Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold146
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: 1000955
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 102963 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:538993 original size:26 final size:26
Alignment explanation
Indices: 538952--539083 Score: 174
Period size: 26 Copynumber: 5.1 Consensus size: 26
538942 ACTTTTGTTT
538952 CTGGTACTTTTGTTTAACCCACGATA
1 CTGGTACTTTTGTTTAACCCACGATA
** **
538978 CTGAAACTTTTGTTTAACATACGATA
1 CTGGTACTTTTGTTTAACCCACGATA
**
539004 CTGGTACTTTTGTTTAACATACGATA
1 CTGGTACTTTTGTTTAACCCACGATA
*
539030 CTGGTACTTTTGTTTAACCCACGGTA
1 CTGGTACTTTTGTTTAACCCACGATA
* * *
539056 CTGGTTCTTTTGTTTAATCCACGGTA
1 CTGGTACTTTTGTTTAACCCACGATA
539082 CT
1 CT
539084 TTCACTTTTG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 95 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (26 bp):
CTGGTACTTTTGTTTAACCCACGATA
Found at i:539013 original size:93 final size:92
Alignment explanation
Indices: 538848--539044 Score: 252
Period size: 93 Copynumber: 2.1 Consensus size: 92
538838 AGCAATACTT
* * * ** *
538848 GTACTTTTGTTTCTGGAACTTTGTTTTACCCTCGATATTGGTACTTTTATTTAACCCACGATTAT
1 GTACTTTTGTTTCTGGAACTTTGTTTAACCCACGATACTGAAACTTTTATTTAACACACGATTAT
*
538913 GACACTTTTGTTTAACATGCGATAATG
66 GACACTTTTGTTTAACATACGATAATG
* * *
538940 GTACTTTTGTTTCTGGTACTTTTGTTTAACCCACGATACTGAAACTTTTGTTTAACATACGA-TA
1 GTACTTTTGTTTCTGGAAC-TTTGTTTAACCCACGATACTGAAACTTTTATTTAACACACGATTA
** *
539004 CTGGTACTTTTGTTTAACATACGATACTG
65 -TGACACTTTTGTTTAACATACGATAATG
539033 GTACTTTTGTTT
1 GTACTTTTGTTT
539045 AACCCACGGT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
92 20 0.22
93 70 0.78
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (92 bp):
GTACTTTTGTTTCTGGAACTTTGTTTAACCCACGATACTGAAACTTTTATTTAACACACGATTAT
GACACTTTTGTTTAACATACGATAATG
Found at i:539091 original size:26 final size:26
Alignment explanation
Indices: 538956--539099 Score: 139
Period size: 26 Copynumber: 5.5 Consensus size: 26
538946 TTGTTTCTGG
* *
538956 TACTTTTGTTTAACCCACGATACTGA
1 TACTTTTGTTTAACCCACGGTACTGT
* ** * *
538982 AACTTTTGTTTAACATACGATACTGG
1 TACTTTTGTTTAACCCACGGTACTGT
** * *
539008 TACTTTTGTTTAACATACGATACTGG
1 TACTTTTGTTTAACCCACGGTACTGT
539034 TACTTTTGTTTAACCCACGGTACTGGT
1 TACTTTTGTTTAACCCACGGTACT-GT
*
539061 T-CTTTTGTTTAATCCACGGTACT-T
1 TACTTTTGTTTAACCCACGGTACTGT
539085 TCACTTTTGATTTAA
1 T-ACTTTTG-TTTAA
539100 ACATATAACT
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
24 2 0.02
26 95 0.91
27 7 0.07
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (26 bp):
TACTTTTGTTTAACCCACGGTACTGT
Found at i:539091 original size:52 final size:50
Alignment explanation
Indices: 538952--539099 Score: 161
Period size: 52 Copynumber: 2.8 Consensus size: 50
538942 ACTTTTGTTT
* *
538952 CTGGTACTTTTGTTTAACCCACGATACTGAAACTTTTGTTTAACATACGATA
1 CTGGTACTTTTGTTTAA-CCACGATACTG-TACTTTTGTTTAACACACGATA
* * *
539004 CTGGTACTTTTGTTTAACATACGATACTGGTACTTTTGTTTAACCCACGGTA
1 CTGGTACTTTTGTTTAAC-CACGATACT-GTACTTTTGTTTAACACACGATA
* * *
539056 CTGGTTCTTTTGTTTAATCCACGGTACTTTCACTTTTGATTTAA
1 CTGGTACTTTTGTTTAA-CCACGATACTGT-ACTTTTG-TTTAA
539100 ACATATAACT
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
51 2 0.02
52 73 0.89
53 7 0.09
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.43
Consensus pattern (50 bp):
CTGGTACTTTTGTTTAACCACGATACTGTACTTTTGTTTAACACACGATA
Found at i:539091 original size:78 final size:80
Alignment explanation
Indices: 538952--539104 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 80
538942 ACTTTTGTTT
*
538952 CTGGTACTTTTGTTTAACCCACGATACTGAAACTTTTGTTTAACATACGATACTGGTACTTTTG-
1 CTGGTACTTTTGTTTAACCCACGATACTGAAACTTTTGTTTAACACACGATACTGGTACTTTTGA
539016 TTT-AACATACGATA
66 TTTAAACATACGATA
* *** * *
539030 CTGGTACTTTTGTTTAACCCACGGTACTGGTTCTTTTGTTTAATC-CACGGTACT-TTCACTTTT
1 CTGGTACTTTTGTTTAACCCACGATACTGAAACTTTTGTTTAA-CACACGATACTGGT-ACTTTT
539093 GATTTAAACATA
64 GATTTAAACATA
539105 TAACTGGTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
77 1 0.02
78 53 0.83
79 4 0.06
80 6 0.09
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (80 bp):
CTGGTACTTTTGTTTAACCCACGATACTGAAACTTTTGTTTAACACACGATACTGGTACTTTTGA
TTTAAACATACGATA
Found at i:541700 original size:16 final size:16
Alignment explanation
Indices: 541681--541715 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
541671 TCACTGAGAC
541681 GAGGCATCACCCTTAT
1 GAGGCATCACCCTTAT
*
541697 GAGGCATCACCTTTAT
1 GAGGCATCACCCTTAT
541713 GAG
1 GAG
541716 ACAACCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (16 bp):
GAGGCATCACCCTTAT
Found at i:542102 original size:10 final size:10
Alignment explanation
Indices: 542089--542127 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
542079 ATATGATATT
*
542089 ATATTGTATA
1 ATATTGTATG
*
542099 ATATAGTATG
1 ATATTGTATG
542109 ATATTGTATG
1 ATATTGTATG
*
542119 ATACTGTAT
1 ATATTGTAT
542128 CATTTTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (10 bp):
ATATTGTATG
Found at i:543151 original size:16 final size:16
Alignment explanation
Indices: 543130--543163 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
543120 TTAAAGATTT
543130 ACTCTATTCCTACGTA
1 ACTCTATTCCTACGTA
*
543146 ACTCTATTCCTATGTA
1 ACTCTATTCCTACGTA
543162 AC
1 AC
543164 ACTTCGACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.38
Consensus pattern (16 bp):
ACTCTATTCCTACGTA
Found at i:546113 original size:166 final size:168
Alignment explanation
Indices: 545925--546344 Score: 436
Period size: 178 Copynumber: 2.5 Consensus size: 168
545915 CTTAACCTTA
** * *
545925 TCCAGCATCGGAAACCTATGGCTCAGACTCAGCATTCAAGCCTGTCAGGTGCATCACTATCATAA
1 TCCAGCATCCAAAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAA
* * *
545990 AACACACCATCTGGTGAAGTTAGGACAAGTAATA-CCTAAGATATCAA-CATCAGAGGGCATCTG
66 AACACACCATCTGATGAAGTTAGGACAAGGAATATCCTAAGATAT-AATCATCAGAGGGCACCTG
* * **
546053 TTTC-AAAAACTTTAACCAGCTCT-TAAACCTTAACCTCC
130 -CTCAAAAAACTTTAACCAGCTCTAAAAACCTTAAAATCC
* * * * *
546091 TTCAGCATCTAAAACCTATGGCTCAGATTCAGCATTTAAGCC-GTTCAGGTGCATCAGAATAATA
1 TCCAGCATCCAAAACCTATGGCTCAGATTCAGCATTCAAGCCTG-TCAGGTGCATCAGTATCATA
* * * * * ** *
546155 AGACGCACCATCCACAAAAGTTTGATGAAGTTTGGACCAGGAGTATGTTAAGATATAATCATTAG
65 A-A---A-CA--CAC--CA-TCTGATGAAGTTAGGACAAGGAATATCCTAAGATATAATCATCAG
546220 AGGGCACCTGCTCAAAAAACTTTAACCAGCTCTAAAAACCTTAAAATCC
120 AGGGCACCTGCTCAAAAAACTTTAACCAGCTCTAAAAACCTTAAAATCC
* * *
546269 TCCAGCATCCGAAACCTATAGCTCAGATTCAGCATTCAAGCCTGTCTGGTGCATCAGTATCATAA
1 TCCAGCATCCAAAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAA
*
546334 GACACACCATC
66 AACACACCATC
546345 CATGCAAGTT
Statistics
Matches: 204, Mismatches: 34, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
165 1 0.00
166 55 0.27
167 1 0.00
168 1 0.00
169 1 0.00
170 1 0.00
171 5 0.02
173 5 0.02
174 1 0.00
175 1 0.00
176 23 0.11
177 41 0.20
178 67 0.33
179 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (168 bp):
TCCAGCATCCAAAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAA
AACACACCATCTGATGAAGTTAGGACAAGGAATATCCTAAGATATAATCATCAGAGGGCACCTGC
TCAAAAAACTTTAACCAGCTCTAAAAACCTTAAAATCC
Found at i:546301 original size:178 final size:177
Alignment explanation
Indices: 546026--546377 Score: 467
Period size: 178 Copynumber: 2.0 Consensus size: 177
546016 AAGTAATACC
* * * **
546026 TAAGATATCAACATCAGAGGGCATCTGTTTCAAAAACTTTAACCAGCTCTTAAACCTTAACCTCC
1 TAAGATATCAACATCAGAGGGCACCTGTCTCAAAAACTTTAACCAGCTCTAAAACCTTAAAATCC
* * * *
546091 TTCAGCATCTAAAACCTATGGCTCAGATTCAGCATTTAAGCC-GTTCAGGTGCATCAGAATAATA
66 TCCAGCATCCAAAACCTATAGCTCAGATTCAGCATTCAAGCCTG-TCAGGTGCATCAGAATAATA
* *
546155 AGACGCACCATCCACAAAAGTTTGATGAAGTTTGGACCAGGAGTATGT
130 AGACACACCATCCACAAAAGTTTGATGAAGTTAGGACCAGGAGTATGT
*
546203 TAAGATAT-AATCATTAGAGGGCACCTG-CTCAAAAAACTTTAACCAGCTCTAAAAACCTTAAAA
1 TAAGATATCAA-CATCAGAGGGCACCTGTCTC-AAAAACTTTAACCAGCTCT-AAAACCTTAAAA
* * * *
546266 TCCTCCAGCATCCGAAACCTATAGCTCAGATTCAGCATTCAAGCCTGTCTGGTGCATCAGTATCA
63 TCCTCCAGCATCCAAAACCTATAGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGAATAA
*** *
546331 TAAGACACACCATCCATGCAAGTTTGGTGAAGTTAGGACCAGGAGTA
128 TAAGACACACCATCCACAAAAGTTTGATGAAGTTAGGACCAGGAGTA
546378 ACTTAGATAC
Statistics
Matches: 151, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
176 4 0.03
177 41 0.27
178 105 0.70
179 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (177 bp):
TAAGATATCAACATCAGAGGGCACCTGTCTCAAAAACTTTAACCAGCTCTAAAACCTTAAAATCC
TCCAGCATCCAAAACCTATAGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGAATAATAA
GACACACCATCCACAAAAGTTTGATGAAGTTAGGACCAGGAGTATGT
Found at i:554313 original size:31 final size:31
Alignment explanation
Indices: 554278--554341 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
554268 TGATGTGTTT
554278 AAATATTTTGAGGTAATCGATCGTCTTTATA
1 AAATATTTTGAGGTAATCGATCGTCTTTATA
*
554309 AAATATTTTGAGGTTATCGATCGTCTTTATA
1 AAATATTTTGAGGTAATCGATCGTCTTTATA
554340 AA
1 AA
554342 TGTACATGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (31 bp):
AAATATTTTGAGGTAATCGATCGTCTTTATA
Found at i:555336 original size:34 final size:34
Alignment explanation
Indices: 555298--555420 Score: 138
Period size: 34 Copynumber: 3.6 Consensus size: 34
555288 TGTTAAACAN
555298 TAGTACACACGACTCTGCATGTGAACCAGAAAAA
1 TAGTACACACGACTCTGCATGTGAACCAGAAAAA
* * * *
555332 TAGTACAGACAACTCTGCATGTGCATCAGAGAAAA
1 TAGTACACACGACTCTGCATGTGAACCAGA-AAAA
** * * *
555367 GGGTATACACGTCTCTGCATGTGAACCAGTAAAA
1 TAGTACACACGACTCTGCATGTGAACCAGAAAAA
* *
555401 TAGTACATATGACTCTGCAT
1 TAGTACACACGACTCTGCAT
555421 ATGGAAAGAG
Statistics
Matches: 69, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
34 44 0.64
35 25 0.36
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (34 bp):
TAGTACACACGACTCTGCATGTGAACCAGAAAAA
Found at i:555455 original size:69 final size:68
Alignment explanation
Indices: 555304--555434 Score: 165
Period size: 69 Copynumber: 1.9 Consensus size: 68
555294 ACANTAGTAC
* * *
555304 ACACGACTCTGCATGTGAACCAGAAAAATAGTACAGACAACTCTGCATGTGCATCAGAGAAAAGG
1 ACACGTCTCTGCATGTGAACCAGAAAAATAGTACAGACAACTCTGCATATGCATAAGAGAAAA-G
*
555369 GTAT
65 ATAT
* * ** *
555373 ACACGTCTCTGCATGTGAACCAGTAAAATAGTACATATGACTCTGCATATGGA-AAGAGAAAA
1 ACACGTCTCTGCATGTGAACCAGAAAAATAGTACAGACAACTCTGCATATGCATAAGAGAAAA
555435 ATCATGACAG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
68 8 0.15
69 46 0.85
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (68 bp):
ACACGTCTCTGCATGTGAACCAGAAAAATAGTACAGACAACTCTGCATATGCATAAGAGAAAAGA
TAT
Found at i:555527 original size:33 final size:33
Alignment explanation
Indices: 555490--555552 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
555480 ATTAACTTGA
* *
555490 AACAATTAACTTTCTAGAAAAATTAAATAAAAT
1 AACAATTAACTCTCTAGAAAAATAAAATAAAAT
*
555523 AACAATTTACTCTCTAGAAAAATAAAATAA
1 AACAATTAACTCTCTAGAAAAATAAAATAA
555553 CCATGAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (33 bp):
AACAATTAACTCTCTAGAAAAATAAAATAAAAT
Found at i:556618 original size:14 final size:14
Alignment explanation
Indices: 556595--556629 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
556585 AGTAAAATAC
556595 TATATCATACAAAT
1 TATATCATACAAAT
* *
556609 TATATTATACATAT
1 TATATCATACAAAT
556623 TATATCA
1 TATATCA
556630 AATGATACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATCATACAAAT
Found at i:556873 original size:27 final size:27
Alignment explanation
Indices: 556818--556874 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
556808 AATATCATAT
* *
556818 TATACAATACTGTATGATACAATAGAA
1 TATACAATACTGTATCATACAATACAA
* **
556845 TATACAATATTGTATCATAGGATACAA
1 TATACAATACTGTATCATACAATACAA
556872 TAT
1 TAT
556875 TATATATTGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (27 bp):
TATACAATACTGTATCATACAATACAA
Found at i:558857 original size:176 final size:176
Alignment explanation
Indices: 558563--559361 Score: 903
Period size: 177 Copynumber: 4.5 Consensus size: 176
558553 TTCAACTCAC
* * *
558563 CCAGCATCCGAAACCTATGACTCAGATTCAGCATTCAAGCCTTTCAGGTGCATCAGTATTATAAG
1 CCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAAG
* * * *
558628 ACGCACCATCTATGGAAGTTTAGTGAAGTTAGGACAAGTAATAACTAAGATATCATCATCAGAGG
66 ACACACCATCCATGGAAGTTTGGTGAAGTAAGGACAAGTAATAACTAAGATATCATCATCAGAGG
558693 GCACCTGCT-CAAAAACTTTAACAAGCACTAAAAACCTTAACCTCCA
131 GCACCTG-TACAAAAACTTTAACAAGCACTAAAAACCTTAACCTCCA
* * *
558739 CCAGCATCCAAAACCTATGGCTCAGACTCAGCATTCAAGCTTGTCAGGTGCATCAGTATCATAAG
1 CCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAAG
* * *
558804 ACGCACCATCCTTGGAAGTTTGGTGAAGTAAGGACAAGTAATAACGAAGATATCATCATCAGAGG
