Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold257
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: 1615106
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 208026 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:582336 original size:24 final size:24
Alignment explanation
Indices: 582304--582351 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
582294 ATCATTAATA
582304 TACTAAATCATTTATATACTAAAT
1 TACTAAATCATTTATATACTAAAT
*
582328 TACTGAATCATTTATATACTAAAT
1 TACTAAATCATTTATATACTAAAT
582352 CATTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (24 bp):
TACTAAATCATTTATATACTAAAT
Found at i:582345 original size:40 final size:40
Alignment explanation
Indices: 582288--582367 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
582278 ATCATTTATA
582288 TACTGAATCATTAATATACTAAATCATTTATATACTAAAT
1 TACTGAATCATTAATATACTAAATCATTTATATACTAAAT
*
582328 TACTGAATCATTTATATACTAAATCATTTATATACTAAAT
1 TACTGAATCATTAATATACTAAATCATTTATATACTAAAT
582368 CATTTATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (40 bp):
TACTGAATCATTAATATACTAAATCATTTATATACTAAAT
Found at i:582363 original size:56 final size:56
Alignment explanation
Indices: 582272--582383 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
582262 ATCATTTGTA
*
582272 TACTAAATCATTTATATACTGAATCATTAATATACTAAATCATTTATATACTAAAT
1 TACTAAATCATTTATATACTAAATCATTAATATACTAAATCATTTATATACTAAAT
* *
582328 TACTGAATCATTTATATACTAAATCATTTATATACTAAATCATTTATATACTAAAT
1 TACTAAATCATTTATATACTAAATCATTAATATACTAAATCATTTATATACTAAAT
582384 CATTGATGGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (56 bp):
TACTAAATCATTTATATACTAAATCATTAATATACTAAATCATTTATATACTAAAT
Found at i:592023 original size:2 final size:2
Alignment explanation
Indices: 592016--592064 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
592006 CGGAGGGATG
592016 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
592058 CT CT CT C
1 CT CT CT C
592065 ACACACACAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:592069 original size:2 final size:2
Alignment explanation
Indices: 592064--592105 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
592054 CTCTCTCTCT
* *
592064 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA AA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
592106 TAACCAACCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:593302 original size:2 final size:2
Alignment explanation
Indices: 593297--593365 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
593287 GTATATATAT
593297 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
593339 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
593366 GTGCAAGAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:595996 original size:2 final size:2
Alignment explanation
Indices: 595989--596028 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
595979 TTTTGAAATG
595989 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
596029 TAAATATTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:597940 original size:2 final size:2
Alignment explanation
Indices: 597933--597959 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
597923 TTGATTGGAG
597933 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
597960 AAATTCTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:597971 original size:3 final size:3
Alignment explanation
Indices: 597963--598108 Score: 278
Period size: 3 Copynumber: 49.3 Consensus size: 3
597953 CTCTCTCAAA
597963 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
598011 TTC TTC TTC -TC TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
598057 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
598105 TTC T
1 TTC T
598109 NNNNNNNNNN
Statistics
Matches: 141, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
2 4 0.03
3 137 0.97
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:615121 original size:24 final size:24
Alignment explanation
Indices: 615085--615157 Score: 128
Period size: 24 Copynumber: 3.0 Consensus size: 24
615075 CTTTCCTCTG
*
615085 CGTCCGTCAGTCCGTCTGTCCGTC
1 CGTCCGTCAGTCCGTCTGTCTGTC
*
615109 CGTCCGTCCGTCCGTCTGTCTGTC
1 CGTCCGTCAGTCCGTCTGTCTGTC
615133 CGTCCGTCAGTCCGTCTGTCTGTC
1 CGTCCGTCAGTCCGTCTGTCTGTC
615157 C
1 C
615158 CTTTTCAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.03, C:0.41, G:0.25, T:0.32
Consensus pattern (24 bp):
CGTCCGTCAGTCCGTCTGTCTGTC
Found at i:615156 original size:4 final size:4
Alignment explanation
Indices: 615085--615148 Score: 83
Period size: 4 Copynumber: 16.0 Consensus size: 4
615075 CTTTCCTCTG
* * * *
615085 CGTC CGTC AGTC CGTC TGTC CGTC CGTC CGTC CGTC CGTC TGTC TGTC
1 CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC
*
615133 CGTC CGTC AGTC CGTC
1 CGTC CGTC CGTC CGTC
615149 TGTCTGTCCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.03, C:0.42, G:0.25, T:0.30
Consensus pattern (4 bp):
CGTC
Found at i:621010 original size:21 final size:21
Alignment explanation
Indices: 620986--621028 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
620976 CCTTAATTTT
620986 TTTTCCATCTACTCCTTTATG
1 TTTTCCATCTACTCCTTTATG
*
621007 TTTTCCGTCTACTCCTTTATG
1 TTTTCCATCTACTCCTTTATG
621028 T
1 T
621029 CCTGTTGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.12, C:0.28, G:0.07, T:0.53
Consensus pattern (21 bp):
TTTTCCATCTACTCCTTTATG
Found at i:628069 original size:21 final size:21
Alignment explanation
Indices: 628051--628110 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
628041 CTTCATTATT
628051 TGATGATACTTCAACATTACA
1 TGATGATACTTCAACATTACA
* *
628072 TGCTGATACTTTAACATTACA
1 TGATGATACTTCAACATTACA
* * *
628093 TGCTGATATTTTAACATT
1 TGATGATACTTCAACATT
628111 GTATGGGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (21 bp):
TGATGATACTTCAACATTACA
Found at i:628179 original size:21 final size:21
Alignment explanation
Indices: 628153--628223 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
628143 CTTTATCATG
*
628153 AAGTATCATCATGTAATGTTA
1 AAGTATCAGCATGTAATGTTA
* * *
628174 AAGTATAAGCATGTTATATTA
1 AAGTATCAGCATGTAATGTTA
* * *
628195 AAATATCAGCGTGTAATGTTG
1 AAGTATCAGCATGTAATGTTA
628216 AAGTATCA
1 AAGTATCA
628224 TCATATTATG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.35
Consensus pattern (21 bp):
AAGTATCAGCATGTAATGTTA
Found at i:637906 original size:2 final size:2
Alignment explanation
Indices: 637899--637946 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
637889 TTAAAATGCG
637899 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
637941 CT CT CT
1 CT CT CT
637947 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:638374 original size:1 final size:1
Alignment explanation
Indices: 638368--638400 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
638358 NNNNNNTTGT
638368 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
638401 AGTCGCTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:643949 original size:1 final size:1
Alignment explanation
Indices: 643943--643981 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
643933 GATCGTTATC
643943 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
643982 TTGACAGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:655779 original size:13 final size:13
Alignment explanation
Indices: 655761--655786 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
655751 TGCGTTTGGA
655761 ATAGAATTATTTT
1 ATAGAATTATTTT
655774 ATAGAATTATTTT
1 ATAGAATTATTTT
655787 TTTAAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATAGAATTATTTT
Found at i:661799 original size:16 final size:13
Alignment explanation
Indices: 661766--661790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
661756 CAGGGATGGG
661766 GTAATGGTAATTT
1 GTAATGGTAATTT
661779 GTAATGGTAATT
1 GTAATGGTAATT
661791 GAGTGTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
GTAATGGTAATTT
Found at i:662947 original size:37 final size:33
Alignment explanation
Indices: 662866--662937 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
662856 TAAATTTTGA
662866 TGAAAATGTAATTTGTAATTTAATTAATTACATC
1 TGAAAATGTAA-TTGTAATTTAATTAATTACATC
* *
662900 TGCAAA-GTAATTGTAATTTAATTAATTACATT
1 TGAAAATGTAATTGTAATTTAATTAATTACATC
662932 TGAAAA
1 TGAAAA
662938 CTCTTGTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 26 0.74
33 4 0.11
34 5 0.14
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.42
Consensus pattern (33 bp):
TGAAAATGTAATTGTAATTTAATTAATTACATC
Found at i:663771 original size:1 final size:1
Alignment explanation
Indices: 663767--663796 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
663757 TTTTGGAAAA
663767 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
663797 TCGGAACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:671124 original size:14 final size:14
Alignment explanation
Indices: 671102--671133 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
671092 GGTTTGCCAA
671102 TGCTAATCAAAAGC
1 TGCTAATCAAAAGC
*
671116 TGCTGATCAAAAGC
1 TGCTAATCAAAAGC
671130 TGCT
1 TGCT
671134 TAAAAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (14 bp):
TGCTAATCAAAAGC
Found at i:671470 original size:13 final size:13
Alignment explanation
Indices: 671440--671464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
671430 ATCAATATCG
671440 ATTTTATGTAAAA
1 ATTTTATGTAAAA
671453 ATTTTATGTAAA
1 ATTTTATGTAAA
671465 TTTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
ATTTTATGTAAAA
Found at i:674744 original size:180 final size:180
Alignment explanation
Indices: 674342--674759 Score: 440
Period size: 183 Copynumber: 2.3 Consensus size: 180
674332 GGCTCTCATA
* *
674342 AAAAAGGCGTTAATGAGGTCAAAATGGCGATTCAAAATGG-GAGACAGCCAGATTACAAGATTCT
1 AAAATGGCGTTAAT-AGGTCAAAATGGCGATTCAAAATGGCG-GACAGCCAGATTTCAAGATTCT
* **
674406 TTCATTAAGTATCTTTGATGGATAAAAAAAATAACGATTAACAATCATTATTCGATCAAACATAG
64 TTCATTAAGTATCTTTGATGGATAAAAAAAATAAAGACAAACAATCATTATTCGATCAAACATAG
* * * *
674471 TTTTTGTCATAATTGGGGTGTAATGAGTCCAAAAATATATGCTGAACCTAAC
129 TTTTTGTCATAATTGGAGTGTAATAAGTCCAAAAACACATGCTGAACCTAAC
* * * * **
674523 AAAATGGTCGTACAATTAGGTCAAAATGGC-AATCAAAAATGGCGGACAGTCAGATTTTAATCTT
1 AAAATGG-CGT-TAA-TAGGTCAAAATGGCGATTC-AAAATGGCGGACAGCCAGATTTCAAGATT
* * * *
674587 TTTTC-TTGAAGTATCTTTGATTGG-TAAAATAAATAAAGACAAACATTCA-T-TT-GATGC-AG
62 CTTTCATT-AAGTATCTTTGA-TGGATAAAAAAAATAAAGACAAACAATCATTATTCGAT-CAAA
* * * * *
674646 CATAGTATTTTGTCATAATTGGAGTG-AGCTAAGTCCGAAGACACATGCTGGACCTAAT
124 CATAGT-TTTTGTCATAATTGGAGTGTA-ATAAGTCCAAAAACACATGCTGAACCTAAC
674704 ACAAATGGCGTTAAGTAGGTCAAAATGGCGATTCAAAATGGCGGACAGCCAGATTT
1 A-AAATGGCGTTAA-TAGGTCAAAATGGCGATTCAAAATGGCGGACAGCCAGATTT
674760 GTCCTAAGGT
Statistics
Matches: 197, Mismatches: 28, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
180 48 0.24
181 56 0.28
182 15 0.08
183 73 0.37
184 5 0.03
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (180 bp):
AAAATGGCGTTAATAGGTCAAAATGGCGATTCAAAATGGCGGACAGCCAGATTTCAAGATTCTTT
CATTAAGTATCTTTGATGGATAAAAAAAATAAAGACAAACAATCATTATTCGATCAAACATAGTT
TTTGTCATAATTGGAGTGTAATAAGTCCAAAAACACATGCTGAACCTAAC
