Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 126 of 259
Found at i:40673726 original size:144 final size:145
Alignment explanation
Indices: 40673466--40673800 Score: 442
Period size: 144 Copynumber: 2.3 Consensus size: 145
40673456 CGGAGGTCTT
* * * * *
40673466 GCACCCTAGGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAGC-TCACCCCTGAAGTGATAA
1 GCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAGCTTCACCCCTAAAGTGATAA
* * * ** *
40673530 TATTATGGCCCAAATCCAAATCAATGAAGCTCGCACCTGAAGTGCTAATATCATGGCCCAAATCC
66 TATCATGGCCCAAAGCCAAATCAATGAAGCTCACACCCAAAGTGCCAATATCATGGCCCAAATCC
* *
40673595 AAATAAATGAATCTC
131 AAATAAATAAAGCTC
* *
40673610 GCACCCGAAGTGCTAATATCATGGCTCGAAGCCAAATCAATGAAGCTTGCA-CCC-AAAGTGCTA
1 GCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAGCTT-CACCCCTAAAGTGATA
* * *
40673673 ATATCATGGCCCGAAGCCAAATCAATGAAGCTCATACCCAAAGTGCCAATATCATGGCCCAAATT
65 ATATCATGGCCCAAAGCCAAATCAATGAAGCTCACACCCAAAGTGCCAATATCATGGCCCAAATC
*
40673738 CAAATCAATAAAGCTC
130 CAAATAAATAAAGCTC
* * *
40673754 GCACCTGAAGTGCTAATATCATAGCCCGAAGCCAAATAAATGAAGCT
1 GCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAGCT
40673801 CCTAATGACA
Statistics
Matches: 166, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
144 160 0.96
145 4 0.02
146 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (145 bp):
GCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAGCTTCACCCCTAAAGTGATAA
TATCATGGCCCAAAGCCAAATCAATGAAGCTCACACCCAAAGTGCCAATATCATGGCCCAAATCC
AAATAAATAAAGCTC
Found at i:40676415 original size:39 final size:39
Alignment explanation
Indices: 40676366--40676495 Score: 251
Period size: 39 Copynumber: 3.3 Consensus size: 39
40676356 CTAAGATCTC
40676366 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCG
1 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCG
*
40676405 AAGGTATTTGTGCGAGATACTAATTCCGGGCTAAGCCCG
1 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCG
40676444 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCG
1 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCG
40676483 AAGGCATTTGTGC
1 AAGGCATTTGTGC
40676496 NNNNNNNNNN
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCG
Found at i:40690222 original size:27 final size:27
Alignment explanation
Indices: 40690191--40690368 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40690181 TAAATTGTAC
40690191 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40690218 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40690244 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40690272 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40690300 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40690327 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40690354 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40690369 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40690305 original size:82 final size:81
Alignment explanation
Indices: 40690192--40690347 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40690182 AAATTGTACA
* *
40690192 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
40690256 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
40690273 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
40690338 TGCGAGTTGA
65 TGCGAATTGA
40690348 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:40690359 original size:82 final size:81
Alignment explanation
Indices: 40690188--40690368 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
40690178 GATTAAATTG
* *
40690188 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
40690253 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
40690269 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
40690333 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
40690351 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40690369 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:40695956 original size:29 final size:28
Alignment explanation
Indices: 40695924--40696013 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
40695914 GCACATTAAA
40695924 CCAAATCATATTCATATGGCCCATTAGGC
1 CCAAATCATATT-ATATGGCCCATTAGGC
***
40695953 CC-AATCCGCCTGTATATGGCCCATTAGGC
1 CCAAAT-CATAT-TATATGGCCCATTAGGC
* *
40695982 CCAAATCATATTTGTATGGCCCGTTAGGC
1 CCAAATCATA-TTATATGGCCCATTAGGC
40696011 CCA
1 CCA
40696014 GTGAAATTCA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
28 3 0.06
29 41 0.84
30 5 0.10
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (28 bp):
CCAAATCATATTATATGGCCCATTAGGC
Found at i:40696272 original size:16 final size:16
Alignment explanation
Indices: 40696245--40696289 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
40696235 ACTTTCGGCT
*
40696245 TTTCAGCATTTCGACA
1 TTTCGGCATTTCGACA
* *
40696261 TTTTGGCTTTTCGACA
1 TTTCGGCATTTCGACA
40696277 TTTCGGCATTTCG
1 TTTCGGCATTTCG
40696290 GCTTTTGCCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (16 bp):
TTTCGGCATTTCGACA
Found at i:40696278 original size:24 final size:24
Alignment explanation
Indices: 40696237--40696295 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
40696227 GTAGCCAGAC
40696237 TTTCGGCTTTTCAGCATTTCGACA
1 TTTCGGCTTTTCAGCATTTCGACA
* *
40696261 TTTTGGCTTTTC-GACATTTCGGCA
1 TTTCGGCTTTTCAG-CATTTCGACA
40696285 TTTCGGCTTTT
1 TTTCGGCTTTT
40696296 GCCGATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.47
Consensus pattern (24 bp):
TTTCGGCTTTTCAGCATTTCGACA
Found at i:40696290 original size:8 final size:8
Alignment explanation
Indices: 40696237--40696291 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
40696227 GTAGCCAGAC
*
40696237 TTTCGGCT
1 TTTCGGCA
*
40696245 TTTCAGCA
1 TTTCGGCA
*
40696253 TTTCGACA
1 TTTCGGCA
* *
40696261 TTTTGGCT
1 TTTCGGCA
*
40696269 TTTCGACA
1 TTTCGGCA
40696277 TTTCGGCA
1 TTTCGGCA
40696285 TTTCGGC
1 TTTCGGC
40696292 TTTTGCCGAT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.44
Consensus pattern (8 bp):
TTTCGGCA
Found at i:40697530 original size:16 final size:16
Alignment explanation
Indices: 40697505--40697536 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
40697495 AAAATTTAAT
40697505 ATTTCGAGATTTTTGG
1 ATTTCGAGATTTTTGG
*
40697521 ATTTCTAGATTTTTGG
1 ATTTCGAGATTTTTGG
40697537 GGCGTTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.06, G:0.22, T:0.53
Consensus pattern (16 bp):
ATTTCGAGATTTTTGG
Found at i:40698799 original size:25 final size:25
Alignment explanation