66 ACACACCATCCATGGAAGTTTGGTGAAGTAAGGACAAGTAATAACTAAGATATCATCATCAGAGG
* * ** *
558869 TCACCTGTAACAAAAACTTTAACCAA-CTCTTGAAACCTTTACCT-CA
131 GCACCTGT-ACAAAAACTTTAA-CAAGCACTAAAAACCTTAACCTCCA
* * * * * *
558915 TCCAGCATCCGAAACCTATAGCTCAGATTCAGTACTCAAGCCTGTCTGGTGCATAAATATCATAA
1 -CCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAA
* ** * * * * *
558980 GACACACCATCCACGCG-AGTTTAATGAAGTTAGGACCAGGAGTAACTAAGATATAATCATCAGA
65 GACACACCATCCATG-GAAGTTTGGTGAAGTAAGGACAAGTAATAACTAAGATATCATCATCAGA
* *
559044 GGGCACCTGCT-CAAAAATCTTTAACAAGCACTAAAAACCTAAACCTCCT
129 GGGCACCTG-TACAAAAA-CTTTAACAAGCACTAAAAACCTTAACCTCCA
** * * * *
559093 TAAGCATCCAAAACCTATGGCTCAGATTCAGCATTCAAGCCTGCCATGTGCATCAGTATTATAAG
1 CCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAAG
* ** * * * *
559158 ACATACCATCCATACAAGTTTGGTGAAGTAAGGACAATTCGA-AACTAAGATATTATTATCAGAG
66 ACACACCATCCATGGAAGTTTGGTGAAGTAAGGACAAGT-AATAACTAAGATATCATCATCAGAG
* * * ***
559222 GGCACCTGTAACAAAAACTTTAACCAGCTCT-AAAACGTTAACCTTTT
130 GGCACCTGT-ACAAAAACTTTAACAAGCACTAAAAACCTTAACCTCCA
* ** * * *
559269 CCAGCATCCGAAACCTATAGCTCAGATTCAGCACCCAAGCCTGTCTGGT-CTATAAGTATCCTAA
1 CCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCAGGTGC-ATCAGTATCATAA
* *
559333 GACACACCATACATGCAAGTTTGGTGAAG
65 GACACACCATCCATGGAAGTTTGGTGAAG
559362 AACAGAGCAG
Statistics
Matches: 519, Mismatches: 90, Indels: 28
0.81 0.14 0.04
Matches are distributed among these distances:
175 2 0.00
176 225 0.43
177 280 0.54
178 12 0.02
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (176 bp):
CCAGCATCCGAAACCTATGGCTCAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAAG
ACACACCATCCATGGAAGTTTGGTGAAGTAAGGACAAGTAATAACTAAGATATCATCATCAGAGG
GCACCTGTACAAAAACTTTAACAAGCACTAAAAACCTTAACCTCCA
Found at i:559276 original size:353 final size:353
Alignment explanation
Indices: 558558--559342 Score: 1094
Period size: 353 Copynumber: 2.2 Consensus size: 353
558548 AAAAATTCAA
* * * * *
558558 CTCACCCAGCATCCGAAACCTAT-GACTCAGATTCAGCATTCAAGCCTTTCAGGTGCATCAGTAT
1 CTCATCCAGCATCCGAAACCTATAG-CTCAGATTCAGCACTCAAGCCTGTCTGGTGCATAAGTAT
* * * * * * *
558622 TATAAGACGCACCATCTATGGAAGTTTAGTGAAGTTAGGACAAGTAATAACTAAGATATCATCAT
65 CATAAGACACACCATCCACGGAAGTTTAATGAAGTTAGGACAAGGAATAACTAAGATATAATCAT
* *
558687 CAGAGGGCACCTGCTCAAAAACTTTAACAAGCACTAAAAACCTTAACCTCCACCAGCATCCAAAA
130 CAGAGGGCACCTGCTCAAAAACTTTAACAAGCACTAAAAACCTAAACCTCCACAAGCATCCAAAA
* * * *
558752 CCTATGGCTCAGACTCAGCATTCAAGCTTGTCAGGTGCATCAGTATCATAAGACGCACCATCCTT
195 CCTATGGCTCAGACTCAGCATTCAAGCCTGCCAGGTGCATCAGTATCATAAGACACACCATCCAT
** *
558817 GGAAGTTTGGTGAAGTAAGGACAAGTAATAACGAAGATATCATCATCAGAGGTCACCTGTAACAA
260 ACAAGTTTGGTGAAGTAAGGACAAGTAATAACGAAGATATCATCATCAGAGGGCACCTGTAACAA
* *
558882 AAACTTTAACCAACTCTTGAAACCTTTAC
325 AAACTTTAACCAACTCTTAAAACCTTAAC
* *
558911 CTCATCCAGCATCCGAAACCTATAGCTCAGATTCAGTACTCAAGCCTGTCTGGTGCATAAATATC
1 CTCATCCAGCATCCGAAACCTATAGCTCAGATTCAGCACTCAAGCCTGTCTGGTGCATAAGTATC
* *
558976 ATAAGACACACCATCCACGCG-AGTTTAATGAAGTTAGGACCAGGAGTAACTAAGATATAATCAT
66 ATAAGACACACCATCCACG-GAAGTTTAATGAAGTTAGGACAAGGAATAACTAAGATATAATCAT
**
559040 CAGAGGGCACCTGCTCAAAAATCTTTAACAAGCACTAAAAACCTAAACCTCCTTAAGCATCCAAA
130 CAGAGGGCACCTGCTCAAAAA-CTTTAACAAGCACTAAAAACCTAAACCTCCACAAGCATCCAAA
* * * *
559105 ACCTATGGCTCAGATTCAGCATTCAAGCCTGCCATGTGCATCAGTATTATAAGACATACCATCCA
194 ACCTATGGCTCAGACTCAGCATTCAAGCCTGCCAGGTGCATCAGTATCATAAGACACACCATCCA
* * * * *
559170 TACAAGTTTGGTGAAGTAAGGACAATTCGA-AACTAAGATATTATTATCAGAGGGCACCTGTAAC
259 TACAAGTTTGGTGAAGTAAGGACAAGT-AATAACGAAGATATCATCATCAGAGGGCACCTGTAAC
* *
559234 AAAAACTTTAACCAGCTC-TAAAACGTTAAC
323 AAAAACTTTAACCAACTCTTAAAACCTTAAC
** *
559264 CTTTTCCAGCATCCGAAACCTATAGCTCAGATTCAGCACCCAAGCCTGTCTGGT-CTATAAGTAT
1 CTCATCCAGCATCCGAAACCTATAGCTCAGATTCAGCACTCAAGCCTGTCTGGTGC-ATAAGTAT
*
559328 CCTAAGACACACCAT
65 CATAAGACACACCAT
559343 ACATGCAAGT
Statistics
Matches: 381, Mismatches: 46, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
352 1 0.00
353 210 0.55
354 169 0.44
355 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (353 bp):
CTCATCCAGCATCCGAAACCTATAGCTCAGATTCAGCACTCAAGCCTGTCTGGTGCATAAGTATC
ATAAGACACACCATCCACGGAAGTTTAATGAAGTTAGGACAAGGAATAACTAAGATATAATCATC
AGAGGGCACCTGCTCAAAAACTTTAACAAGCACTAAAAACCTAAACCTCCACAAGCATCCAAAAC
CTATGGCTCAGACTCAGCATTCAAGCCTGCCAGGTGCATCAGTATCATAAGACACACCATCCATA
CAAGTTTGGTGAAGTAAGGACAAGTAATAACGAAGATATCATCATCAGAGGGCACCTGTAACAAA
AACTTTAACCAACTCTTAAAACCTTAAC
Found at i:560366 original size:17 final size:17
Alignment explanation
Indices: 560346--560381 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
560336 CGGAACGGAA
* *
560346 AACGGAACGGAAAGCGG
1 AACGGAAAGGAAAACGG
560363 AACGGAAAGGAAAACGG
1 AACGGAAAGGAAAACGG
560380 AA
1 AA
560382 AATCTTATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.14, G:0.36, T:0.00
Consensus pattern (17 bp):
AACGGAAAGGAAAACGG
Found at i:560371 original size:12 final size:12
Alignment explanation
Indices: 560335--560371 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
560325 TTGCTAAAAC
560335 GCGGAACGGAAA
1 GCGGAACGGAAA
*
560347 ACGGAACGGAAA
1 GCGGAACGGAAA
560359 GCGGAACGGAAA
1 GCGGAACGGAAA
560371 G
1 G
560372 GAAAACGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.43, C:0.16, G:0.41, T:0.00
Consensus pattern (12 bp):
GCGGAACGGAAA
Found at i:563473 original size:5 final size:5
Alignment explanation
Indices: 563463--563487 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
563453 AAAGTTGACA
563463 AGGAT AGGAT AGGAT AGGAT AGGAT
1 AGGAT AGGAT AGGAT AGGAT AGGAT
563488 GCAGGATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (5 bp):
AGGAT
Found at i:573593 original size:20 final size:21
Alignment explanation
Indices: 573555--573595 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
573545 AATTAGGTCC
573555 ACTCGCGGTTTACTTTGGGTT
1 ACTCGCGGTTTACTTTGGGTT
*
573576 ACTCGGGGTTTA-TTTGGGTT
1 ACTCGCGGTTTACTTTGGGTT
573596 TGTTTGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.10, C:0.15, G:0.32, T:0.44
Consensus pattern (21 bp):
ACTCGCGGTTTACTTTGGGTT
Found at i:576712 original size:11 final size:11
Alignment explanation
Indices: 576697--576746 Score: 66
Period size: 11 Copynumber: 4.6 Consensus size: 11
576687 TTTGGGGGGT
576697 TTTTTTGTTTG
1 TTTTTTGTTTG
* *
576708 GTTTTTGGTTG
1 TTTTTTGTTTG
*
576719 TTTTTTATTTG
1 TTTTTTGTTTG
576730 TTTTTTGTTT-
1 TTTTTTGTTTG
576740 TTTTTTG
1 TTTTTTG
576747 GGGGGGGGGN
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 7 0.21
11 26 0.79
ACGTcount: A:0.02, C:0.00, G:0.18, T:0.80
Consensus pattern (11 bp):
TTTTTTGTTTG
Found at i:576722 original size:22 final size:21
Alignment explanation
Indices: 576697--576746 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
576687 TTTGGGGGGT
576697 TTTTTTGTTTGGTTTTTGGTTG
1 TTTTTTGTTT-GTTTTTGGTTG
* * *
576719 TTTTTTATTTGTTTTTTGTTT
1 TTTTTTGTTTGTTTTTGGTTG
576740 TTTTTTG
1 TTTTTTG
576747 GGGGGGGGGN
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.02, C:0.00, G:0.18, T:0.80
Consensus pattern (21 bp):
TTTTTTGTTTGTTTTTGGTTG
Found at i:576871 original size:171 final size:170
Alignment explanation
Indices: 576586--576903 Score: 627
Period size: 171 Copynumber: 1.9 Consensus size: 170
576576 CCACTTCCAC
576586 ATTTTTAAAAATATTCTGTTAAATTCAACAAAGATATGTTTAATCATTTTTTTTTTCATGGAGGT
1 ATTTTTAAAAATATTCTGTTAAATTCAACAAAGATATGTTTAATCATTTTTTTTTTCATGGAGGT
576651 GATCCATTTGTTTTTTGTTTTTGTTTGTTTGCTTGTTTTGGGGGGTTTTTTTGTTTGGTTTTTGG
66 GATCCATTTGTTTTTTGTTTTTGTTTGTTTGCTTGTTTTGGGGGGTTTTTTTGTTTGGTTTTTGG
576716 TTGTTTTTTATTTGTTTTTTGTTTTTTTTTGGGGGGGGGG
131 TTGTTTTTTATTTGTTTTTTGTTTTTTTTTGGGGGGGGGG
576756 NATTTTTAAAAATATTCTGTTAAATTCAACAAAGATATGTTTAATCATTTTTTTTTTCATGGAGG
1 -ATTTTTAAAAATATTCTGTTAAATTCAACAAAGATATGTTTAATCATTTTTTTTTTCATGGAGG
576821 TGATCCATTTGTTTTTTGTTTTTGTTTGTTTGCTTGTTTTGGGGGGTTTTTTTGTTTGGTTTTTG
65 TGATCCATTTGTTTTTTGTTTTTGTTTGTTTGCTTGTTTTGGGGGGTTTTTTTGTTTGGTTTTTG
576886 GTTGTTTTTTATTTGTTT
130 GTTGTTTTTTATTTGTTT
576904 NGGGGGGCCC
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 147 1.00
ACGTcount: A:0.16, C:0.05, G:0.20, T:0.58
Consensus pattern (170 bp):
ATTTTTAAAAATATTCTGTTAAATTCAACAAAGATATGTTTAATCATTTTTTTTTTCATGGAGGT
GATCCATTTGTTTTTTGTTTTTGTTTGTTTGCTTGTTTTGGGGGGTTTTTTTGTTTGGTTTTTGG
TTGTTTTTTATTTGTTTTTTGTTTTTTTTTGGGGGGGGGG
Found at i:580558 original size:21 final size:21
Alignment explanation
Indices: 580528--580576 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
580518 GTAAAAGCTA
*
580528 TGATTCAGAGTTTGGGAATGT
1 TGATTTAGAGTTTGGGAATGT
580549 TGATTTAGAGTTTGGGAATGT
1 TGATTTAGAGTTTGGGAATGT
580570 TGATTTA
1 TGATTTA
580577 AAATTGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.02, G:0.31, T:0.43
Consensus pattern (21 bp):
TGATTTAGAGTTTGGGAATGT
Found at i:593951 original size:15 final size:15
Alignment explanation
Indices: 593933--593963 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
593923 CTTGTGTTTC
593933 TTTTT-TGTTTTTAT
1 TTTTTGTGTTTTTAT
593947 TTTTTGTGTTTTTAT
1 TTTTTGTGTTTTTAT
593962 TT
1 TT
593964 GAAAAAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.84
Consensus pattern (15 bp):
TTTTTGTGTTTTTAT
Found at i:613784 original size:4 final size:4
Alignment explanation
Indices: 613775--613853 Score: 77
Period size: 4 Copynumber: 19.8 Consensus size: 4
613765 ATAGTGAATG
* * * * * * * *
613775 ATAT ATAT ATAT ATAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
*
613823 ATAT AGAT ATAT ATAT ATAT ATAT ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
613854 AAGCACAGAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (4 bp):
ATAT
Found at i:613853 original size:12 final size:12
Alignment explanation
Indices: 613775--613851 Score: 91
Period size: 12 Copynumber: 6.4 Consensus size: 12
613765 ATAGTGAATG
* *
613775 ATATATATATAT
1 ATATAGATAGAT
613787 ATATAGATAGAT
1 ATATAGATAGAT
*
613799 AGATAGATAGAT
1 ATATAGATAGAT
*
613811 AGATAGATAGAT
1 ATATAGATAGAT
*
613823 ATATAGATATAT
1 ATATAGATAGAT
* *
613835 ATATATATATAT
1 ATATAGATAGAT
613847 ATATA
1 ATATA
613852 TAAAGCACAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.38
Consensus pattern (12 bp):
ATATAGATAGAT
Found at i:614741 original size:163 final size:166
Alignment explanation
Indices: 614349--614807 Score: 597
Period size: 172 Copynumber: 2.8 Consensus size: 166
614339 GGAAGAACAG
614349 ACTACCTGAGGATGCTTCCACACAAGTGTCAGCTTTCCTGGCCGATTAGTTTCTGAGAA-ATAGA
1 ACTACCTGAGGATGCTTCCACACAAGTGTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGA-AGA
** * *
614413 TTTTTAAAGATTTACTTTATATATTCATATGTTAAACTTCGACCCCCCCCCCCCATTGTGGCCCC
65 TTTTTAAAGATTTACTCAATATATTCACATGTAAAACTTCGA-----CCCCCCCATTGTGGCCCC
614478 ACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTAC
125 ACCCTACCCCCGGGGGTCATGATTTT-ACAACTTTGAATCTAC
* * *
614521 ACTACCTGAGGATGCTTCCACACAAGTGTCAGCTTTCCGGGCCAATTAGTGTCTGAGAAGAAGAT
1 ACTACCTGAGGATGCTTCCACACAAGTGTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGAAGAT
* * * * *
614586 TTTTAAAGATTTACTCAATATATTCCCATGTAAAACTTGGA-TCTCCCATTGTGGCCCCATCCTA
66 TTTTAAAGATTTACTCAATATATTCACATGTAAAACTTCGACCCCCCCATTGTGGCCCCACCCTA
614650 CCCCCGGGGGTCATGATTTT-C-ACTTTGAATCTAC
131 CCCCCGGGGGTCATGATTTTACAACTTTGAATCTAC
* * * * * *
614684 ATTACCTGATGACGCTTTCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGAT
1 ACTACCTGAGGATGCTTCCACACAAGTGTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGAAGAT
* * * ** *
614749 TTTTAAAGATTCATTCTA-ATATTCATTTGTTAAACTTCGA-CCCCCCATTGTGGCCCCAC
66 TTTTAAAGATTTACTCAATATATTCACATGTAAAACTTCGACCCCCCCATTGTGGCCCCAC
614808 TTTCAGGTGA
Statistics
Matches: 254, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
162 33 0.13
163 84 0.33
164 1 0.00
166 40 0.16
172 95 0.37
173 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (166 bp):
ACTACCTGAGGATGCTTCCACACAAGTGTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGAAGAT
TTTTAAAGATTTACTCAATATATTCACATGTAAAACTTCGACCCCCCCATTGTGGCCCCACCCTA
CCCCCGGGGGTCATGATTTTACAACTTTGAATCTAC
Found at i:616144 original size:12 final size:12
Alignment explanation
Indices: 616127--616172 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
616117 TAAAAAGTTT
616127 ACAGACGGACAG
1 ACAGACGGACAG
616139 ACAGACGGACAG
1 ACAGACGGACAG
* *
616151 ACGGACGGACGG
1 ACAGACGGACAG
616163 AC-GACGGACA
1 ACAGACGGACA
616173 AAATGTGATC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.37, C:0.26, G:0.37, T:0.00
Consensus pattern (12 bp):
ACAGACGGACAG
Found at i:616157 original size:4 final size:4
Alignment explanation
Indices: 616130--616171 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