Found at i:704555 original size:59 final size:58
Alignment explanation
Indices: 704391--704747 Score: 333
Period size: 54 Copynumber: 6.3 Consensus size: 58
704381 CCGCTGAGAG
* * *
704391 CGGAAAACCTTAATAAAAAG--AAACATTACAATCACTATAAGGTCTTCCGTTGGAAA
1 CGGAAGACCTTAATAAAAAGAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAA
* *
704447 CGGAAGACCTTAAT---AA-AAAAACATTACAATCACTATAAGGTCTTCCGTTGGAAA
1 CGGAAGACCTTAATAAAAAGAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAA
704501 CGGAAGACCTTAATAAGAAAGAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAA
1 CGGAAGACCTTAATAA-AAAGAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAA
704560 CGGAAGACC-T--T----A-AAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAA
1 CGGAAGACCTTAATAAAAAGAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAA
*
704610 CGGAAGACCTAAATAAGAAAGAAAGAAAGAAAAAACCTAACAATCACTATAAGGTCTTCCGTTGG
1 CGGAAGACCT---T----AA-TAA-AAAG-AAAAACCTAACAATCACTATAAGGTCTTCCGTTGG
704675 AAA
56 AAA
*** * * * * *
704678 CCTTA-A---TAATAATAAGAAACA-GT-ACGAA-AACAATAAGGTCTTCCGTTGGAAA
1 CGGAAGACCTTAATAAAAAGAAAAACCTAAC-AATCACTATAAGGTCTTCCGTTGGAAA
704730 CGGAAGACCTTAATAAAA
1 CGGAAGACCTTAATAAAA
704748 TGGGACAATT
Statistics
Matches: 254, Mismatches: 17, Indels: 60
0.77 0.05 0.18
Matches are distributed among these distances:
50 47 0.19
51 1 0.00
52 26 0.10
53 6 0.02
54 55 0.22
55 3 0.01
56 23 0.09
57 2 0.01
58 3 0.01
59 45 0.18
61 1 0.00
66 1 0.00
67 1 0.00
68 40 0.16
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (58 bp):
CGGAAGACCTTAATAAAAAGAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAA
Found at i:704567 original size:113 final size:112
Alignment explanation
Indices: 704391--704745 Score: 415
Period size: 109 Copynumber: 3.1 Consensus size: 112
704381 CCGCTGAGAG
* * *
704391 CGGAAAACCTTAATAA-AAAG--AAACATTACAATCACTATAAGGTCTTCCGTTGGAAACGGAAG
1 CGGAAGACCTTAATAAGAAAGAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAACGGAAG
704453 ACCTTAATAAAAAAACATTACAATCACTATAAGGTCTTCCGTTGGAAA
66 ACC-TAATAAAAAAACATTACAATCACTATAAGGTCTTCCGTTGGAAA
704501 CGGAAGACCTTAATAAGAAAGAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAACGGAAG
1 CGGAAGACCTTAATAAGAAAGAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAACGGAAG
* *
704566 ACCT--T-AAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAA
66 ACCTAATAAAAAAACATTACAATCACTATAAGGTCTTCCGTTGGAAA
*
704610 CGGAAGACCTAAATAAGAAAGAAAGAAAGAAAAAACCTAACAATCACTATAAGGTCTTCCGTTGG
1 CGGAAGACCT---T----AA-TAAGAAAG-AAAAACCTAACAATCACTATAAGGTCTTCCGTTGG
*** * * *
704675 AAACCTTA-A--TAATAATAAGAAACAGTACGAA-AACAATAAGGTCTTCCGTTGGAAA
57 AAACGGAAGACCTAATAA-AA-AAACATTAC-AATCACTATAAGGTCTTCCGTTGGAAA
704730 CGGAAGACCTTAATAA
1 CGGAAGACCTTAATAA
704746 AATGGGACAA
Statistics
Matches: 212, Mismatches: 15, Indels: 34
0.81 0.06 0.13
Matches are distributed among these distances:
109 47 0.22
110 16 0.08
111 4 0.02
112 4 0.02
113 45 0.21
115 1 0.00
116 2 0.01
117 10 0.05
118 41 0.19
119 2 0.01
120 38 0.18
121 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (112 bp):
CGGAAGACCTTAATAAGAAAGAAAAACCTAACAATCACTATAAGGTCTTCCGTTGGAAACGGAAG
ACCTAATAAAAAAACATTACAATCACTATAAGGTCTTCCGTTGGAAA
Found at i:704596 original size:50 final size:53
Alignment explanation
Indices: 704418--704619 Score: 302
Period size: 50 Copynumber: 3.7 Consensus size: 53
704408 AAGAAACATT
* *
704418 ACAATCACTATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAAAAAAACATT
1 ACAATCACTATAAGGTCTTCCGTTGGAAACGGAAGACCTT-ATAAAAAAACCTA
704472 ACAATCACTATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATAAGAAAGAAAAACCTA
1 ACAATCACTATAAGGTCTTCCGTTGGAAACGGAAGACCTT-AT----AA-AAAAACCTA
704531 ACAATCACTATAAGGTCTTCCGTTGGAAACGGAAGACC-T-T-AAAAAACCTA
1 ACAATCACTATAAGGTCTTCCGTTGGAAACGGAAGACCTTATAAAAAAACCTA
704581 ACAATCACTATAAGGTCTTCCGTTGGAAACGGAAGACCT
1 ACAATCACTATAAGGTCTTCCGTTGGAAACGGAAGACCT
704620 AAATAAGAAA
Statistics
Matches: 140, Mismatches: 2, Indels: 15
0.89 0.01 0.10
Matches are distributed among these distances:
50 47 0.34
51 1 0.01
54 43 0.31
56 1 0.01
58 3 0.02
59 45 0.32
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (53 bp):
ACAATCACTATAAGGTCTTCCGTTGGAAACGGAAGACCTTATAAAAAAACCTA
Found at i:712808 original size:8 final size:8
Alignment explanation
Indices: 712795--712846 Score: 68
Period size: 8 Copynumber: 6.5 Consensus size: 8
712785 TTTCTTCTGC
*
712795 GTCCGTCA
1 GTCCGTCT
*
712803 GTCCGTCC
1 GTCCGTCT
*
712811 GTCTGTCT
1 GTCCGTCT
712819 GTCCGTCT
1 GTCCGTCT
712827 GTCCGTCT
1 GTCCGTCT
*
712835 GTCTGTCT
1 GTCCGTCT
712843 GTCC
1 GTCC
712847 CACTTCAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.02, C:0.37, G:0.25, T:0.37
Consensus pattern (8 bp):
GTCCGTCT
Found at i:712811 original size:12 final size:12
Alignment explanation
Indices: 712794--712846 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
712784 CTTTCTTCTG
*
712794 CGTCCGTCAGTC
1 CGTCCGTCTGTC
712806 CGTCCGTCTGTC
1 CGTCCGTCTGTC
*
712818 TGTCCGTCTGTC
1 CGTCCGTCTGTC
*
712830 CGTCTGTCTGTC
1 CGTCCGTCTGTC
*
712842 TGTCC
1 CGTCC
712847 CACTTCAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.02, C:0.38, G:0.25, T:0.36
Consensus pattern (12 bp):
CGTCCGTCTGTC
Found at i:712838 original size:4 final size:4
Alignment explanation
Indices: 712811--712845 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
712801 CAGTCCGTCC
* *
712811 GTCT GTCT GTCC GTCT GTCC GTCT GTCT GTCT GTC
1 GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTC
712846 CCACTTCAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.26, T:0.43
Consensus pattern (4 bp):
GTCT
Found at i:715370 original size:2 final size:2
Alignment explanation
Indices: 715365--715389 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
715355 TTAAATGTAT
715365 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
715390 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:717558 original size:2 final size:2
Alignment explanation
Indices: 717551--717603 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
717541 AAACTATCTA
717551 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
717593 TC TC TC TC TC T
1 TC TC TC TC TC T
717604 TATTGTGATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:719555 original size:2 final size:2
Alignment explanation
Indices: 719548--719574 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
719538 CATGCTAGAC
719548 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
719575 NAAAGAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:720690 original size:16 final size:15
Alignment explanation
Indices: 720671--720710 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
720661 TCTTTTGGGA
720671 GTTTTGTTGTTTGTTT
1 GTTTTGTT-TTTGTTT
720687 GTTTTGTTTTTGTTT
1 GTTTTGTTTTTGTTT
720702 -TTTT-TTTTT
1 GTTTTGTTTTT
720711 AGATTATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.21
14 4 0.17
15 7 0.29
16 8 0.33
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (15 bp):
GTTTTGTTTTTGTTT
Found at i:723029 original size:47 final size:47
Alignment explanation
Indices: 722978--723316 Score: 425
Period size: 47 Copynumber: 7.2 Consensus size: 47
722968 TTTACTGTTC
722978 TCTGTTGTGTCTGTGATGTCACAGAAGTGACTAGACAATGACCGTTG
1 TCTGTTGTGTCTGTGATGTCACAGAAGTGACTAGACAATGACCGTTG
*
723025 TCTGTTGTGTCTGTGATGTCACAGAAGTGACTCGACAATGACCGTTG
1 TCTGTTGTGTCTGTGATGTCACAGAAGTGACTAGACAATGACCGTTG
* *
723072 TCTGTTGTGTCTGTGATGTCACAGAAATGACTAGACAATGACGGTTG
1 TCTGTTGTGTCTGTGATGTCACAGAAGTGACTAGACAATGACCGTTG
* *
723119 TCTGTTGTGTCTGTGATGTCACAGAAGTGACTAGACAA-CAGCCTTTG
1 TCTGTTGTGTCTGTGATGTCACAGAAGTGACTAGACAATGA-CCGTTG
* * * **
723166 TCTGTTGTGTCTGTGATGTCACAGATA-TGATTAAACAA-CAGCTTTTG
1 TCTGTTGTGTCTGTGATGTCACAGA-AGTGACTAGACAATGA-CCGTTG
* * * * * **
723213 TCTGTTGTGTTTTTGATGTCACAGAAGTGATTAAACAA-CAGCTTTTG
1 TCTGTTGTGTCTGTGATGTCACAGAAGTGACTAGACAATGA-CCGTTG
* * * *
723260 TCTTTTGTGTGTGTGACGTCACAGACGTGACTAGACAATGACCGTTG
1 TCTGTTGTGTCTGTGATGTCACAGAAGTGACTAGACAATGACCGTTG
723307 TCTGTTGTGT
1 TCTGTTGTGT
723317 ATGTTTAATT
Statistics
Matches: 264, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.01
47 260 0.98
48 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (47 bp):
TCTGTTGTGTCTGTGATGTCACAGAAGTGACTAGACAATGACCGTTG
Found at i:725834 original size:32 final size:32
Alignment explanation
Indices: 725799--726180 Score: 541
Period size: 32 Copynumber: 11.9 Consensus size: 32
725789 TCAGTAAAAA
* * * *
725799 GTCAAGTTACACAGTCAGTAACGTTGTAAACA
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
725831 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
725863 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
725895 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
*
725927 GTCAAGTTAGACAGTCAGTAATGTTGTAGACC
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
* * * * *
725959 GCCAAGTTACACAGCCAGTAATGTTGTAAACA
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
* *
725991 GCCAAGTTACACAGTCAGTAATGTTGTAGACT
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
726023 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
* *
726055 GTCAAGTTAGACAGTCAGTAATGTTGTAAACA
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
* *
726087 GTCAAGTTACACGGTCAGTAATGTTGTAGACT
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
* *
726119 GTCAAGTTAAACAGTCAGTAATGTTTTAGAC-
1 GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
* ** * *
726150 GGCTAAGTCGGACGGTCAATAATGTTGTAGA
1 GTC-AAGTTAGACAGTCAGTAATGTTGTAGA
726181 AAGTCATCTT
Statistics
Matches: 318, Mismatches: 31, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
31 2 0.01
32 316 0.99
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (32 bp):
GTCAAGTTAGACAGTCAGTAATGTTGTAGACT
Found at i:726058 original size:19 final size:19
Alignment explanation
Indices: 726004--726058 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
725994 AAGTTACACA
726004 GTCAGTAATGTTGTAGACT
1 GTCAGTAATGTTGTAGACT
*
726023 GTC---AA-G-T-TAGACA
1 GTCAGTAATGTTGTAGACT
726036 GTCAGTAATGTTGTAGACT
1 GTCAGTAATGTTGTAGACT
726055 GTCA
1 GTCA
726059 AGTTAGACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
13 8 0.29
14 1 0.04
15 1 0.04
16 4 0.14
17 1 0.04
18 1 0.04
19 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (19 bp):
GTCAGTAATGTTGTAGACT
Found at i:728138 original size:19 final size:19
Alignment explanation
Indices: 728114--728151 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
728104 ATCATAGAAT
728114 TTGGACAGTCAGTTATACA
1 TTGGACAGTCAGTTATACA
*
728133 TTGGACAGTCAGTTGTACA
1 TTGGACAGTCAGTTATACA
728152 ACCTAAACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (19 bp):
TTGGACAGTCAGTTATACA
Found at i:728180 original size:17 final size:17
Alignment explanation
Indices: 728160--728257 Score: 63
Period size: 17 Copynumber: 5.4 Consensus size: 17
728150 CAACCTAAAC
*
728160 AGTCAGAAATATAACTT
1 AGTCAGCAATATAACTT
** *
728177 AGTCAGTTATACAACTT
1 AGTCAGCAATATAACTT
728194 AGACAGTCAGCAATATAACTT
1 ----AGTCAGCAATATAACTT
**
728215 AGTCAGTTATA-AACTT