Indices: 40698771--40698819 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
40698761 CCACAGGACC
*
40698771 AATCACATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* * *
40698796 AATCATATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
40698820 AATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:40706436 original size:47 final size:47
Alignment explanation
Indices: 40706357--40706669 Score: 509
Period size: 47 Copynumber: 6.6 Consensus size: 47
40706347 TATTTGAATA
40706357 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
40706406 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
40706453 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
40706502 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
40706549 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
40706596 AATGTGAAAGCGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
40706643 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
40706670 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
47 191 0.76
49 59 0.24
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:40706469 original size:96 final size:96
Alignment explanation
Indices: 40706357--40706669 Score: 526
Period size: 96 Copynumber: 3.3 Consensus size: 96
40706347 TATTTGAATA
40706357 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
40706422 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
40706453 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
40706518 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
40706549 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * * *
40706612 TATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
40706643 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
40706670 TCCCGAAGGG
Statistics
Matches: 207, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
94 96 0.46
95 1 0.00
96 110 0.53
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:40706532 original size:143 final size:141
Alignment explanation
Indices: 40706357--40706669 Score: 509
Period size: 143 Copynumber: 2.2 Consensus size: 141
40706347 TATTTGAATA
40706357 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
40706422 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG--TATATATGTGACAAGGCCGA
* *
40706487 ATGGCCGATGTGATG
127 ATGGCCAACGTGATG
40706502 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
40706567 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGACAGGGCCGAGTGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGACAAGGCCGAATGG
40706632 CCAACGTGATG
131 CCAACGTGATG
* *
40706643 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
40706670 TCCCGAAGGG
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
141 54 0.34
143 93 0.58
145 12 0.08
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGACAAGGCCGAATGG
CCAACGTGATG
Found at i:40713954 original size:19 final size:18
Alignment explanation
Indices: 40713930--40713970 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
40713920 AACACTAAAC
40713930 AAATCCCAAATTAAAGTAA
1 AAAT-CCAAATTAAAGTAA
* *
40713949 AAATCCATATTACAGTAA
1 AAATCCAAATTAAAGTAA
40713967 AAAT
1 AAAT
40713971 ACCCCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATCCAAATTAAAGTAA
Found at i:40717577 original size:46 final size:46
Alignment explanation
Indices: 40717527--40717702 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
40717517 TGGTTGAGCA
* *
40717527 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
40717573 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
40717620 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
40717666 -CTCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40717703 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.56
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40717683 original size:93 final size:93
Alignment explanation
Indices: 40717524--40717695 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
40717514 GGATGGTTGA
* * * * *
40717524 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATAGATGCAAACGTCCGAACTCATTGAGT
40717589 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
40717617 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATAGATGCGAACG-CTCGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATAGATGCAAACGTC-CGAACTCATTGAG
40717681 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
40717696 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATAGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40720800 original size:23 final size:22
Alignment explanation
Indices: 40720774--40720818 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
40720764 ACCCCATGCA
40720774 ATGCAACATAACAT-TATACATGG
1 ATGCAACAT-ACATATA-ACATGG
40720797 ATGCAACATACATATAACATGG
1 ATGCAACATACATATAACATGG
40720819 CATTCTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.24
Consensus pattern (22 bp):
ATGCAACATACATATAACATGG
Found at i:40720816 original size:22 final size:23
Alignment explanation
Indices: 40720774--40720818 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
40720764 ACCCCATGCA
40720774 ATGCAACATAACATTATACATGG
1 ATGCAACATAACATTATACATGG
40720797 ATGCAACAT-ACA-TATAACATGG
1 ATGCAACATAACATTAT-ACATGG
40720819 CATTCTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.14
22 9 0.43
23 9 0.43
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.24
Consensus pattern (23 bp):
ATGCAACATAACATTATACATGG
Found at i:40720953 original size:27 final size:27
Alignment explanation
Indices: 40720888--40720974 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
40720878 TATTACAGTT
** *
40720888 ATTTTACCCTACAGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
40720915 ATTCTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
40720942 ATTTTACCCTATGAGCGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
40720969 ATTTTA
1 ATTTTA
40720975 TCACACAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:40720996 original size:27 final size:27
Alignment explanation
Indices: 40720966--40721121 Score: 249
Period size: 27 Copynumber: 5.8 Consensus size: 27
40720956 GCGTATTTCG
** *
40720966 GTCATTTTATCACACAATGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
40720993 GTCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
*
40721020 ATCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
* *
40721047 GTCATTTTATCACATAAAGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