616120 AAAGTTTACA
* * *
616130 GACG GACA GACA GACG GACA GACG GACG GACG GAC- GACG GAC
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GAC
616172 AAAATGTGAT
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:0.33, C:0.26, G:0.40, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:619159 original size:2 final size:2
Alignment explanation
Indices: 619152--619190 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
619142 GGAAATTCTT
*
619152 TC TC TC TC TC TT TC T- 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
619191 AGAATAAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:632268 original size:22 final size:23
Alignment explanation
Indices: 632223--632268 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
632213 ACACTAAACC
* *
632223 CTGGGTTTACTTTCTGGGTTAACT
1 CTGGGTTTAC-TTCCGGGTGAACT
632247 CTGGGTTTAC-TCCGGGTGAACT
1 CTGGGTTTACTTCCGGGTGAACT
632269 AGATTGGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
24 10 0.50
ACGTcount: A:0.13, C:0.20, G:0.28, T:0.39
Consensus pattern (23 bp):
CTGGGTTTACTTCCGGGTGAACT
Found at i:635136 original size:14 final size:14
Alignment explanation
Indices: 635117--635143 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
635107 TAAACGATAA
635117 AGTGACATTGAAGG
1 AGTGACATTGAAGG
635131 AGTGACATTGAAG
1 AGTGACATTGAAG
635144 TAAAATGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.22
Consensus pattern (14 bp):
AGTGACATTGAAGG
Found at i:637915 original size:37 final size:36
Alignment explanation
Indices: 637874--638000 Score: 139
Period size: 37 Copynumber: 3.4 Consensus size: 36
637864 GAAAAAAAAC
*
637874 TAGCTACCAGTAACTGGCTACGAGATGAAATAAACGA
1 TAGCTACTAGTAACTGGCTACGAGATGAAA-AAACGA
* * *
637911 TAGCTTCTAGTAACTGGCTACGAAGAGTGAGAAAA-GC
1 TAGCTACTAGTAACTGGCTACG-AGA-TGAAAAAACGA
* **
637948 TAGCTATTAGTAACTGGCTACGAGATGAAAGAAACTT
1 TAGCTACTAGTAACTGGCTACGAGATGAAA-AAACGA
*
637985 TGGCTACTAGTAACTG
1 TAGCTACTAGTAACTG
638001 TCCAATTGAC
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
35 4 0.05
36 6 0.08
37 55 0.73
38 6 0.08
39 4 0.05
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (36 bp):
TAGCTACTAGTAACTGGCTACGAGATGAAAAAACGA
Found at i:643239 original size:17 final size:17
Alignment explanation
Indices: 643217--643251 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
643207 AGAAATTGTG
643217 TCGTTATAGTATGTGGA
1 TCGTTATAGTATGTGGA
643234 TCGTTATAGTATGTGGA
1 TCGTTATAGTATGTGGA
643251 T
1 T
643252 GACCTAACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.43
Consensus pattern (17 bp):
TCGTTATAGTATGTGGA
Found at i:646539 original size:2 final size:2
Alignment explanation
Indices: 646532--646571 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
646522 TATATTCAAT
*
646532 GA GA GA GA GA GA GA GA TA 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
646572 CTTATTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:650139 original size:21 final size:21
Alignment explanation
Indices: 650095--650140 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
650085 GCGGAGCGGA
**
650095 GAGCGCAAGTGAACGCACGGT
1 GAGCGCAAGTGAACGCACAAT
650116 GAGCGCACA-TGAACGCACAAT
1 GAGCGCA-AGTGAACGCACAAT
650137 GAGC
1 GAGC
650141 CCATGGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.26, G:0.33, T:0.09
Consensus pattern (21 bp):
GAGCGCAAGTGAACGCACAAT
Found at i:650607 original size:18 final size:18
Alignment explanation
Indices: 650572--650607 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
650562 CTTTTCATGC
*
650572 TATTTTCATCAATGAATT
1 TATTTTCATAAATGAATT
*
650590 TATTTTCATAAATTAATT
1 TATTTTCATAAATGAATT
650608 ATAATGTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (18 bp):
TATTTTCATAAATGAATT
Found at i:659381 original size:12 final size:12
Alignment explanation
Indices: 659360--659435 Score: 125
Period size: 12 Copynumber: 6.3 Consensus size: 12
659350 TGAGAGGAGC
659360 TGATGATGAGGA
1 TGATGATGAGGA
*
659372 TGATGCTGAGGA
1 TGATGATGAGGA
659384 TGATGATGAGGA
1 TGATGATGAGGA
*
659396 TGATGCTGAGGA
1 TGATGATGAGGA
*
659408 TGATGCTGAGGA
1 TGATGATGAGGA
659420 TGATGATGAGGA
1 TGATGATGAGGA
659432 TGAT
1 TGAT
659436 TACGATGATG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 60 1.00
ACGTcount: A:0.29, C:0.04, G:0.41, T:0.26
Consensus pattern (12 bp):
TGATGATGAGGA
Found at i:659406 original size:36 final size:36
Alignment explanation
Indices: 659360--659435 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
659350 TGAGAGGAGC
659360 TGATGATGAGGATGATGCTGAGGATGATGATGAGGA
1 TGATGATGAGGATGATGCTGAGGATGATGATGAGGA
*
659396 TGATGCTGAGGATGATGCTGAGGATGATGATGAGGA
1 TGATGATGAGGATGATGCTGAGGATGATGATGAGGA
659432 TGAT
1 TGAT
659436 TACGATGATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.29, C:0.04, G:0.41, T:0.26
Consensus pattern (36 bp):
TGATGATGAGGATGATGCTGAGGATGATGATGAGGA
Found at i:659445 original size:24 final size:24
Alignment explanation
Indices: 659367--659447 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
659357 AGCTGATGAT
* *
659367 GAGGATGATGCTGAGGATGATGAT
1 GAGGATGATGCTGAGGATGATTAC
*
659391 GAGGATGATGCTGAGGATGA-TGC
1 GAGGATGATGCTGAGGATGATTAC
*
659414 TGAGGATGATGATGAGGATGATTAC
1 -GAGGATGATGCTGAGGATGATTAC
*
659439 GATGATGAT
1 GAGGATGAT
659448 CATAGTATAG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 47 0.96
25 2 0.04
ACGTcount: A:0.30, C:0.05, G:0.40, T:0.26
Consensus pattern (24 bp):
GAGGATGATGCTGAGGATGATTAC
Found at i:661795 original size:2 final size:2
Alignment explanation
Indices: 661788--661843 Score: 80
Period size: 2 Copynumber: 29.0 Consensus size: 2
661778 TTGAGTCGTT
*
661788 GA GA GA GA GA GA TA -A G- 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
*
661828 GA AA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
661844 ATCAGTGTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.52, C:0.00, G:0.46, T:0.02
Consensus pattern (2 bp):
GA
Found at i:663009 original size:21 final size:21
Alignment explanation
Indices: 662983--663085 Score: 86
Period size: 21 Copynumber: 4.8 Consensus size: 21
662973 TCAATCTGCT
662983 CACTGCTATTACTACACTGTC
1 CACTGCTATTACTACACTGTC
* *
663004 CACTGCTACTATTACACACACTG-A
1 CACTG---CTATTAC-TACACTGTC
* *
663028 C-CTGCT-TCTAATACACTGTT
1 CACTGCTAT-TACTACACTGTC
663048 CACTGCTATTACTACACTGTC
1 CACTGCTATTACTACACTGTC
* *
663069 CACTGCTACTATTACAC
1 CACTGCTATTACTACAC
663086 ACACTGTACC
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
19 7 0.11
20 5 0.08
21 35 0.54
22 1 0.02
23 3 0.05
24 8 0.12
25 6 0.09
ACGTcount: A:0.26, C:0.33, G:0.09, T:0.32
Consensus pattern (21 bp):
CACTGCTATTACTACACTGTC
Found at i:663108 original size:65 final size:65
Alignment explanation
Indices: 662982--663110 Score: 215
Period size: 65 Copynumber: 2.0 Consensus size: 65
662972 ATCAATCTGC
* *
662982 TCACTGCTATTACTACACTGTCCACTGCTACTATTACACACACTGACCTGCTTCTAATACACTGT
1 TCACTGCTATTACTACACTGTCCACTGCTACTATTACACACACTGACCTACTTCGAATACACTGT
*
663047 TCACTGCTATTACTACACTGTCCACTGCTACTATTACACACACTGTACC-ACTTCGACTACACTG
1 TCACTGCTATTACTACACTGTCCACTGCTACTATTACACACACTG-ACCTACTTCGAATACACTG
663111 CTCCTGTTAC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 57 0.95
66 3 0.05
ACGTcount: A:0.26, C:0.33, G:0.09, T:0.31
Consensus pattern (65 bp):
TCACTGCTATTACTACACTGTCCACTGCTACTATTACACACACTGACCTACTTCGAATACACTGT
Found at i:663191 original size:28 final size:29
Alignment explanation
Indices: 663154--663228 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
663144 GTGAACGGTG
663154 CCTCCTCAGTGTGGGGAGTG-AAAATCTA
1 CCTCCTCAGTGTGGGGAGTGAAAAATCTA
*
663182 CCTCCACAGTGTGGGGAGTGAAAAATCTA
1 CCTCCTCAGTGTGGGGAGTGAAAAATCTA
663211 CCTCCTCAGTGTGGGGAG
1 CCTCCTCAGTGTGGGGAG
663229 GGAATACATA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 19 0.43
29 25 0.57
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (29 bp):
CCTCCTCAGTGTGGGGAGTGAAAAATCTA
Found at i:675217 original size:2 final size:2
Alignment explanation
Indices: 675155--675198 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
675145 ACTTCACACT
675155 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
675197 AG
1 AG
675199 GAATAAAGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:679573 original size:19 final size:19
Alignment explanation
Indices: 679557--679597 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
679547 GATATCATTT
679557 CTGACAGTTGATCTCATAC
1 CTGACAGTTGATCTCATAC
* * *
679576 CTGAGAGTTGATGTCTTAC
1 CTGACAGTTGATCTCATAC
679595 CTG
1 CTG
679598 TAGACAGCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (19 bp):
CTGACAGTTGATCTCATAC
Found at i:682443 original size:2 final size:2
Alignment explanation
Indices: 682438--682493 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
682428 ATCTTCCTGT
*
682438 TC TC TC TC TC TC TC TC CC 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
682480 TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
682494 CACTGACAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:687981 original size:2 final size:2
Alignment explanation
Indices: 687974--688017 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
687964 AGATGCTTTT
687974 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
688016 GA
1 GA
688018 AGCAGTTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:699744 original size:2 final size:2
Alignment explanation
Indices: 699737--699774 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
699727 AAAAGCTATG
699737 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
699775 GCTCAGCTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:709309 original size:20 final size:20
Alignment explanation
Indices: 709286--709325 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
709276 TGGTAAATAA
709286 TGGAAACTTAAGATAAACAT
1 TGGAAACTTAAGATAAACAT
*
709306 TGGAAACTTAAGGTAAACAT
1 TGGAAACTTAAGATAAACAT
709326 ACTGATCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.25
Consensus pattern (20 bp):
TGGAAACTTAAGATAAACAT
Found at i:709821 original size:18 final size:18
Alignment explanation
Indices: 709789--710034 Score: 219
Period size: 18 Copynumber: 13.6 Consensus size: 18
709779 TTATTTAACT
*
709789 TTTGACACA-AATTGACC
1 TTTGACACAGATTTGACC
* *
709806 TTTGAAACATATTTGACC
1 TTTGACACAGATTTGACC
* *
709824 TTTAAGACAGATTTGA-C
1 TTTGACACAGATTTGACC
* * *
709841 TTTGGGCACAGATTCGAAC
1 TTT-GACACAGATTTGACC
* * *
709860 TTTGGAAAACATATTTGGCC
1 TTT-G-ACACAGATTTGACC
*
709880 TCTGACACAGATTTGACC
1 TTTGACACAGATTTGACC
709898 TTTGACACAGATTTGACC
1 TTTGACACAGATTTGACC
* *
709916 TTTGCCACAAATTTGACC
1 TTTGACACAGATTTGACC
* *
709934 TTTGCCACAGATTTGGCC
1 TTTGACACAGATTTGACC
*
709952 TTTGACATAGATTTGACC
1 TTTGACACAGATTTGACC
* *
709970 TTTGCCACAAATTTGACC
1 TTTGACACAGATTTGACC
*
709988 TTTGCCACAGATTT-AGCC
1 TTTGACACAGATTTGA-CC
* * * *
710006 TTTGATATAGCTTTGAAC
1 TTTGACACAGATTTGACC
710024 TTTGACACAGA
1 TTTGACACAGA
710035 CTGTTGGGTT
Statistics
Matches: 184, Mismatches: 39, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
17 13 0.07
18 153 0.83
19 8 0.04
20 10 0.05
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (18 bp):
TTTGACACAGATTTGACC
Found at i:722589 original size:18 final size:19
Alignment explanation
Indices: 722553--722590 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
722543 GAACGGAAAA
**
722553 ACATTACATTCATTGATAC
1 ACATTACATTCATCCATAC
722572 ACATTACA-TCATCCATAC
1 ACATTACATTCATCCATAC
722590 A
1 A
722591 TGCAAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.39, C:0.26, G:0.03, T:0.32
Consensus pattern (19 bp):
ACATTACATTCATCCATAC
Found at i:724040 original size:2 final size:2
Alignment explanation
Indices: 724033--724083 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
724023 GTCCATTCAC
724033 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
724075 AG AG AG AG A
1 AG AG AG AG A
724084 ATCATATATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:726430 original size:19 final size:19
Alignment explanation
Indices: 726406--726444 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
726396 GTCTTACAAA
726406 AATTGAGGTCCTATGATTT
1 AATTGAGGTCCTATGATTT
726425 AATTGAGGTCCTATGATTT
1 AATTGAGGTCCTATGATTT
726444 A
1 A
726445 TATTTGATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (19 bp):
AATTGAGGTCCTATGATTT
Found at i:733370 original size:12 final size:12
Alignment explanation
Indices: 733355--733391 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
733345 CCCCTAAAAT
733355 TAATTCACTTCC
1 TAATTCACTTCC
733367 TAA-TCACTTCC
1 TAATTCACTTCC
733378 TAAATTC-CTTCC
1 T-AATTCACTTCC
