198 0.18
60 9 0.01
61 859 0.77
65 14 0.01
66 3 0.00
67 39 0.03
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (61 bp):
GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGT
Found at i:530610 original size:181 final size:183
Alignment explanation
Indices: 530246--531516 Score: 2018
Period size: 181 Copynumber: 7.0 Consensus size: 183
530236 CCCAGGGAGC
* *
530246 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGTGTATAGTATATAGTATAGTGGCT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCT
* * *
530311 GGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAAGAGTATAGTATATAGTATAGTGGCAGGTA
66 GGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCTGGTA
*
530376 TCTAGAGAAGGTTACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
131 TCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
* *
530429 GGCAGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGTGTATAGTATATAGTAGAGTGGCT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCT
*
530494 GGTATCTAGAGAAGGTTAGGCT-C-CTGATTAATAGGAGTATAGTATATAGTAGAGTGGCTGGTA
66 GGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCTGGTA
530557 TCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
131 TCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
* *
530610 GGCTGGTATCTAGAGAAGGTTAGGCT-C-CTGATTAATAGAAGTATAGTATATAGTAGAGTGGCT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCT
* *
530673 GGTATCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTACAGTGGCTGGTA
66 GGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCTGGTA
* *
530738 TCTAGAGAAGGTTAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
131 TCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
* *
530791 GGCTGGTATCTAGAGAAGGTAATGCTCCTCTGATTAATAGGAGTATAGTATAAAGTAGAGTGGCT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCT
*
530856 GTTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCTGGTA
66 GGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCTGGTA
* * *
530921 TCTAGAGAAGGGAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGC
131 TCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
* * * * *
530974 GGCTGGGATCTAGAGAAGGGAACGCTCCTCTGATTAATAAGAGTATAGTATATAGTATAGTGGCT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCT
* * * * *
531039 GGGATCTAGAGAAGGTTAGGCT-C-CTGATTTATAGGAGTATAGTATATAGTAGAGCGGCTGGGA
66 GGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCTGGTA
* *
531102 TCTAGAGAAGGGAACGCTCCTCTGATTAATAAGAGTATAGTATATAGTATAGT
131 TCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
*
531155 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGTGGCT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCT
* * *
531220 GGTATGTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATACTAGTAGTATATAGTATAGTGG
66 GGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAG-----TA-TAGTATATAGTAGAGTGG
* * * *
531285 CTGGTATCTAGAGAAGGTTAGGCT-C-CTGATTAATAGGAGTATAGTATATAGTAGAGC
125 CTGGTATCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
* *
531342 GGCTGGTATCTAGAGAAGGTAACGCTCCTCTGATTAATAAGAGTATAGTATATAGTAGAGTGGCT
1 GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCT
*
531407 GGTATCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCTGGTA
66 GGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCTGGTA
* *
531472 TCTAGAGAAGGTAATGCTCCTCTGTTTAATAGGAGTATAGTATAT
131 TCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATAT
531517 GCCTGTAGTA
Statistics
Matches: 1005, Mismatches: 69, Indels: 28
0.91 0.06 0.03
Matches are distributed among these distances:
179 54 0.05
180 2 0.00
181 432 0.43
182 7 0.01
183 342 0.34
187 129 0.13
188 3 0.00
189 36 0.04
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (183 bp):
GGCTGGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCT
GGTATCTAGAGAAGGTAAGGCTCCTCTGATTAATAGGAGTATAGTATATAGTAGAGTGGCTGGTA
TCTAGAGAAGGTAACGCTCCTCTGATTAATAGGAGTATAGTATATAGTATAGT
Found at i:532679 original size:37 final size:37
Alignment explanation
Indices: 532637--532841 Score: 301
Period size: 37 Copynumber: 5.6 Consensus size: 37
532627 GTTGTTTTAG
*
532637 TTTTGTGGTTCTCTATTTCAGCAGTAATCAAGTTATT
1 TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTATT
532674 TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTATTT
1 TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTA-TT
* *
532712 TTTTGTGGTTCTATATTTCAGCAGTTATCAAGTTGTT
1 TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTATT
532749 TTTTGTGGTTCTATATTTCAGCA-TAATCAAGTT-TT
1 TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTATT
* * *
532784 TTTTGTGGATCTATATTTCAGCAGTGATCAAG--CTT
1 TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTATT
* *
532819 TTTTGTGGTTCTCTGTTTCAGCA
1 TTTTGTGGTTCTATATTTCAGCA
532842 TGATGTGTTT
Statistics
Matches: 156, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
35 46 0.29
36 16 0.10
37 59 0.38
38 35 0.22
ACGTcount: A:0.20, C:0.13, G:0.18, T:0.49
Consensus pattern (37 bp):
TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTATT
Found at i:532729 original size:75 final size:72
Alignment explanation
Indices: 532637--532842 Score: 299
Period size: 75 Copynumber: 2.8 Consensus size: 72
532627 GTTGTTTTAG
*
532637 TTTTGTGGTTCTCTATTTCAGCAGTAATCAAGTTATTTTTTGTGGTTCTATATTTCAGCAGTAAT
1 TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTATTTTTTGTGGTTCTATATTTCAGCA-TAAT
532702 CAAGTTATTT
65 CAAG-T-TTT
* *
532712 TTTTGTGGTTCTATATTTCAGCAGTTATCAAGTTGTTTTTTGTGGTTCTATATTTCAGCATAATC
1 TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTATTTTTTGTGGTTCTATATTTCAGCATAATC
532777 AAGTTTT
66 AAGTTTT
* * * * *
532784 TTTTGTGGATCTATATTTCAGCAGTGATCAAG--CTTTTTTGTGGTTCTCTGTTTCAGCAT
1 TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTATTTTTTGTGGTTCTATATTTCAGCAT
532843 GATGTGTTTG
Statistics
Matches: 123, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
70 24 0.20
72 33 0.27
73 1 0.01
74 8 0.07
75 57 0.46
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.50
Consensus pattern (72 bp):
TTTTGTGGTTCTATATTTCAGCAGTAATCAAGTTATTTTTTGTGGTTCTATATTTCAGCATAATC
AAGTTTT
Found at i:533488 original size:43 final size:43
Alignment explanation
Indices: 533430--535162 Score: 2619
Period size: 43 Copynumber: 39.8 Consensus size: 43
533420 AACTAATTAC
*
533430 TACTTCTCTATTGTTGTTGAAATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