40721074 GTCATTTTATCACATGAGGGTAAAATC
1 GTCATTTTATCACATGAGGGTAAAATC
40721101 GTCATTTTATCACATGAGGGT
1 GTCATTTTATCACATGAGGGT
40721122 TCAGGTACGC
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (27 bp):
GTCATTTTATCACATGAGGGTAAAATC
Found at i:40721119 original size:81 final size:81
Alignment explanation
Indices: 40720966--40721121 Score: 276
Period size: 81 Copynumber: 1.9 Consensus size: 81
40720956 GCGTATTTCG
*
40720966 GTCATTTTATCACACAATGGTAAAATCGTCATTTTATCACATGAGGGCAAAATCATCATTTTATC
1 GTCATTTTATCACACAAAGGTAAAATCGTCATTTTATCACATGAGGGCAAAATCATCATTTTATC
40721031 ACATGAGGGTAAAATC
66 ACATGAGGGTAAAATC
* * *
40721047 GTCATTTTATCACATAAAGGTAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTTATC
1 GTCATTTTATCACACAAAGGTAAAATCGTCATTTTATCACATGAGGGCAAAATCATCATTTTATC
40721112 ACATGAGGGT
66 ACATGAGGGT
40721122 TCAGGTACGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (81 bp):
GTCATTTTATCACACAAAGGTAAAATCGTCATTTTATCACATGAGGGCAAAATCATCATTTTATC
ACATGAGGGTAAAATC
Found at i:40731544 original size:55 final size:54
Alignment explanation
Indices: 40731419--40731615 Score: 202
Period size: 55 Copynumber: 3.6 Consensus size: 54
40731409 ATTAGGGTTT
* *
40731419 AAGGATACCAAGTAAGACCATGCCAAGGA-ATGGCATTGGAAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCATTGTAAAGTTCTATAAGGC
* * * * * *
40731473 AAGGAAATCATGTAAGACCATGTCAAGATATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTG-TAAAGTTCTATAAGGC
* * * * * *
40731528 AAAGATCCCATGTAAGACCAAGCCAAGACATGGTAATGGT-GAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGTAAAGTTCTATAAGGC
* *
40731581 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
40731616 ATGGTAACTT
Statistics
Matches: 115, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
52 1 0.01
53 37 0.32
54 34 0.30
55 40 0.35
56 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGTAAAGTTCTATAAGGC
Found at i:40738202 original size:20 final size:20
Alignment explanation
Indices: 40738177--40738224 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
40738167 GATTTTCCAT
40738177 GATTGCTACTCCATTGACAA
1 GATTGCTACTCCATTGACAA
40738197 GATTGCTACTCCATTGACAA
1 GATTGCTACTCCATTGACAA
40738217 GATTGCTA
1 GATTGCTA
40738225 TAGAAAGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (20 bp):
GATTGCTACTCCATTGACAA
Found at i:40743011 original size:24 final size:24
Alignment explanation
Indices: 40742984--40743030 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
40742974 ATATGTTGAC
40742984 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
40743008 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
40743031 CATACTACAC
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:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:40743064 original size:24 final size:24
Alignment explanation
Indices: 40742994--40743056 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
40742984 ATTCAAATCA
* * * *
40742994 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
40743018 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
40743042 GCACACATAGTGCCA
1 GCACACATAGTGCCA
40743057 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:40755108 original size:47 final size:47
Alignment explanation
Indices: 40755022--40755337 Score: 479
Period size: 47 Copynumber: 6.6 Consensus size: 47
40755012 GTATATTTGA
*
40755022 ATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTG
1 ATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTG
*
40755073 ATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
40755120 ATGAATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
40755167 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
40755214 AGGAATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * *
40755261 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
40755308 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
40755338 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 19, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
47 232 0.94
51 14 0.06
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:40755512 original size:37 final size:37
Alignment explanation
Indices: 40755456--40755534 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
40755446 CCGAGCTCTA
* *
40755456 AAGACCCGATGACTACGTGTAGGA-ATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGT-GGAGATTATGTCCGGGT
*
40755493 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40755530 AAGAC
1 AAGAC
40755535 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 3 0.08
37 35 0.92
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40757448 original size:43 final size:43
Alignment explanation
Indices: 40757400--40757502 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
40757390 TTGGTTTTCA
40757400 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
40757443 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
40757486 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
40757503 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:40757519 original size:29 final size:29
Alignment explanation
Indices: 40757484--40757557 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
40757474 GTTGTGAGAT
* *
40757484 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
40757513 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
40757542 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
40757558 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:40757925 original size:40 final size:40
Alignment explanation
Indices: 40757868--40758050 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
40757858 TTGAATGATG
* * * *
40757868 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TATA
*
40757908 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
40757948 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
*** * *
40757988 TCCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* * * *
40758028 TCTGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTTCCGAAGAGCA
40758051 ATCATGCTGG
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 108 0.87
41 8 0.06
42 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:40761580 original size:47 final size:47
Alignment explanation
Indices: 40761513--40761856 Score: 571
Period size: 47 Copynumber: 7.3 Consensus size: 47
40761503 AAAGTGTATA
* * *
40761513 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