1 AGTCAGCAATATAACTT
728231 AGACAGTCAGCAATATAACTT
1 ----AGTCAGCAATATAACTT
728252 AGTCAG
1 AGTCAG
728258 TTATACAACT
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
16 5 0.08
17 29 0.47
20 9 0.15
21 19 0.31
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (17 bp):
AGTCAGCAATATAACTT
Found at i:728184 original size:38 final size:38
Alignment explanation
Indices: 728139--728278 Score: 237
Period size: 38 Copynumber: 3.7 Consensus size: 38
728129 TACATTGGAC
* * * *
728139 AGTCAGTTGTACAACCTAAACAGTCAGAAATATAACTT
1 AGTCAGTTATACAACTTAGACAGTCAGCAATATAACTT
728177 AGTCAGTTATACAACTTAGACAGTCAGCAATATAACTT
1 AGTCAGTTATACAACTTAGACAGTCAGCAATATAACTT
728215 AGTCAGTTATA-AACTTAGACAGTCAGCAATATAACTT
1 AGTCAGTTATACAACTTAGACAGTCAGCAATATAACTT
728252 AGTCAGTTATACAACTTAGACAGTCAG
1 AGTCAGTTATACAACTTAGACAGTCAG
728279 TCATACACAG
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
37 37 0.38
38 60 0.62
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (38 bp):
AGTCAGTTATACAACTTAGACAGTCAGCAATATAACTT
Found at i:728246 original size:75 final size:76
Alignment explanation
Indices: 728139--728278 Score: 237
Period size: 75 Copynumber: 1.9 Consensus size: 76
728129 TACATTGGAC
*
728139 AGTCAGTTGTACAACCTAAACAGTCAGAAATATAACTTAGTCAGTTATACAACTTAGACAGTCAG
1 AGTCAGTTATACAACCTAAACAGTCAGAAATATAACTTAGTCAGTTATACAACTTAGACAGTCAG
728204 CAATATAACTT
66 CAATATAACTT
* * *
728215 AGTCAGTTATA-AACTTAGACAGTCAGCAATATAACTTAGTCAGTTATACAACTTAGACAGTCAG
1 AGTCAGTTATACAACCTAAACAGTCAGAAATATAACTTAGTCAGTTATACAACTTAGACAGTCAG
728279 TCATACACAG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
75 50 0.83
76 10 0.17
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (76 bp):
AGTCAGTTATACAACCTAAACAGTCAGAAATATAACTTAGTCAGTTATACAACTTAGACAGTCAG
CAATATAACTT
Found at i:728267 original size:17 final size:17
Alignment explanation
Indices: 728172--728275 Score: 66
Period size: 17 Copynumber: 5.7 Consensus size: 17
728162 TCAGAAATAT
728172 AACTTAGTCAGTTATAC
1 AACTTAGTCAGTTATAC
** *
728189 AACTTAGACAGTCAGCAATAT
1 AACTT----AGTCAGTTATAC
728210 AACTTAGTCAGTTATA-
1 AACTTAGTCAGTTATAC
** *
728226 AACTTAGACAGTCAGCAATAT
1 AACTT----AGTCAGTTATAC
728247 AACTTAGTCAGTTATAC
1 AACTTAGTCAGTTATAC
*
728264 AACTTAGACAGT
1 AACTTAGTCAGT
728276 CAGTCATACA
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
16 5 0.07
17 34 0.51
20 9 0.13
21 19 0.28
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (17 bp):
AACTTAGTCAGTTATAC
Found at i:728276 original size:21 final size:21
Alignment explanation
Indices: 728117--728285 Score: 107
Period size: 21 Copynumber: 8.8 Consensus size: 21
728107 ATAGAATTTG
*
728117 GACAGTCAGTTATAC-A-TTG
1 GACAGTCAGTTATACAACTTA
* *
728136 GACAGTCAGTTGTACAACCTA
1 GACAGTCAGTTATACAACTTA
* ** *
728157 AACAGTCAGAAATATAACTT-
1 GACAGTCAGTTATACAACTTA
728177 ---AGTCAGTTATACAACTTA
1 GACAGTCAGTTATACAACTTA
** *
728195 GACAGTCAGCAATATAACTT-
1 GACAGTCAGTTATACAACTTA
728215 ---AGTCAGTTATA-AACTTA
1 GACAGTCAGTTATACAACTTA
** *
728232 GACAGTCAGCAATATAACTT-
1 GACAGTCAGTTATACAACTTA
728252 ---AGTCAGTTATACAACTTA
1 GACAGTCAGTTATACAACTTA
*
728270 GACAGTCAGTCATACA
1 GACAGTCAGTTATACA
728286 CAGTCGGTTA
Statistics
Matches: 112, Mismatches: 23, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
16 5 0.04
17 37 0.33
19 14 0.12
20 10 0.09
21 46 0.41
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (21 bp):
GACAGTCAGTTATACAACTTA
Found at i:728507 original size:21 final size:21
Alignment explanation
Indices: 728354--728732 Score: 226
Period size: 21 Copynumber: 18.0 Consensus size: 21
728344 TAGTCATTTT
*
728354 TACAACTTAGAAAGTCAGTTA
1 TACAACTTAGACAGTCAGTTA
* * * *
728375 CATAAATTAGACAGTGAGTTA
1 TACAACTTAGACAGTCAGTTA
* * * * *
728396 TTCAACTAAGCCAATCAGTTT
1 TACAACTTAGACAGTCAGTTA
* *
728417 TACAACTTACA-ATGTCAGTAA
1 TACAACTTAGACA-GTCAGTTA
* * * **
728438 AATAACTTAGACAGTCTGCGA
1 TACAACTTAGACAGTCAGTTA
* **
728459 TATAACTTAGACAG-CTAGCAA
1 TACAACTTAGACAGTC-AGTTA
* *
728480 TATAACTTAGACAGTCATTTA
1 TACAACTTAGACAGTCAGTTA
*
728501 TACAACTTAGACAGTCAGTTG
1 TACAACTTAGACAGTCAGTTA
* *
728522 TACAACTTAGACAGACACTTATA
1 TACAACTTAGACAGTCA-GT-TA
*
728545 TACAACTT-GAAAAGTCAGTTA
1 TACAACTTAG-ACAGTCAGTTA
** *
728566 CTTGAA-TTACACAGTCAGTTA
1 -TACAACTTAGACAGTCAGTTA
* * *
728587 TTCGACTTAGAAAGTCAGTTA
1 TACAACTTAGACAGTCAGTTA
** * * * *
728608 TTTAACCTAAACATTCAGTTT
1 TACAACTTAGACAGTCAGTTA
* * *
728629 TACAACTTATACAATCAGTAA
1 TACAACTTAGACAGTCAGTTA
* * **
728650 TATAACTTAGAAAGTCAGCAA
1 TACAACTTAGACAGTCAGTTA
* *
728671 TATAACTTAGACAGTCAGTTG
1 TACAACTTAGACAGTCAGTTA
*
728692 TACAACTTAGACAGTCAGTTG
1 TACAACTTAGACAGTCAGTTA
**
728713 TTTAACTTAGACAGTCAGTT
1 TACAACTTAGACAGTCAGTT
728733 TTGTGTTGCA
Statistics
Matches: 272, Mismatches: 76, Indels: 20
0.74 0.21 0.05
Matches are distributed among these distances:
20 5 0.02
21 245 0.90
22 8 0.03
23 14 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (21 bp):
TACAACTTAGACAGTCAGTTA
Found at i:729847 original size:19 final size:19
Alignment explanation
Indices: 729823--730191 Score: 567
Period size: 19 Copynumber: 19.1 Consensus size: 19
729813 ATACCCCGGT
729823 CATAGTACATTACTATATA
1 CATAGTACATTACTATATA
729842 CATAGTACATTACTATATA
1 CATAGTACATTACTATATA
*
729861 CATAGAACATTACTATATA
1 CATAGTACATTACTATATA
729880 CATAGTACATTACTATATA
1 CATAGTACATTACTATATA
729899 CATAGTACATTACTATATA
1 CATAGTACATTACTATATA
*
729918 CATAGAACATTACTATATA
1 CATAGTACATTACTATATA
729937 CATAGTACATTACTATATA
1 CATAGTACATTACTATATA
*
729956 CATAGAACATTACTATATA
1 CATAGTACATTACTATATA
729975 CCCCGGTCATAGTACATTACTATATA
1 -------CATAGTACATTACTATATA
730001 CATAGTACATTACTATATA
1 CATAGTACATTACTATATA
*
730020 CATAGAACATTACTATATA
1 CATAGTACATTACTATATA
730039 CATAGTACATTACTATATA
1 CATAGTACATTACTATATA
* *
730058 CATAGAACATTACTATACA
1 CATAGTACATTACTATATA
*
730077 CATAGAACATTACTATATA
1 CATAGTACATTACTATATA
*
730096 CATAGAACATTACTATATA
1 CATAGTACATTACTATATA
*
730115 CATAGAACATTACTATATA
1 CATAGTACATTACTATATA
*
730134 CATTGTACATTACTATATA
1 CATAGTACATTACTATATA
* *
730153 CATAGAACATGACTATATA
1 CATAGTACATTACTATATA
730172 CATAGTACATTACTATATA
1 CATAGTACATTACTATATA
730191 C
1 C
730192 CCCGGTCCTA
Statistics
Matches: 325, Mismatches: 18, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
19 307 0.94
26 18 0.06
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (19 bp):
CATAGTACATTACTATATA
Found at i:730021 original size:12 final size:12
Alignment explanation
Indices: 729982--730191 Score: 64
Period size: 12 Copynumber: 16.6 Consensus size: 12
729972 ATACCCCGGT
729982 CATAGTACAT-TA
1 CATA-TACATATA
729994 CTATATACATAGTA
1 C-ATATACATA-TA
730008 CAT-TACTATATA
1 CATATAC-ATATA
*
730020 CATAGAACAT-TA
1 CATA-TACATATA
730032 CTATATACATAGTA
1 C-ATATACATA-TA
730046 CAT-TACTATATA
1 CATATAC-ATATA
*
730058 CATAGAACAT-TA
1 CATA-TACATATA
* *
730070 CTATACACATAGAA
1 C-ATATACATA-TA
730084 CAT-TACTATATA
1 CATATAC-ATATA
*
730096 CATAGAACAT-TA
1 CATA-TACATATA
*
730108 CTATATACATAGAA
1 C-ATATACATA-TA
730122 CAT-TACTATATA
1 CATATAC-ATATA
*
730134 CATTGTACAT-TA
1 CA-TATACATATA
*
730146 CTATATACATAGAA
1 C-ATATACATA-TA
*
730160 CAT-GACTATATA
1 CATATAC-ATATA
730172 CATAGTACAT-TA
1 CATA-TACATATA
730184 CTATATAC
1 C-ATATAC
730192 CCCGGTCCTA
Statistics
Matches: 151, Mismatches: 16, Indels: 62
0.66 0.07 0.27
Matches are distributed among these distances:
12 76 0.50
13 52 0.34
14 23 0.15
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (12 bp):
CATATACATATA
Found at i:730047 original size:7 final size:6
Alignment explanation
Indices: 729982--730191 Score: 64
Period size: 7 Copynumber: 33.2 Consensus size: 6
729972 ATACCCCGGT
*
729982 CATAGTA CAT-TA CTATATA CATAGTA CAT-TA CTATATA CATAGAA CAT-TA
1 CATA-TA CATATA C-ATATA CATA-TA CATATA C-ATATA CATA-TA CATATA
* * *
730032 CTATATA CATAGTA CAT-TA CTATATA CATAGAA CAT-TA CTATACA CATAGAA
1 C-ATATA CATA-TA CATATA C-ATATA CATA-TA CATATA C-ATATA CATA-TA
* *
730084 CAT-TA CTATATA CATAGAA CAT-TA CTATATA CATAGAA CAT-TA CTATATA
1 CATATA C-ATATA CATA-TA CATATA C-ATATA CATA-TA CATATA C-ATATA
* * *
730134 CATTGTA CAT-TA CTATATA CATAGAA CAT-GA CTATATA CATAGTA CAT-TA
1 CA-TATA CATATA C-ATATA CATA-TA CATATA C-ATATA CATA-TA CATATA
730184 CTATATA C
1 C-ATATA C
730192 CCCGGTCCTA
Statistics
Matches: 156, Mismatches: 15, Indels: 64
0.66 0.06 0.27
Matches are distributed among these distances:
5 27 0.17
6 51 0.33
7 78 0.50
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:733714 original size:16 final size:15
Alignment explanation
Indices: 733690--733722 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
733680 AACAACTAGT
733690 TTTTGTTTGTTTTTG
1 TTTTGTTTGTTTTTG
733705 TTTTGTTTTGTTTTTG
1 TTTTG-TTTGTTTTTG
733721 TT
1 TT
733723 GGGGTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (15 bp):
TTTTGTTTGTTTTTG
Found at i:738363 original size:2 final size:2
Alignment explanation
Indices: 738356--738403 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
738346 ACTCATAGGT
738356 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
738398 GA GA GA
1 GA GA GA
738404 TGGAGATGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:744148 original size:12 final size:12
Alignment explanation
Indices: 744127--744167 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
744117 GTGGTTTGTT
744127 AAAAAAACAAAC
1 AAAAAAACAAAC
*
744139 AAACAAACAAA-
1 AAAAAAACAAAC
744150 AAAAAAATCAAAC
1 AAAAAAA-CAAAC
744163 AAAAA
1 AAAAA
744168 TAAAATAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.24
12 14 0.56
13 5 0.20
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (12 bp):
AAAAAAACAAAC
Found at i:744172 original size:20 final size:21
Alignment explanation
Indices: 744127--744165 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
744117 GTGGTTTGTT
744127 AAAAAAACAAACAAACAAACA
1 AAAAAAACAAACAAACAAACA
*
744148 AAAAAAA-AATCAAACAAA
1 AAAAAAACAAACAAACAAA
744166 AATAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (21 bp):
AAAAAAACAAACAAACAAACA
Found at i:744180 original size:16 final size:16
Alignment explanation
Indices: 744142--744187 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
744132 AACAAACAAA
*
744142 CAAACAAAAAAAAAAT
1 CAAACAAAAATAAAAT
744158 CAAACAAAAATAAAAT
1 CAAACAAAAATAAAAT
*
744174 -AAGACAAATATAAA
1 CAA-ACAAAAATAAA
744188 CATGAATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 2 0.07
16 25 0.93
ACGTcount: A:0.76, C:0.11, G:0.02, T:0.11
Consensus pattern (16 bp):
CAAACAAAAATAAAAT
Found at i:744247 original size:4 final size:4
Alignment explanation
Indices: 744238--744277 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
744228 TGGAAGGGGG
*
744238 TGTT TGTT TGTT T-AT TGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
744278 TGGTTCTGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 2 0.06
4 31 0.94
ACGTcount: A:0.03, C:0.00, G:0.23, T:0.75
Consensus pattern (4 bp):
TGTT
Found at i:747716 original size:2 final size:2
Alignment explanation
Indices: 747709--747738 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