**
533473 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTCCGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
533516 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* *
533559 GACTTCTCTATTGTTGTTGATATAGGTGACTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
533602 TACTTCTCTTTTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
533645 TACTTCTCTTTTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* * *
533688 TACTTTTCTATTGTTGTTGACATAGGTGGCTGTCTGTCTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* * *
533731 TACTTTTCTGTTGTTGTTAATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
533774 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTACTACTTCT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTA--A---AT
533822 TAAAACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
1 T---ACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
533868 TACTTCTCTATTGTTGTTGATATAGGTGACTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
***
533911 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTCCATAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
533954 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
533997 TACTTCTCTTTTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* * *
534040 GACTTCTCTATTGTTGTTGACATAGGTGGCTGTCTGTCTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* * *
534083 TACTTTTCTGTTGTTGTTAATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* *
534126 AACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTACTACTTCT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTA--A---AT
534174 TAAAACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
1 T---ACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* * **
534220 AATTTCTCTATTGTTGTTGATATAGGTGGCTGTCTCCGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
**
534263 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTCCGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
534306 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* * **
534349 AATTTCTCTATTGTTGTTGATATAGGTGGCTGTCTCCGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
534392 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTACTACTTCT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTA--A---AT
* *
534440 TAAAATTTCTCTATAGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
1 T---ACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* * *
534486 TACTTCTCTTTTGTTGTTGATATAGGTGGCCGTCTGTTTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
534529 TACTTCTCTATTGTTGTTAATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
534572 TACTTCTCTATTGTTGTTAATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* * *
534615 TACTTCTCTATTGTTATTGATATAGGTGGCTGTTTGTGTAGAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* *
534658 TACTTCTCTTTTGTTGTTGATATAGGTGGCCGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
534701 TACTTCTCTATTGTTGTTAATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
534744 TACTTCTCTATTGTTGTTAATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
534787 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
534830 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAGAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* * *
534873 TACTTTTCTTTTGTTGTTGATATAGGTGGCCGTCTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* *
534916 TACTTCTCTATTGTTGTTAATATAGGTGGCTGTCTGTGAAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
**
534959 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTCCGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
**
535002 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTCCGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
* **
535045 TACTTCTCTATTGTTGTTGATATAGGTGACTGTCTCCGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
535088 TACTTCTCTATTGTTGTTGATATA---GG-TGACTGTGTAAAT
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
*
535127 TACTTCTCTTTTGTTGTTGATATAGGTGGCTGTCTG
1 TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTG
535163 AGACTGAGGG
Statistics
Matches: 1550, Mismatches: 112, Indels: 56
0.90 0.07 0.03
Matches are distributed among these distances:
39 33 0.02
40 1 0.00
42 2 0.00
43 1383 0.89
45 3 0.00
46 5 0.00
48 5 0.00
49 3 0.00
51 115 0.07
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.46
Consensus pattern (43 bp):
TACTTCTCTATTGTTGTTGATATAGGTGGCTGTCTGTGTAAAT
Found at i:534126 original size:22 final size:22
Alignment explanation
Indices: 534061--534126 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
534051 TGTTGTTGAC
*
534061 ATAGGTGGCTGTCTGTCTAAAT
1 ATAGGTGGCTGTCTGTGTAAAT
** ** *
534083 -TACTTTTCTGT-TGTTGTTAAT
1 ATAGGTGGCTGTCTG-TGTAAAT
534104 ATAGGTGGCTGTCTGTGTAAAT
1 ATAGGTGGCTGTCTGTGTAAAT
534126 A
1 A
534127 ACTTCTCTAT
Statistics
Matches: 30, Mismatches: 11, Indels: 6
0.64 0.23 0.13
Matches are distributed among these distances:
20 2 0.07
21 12 0.40
22 14 0.47
23 2 0.07
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.44
Consensus pattern (22 bp):
ATAGGTGGCTGTCTGTGTAAAT
Found at i:534548 original size:22 final size:22
Alignment explanation
Indices: 534523--534591 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
534513 GGCCGTCTGT
534523 TTAAATTACTTCTCTATTGTTG
1 TTAAATTACTTCTCTATTGTTG
** ** *
534545 TT-AATATAGGTGGCTGTCTG-TG
1 TTAAAT-TACTTCTCTAT-TGTTG
534567 -TAAATTACTTCTCTATTGTTG
1 TTAAATTACTTCTCTATTGTTG
534588 TTAA
1 TTAA
534592 TATAGGTGGC
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 12 0.38
22 16 0.50
23 2 0.06
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.49
Consensus pattern (22 bp):
TTAAATTACTTCTCTATTGTTG
Found at i:536052 original size:37 final size:39
Alignment explanation
Indices: 536011--536086 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
536001 CCCCTCCCTA
* *
536011 TATCTC-CCAAACACAGAAAGTGAGTGTT-TCCCCTACT
1 TATCTCTCCAAACACAGAAACTGAGTATTCTCCCCTACT
* *
536048 TATCTCTTCCAAACACGGATACTGAGTATTCTCCCCTAC
1 TATCTC-TCCAAACACAGAAACTGAGTATTCTCCCCTAC
536087 CAAGGTGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 6 0.19
39 18 0.56
40 8 0.25
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.29
Consensus pattern (39 bp):
TATCTCTCCAAACACAGAAACTGAGTATTCTCCCCTACT
Found at i:536240 original size:34 final size:34
Alignment explanation
Indices: 536143--536241 Score: 99
Period size: 34 Copynumber: 2.9 Consensus size: 34