40761560 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
40761607 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
*
40761654 TATATATGTGATAACGCCTAATGGCCGATGTGATGAATGTGAAAGCG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
40761701 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
*
40761748 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
* * * * * * *
40761795 TATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
*
40761842 TATAAATGTGATAAG
1 TATATATGTGATAAG
40761857 TCCCGAAGGG
Statistics
Matches: 282, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 282 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
Found at i:40762017 original size:37 final size:37
Alignment explanation
Indices: 40761975--40762053 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
40761965 CCGAGCTCTA
* *
40761975 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
40762012 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40762049 AAGAC
1 AAGAC
40762054 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40764435 original size:39 final size:38
Alignment explanation
Indices: 40764392--40764520 Score: 141
Period size: 39 Copynumber: 3.2 Consensus size: 38
40764382 CCGGCAATTA
40764392 GCCTGCTAGGTATAAACATGAACTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAAC-TGAACTTATCACCGGCACGAG
** * * ** *
40764431 GCCTGCTAGACATTAAGTCTGAAACTCATTCACCGGCATTAT
1 GCCTGCTAGGTA-TAA-ACTG-AACTTA-TCACCGGCACGAG
40764473 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAA-CTGAACTTATCACCGGCACGAG
40764512 GCCTGCTAG
1 GCCTGCTAG
40764521 ACATTAAGTC
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
39 29 0.41
40 10 0.14
41 12 0.17
42 20 0.28
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (38 bp):
GCCTGCTAGGTATAAACTGAACTTATCACCGGCACGAG
Found at i:40764468 original size:42 final size:42
Alignment explanation
Indices: 40764418--40764549 Score: 162
Period size: 42 Copynumber: 3.2 Consensus size: 42
40764408 CATGAACTTA
40764418 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
1 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
** * ** ** *
40764460 TCACCGGCATTATGCCTGCTAGGTA-TAAACCTG-AACTTA-
1 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
*
40764499 TCACCGGCACGAGGCCTGCTAGACATTAAGTCCGAAACTCAT
1 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
40764541 TCACCGGCA
1 TCACCGGCA
40764550 TTATGCCTGC
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
39 20 0.29
40 10 0.14
41 11 0.16
42 29 0.41
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (42 bp):
TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
Found at i:40764513 original size:81 final size:81
Alignment explanation
Indices: 40764378--40764563 Score: 338
Period size: 81 Copynumber: 2.3 Consensus size: 81
40764368 CTTTTATTAT
40764378 TTCACCGGCAATTA-GCCTGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCCTGCTAGAC
1 TTCACCGGC-ATTATGCCTGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCCTGCTAGAC
*
40764442 ATTAAGTCTGAAACTCA
65 ATTAAGTCCGAAACTCA
*
40764459 TTCACCGGCATTATGCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCCTGCTAGACA
1 TTCACCGGCATTATGCCTGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCCTGCTAGACA
40764524 TTAAGTCCGAAACTCA
66 TTAAGTCCGAAACTCA
40764540 TTCACCGGCATTATGCCTGCTAGG
1 TTCACCGGCATTATGCCTGCTAGG
40764564 CTCATGGCCC
Statistics
Matches: 102, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
80 4 0.04
81 98 0.96
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (81 bp):
TTCACCGGCATTATGCCTGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCCTGCTAGACA
TTAAGTCCGAAACTCA
Found at i:40764576 original size:42 final size:41
Alignment explanation
Indices: 40764451--40764578 Score: 111
Period size: 42 Copynumber: 3.1 Consensus size: 41
40764441 CATTAAGTCT
* *
40764451 GAAACTCATTCACCGGCATTATGCCTGCTAGG-TATAAACCT
1 GAAACTCATTCACCGGCATTATGCCTGCTAGGCTAT-AGCCC
* ** * * *
40764492 G-AACTTA-TCACCGGCACGAGGCCTGCTAGAC-ATTAAGTCC
1 GAAACTCATTCACCGGCATTATGCCTGCTAGGCTA-T-AGCCC
*
40764532 GAAACTCATTCACCGGCATTATGCCTGCTAGGCTCATGGCCC
1 GAAACTCATTCACCGGCATTATGCCTGCTAGGCT-ATAGCCC
40764574 GAAAC
1 GAAAC
40764579 AATTTCACCA
Statistics
Matches: 66, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
39 20 0.30
40 10 0.15
41 6 0.09
42 28 0.42
43 1 0.02
44 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (41 bp):
GAAACTCATTCACCGGCATTATGCCTGCTAGGCTATAGCCC
Found at i:40772258 original size:39 final size:38
Alignment explanation
Indices: 40772215--40772343 Score: 123
Period size: 39 Copynumber: 3.2 Consensus size: 38
40772205 CCGGCAATTA
40772215 GCCTGCTAGGTATAAACATGAACTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAAC-TGAACTTATCACCGGCACGAG
** * * ** *
40772254 GCCTGCTAGACATTAAGTCTGAAACTCATTCACCGGCATTAT
1 GCCTGCTAGGTA-TAA-ACTG-AACTTA-TCACCGGCACGAG
* *
40772296 GCCTACTAGGTATAAACCTGAACGTATCACCGGCACGAG
1 GCCTGCTAGGTATAAA-CTGAACTTATCACCGGCACGAG
40772335 GCCTGCTAG
1 GCCTGCTAG
40772344 ACATTAAGTC
Statistics
Matches: 68, Mismatches: 17, Indels: 10
0.72 0.18 0.11
Matches are distributed among these distances:
39 28 0.41
40 9 0.13
41 12 0.18
42 19 0.28
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (38 bp):
GCCTGCTAGGTATAAACTGAACTTATCACCGGCACGAG
Found at i:40772291 original size:42 final size:42
Alignment explanation
Indices: 40772241--40772372 Score: 146
Period size: 42 Copynumber: 3.2 Consensus size: 42
40772231 CATGAACTTA
40772241 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
1 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
** * * ** **
40772283 TCACCGGCATTATGCCTACTAGGTA-TAAACCTG-AACGT-A-
1 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAAC-TCAT
*
40772322 TCACCGGCACGAGGCCTGCTAGACATTAAGTCCGAAACTCAT
1 TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
40772364 TCACCGGCA
1 TCACCGGCA
40772373 TTATGCCTGC
Statistics
Matches: 68, Mismatches: 17, Indels: 10
0.72 0.18 0.11
Matches are distributed among these distances:
39 19 0.28
40 10 0.15
41 11 0.16
42 28 0.41
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (42 bp):
TCACCGGCACGAGGCCTGCTAGACATTAAGTCTGAAACTCAT
Found at i:40772336 original size:81 final size:81
Alignment explanation
Indices: 40772201--40772386 Score: 320
Period size: 81 Copynumber: 2.3 Consensus size: 81
40772191 CTTTTATTAT
*
40772201 TTCACCGGCAATTA-GCCTGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCCTGCTAGAC
1 TTCACCGGC-ATTATGCCTGCTAGGTATAAACATGAACGTATCACCGGCACGAGGCCTGCTAGAC
*
40772265 ATTAAGTCTGAAACTCA
65 ATTAAGTCCGAAACTCA
* *
40772282 TTCACCGGCATTATGCCTACTAGGTATAAACCTGAACGTATCACCGGCACGAGGCCTGCTAGACA
1 TTCACCGGCATTATGCCTGCTAGGTATAAACATGAACGTATCACCGGCACGAGGCCTGCTAGACA
40772347 TTAAGTCCGAAACTCA
66 TTAAGTCCGAAACTCA
40772363 TTCACCGGCATTATGCCTGCTAGG
1 TTCACCGGCATTATGCCTGCTAGG
40772387 CTCATGGCCC
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 4 0.04
81 95 0.96
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (81 bp):
TTCACCGGCATTATGCCTGCTAGGTATAAACATGAACGTATCACCGGCACGAGGCCTGCTAGACA
TTAAGTCCGAAACTCA
Found at i:40777949 original size:8 final size:8
Alignment explanation
Indices: 40777936--40777972 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
40777926 CTCGTGTGAG
40777936 GCCCATGA
1 GCCCATGA
*
40777944 GCCCATGG
1 GCCCATGA
40777952 GCCCATGA
1 GCCCATGA
*
40777960 GCCCATGG
1 GCCCATGA
40777968 GCCCA
1 GCCCA
40777973 CCAGCCCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.19, C:0.41, G:0.30, T:0.11
Consensus pattern (8 bp):
GCCCATGA
Found at i:40777956 original size:16 final size:16
Alignment explanation
Indices: 40777935--40777972 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
40777925 GCTCGTGTGA
40777935 GGCCCATGAGCCCATG
1 GGCCCATGAGCCCATG
40777951 GGCCCATGAGCCCATG
1 GGCCCATGAGCCCATG
40777967 GGCCCA
1 GGCCCA
40777973 CCAGCCCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.39, G:0.32, T:0.11
Consensus pattern (16 bp):
GGCCCATGAGCCCATG
Found at i:40777978 original size:16 final size:16
Alignment explanation
Indices: 40777943--40777981 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
40777933 GAGGCCCATG
**
40777943 AGCCCATGGGCCCATG
1 AGCCCATGGGCCCACC
40777959 AGCCCATGGGCCCACC
1 AGCCCATGGGCCCACC
40777975 AGCCCAT
1 AGCCCAT
40777982 TTTGGCCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.44, G:0.26, T:0.10
Consensus pattern (16 bp):
AGCCCATGGGCCCACC
Found at i:40811754 original size:27 final size:27
Alignment explanation
Indices: 40811720--40811772 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
40811710 TATGGGCTTT
*
40811720 CCTGTGTTTACTGTCTCAGTGGACTAC
1 CCTGTGTTTACTGTCCCAGTGGACTAC
* *
40811747 CCTGTGTTTATTGTCCCGGTGGACTA
1 CCTGTGTTTACTGTCCCAGTGGACTA
40811773 TACTAGATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.25, G:0.25, T:0.38
Consensus pattern (27 bp):
CCTGTGTTTACTGTCCCAGTGGACTAC
Found at i:40811916 original size:31 final size:31
Alignment explanation
Indices: 40811881--40811943 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
40811871 CCTCCAAACC
*
40811881 ACCATTGCGGTGTTGTTCTATGAAACCTATA
1 ACCATTGCGATGTTGTTCTATGAAACCTATA
*
40811912 ACCATTGCGATGTTGTTCTATGAAACTTATA
1 ACCATTGCGATGTTGTTCTATGAAACCTATA
40811943 A
1 A
40811944 ACTGTTGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (31 bp):
ACCATTGCGATGTTGTTCTATGAAACCTATA
Found at i:40814566 original size:8 final size:7
Alignment explanation
Indices: 40814548--40814705 Score: 75
Period size: 7 Copynumber: 22.0 Consensus size: 7
40814538 ACTAATTAAT
40814548 CTAAACC
1 CTAAACC
40814555 CTAAATCC
1 CTAAA-CC
*
40814563 CTAACCC
1 CTAAACC
40814570 CTAAACC
1 CTAAACC
*
40814577 TTAAACC
1 CTAAACC
* *
40814584 ATAAAAC
1 CTAAACC
* **
40814591 ATAAATA
1 CTAAACC
*
40814598 CTTAACC
1 CTAAACC
*
40814605 CTTAACCC
1 C-TAAACC
40814613 CTAAACC
1 CTAAACC
*
40814620 TTAAACC
1 CTAAACC
* *
40814627 CCAACCC
1 CTAAACC
*
40814634 CTTAAAAC
1 C-TAAACC
*
40814642 TTAAACC
1 CTAAACC
40814649 CT-AACC
1 CTAAACC
*
40814655 CTTAACC
1 CTAAACC
40814662 CATAAACC
1 C-TAAACC
*
40814670 ATAAACC
1 CTAAACC
* *
40814677 ATAATCC
1 CTAAACC
*
40814684 TTAAACC
1 CTAAACC
*
40814691 CATAATCC
1 C-TAAACC
*
40814699 GTAAACC
1 CTAAACC
40814706 TTACAATAGT
Statistics
Matches: 112, Mismatches: 33, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
6 6 0.05
7 82 0.73
8 24 0.21
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:40814644 original size:43 final size:43
Alignment explanation
Indices: 40814556--40814708 Score: 132
Period size: 43 Copynumber: 3.5 Consensus size: 43
40814546 ATCTAAACCC
*
40814556 TAAATCCCTAACCCCTAAACCTTAAACCATAAAACATAAATACT
1 TAAA-CCCTAACCCCTAAACCTTAAACCACAAAACATAAATACT
* ** *
40814600 T-AACCCTTAACCCCTAAACCTTAAACCCCAACCCCTTAAA-ACT
1 TAAACCC-TAACCCCTAAACCTTAAACCACAA-AACATAAATACT
* * * * * *
40814643 TAAACCCTAACCCTTAACCCATAAACCATAAACCAT-AATCCT
1 TAAACCCTAACCCCTAAACCTTAAACCACAAAACATAAATACT
* *
40814685 TAAACCCATAATCCGTAAACCTTA
1 TAAACCC-TAACCCCTAAACCTTA
40814709 CAATAGTAAC
Statistics
Matches: 87, Mismatches: 17, Indels: 11
0.76 0.15 0.10
Matches are distributed among these distances:
41 2 0.02
42 15 0.17
43 59 0.68
44 11 0.13
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.22
Consensus pattern (43 bp):
TAAACCCTAACCCCTAAACCTTAAACCACAAAACATAAATACT
Found at i:40814667 original size:21 final size:21
Alignment explanation
Indices: 40814601--40814708 Score: 90
Period size: 22 Copynumber: 5.0 Consensus size: 21
40814591 ATAAATACTT
*
40814601 AACCCTTAACCCCTAAACCTTA
1 AACCC-TAACCCTTAAACCTTA
* *
40814623 AACCCCAACCCCTTAAAACTTA
1 AACCCTAA-CCCTTAAACCTTA
* *
40814645 AACCCTAACCCTTAACCCATA
1 AACCCTAACCCTTAAACCTTA
* * * *
40814666 AACCATAAACCATAATCCTTA
1 AACCCTAACCCTTAAACCTTA
* *
40814687 AACCCATAATCCGTAAACCTTA
1 AACCC-TAACCCTTAAACCTTA
40814709 CAATAGTAAC
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
21 32 0.47
22 36 0.53
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.21
Consensus pattern (21 bp):
AACCCTAACCCTTAAACCTTA
Found at i:40815158 original size:40 final size:40
Alignment explanation
Indices: 40815064--40815158 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
40815054 TTATTTTGCG
* * *
40815064 GCGTTTTAAAAAAAACGCCGCTAAAGATCAAGCATTAGCG
1 GCGTTTTTAAAAAAGCGCCGCTAAAGATCAAGCATTAGCA
* **
40815104 GCGTTTTCT-AAAAAGCGCCGCTAAAGGTGGA-CATATAGCA
1 GCGTTTT-TAAAAAAGCGCCGCTAAAGATCAAGCAT-TAGCA
40815144 GCGTTTTTAAAAAAG
1 GCGTTTTTAAAAAAG
40815159 ACCTGCTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
39 4 0.09
40 42 0.91
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (40 bp):
GCGTTTTTAAAAAAGCGCCGCTAAAGATCAAGCATTAGCA
Found at i:40815291 original size:40 final size:39
Alignment explanation
Indices: 40815247--40815392 Score: 138
Period size: 40 Copynumber: 3.7 Consensus size: 39
40815237 TAATTTTTTT
40815247 GCGGCGTTTTTCAAAAAAG-GCCGCTAAAGATCAAGCATTA