747699 NNNNNNNNNN
747709 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
747739 AAGAAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:752341 original size:166 final size:166
Alignment explanation
Indices: 752067--752781 Score: 1130
Period size: 166 Copynumber: 4.3 Consensus size: 166
752057 TCAGTGCAAA
*
752067 TAAATATTGGCATTTCTGGTGCAGTGGTTCTTAAGAAGAAGATTTTTTGAACATTTTTCCTATGT
1 TAAATATTGGCATTTCTGGTGCAGTGGTTCTTAAGAAGAAGA-TTTTTAAACATTTTTCCTATGT
*
752132 ATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCTGTTTTGGTCCGGGGGTCACAAATTTTG
65 ATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCTGTTTTGGTCCGGGGGTCACAATTTTTG
* *
752197 CAATTTAGAGTCTTCACTATATATACAAGTTTTTATA
130 CAATTTAGAATCTTCACTATATATACAAGTTTTTATG
* *
752234 TAAATATTGGCATTTCTGGTGCAATGGTTCTTAAGATGAAGATTTTTAAACATTTTTCCTATGTA
1 TAAATATTGGCATTTCTGGTGCAGTGGTTCTTAAGAAGAAGATTTTTAAACATTTTTCCTATGTA
* ***
752299 TTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCTGTTTTGGTCCGAGGGTCATGGTTTTTGC
66 TTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCTGTTTTGGTCCGGGGGTCACAATTTTTGC
* * *
752364 AATTTAGAATTTTCATTATATATACAAGCTTTTATG
131 AATTTAGAATCTTCACTATATATACAAGTTTTTATG
* * *
752400 TAAATATTGGCATTTCTGGTGCAGTGGGTCTTGAGAAGAAGATTTTAAAACATTTTTCCTATGTA
1 TAAATATTGGCATTTCTGGTGCAGTGGTTCTTAAGAAGAAGATTTTTAAACATTTTTCCTATGTA
* *
752465 TTT-TATGTTAAACTTTGAACCCCGCCTGGGGCCCCTGGTTTGGT-CTGGGGTCACAATTTTTGC
66 TTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCTGTTTTGGTCCGGGGGTCACAATTTTTGC
*
752528 AATTTAGAATCTTCACTATATATACAAGTTTTTTTG
131 AATTTAGAATCTTCACTATATATACAAGTTTTTATG
* *
752564 TAAATATTGGCATTTCTGGTGCAGTGGTTCTTAAGAAGAAGATTTGTAAACATTTTTCCTATTTT
1 TAAATATTGGCATTTCTGGTGCAGTGGTTCTTAAGAAGAAGATTTTTAAACATTTTTCCTA--TG
* * * * *
752629 TTTTTCTATGTTAAACTTTGAACCCCACCTGGGGCCCCAGTTTTGGTCCGGGGATTACAATTTTT
64 TATTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCTGTTTTGGTCCGGGGGTCACAATTTTT
752694 GCAATTTAGAATCTTCACTATATATACAAGCTTTTT-TG
129 GCAATTTAGAATCTTCACTATATATACAAG-TTTTTATG
*
752732 TAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTAAA
1 TAAATATTGGCATTTCTGGTGCAGTGGTTCTTAAGAAGAAGATTTTTAAA
752782 GACATGCACC
Statistics
Matches: 501, Mismatches: 42, Indels: 9
0.91 0.08 0.02
Matches are distributed among these distances:
164 103 0.21
165 40 0.08
166 181 0.36
167 78 0.16
168 94 0.19
169 5 0.01
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (166 bp):
TAAATATTGGCATTTCTGGTGCAGTGGTTCTTAAGAAGAAGATTTTTAAACATTTTTCCTATGTA
TTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCTGTTTTGGTCCGGGGGTCACAATTTTTGC
AATTTAGAATCTTCACTATATATACAAGTTTTTATG
Found at i:752961 original size:8 final size:8
Alignment explanation
Indices: 752948--752989 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
752938 TGAAAAGTTT
752948 ACAGACGG
1 ACAGACGG
*
752956 ACAGACAG
1 ACAGACGG
752964 ACAGACGG
1 ACAGACGG
752972 ACAGACGG
1 ACAGACGG
752980 AC-GACGG
1 ACAGACGG
752987 ACA
1 ACA
752990 AAATGTAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.40, C:0.26, G:0.33, T:0.00
Consensus pattern (8 bp):
ACAGACGG
Found at i:752982 original size:12 final size:12
Alignment explanation
Indices: 752948--752982 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
752938 TGAAAAGTTT
*
752948 ACAGACGGACAG
1 ACAGACGGACGG
*
752960 ACAGACAGACGG
1 ACAGACGGACGG
752972 ACAGACGGACG
1 ACAGACGGACG
752983 ACGGACAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.26, G:0.34, T:0.00
Consensus pattern (12 bp):
ACAGACGGACGG
Found at i:754938 original size:4 final size:4
Alignment explanation
Indices: 754916--754957 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
754906 ATCACTTTTT
* *
754916 GTCC GT-C GTCC GTCT GTCC GTCC GTCC GTCC GTCT GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
754958 TGTAAACTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.00, C:0.43, G:0.26, T:0.31
Consensus pattern (4 bp):
GTCC
Found at i:761418 original size:12 final size:13
Alignment explanation
Indices: 761389--761420 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
761379 TGCTATACCC
761389 TCGGCGTCGGCGG
1 TCGGCGTCGGCGG
761402 T-GGCGTCGGC-G
1 TCGGCGTCGGCGG
761413 TCGGCGTC
1 TCGGCGTC
761421 CGGACCTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 15 0.83
13 1 0.06
ACGTcount: A:0.00, C:0.31, G:0.50, T:0.19
Consensus pattern (13 bp):
TCGGCGTCGGCGG
Found at i:761767 original size:19 final size:19
Alignment explanation
Indices: 761745--761784 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
761735 TTTCGGATGC
* *
761745 TGGAGGAGGTTAAGGTTTT
1 TGGAGCAGGTTAAAGTTTT
761764 TGGAGCAGGTTAAAGTTTT
1 TGGAGCAGGTTAAAGTTTT
761783 TG
1 TG
761785 TTGTGGGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.38, T:0.38
Consensus pattern (19 bp):
TGGAGCAGGTTAAAGTTTT
Found at i:761776 original size:177 final size:176
Alignment explanation
Indices: 761558--762260 Score: 944
Period size: 177 Copynumber: 3.9 Consensus size: 176
761548 GGGTCCTAAA
* * * * * *
761558 TTTCAGATGCTGGAGGAGGTTAAGATTGTTGGACCAGGTTAAAGTTTTTGTTGCAGGTGCCCTTT
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
* * * * *
761623 GATAGCA-ATATCTTAGTTACTGCTGGTCCGTACATCACCAAACTTGCATGGATGGTGTGCCTTA
66 GAT-G-ATATATCTTAGTTACTACTGGTCCTTACTTCACCAAACTTGCATGGATGGTGCGTCTTA
* * * *
761687 TGATACTGATGCACCAGACAGGCTTGAGTGCTGAATCTGAGCTATAGG
129 TGATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
* **
761735 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTGGAGCAGGTTAAAGTTTTTGTTGTGGGTGCCCAT-
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGTTAAAGTTTTTGTTGCAGGTGCCC-TC
* * * *
761799 TGATAGCA-ATATCTAAGTTACTACTGGTCCTAACTTCACCAAACTTGTATGGATGATGCGTCTT
65 TGAT-G-ATATATCTTAGTTACTACTGGTCCTTACTTCACCAAACTTGCATGGATGGTGCGTCTT
761863 ATGATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
128 ATGATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
* *
761912 TTTCGGATGCTGGAAGAGGTTAAGGTTTTTAGAGCCGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
*
761977 GATGATTATATCTTAGTTACTACTGGTCCTTACTTCACCAAACTTGTATGGATGGTGCGTCTTAT
66 GATGA-TATATCTTAGTTACTACTGGTCCTTACTTCACCAAACTTGCATGGATGGTGCGTCTTAT
762042 GATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
130 GATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
* * ***
762089 TTTCGGATGCTGGAGGAGGTTAAGGTTTTAAGAGCTGGTAAAATAAAGTTTTTGAAACAGGTGCC
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGT----TAAAGTTTTTGTTGCAGGTGCC
* * * * *
762154 CTCTGATGATGATATCTTAGTTATTACTTGTCCTTACTTCACCAGACTTCCATGGATGGTGTGTC
62 CTCTGATGAT-ATATCTTAGTTACTACTGGTCCTTACTTCACCAAACTTGCATGGATGGTGCGTC
* * *
762219 TTATGATACTGATGCACCTGACAGGCTTGAATACTGAGTCTG
126 TTATGATACTGATGCACCTGACAAGCTTGAATGCTGAATCTG
762261 GTTTCGGATG
Statistics
Matches: 475, Mismatches: 42, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
175 1 0.00
176 2 0.00
177 355 0.75
178 1 0.00
180 1 0.00
181 115 0.24
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (176 bp):
TTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
GATGATATATCTTAGTTACTACTGGTCCTTACTTCACCAAACTTGCATGGATGGTGCGTCTTATG
ATACTGATGCACCTGACAAGCTTGAATGCTGAATCTGAGCAATAGG
Found at i:762942 original size:20 final size:20
Alignment explanation
Indices: 762919--762960 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
762909 TATGATATAG
762919 TATTGTATGATATGAAACAA
1 TATTGTATGATATGAAACAA
* *
762939 TATTGTTTGATATGATACAA
1 TATTGTATGATATGAAACAA
762959 TA
1 TA
762961 GGATATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (20 bp):
TATTGTATGATATGAAACAA
Found at i:763237 original size:15 final size:15
Alignment explanation
Indices: 763204--763349 Score: 71
Period size: 15 Copynumber: 9.3 Consensus size: 15
763194 ATATTCTATA
* **
763204 ATATTGTATCATACA
1 ATATTGTATAATATG
763219 ATATTGTATAATATG
1 ATATTGTATAATATG
763234 ATATTGGTTTCAGTAATAT-
1 ATATT-G--T-A-TAATATG
* * * *
763253 ACATTATATCACATG
1 ATATTGTATAATATG
* *
763268 AAATTGTATTATATG
1 ATATTGTATAATATG
*
763283 ATATTGTAATATTATATA
1 ATATTGT-ATA--ATATG
* *
763301 ATATTGTATCATACG
1 ATATTGTATAATATG
*
763316 ATATTGTATGATATG
1 ATATTGTATAATATG
*
763331 ATATTGGT-TTATATG
1 ATATT-GTATAATATG
763346 ATAT
1 ATAT
763350 ATTTTCTTAT
Statistics
Matches: 101, Mismatches: 20, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
14 4 0.04
15 66 0.65
16 6 0.06
17 2 0.02
18 12 0.12
19 5 0.05
20 6 0.06
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.45
Consensus pattern (15 bp):
ATATTGTATAATATG
Found at i:763297 original size:18 final size:18
Alignment explanation
Indices: 763274--763308 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
763264 CATGAAATTG
*
763274 TATTATATGATATTGTAA
1 TATTATATAATATTGTAA
763292 TATTATATAATATTGTA
1 TATTATATAATATTGTA
763309 TCATACGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (18 bp):
TATTATATAATATTGTAA
Found at i:763308 original size:97 final size:97
Alignment explanation
Indices: 763187--763408 Score: 312
Period size: 97 Copynumber: 2.3 Consensus size: 97
763177 CTATGATACA
*
763187 ATATTGT-ATATTCTATAATATTGTATCATACAATATTGTATAATATGATATTGGTTTCAGTA-A
1 ATATTGTAATATTATATAATATTGTATCATACAATATTGTATAATATGATATTGGTTT-A-TAGA
763250 TATACATT-ATATCACATGAAATTGTATTATATG
64 TATACATTCATATCACATGAAATTGTATTATATG
* *
763283 ATATTGTAATATTATATAATATTGTATCATACGATATTGTATGATATGATATTGGTTTATATGAT
1 ATATTGTAATATTATATAATATTGTATCATACAATATTGTATAATATGATATTGGTTTATA-GAT
** *
763348 ATATTTTCTTATCACATGAAATTGTATTATATG
65 ATACATTCATATCACATGAAATTGTATTATATG
*
763381 ATATTGTAATA-TATAT--TATTGTGTCATA
1 ATATTGTAATATTATATAATATTGTATCATA
763409 TGATACAATT
Statistics
Matches: 115, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
95 13 0.11
96 8 0.07
97 59 0.51
98 35 0.30
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (97 bp):
ATATTGTAATATTATATAATATTGTATCATACAATATTGTATAATATGATATTGGTTTATAGATA
TACATTCATATCACATGAAATTGTATTATATG
Found at i:763386 original size:15 final size:15
Alignment explanation
Indices: 763265--763413 Score: 95
Period size: 15 Copynumber: 9.4 Consensus size: 15
763255 ATTATATCAC
*
763265 ATGAAATTGTATTAT
1 ATGATATTGTATTAT
763280 ATGATATTGTAATATTAT
1 ATGATATTG---TATTAT
* *
763298 ATAATATTGTATCAT
1 ATGATATTGTATTAT
* *
763313 ACGATATTGTATGAT
1 ATGATATTGTATTAT
763328 ATGATATTGGT-TTAT
1 ATGATATT-GTATTAT
* *
763343 ATGATATATTTTCTTAT
1 ATG--ATATTGTATTAT
*
763360 CACATGAAATTGTATTAT
1 ---ATGATATTGTATTAT
*
763378 ATGATATTGTAATAT
1 ATGATATTGTATTAT
* *
763393 AT-ATTATTGTGTCAT
1 ATGA-TATTGTATTAT
763408 ATGATA
1 ATGATA
763414 CAATTTGTAT
Statistics
Matches: 105, Mismatches: 17, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
14 1 0.01
15 65 0.62
16 4 0.04
17 9 0.09
18 23 0.22
20 3 0.03
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.48
Consensus pattern (15 bp):
ATGATATTGTATTAT
Found at i:770246 original size:12 final size:12
Alignment explanation
Indices: 770229--770269 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
770219 ATACGTCAAC
770229 GGCGGAAACAAT
1 GGCGGAAACAAT
*
770241 GGCGGAAATAAT
1 GGCGGAAACAAT
*
770253 GGTGGAAACAAT