536133 GAAACAATGG
* *
536143 TGACATCTTGTTAATGGTTTTAGTGTGACAATGA
1 TGACATCTTGTTTATGGTTTTAGTGTGACAATAA
*** * * * * *
536177 TGTTGTCTTCTTTATGATTTCAATATGACAATAA
1 TGACATCTTGTTTATGGTTTTAGTGTGACAATAA
*
536211 TGACATCTTGTTTATGGTTTTGGTGTGACAA
1 TGACATCTTGTTTATGGTTTTAGTGTGACAA
536242 CGATGATGTC
Statistics
Matches: 46, Mismatches: 19, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.44
Consensus pattern (34 bp):
TGACATCTTGTTTATGGTTTTAGTGTGACAATAA
Found at i:536259 original size:34 final size:34
Alignment explanation
Indices: 536156--536281 Score: 112
Period size: 34 Copynumber: 3.7 Consensus size: 34
536146 CATCTTGTTA
*
536156 ATGGTTTTAGTGTGACAATGATGTTGTCTTCTTT
1 ATGGTTTTAGTGTGACAATGATGATGTCTTCTTT
* * * * * ** *
536190 ATGATTTCAATATGACAATAATGACATCTTGTTT
1 ATGGTTTTAGTGTGACAATGATGATGTCTTCTTT
* *
536224 ATGGTTTTGGTGTGACAACGATGATGTCTTCTTT
1 ATGGTTTTAGTGTGACAATGATGATGTCTTCTTT
*
536258 AT--TTTTACAGAGTGACAATGATGA
1 ATGGTTTT--AGTGTGACAATGATGA
536282 CATTTTGTGT
Statistics
Matches: 68, Mismatches: 22, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
32 4 0.06
34 64 0.94
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (34 bp):
ATGGTTTTAGTGTGACAATGATGATGTCTTCTTT
Found at i:536282 original size:68 final size:68
Alignment explanation
Indices: 536136--536289 Score: 195
Period size: 68 Copynumber: 2.3 Consensus size: 68
536126 TCCAAATGAA
* * *
536136 ACAATGGTGACATCTTGTTAATGGTTTTAGTGTGACAATGATGTTGTCTTCTTTATGATTTCAAT
1 ACAATGATGACATCTTGTTAATGGTTTTAGTGTGACAACGATGATGTCTTCTTTATGATTTCAAT
536201 ATG
66 ATG
* * * *
536204 ACAATAATGACATCTTGTTTATGGTTTTGGTGTGACAACGATGATGTCTTCTTTAT-TTTTACAG
1 ACAATGATGACATCTTGTTAATGGTTTTAGTGTGACAACGATGATGTCTTCTTTATGATTT-CA-
*
536268 A-GTG
64 ATATG
*
536272 ACAATGATGACATTTTGT
1 ACAATGATGACATCTTGT
536290 GTTAGAATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 3 0.04
68 70 0.95
69 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (68 bp):
ACAATGATGACATCTTGTTAATGGTTTTAGTGTGACAACGATGATGTCTTCTTTATGATTTCAAT
ATG
Found at i:536726 original size:54 final size:54
Alignment explanation
Indices: 536644--536806 Score: 299
Period size: 54 Copynumber: 3.0 Consensus size: 54
536634 TCTGATGCCA
* *
536644 GGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTATAGGAGGAATCTGTATC
1 GGAGGGGTACAAGTCCCAGAGATAAAAGGTTAGGCTATAGAAGGAATCTGTATC
*
536698 GGAGGGGTACAAGTTCCAGAGATAAAAGGTTAGGCTATAGAAGGAATCTGTATC
1 GGAGGGGTACAAGTCCCAGAGATAAAAGGTTAGGCTATAGAAGGAATCTGTATC
536752 GGAGGGGTACAAGTCCCAGAGATAAAAGGTTAGGCTATAGAAGGAATCTGTATC
1 GGAGGGGTACAAGTCCCAGAGATAAAAGGTTAGGCTATAGAAGGAATCTGTATC
536806 G
1 G
536807 NNNNNNNNNN
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.20
Consensus pattern (54 bp):
GGAGGGGTACAAGTCCCAGAGATAAAAGGTTAGGCTATAGAAGGAATCTGTATC
Found at i:537089 original size:54 final size:54
Alignment explanation
Indices: 537007--537562 Score: 1031
Period size: 54 Copynumber: 10.3 Consensus size: 54
536997 GACGAAACTG
537007 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
1 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
537061 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
1 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
* *
537115 AGGAGGAATCTGTATCGGAGGGGTACAAGTTCCAGAGATAAAAGGTTAGGCTAT
1 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
537169 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
1 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
* *
537223 AGGAGGAATCTGTATCGGAGGGGTACAAGTTCCAGAGATAAAAGGTTAGGCTAT
1 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
* *
537277 AGAAGGAATCTGTATCGGAGGGGTACAAGTCCCAGAGATAAAAGGTTAGGCTAT
1 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
* *
537331 AGGAGGAATCTGTATCGGAGGGGTACAAGTTCCAGAGATAAAAGGTTAGGCTAT
1 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
*
537385 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCCGAGATAAAAGGTTAGGCTAT
1 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
537439 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
1 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
537493 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
1 AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
537547 AGGAGGAATCTGTATC
1 AGGAGGAATCTGTATC
537563 CTTCCTACCA
Statistics
Matches: 488, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 488 1.00
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (54 bp):
AGGAGGAATCTGTATCGGAGGGGGACAAGTCCCAGAGATAAAAGGTTAGGCTAT
Found at i:538934 original size:31 final size:31
Alignment explanation
Indices: 538899--538985 Score: 165
Period size: 31 Copynumber: 2.8 Consensus size: 31
538889 TTACTGTGAT
*
538899 ACTGATATTAATGTACAAAATTTACGGGGAC
1 ACTGATATTAATGTACAAAATTTACAGGGAC
538930 ACTGATATTAATGTACAAAATTTACAGGGAC
1 ACTGATATTAATGTACAAAATTTACAGGGAC
538961 ACTGATATTAATGTACAAAATTTAC
1 ACTGATATTAATGTACAAAATTTAC
538986 TGGCCAGTGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (31 bp):
ACTGATATTAATGTACAAAATTTACAGGGAC
Found at i:539064 original size:34 final size:34
Alignment explanation
Indices: 539024--539222 Score: 289
Period size: 34 Copynumber: 6.0 Consensus size: 34
539014 ACAGTCATGT
*
539024 AATTACAGAGGTGTTGATATTAAAGTACATGTAA
1 AATTACAGAGGTGCTGATATTAAAGTACATGTAA
*
539058 AATTACAGAGGTGTTGATATTAAAGTACATGTAA
1 AATTACAGAGGTGCTGATATTAAAGTACATGTAA
539092 AATTACAGAGGTGCTGATATTAAAGTACATGTAA
1 AATTACAGAGGTGCTGATATTAAAGTACATGTAA
* *
539126 GATTACAGAGGTGCTGATATTAAAGTACTTGT--
1 AATTACAGAGGTGCTGATATTAAAGTACATGTAA
* * *
539158 AATTACTGAGGTGTTGATATTAAAGTACTTGT--
1 AATTACAGAGGTGCTGATATTAAAGTACATGTAA
* *
539190 AATTACAGAAGTGCTGATATTAATGTACATGTA
1 AATTACAGAGGTGCTGATATTAAAGTACATGTA
539223 TTTGTGTTTG
Statistics
Matches: 153, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
32 56 0.37
34 97 0.63
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.34
Consensus pattern (34 bp):
AATTACAGAGGTGCTGATATTAAAGTACATGTAA
Found at i:547788 original size:43 final size:42
Alignment explanation
Indices: 547740--547866 Score: 164
Period size: 43 Copynumber: 3.2 Consensus size: 42
547730 GGGAAAACAA
547740 ATTACAATAGGTAGTGATTCATACAGTCCATATAACGACATAC
1 ATTACAATAGGTAGTGATTCATACAGTCCATATAA-GACATAC
*
547783 ATTACAATAGGCAGTGATTCAT--A---C--AT--GACATAC
1 ATTACAATAGGTAGTGATTCATACAGTCCATATAAGACATAC
547816 ATTACAATAGGTAGTGATTCATACAGTCCATATAATGACATAC
1 ATTACAATAGGTAGTGATTCATACAGTCCATATAA-GACATAC