733390 TA
1 TA
733392 TTTTTGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 10 0.43
12 11 0.48
13 2 0.09
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATTCACTTCC
Found at i:735662 original size:21 final size:21
Alignment explanation
Indices: 735632--735730 Score: 103
Period size: 21 Copynumber: 4.7 Consensus size: 21
735622 TTCATATCTA
*
735632 TATCACATGGATATCAAAGAT
1 TATCATATGGATATCAAAGAT
*
735653 AATCATATGGATATCAACA-AT
1 TATCATATGGATATCAA-AGAT
* *
735674 TATCATATGGATATCACATAT
1 TATCATATGGATATCAAAGAT
* * *
735695 CACCATATGGATATCACATG-T
1 TATCATATGGATATCA-AAGAT
735716 TATCATATGGATATC
1 TATCATATGGATATC
735731 CCATATGTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.02
21 62 0.97
22 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.32
Consensus pattern (21 bp):
TATCATATGGATATCAAAGAT
Found at i:735736 original size:42 final size:42
Alignment explanation
Indices: 735632--735736 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
735622 TTCATATCTA
* * * * *
735632 TATCACATGGATATCAAAGATAATCATATGGATATCAACAAT
1 TATCATATGGATATCACATATCACCATATGGATATCAACAAT
*
735674 TATCATATGGATATCACATATCACCATATGGATATC-ACATGT
1 TATCATATGGATATCACATATCACCATATGGATATCAACA-AT
*
735716 TATCATATGGATATCCCATAT
1 TATCATATGGATATCACATAT
735737 GTATCAGGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 3 0.05
42 52 0.95
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (42 bp):
TATCATATGGATATCACATATCACCATATGGATATCAACAAT
Found at i:738558 original size:3 final size:3
Alignment explanation
Indices: 738550--738593 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
738540 GAAGTTGAAA
*
738550 ATC ATC ATC ATC ATC ATC ATC ATC ATC AAC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
738594 AAGAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:742158 original size:21 final size:21
Alignment explanation
Indices: 742132--742186 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
742122 AATTTTTCAC
* * *
742132 CTTTGATCTGCTTATTGTAAT
1 CTTTGACCTACTTATTCTAAT
*
742153 CTTTGACCTACTTTTTCTAAT
1 CTTTGACCTACTTATTCTAAT
742174 CTTTGACCTACTT
1 CTTTGACCTACTT
742187 GTTGAACTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.22, G:0.09, T:0.51
Consensus pattern (21 bp):
CTTTGACCTACTTATTCTAAT
Found at i:744536 original size:2 final size:2
Alignment explanation
Indices: 744529--744579 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
744519 TCTTCCACCC
* *
744529 CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT TT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
744571 CT TT CT CT C
1 CT CT CT CT C
744580 ATGTAAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
CT
Found at i:744548 original size:14 final size:14
Alignment explanation
Indices: 744529--744579 Score: 84
Period size: 14 Copynumber: 3.6 Consensus size: 14
744519 TCTTCCACCC
*
744529 CTCTCTCTCTCTCT
1 CTCTCTCTCTCTTT
744543 CTCTCTCTCTCTTT
1 CTCTCTCTCTCTTT
744557 CTCTCTCTCTCTTT
1 CTCTCTCTCTCTTT
*
744571 CTTTCTCTC
1 CTCTCTCTC
744580 ATGTAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (14 bp):
CTCTCTCTCTCTTT
Found at i:757764 original size:15 final size:15
Alignment explanation
Indices: 757744--757772 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
757734 CGGAACTCTT
757744 AGGATTTTTCATATA
1 AGGATTTTTCATATA
757759 AGGATTTTTCATAT
1 AGGATTTTTCATAT
757773 TTTAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (15 bp):
AGGATTTTTCATATA
Found at i:761681 original size:2 final size:2
Alignment explanation
Indices: 761674--761709 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
761664 AACACCATGT
761674 TA TA TA TA TA TA TA NTA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA T
761710 CAGCGATGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:764781 original size:2 final size:2
Alignment explanation
Indices: 764776--764852 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
764766 TGTATATACC
764776 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
764818 GA GA GA GA 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 GA GA GA GA G
764853 NNNNNNNNNN
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:765865 original size:173 final size:167
Alignment explanation
Indices: 765495--765904 Score: 436
Period size: 173 Copynumber: 2.4 Consensus size: 167
765485 AAACCATTTG
* * * *
765495 GCCAGAAAAGCTGAAACTTGTGTGAAAGCATCCTCAGGTAGTGTAGAATCAAGTTTGTTCAAATA
1 GCCAGAAAAGCTGAAACTTGTTTGAAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGATCAAATC
*
765560 ATGAT-TACCGGATGTAGGGTGGGGCCACAATGAAGGGTCAAATTTCTACATACTAGGAATAGAT
66 ATGATCTACCGGATGTAGGGTGGGGCCACAATGAAGGGTCAAATTTCTACATACGAGGAATAGAT
* *
765624 AAAGTAAATCTATAAAACTCTTCTCTGAAACTGATCA
131 AAAGTAAATCTAAAAAACTATTCTCTGAAACTGATCA
* * * * *
765661 GCCAGGAAAGCTGAAAATTGTTTGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGAACAATTC
1 GCCAGAAAAGCTGAAACTTGTTTGAAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGATCAAATC
* * * ***
765726 ATGATCT-CCAGGGGTGATGTAGGGTGGGGCTACAATCG-AGTGTCACATTTCTACATA-GATTC
66 ATGATCTACC----G-GATGTAGGGTGGGGCCACAAT-GAAGGGTCAAATTTCTACATACGAGGA
* ** * *
765788 ATATATATGGTAAATCTTAAAAAATCTGATTCTCAT-TAGCTGATCA
125 ATAGATAAAGTAAATC-TAAAAAA-CT-ATTCTC-TGAAACTGATCA
* * * *
765834 GCCAAAAAAGCTGTAACTTGTTTGAAAGCATCCTCAGATAGTGTAGATTTAA-TTTGATTCAAAT
1 GCCAGAAAAGCTGAAACTTGTTTGAAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGA-TCAAAT
765898 CATGATC
65 CATGATC
765905 CCTGGGAGAA
Statistics
Matches: 200, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
166 63 0.31
167 1 0.00
170 15 0.08
171 43 0.22
172 8 0.04
173 69 0.34
174 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (167 bp):
GCCAGAAAAGCTGAAACTTGTTTGAAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGATCAAATC
ATGATCTACCGGATGTAGGGTGGGGCCACAATGAAGGGTCAAATTTCTACATACGAGGAATAGAT
AAAGTAAATCTAAAAAACTATTCTCTGAAACTGATCA
Found at i:779399 original size:1 final size:1
Alignment explanation
Indices: 779395--779446 Score: 77
Period size: 1 Copynumber: 52.0 Consensus size: 1
779385 GGATGAGCCT
* **
779395 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCACAACCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
779447 ACACACACAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.06, C:0.94, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:779447 original size:20 final size:19
Alignment explanation
Indices: 779395--779450 Score: 89
Period size: 20 Copynumber: 3.0 Consensus size: 19
779385 GGATGAGCCT
779395 CCCCCCCCCCCCCCC-C-C
1 CCCCCCCCCCCCCCCACAC
779412 CCCCCCCCCCCCCCCACAAC
1 CCCCCCCCCCCCCCCAC-AC
779432 CCCCCCCCCCCCCCCACAC
1 CCCCCCCCCCCCCCCACAC
779451 ACACACACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.42
18 1 0.03
19 2 0.06
20 18 0.50
ACGTcount: A:0.09, C:0.91, G:0.00, T:0.00
Consensus pattern (19 bp):
CCCCCCCCCCCCCCCACAC
Found at i:779453 original size:24 final size:24
Alignment explanation
Indices: 779407--779453 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
779397 CCCCCCCCCC
* *
779407 CCCCCCCCCCCCCCCCCCCCACAA
1 CCCCCCCCCCCCCCCCACACACAA
779431 CCCCCCCCCCCCCCCCACACACA
1 CCCCCCCCCCCCCCCCACACACA
779454 CACACTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.85, G:0.00, T:0.00
Consensus pattern (24 bp):
CCCCCCCCCCCCCCCCACACACAA
Found at i:779455 original size:26 final size:26
Alignment explanation
Indices: 779405--779455 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
779395 CCCCCCCCCC
* * *
779405 CCCCCCCCCCCCCCCCCCCCCCACAA
1 CCCCCCCCCCCCCCCCACACACACAA
779431 CCCCCCCCCCCCCCCCACACACACA
1 CCCCCCCCCCCCCCCCACACACACA
779456 CACTTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.84, G:0.00, T:0.00
Consensus pattern (26 bp):
CCCCCCCCCCCCCCCCACACACACAA
Found at i:779457 original size:28 final size:28
Alignment explanation
Indices: 779403--779457 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
779393 CTCCCCCCCC
* * * *
779403 CCCCCCCCCCCCCCCCCCCCCCCCACAA
1 CCCCCCCCCCCCCCCCACACACACACAA
779431 CCCCCCCCCCCCCCCCACACACACACA
1 CCCCCCCCCCCCCCCCACACACACACA
779458 CTTTCAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.16, C:0.84, G:0.00, T:0.00
Consensus pattern (28 bp):
CCCCCCCCCCCCCCCCACACACACACAA
Found at i:781324 original size:33 final size:33
Alignment explanation
Indices: 781229--781327 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
781219 GTAATATAAA
*
781229 CAAGTAAGTCCCTTACTGCAGTTGTATACTTAT
1 CAAGTAAGTCCCTTACTGCAGTCGTATACTTAT
* *
781262 CAAGTACAG----TTA-TACA--CGTATA-TACAT
1 CAAGTA-AGTCCCTTACTGCAGTCGTATACT-TAT
781289 CAAGTAAGTCCCTTACTGCAGTCGTATACTTAT
1 CAAGTAAGTCCCTTACTGCAGTCGTATACTTAT
781322 CAAGTA
1 CAAGTA
781328 CTGTTATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 20
0.67 0.07 0.26
Matches are distributed among these distances:
26 3 0.06
27 13 0.25
29 3 0.06
30 6 0.12
31 3 0.06
33 20 0.39
34 3 0.06
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (33 bp):
CAAGTAAGTCCCTTACTGCAGTCGTATACTTAT
Found at i:781360 original size:54 final size:55
Alignment explanation
Indices: 781179--781367 Score: 199
Period size: 60 Copynumber: 3.4 Consensus size: 55
781169 AAAAATAAAA
* * * *
781179 GTAATTCCCTTACTGCAGTCGTAATTACTGACCAAGTACTG-TA-ATATA-A-ACAA
1 GTAAGTCCCTTACTGCAGTCGT-A-TACTTATCAAGTACTGTTATATATATATACAT
* * *
781232 GTAAGTCCCTTACTGCAGTTGTATACTTATCAAGTACAGTTATACACGTATATACAT
1 GTAAGTCCCTTACTGCAGTCGTATACTTATCAAGTACTGTTATATA--TATATACAT
781289 CAAGTAAGTCCCTTACTGCAGTCGTATACTTATCAAGTACTGTTATATATATATAC-T
1 ---GTAAGTCCCTTACTGCAGTCGTATACTTATCAAGTACTGTTATATATATATACAT
* *
781346 GTAAGTCCTTTACTGGAGTCGT
1 GTAAGTCCCTTACTGCAGTCGT
781368 TGTAGATACT
Statistics
Matches: 115, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
51 13 0.11
52 3 0.03
53 22 0.19
54 20 0.17
55 2 0.02
56 1 0.01
57 4 0.03
58 7 0.06
60 43 0.37
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (55 bp):
GTAAGTCCCTTACTGCAGTCGTATACTTATCAAGTACTGTTATATATATATACAT
Found at i:782531 original size:15 final size:15
Alignment explanation
Indices: 782511--782540 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
782501 AGATGCATGC
782511 AAAAGCATTTTTAAA
1 AAAAGCATTTTTAAA
*
782526 AAAAGCTTTTTTAAA
1 AAAAGCATTTTTAAA
782541 CATTTTTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (15 bp):
AAAAGCATTTTTAAA
Found at i:793701 original size:26 final size:26
Alignment explanation
Indices: 793656--793753 Score: 115
Period size: 26 Copynumber: 3.8 Consensus size: 26
793646 AAATCTCACT
* * * *
793656 GGTGAATGTGGCTAAACCACCGCAAA
1 GGTGAATGTGGTTTAGCCACCGCAGA
* * * *
793682 GTTAAATGTGGTTTAGCCACCTCAGT
1 GGTGAATGTGGTTTAGCCACCGCAGA
*
793708 GGTGAATGTGGTTTAGCCACCGCAGC
1 GGTGAATGTGGTTTAGCCACCGCAGA
793734 GGTGAATGTGGTTTAGCCAC
1 GGTGAATGTGGTTTAGCCAC
793754 TTAGTTGTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (26 bp):
GGTGAATGTGGTTTAGCCACCGCAGA
Found at i:793829 original size:26 final size:26
Alignment explanation
Indices: 793684--793918 Score: 150
Period size: 26 Copynumber: 8.8 Consensus size: 26
793674 ACCGCAAAGT
793684 TAAATGTGGTTTAGCCACCTCAGTGG
1 TAAATGTGGTTTAGCCACCTCAGTGG
* * *
793710 TGAATGTGGTTTAGCCACCGCAGCGG
1 TAAATGTGGTTTAGCCACCTCAGTGG
* * *
793736 TGAATGTGGTTTAGCCA-CTTAGTTG
1 TAAATGTGGTTTAGCCACCTCAGTGG
* * * *
793761 TAATTGTGGTATAACCACTTCAGACTCCGAG
1 TAAATGTGGTTTAGCCACCTCAG--T--G-G
* *
793792 TTAAATTTGGTTTAGCCACCTCGGTGG
1 -TAAATGTGGTTTAGCCACCTCAGTGG
* ***
793819 TAAATGTGGTTTAGCCACTTCAAAAG
1 TAAATGTGGTTTAGCCACCTCAGTGG
* * *
793845 TAAATGTGGTATAAG-CACTTCAGAGG
1 TAAATGTGGT-TTAGCCACCTCAGTGG
* * ** **
793871 TAAATGCGGTTAAGCCTTCTCACAGG
1 TAAATGTGGTTTAGCCACCTCAGTGG
* *
793897 TAAATGCGGTTAAGCCACCTCA
1 TAAATGTGGTTTAGCCACCTCA
793919 ATGGAGTTTG
Statistics
Matches: 164, Mismatches: 36, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
25 21 0.13
26 118 0.72
27 4 0.02
28 2 0.01
30 1 0.01
31 1 0.01
32 17 0.10
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (26 bp):
TAAATGTGGTTTAGCCACCTCAGTGG
Found at i:798075 original size:24 final size:24
Alignment explanation
Indices: 798046--798127 Score: 137
Period size: 24 Copynumber: 3.4 Consensus size: 24
798036 CGACCCCACC
*
798046 AAACTCAGGTAACTTACCCCAAAT
1 AAACTCAGGTAAATTACCCCAAAT
*
798070 AAACTCAGATAAATTACCCCAAAT
1 AAACTCAGGTAAATTACCCCAAAT
*
798094 AAACTCGGGTAAATTACCCCAAAT
1 AAACTCAGGTAAATTACCCCAAAT
798118 AAACTCAGGT
1 AAACTCAGGT
798128 GAAACAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.21
Consensus pattern (24 bp):
AAACTCAGGTAAATTACCCCAAAT
Found at i:799900 original size:4 final size:4
Alignment explanation