1 GGCGGAAACAAT
770265 GGCGG
1 GGCGG
770270 CGGCGGGTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.39, T:0.12
Consensus pattern (12 bp):
GGCGGAAACAAT
Found at i:770427 original size:27 final size:27
Alignment explanation
Indices: 770385--770632 Score: 307
Period size: 27 Copynumber: 9.2 Consensus size: 27
770375 TAGTAACATG
* * * *
770385 ATGCCAAATCCTGGACCCACTTATCCA
1 ATGCCAAATCCAGGACCTACTTACCCT
* *
770412 ATGCCAAACCCAGGACCCACTTACCCT
1 ATGCCAAATCCAGGACCTACTTACCCT
* * *
770439 ATGCCAAATCCAGGGCCAACCTACCCT
1 ATGCCAAATCCAGGACCTACTTACCCT
* * *
770466 ATGCCAAATCCAGGGCCAACCTACCCT
1 ATGCCAAATCCAGGACCTACTTACCCT
* *
770493 ATGCCAAATCCAGGACCAACCTACCCT
1 ATGCCAAATCCAGGACCTACTTACCCT
* *
770520 ATGCCAAATCCAGGACCTACTTATCCA
1 ATGCCAAATCCAGGACCTACTTACCCT
*
770547 ATGCCAAACCCAGGACCTACTTACCCT
1 ATGCCAAATCCAGGACCTACTTACCCT
* *
770574 ATGCCAAACCCTGGACCTACTTACCCT
1 ATGCCAAATCCAGGACCTACTTACCCT
* *
770601 ATGCCAAACCCAGGACCTACTTATCCT
1 ATGCCAAATCCAGGACCTACTTACCCT
770628 ATGCC
1 ATGCC
770633 CATGAAGCCA
Statistics
Matches: 202, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 202 1.00
ACGTcount: A:0.30, C:0.40, G:0.12, T:0.19
Consensus pattern (27 bp):
ATGCCAAATCCAGGACCTACTTACCCT
Found at i:773496 original size:13 final size:13
Alignment explanation
Indices: 773478--773502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
773468 GGCTGAAGCT
773478 AGCAGCCACTAAC
1 AGCAGCCACTAAC
773491 AGCAGCCACTAA
1 AGCAGCCACTAA
773503 GCCCGTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.36, G:0.16, T:0.08
Consensus pattern (13 bp):
AGCAGCCACTAAC
Found at i:774658 original size:81 final size:80
Alignment explanation
Indices: 774518--774678 Score: 252
Period size: 81 Copynumber: 2.0 Consensus size: 80
774508 TTCAGTTAGC
* *
774518 TCACCCGAACTTTGTCATATTTTAGCATTTCCAAATGATATAGGGGTGAAAGGCAGGCCATTATC
1 TCACCCAAACTTTGTCATATTTCAGCATTTCCAAATGATATAGGGGTGAAAGGCAGGCCATTATC
774583 TCTTTTATCTTTGAA
66 TCTTTTATCTTTGAA
* * *
774598 NTCACCCAAACTTTGTCATATTTCAGC-TTTTCACAATGATATAGGGGTGAAGGGCGGGCCATTA
1 -TCACCCAAACTTTGTCATATTTCAGCATTTCCA-AATGATATAGGGGTGAAAGGCAGGCCATTA
774662 TCTCTTTTATCTTTGAA
64 TCTCTTTTATCTTTGAA
774679 GTGTGCATTA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
80 5 0.07
81 69 0.93
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (80 bp):
TCACCCAAACTTTGTCATATTTCAGCATTTCCAAATGATATAGGGGTGAAAGGCAGGCCATTATC
TCTTTTATCTTTGAA
Found at i:782712 original size:36 final size:36
Alignment explanation
Indices: 782671--782947 Score: 261
Period size: 36 Copynumber: 7.7 Consensus size: 36
782661 TCGGTAATAA
** * *
782671 CATGAACGCCGCAAATGCCATGAATGCCGCAAATGC
1 CATGAACGCCGCAAATAACATGAACGCCGCTAATGC
* * ** *
782707 TATGAACGCTGGGAATAACATGAACGCCGTTAATGC
1 CATGAACGCCGCAAATAACATGAACGCCGCTAATGC
*
782743 CATGAACGCCGGC-ATTAACATGAACGCCGCTAATGC
1 CATGAACGCC-GCAAATAACATGAACGCCGCTAATGC
* ** * *
782779 CATGAACGCCGTAAATGCCATGAATGCCGCAAATGC
1 CATGAACGCCGCAAATAACATGAACGCCGCTAATGC
* * ** *
782815 TATGAACGCTGGGAATAACATGAACGCCGTTAATGC
1 CATGAACGCCGCAAATAACATGAACGCCGCTAATGC
*
782851 CATGAACGCCGGC-ATTAACATGAACGCCGCTAATGC
1 CATGAACGCC-GCAAATAACATGAACGCCGCTAATGC
* ** * **
782887 CATGAACGCCGTAAATGCCATGAACGCCGGTAATAA
1 CATGAACGCCGCAAATAACATGAACGCCGCTAATGC
* *
782923 CATGAACACCGGAAATAACATGAAC
1 CATGAACGCCGCAAATAACATGAAC
782948 ATGCCAATGA
Statistics
Matches: 192, Mismatches: 45, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
35 2 0.01
36 188 0.98
37 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.17
Consensus pattern (36 bp):
CATGAACGCCGCAAATAACATGAACGCCGCTAATGC
Found at i:782916 original size:54 final size:54
Alignment explanation
Indices: 782725--782929 Score: 272
Period size: 54 Copynumber: 3.8 Consensus size: 54
782715 CTGGGAATAA
*
782725 CATGAACGCCGTTAATGCCATGAACGCCGGCATTAACATGAACGCCGCTAATGC
1 CATGAACGCCGTAAATGCCATGAACGCCGGCATTAACATGAACGCCGCTAATGC
* * ** **
782779 CATGAACGCCGTAAATGCCATGAATGCC-GCA--AATGCTATGAACGCTGGGAATAA
1 CATGAACGCCGTAAATGCCATGAACGCCGGCATTAA--C-ATGAACGCCGCTAATGC
*
782833 CATGAACGCCGTTAATGCCATGAACGCCGGCATTAACATGAACGCCGCTAATGC
1 CATGAACGCCGTAAATGCCATGAACGCCGGCATTAACATGAACGCCGCTAATGC
* *
782887 CATGAACGCCGTAAATGCCATGAACGCCGGTAATAACATGAAC
1 CATGAACGCCGTAAATGCCATGAACGCCGGCATTAACATGAAC
782930 ACCGGAAATA
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
51 2 0.02
53 4 0.03
54 116 0.91
55 4 0.03
57 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (54 bp):
CATGAACGCCGTAAATGCCATGAACGCCGGCATTAACATGAACGCCGCTAATGC
Found at i:782926 original size:18 final size:18
Alignment explanation
Indices: 782653--783307 Score: 235
Period size: 18 Copynumber: 35.9 Consensus size: 18
782643 CCGCAATTGC
*
782653 CATGAACGTCGGTAATAA
1 CATGAACGCCGGTAATAA
** **
782671 CATGAACGCCGCAAATGC
1 CATGAACGCCGGTAATAA
* ** *
782689 CATGAATGCCGCAAAT-G
1 CATGAACGCCGGTAATAA
* *
782706 CTATGAACGCTGGGAATAA
1 C-ATGAACGCCGGTAATAA
* **
782725 CATGAACGCCGTTAATGC
1 CATGAACGCCGGTAATAA
* *
782743 CATGAACGCCGGCATTAA
1 CATGAACGCCGGTAATAA
* **
782761 CATGAACGCCGCTAATGC
1 CATGAACGCCGGTAATAA
**
782779 CATGAACGCC-GTAAATGC
1 CATGAACGCCGGT-AATAA
* ** *
782797 CATGAATGCCGCAAAT-G
1 CATGAACGCCGGTAATAA
* *
782814 CTATGAACGCTGGGAATAA
1 C-ATGAACGCCGGTAATAA
* **
782833 CATGAACGCCGTTAATGC
1 CATGAACGCCGGTAATAA
* *
782851 CATGAACGCCGGCATTAA
1 CATGAACGCCGGTAATAA
* **
782869 CATGAACGCCGCTAATGC
1 CATGAACGCCGGTAATAA
**
782887 CATGAACGCC-GTAAATGC
1 CATGAACGCCGGT-AATAA
782905 CATGAACGCCGGTAATAA
1 CATGAACGCCGGTAATAA
* *
782923 CATGAACACCGGAAATAA
1 CATGAACGCCGGTAATAA
782941 CATGAACATGCC---AATGAA
1 CATGAAC--GCCGGTAAT-AA
*** *
782959 CGATGTATATC-CTACTTATAA
1 C-ATG-A-A-CGCCGGTAATAA
* ***
782980 C-GGCAACAATGGT-ATGAA
1 CATG-AACGCCGGTAAT-AA
* *
782998 CAATGCAATGAACACTGGTAAT-G
1 C-ATG-AACG--C-C-GGTAATAA
* * **
783021 CAATAAACGCCGTTAATGC
1 C-ATGAACGCCGGTAATAA
* * *
783040 CATGAACACAGGTAACAA
1 CATGAACGCCGGTAATAA
* **
783058 CATGAACGCCGCTAATGC
1 CATGAACGCCGGTAATAA
783076 CATGAACGCCGGTAATAA
1 CATGAACGCCGGTAATAA
* *
783094 CATGAACGCCGCTAAT-G
1 CATGAACGCCGGTAATAA
*
783111 CAATGAACGCC-GTCAATAT
1 C-ATGAACGCCGGT-AATAA
* * * *
783130 GATGAACGCAGTTAAT-G
1 CATGAACGCCGGTAATAA
783147 CAATGAACGCCGGTAATAA
1 C-ATGAACGCCGGTAATAA
* ** **
783166 CATGAACGCTGCAAATGC
1 CATGAACGCCGGTAATAA
783184 CATGAACGCCGGTAATAA
1 CATGAACGCCGGTAATAA
*
783202 CATGAACGCC-GTCAATAT
1 CATGAACGCCGGT-AATAA
* * * *
783220 GATGAACGCAGTTAAT-G
1 CATGAACGCCGGTAATAA
783237 CGATGAACGCCGGTAATAA
1 C-ATGAACGCCGGTAATAA
* ** **
783256 CATGAACGCTGCAAATGC
1 CATGAACGCCGGTAATAA
783274 CATGAACGCCGGTAATAA
1 CATGAACGCCGGTAATAA
*
783292 CATGAACGCCGCTAAT
1 CATGAACGCCGGTAAT
783308 GTTATGAACA
Statistics
Matches: 466, Mismatches: 133, Indels: 76
0.69 0.20 0.11
Matches are distributed among these distances:
17 14 0.03
18 409 0.88
19 16 0.03
20 8 0.02
21 4 0.01
22 6 0.01
23 4 0.01
24 3 0.01
25 2 0.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.19
Consensus pattern (18 bp):
CATGAACGCCGGTAATAA
Found at i:782947 original size:108 final size:108
Alignment explanation
Indices: 782671--782915 Score: 472
Period size: 108 Copynumber: 2.3 Consensus size: 108
782661 TCGGTAATAA
*
782671 CATGAACGCCGCAAATGCCATGAATGCCGCAAATGCTATGAACGCTGGGAATAACATGAACGCCG
1 CATGAACGCCGTAAATGCCATGAATGCCGCAAATGCTATGAACGCTGGGAATAACATGAACGCCG
782736 TTAATGCCATGAACGCCGGCATTAACATGAACGCCGCTAATGC
66 TTAATGCCATGAACGCCGGCATTAACATGAACGCCGCTAATGC
782779 CATGAACGCCGTAAATGCCATGAATGCCGCAAATGCTATGAACGCTGGGAATAACATGAACGCCG
1 CATGAACGCCGTAAATGCCATGAATGCCGCAAATGCTATGAACGCTGGGAATAACATGAACGCCG
782844 TTAATGCCATGAACGCCGGCATTAACATGAACGCCGCTAATGC
66 TTAATGCCATGAACGCCGGCATTAACATGAACGCCGCTAATGC
*
782887 CATGAACGCCGTAAATGCCATGAACGCCG
1 CATGAACGCCGTAAATGCCATGAATGCCG
782916 GTAATAACAT
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 135 1.00
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (108 bp):
CATGAACGCCGTAAATGCCATGAATGCCGCAAATGCTATGAACGCTGGGAATAACATGAACGCCG
TTAATGCCATGAACGCCGGCATTAACATGAACGCCGCTAATGC
Found at i:783316 original size:90 final size:90
Alignment explanation
Indices: 783094--783302 Score: 375
Period size: 90 Copynumber: 2.3 Consensus size: 90
783084 CCGGTAATAA
* *
783094 CATGAACGCCGCTAAT-GCAATGAACGCCGTCAATATGATGAACGCAGTTAATGCAATGAACGCC
1 CATGAACGCCGGTAATAAC-ATGAACGCCGTCAATATGATGAACGCAGTTAATGCAATGAACGCC
783158 GGTAATAACATGAACGCTGCAAATGC
65 GGTAATAACATGAACGCTGCAAATGC
*
783184 CATGAACGCCGGTAATAACATGAACGCCGTCAATATGATGAACGCAGTTAATGCGATGAACGCCG
1 CATGAACGCCGGTAATAACATGAACGCCGTCAATATGATGAACGCAGTTAATGCAATGAACGCCG
783249 GTAATAACATGAACGCTGCAAATGC
66 GTAATAACATGAACGCTGCAAATGC
783274 CATGAACGCCGGTAATAACATGAACGCCG
1 CATGAACGCCGGTAATAACATGAACGCCG
783303 CTAATGTTAT
Statistics
Matches: 115, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
90 114 0.99
91 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (90 bp):
CATGAACGCCGGTAATAACATGAACGCCGTCAATATGATGAACGCAGTTAATGCAATGAACGCCG
GTAATAACATGAACGCTGCAAATGC
Found at i:783432 original size:54 final size:55
Alignment explanation
Indices: 783368--783487 Score: 145
Period size: 54 Copynumber: 2.2 Consensus size: 55
783358 TGGTATGAAC
* *
783368 AATGCAATGAACT-CTGGAAATGCCATGAACACCGGTAATAACATGAACGCCGCT
1 AATGCAATGAACTGCCGGAAATGCCATGAACACCGGTAATAACATGAACGCCGCA
** * * * *
783422 AATGCAATGAA-TGCCGTCAATGTCATGAACGCCGTTAATAACATGAATGCCGCA
1 AATGCAATGAACTGCCGGAAATGCCATGAACACCGGTAATAACATGAACGCCGCA
*
783476 AATGCCATGAAC
1 AATGCAATGAAC
783488 ACCGGTAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
53 1 0.02
54 54 0.98
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (55 bp):
AATGCAATGAACTGCCGGAAATGCCATGAACACCGGTAATAACATGAACGCCGCA
Found at i:783449 original size:36 final size:36
Alignment explanation
Indices: 783409--783504 Score: 115
Period size: 36 Copynumber: 2.7 Consensus size: 36
783399 CCGGTAATAA
* *
783409 CATGAACGCCGCTAAT-GCAATGAATGCCGTC-AATGT
1 CATGAACGCCGCTAATAAC-ATGAATGCCG-CAAATGC
*
783445 CATGAACGCCGTTAATAACATGAATGCCGCAAATGC
1 CATGAACGCCGCTAATAACATGAATGCCGCAAATGC
* *
783481 CATGAACACCGGTAATAACATGAA
1 CATGAACGCCGCTAATAACATGAA
783505 CACTGCTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
35 1 0.02
36 51 0.96
37 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (36 bp):
CATGAACGCCGCTAATAACATGAATGCCGCAAATGC
Found at i:783463 original size:207 final size:207
Alignment explanation
Indices: 783167--783603 Score: 603
Period size: 207 Copynumber: 2.1 Consensus size: 207
783157 CGGTAATAAC
* *
783167 ATGAACGCTGCAAATGCCATGAACGCCGGTAATAACATGAACGCCGTCAATATGATGAACGCAGT
1 ATGAACGCTGGAAATGCCATGAACACCGGTAATAACATGAACGCCGTCAATATGATGAACGCAGT
* * *
783232 TAATGCGATGAACGCCGGTAATAACATGAACGCTGCAAATGCCATGAACGCCGGTAATAACATGA
66 CAATGCGATGAACGCCGGTAATAACATGAACGCCGCAAATGCCATGAACACCGGTAATAACATGA
* * * * *
783297 ACGCCGCTAATGTTATGAACATGCCAATGAACGATGTTTATCCTACTACGAAC-GCAAATAATGG
131 ACACCGCTAATATGATGAACATGCCAATGAACGATGTTTATCCTACTACAAACGGC-AACAATGG
783361 TATGAACAATGCA
195 TATGAACAATGCA
* * * *
783374 ATGAACTCTGGAAATGCCATGAACACCGGTAATAACATGAACGCCG-CTA-ATGCAATGAATGCC