547859 ATTACAAT
1 ATTACAAT
547867 TGGAATAATA
Statistics
Matches: 72, Mismatches: 2, Indels: 20
0.77 0.02 0.21
Matches are distributed among these distances:
33 28 0.39
35 1 0.01
36 2 0.03
38 2 0.03
40 2 0.03
41 1 0.01
43 36 0.50
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (42 bp):
ATTACAATAGGTAGTGATTCATACAGTCCATATAAGACATAC
Found at i:547818 original size:33 final size:33
Alignment explanation
Indices: 547776--547840 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
547766 TCCATATAAC
547776 GACATACATTACAATAGGCAGTGATTCATACAT
1 GACATACATTACAATAGGCAGTGATTCATACAT
*
547809 GACATACATTACAATAGGTAGTGATTCATACA
1 GACATACATTACAATAGGCAGTGATTCATACA
547841 GTCCATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (33 bp):
GACATACATTACAATAGGCAGTGATTCATACAT
Found at i:548221 original size:30 final size:30
Alignment explanation
Indices: 548187--548652 Score: 491
Period size: 30 Copynumber: 15.0 Consensus size: 30
548177 GATAGTAAGT
*
548187 ACCACATTGTGGTGGTGGTGGTGTTTTGTG
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
* *
548217 ACCACACTGTTGTGGTGGTGATGTTTTGTG
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
*
548247 ACCACACTGTGGTGGTAGTGGTGTTTTGTG
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
*
548277 ACCACACTGTGGTGGTAGTGGTGTTTTGTG
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
*
548307 ACCACAC-----T-GTGGTGGTGTTTTGTT
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
*
548331 ACCACATTGTGGTGGTGGTGGTGTTTTGTG
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
548361 ACCACACTGTGGTGGTGATGGTGGTGGTGTTTTGTG
1 ACCACAC--T-GT-G-G-TGGTGGTGGTGTTTTGTG
*
548397 ACCACACTGTGGTGGTAGTGGTGTTTTGTG
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
*
548427 ACCACACTGTGGTGGTAGTGGTGTTTTGTG
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
*
548457 ACCACACTGTGGTGGTGGTTGTGGTGGTGGTGGTGTTTTG
1 ACCACAC--T-GTGGT-G--GTGGTGGT-GT--T-TTGTG
** *
548497 -TGAC-CATACT-GTGGTGGTAGTGGTGTTTTGTG
1 ACCACAC-T-GTGGTGGT-G--GTGGTGTTTTGTG
* * *
548529 ACCATACTGTGGTGGTAGTGGTGTTTTGAG
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
*
548559 ACCACACTGTGGTGGTAGTGGTGTTTTGTG
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
548589 ACCACACTGTGGTGGTGGTGGTGGTATTTTGTG
1 ACCACACTGTGGTGGTGGTGGT-G--TTTTGTG
*
548622 ACCACACTGTTGTGGTGGTGGTGTTTTGTG
1 ACCACACTGTGGTGGTGGTGGTGTTTTGTG
548652 A
1 A
548653 TGTTGTATCA
Statistics
Matches: 375, Mismatches: 30, Indels: 62
0.80 0.06 0.13
Matches are distributed among these distances:
24 20 0.05
25 1 0.00
29 1 0.00
30 235 0.63
31 2 0.01
32 9 0.02
33 47 0.13
34 5 0.01
35 4 0.01
36 39 0.10
37 4 0.01
38 1 0.00
39 3 0.01
40 4 0.01
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (30 bp):
ACCACACTGTGGTGGTGGTGGTGTTTTGTG
Found at i:548262 original size:60 final size:60
Alignment explanation
Indices: 548187--548652 Score: 575
Period size: 60 Copynumber: 7.5 Consensus size: 60
548177 GATAGTAAGT
* * * *
548187 ACCACATTGTGGTGGTGGTGGTGTTTTGTGACCACACTGTTGTGGTGGTGATGTTTTGTG
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGTTTTGTG
*
548247 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTAGTGGTGTTTTGTG
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGTTTTGTG
* *
548307 ACCACAC--T-GT-G--GTGGTGTTTTGTTACCACATTGTGGTGGTGGTGGTGTTTTGTG
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGTTTTGTG
*
548361 ACCACACTGTGGTGGTGATGGTGGTGGTGTTTTGTGACCACACTGTGGTGGTAGTGGTGTTTTGT
1 ACCACACTGTGGTGGT-A-----GTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGTTTTGT
548426 G
60 G
548427 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTTGTGGTGGTGGTGGTG
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACAC------------TGTGGTGGTGGTGGTG
548492 TTTTGTG
54 TTTTGTG
* * * *
548499 ACCATACTGTGGTGGTAGTGGTGTTTTGTGACCATACTGTGGTGGTAGTGGTGTTTTGAG
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGTTTTGTG
548559 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGGTATTTTGTG
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGT-G--TTTTGTG
* *
548622 ACCACACTGTTGTGGTGGTGGTGTTTTGTGA
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGA
548653 TGTTGTATCA
Statistics
Matches: 357, Mismatches: 22, Indels: 51
0.83 0.05 0.12
Matches are distributed among these distances:
54 47 0.13
56 2 0.01
57 4 0.01
58 2 0.01
60 152 0.43
61 1 0.00
63 35 0.10
65 1 0.00
66 56 0.16
72 57 0.16
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (60 bp):
ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGTTTTGTG
Found at i:548318 original size:21 final size:23
Alignment explanation
Indices: 548294--548347 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
548284 TGTGGTGGTA
548294 GTGGTGTTTTGTGACCACACTGTG
1 GTGGTGTTTTGTGACCACAC-GTG
* *
548318 GTGGTGTTTTGTTACCACATTGTG
1 GTGGTGTTTTGTGACCACA-CGTG
548342 GTGGTG
1 GTGGTG
548348 GTGGTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.11, C:0.13, G:0.35, T:0.41
Consensus pattern (23 bp):
GTGGTGTTTTGTGACCACACGTG
Found at i:548520 original size:39 final size:41
Alignment explanation
Indices: 548435--548521 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 41
548425 TGACCACACT
*
548435 GTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTT
1 GTGGTGGTAGTGGTGTTTTGTGACCACAC-GTGGTGGTGGTA
* *
548477 GTGGTGGTGGTGGTGTTTTGTGACCATAC-T-GTGGTGGTA
1 GTGGTGGTAGTGGTGTTTTGTGACCACACGTGGTGGTGGTA
548516 GTGGTG
1 GTGGTG
548522 TTTTGTGACC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 14 0.33
40 1 0.02
42 27 0.64
ACGTcount: A:0.09, C:0.08, G:0.45, T:0.38
Consensus pattern (41 bp):
GTGGTGGTAGTGGTGTTTTGTGACCACACGTGGTGGTGGTA
Found at i:548644 original size:132 final size:129
Alignment explanation
Indices: 548187--548643 Score: 566
Period size: 132 Copynumber: 3.7 Consensus size: 129
548177 GATAGTAAGT
* * *
548187 ACCACATTGTGGTGGTGGTGGTGTTTTGTGACCACACTGT--T-GTGGTGGTGATGTTTTGTGAC
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGGTGTTTTGTGAC
548249 CACAC-----T-GTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTAGTGGTGTTTTGTG
66 CACACTGTGGTGGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTAGTGGTGTTTTGTG
*
548307 ACCACAC--T-GT-G--GTGGTGTTTTGTTACCACA-T-T-GTGGTGGTGGTGGTGTTTTGTGAC
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGGTGTTTTGTGAC
* *
548363 CACACTGTGGTGGTGATGGTGGTGGTGTTTTGTGACCACACTGTGGTGGTAGTGGTGTTTTGTG