1 GCGGCGTTTTT-AAAAAAGCGCCGCTAAAGATCAA-CATTA
* * **
40815287 GCGGC-TTTTTCTAAAAAGCGCCGCTAAAGGTGTACATATA
1 GCGGCGTTTTT-AAAAAAGCGCCGCTAAAGATCAACAT-TA
* * *
40815327 GCGGCGTTTTTAAAAAAGTGCCGCTAATA-CTCAATCTTTA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAA-AGATCAA-CATTA
*
40815367 ACGGCGTTTTT-AAAAAGCGCCGCTAA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAA
40815393 TGCTTGTTCT
Statistics
Matches: 89, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
39 29 0.33
40 52 0.58
41 8 0.09
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (39 bp):
GCGGCGTTTTTAAAAAAGCGCCGCTAAAGATCAACATTA
Found at i:40815303 original size:186 final size:186
Alignment explanation
Indices: 40815052--40815392 Score: 549
Period size: 186 Copynumber: 1.8 Consensus size: 186
40815042 CGTTTTACAA
40815052 AATTATTTTGCGGCGTTTTAAAAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGTTTTCTAAAA
1 AATTATTTTGCGGCGTTTTAAAAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGTTTTCTAAAA
40815117 AGCGCCGCTAAAGGTGGACATATAGCAGCGTTTTTAAAAAAG-ACCTGCTAATACTCAATCTTTA
66 AGCGCCGCTAAAGGTGGACATATAGCAGCGTTTTTAAAAAAGTACC-GCTAATACTCAATCTTTA
** *
40815181 GTGGCATTTTTAAAAAGTGCCACTAAAGCCACCAAAGGTTCAATACAAAACGATGTT
130 ACGGCATTTTTAAAAAGCGCCACTAAAGCCACCAAAGGTTCAATACAAAACGATGTT
* ** * *
40815238 AATTTTTTTGCGGCGTTTTTCAAAAAAGGCCGCTAAAGATCAAGCATTAGCGGCTTTTTCTAAAA
1 AATTATTTTGCGGCGTTTTAAAAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGTTTTCTAAAA
* * *
40815303 AGCGCCGCTAAAGGTGTACATATAGCGGCGTTTTTAAAAAAGTGCCGCTAATACTCAATCTTTAA
66 AGCGCCGCTAAAGGTGGACATATAGCAGCGTTTTTAAAAAAGTACCGCTAATACTCAATCTTTAA
* *
40815368 CGGCGTTTTTAAAAAGCGCCGCTAA
131 CGGCATTTTTAAAAAGCGCCACTAA
40815393 TGCTTGTTCT
Statistics
Matches: 141, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
186 139 0.99
187 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (186 bp):
AATTATTTTGCGGCGTTTTAAAAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGTTTTCTAAAA
AGCGCCGCTAAAGGTGGACATATAGCAGCGTTTTTAAAAAAGTACCGCTAATACTCAATCTTTAA
CGGCATTTTTAAAAAGCGCCACTAAAGCCACCAAAGGTTCAATACAAAACGATGTT
Found at i:40815404 original size:39 final size:39
Alignment explanation
Indices: 40815288--40815405 Score: 103
Period size: 40 Copynumber: 3.0 Consensus size: 39
40815278 CAAGCATTAG
* * * * * *
40815288 CGGCTTTTTCTAAAAAGCGCCGCTAAAG-GTGTACATATAG
1 CGGCGTTTT-TAAAAAGCGCCGCTAATGCTTGTTC-TTTAA
* * ***
40815328 CGGCGTTTTTAAAAAAGTGCCGCTAATACTCAATCTTTAA
1 CGGCGTTTTT-AAAAAGCGCCGCTAATGCTTGTTCTTTAA
40815368 CGGCGTTTTTAAAAAGCGCCGCTAATGCTTGTTCTTTA
1 CGGCGTTTTTAAAAAGCGCCGCTAATGCTTGTTCTTTA
40815406 GCGGAACGCT
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
39 24 0.40
40 35 0.58
41 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (39 bp):
CGGCGTTTTTAAAAAGCGCCGCTAATGCTTGTTCTTTAA
Found at i:40816302 original size:28 final size:28
Alignment explanation
Indices: 40816270--40816323 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
40816260 ATAATAAAAT
* *
40816270 CTTTCATATAGTACTCAAATTGAACAAC
1 CTTTCACATAGTACTAAAATTGAACAAC
40816298 CTTTCACATAGTACTAAAATTGAACA
1 CTTTCACATAGTACTAAAATTGAACA
40816324 CCCGCTCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (28 bp):
CTTTCACATAGTACTAAAATTGAACAAC
Found at i:40823711 original size:12 final size:11
Alignment explanation
Indices: 40823647--40823745 Score: 68
Period size: 12 Copynumber: 8.9 Consensus size: 11
40823637 AATAATAATT
40823647 TTATATTAAAA
1 TTATATTAAAA
40823658 TTATTATT-AAA
1 TTA-TATTAAAA
40823669 -TATTATTAATAA
1 TTA-TATTAA-AA
40823681 TTATATTAATAA
1 TTATATTAA-AA
40823693 TGT-TATTAAAA
1 T-TATATTAAAA
40823704 TATATATT---A
1 T-TATATTAAAA
*
40823713 TTTTATT-AAA
1 TTATATTAAAA
40823723 TTATATTTAATAA
1 TTATA-TTAA-AA
40823736 TTATATTAAA
1 TTATATTAAA
40823746 TATGATTAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 22
0.75 0.03 0.22
Matches are distributed among these distances:
8 5 0.07
9 2 0.03
10 12 0.16
11 14 0.19
12 31 0.42
13 10 0.14
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (11 bp):
TTATATTAAAA
Found at i:40823963 original size:44 final size:46
Alignment explanation
Indices: 40823893--40823986 Score: 140
Period size: 44 Copynumber: 2.1 Consensus size: 46
40823883 GTTACAACAT
40823893 CATTCCATTCAACCAAACATAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
* *
40823937 CATTCCATTCAATCAAACAGT-TGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-TAAGAATTACTGATTACAGCTCTATTC
40823983 CATT
1 CATT
40823987 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 23 0.51
45 3 0.07
46 19 0.42
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (46 bp):
CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
Found at i:40823989 original size:16 final size:16
Alignment explanation
Indices: 40823968--40824022 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
40823958 TGAATTACTG
40823968 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
40823984 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
40824000 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
40824016 ATTACAG
1 ATTACAG
40824023 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:40825947 original size:26 final size:25
Alignment explanation
Indices: 40825900--40825948 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
40825890 TTGTATTTAA
*
40825900 TATTTTAAATACAAATTATTTATTT
1 TATTTTAAATAAAAATTATTTATTT
* *
40825925 TATTTTATATAAATAATTGTTTAT
1 TATTTTAAATAAA-AATTATTTAT
40825949 ATATATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
TATTTTAAATAAAAATTATTTATTT
Found at i:40828515 original size:16 final size:17
Alignment explanation
Indices: 40828494--40828526 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
40828484 ATTTAAAAAA
*
40828494 ATTTCTATTAT-ATATC
1 ATTTCTAATATAATATC
40828510 ATTTCTAATATAATATC
1 ATTTCTAATATAATATC
40828527 CTTAATAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTCTAATATAATATC
Found at i:40833849 original size:7 final size:7
Alignment explanation
Indices: 40833837--40833862 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
40833827 TTGAAAAACA
40833837 AAACCAT
1 AAACCAT
40833844 AAACCAT
1 AAACCAT
40833851 AAACCAT
1 AAACCAT
40833858 AAACC
1 AAACC
40833863 TTACATTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCAT
Found at i:40835653 original size:63 final size:63
Alignment explanation
Indices: 40835563--40835686 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