Indices: 799891--799969 Score: 95
Period size: 4 Copynumber: 19.8 Consensus size: 4
799881 TTTTGTCCAT
* * *
799891 CGTC CGTC CGTC CGTC CATC CGTC CGTC CGTC CATC CATC CGTC CGTC
1 CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC
* * * *
799939 TGTC CGTC TGTC CGTC TGTC CGTC TGTC CGT
1 CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGT
799970 TTGTAAACTT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.04, C:0.44, G:0.22, T:0.30
Consensus pattern (4 bp):
CGTC
Found at i:830141 original size:17 final size:17
Alignment explanation
Indices: 830119--830151 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
830109 CTGGTACTGT
830119 ACCAGTTATCGGCTAAG
1 ACCAGTTATCGGCTAAG
830136 ACCAGTTATCGGCTAA
1 ACCAGTTATCGGCTAA
830152 ACTGAGTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (17 bp):
ACCAGTTATCGGCTAAG
Found at i:833303 original size:14 final size:14
Alignment explanation
Indices: 833284--833318 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
833274 TAGCATTTTG
*
833284 ACTGTTGGACTGGA
1 ACTGTTAGACTGGA
*
833298 ACTGTTAGATTGGA
1 ACTGTTAGACTGGA
833312 ACTGTTA
1 ACTGTTA
833319 AAATCGACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (14 bp):
ACTGTTAGACTGGA
Found at i:834745 original size:2 final size:2
Alignment explanation
Indices: 834738--834781 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
834728 ACTGAAAAAT
834738 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
834780 CA
1 CA
834782 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:837131 original size:2 final size:2
Alignment explanation
Indices: 837124--837158 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
837114 TAAGAAAAAG
837124 CT CT CT CT 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 CT CT CT CT C
837159 ATTGTCCACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:843821 original size:27 final size:27
Alignment explanation
Indices: 843790--844147 Score: 475
Period size: 27 Copynumber: 13.2 Consensus size: 27
843780 CTTAGGTATA
*
843790 TATAATACAACAGAAGCACAGCTTAGG
1 TATAATACAACAGAAGCACAGCTCAGG
* * *
843817 TATAATGCAACAGAAGCATAGCTTAGG
1 TATAATACAACAGAAGCACAGCTCAGG
843844 TATAATACAACAGAAGCACAGCTCAGG
1 TATAATACAACAGAAGCACAGCTCAGG
843871 TATAATACAACAGAAGCACAGCTCAGG
1 TATAATACAACAGAAGCACAGCTCAGG
**
843898 TATAATACAACAGAAGCACAGCTTTGG
1 TATAATACAACAGAAGCACAGCTCAGG
*
843925 TATAATACAACAGAAGCACAGCTTAGG
1 TATAATACAACAGAAGCACAGCTCAGG
* *
843952 TATAATACAACAGAGGCATAGCTCA-G
1 TATAATACAACAGAAGCACAGCTCAGG
* * *
843978 TATAATGCAAAAAAAGCACAGCTCAGG
1 TATAATACAACAGAAGCACAGCTCAGG
* * *
844005 TATAATACAACAGAGGTACAACTCAGG
1 TATAATACAACAGAAGCACAGCTCAGG
844032 TATAATACAACAGAAGCACAGCTCAGG
1 TATAATACAACAGAAGCACAGCTCAGG
*
844059 TATAATACAACAGAAGCACAGCTAAGG
1 TATAATACAACAGAAGCACAGCTCAGG
* * * **
844086 TGTATTACAACGGAAGCACAACAGCTTGGG
1 TATAATACAACAGAAG--C-ACAGCTCAGG
* *
844116 TATAATACAACAGAAGTACAGCTCATG
1 TATAATACAACAGAAGCACAGCTCAGG
844143 TATAA
1 TATAA
844148 GTAAAATACA
Statistics
Matches: 289, Mismatches: 38, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
26 21 0.07
27 246 0.85
29 1 0.00
30 21 0.07
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
TATAATACAACAGAAGCACAGCTCAGG
Found at i:846361 original size:20 final size:20
Alignment explanation
Indices: 846336--846373 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
846326 ATATTGGTAT
846336 TGTTGATGAATGAAAGTCTA
1 TGTTGATGAATGAAAGTCTA
*
846356 TGTTGATGAGTGAAAGTC
1 TGTTGATGAATGAAAGTC
846374 GTTATTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (20 bp):
TGTTGATGAATGAAAGTCTA
Found at i:853213 original size:2 final size:2
Alignment explanation
Indices: 853208--853265 Score: 86
Period size: 2 Copynumber: 30.5 Consensus size: 2
853198 CCTCCTTTAT
*
853208 GA GA GA GA GA GA GA GA G- GA CA GA GA GA GA GA -A 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
853248 GA GA G- GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA G
853266 CATAGTGTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
1 3 0.06
2 48 0.94
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:853233 original size:13 final size:13
Alignment explanation
Indices: 853208--853265 Score: 82
Period size: 13 Copynumber: 4.4 Consensus size: 13
853198 CCTCCTTTAT
853208 GAGA-GAGAGAGA
1 GAGAGGAGAGAGA
853220 GAGAGGACAGAGAGA
1 GAGAGG--AGAGAGA
*
853235 GAGAAGAGAGAGA
1 GAGAGGAGAGAGA
853248 GAGAGGAGAGAGA
1 GAGAGGAGAGAGA
853261 GAGAG
1 GAGAG
853266 CATAGTGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
12 4 0.10
13 25 0.61
15 12 0.29
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (13 bp):
GAGAGGAGAGAGA
Found at i:853233 original size:15 final size:15
Alignment explanation
Indices: 853210--853265 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
853200 TCCTTTATGA
853210 GAGAGAGAGAGAGAG
1 GAGAGAGAGAGAGAG
*
853225 GACAGAGAGAGAGA-
1 GAGAGAGAGAGAGAG
853239 -AGAGAGAGAGAGAG
1 GAGAGAGAGAGAGAG
853253 GAGAGAGAGAGAG
1 GAGAGAGAGAGAG
853266 CATAGTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.32
15 25 0.68
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (15 bp):
GAGAGAGAGAGAGAG
Found at i:855210 original size:9 final size:9
Alignment explanation
Indices: 855185--855216 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
855175 AAAAAAAATC
855185 TTTTTGTTT
1 TTTTTGTTT
855194 TGTTTTGTTT
1 T-TTTTGTTT
855204 TTTTTGTTT
1 TTTTTGTTT
855213 TTTT
1 TTTT
855217 GTGGTAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:855405 original size:32 final size:32
Alignment explanation
Indices: 855369--855436 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
855359 AATCTTTACA
*
855369 CTTATTCATCTTTCAGACAGTATGAATATATT
1 CTTATTCATCTTTCAGACAATATGAATATATT
*
855401 CTTATTCATCTTTCAGGCAATATGAATATATT
1 CTTATTCATCTTTCAGACAATATGAATATATT
855433 CTTA
1 CTTA
855437 ACGAAGAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (32 bp):
CTTATTCATCTTTCAGACAATATGAATATATT
Found at i:855858 original size:16 final size:16
Alignment explanation
Indices: 855837--855869 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
855827 CACTGGTTGC
855837 ATTCATAACTCCATGA
1 ATTCATAACTCCATGA
855853 ATTCATAACTCCATGA
1 ATTCATAACTCCATGA
855869 A
1 A
855870 CGCAGTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (16 bp):
ATTCATAACTCCATGA
Found at i:856352 original size:1 final size:1
Alignment explanation
Indices: 856346--856371 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
856336 CTAGCTTTTA
856346 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
856372 GACTCAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:863808 original size:21 final size:21
Alignment explanation
Indices: 863784--863827 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
863774 GTTCGCTGAT
863784 TCGATCATTCCGACGCTTGTA
1 TCGATCATTCCGACGCTTGTA
863805 TCGATCATTCCGACGCTTGTA
1 TCGATCATTCCGACGCTTGTA
863826 TC
1 TC
863828 ATGTATGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.34
Consensus pattern (21 bp):
TCGATCATTCCGACGCTTGTA
Found at i:869818 original size:11 final size:11
Alignment explanation
Indices: 869804--869833 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
869794 AAAAAAAAAA
869804 AAAAAAACCCC
1 AAAAAAACCCC
869815 AAAAAAACCCC
1 AAAAAAACCCC
*
869826 CAAAAAAC
1 AAAAAAAC
869834 AACCAAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACCCC
Found at i:869818 original size:12 final size:12
Alignment explanation
Indices: 869803--869837 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
869793 AAAAAAAAAA
869803 AAAAAAAACCCC
1 AAAAAAAACCCC
*
869815 AAAAAAACCCCC
1 AAAAAAAACCCC
869827 AAAAAACAACC
1 AAAAAA-AACC
869838 AAATCTACCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 17 0.85
13 3 0.15
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACCCC
Found at i:886305 original size:36 final size:36
Alignment explanation
Indices: 886207--887755 Score: 2306
Period size: 36 Copynumber: 43.5 Consensus size: 36
886197 TGCAATATTA
886207 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* * * * *
886243 AGAAAAAGCAACAGTTATACAACAGCGATTGTACTAC
1 A-AAACAGCAACAGTAATATATCAGCGATTGTAATAC
886280 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* * **
886316 -AAACAGCAACAGTAATACAACAGCGATTGTTCTAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
886351 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
*
886387 AAAACAGCAACAGTAATATATCAGCGATTGTACTAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
886423 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
**
886459 AACCCAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
*
886495 AAAACAACAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
886531 -AAACAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* * *
886566 AAAACAACAACAGTAATACAACAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
886602 -AAACAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
*
886637 -AAACAGCAACAGTAATAAATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* * *
886672 AAAACAACAACAGTTATATAACAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
*
886708 -AAACAGCAACAGTAATAAATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* * *
886743 AAAACAACAACAGTAATACAACAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* *
886779 -AAACAACAACAGTAATAAATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* * *
886814 AAAACAACAACAGTAATACAACAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* *
886850 -AAACAACAACAGTAATAAATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* * * *
886885 AAAACAACAACAGTGATACAACAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* *
886921 -AAACAACAACAGTAATATATCAGGGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
**
886956 AACCCAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
886992 -AAACAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
**
887027 AACCCAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
887063 -AAACAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
**
887098 AACCCAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
**
887134 AACCCAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
*
887170 AAAACAACAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
887206 -AAACAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
*
887241 -AAACAGCAACAGTAATAAATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* *
887276 AAAACAACAACAGTAATATAACAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
*
887312 AAAACAGTAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* *
887348 -AAACAACAACAGTAATAAATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* * *
887383 AAAACAACAACAGTTATATAACAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
*
887419 -AAACAGCAACAGTAATAAATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* * *
887454 AAAACAACAACAGTAATACAACAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* *
887490 -AAACAACAACAGTAATAAATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* * * *
887525 AAAACAACAACAGTGATACAACAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
* *
887561 -AAACAACAACAGTAATATATCAGGGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
**
887596 AACCCAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
**
887632 AACCCAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
887668 -AAACAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
**
887703 AACCCAGCAACAGTAATATATCAGCGATTGTAATAC
1 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
887739 -AAACAGCAACAGTAATA
1 AAAACAGCAACAGTAATA
887756 CAATTTATTA
Statistics
Matches: 1385, Mismatches: 112, Indels: 33
0.91 0.07 0.02
Matches are distributed among these distances:
35 568 0.41
36 786 0.57
37 31 0.02
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (36 bp):
AAAACAGCAACAGTAATATATCAGCGATTGTAATAC
Found at i:886358 original size:71 final size:71
Alignment explanation
Indices: 886208--887755 Score: 2309
Period size: 71 Copynumber: 21.7 Consensus size: 71
886198 GCAATATTAA
* * *
886208 AAACAGCAACAGTAATATATCAGCGATTGTAATACAGAAAAAGCAACAGTTATACAACAGCGATT
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACA-AAACAGCAACAGTAATATAACAGCGATT
*
886273 GTACTAC
65 GTAATAC
*
886280 AAAACAGCAACAGTAATATATCAGCGATTGTAATAC-AAACAGCAACAGTAATACAACAGCGATT
1 -AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATT
**
886344 GTTCTAC
65 GTAATAC
*
886351 AAAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATATCAGCGATT
1 -AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATT
*
886416 GTACTAC
65 GTAATAC