66 CACACTGTGGTGGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTAGTGGTGTTTTGTG
548427 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTTGTGGTGGTGGTGGTG
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACAC-----T-GT-G--GTGGTGGTGGTGGTG
* *
548492 TTTTGTGACCATAC-----T-GTGGTGGTAGTGGTGTTTTGTGACCATACTGTGGTGGTAGTGGT
57 TTTTGTGACCACACTGTGGTGGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTAGTGGT
*
548551 GTTTTGAG
122 GTTTTGTG
*
548559 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGGTATTTTGTGAC
1 ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGGTGTTTTGTGAC
*
548624 CACACTGTTGTGGTGGTGGT
66 CACACTGTGGTGGTGGTGGT
548644 GTTTTGTGAT
Statistics
Matches: 292, Mismatches: 13, Indels: 55
0.81 0.04 0.15
Matches are distributed among these distances:
112 1 0.00
113 2 0.01
114 43 0.15
116 1 0.00
117 2 0.01
118 1 0.00
119 1 0.00
120 63 0.22
122 1 0.00
123 29 0.10
124 1 0.00
125 1 0.00
126 20 0.07
127 1 0.00
128 1 0.00
129 8 0.03
132 86 0.29
133 1 0.00
134 1 0.00
138 28 0.10
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (129 bp):
ACCACACTGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTGGTGGTGGTGTTTTGTGAC
CACACTGTGGTGGTGGTGGTAGTGGTGTTTTGTGACCACACTGTGGTGGTAGTGGTGTTTTGTG
Found at i:549488 original size:13 final size:13
Alignment explanation
Indices: 549470--549514 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
549460 GTATGTTCAA
549470 TGTATTGATGTGT
1 TGTATTGATGTGT
549483 TGTATTG-TGTGT
1 TGTATTGATGTGT
549495 TGTATT-AGTGTGT
1 TGTATTGA-TGTGT
549508 TGTATTG
1 TGTATTG
549515 TAGGTTGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (13 bp):
TGTATTGATGTGT
Found at i:551574 original size:47 final size:47
Alignment explanation
Indices: 551505--551613 Score: 209
Period size: 47 Copynumber: 2.3 Consensus size: 47
551495 CGAATTGAGC
551505 ATGATAATCCTCATACCCCCACTGGATGGGGGCTGGATAAGGTAATT
1 ATGATAATCCTCATACCCCCACTGGATGGGGGCTGGATAAGGTAATT
*
551552 ATGATAATCCTCATACCCCCACTGGATGGTGGCTGGATAAGGTAATT
1 ATGATAATCCTCATACCCCCACTGGATGGGGGCTGGATAAGGTAATT
551599 ATGATAATCCTCATA
1 ATGATAATCCTCATA
551614 NNNNNNNNNN
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
ATGATAATCCTCATACCCCCACTGGATGGGGGCTGGATAAGGTAATT
Found at i:552828 original size:2 final size:2
Alignment explanation
Indices: 552821--552857 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
552811 NNNNNNNNNN
552821 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
552858 TTAAACGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:553256 original size:135 final size:133
Alignment explanation
Indices: 552951--554038 Score: 890
Period size: 135 Copynumber: 8.4 Consensus size: 133
552941 ATTGTGTTTC
* * * * * ** * ***
552951 ACAGACCAATGAAATCAAGTATCATATAATCACAGCCCCATTGTAATAGACCTTTAAAAATTTTA
1 ACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAACAGACCAAT-GAAATCAAA
* * * * *
553016 TGTCTAATAGACACAGCCCCATTGTAACAGACCTATAAAAATTTAATGTCTAATAGA-CACAGCC
65 TGTCT-ATA-ACACAGACCCATTGTAACAGACCAAT-GAAATTAAATGTCTAATA-ATCACAGAC
553080 CCATTGTA
126 CCATTGTA
** * * *
553088 ACAGACCAATGAAATTTAGTGT-CTAATAGTCACAGACCCATTGTAACAGACCAATGAAATTAAA
1 ACAGACCAATGAAATCAATTGTCCT-ATAATCACAGACCCATTGTAACAGACCAATGAAATCAAA
*
553152 TGTCTAATAGAGACAGACCCATTGTAACAGACCAATGAAA-TAAATTGTCCT-ATAATCACAGAC
65 TGTCT-ATA-ACACAGACCCATTGTAACAGACCAATGAAATTAAA-TGT-CTAATAATCACAGAC
553215 CCATTGTA
126 CCATTGTA
* * ** **
553223 ACAGACCAATGAAATAAATTGTCCTATAATCACAGACCCATTGTAATAGACTTATGAAATTTAAT
1 ACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAACAGACCAATGAAATCAAAT
* * * * * *
553288 GTTTAATAGTCACAGTCCCATTGTAAAAGACCAATGAAATCAAGTGTCCT-ATAATCACAGACCC
66 GTCT-ATA-ACACAGACCCATTGTAACAGACCAATGAAATTAAATGT-CTAATAATCACAGACCC
553352 ATTGTA
128 ATTGTA
* *
553358 ACAGACCAATGAAATCAATTGT--TCT-AT---------A---TAACAGACCAATGAAATCAATT
1 ACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAACAGACCAATGAAATCAAAT
* *
553408 GTCCTATAATCACAGACCCATTGTAATAGACCAATGAAATTAAATGTCTAATAATCATAGACCCA
66 GT-CTATAA-CACAGACCCATTGTAACAGACCAATGAAATTAAATGTCTAATAATCACAGACCCA
553473 TTGTA
129 TTGTA
* * *
553478 AAAGACCAATGAAATCAAGTGTCCTATAATCACAGACCCATTGTAACAGACCAATGAAATCAATT
1 ACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAACAGACCAATGAAATCAAAT
* * *
553543 GTCCTAT-----------A---TAACAGATCAATGAAATCAATTGTCCT-ATAATCACAGACCCA
66 GT-CTATAACACAGACCCATTGTAACAGACCAATGAAATTAAATGT-CTAATAATCACAGACCCA
553593 TTGTA
129 TTGTA
* * * * * * *
553598 ATAGACCAACGAAATTAAATGT-CTAATAATCATAGACCCATTGTAAAAGACCAATGAAATCAAT
1 ACAGACCAATGAAATCAATTGTCCT-ATAATCACAGACCCATTGTAACAGACCAATGAAATCAAA
* * * * **
553662 TGCCCTATAATCATAGACCCATTGTAAAAGACCAATGAAATCAGTTGTCCT-ATAATCACAGACC
65 TG-TCTATAA-CACAGACCCATTGTAACAGACCAATGAAATTAAATGT-CTAATAATCACAGACC
553726 CATTGTA
127 CATTGTA
*
553733 ACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAACAGACCAATGAAATCAACT
1 ACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAACAGACCAATGAAATCAAAT
* * *
553798 GTCCTATAATCGCAGACCCATTGTAAAAGACCAATGAAATTAAATGTCTAATAATCATAGACCCA
66 GT-CTATAA-CACAGACCCATTGTAACAGACCAATGAAATTAAATGTCTAATAATCACAGACCCA
553863 TTGTA
129 TTGTA
* * * * ** * * * *
553868 ACAGTCCTATGAAATTTAA-AG-CCT-TAATCATGGACCCATTATAAC--A--AATCAAGT---G
1 ACAGACCAATGAAA-TCAATTGTCCTATAATCACAGACCCATTGTAACAGACCAATGAAATCAAA
* * ** *
553923 TGT-TATAA-TCAG-CCCATTGTAACTGACCAACAAAATTAAATGTCTAATAATCACATACCCAT
65 TGTCTATAACACAGACCCATTGTAACAGACCAATGAAATTAAATGTCTAATAATCACAGACCCAT
553985 TGTA
130 TGTA
* * * *
553989 ACAGACCAAAGAAATCAATTGTTCTATACTCACAGACCCACTGTAACAGA
1 ACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAACAGA
554039 TCAGTAACAT
Statistics
Matches: 792, Mismatches: 108, Indels: 114
0.78 0.11 0.11
Matches are distributed among these distances:
119 4 0.01
120 196 0.25
121 63 0.08
122 7 0.01
123 20 0.03
124 5 0.01
125 1 0.00
126 3 0.00
129 6 0.01
131 1 0.00
132 4 0.01
133 20 0.03
134 9 0.01
135 358 0.45
136 51 0.06
137 44 0.06
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (133 bp):
ACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAACAGACCAATGAAATCAAAT
GTCTATAACACAGACCCATTGTAACAGACCAATGAAATTAAATGTCTAATAATCACAGACCCATT
GTA
Found at i:553373 original size:45 final size:44
Alignment explanation
Indices: 552951--554038 Score: 463
Period size: 45 Copynumber: 24.1 Consensus size: 44
552941 ATTGTGTTTC
* * *
552951 ACAGACCAATGAAATCAAGTATCATATAATCACAGCCCCATTGTA