1 ATGAACGCTGGAAATGCCATGAACACCGGTAATAACATGAACGCCGTCAATATG--ATGAACGCA
* *
783437 GTCAATGTC-ATGAACGCCGTTAATAACATGAATGCCGCAAATGCCATGAACACCGGTAATAACA
64 GTCAATG-CGATGAACGCCGGTAATAACATGAACGCCGCAAATGCCATGAACACCGGTAATAACA
* * * **
783501 TGAACACTGCTAATATGATTAACATGCCAATGAACGATGTTTATCCTGCTGTAAACGGCAACAAT
128 TGAACACCGCTAATATGATGAACATGCCAATGAACGATGTTTATCCTACTACAAACGGCAACAAT
783566 GGTATGAACAATGCA
193 GGTATGAACAATGCA
* *
783581 ATGAACGCTGGTAATGCAATGAA
1 ATGAACGCTGGAAATGCCATGAA
783604 TGCAGCAATG
Statistics
Matches: 202, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
205 3 0.01
206 2 0.01
207 194 0.96
208 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (207 bp):
ATGAACGCTGGAAATGCCATGAACACCGGTAATAACATGAACGCCGTCAATATGATGAACGCAGT
CAATGCGATGAACGCCGGTAATAACATGAACGCCGCAAATGCCATGAACACCGGTAATAACATGA
ACACCGCTAATATGATGAACATGCCAATGAACGATGTTTATCCTACTACAAACGGCAACAATGGT
ATGAACAATGCA
Found at i:783503 original size:54 final size:54
Alignment explanation
Indices: 783391--783507 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 54
783381 CTGGAAATGC
* ** **
783391 CATGAACACCGGTAATAACATGAACGCCGCTAATGCAATGAATGCCGTCAATGT
1 CATGAACACCGGTAATAACATGAACGCCGCAAATGCAATGAACACCGTCAATAA
* * * *
783445 CATGAACGCCGTTAATAACATGAATGCCGCAAATGCCATGAACACCGGT-AATAA
1 CATGAACACCGGTAATAACATGAACGCCGCAAATGCAATGAACACC-GTCAATAA
783499 CATGAACAC
1 CATGAACAC
783508 TGCTAATATG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 50 0.96
55 2 0.04
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (54 bp):
CATGAACACCGGTAATAACATGAACGCCGCAAATGCAATGAACACCGTCAATAA
Found at i:783507 original size:18 final size:18
Alignment explanation
Indices: 783391--783505 Score: 81
Period size: 18 Copynumber: 6.4 Consensus size: 18
783381 CTGGAAATGC
*
783391 CATGAACACCGGTAATAA
1 CATGAACGCCGGTAATAA
* *
783409 CATGAACGCCGCTAAT-G
1 CATGAACGCCGGTAATAA
* **
783426 CAATGAATGCC-GTCAATGT
1 C-ATGAACGCCGGT-AATAA
*
783445 CATGAACGCCGTTAATAA
1 CATGAACGCCGGTAATAA
* ** **
783463 CATGAATGCCGCAAATGC
1 CATGAACGCCGGTAATAA
*
783481 CATGAACACCGGTAATAA
1 CATGAACGCCGGTAATAA
783499 CATGAAC
1 CATGAAC
783506 ACTGCTAATA
Statistics
Matches: 72, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
17 2 0.03
18 68 0.94
19 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (18 bp):
CATGAACGCCGGTAATAA
Found at i:783634 original size:18 final size:18
Alignment explanation
Indices: 783611--783688 Score: 68
Period size: 18 Copynumber: 4.3 Consensus size: 18
783601 GAATGCAGCA
*
783611 ATGAACGCCGTTAATGCC
1 ATGAACGCCGCTAATGCC
* * *
783629 ATGAACGCTGCCAATGTCA
1 ATGAACGCCGCTAATG-CC
** **
783648 AT-AACGCCGGAAATAAC
1 ATGAACGCCGCTAATGCC
783665 ATGAACGCCGCTAATGCC
1 ATGAACGCCGCTAATGCC
783683 ATGAAC
1 ATGAAC
783689 ATGCCAATGA
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
17 2 0.05
18 39 0.89
19 3 0.07
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.18
Consensus pattern (18 bp):
ATGAACGCCGCTAATGCC
Found at i:784119 original size:72 final size:72
Alignment explanation
Indices: 784019--784331 Score: 396
Period size: 72 Copynumber: 4.3 Consensus size: 72
784009 TAATATGCCA
* ** * * **
784019 AACAACGGTAACAACATGAACGTTGCTAATGCCATGAACATGATGAACGCTGTTCCC-ATGAACA
1 AACAACGCTAACGCCATGAACATGGCTAATGTTATGAACATGATGAACGCTG-TCCCAATGAACA
784083 ACAACGCC
65 ACAACGCC
* * *
784091 AACAACGCTAACGCCATGAACATGGCTAATGTTATGGAGATGATGAACGCTGTCCCAAAGAACAA
1 AACAACGCTAACGCCATGAACATGGCTAATGTTATGAACATGATGAACGCTGTCCCAATG---AA
784156 CAACAACGCC
63 CAACAACGCC
* * *
784166 AACAACGCTAACGCCATGAACATGGCTAATGTTATGGAGATGATGAACGCTG-CACCCATGAACA
1 AACAACGCTAACGCCATGAACATGGCTAATGTTATGAACATGATGAACGCTGTC-CCAATGAACA
*
784230 ATAACGCC
65 ACAACGCC
* * * *
784238 AACAACGCTAACGCCATGAACATGGCTAATGTGATGAACATGATGAACGCTGCCCCTATGAACAG
1 AACAACGCTAACGCCATGAACATGGCTAATGTTATGAACATGATGAACGCTGTCCCAATGAACAA
784303 CAACGCC
66 CAACGCC
*
784310 AACAACGCTAACACCATGAACA
1 AACAACGCTAACGCCATGAACA
784332 AGGGCAATAA
Statistics
Matches: 215, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
71 4 0.02
72 141 0.66
73 1 0.00
74 1 0.00
75 68 0.32
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (72 bp):
AACAACGCTAACGCCATGAACATGGCTAATGTTATGAACATGATGAACGCTGTCCCAATGAACAA
CAACGCC
Found at i:784286 original size:147 final size:144
Alignment explanation
Indices: 784019--784331 Score: 428
Period size: 147 Copynumber: 2.2 Consensus size: 144
784009 TAATATGCCA
* * * * ** * * **
784019 AACAACGGTAACAACATGAACGTTGCTAATGCCATGAACATGATGAACGCTGTTCCCATGAACAA
1 AACAACGCTAACACCATGAACATGGCTAATGTTATGGAGATGATGAACGCTGCACCCATGAACAA
* * * *
784084 CAACGCCAACAACGCTAACGCCATGAACATGGCTAATGTTATGGAGATGATGAACGCTGTCCCAA
66 CAACGCCAACAACGCTAACGCCATGAACATGGCTAATGTGATGAACATGATGAACGCTGCCCCAA
784149 AGAACAACAACAACGCC
131 AG---AACAACAACGCC
*
784166 AACAACGCTAACGCCATGAACATGGCTAATGTTATGGAGATGATGAACGCTGCACCCATGAACAA
1 AACAACGCTAACACCATGAACATGGCTAATGTTATGGAGATGATGAACGCTGCACCCATGAACAA
* *
784231 TAACGCCAACAACGCTAACGCCATGAACATGGCTAATGTGATGAACATGATGAACGCTGCCCCTA
66 CAACGCCAACAACGCTAACGCCATGAACATGGCTAATGTGATGAACATGATGAACGCTGCCCCAA
* *
784296 TGAACAGCAACGCC
131 AGAACAACAACGCC
784310 AACAACGCTAACACCATGAACA
1 AACAACGCTAACACCATGAACA
784332 AGGGCAATAA
Statistics
Matches: 146, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
144 32 0.22
147 114 0.78
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (144 bp):
AACAACGCTAACACCATGAACATGGCTAATGTTATGGAGATGATGAACGCTGCACCCATGAACAA
CAACGCCAACAACGCTAACGCCATGAACATGGCTAATGTGATGAACATGATGAACGCTGCCCCAA
AGAACAACAACGCC
Found at i:785020 original size:292 final size:291
Alignment explanation
Indices: 784495--785075 Score: 1153
Period size: 292 Copynumber: 2.0 Consensus size: 291
784485 AACGATTTTG
784495 TACCAGTACGTAAACAAACTTTTTATTGTGTACAACAGATTTGATAAATTTCTTTTAAACAGCAA
1 TACCAGTACGTAAACAAACTTTTTATTGTGTACAACAGATTTGATAAATTTCTTTTAAACAGCAA
784560 ATCCTTATGCTTTACAAAAATCAGTTTTCTAATTATGATTTTCTATAATATTTTGCAGGACAGAA
66 ATCCTTATGCTTTACAAAAATCAGTTTTCTAATTATGATTTTCTATAATATTTTGCAGGACAGAA
784625 GGTGTTTATTTTCTTCCTTCGTTTTCCATGTGGAGCTGTGTGAAAATCGTCAACGATTCAGGACC
131 GGTGTTTATTTTCTTCCTTCGTTTTCCATGTGGAGCTGTGTGAAAATCGTCAACGATTCAGGACC
784690 TGTAACATAGAAATGGAAATAAAATTCAAATCATTATTTATTCTTTTGTCTTAATTTATAAAGAT
196 TGTAACATAGAAATGGAAATAAAATTCAAATCATTATTTATTCTTTTGTCTTAATTTATAAAGAT
784755 AAATGTGTTCCTAGTTTATTACATACCTGTA
261 AAATGTGTTCCTAGTTTATTACATACCTGTA
784786 TNACCAGTACGTAAACAAACTTTTTATTGTGTACAACAGATTTGATAAATTTCTTTTAAACAGCA
1 T-ACCAGTACGTAAACAAACTTTTTATTGTGTACAACAGATTTGATAAATTTCTTTTAAACAGCA
784851 AATCCTTATGCTTTACAAAAATCAGTTTTCTAATTATGATTTTCTATAATATTTTGCAGGACAGA
65 AATCCTTATGCTTTACAAAAATCAGTTTTCTAATTATGATTTTCTATAATATTTTGCAGGACAGA
784916 AGGTGTTTATTTTCTTCCTTCGTTTTCCATGTGGAGCTGTGTGAAAATCGTCAACGATTCAGGAC
130 AGGTGTTTATTTTCTTCCTTCGTTTTCCATGTGGAGCTGTGTGAAAATCGTCAACGATTCAGGAC
784981 CTGTAACATAGAAATGGAAATAAAATTCAAATCATTATTTATTCTTTTGTCTTAATTTATAAAGA
195 CTGTAACATAGAAATGGAAATAAAATTCAAATCATTATTTATTCTTTTGTCTTAATTTATAAAGA
785046 TAAATGTGTTCCTAGTTTATTACATACCTG
260 TAAATGTGTTCCTAGTTTATTACATACCTG
785076 GTATGAAGCA
Statistics
Matches: 289, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
291 1 0.00
292 288 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (291 bp):
TACCAGTACGTAAACAAACTTTTTATTGTGTACAACAGATTTGATAAATTTCTTTTAAACAGCAA
ATCCTTATGCTTTACAAAAATCAGTTTTCTAATTATGATTTTCTATAATATTTTGCAGGACAGAA
GGTGTTTATTTTCTTCCTTCGTTTTCCATGTGGAGCTGTGTGAAAATCGTCAACGATTCAGGACC
TGTAACATAGAAATGGAAATAAAATTCAAATCATTATTTATTCTTTTGTCTTAATTTATAAAGAT
AAATGTGTTCCTAGTTTATTACATACCTGTA
Found at i:788704 original size:12 final size:12
Alignment explanation
Indices: 788680--788711 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
788670 ATAAGTATTC
788680 AAATCAC-AAAA
1 AAATCACAAAAA
788691 AAATCACAAAAA
1 AAATCACAAAAA
788703 AAATCACAA
1 AAATCACAA
788712 GGTACTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (12 bp):
AAATCACAAAAA
Found at i:790433 original size:2 final size:2
Alignment explanation
Indices: 790426--790490 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
790416 GAAAGTTGTT
790426 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
790468 AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG A
790491 TATGTTTGTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:810778 original size:16 final size:15
Alignment explanation
Indices: 810743--810780 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
810733 ATACCCCCCC
810743 CCCAAAAAAAAAAAA
1 CCCAAAAAAAAAAAA
*
810758 -ACAAAACAAAAAAAA
1 CCCAAAA-AAAAAAAA
810773 CCCAAAAA
1 CCCAAAAA
810781 TCACACACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
14 5 0.26
15 9 0.47
16 5 0.26
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (15 bp):
CCCAAAAAAAAAAAA
Found at i:812768 original size:173 final size:172
Alignment explanation
Indices: 812448--812792 Score: 593
Period size: 173 Copynumber: 2.0 Consensus size: 172
812438 GATGGCAATC
* * *
812448 TCTAATCGGTTAACCGATTAATCAGTCGGAACATCGATTAACCAGTTTCAAAATCATTAATCAGT
1 TCTAATCAGTTAACCGATTAATCAGTCGAAACAACGATTAACCAGTTTCAAAATCATTAATCAGT
*
812513 TAGTAGTATAAAATGAAAATAATGTATGTTTTTAATGCAATTTCAAAATAAATTCTACCTTTTTT
66 TAGTAGTATAAAATGAAAATAATGTATGTTTTTAACGCAATTTCAAAATAAATTCTACCTTTTTT
812578 TGTCTTTCGAGACCTTTATATAATCAAGTTAAATCTGAGACA
131 TGTCTTTCGAGACCTTTATATAATCAAGTTAAATCTGAGACA
812620 TCTAATCAGTTAACCGATTAATCAGTCGAAACAACGA-TAACCAGTTTCAAAATCATTAATCAGT
1 TCTAATCAGTTAACCGATTAATCAGTCGAAACAACGATTAACCAGTTTCAAAATCATTAATCAGT
* * *
812684 TAGTCGTATAAAATGAAAATAATGTATATTTTTTTAACGCAATTTCAAGATAAATTCTACCTTTT
66 TAGTAGTATAAAATGAAAATAATG--TATGTTTTTAACGCAATTTCAAAATAAATTCTACCTTTT
*
812749 TTTGTCTTTCGAGACCTTTATGTAATCAAGTTAAATCTGAGACA
129 TTTGTCTTTCGAGACCTTTATATAATCAAGTTAAATCTGAGACA
812793 GTTAAGATAT
Statistics
Matches: 163, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
171 50 0.31
172 34 0.21
173 79 0.48
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (172 bp):
TCTAATCAGTTAACCGATTAATCAGTCGAAACAACGATTAACCAGTTTCAAAATCATTAATCAGT
TAGTAGTATAAAATGAAAATAATGTATGTTTTTAACGCAATTTCAAAATAAATTCTACCTTTTTT
TGTCTTTCGAGACCTTTATATAATCAAGTTAAATCTGAGACA
Found at i:814145 original size:16 final size:16
Alignment explanation
Indices: 814124--814154 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
814114 TCTCTTGCTA
814124 ATGTTATGTTAAAAAC
1 ATGTTATGTTAAAAAC
*
814140 ATGTTATTTTAAAAA
1 ATGTTATGTTAAAAA
814155 ATTTTAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (16 bp):
ATGTTATGTTAAAAAC
Found at i:817473 original size:2 final size:2
Alignment explanation
Indices: 817466--817517 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
817456 GGTGAATACT
817466 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
817508 GA GA GA GA GA
1 GA GA GA GA GA
817518 CCCGGATGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:818080 original size:15 final size:16
Alignment explanation
Indices: 818050--818098 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
818040 AATACAGCTT
* *
818050 ACTCCACTTATATTGA
1 ACTCCGCTTATTTTGA
818066 ACT-CGCTTATTTTGAA
1 ACTCCGCTTATTTTG-A
*
818082 ATTCCGCTTATTTTGA