** *
886423 AAAACAGCAACAGTAATATATCAGCGATTGTAATACAACCCAGCAACAGTAATATATCAGCGATT
1 -AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATT
886488 GTAATAC
65 GTAATAC
* *
886495 AAAACAACAACAGTAATATATCAGCGATTGTAATAC-AAACAGCAACAGTAATATATCAGCGATT
1 -AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATT
886559 GTAATAC
65 GTAATAC
* * * *
886566 AAAACAACAACAGTAATACAACAGCGATTGTAATAC-AAACAGCAACAGTAATATATCAGCGATT
1 -AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATT
886630 GTAATAC
65 GTAATAC
* * *
886637 AAACAGCAACAGTAATAAATCAGCGATTGTAATACAAAACAACAACAGTTATATAACAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
886702 TAATAC
66 TAATAC
* * *
886708 AAACAGCAACAGTAATAAATCAGCGATTGTAATACAAAACAACAACAGTAATACAACAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
886773 TAATAC
66 TAATAC
* * * *
886779 AAACAACAACAGTAATAAATCAGCGATTGTAATACAAAACAACAACAGTAATACAACAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
886844 TAATAC
66 TAATAC
* * * * *
886850 AAACAACAACAGTAATAAATCAGCGATTGTAATACAAAACAACAACAGTGATACAACAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
886915 TAATAC
66 TAATAC
* * ** *
886921 AAACAACAACAGTAATATATCAGGGATTGTAATACAACCCAGCAACAGTAATATATCAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
886986 TAATAC
66 TAATAC
** *
886992 AAACAGCAACAGTAATATATCAGCGATTGTAATACAACCCAGCAACAGTAATATATCAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
887057 TAATAC
66 TAATAC
** *
887063 AAACAGCAACAGTAATATATCAGCGATTGTAATACAACCCAGCAACAGTAATATATCAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
887128 TAATAC
66 TAATAC
* * *
887134 AACCCAGCAACAGTAATATATCAGCGATTGTAATACAAAACAACAACAGTAATATATCAGCGATT
1 AA-ACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATT
887199 GTAATAC
65 GTAATAC
887206 AAACAGCAACAGTAATATATCAGCGATTGTAATAC-AAACAGCAACAGTAATA-AATCAGCGATT
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAA-CAGCGATT
887269 GTAATAC
65 GTAATAC
* * * *
887276 AAAACAACAACAGTAATATAACAGCGATTGTAATACAAAACAGTAACAGTAATATATCAGCGATT
1 -AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATT
887341 GTAATAC
65 GTAATAC
* * * *
887348 AAACAACAACAGTAATAAATCAGCGATTGTAATACAAAACAACAACAGTTATATAACAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
887413 TAATAC
66 TAATAC
* * *
887419 AAACAGCAACAGTAATAAATCAGCGATTGTAATACAAAACAACAACAGTAATACAACAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
887484 TAATAC
66 TAATAC
* * * * *
887490 AAACAACAACAGTAATAAATCAGCGATTGTAATACAAAACAACAACAGTGATACAACAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
887555 TAATAC
66 TAATAC
* * ** *
887561 AAACAACAACAGTAATATATCAGGGATTGTAATACAACCCAGCAACAGTAATATATCAGCGATTG
1 AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
887626 TAATAC
66 TAATAC
* *
887632 AACCCAGCAACAGTAATATATCAGCGATTGTAATAC-AAACAGCAACAGTAATATATCAGCGATT
1 AA-ACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATT
887696 GTAATAC
65 GTAATAC
*
887703 AACCCAGCAACAGTAATATATCAGCGATTGTAATAC-AAACAGCAACAGTAATA
1 AA-ACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATA
887756 CAATTTATTA
Statistics
Matches: 1398, Mismatches: 69, Indels: 18
0.94 0.05 0.01
Matches are distributed among these distances:
69 1 0.00
70 63 0.05
71 1034 0.74
72 264 0.19
73 36 0.03
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.21
Consensus pattern (71 bp):
AAACAGCAACAGTAATATATCAGCGATTGTAATACAAAACAGCAACAGTAATATAACAGCGATTG
TAATAC
Found at i:897077 original size:65 final size:65
Alignment explanation
Indices: 897006--897135 Score: 226
Period size: 65 Copynumber: 2.0 Consensus size: 65
896996 TTTTTTCCAC
897006 ATACTTATATAAATACAGAATACTTAATATATAATTACA-GTAGTGATAATTTTTGTTCAGATGC
1 ATACTTATATAAATACAGAATACTTAATATATAATTACAGGT-GTGATAATTTTTGTTCAGATGC
897070 T
65 T
* *
897071 ATACTTATATAAATACCGAATACTTAATATATCATTACAGGTGTGATAATTTTTGTTCAGATGCT
1 ATACTTATATAAATACAGAATACTTAATATATAATTACAGGTGTGATAATTTTTGTTCAGATGCT
897136 TGATCTGTAC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
65 60 0.97
66 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.40
Consensus pattern (65 bp):
ATACTTATATAAATACAGAATACTTAATATATAATTACAGGTGTGATAATTTTTGTTCAGATGCT
Found at i:901206 original size:44 final size:44
Alignment explanation
Indices: 901143--901277 Score: 261
Period size: 44 Copynumber: 3.1 Consensus size: 44
901133 GTGCAAACAG
901143 TGTACTAATTCTTTTGATTATTTAAGAAGGAATGGGTCAGTTGC
1 TGTACTAATTCTTTTGATTATTTAAGAAGGAATGGGTCAGTTGC
901187 TGTACTAATTCTTTTGATTATTTAAGAAGGAATGGGTCAGTTGC
1 TGTACTAATTCTTTTGATTATTTAAGAAGGAATGGGTCAGTTGC
*
901231 TGTACTAATTCTTTTGATTACTTAAGAAGGAATGGGTCAGTTGC
1 TGTACTAATTCTTTTGATTATTTAAGAAGGAATGGGTCAGTTGC
901275 TGT
1 TGT
901278 TTTTAACAAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 90 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.41
Consensus pattern (44 bp):
TGTACTAATTCTTTTGATTATTTAAGAAGGAATGGGTCAGTTGC
Found at i:903052 original size:42 final size:42
Alignment explanation
Indices: 902986--903259 Score: 362
Period size: 42 Copynumber: 6.5 Consensus size: 42
902976 TGCGTAATTG
* * * *
902986 TGTTGTTATTGTAGAGAAACTGT-TT-TAATTGTAGTGAAAC
1 TGTTGTAATTGTAGTGTAACTGTGTTGTAATTGTAGTGTAAC
*
903026 TGTTGTAATTGTAGTGTAACTGTGTTTTAATTGTAGTGTAAC
1 TGTTGTAATTGTAGTGTAACTGTGTTGTAATTGTAGTGTAAC
*
903068 TGTGTTGTAATGGTAGTGTAAC--TGTTGTAATTGTAGTGTAAC
1 --TGTTGTAATTGTAGTGTAACTGTGTTGTAATTGTAGTGTAAC
903110 TGTTGTAATTGTAGTGTAACTGTGTTGTAATTGTAGTGTAAC
1 TGTTGTAATTGTAGTGTAACTGTGTTGTAATTGTAGTGTAAC
*
903152 TGTGTTGTAATGGTAGTGTAAC--TGTTGTAATTGTAGTGTAAC
1 --TGTTGTAATTGTAGTGTAACTGTGTTGTAATTGTAGTGTAAC
* *
903194 TGTTGTAATTGTAGCGTAACTGTGGTGTAATTGTAGTGTAAC
1 TGTTGTAATTGTAGTGTAACTGTGTTGTAATTGTAGTGTAAC
*
903236 TGTGGTGTAATTGTAGAGTAACTG
1 TGT--TGTAATTGTAGTGTAACTG
903260 AAGCTTTCTG
Statistics
Matches: 210, Mismatches: 12, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
40 57 0.27
41 2 0.01
42 95 0.45
44 56 0.27
ACGTcount: A:0.25, C:0.05, G:0.27, T:0.43
Consensus pattern (42 bp):
TGTTGTAATTGTAGTGTAACTGTGTTGTAATTGTAGTGTAAC
Found at i:903056 original size:22 final size:22
Alignment explanation
Indices: 902962--903259 Score: 377
Period size: 22 Copynumber: 14.1 Consensus size: 22
902952 GTAAGATTAG
* * * *
902962 TGTGCTGTAATTGTTGCGTAAT
1 TGTGTTGTAATTGTAGTGTAAC
* * *
902984 TGTGTTGTTATTGTAGAGAAAC
1 TGTGTTGTAATTGTAGTGTAAC
*
903006 TGT-TT-TAATTGTAGTGAAAC
1 TGTGTTGTAATTGTAGTGTAAC
903026 --TGTTGTAATTGTAGTGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
*
903046 TGTGTTTTAATTGTAGTGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
*
903068 TGTGTTGTAATGGTAGTGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
903090 --TGTTGTAATTGTAGTGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
903110 --TGTTGTAATTGTAGTGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
903130 TGTGTTGTAATTGTAGTGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
*
903152 TGTGTTGTAATGGTAGTGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
903174 --TGTTGTAATTGTAGTGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
*
903194 --TGTTGTAATTGTAGCGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
*
903214 TGTGGTGTAATTGTAGTGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
* *
903236 TGTGGTGTAATTGTAGAGTAAC
1 TGTGTTGTAATTGTAGTGTAAC
903258 TG
1 TG
903260 AAGCTTTCTG
Statistics
Matches: 249, Mismatches: 19, Indels: 16
0.88 0.07 0.06
Matches are distributed among these distances:
18 1 0.00
19 2 0.01
20 104 0.42
21 2 0.01
22 140 0.56
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.43
Consensus pattern (22 bp):
TGTGTTGTAATTGTAGTGTAAC
Found at i:903099 original size:84 final size:84
Alignment explanation
Indices: 902962--903259 Score: 452
Period size: 84 Copynumber: 3.5 Consensus size: 84
902952 GTAAGATTAG
* * * * * * * * *
902962 TGTGCTGTAATTGTTGCGTAATTGTGTTGTTATTGTAGAGAAACTGTTTTAATTGTAGTGAAACT
1 TGTGTTGTAATTGTAGTGTAACTGTGTTGTAATGGTAGAGTAACTGTTGTAATTGTAGTGTAACT
903027 GTTGTAATTGTAGTGTAAC
66 GTTGTAATTGTAGTGTAAC
* *
903046 TGTGTTTTAATTGTAGTGTAACTGTGTTGTAATGGTAGTGTAACTGTTGTAATTGTAGTGTAACT
1 TGTGTTGTAATTGTAGTGTAACTGTGTTGTAATGGTAGAGTAACTGTTGTAATTGTAGTGTAACT
903111 GTTGTAATTGTAGTGTAAC
66 GTTGTAATTGTAGTGTAAC
*
903130 TGTGTTGTAATTGTAGTGTAACTGTGTTGTAATGGTAGTGTAACTGTTGTAATTGTAGTGTAACT
1 TGTGTTGTAATTGTAGTGTAACTGTGTTGTAATGGTAGAGTAACTGTTGTAATTGTAGTGTAACT
*
903195 GTTGTAATTGTAGCGTAAC
66 GTTGTAATTGTAGTGTAAC
* * *
903214 TGTGGTGTAATTGTAGTGTAACTGTGGTGTAATTGTAGAGTAACTG
1 TGTGTTGTAATTGTAGTGTAACTGTGTTGTAATGGTAGAGTAACTG
903260 AAGCTTTCTG
Statistics
Matches: 197, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 197 1.00
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.43
Consensus pattern (84 bp):
TGTGTTGTAATTGTAGTGTAACTGTGTTGTAATGGTAGAGTAACTGTTGTAATTGTAGTGTAACT
GTTGTAATTGTAGTGTAAC
Found at i:910180 original size:18 final size:18
Alignment explanation
Indices: 910157--910196 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
910147 CCTACGTCAG
*
910157 GTAGGTAAATAAAGCTAT
1 GTAGGTAAATAAAGCTAC
* *
910175 GTAGGTAATTCAAGCTAC
1 GTAGGTAAATAAAGCTAC
910193 GTAG
1 GTAG
910197 CTTATTCGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (18 bp):
GTAGGTAAATAAAGCTAC
Found at i:913040 original size:166 final size:165
Alignment explanation
Indices: 912766--914259 Score: 1645
Period size: 166 Copynumber: 9.0 Consensus size: 165
912756 GGTATTTTTA
* * ** * *
912766 AAAAATCTTCTTCTCAAAAACTATTAGGCCTGAAAAGCTTAAACTT-GTGTGGAGGCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAAGAGGAAGCATCCTCAG
* * **
912830 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCAGGGGTAGGGAGGGGCCACAAGAGGGGG
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGG
* *
912895 ATCACATTTTACCTAGGAATATATAGAGAACATCTTT
130 ATCA-ATTTTACATAGGAATATATAGAGAAAATCTTT
912932 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGAGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGAGGAAGCATCCTCAGG
* *
912997 TAGTGTAAATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTTGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGA
* *
913062 TCAAGTTTTTCATAGGAATATATAGAGAACATCTTT
131 TCAA-TTTTACATAGGAATATATAGAGAAAATCTTT
913098 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGAGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGAGGAAGCATCCTCAGG
* * * *
913163 TAGTGTAAATTCAAGTTTGTTCAAATCATGGTCCCTGGTGGTATGGTGGGGCCACAA-TGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGG-
* *
913227 ATGGATTTTTACATAGGAATATATAGAGAAAATCTTT
130 AT-CAATTTTACATAGGAATATATAGAGAAAATCTTT
* *
913264 AAAAATCTTCTTCTCAAAAACTATCAGGCAAGAAAAGCTCAAATTAAA-ATGGAAGCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGA-GGAAGCATCCTCAG
* * * **
913328 GTAGTGTAGATTCAAGTTTGTTCAAAACATGGTCCCCGGGGGGTAGGGAGGGGCAACAATTGGAA
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCC-GGGGGTAGGGTGGGGCCACAATTGGGG
*
913393 GATCAAGATTTACATACAATGAAGGATTATATAGAGAAAATCTTT
129 GATC-A-ATTT---TAC-AT--AGGAATATATAGAGAAAATCTTT
* * *
913438 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTAAA-ATGGAAGCATTCTCGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGA-GGAAGCATCCTCAG
* * * * * *
913502 GTAGAGTGGATTTAATTTTGTTCAAATCATGGAT-CCTGTGGGTAGGGTGGGGCCACAATTGGGG
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGG-TCCCCGGGGGTAGGGTGGGGCCACAATTGGGG
*
913566 GATCAAATTTTACATAGGAATATATAGAGAAAATCTTG
129 GATC-AATTTTACATAGGAATATATAGAGAAAATCTTT
* *
913604 AAAAAT-TCTCTTCTCAAAAACAATCAGGCCAGAAAAGCTCAAATTAAA-ATGGAAGCATCCTCA
1 AAAAATCT-TCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGA-GGAAGCATCCTCA
* *
913667 GGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCAACAATAGGGG
64 GGTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGG
913732 GATCAAATTTTTACATAGGAATATATAGAGAAAATCTTT
129 GATC-AA-TTTTACATAGGAATATATAGAGAAAATCTTT
* * *
913771 TAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCCCAAATTAAA-ATGGAAGCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGA-GGAAGCATCCTCAG
* * * * * *
913835 GTAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCTGGGGGTATGGCGGGGCTACGA-TGGGGG
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGG
913899 AT-ACATTTT---T----ATATATAGAGAAAATCTTT
130 ATCA-ATTTTACATAGGAATATATAGAGAAAATCTTT
* * * * * * ** * * * * *
913928 AAAAATCTTTTTCTC-GAAATTATTAGACCAGGAAAGCCCAAATTTGAGTGGAAACACCCCCAGA
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGAGGAAGCATCCTCAGG
* * * * * * * *
913992 TCGTATAGATTCAAGTTTGTTTAAATAATAGT--CCAGGAGTAGGGTGAGGCCACAA-TGGGGGA
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGA
* *
914054 TGAATTTTTACTTAGGAATATATAGAGAAAATCTTT
131 TCAA-TTTTACATAGGAATATATAGAGAAAATCTTT