1 ACAGACCAATGAAATCAA-TGTCCTATAATCACAGACCCATTGTA
* ** * ** *
552996 ATAGACCTTTAAAAATTTTATGT-CTAATAGA-CACAGCCCCATTGTA
1 ACAGACCAAT-GAAA-TCAATGTCCT-ATA-ATCACAGACCCATTGTA
* * * *
553042 ACAGACCTATAAAAATTTAATGT-CTAATAGA-CACAGCCCCATTGTA
1 ACAGACCAAT-GAAA-TCAATGTCCT-ATA-ATCACAGACCCATTGTA
* * *
553088 ACAGACCAATGAAATTTAGTGT-CTAATAGTCACAGACCCATTGTA
1 ACAGACCAATGAAA-TCAATGTCCT-ATAATCACAGACCCATTGTA
* *
553133 ACAGACCAATGAAATTAAATGT-CTAATAGA-GACAGACCCATTGTA
1 ACAGACCAATGAAA-TCAATGTCCT-ATA-ATCACAGACCCATTGTA
*
553178 ACAGACCAATGAAATAAATTGTCCTATAATCACAGACCCATTGTA
1 ACAGACCAATGAAATCAA-TGTCCTATAATCACAGACCCATTGTA
*
553223 ACAGACCAATGAAATAAATTGTCCTATAATCACAGACCCATTGTA
1 ACAGACCAATGAAATCAA-TGTCCTATAATCACAGACCCATTGTA
* ** * * * *
553268 ATAGACTTATGAAATTTAATGT-TTAATAGTCACAGTCCCATTGTA
1 ACAGACCAATGAAA-TCAATGTCCT-ATAATCACAGACCCATTGTA
*
553313 AAAGACCAATGAAATCAAGTGTCCTATAATCACAGACCCATTGTA
1 ACAGACCAATGAAATCAA-TGTCCTATAATCACAGACCCATTGTA
* * * *
553358 ACAGACCAATGAAATCAATTGTTCTAT-ATAACAGA-CCAATGAA
1 ACAGACCAATGAAATCAA-TGTCCTATAATCACAGACCCATTGTA
* * * * ** * * *
553401 ATCAATTGTCCTAT--AATCACA-GACCCATTGTAATAGA-CCAATGAAATTA
1 A-C-A--GACCAATGAAATCA-ATGTCCTATAATCACAGACCCATTG----TA
* * * * ** * * * *
553450 A-ATGTCTAAT--AATC-ATAGACCCATTGTAAAAGA-CCAATGAA
1 ACA-GACCAATGAAATCAAT-GTCCTATAATCACAGACCCATTGTA
* * * * ** * * *
553491 ATCAAGTGTCCTAT--AATCACA-GACCCATTGTAACAGA-CCAATGAA
1 A-C-A--GACCAATGAAATCA-ATGTCCTATAATCACAGACCCATTGTA
*
553536 ATCAATTGTCCTATATAACAGATCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTA
1 A-C-A--GACC-A-AT----GA--AA-----TCAA-TGTCCTATAATCACAGACCCATTGTA
* * * *
553598 ATAGACCAACGAAATTAAATGT-CTAATAATCATAGACCCATTGTA
1 ACAGACCAATGAAA-TCAATGTCCT-ATAATCACAGACCCATTGTA
* * *
553643 AAAGACCAATGAAATCAATTGCCCTATAATCATAGACCCATTGTA
1 ACAGACCAATGAAATCAA-TGTCCTATAATCACAGACCCATTGTA
* *
553688 AAAGACCAATGAAATCAGTTGTCCTATAATCACAGACCCATTGTA
1 ACAGACCAATGAAATCA-ATGTCCTATAATCACAGACCCATTGTA
553733 ACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTA
1 ACAGACCAATGAAATCAA-TGTCCTATAATCACAGACCCATTGTA
*
553778 ACAGACCAATGAAATCAACTGTCCTATAATCGCAGACCCATTGTA
1 ACAGACCAATGAAATCAA-TGTCCTATAATCACAGACCCATTGTA
* * *
553823 AAAGACCAATGAAATTAAATGT-CTAATAATCATAGACCCATTGTA
1 ACAGACCAATGAAA-TCAATGTCCT-ATAATCACAGACCCATTGTA
* * * * ** *
553868 ACAGTCCTATGAAATTTAAAG-CCT-TAATCATGGACCCATTATA
1 ACAGACCAATGAAA-TCAATGTCCTATAATCACAGACCCATTGTA
* * *
553911 AC--A--AATCAAGT--GTGT--TATAAT--CAG-CCCATTGTA
1 ACAGACCAATGAAATCAATGTCCTATAATCACAGACCCATTGTA
* ** * *
553944 ACTGACCAACAAAATTAAATGT-CTAATAATCACATACCCATTGTA
1 ACAGACCAATGAAA-TCAATGTCCT-ATAATCACAGACCCATTGTA
* * * *
553989 ACAGACCAAAGAAATCAATTGTTCTATACTCACAGACCCACTGTA
1 ACAGACCAATGAAATCAA-TGTCCTATAATCACAGACCCATTGTA
554034 ACAGA
1 ACAGA
554039 TCAGTAACAT
Statistics
Matches: 856, Mismatches: 114, Indels: 146
0.77 0.10 0.13
Matches are distributed among these distances:
33 10 0.01
34 1 0.00
35 2 0.00
36 5 0.01
37 4 0.00
38 2 0.00
39 4 0.00
40 3 0.00
41 3 0.00
42 5 0.01
43 27 0.03
44 34 0.04
45 616 0.72
46 93 0.11
47 11 0.01
49 2 0.00
50 2 0.00
52 2 0.00
55 2 0.00
56 1 0.00
57 1 0.00
58 3 0.00
59 1 0.00
60 4 0.00
61 11 0.01
62 7 0.01
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (44 bp):
ACAGACCAATGAAATCAATGTCCTATAATCACAGACCCATTGTA
Found at i:553390 original size:30 final size:31
Alignment explanation
Indices: 553356--553425 Score: 115
Period size: 30 Copynumber: 2.3 Consensus size: 31
553346 AGACCCATTG
*
553356 TAACAGACCAATGAAATCAATTGTTCTAT-A
1 TAACAGACCAATGAAATCAATTGTCCTATAA
553386 TAACAGACCAATGAAATCAATTGTCCTATAA
1 TAACAGACCAATGAAATCAATTGTCCTATAA
*
553417 TCACAGACC
1 TAACAGACC
553426 CATTGTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
30 28 0.76
31 9 0.24
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (31 bp):
TAACAGACCAATGAAATCAATTGTCCTATAA
Found at i:553400 original size:165 final size:165
Alignment explanation
Indices: 553221--554038 Score: 936
Period size: 165 Copynumber: 4.9 Consensus size: 165
553211 AGACCCATTG
* ** *
553221 TAACAGACCAATGAAATAAATTGTCCTATAATCACAGACCCATTGTAATAGACTTATGAAATTTA
1 TAACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAATAGACCAATGAAATTAA
* * *
553286 ATGTTTAATAGTCACAGTCCCATTGTAAAAGACCAATGAAATCAAGTGTCCTATAATCACAGACC
66 ATGTCTAATAATCACAGACCCATTGTAAAAGACCAATGAAATCAAGTGTCCTATAATCACAGACC
553351 CATTGTAACAGACCAATGAAATCAATTGTTCTATA
131 CATTGTAACAGACCAATGAAATCAATTGTTCTATA
553386 TAACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAATAGACCAATGAAATTAA
1 TAACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAATAGACCAATGAAATTAA
*
553451 ATGTCTAATAATCATAGACCCATTGTAAAAGACCAATGAAATCAAGTGTCCTATAATCACAGACC
66 ATGTCTAATAATCACAGACCCATTGTAAAAGACCAATGAAATCAAGTGTCCTATAATCACAGACC
*
553516 CATTGTAACAGACCAATGAAATCAATTGTCCTATA
131 CATTGTAACAGACCAATGAAATCAATTGTTCTATA
* *
553551 TAACAGATCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAATAGACCAACGAAATTAA
1 TAACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAATAGACCAATGAAATTAA
* * * *
553616 ATGTCTAATAATCATAGACCCATTGTAAAAGACCAATGAAATCAATTGCCCTATAATCATAGACC
66 ATGTCTAATAATCACAGACCCATTGTAAAAGACCAATGAAATCAAGTGTCCTATAATCACAGACC
* * *
553681 CATTGTAAAAGACCAATGAAATCAGTTGTCCTATAATCACAGACCCA
131 CATTGTAACAGACCAATGAAATCAATTGT--TCT-AT---------A
*
553728 TTGTAACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAACAGACCAATGAAAT
1 ---TAACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAATAGACCAATGAAAT
* * * * * *
553793 CAACTGTCCT-ATAATCGCAGACCCATTGTAAAAGACCAATGAAATTAAATGT-CTAATAATCAT
63 TAAATGT-CTAATAATCACAGACCCATTGTAAAAGACCAATGAAATCAAGTGTCCT-ATAATCAC
* * * * *
553856 AGACCCATTGTAACAGTCCTATGAAATTTAA-AG-CCT-TA
126 AGACCCATTGTAACAGACCAATGAAA-TCAATTGTTCTATA
* * * ** *
553894 -ATCATGGACCCATTATAACAAATCAAGTGTGTTATAAT--CAG-CCCATTGTAACT-GACCAAC
1 TAACA--GA-CCA--AT--GAAATCAATTGTCCTATAATCACAGACCCATTGTAA-TAGACCAAT
* * * * * * *
553954 AAAATTAAATGTCTAATAATCACATACCCATTGTAACAGACCAAAGAAATCAATTGTTCTATACT
58 GAAATTAAATGTCTAATAATCACAGACCCATTGTAAAAGACCAATGAAATCAAGTGTCCTATAAT
*
554019 CACAGACCCACTGTAACAGA
123 CACAGACCCATTGTAACAGA
554039 TCAGTAACAT
Statistics
Matches: 569, Mismatches: 56, Indels: 55
0.84 0.08 0.08
Matches are distributed among these distances:
162 3 0.01
164 2 0.00
165 313 0.55
166 83 0.15
167 8 0.01
168 2 0.00
169 16 0.03
175 1 0.00
177 2 0.00
179 2 0.00
180 133 0.23
181 4 0.01
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (165 bp):