1 ACTCCGCTTATTTTGA
818098 A
1 A
818099 ATAGAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.32
16 8 0.29
17 11 0.39
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (16 bp):
ACTCCGCTTATTTTGA
Found at i:819976 original size:15 final size:16
Alignment explanation
Indices: 819946--819994 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
819936 AATACAGCTT
* *
819946 ACTCCACTTATATTGA
1 ACTCCGCTTATTTTGA
819962 ACT-CGCTTATTTTGAA
1 ACTCCGCTTATTTTG-A
*
819978 ATTCCGCTTATTTTGA
1 ACTCCGCTTATTTTGA
819994 A
1 A
819995 ATAGAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.32
16 8 0.29
17 11 0.39
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (16 bp):
ACTCCGCTTATTTTGA
Found at i:821872 original size:15 final size:16
Alignment explanation
Indices: 821842--821890 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
821832 AATACAGCTT
* *
821842 ACTCCACTTATATTGA
1 ACTCCGCTTATTTTGA
821858 ACT-CGCTTATTTTGAA
1 ACTCCGCTTATTTTG-A
*
821874 ATTCCGCTTATTTTGA
1 ACTCCGCTTATTTTGA
821890 A
1 A
821891 ATAGAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.32
16 8 0.29
17 11 0.39
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (16 bp):
ACTCCGCTTATTTTGA
Found at i:823768 original size:15 final size:16
Alignment explanation
Indices: 823738--823786 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
823728 AATACAGCTT
* *
823738 ACTCCACTTATATTGA
1 ACTCCGCTTATTTTGA
823754 ACT-CGCTTATTTTGAA
1 ACTCCGCTTATTTTG-A
*
823770 ATTCCGCTTATTTTGA
1 ACTCCGCTTATTTTGA
823786 A
1 A
823787 ATAGAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.32
16 8 0.29
17 11 0.39
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (16 bp):
ACTCCGCTTATTTTGA
Found at i:825559 original size:213 final size:211
Alignment explanation
Indices: 825192--825616 Score: 789
Period size: 213 Copynumber: 2.0 Consensus size: 211
825182 TAGACTAACC
825192 CTTCTGTGCATGTCTCAACAAACATAAGCACACAAAAATAAACTTTATTGAAATGATTATAGTTG
1 CTTCTGTGCATGTCTCAACAAACATAAGCACACAAAAATAAACTTTATTGAAATGATTATAGTTG
825257 TACATGTATATGTATACACATGTAGACTTTAATATTAGAAATGATAATTTCAACAATACTATATA
66 TACATGTATATGTATACACATGTAGACTTTAATATTAGAAATGATAATTTCAACAATACTATATA
825322 AGAAGTGTCAATGAATGTAACCCTC-ATATGCTCTCTTCTACACCATCCACATCATCATTATTGC
131 AGAAGTGTCAATGAATGTAACCCTCAATATGCTCTCTTCTACACCAT--ACATCATCATTATTGC
825386 AAAACTATTGTATAACTA
194 AAAACTATTGTATAACTA
825404 NCTTCTGTGCATGTCTCAACAAACATAAGCACACAAAAATAAACTTTATTGAAATGATTATAGTT
1 -CTTCTGTGCATGTCTCAACAAACATAAGCACACAAAAATAAACTTTATTGAAATGATTATAGTT
825469 GTACATGTATATGTATACACATGTAGACTTTAATATTAGAAATGATAATTTCAACAATACTATAT
65 GTACATGTATATGTATACACATGTAGACTTTAATATTAGAAATGATAATTTCAACAATACTATAT
**
825534 AAGGTGTGTCAATGAATGTAACCCTCATATATGCTCTCTTCTACACCATACATCATCATTATTGC
130 AAGAAGTGTCAATGAATGTAACCCTCA-ATATGCTCTCTTCTACACCATACATCATCATTATTGC
825599 AAAACTATTGTATAACTA
194 AAAACTATTGTATAACTA
825617 TAGCAACTAA
Statistics
Matches: 208, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
213 187 0.90
215 21 0.10
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (211 bp):
CTTCTGTGCATGTCTCAACAAACATAAGCACACAAAAATAAACTTTATTGAAATGATTATAGTTG
TACATGTATATGTATACACATGTAGACTTTAATATTAGAAATGATAATTTCAACAATACTATATA
AGAAGTGTCAATGAATGTAACCCTCAATATGCTCTCTTCTACACCATACATCATCATTATTGCAA
AACTATTGTATAACTA
Found at i:825676 original size:18 final size:19
Alignment explanation
Indices: 825650--825685 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
825640 ATTTTATTGA
*
825650 ATTCTGAGTT-AAATAATT
1 ATTCCGAGTTAAAATAATT
825668 ATTCCGAGTTAAAATAAT
1 ATTCCGAGTTAAAATAAT
825686 ACATTGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (19 bp):
ATTCCGAGTTAAAATAATT
Found at i:829667 original size:38 final size:38
Alignment explanation
Indices: 829487--829712 Score: 177
Period size: 38 Copynumber: 5.9 Consensus size: 38
829477 TTCAGGATTT
* * * * ** *
829487 AATTCTGATATCTTATGAACGTTAGATTTGTTGGACTTA
1 AATTTTGATATCTCATGAACTTTAGATCTGCAGG-CTAA
* * * ***
829526 AATTTTGATATCTCATTAACCTTAGATATGCAGGCCGC
1 AATTTTGATATCTCATGAACTTTAGATCTGCAGGCTAA
* * *
829564 AATTTTGATATCCCATGAA-TGTTAGATCTGGAGGCTTA
1 AATTTTGATATCTCATGAACT-TTAGATCTGCAGGCTAA
* * *
829602 AATTTTGATATCTCAAGAGCTTTAGATCTGCAAGCTAA
1 AATTTTGATATCTCATGAACTTTAGATCTGCAGGCTAA
* *
829640 AATTTTGATTTCTCATGAACTTTAGATCTGTAGGC-AA
1 AATTTTGATATCTCATGAACTTTAGATCTGCAGGCTAA
* * * * *
829677 CAAATCTGAAATCTCATGAACATTAGATCTGAAGGC
1 -AATTTTGATATCTCATGAACTTTAGATCTGCAGGC
829713 CTTATAATTC
Statistics
Matches: 149, Mismatches: 35, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
37 2 0.01
38 119 0.80
39 28 0.19
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (38 bp):
AATTTTGATATCTCATGAACTTTAGATCTGCAGGCTAA
Found at i:830196 original size:38 final size:38
Alignment explanation
Indices: 830146--830236 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
830136 AATGGCCTTA
* * * *
830146 TCATGAGCCTTAGATCTGTAAGCCTAAATTTTGATTTC
1 TCATGAACCTTAGATCTGTAAGCCTAAATTCTAATATC
* * *
830184 TTATGAACCTTAGATCTGTAGGCCTCAATTCTAATATC
1 TCATGAACCTTAGATCTGTAAGCCTAAATTCTAATATC
830222 TCATGAACCTTAGAT
1 TCATGAACCTTAGAT
830237 TTCTGATGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (38 bp):
TCATGAACCTTAGATCTGTAAGCCTAAATTCTAATATC
Found at i:870863 original size:4 final size:4
Alignment explanation
Indices: 870856--871030 Score: 314
Period size: 4 Copynumber: 43.8 Consensus size: 4
870846 ATATATAAAT
870856 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
* * * *
870904 ATAG ATAG ATAG ATAT ATAT ATAG ATAG ATAG ATAG ATAG ATAG TTAA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
870952 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
871000 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
871031 NNNNNNNNNN
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 165 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATAG
Found at i:880883 original size:36 final size:36
Alignment explanation
Indices: 880836--880904 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
880826 AATGTGAATT
880836 TAATTGTTAGCTTCCAATGGATGTGGGTAAAAGATG
1 TAATTGTTAGCTTCCAATGGATGTGGGTAAAAGATG
880872 TAATTGTTAGCTTCCAATGGATGTGGGTAAAAG
1 TAATTGTTAGCTTCCAATGGATGTGGGTAAAAG
880905 GGAGCGGATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (36 bp):
TAATTGTTAGCTTCCAATGGATGTGGGTAAAAGATG
Found at i:881676 original size:15 final size:15
Alignment explanation
Indices: 881656--881686 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
881646 CGTAAACTGA
881656 GGCGTCTGAATATCT
1 GGCGTCTGAATATCT
*
881671 GGCGTCTGGATATCT
1 GGCGTCTGAATATCT
881686 G
1 G
881687 AAGTCCCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.32, T:0.32
Consensus pattern (15 bp):
GGCGTCTGAATATCT
Found at i:882374 original size:21 final size:21
Alignment explanation
Indices: 882350--882638 Score: 425
Period size: 21 Copynumber: 13.8 Consensus size: 21
882340 AGATGATTTT
882350 ATTATATGCTGTGGGTCTATA
1 ATTATATGCTGTGGGTCTATA
*
882371 ATTATATGCTGTGGTTCTATA
1 ATTATATGCTGTGGGTCTATA
*
882392 ATTATATGATGTGGGTCTATA
1 ATTATATGCTGTGGGTCTATA
*
882413 ATTATATGCTGTGGGTCTATT
1 ATTATATGCTGTGGGTCTATA
* *
882434 ATTATATGCTGTTGGTCTATT
1 ATTATATGCTGTGGGTCTATA
*
882455 ATTATATGCTGTGGTTCTATA
1 ATTATATGCTGTGGGTCTATA
* *
882476 ATTATATGCTGTGGGTTTATT
1 ATTATATGCTGTGGGTCTATA
* *
882497 ATTATATGCTGTGGTTTTATA
1 ATTATATGCTGTGGGTCTATA
*
882518 ATTATATGCTGTGGTTCTATA
1 ATTATATGCTGTGGGTCTATA
* *
882539 ATTATATGCTGTGGTTCTATT
1 ATTATATGCTGTGGGTCTATA
*
882560 ATTATATGCTGTGGTTCTATA
1 ATTATATGCTGTGGGTCTATA
*
882581 ATTATATGCTGTGGGTCTATT
1 ATTATATGCTGTGGGTCTATA
* *
882602 ATTATATGCTGTGGATCTATT
1 ATTATATGCTGTGGGTCTATA
882623 ATTATATGCTGTGGGT
1 ATTATATGCTGTGGGT
882639 NNNNNNNNNN
Statistics
Matches: 247, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 247 1.00
ACGTcount: A:0.22, C:0.08, G:0.21, T:0.48
Consensus pattern (21 bp):
ATTATATGCTGTGGGTCTATA
Found at i:882427 original size:63 final size:63
Alignment explanation
Indices: 882350--882636 Score: 468
Period size: 63 Copynumber: 4.6 Consensus size: 63
882340 AGATGATTTT
* *
882350 ATTATATGCTGTGGGTCTATAATTATATGCTGTGGTTCTATAATTATATGATGTGGGTCTATA
1 ATTATATGCTGTGGGTCTATTATTATATGCTGTGGTTCTATAATTATATGCTGTGGGTCTATA
* *
882413 ATTATATGCTGTGGGTCTATTATTATATGCTGTTGG-TCTATTATTATATGCTGTGGTTCTATA
1 ATTATATGCTGTGGGTCTATTATTATATGCTG-TGGTTCTATAATTATATGCTGTGGGTCTATA
* * *
882476 ATTATATGCTGTGGGTTTATTATTATATGCTGTGGTTTTATAATTATATGCTGTGGTTCTATA
1 ATTATATGCTGTGGGTCTATTATTATATGCTGTGGTTCTATAATTATATGCTGTGGGTCTATA
* *
882539 ATTATATGCTGTGGTTCTATTATTATATGCTGTGGTTCTATAATTATATGCTGTGGGTCTATT
1 ATTATATGCTGTGGGTCTATTATTATATGCTGTGGTTCTATAATTATATGCTGTGGGTCTATA
*
882602 ATTATATGCTGTGGATCTATTATTATATGCTGTGG
1 ATTATATGCTGTGGGTCTATTATTATATGCTGTGG
882637 GTNNNNNNNN
Statistics
Matches: 209, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
62 3 0.01
63 203 0.97
64 3 0.01
ACGTcount: A:0.22, C:0.08, G:0.21, T:0.48
Consensus pattern (63 bp):
ATTATATGCTGTGGGTCTATTATTATATGCTGTGGTTCTATAATTATATGCTGTGGGTCTATA
Found at i:896457 original size:18 final size:18
Alignment explanation
Indices: 896429--896470 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
896419 GAAGAGACAG
896429 AAAGTGGAAAAGGAAAGAA
1 AAAG-GGAAAAGGAAAGAA
896448 AAAGGGAAAAGGAAAGAA
1 AAAGGGAAAAGGAAAGAA
*
896466 GAAGG
1 AAAGG
896471 TGGATGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (18 bp):
AAAGGGAAAAGGAAAGAA
Found at i:897738 original size:12 final size:12
Alignment explanation
Indices: 897721--897745 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
897711 TGAAAATGAT
897721 GAAAAGAAAGAA
1 GAAAAGAAAGAA
897733 GAAAAGAAAGAA
1 GAAAAGAAAGAA
897745 G
1 G
897746 CCAGCCAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAGAA
Found at i:899876 original size:14 final size:14
Alignment explanation
Indices: 899857--899884 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
899847 ATTGGTATAA
899857 GTACATGTATCTAT
1 GTACATGTATCTAT
899871 GTACATGTATCTAT
1 GTACATGTATCTAT
899885 CGATGTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
GTACATGTATCTAT
Found at i:899927 original size:179 final size:179
Alignment explanation
Indices: 899627--899987 Score: 686
Period size: 179 Copynumber: 2.0 Consensus size: 179
899617 TTAATGGTTC
899627 TTTGAATATACATGTATTATAAAGTACATATACATGTATTTATAGGTATAAGTACATGTATCTAT
1 TTTGAATATACATGTATTATAAAGTACATATACATGTATTTATAGGTATAAGTACATGTATCTAT
*
899692 GTACATGTATTTATCGATGTAAATACACATATTTCACTTGCATGTATTTATGTTTGACAATCAGA
66 GTACATGTATCTATCGATGTAAATACACATATTTCACTTGCATGTATTTATGTTTGACAATCAGA
899757 ATATTTGAAAGTTACTGTTTATGGTCAAAATATGTTTTGTTTATTTATT
131 ATATTTGAAAGTTACTGTTTATGGTCAAAATATGTTTTGTTTATTTATT
* *
899806 TTTGAATATACATGTATTATAAAGTACATGTACATGTATTTATTGGTATAAGTACATGTATCTAT
1 TTTGAATATACATGTATTATAAAGTACATATACATGTATTTATAGGTATAAGTACATGTATCTAT
899871 GTACATGTATCTATCGATGTAAATACACATATTTCACTTGCATGTATTTATGTTTGACAATCAGA
66 GTACATGTATCTATCGATGTAAATACACATATTTCACTTGCATGTATTTATGTTTGACAATCAGA
*
899936 ATATTTGAAAGTTACTGTTTATGGTCAAAATTTGTTTTGTTTATTTATT