40835553 ATTATGTGAG
** *
40835563 AATACTACTAATGAGAACTTGTTAGAGAATTTGTTTTAACTTTTCATGCTTCAAATGTGCTCC
1 AATACTACTAATGAGAACTTAATAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCTCC
* * *
40835626 AATATTACTGATGAGAACTTAATAGAGAATTTGTTCTAACTTTTCATGTTTCAAATGTGCT
1 AATACTACTAATGAGAACTTAATAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCT
40835687 ATTGCAGTAG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (63 bp):
AATACTACTAATGAGAACTTAATAGAGAATTTGTTCTAACTTTTCATGCTTCAAATGTGCTCC
Found at i:40836997 original size:26 final size:26
Alignment explanation
Indices: 40836968--40837049 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
40836958 TGATACAAAT
40836968 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
40836994 TGATAATGTGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
40837020 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
40837046 TGAT
1 TGAT
40837050 GGAATTTCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:40849675 original size:31 final size:31
Alignment explanation
Indices: 40849617--40849677 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
40849607 TTAGCAGCCG
*
40849617 AGTGACTTAAATAAAAACTTTTGAATAGTTA
1 AGTGACTTAAATAAAAACTTTTAAATAGTTA
* *
40849648 AGTGACTTACATTAAAA-TTTTCAAATAGTT
1 AGTGACTTAAATAAAAACTTTT-AAATAGTT
40849678 CAAAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTAAATAGTTA
Found at i:40850179 original size:16 final size:16
Alignment explanation
Indices: 40850156--40850211 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
40850146 AATTTGGTTC
40850156 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
40850172 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* *
40850188 GCTGTAATAGAATTGA
1 GCTGTAATGGAATAGA
*
40850204 ACTGTAAT
1 GCTGTAAT
40850212 CAATAATTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:40850524 original size:63 final size:61
Alignment explanation
Indices: 40850406--40850526 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
40850396 ATTTAATAAT
* * *
40850406 AATAAATAATTTAATCATATTTTAATATAATTATTACCAAATATAATTTAATAAAAATGGA
1 AATAAATAATTTAATAACATTTTAATATAATTATTACAAAATATAATTTAATAAAAATGGA
* *
40850467 AATATATAATTTAATAACATTCTTAATATAATTATTATTAAAATATGAA-TTAATAAAAAT
1 AATAAATAATTTAATAACATT-TTAATATAATTATTA-CAAAATAT-AATTTAATAAAAAT
40850527 CATAATATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 18 0.35
62 15 0.29
63 17 0.33
64 2 0.04
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (61 bp):
AATAAATAATTTAATAACATTTTAATATAATTATTACAAAATATAATTTAATAAAAATGGA
Found at i:40850534 original size:63 final size:62
Alignment explanation
Indices: 40850404--40850535 Score: 162
Period size: 63 Copynumber: 2.1 Consensus size: 62
40850394 AAATTTAATA
* * * * *
40850404 ATAATAAATAATTTAATCATATTTTAATATAATTATTACCAAATATAATTTAATAAAAATGG
1 ATAATATATAATTTAATAACATTTTAATATAATTATTACAAAATATAATTTAATAAAAATGC
*
40850466 A-AATATATAATTTAATAACATTCTTAATATAATTATTATTAAAATATGAA-TTAATAAAAAT-C
1 ATAATATATAATTTAATAACATT-TTAATATAATTATTA-CAAAATAT-AATTTAATAAAAATGC
40850528 ATAATATA
1 ATAATATA
40850536 ATCTCATGGG
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
61 18 0.30
62 17 0.28
63 23 0.38
64 2 0.03
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (62 bp):
ATAATATATAATTTAATAACATTTTAATATAATTATTACAAAATATAATTTAATAAAAATGC
Found at i:40856457 original size:40 final size:40
Alignment explanation
Indices: 40856402--40856622 Score: 331
Period size: 40 Copynumber: 5.5 Consensus size: 40
40856392 TATTCGAATG
40856402 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* *
40856442 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
* *
40856482 ATATCCGGGCTATGTCCCGAAGGCATTTGTGCTA-TTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
40856522 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* * *
40856562 ATATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
*
40856602 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
40856623 ATGCTTGGGT
Statistics
Matches: 166, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 14 0.08
40 149 0.90
41 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
Found at i:40864748 original size:40 final size:40
Alignment explanation
Indices: 40864687--40864906 Score: 295
Period size: 40 Copynumber: 5.5 Consensus size: 40
40864677 TATTCGAATG
* *
40864687 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
* *
40864727 ACATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
*
40864767 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTA-TTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
40864807 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
* * *
40864847 ATAT-CGGGCCAAGACCCGAAGGCATTTGTGCTAGTTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
40864886 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
40864907 ATGCTTGGGT
Statistics
Matches: 158, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 48 0.30
40 107 0.68
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:40867849 original size:28 final size:28
Alignment explanation
Indices: 40867786--40867936 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
40867776 ATATTAAGTC
*
40867786 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
40867813 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
40867841 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
40867869 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
40867897 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
40867926 CGCACACTTAG
1 CGCACACTTAG
40867937 CGCCAATCTT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 16 0.14
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:40868407 original size:18 final size:18
Alignment explanation
Indices: 40868381--40868419 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
40868371 ACGAATGGGT
*
40868381 ATATTTATGTATATATAC
1 ATATATATGTATATATAC
40868399 ATATATATGTATATATAC
1 ATATATATGTATATATAC
40868417 ATA
1 ATA
40868420 CTTCGGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
ATATATATGTATATATAC
Found at i:40876200 original size:28 final size:28
Alignment explanation
Indices: 40876137--40876287 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
40876127 ATATTAAGTC
*
40876137 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
40876164 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
40876192 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