TAACAGACCAATGAAATCAATTGTCCTATAATCACAGACCCATTGTAATAGACCAATGAAATTAA
ATGTCTAATAATCACAGACCCATTGTAAAAGACCAATGAAATCAAGTGTCCTATAATCACAGACC
CATTGTAACAGACCAATGAAATCAATTGTTCTATA
Found at i:553555 original size:30 final size:31
Alignment explanation
Indices: 553521--553590 Score: 115
Period size: 30 Copynumber: 2.3 Consensus size: 31
553511 AGACCCATTG
553521 TAACAGACCAATGAAATCAATTGTCCTAT-A
1 TAACAGACCAATGAAATCAATTGTCCTATAA
*
553551 TAACAGATCAATGAAATCAATTGTCCTATAA
1 TAACAGACCAATGAAATCAATTGTCCTATAA
*
553582 TCACAGACC
1 TAACAGACC
553591 CATTGTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 28 0.78
31 8 0.22
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (31 bp):
TAACAGACCAATGAAATCAATTGTCCTATAA
Found at i:564060 original size:56 final size:56
Alignment explanation
Indices: 563975--564091 Score: 218
Period size: 56 Copynumber: 2.1 Consensus size: 56
563965 GGAAAAAAAA
563975 AATAATAAGAAACAGTACGAAAACTATAAGGTCTTCCGTTGGAAACGGAAGACCTT
1 AATAATAAGAAACAGTACGAAAACTATAAGGTCTTCCGTTGGAAACGGAAGACCTT
564031 AATAATAAGAAATC-GTACGAAAACTATAAGGTCTTCCGTTGGAAACGGAAGACCTT
1 AATAATAAGAAA-CAGTACGAAAACTATAAGGTCTTCCGTTGGAAACGGAAGACCTT
564087 AATAA
1 AATAA
564092 ATAATCATCA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 59 0.98
57 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (56 bp):
AATAATAAGAAACAGTACGAAAACTATAAGGTCTTCCGTTGGAAACGGAAGACCTT
Found at i:568879 original size:55 final size:55
Alignment explanation
Indices: 568795--569278 Score: 887
Period size: 55 Copynumber: 8.8 Consensus size: 55
568785 TTGGCACCTT
*
568795 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTGTA
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
568850 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
568905 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
*
568960 TAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTGATATACCCACACTGTA
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
569015 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
* *
569070 TAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTGATATACCCACATTGTA
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
*
569125 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACAGTGTA
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
* * *
569180 TAGCTTAGTGCTGATACCTAAACTATGAGAGACTGTCTGATATACCCACAGTGTA
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
*
569235 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATA
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATA
569279 GCTCAGTGCT
Statistics
Matches: 417, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 417 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (55 bp):
TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
Found at i:568988 original size:110 final size:110
Alignment explanation
Indices: 568795--569709 Score: 1532
Period size: 110 Copynumber: 8.4 Consensus size: 110
568785 TTGGCACCTT
*
568795 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
568860 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
568905 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
*
568970 CTGATACTTAAACTATGACAGACTGTCTGATATACCCACACTGTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
569015 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
* *
569080 CTGATACTTAAACTATGACAGACTGTCTGATATACCCACATTGTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
* *
569125 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACAGTGTATAGCTTAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
* *
569190 CTGATACCTAAACTATGAGAGACTGTCTGATATACCCACAGTGTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
569235 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTC---T-T------A---TATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
*
569287 CTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTGTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
* *
569332 TAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
* *
569397 CTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTGTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
* *
569442 TAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
* *
569507 CTTATACTTAAACTATGACAGACTGTCTGATATATATACCCACACTGTA
66 CTGATACCTAAACTATGACAGACTGTCTG----ATATACCCACACTGTA
*
569556 TAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
569621 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
*
569666 TAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTGATATA
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATA
569710 GCTCAGTGCT
Statistics
Matches: 769, Mismatches: 19, Indels: 34
0.94 0.02 0.04
Matches are distributed among these distances:
97 89 0.12
100 2 0.00
101 1 0.00
106 1 0.00
107 2 0.00
110 567 0.74
114 107 0.14
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (110 bp):
TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTA
Found at i:569067 original size:165 final size:165
Alignment explanation
Indices: 568795--569709 Score: 1541
Period size: 165 Copynumber: 5.6 Consensus size: 165
568785 TTGGCACCTT
*
568795 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
*
568860 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTGCTGATACCTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTGCTGATACTTA
568925 AACTATGACAGACTGTCTGATATACCCACACTGTA
131 AACTATGACAGACTGTCTGATATACCCACACTGTA
*
568960 TAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
569025 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTGCTGATACTTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTGCTGATACTTA
*
569090 AACTATGACAGACTGTCTGATATACCCACATTGTA
131 AACTATGACAGACTGTCTGATATACCCACACTGTA
* *
569125 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACAGTGTATAGCTTAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
* * *
569190 CTGATACCTAAACTATGAGAGACTGTCTGATATACCCACAGTGTATAGCTCAGTGCTGATACCTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTGCTGATACTTA
569255 AACTATGACAGACTGTC---T-T------A---TA
131 AACTATGACAGACTGTCTGATATACCCACACTGTA
*
569277 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
* *
569342 CTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAGTGCTGATACTTA
66 CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTGCTGATACTTA
*
569407 AACTATGACAGACTGTCTTATATACCCACACTGTA