131 ATATTTGAAAGTTACTGTTTATGGTCAAAATATGTTTTGTTTATTTATT
899985 TTT
1 TTT
899988 AAGCAAAGTA
Statistics
Matches: 178, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
179 178 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (179 bp):
TTTGAATATACATGTATTATAAAGTACATATACATGTATTTATAGGTATAAGTACATGTATCTAT
GTACATGTATCTATCGATGTAAATACACATATTTCACTTGCATGTATTTATGTTTGACAATCAGA
ATATTTGAAAGTTACTGTTTATGGTCAAAATATGTTTTGTTTATTTATT
Found at i:902100 original size:44 final size:44
Alignment explanation
Indices: 902019--902220 Score: 289
Period size: 44 Copynumber: 4.6 Consensus size: 44
902009 TAAAACCACA
*
902019 GTATAATGTGTCAAGGTTTACATGTAAAGTATCAAGGTTTACAT
1 GTATAAAGTGTCAAGGTTTACATGTAAAGTATCAAGGTTTACAT
* * *
902063 GTAT-AGGTGTCAAGGTTTACATGTATAGGTGTCAAGGTTTACAT
1 GTATAAAGTGTCAAGGTTTACATGTA-AAGTATCAAGGTTTACAT
*
902107 GTATAAAGTGTCATGGTTTACATGTAAAGTATCAAGGTTTACAT
1 GTATAAAGTGTCAAGGTTTACATGTAAAGTATCAAGGTTTACAT
* * * *
902151 GTTTAAAATGTCAAGGTTTACATGTAAAGTGTCAAGATTTACAT
1 GTATAAAGTGTCAAGGTTTACATGTAAAGTATCAAGGTTTACAT
* *
902195 GTATAAAGTATCAAAGTTTACATGTA
1 GTATAAAGTGTCAAGGTTTACATGTA
902221 TAAAATTGTT
Statistics
Matches: 140, Mismatches: 16, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
43 20 0.14
44 101 0.72
45 19 0.14
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (44 bp):
GTATAAAGTGTCAAGGTTTACATGTAAAGTATCAAGGTTTACAT
Found at i:902234 original size:23 final size:23
Alignment explanation
Indices: 902070--902237 Score: 97
Period size: 23 Copynumber: 7.5 Consensus size: 23
902060 CATGTATAGG
**
902070 TGTCAAGGTTTACATGTAT--AGG
1 TGTCAA-GTTTACATGTATAAAAT
*
902092 TGTCAAGGTTTACATGTAT-AAAG
1 TGTCAA-GTTTACATGTATAAAAT
* *
902115 TGTCATGGTTTACATG--T-AAAG
1 TGTCA-AGTTTACATGTATAAAAT
* *
902136 TATCAAGGTTTACATGTTTAAAA-
1 TGTCAA-GTTTACATGTATAAAAT
*
902159 TGTCAAGGTTTACATG--T-AAAG
1 TGTCAA-GTTTACATGTATAAAAT
*
902180 TGTCAAGATTTACATGTAT-AAAG
1 TGTCAAG-TTTACATGTATAAAAT
*
902203 TATCAAAGTTTACATGTATAAAAT
1 TGTC-AAGTTTACATGTATAAAAT
*
902227 TGTTAAGTTTA
1 TGTCAAGTTTA
902238 AGATTTGTTA
Statistics
Matches: 125, Mismatches: 9, Indels: 23
0.80 0.06 0.15
Matches are distributed among these distances:
20 4 0.03
21 33 0.26
22 19 0.15
23 58 0.46
24 11 0.09
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
TGTCAAGTTTACATGTATAAAAT
Found at i:902237 original size:67 final size:67
Alignment explanation
Indices: 902027--902226 Score: 273
Period size: 67 Copynumber: 3.0 Consensus size: 67
902017 CAGTATAATG
* * *
902027 TGTCAAGGTTTACATGTAAAGTATCAAGGTTTACATGTAT-AGGTGTCAAGGTTTACATGTAT-A
1 TGTCAAGGTTTACATGTAAAGTGTCAAGGTTTACATGTATAAAGTATCAAGGTTTACATGTATAA
**
902090 GG
66 AA
* *
902092 TGTCAAGGTTTACATGTATAAAGTGTCATGGTTTACATG--TAAAGTATCAAGGTTTACATGTTT
1 TGTCAAGGTTTACATG--TAAAGTGTCAAGGTTTACATGTATAAAGTATCAAGGTTTACATGTAT
902155 AAAA
64 AAAA
* *
902159 TGTCAAGGTTTACATGTAAAGTGTCAAGATTTACATGTATAAAGTATCAAAGTTTACATGTATAA
1 TGTCAAGGTTTACATGTAAAGTGTCAAGGTTTACATGTATAAAGTATCAAGGTTTACATGTATAA
902224 AA
66 AA
902226 T
1 T
902227 TGTTAAGTTT
Statistics
Matches: 118, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
65 36 0.31
66 19 0.16
67 63 0.53
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (67 bp):
TGTCAAGGTTTACATGTAAAGTGTCAAGGTTTACATGTATAAAGTATCAAGGTTTACATGTATAA
AA
Found at i:902658 original size:30 final size:30
Alignment explanation
Indices: 902624--902932 Score: 339
Period size: 30 Copynumber: 10.0 Consensus size: 30
902614 CCCTCAGGGA
902624 TGCTCTCATCAACAGGTAAGGCACAGGTGT
1 TGCTCTCATCAACAGGTAAGGCACAGGTGT
902654 TGCTCTCATCAACAGGTAAGGCACAGGTGT
1 TGCTCTCATCAACAGGTAAGGCACAGGTGT
*
902684 TGCTCTCATCAACAGGTAAGGCAAATTAAAGGTGT
1 TGCTCTCATCAACAGGTAAGGC-----ACAGGTGT
*
902719 TGCTCTCATCAACAGGTAAGGCACAGGTAT
1 TGCTCTCATCAACAGGTAAGGCACAGGTGT
* * *** * *
902749 TGCTTTCATCAACTGTTGTGTCAAATTAAAGGCGT
1 TGCTCTCATCAAC---AG-GT-AAGGCACAGGTGT
* **
902784 TGCTTTCATCAACAGGTAAGGCACAATTGT
1 TGCTCTCATCAACAGGTAAGGCACAGGTGT
* ** *
902814 TGCTCTCATCAACAAGTAAAACAGAGGTGT
1 TGCTCTCATCAACAGGTAAGGCACAGGTGT
* * **
902844 TGCTCTCATAAACTGGTAAGGCACAATTGT
1 TGCTCTCATCAACAGGTAAGGCACAGGTGT
902874 TGCTCTCATCAACAGGTAAGGCACAGGTGT
1 TGCTCTCATCAACAGGTAAGGCACAGGTGT
*
902904 TGCTCTCATCAACAGGTAAGGCACTGGTG
1 TGCTCTCATCAACAGGTAAGGCACAGGTG
902933 ATTTCATTAG
Statistics
Matches: 230, Mismatches: 39, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
30 175 0.76
31 2 0.01
32 1 0.00
33 1 0.00
34 2 0.01
35 49 0.21
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (30 bp):
TGCTCTCATCAACAGGTAAGGCACAGGTGT
Found at i:909300 original size:83 final size:83
Alignment explanation
Indices: 909158--909319 Score: 236
Period size: 83 Copynumber: 2.0 Consensus size: 83
909148 CTGAAACTGT
* * *
909158 GCTTGTACTTTTAGTTGATAAAAGTGGAAACTGAGTCCATTTTGCAATATTTGTGGAATATAAAA
1 GCTTGTACTTTTAGTTGATAAAAATGGAAACTGAGTCCAGTTTGCAATATTTGTAGAATATAAAA
*
909223 GAGAAAGATAAAAACCTG
66 GAGAAAGAGAAAAACCTG
* ** *
909241 GCTTGTACATTTT-GTTGATAAAAATGGAAATTGAGTCGGGTTTGCAATATTTGTAGAATATAAG
1 GCTTGTAC-TTTTAGTTGATAAAAATGGAAACTGAGTCCAGTTTGCAATATTTGTAGAATATAAA
909305 AGAGAAAGAGAAAAA
65 AGAGAAAGAGAAAAA
909320 GCCACAGAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
83 66 0.94
84 4 0.06
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (83 bp):
GCTTGTACTTTTAGTTGATAAAAATGGAAACTGAGTCCAGTTTGCAATATTTGTAGAATATAAAA
GAGAAAGAGAAAAACCTG
Found at i:909462 original size:15 final size:15
Alignment explanation
Indices: 909442--909475 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
909432 ACTGTTAGGT
909442 AATAGAATATATAAA
1 AATAGAATATATAAA
909457 AATAGAATATATAAA
1 AATAGAATATATAAA
909472 AATA
1 AATA
909476 TAAAATGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAGAATATATAAA
Found at i:910421 original size:44 final size:44
Alignment explanation
Indices: 910352--910476 Score: 173
Period size: 44 Copynumber: 2.9 Consensus size: 44
910342 AACATGTATG
*
910352 ATATAAAAA-AAAATGTACATTCCATTTGAAGTCCCAATGCAAT
1 ATATAAAAATAAGATGTACATTCCATTTGAAGTCCCAATGCAAT
* * *
910395 ATATAAAAATAAGATGTACATACCATTTTAAGTCCCTATGCAAT
1 ATATAAAAATAAGATGTACATTCCATTTGAAGTCCCAATGCAAT
* *
910439 ATATAAAGAT-AGAATGTTCATTCCATTTGAAGTCCCAA
1 ATATAAAAATAAG-ATGTACATTCCATTTGAAGTCCCAA
910477 GCTCACTATT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
43 11 0.15
44 60 0.85
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.30
Consensus pattern (44 bp):
ATATAAAAATAAGATGTACATTCCATTTGAAGTCCCAATGCAAT
Found at i:912553 original size:42 final size:42
Alignment explanation
Indices: 912501--913051 Score: 806
Period size: 42 Copynumber: 13.1 Consensus size: 42
912491 ACAGCCAGAT
* * *
912501 CCCTGCCATACTCACCCCTTTTGATGGCCCAGGTAAACATTTC
1 CCCT-CCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
* *
912544 CCCTCCATACTCACCCCTTTTGATGACCCAGGTAAAAATT-C
1 CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
* **
912585 CCC-CCATATTTACTGCTTTTGATGGCCCAGGTAAAAATTAC
1 CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
* *
912626 CCCTCCATACTTACCCCCTTTGTTGGCCCAGGTAAAAATTAC
1 CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
* *
912668 CCCT-C-TGAATTCACCCCCTTTGATGGCCCAGGTAAAAAATTAC
1 CCCTCCAT-ACTT-ACCCCTTTTGATGGCCCAGGT-AAAAATTAC
*
912711 CCCTCCATACTTATCCCTTTTGATGGCCCAGGTAAAAATTAC
1 CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
*
912753 CCCTCCATACTTACCACTTTTGATGGCCCAGGTAAAAATTAC
1 CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
*
912795 CCCTCCATACTTACCACTTTTGATGGCCCAGGTAAAAATTAC
1 CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
* * *
912837 CCCTCTGA-ATTTACCCCCTTTGATGGCCCAGGTAAAAATTAC
1 CCCTC-CATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
*
912879 CCCTCCATACTTATCCCTTTTGATGGCCCAGGTAAAAATTAC
1 CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
*
912921 CCCTCCATACTTACCCTTTTTGATGGCCCAGGTAAAAATTAC
1 CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
*
912963 CCCTCCATACTTACCCCCTTTGATGGCCCAGGTAAAAATTAC
1 CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
* *
913005 CCCTCCATACTTACCCCCTTTGATGGCCCAGGTAAAAGTTAC
1 CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
*
913047 ACCTC
1 CCCTC
913052 TGAATTTACC
Statistics
Matches: 466, Mismatches: 33, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
40 32 0.07
41 13 0.03
42 379 0.81
43 37 0.08
44 4 0.01
45 1 0.00
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (42 bp):
CCCTCCATACTTACCCCTTTTGATGGCCCAGGTAAAAATTAC
Found at i:913250 original size:42 final size:42
Alignment explanation
Indices: 913160--913251 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
913150 TTGAAAGCTT
* * *
913160 AGGTAAATATTACCCCTCAATACTCATTCCCTGTGACAGCCC
1 AGGTAAATATTACCCCTCAATAATCATTCACTGTAACAGCCC
* * * *
913202 ATGTAAATATTACCCCTCAATAATCATT-ATTTTCAACAGTCC
1 AGGTAAATATTACCCCTCAATAATCATTCACTGT-AACAGCCC
913244 AGGTAAAT
1 AGGTAAAT
913252 TTCAAGCTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.05
42 39 0.95
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (42 bp):
AGGTAAATATTACCCCTCAATAATCATTCACTGTAACAGCCC
Found at i:916815 original size:21 final size:21
Alignment explanation
Indices: 916768--916824 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
916758 CCCCTTTGAA
** *
916768 TTGTCCCCCTCCTCCCCTGTG
1 TTGTCCCCCTCCTCCAATGTC
*
916789 TGGTCCCCCTCCTCCAATGTC
1 TTGTCCCCCTCCTCCAATGTC
*
916810 TTGTCCTCCTCCTCC
1 TTGTCCCCCTCCTCC
916825 CTTATCAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.04, C:0.51, G:0.12, T:0.33
Consensus pattern (21 bp):
TTGTCCCCCTCCTCCAATGTC
Found at i:917666 original size:21 final size:21
Alignment explanation
Indices: 917619--917675 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
917609 CCCCTTTGAA
** *
917619 TTGTCCCCCTCCTCCCCTGTG
1 TTGTCCCCCTCCTCCAATGTC
*
917640 TGGTCCCCCTCCTCCAATGTC
1 TTGTCCCCCTCCTCCAATGTC
*
917661 TTGTCCTCCTCCTCC
1 TTGTCCCCCTCCTCC
917676 CTTATCAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.04, C:0.51, G:0.12, T:0.33
Consensus pattern (21 bp):
TTGTCCCCCTCCTCCAATGTC
Found at i:919148 original size:10 final size:10
Alignment explanation
Indices: 919133--919220 Score: 149
Period size: 10 Copynumber: 8.8 Consensus size: 10
919123 ACATCAGGGA
919133 TTGTGGTTGT
1 TTGTGGTTGT
919143 TTGTGGTTGT
1 TTGTGGTTGT
*
919153 TTATGGTTGT
1 TTGTGGTTGT
*
919163 TTGTGATTGT
1 TTGTGGTTGT
919173 TTGTGGTTGT
1 TTGTGGTTGT
919183 TTGTGGTTGT
1 TTGTGGTTGT
*
919193 TTATGGTTGT
1 TTGTGGTTGT
919203 TTGTGGTTGT
1 TTGTGGTTGT
919213 TTGTGGTT
1 TTGTGGTT
919221 TTAAGATGTT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 72 1.00
ACGTcount: A:0.03, C:0.00, G:0.36, T:0.60
Consensus pattern (10 bp):
TTGTGGTTGT
Found at i:923960 original size:20 final size:21
Alignment explanation
Indices: 923935--923984 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
923925 GAGAAGGCGT
*
923935 TTATTACGCTC-TTTTTCGCG
1 TTATTACGCTCTTTTTTAGCG
923955 TTATTACGCTCTTTTTTAGCG
1 TTATTACGCTCTTTTTTAGCG
923976 TTATTACGC
1 TTATTACGC
923985 CTTATTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.50
Consensus pattern (21 bp):
TTATTACGCTCTTTTTTAGCG
Done.