* * * * ** * * **
914090 AAAAATCTTCTT-TTAAAGACTATTTGGCCAGAAAAGCTTAAACTT-GTGAAGAGGCATCCTTTG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAAGAGGAAGCATCCTCAG
* ** ** * * **
914153 GTAGTGTAAATTCAAGTTTG--CAAAATCACAGTCCCTAGTGGTAGGGCGGGGCCATGA-TGGCG
65 GTAGTGTAGATTCAAGTTTGTTC-AAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGG-G
** * * *
914215 GTTTGAATTTTTACATATGAATATATAGAGAAAATCTTC
128 GGATCAA-TTTTACATAGGAATATATAGAGAAAATCTTT
914254 AAAAAT
1 AAAAAT
914260 ATTATGGGAA
Statistics
Matches: 1147, Mismatches: 144, Indels: 76
0.84 0.11 0.06
Matches are distributed among these distances:
154 24 0.02
155 5 0.00
156 64 0.06
157 32 0.03
158 1 0.00
161 10 0.01
162 74 0.06
163 21 0.02
164 46 0.04
165 12 0.01
166 537 0.47
167 160 0.14
168 10 0.01
169 3 0.00
171 3 0.00
172 6 0.01
173 28 0.02
174 110 0.10
175 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (165 bp):
AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGAGGAAGCATCCTCAGG
TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATTGGGGGA
TCAATTTTACATAGGAATATATAGAGAAAATCTTT
Found at i:913588 original size:340 final size:330
Alignment explanation
Indices: 912766--914259 Score: 1713
Period size: 340 Copynumber: 4.5 Consensus size: 330
912756 GGTATTTTTA
* * *** *
912766 AAAAATCTTCTTCTCAAAAACTATTAGGCCTGAAAAGCTTAAACTT-GTGTGGAGGCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTAAAATGGAAGCATCCTCAG
* * *
912830 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCAGGGGTAGGGAGGGGCCACAAGAGGGGG
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGT-CCCTGGGGTAGGGTGGGGCCACAA-TGGGGG
* * * *
912895 ATCACATTTTACCTAGGAATATATAGAGAACATCTTTAAAAATCTTCTTCTCAAAAACTATTAGG
128 ATCAAATTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATCAGG
*
912960 CCAGAAAAGCTCAAATTAAAGA-GGAAGCATCCTCAGGTAGTGTAAATTCAAGTTTGTTCAAATC
193 CCAGAAAAGCTCAAATTAAA-ATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATC
* *
913024 ATGGTCCCCGGGGGTAGGGTGGGGCCACAATTTGGGGATCAAG-TTTTTCATAGGAATATATAGA
257 ATGGTCCCCGGGGGTAGGGTGGGGCAACAA-TTGGGGATCAAGATTTTACATAGGAATATATAGA
*
913088 GAACATCTTT
321 GAAAATCTTT
913098 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAGA-GGAAGCATCCTCAG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAA-ATGGAAGCATCCTCAG
* *
913162 GTAGTGTAAATTCAAGTTTGTTCAAATCATGGTCCCTGGTGGTATGGTGGGGCCACAATGGGGGA
65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGG-GGTAGGGTGGGGCCACAATGGGGG-
** *
913227 ATGGATTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATCAGG
128 ATCAAATTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATCAGG
* *
913292 CAAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAAACA
193 CCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCA
* * *
913357 TGGTCCCCGGGGGGTAGGGAGGGGCAACAATTGGAAGATCAAGATTTACATACAATGAAGGATTA
258 TGGTCCCC-GGGGGTAGGGTGGGGCAACAATTGG-GGATCAAGATTT---TAC-AT--AGGAATA
913422 TATAGAGAAAATCTTT
315 TATAGAGAAAATCTTT
* * *
913438 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCTCAAATTAAAATGGAAGCATTCTCGGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* * * *
913503 TAGAGTGGATTTAATTTTGTTCAAATCATGGAT-CCTGTGGGTAGGGTGGGGCCACAATTGGGGG
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGG-TCCCTG-GGGTAGGGTGGGGCCACAA-TGGGGG
* *
913567 ATCAAATTTTACATAGGAATATATAGAGAAAATCTTGAAAAAT-TCTCTTCTCAAAAACAATCAG
128 ATCAAATTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCT-TCTTCTCAAAAACTATCAG
913631 GCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATC
192 GCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATC
*
913696 ATGGTCCCCGGGGGTAGGGTGGGGCAACAATAGGGGGATCAA-ATTTTTACATAGGAATATATAG
257 ATGGTCCCCGGGGGTAGGGTGGGGCAACAAT-TGGGGATCAAGA-TTTTACATAGGAATATATAG
913760 AGAAAATCTTT
320 AGAAAATCTTT
* * *
913771 TAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAAGCCCAAATTAAAATGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
* * * * *
913836 TAGTGTAGATTTAAGTTTGTTCAAATCATGGTCCCTGGGGGTATGGCGGGGCTACGATGGGGGAT
66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCT-GGGGTAGGGTGGGGCCACAATGGGGGAT
* * * * * *
913901 -ACATTTT---T----ATATATAGAGAAAATCTTTAAAAATCTTTTTCTC-GAAATTATTAGACC
130 CAAATTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATCAGGCC
* * ** * * * * * * * * * *
913957 AGGAAAGCCCAAATTTGAGTGGAAACACCCCCAGATCGTATAGATTCAAGTTTGTTTAAATAATA
195 AGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATG
* * * * * * * *
914022 GT--CCAGGAGTAGGGTGAGGCCACAATGGGGGATGAA-TTTTTACTTAGGAATATATAGAGAAA
260 GTCCCCGGGGGTAGGGTGGGGCAACAATTGGGGATCAAGATTTTACATAGGAATATATAGAGAAA
914084 ATCTTT
325 ATCTTT
* * * * ** * **
914090 AAAAATCTTCTT-TTAAAGACTATTTGGCCAGAAAAGCTTAAACTTGTGAA--GAGGCATCCTTT
1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TT-AAAATGGAAGCATCCTCA
* ** * * **
914152 GGTAGTGTAAATTCAAGTTTG--CAAAATCACAGTCCCTAGTGGTAGGGCGGGGCCATGATGGCG
64 GGTAGTGTAGATTCAAGTTTGTTC-AAATCATGGTCCCT-GGGGTAGGGTGGGGCCACAATGG-G
** * * * *
914215 GTTTGAATTTTTACATATGAATATATAGAGAAAATCTTCAAAAAT
126 GGATCAAATTTTACATAGGAATATATAGAGAAAATCTTTAAAAAT
914260 ATTATGGGAA
Statistics
Matches: 1013, Mismatches: 113, Indels: 78
0.84 0.09 0.06
Matches are distributed among these distances:
316 1 0.00
317 31 0.03
318 55 0.05
319 48 0.05
320 11 0.01
321 20 0.02
322 1 0.00
323 62 0.06
324 30 0.03
325 1 0.00
326 24 0.02
328 1 0.00
331 19 0.02
332 241 0.24
333 155 0.15
334 4 0.00
335 2 0.00
336 3 0.00
337 2 0.00
338 3 0.00
339 32 0.03
340 259 0.26
341 8 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (330 bp):
AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAAAATGGAAGCATCCTCAGG
TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCTGGGGTAGGGTGGGGCCACAATGGGGGATC
AAATTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATCAGGCCA
GAAAAGCTCAAATTAAAATGGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCATGG
TCCCCGGGGGTAGGGTGGGGCAACAATTGGGGATCAAGATTTTACATAGGAATATATAGAGAAAA
TCTTT
Found at i:919906 original size:150 final size:150
Alignment explanation
Indices: 919690--920579 Score: 1388
Period size: 150 Copynumber: 5.9 Consensus size: 150
919680 GTTTCTGACT
* * * * *
919690 GCGGGGTGGGGATGTGGTGTGTGGTGGTGGTGGTGCTCGCAATGGCAGACGCCGGTGTCTCCGTG
1 GCGGGGTGGGGATGT-G-GTGT-ATGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTG
* * * * * * ** * *
919755 GTGAATGGCACAGACGACATTTCCCT-GCTGGTCATGGCAGGTGTCGTTAGAACAATCAGCAGCT
63 GTGAATGGCGCAGACGACATTT-CCTGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCT
919819 GTGGTGCAAGTTTCAGCTCGGATG
127 GTGGTGCAAGTTTCAGCTCGGATG
* *
919843 GCGGGGTGAGGATGTGGTGTGTGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTG
1 GCGGGGTGGGGATGTGGTGTATGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTG
**
919908 AATGGCGCAGATTACATTTCCTGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGG
66 AATGGCGCAGACGACATTTCCTGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGG
*
919973 TGCAAGTTTCAGCTCGGATA
131 TGCAAGTTTCAGCTCGGATG
919993 GCGGGGTGGGGATGTGGTGTATGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTG
1 GCGGGGTGGGGATGTGGTGTATGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTG
*
920058 AATGGCGCAGACGACATTTCCTGGGTGATCTTTGCAGGTGTCGTTAGCGCAATCGGCTGCTGTGG
66 AATGGCGCAGACGACATTTCCTGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGG
920123 TGCAAGTTTCAGCTCGGATG
131 TGCAAGTTTCAGCTCGGATG
920143 GCGGGGTGGGGATGTGGTGTATGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTG
1 GCGGGGTGGGGATGTGGTGTATGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTG
920208 AATGGCGCAGACGACATTTCCTGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGG
66 AATGGCGCAGACGACATTTCCTGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGG
920273 TGCAAGTTTCAGCTCGGATG
131 TGCAAGTTTCAGCTCGGATG
920293 GCGGGGTGGGGATGTGGTGTATGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTG
1 GCGGGGTGGGGATGTGGTGTATGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTG
*
920358 AATGGCGCAGACGACATTTCCTGGGTGATCTTTGCAAGTGTCATTAGCGCAATCGGCTGCTGTGG
66 AATGGCGCAGACGACATTTCCTGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGG
920423 TGCAAGTTTCAGCTCGGATG
131 TGCAAGTTTCAGCTCGGATG
* * * *
920443 GCGGGATGGGGATGTGGTGTGTGGTGGTGGTGATGCTCACAATGGCAGACTCCGGTATCTCCGTG
1 GCGGGGTGGGGATGT-G-GTGT-ATGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTG
* * * * * * *
920508 GTGAATGGCGCAGACGACATTTCCCT-GCTGGTCATGGCAGGTGTCGTTAGCACAATCGGCGGCT
63 GTGAATGGCGCAGACGACATTT-CCTGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCT
*
920572 GTTGTGCA
127 GTGGTGCA
920580 TGATTCGGCT
Statistics
Matches: 693, Mismatches: 39, Indels: 10
0.93 0.05 0.01
Matches are distributed among these distances:
149 3 0.00
150 565 0.82
151 5 0.01
152 5 0.01
153 112 0.16
154 3 0.00
ACGTcount: A:0.17, C:0.20, G:0.37, T:0.26
Consensus pattern (150 bp):
GCGGGGTGGGGATGTGGTGTATGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTG
AATGGCGCAGACGACATTTCCTGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGG
TGCAAGTTTCAGCTCGGATG
Found at i:921249 original size:150 final size:150
Alignment explanation
Indices: 920978--921693 Score: 1218
Period size: 150 Copynumber: 4.8 Consensus size: 150
920968 NNNNNNNNNN
920978 TGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTGAATGGCGCAGATTACATTTCC
1 TGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTGAATGGCGCAGATTACATTTCC
921043 TGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGGTGCAAGTTTCAGCTCGGATGG
66 TGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGGTGCAAGTTTCAGCTCGGATGG
* *
921108 CGGGGTGAGGATGTGGTGTG
131 CGGGGTGGGGATGTGGTGTA
921128 TGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTGAATGGCGCAGATTACATTTCC
1 TGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTGAATGGCGCAGATTACATTTCC
921193 TGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGGTGCAAGTTTCAGCTCGGATGG
66 TGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGGTGCAAGTTTCAGCTCGGATGG
921258 CGGGGTGGGGATGTGGTGTA
131 CGGGGTGGGGATGTGGTGTA
921278 TGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTGAATGGCGCAGATTACATTTCC
1 TGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTGAATGGCGCAGATTACATTTCC
921343 TGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGGTGCAAGTTTCAGCTCGGATGG
66 TGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGGTGCAAGTTTCAGCTCGGATGG
921408 CGGGGTGGGGATGTGGTGTA
131 CGGGGTGGGGATGTGGTGTA
**
921428 TGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTGAATGGCGCAGACGACATTTCC
1 TGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTGAATGGCGCAGATTACATTTCC
*
921493 TGGGTGATCTTTGCAAGTGTCATTAGCGCAATCGGCTGCTGTGGTGCAAGTTTCAGCTCGGATGG
66 TGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGGTGCAAGTTTCAGCTCGGATGG
* *
921558 CGGGATGGGGATGTGGTGTGTGG
131 CGGGGTGGGGATGT-G-GTGT-A
* * **
921581 TGGTGGTGATGCTCACAATGGCAGACTCCGGTATCTCCGTGGTGAATGGCGCAGACGACATTTCC
1 TGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTGAATGGCGCAGATTACATTT-C
* * * * * * * *
921646 CT-GCTGGTCATGGCAGGTGTCGTTAGCACAATCGGCGGCTGTTGTGCA
65 CTGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGGTGCA
921694 TGATTCGGCT
Statistics
Matches: 544, Mismatches: 18, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
150 438 0.81
151 1 0.00
152 4 0.01
153 98 0.18
154 3 0.01
ACGTcount: A:0.17, C:0.20, G:0.36, T:0.27
Consensus pattern (150 bp):
TGGTGGTGATGCTCACAATGGCACACGCCGGTATCTCCGTGGTGAATGGCGCAGATTACATTTCC
TGGGTGATCTTTGCAAGTGTCGTTAGCGCAATCGGCTGCTGTGGTGCAAGTTTCAGCTCGGATGG
CGGGGTGGGGATGTGGTGTA
Found at i:922884 original size:1 final size:1
Alignment explanation
Indices: 922878--922903 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
922868 CCTACCGACA
922878 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
922904 ATACACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:922911 original size:2 final size:2
Alignment explanation
Indices: 922906--922932 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
922896 CCCCCCCCAT
922906 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
922933 ATTGTGCTTA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:924269 original size:16 final size:16
Alignment explanation
Indices: 924248--924278 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
924238 TTTTGCAAAG
924248 AAAAAAAAAACAAACC
1 AAAAAAAAAACAAACC
*
924264 AAAAAACAAACAAAC
1 AAAAAAAAAACAAAC
924279 GAGAATCTTT
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:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAACC
Found at i:928892 original size:15 final size:15
Alignment explanation
Indices: 928872--928912 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