131 AACTATGACAGACTGTCTGATATACCCACACTGTA
* *
569442 TAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
* *
569507 CTTATACTTAAACTATGACAGACTGTCTGATATATATACCCACACTGTATAGCTCAGTGCTGATA
66 CTGATACCTAAACTATGACAGACTGTCTG----ATATACCCACACTGTATAGCTCAGTGCTGATA
569572 CTTAAACTATGACAGACTGTCTGATATACCCACACTGTA
127 CTTAAACTATGACAGACTGTCTGATATACCCACACTGTA
569611 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
1 TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
*
569676 CTGATACTTAAACTATGACAGACTGTCTGATATA
66 CTGATACCTAAACTATGACAGACTGTCTGATATA
569710 GCTCAGTGCT
Statistics
Matches: 708, Mismatches: 25, Indels: 34
0.92 0.03 0.04
Matches are distributed among these distances:
152 141 0.20
155 2 0.00
156 1 0.00
161 1 0.00
162 2 0.00
165 400 0.56
169 161 0.23
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (165 bp):
TAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTG
CTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAGTGCTGATACTTA
AACTATGACAGACTGTCTGATATACCCACACTGTA
Found at i:569292 original size:42 final size:42
Alignment explanation
Indices: 569233--569320 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
569223 ACCCACAGTG
569233 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTA
1 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTA
569275 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTA
1 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTA
569317 TATA
1 TATA
569321 CCCACACTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (42 bp):
TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTA
Found at i:569355 original size:55 final size:55
Alignment explanation
Indices: 569275--569709 Score: 780
Period size: 55 Copynumber: 7.8 Consensus size: 55
569265 GACTGTCTTA
*
569275 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTG
1 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTG
569330 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTG
1 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTG
569385 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTG
1 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTG
569440 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTG
1 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTG
*
569495 TATAGCTCAGTGCTTATACTTAAACTATGACAGACTGTCTGATATATATACCCACACTG
1 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTC---T-TATATACCCACACTG
*
569554 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTGATATACCCACACTG
1 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTG
* *
569609 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTG
1 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTG
*
569664 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTGATATA
1 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATA
569710 GCTCAGTGCT
Statistics
Matches: 370, Mismatches: 6, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
55 315 0.85
56 1 0.00
58 1 0.00
59 53 0.14
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (55 bp):
TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTG
Found at i:569595 original size:26 final size:26
Alignment explanation
Indices: 569566--569707 Score: 76
Period size: 27 Copynumber: 5.2 Consensus size: 26
569556 TAGCTCAGTG
*
569566 CTGATACTTAAACTATGACAGACTGT
1 CTGATACCTAAACTATGACAGACTGT
* * * *
569592 CTGATATACCCACACTGT-ATAG-CTCAGT
1 CTG--ATACCTAAACTATGACAGACT--GT
569620 GCTGATACCTAAACTATGACAGACTGT
1 -CTGATACCTAAACTATGACAGACTGT
* * * *
569647 CTGATATACCCACACTGT-ATAG-CTCAGT
1 CTG--ATACCTAAACTATGACAGACT--GT
*
569675 GCTGATACTTAAACTATGACAGACTGT
1 -CTGATACCTAAACTATGACAGACTGT
569702 CTGATA
1 CTGATA
569708 TAGCTCAGTG
Statistics
Matches: 84, Mismatches: 18, Indels: 28
0.65 0.14 0.22
Matches are distributed among these distances:
26 16 0.19
27 29 0.35
28 29 0.35
29 10 0.12
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (26 bp):
CTGATACCTAAACTATGACAGACTGT
Found at i:569623 original size:169 final size:169
Alignment explanation
Indices: 569275--569709 Score: 806
Period size: 169 Copynumber: 2.6 Consensus size: 169
569265 GACTGTCTTA
569275 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAG
1 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAG
569340 TGCTGATACTTAAACTATGACAGACTGTC---T-TATATACCCACACTGTATAGCTCAGTGCTGA
66 TGCTGATACTTAAACTATGACAGACTGTCTGATATATATACCCACACTGTATAGCTCAGTGCTGA
*
569401 TACTTAAACTATGACAGACTGTCTTATATACCCACACTG
131 TACTTAAACTATGACAGACTGTCTGATATACCCACACTG
*
569440 TATAGCTCAGTGCTGATACTTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAG
1 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAG
*
569505 TGCTTATACTTAAACTATGACAGACTGTCTGATATATATACCCACACTGTATAGCTCAGTGCTGA
66 TGCTGATACTTAAACTATGACAGACTGTCTGATATATATACCCACACTGTATAGCTCAGTGCTGA
569570 TACTTAAACTATGACAGACTGTCTGATATACCCACACTG
131 TACTTAAACTATGACAGACTGTCTGATATACCCACACTG
*
569609 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTGATATACCCACACTGTATAGCTCAG
1 TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAG
569674 TGCTGATACTTAAACTATGACAGACTGTCTGATATA
66 TGCTGATACTTAAACTATGACAGACTGTCTGATATA
569710 GCTCAGTGCT
Statistics
Matches: 260, Mismatches: 6, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
165 92 0.35
168 1 0.00
169 167 0.64
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (169 bp):
TATAGCTCAGTGCTGATACCTAAACTATGACAGACTGTCTTATATACCCACACTGTATAGCTCAG
TGCTGATACTTAAACTATGACAGACTGTCTGATATATATACCCACACTGTATAGCTCAGTGCTGA
TACTTAAACTATGACAGACTGTCTGATATACCCACACTG
Found at i:569625 original size:29 final size:29
Alignment explanation
Indices: 569540--569681 Score: 97
Period size: 27 Copynumber: 5.1 Consensus size: 29
569530 TGTCTGATAT
569540 ATATACCCACACTGTATAGCTCAGTGCTG
1 ATATACCCACACTGTATAGCTCAGTGCTG
** * * *
569569 --ATACTTAAACTATGACAGACT--GT-CTG
1 ATATACCCACACTGT-ATAG-CTCAGTGCTG
569595 ATATACCCACACTGTATAGCTCAGTGCTG
1 ATATACCCACACTGTATAGCTCAGTGCTG
* * * *
569624 --ATACCTAAACTATGACAGACT--GT-CTG
1 ATATACCCACACTGT-ATAG-CTCAGTGCTG
569650 ATATACCCACACTGTATAGCTCAGTGCTG
1 ATATACCCACACTGTATAGCTCAGTGCTG
569679 ATA
1 ATA
569682 CTTAAACTAT
Statistics
Matches: 81, Mismatches: 18, Indels: 28
0.64 0.14 0.22
Matches are distributed among these distances:
26 10 0.12
27 29 0.36
28 29 0.36
29 13 0.16
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (29 bp):
ATATACCCACACTGTATAGCTCAGTGCTG
Done.