928862 ATGCATGCAC
*
928872 TTTCTATTTTTATTT
1 TTTCTATTTTTATTA
*
928887 TTTCTATTTCTATTA
1 TTTCTATTTTTATTA
928902 TTTCTATTTTT
1 TTTCTATTTTT
928913 TCTATTATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTATTTTTATTA
Found at i:928903 original size:9 final size:9
Alignment explanation
Indices: 928891--928920 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
928881 TTATTTTTTC
928891 TATTTCTAT
1 TATTTCTAT
928900 TATTTCTAT
1 TATTTCTAT
*
928909 TTTTTCTAT
1 TATTTCTAT
928918 TAT
1 TAT
928921 GGAGTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (9 bp):
TATTTCTAT
Found at i:938975 original size:134 final size:134
Alignment explanation
Indices: 938734--939180 Score: 565
Period size: 134 Copynumber: 3.3 Consensus size: 134
938724 NNNNNNNNNN
* *
938734 ATTCGAGAAAGATGTCATCAGACGCAGAATTGTAAGCGCAACTTAGATATTAGGTTTTAAAATTA
1 ATTCGAGAAAAATGTCATCAGACGCAGAATTGTAAGCGCAACTTAGATATTATGTTTTAAAATTA
* * *
938799 GTCTGAGGTCATTTTAATGCAATTTAAATGAGTTTAAAATTTTTTAAAAATTTAAAATTCATCCA
66 GTCTGAGGTCATTTTAACGCGATTTAAATGAGTTTAAAATTTTTAAAAAATTTAAAATTCATCCA
938864 ATCA
131 ATCA
* * * * * **
938868 TTTCGACAAAAATGTCATTAGACGC-GAAATTCTAAGCACAACTTAGATACCATGTTTTAAAATT
1 ATTCGAGAAAAATGTCATCAGACGCAG-AATTGTAAGCGCAACTTAGATATTATGTTTTAAAATT
* *
938932 AGGCTGAGGTCATTTTAACGCGATTTAAATGAGTTTAAAATTTTTAAAAAATTTAAAATTCATTC
65 AGTCTGAGGTCATTTTAACGCGATTTAAATGAGTTTAAAATTTTTAAAAAATTTAAAATTCATCC
*
938997 GATCA
130 AATCA
* *
939002 ATTCGA-AAAAGATGTCATCAGACGCAGAATTGTAAGTGCAACTTGGATATTATGTTTTAAAATT
1 ATTCGAGAAAA-ATGTCATCAGACGCAGAATTGTAAGCGCAACTTAGATATTATGTTTTAAAATT
* * * * * * * *
939066 AGTCTGAGATCATTTTAACACGATTTAATTAAATTTTAAATTTTTAAAAAAATTAAATTTCATCC
65 AGTCTGAGGTCATTTTAACGCGATTTAAATGAGTTTAAAATTTTTAAAAAATTTAAAATTCATCC
*
939131 AATTA
130 AATCA
* * * ** * *
939136 CTTGGAGAAAAATTTCATTGGACACAAAATTGTAAGCGCAACTTA
1 ATTCGAGAAAAATGTCATCAGACGCAGAATTGTAAGCGCAACTTA
939181 AANTCGAGAA
Statistics
Matches: 265, Mismatches: 44, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
133 5 0.02
134 255 0.96
135 5 0.02
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (134 bp):
ATTCGAGAAAAATGTCATCAGACGCAGAATTGTAAGCGCAACTTAGATATTATGTTTTAAAATTA
GTCTGAGGTCATTTTAACGCGATTTAAATGAGTTTAAAATTTTTAAAAAATTTAAAATTCATCCA
ATCA
Found at i:939349 original size:180 final size:179
Alignment explanation
Indices: 939004--939359 Score: 394
Period size: 180 Copynumber: 2.0 Consensus size: 179
938994 TTCGATCAAT
* ** ** ** *
939004 TCGAAAAAGATGTCATCAGACGCAGAATTGTAAGTGCAACTTGGATATTATGTTTTAAAATTAGT
1 TCGAAAAAGATGTCATCAGACGCAGAATCGTAAGCACAACTTCAATATTACATTTAAAAATTAGT
* * *
939069 CTGAGATCATTTTAACACGATTTAATTAAATTTTAAATTTTTAAAAAAATTAAATTTCATCCAAT
66 CTCAGATCAATTTAACAAGATTTAATTAAATTTTAAATTTTTAAAAAAATTAAATTTCATCCAAT
* * * * ***
939134 TACTTGGAGAAAAATTTCATTGGACACAAAATTGTAAGCGCAACTTAAA
131 CAATTCGAGAAAAATGTCATCACACACAAAATTGTAAGCGCAACTTAAA
* * * *
939183 NTCGAGAAAGATGTTATTAGAGGCAGAATCGTAAGCACAACTTCAATATTACATTTAAAAATTAG
1 -TCGAAAAAGATGTCATCAGACGCAGAATCGTAAGCACAACTTCAATATTACATTTAAAAATTAG
* ** *
939248 TCTCAGGTCAATTTATTAAGATTTAATTAAA-TTTAAATTTTTTAAAAAATTTATAATTT-ATCC
65 TCTCAGATCAATTTAACAAGATTTAATTAAATTTTAAA-TTTTTAAAAAAATTA-AATTTCATCC
* * *
939311 AATCAATTCGA-AAAAGATGTCATCACACGCAGAATTGTAAGTGCAACTT
128 AATCAATTCGAGAAAA-ATGTCATCACACACAAAATTGTAAGCGCAACTT
939360 GGATATTATG
Statistics
Matches: 144, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
179 10 0.07
180 129 0.90
181 5 0.03
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (179 bp):
TCGAAAAAGATGTCATCAGACGCAGAATCGTAAGCACAACTTCAATATTACATTTAAAAATTAGT
CTCAGATCAATTTAACAAGATTTAATTAAATTTTAAATTTTTAAAAAAATTAAATTTCATCCAAT
CAATTCGAGAAAAATGTCATCACACACAAAATTGTAAGCGCAACTTAAA
Found at i:939572 original size:448 final size:447
Alignment explanation
Indices: 938736--939578 Score: 1104
Period size: 448 Copynumber: 1.9 Consensus size: 447
938726 NNNNNNNNAT
* * ** *
938736 TCGAGAAAGATGTCATCAGACGCAGAATTGTAAGCGCAACTTAGATATTAGGTTTTAAAATTAGT
1 TCGAGAAAGATGTCATCAGACGCAGAATCGTAAGCACAACTTAGATATTACATTTAAAAATTAGT
* * * * *
938801 CTGAGGTCATTTTAATGCAATTTAAATGAGTTTAAAATTTTTTAAAAATTTAAAATTCATCCAAT
66 CTCAGGTCAATTTAATGAAATTTAAATAAATTTAAAATTTTTTAAAAATTTAAAATTCATCCAAT
* * *
938866 CATTTCGACAAAAATGTCATTAGACGCGAAATTCTAAGCACAACTTAGATACCATGTTTTAAAAT
131 CAATTCGACAAAAATGTCATCACACGCGAAATTCTAAGCACAACTTAGATACCATGTTTTAAAAT
* * * * * *
938931 TAGGCTGAGGTCATTTTAACGCGATTTAAATGAGTTTAAAATTTTTAAAAAATTTAAAATTCATT
196 TAGGCTGAGATCATTTTAACACGATTTAAATAAATTTAAAATTTTTAAAAAAATTAAAATTCATC
* * * * * **
938996 CGATCAATTCGAAAAAGATGTCATCAGACGCAGAATTGTAAGTGCAACTTGGATATTATGTTTTA
261 CAATCAATTCGAAAAAAATGTCATCAGACACAAAATTGTAAGGGCAACTTAAATATTATGTTTTA
* *
939061 AAATTAGTCTGAGATCATTTTAACACGATTTAATTAAATTTTAAATTTTTAAAAAAATTAAATTT
326 AAATTAGTCTGAGATCATTTTAACACGATTTAATTAAATTTAAAATTTTCAAAAAAATTAAATTT
939126 CATCCAATTACTTGGAGAAAAATTTCATTGGACACAAAATTGTAAGCGCAACTTAAA
391 CATCCAATTACTTGGAGAAAAATTTCATTGGACACAAAATTGTAAGCGCAACTTAAA
* * *
939183 NTCGAGAAAGATGTTATTAGAGGCAGAATCGTAAGCACAACTTCA-ATATTACATTTAAAAATTA
1 -TCGAGAAAGATGTCATCAGACGCAGAATCGTAAGCACAACTT-AGATATTACATTTAAAAATTA
* * * *
939247 GTCTCAGGTCAATTT-ATTAAGATTTAATTAAATTT-AAATTTTTTAAAAAATTTATAATTTATC
64 GTCTCAGGTCAATTTAATGAA-ATTTAAATAAATTTAAAATTTTTT-AAAAATTTAAAATTCATC
* ** * **
939310 CAATCAATTCGA-AAAAGATGTCATCACACGC-AGAATTGTAAGTGCAACTTGGATATTATGTTT
127 CAATCAATTCGACAAAA-ATGTCATCACACGCGA-AATTCTAAGCACAACTTAGATACCATGTTT
* * * *
939373 TAAAATTAGTCTGAGATCATTTTAACACGATTTAATTAAATTTTAAATTTTTAAAAAAATTAAAT
190 TAAAATTAGGCTGAGATCATTTTAACACGATTTAAATAAATTTAAAATTTTTAAAAAAATTAAAA
* * **
939438 TTCATCCAATTAATTC-AAGAAAAATTTCATTGGACACAAAATTGTAAGGGCAACTTAAATATTA
255 TTCATCCAATCAATTCGAA-AAAAATGTCATCAGACACAAAATTGTAAGGGCAACTTAAATATTA
* ** *
939502 TGTTTTAAAATTAGTCTGAGGTCATTTTATTACGATTTAATTAAATTTAAAATTTTCAAAAAATT
319 TGTTTTAAAATTAGTCTGAGATCATTTTAACACGATTTAATTAAATTTAAAATTTTCAAAAAAAT
939567 TAAATTTCATCC
384 TAAATTTCATCC
939579 CATCAATTGG
Statistics
Matches: 336, Mismatches: 53, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
447 19 0.06
448 316 0.94
449 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (447 bp):
TCGAGAAAGATGTCATCAGACGCAGAATCGTAAGCACAACTTAGATATTACATTTAAAAATTAGT
CTCAGGTCAATTTAATGAAATTTAAATAAATTTAAAATTTTTTAAAAATTTAAAATTCATCCAAT
CAATTCGACAAAAATGTCATCACACGCGAAATTCTAAGCACAACTTAGATACCATGTTTTAAAAT
TAGGCTGAGATCATTTTAACACGATTTAAATAAATTTAAAATTTTTAAAAAAATTAAAATTCATC
CAATCAATTCGAAAAAAATGTCATCAGACACAAAATTGTAAGGGCAACTTAAATATTATGTTTTA
AAATTAGTCTGAGATCATTTTAACACGATTTAATTAAATTTAAAATTTTCAAAAAAATTAAATTT
CATCCAATTACTTGGAGAAAAATTTCATTGGACACAAAATTGTAAGCGCAACTTAAA
Found at i:939657 original size:133 final size:133
Alignment explanation
Indices: 939189--939660 Score: 565
Period size: 134 Copynumber: 3.5 Consensus size: 133
939179 TAAANTCGAG
* * ** ** * *
939189 AAAGATGTT-ATTAGAGGCAGAATCGTAAGCACAACTTCA-ATATTACATTTAAAAATTAGTCTC
1 AAAGAT-TTCATTAGACGCAGAATTGTAAGTGCAACTT-AGATATTATGTTTTAAAATTAGTCTG
* * *
939252 AGGTCAATTTATTAAGATTTAATTAAATTTAAATTTTTTAAAAAATTTATAATTT-ATCCAATCA
64 AGGTCATTTTATTACGATTTAATTAAATTTAAAATTTTTAAAAAATTTA-AATTTCATCCAATCA
939316 ATTCGAA
128 ATT-GAA
* * * *
939323 AAAGATGTCATCACACGCAGAATTGTAAGTGCAACTTGGATATTATGTTTTAAAATTAGTCTGAG
1 AAAGATTTCATTAGACGCAGAATTGTAAGTGCAACTTAGATATTATGTTTTAAAATTAGTCTGAG
* ** * * *
939388 ATCATTTTAACACGATTTAATTAAATTTTAAATTTTTAAAAAAATTAAATTTCATCCAATTAATT
66 GTCATTTTATTACGATTTAATTAAATTTAAAATTTTTAAAAAATTTAAATTTCATCCAATCAATT
*
939453 CAA
131 GAA
* * * * * *
939456 GAAAAATTTCATTGGACACAAAATTGTAAGGGCAACTTAAATATTATGTTTTAAAATTAGTCTGA
1 -AAAGATTTCATTAGACGCAGAATTGTAAGTGCAACTTAGATATTATGTTTTAAAATTAGTCTGA
* *
939521 GGTCATTTTATTACGATTTAATTAAATTTAAAATTTTCAAAAAATTTAAATTTCATCCCATCAAT
65 GGTCATTTTATTACGATTTAATTAAATTTAAAATTTTTAAAAAATTTAAATTTCATCCAATCAAT
939586 TGGAA
130 T-GAA
* * *
939591 AAAGATTTTATTAGACGTAGAATT-AAAGTGCAACTTAGATATTATGTTTTAAAATTAGTCTGAG
1 AAAGATTTCATTAGACGCAGAATTGTAAGTGCAACTTAGATATTATGTTTTAAAATTAGTCTGAG
939655 GTCATT
66 GTCATT
939661 ATAACACATT
Statistics
Matches: 283, Mismatches: 50, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
133 51 0.18
134 230 0.81
135 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (133 bp):
AAAGATTTCATTAGACGCAGAATTGTAAGTGCAACTTAGATATTATGTTTTAAAATTAGTCTGAG
GTCATTTTATTACGATTTAATTAAATTTAAAATTTTTAAAAAATTTAAATTTCATCCAATCAATT
GAA
Found at i:939979 original size:166 final size:166
Alignment explanation
Indices: 939690--940314 Score: 912
Period size: 166 Copynumber: 3.8 Consensus size: 166
939680 TTTTAAAATT
* * *
939690 TAGCTTCCCTACTCGGAATTTCCAGACAATGATTTTTCTCGTGATGCTAGAC-TATCATGTCCTC
1 TAGCTTCCGTACTCGGAATTTCCAGACAATGATTTTCCTCGTGAGGCTAGACGT-TCATGTCCTC
* * ** ** ** *
939754 TATCATTCCTGAAATTTTCAGCTTTCTATCTTTTCTCGCCTTAAAATAGATGTGTGGACAATGA-
65 TATCATTCCTGAAAATTTCAGCTTTCTATCTTTGCTCGTTTTTGAGGAGATGCGTGGACAA-GAT
**** * ** * *
939818 AAACTCATCGAAAGTGTGTTCTATATTTTGACCCCGGC
129 GTTTTCATCAAAAACGTGTCCTATATTTTGACCCCAGC
* *
939856 TAGCTTCCGTACTCGGAATTTCCGGACAATGATTTTCCTCGGGAGGCTAGACGTTCATGTCCTCT
1 TAGCTTCCGTACTCGGAATTTCCAGACAATGATTTTCCTCGTGAGGCTAGACGTTCATGTCCTCT
* * * **
939921 ATCATTCCTAAAAATGTCAGCTTTTTATCTTTGGACGTTTTTGAGGAGATGCGTGGACAAGATGT
66 ATCATTCCTGAAAATTTCAGCTTTCTATCTTTGCTCGTTTTTGAGGAGATGCGTGGACAAGATGT
939986 TTTCATCAAAAACGTGTCCTATATTTTGACCCCAGC
131 TTTCATCAAAAACGTGTCCTATATTTTGACCCCAGC
940022 TAGCTTCCGTACTCGGAATTTCCAGACAATGATTTTCCTCGTGAGGCTAGACGTTCATGTCCTCT
1 TAGCTTCCGTACTCGGAATTTCCAGACAATGATTTTCCTCGTGAGGCTAGACGTTCATGTCCTCT
940087 ATCATTCCTGAAAATTTCAGCTTTCTATCTTTGCTCGTTTTTGAGGAGATGCGTGGACAAGATGT
66 ATCATTCCTGAAAATTTCAGCTTTCTATCTTTGCTCGTTTTTGAGGAGATGCGTGGACAAGATGT
940152 TTTCATCAAAAACGTGTCCTATATTTTGACCCCAGC
131 TTTCATCAAAAACGTGTCCTATATTTTGACCCCAGC
*
940188 TAGCTTCCGTACTCGGAATTTCCGGACAATGATTTTCCTCGTGAGGCTAGACGTTCATGTCCTCT
1 TAGCTTCCGTACTCGGAATTTCCAGACAATGATTTTCCTCGTGAGGCTAGACGTTCATGTCCTCT
* * * * *
940253 ATCATTCCTGAAAATTTCAGCTTTCCATCATTGCTCGTTTTTGAGGAAATACCTGGACAAGA
66 ATCATTCCTGAAAATTTCAGCTTTCTATCTTTGCTCGTTTTTGAGGAGATGCGTGGACAAGA
940315 ACTTTTTAAA
Statistics
Matches: 416, Mismatches: 41, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
165 2 0.00
166 413 0.99
167 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (166 bp):
TAGCTTCCGTACTCGGAATTTCCAGACAATGATTTTCCTCGTGAGGCTAGACGTTCATGTCCTCT
ATCATTCCTGAAAATTTCAGCTTTCTATCTTTGCTCGTTTTTGAGGAGATGCGTGGACAAGATGT
TTTCATCAAAAACGTGTCCTATATTTTGACCCCAGC
Found at i:940614 original size:63 final size:63
Alignment explanation
Indices: 940532--940747 Score: 273
Period size: 63 Copynumber: 3.5 Consensus size: 63
940522 ATAATAGAAG
* *
940532 GGTCTTCCGCT-GAAGACGGAAGACCCTAATAATAGGGAAAAAGAAACAAAGCAAAAACAATAA
1 GGTCTTCCGTTGGAA-ACGGAAGACCCTAATAATAGGGAAAAAGAAACAAAGCAATAACAATAA
* * **
940595 GGTCTTCCGTTGGAAACGGAAGACCTTATTAA-A--GAAAAAGAAACCGTAG-AATAACAA-AA
1 GGTCTTCCGTTGGAAACGGAAGACCCTAATAATAGGGAAAAAGAAA-CAAAGCAATAACAATAA
* * *
940654 GGGTTTTCCGTTGAAAACGGAAAACCCTAATAATAGGGAAAAAGAAACAAAGCAATAACAATAA
1 -GGTCTTCCGTTGGAAACGGAAGACCCTAATAATAGGGAAAAAGAAACAAAGCAATAACAATAA
*
940718 GGTCTTCCGTTGGAAACGGAAGACCTTAAT
1 GGTCTTCCGTTGGAAACGGAAGACCCTAAT
940748 TAAAAAGAAA
Statistics
Matches: 128, Mismatches: 17, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
59 2 0.02
60 44 0.34
61 4 0.03
62 4 0.03
63 69 0.54
64 5 0.04
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (63 bp):
GGTCTTCCGTTGGAAACGGAAGACCCTAATAATAGGGAAAAAGAAACAAAGCAATAACAATAA
Found at i:940636 original size:123 final size:124
Alignment explanation
Indices: 940505--940751 Score: 397
Period size: 123 Copynumber: 2.0 Consensus size: 124
940495 AAAAAAACCT
* * * * *
940505 GAAAAAGAAACATTACAATAATAGAAGGGTCTTCCGCTGAAGACGGAAGACCCTAATAATAGGGA
1 GAAAAAGAAACAGTACAATAACAAAAGGGTCTTCCGCTGAAAACGGAAAACCCTAATAATAGGGA
940570 AAAAGAAACAAAGCAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTT-ATTAAA
66 AAAAGAAACAAAGCAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATTAAA
* * * *
940628 GAAAAAGAAACCGTAGAATAACAAAAGGGTTTTCCGTTGAAAACGGAAAACCCTAATAATAGGGA
1 GAAAAAGAAACAGTACAATAACAAAAGGGTCTTCCGCTGAAAACGGAAAACCCTAATAATAGGGA
*
940693 AAAAGAAACAAAGCAATAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATTAAA
66 AAAAGAAACAAAGCAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATTAAA
940752 AAGAAAACTG
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
123 107 0.95
124 6 0.05
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (124 bp):
GAAAAAGAAACAGTACAATAACAAAAGGGTCTTCCGCTGAAAACGGAAAACCCTAATAATAGGGA
AAAAGAAACAAAGCAAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTTAATTAAA
Done.