40876220 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
40876248 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
40876277 CGCACACTTAG
1 CGCACACTTAG
40876288 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 16 0.14
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:40880540 original size:31 final size:31
Alignment explanation
Indices: 40880505--40880567 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
40880495 ACTTTTCATA
*
40880505 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
**
40880536 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
40880567 T
1 T
40880568 CACTGTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCAAAGCCT
Found at i:40880847 original size:26 final size:25
Alignment explanation
Indices: 40880776--40880859 Score: 118
Period size: 26 Copynumber: 3.4 Consensus size: 25
40880766 CTGGAGGCCT
*
40880776 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
40880800 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
40880825 AGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTT-GATAAACTGGGGCAAA
40880851 AGCCCTTTT
1 AGCCCTTTT
40880860 TGCACTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 7 0.13
24 13 0.24
25 11 0.20
26 24 0.44
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:40880930 original size:20 final size:20
Alignment explanation
Indices: 40880907--40880973 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
40880897 TTATGAATAC
40880907 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
40880927 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
40880947 ATCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
40880967 ATCATGT
1 ATCATGT
40880974 ATATCAGAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:40880937 original size:40 final size:39
Alignment explanation
Indices: 40880893--40880973 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 39
40880883 CCCATCCCAA
*
40880893 TGCATTATGAATAC-ATCATGTGCATATCATACATATCATG
1 TGCA-TAT-AATACAATCATGTCCATATCATACATATCATG
*
40880933 TGCATATCATACATATCATGTCCATATCATACATATCATG
1 TGCATATAATACA-ATCATGTCCATATCATACATATCATG
40880973 T
1 T
40880974 ATATCAGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 30 0.81
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.36
Consensus pattern (39 bp):
TGCATATAATACAATCATGTCCATATCATACATATCATG
Found at i:40880938 original size:11 final size:11
Alignment explanation
Indices: 40880907--40880974 Score: 67
Period size: 9 Copynumber: 6.7 Consensus size: 11
40880897 TTATGAATAC
*
40880907 ATCATGTGCAT
1 ATCATGTACAT
40880918 ATCA--TACAT
1 ATCATGTACAT
*
40880927 ATCATGTGCAT
1 ATCATGTACAT
40880938 ATCA--TACAT
1 ATCATGTACAT
*
40880947 ATCATGTCCAT
1 ATCATGTACAT
40880958 ATCA--TACAT
1 ATCATGTACAT
40880967 ATCATGTA
1 ATCATGTA
40880975 TATCAGAATC
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
9 24 0.52
11 22 0.48
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:40883238 original size:15 final size:15
Alignment explanation
Indices: 40883218--40883248 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
40883208 TCATTCTCTC
40883218 ACCTTCTTTTTTTCT
1 ACCTTCTTTTTTTCT
40883233 ACCTTCTTTTTTTCT
1 ACCTTCTTTTTTTCT
40883248 A
1 A
40883249 TACTCTATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.10, C:0.26, G:0.00, T:0.65
Consensus pattern (15 bp):
ACCTTCTTTTTTTCT
Found at i:40894155 original size:37 final size:39
Alignment explanation
Indices: 40894108--40894196 Score: 100
Period size: 37 Copynumber: 2.4 Consensus size: 39
40894098 ATCCGGCTAT
*
40894108 TCCCG-AGGCATTTGTGCTA-TTACTATAT-C-GGCTAAG
1 TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC-AAG
* *
40894144 TCCCGAAGGCA-TTGTGCGAGTTGCTATATCCGGGCCAG
1 TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCAAG
40894182 -CCCGAAGGCATTTGT
1 TCCCGAAGGCATTTGT
40894197 CAGTTTTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
36 12 0.27
37 23 0.51
38 7 0.16
39 3 0.07
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.28
Consensus pattern (39 bp):
TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCAAG
Found at i:40902296 original size:40 final size:40
Alignment explanation
Indices: 40902186--40902405 Score: 304
Period size: 40 Copynumber: 5.5 Consensus size: 40
40902176 TATTCAAATG
*
40902186 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* * *
40902226 ATATTCGGGCTAAGT-CCGAAGGCTTTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
*
40902265 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
40902305 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* * * *
40902345 ATATGCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
*
40902385 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
40902406 ATGCTTGGGT
Statistics
Matches: 161, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 44 0.27
40 112 0.70
41 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
Found at i:40902317 original size:79 final size:80
Alignment explanation
Indices: 40902186--40902405 Score: 304
Period size: 79 Copynumber: 2.8 Consensus size: 80
40902176 TATTCAAATG
* * *
40902186 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTAAGT-CCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
*
40902250 TTTGTGCTAG-TGACT
66 TTTGTGCGAGTTG-CT
*
40902265 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGC
40902329 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* * * * *
40902345 ATATGCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAG
40902406 ATGCTTGGGT
Statistics
Matches: 126, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
78 3 0.02
79 62 0.49
80 56 0.44
81 5 0.04
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:40902402 original size:119 final size:119
Alignment explanation
Indices: 40902186--40902405 Score: 336
Period size: 119 Copynumber: 1.8 Consensus size: 119
40902176 TATTCAAATG
* * * * *
40902186 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTGCTATATTCGGGCTAAGTCCGAAGGCTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATGCGGGCCAAGCCCGAAGGCAT
* *
40902251 TTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
66 TTGTGCGAGTGACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCTATTGACT
40902305 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATGCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATGCGGGCCAAG-CCCGAAGGCA
*
40902370 TTTGTGCGAGTTG-TTATATCC-GGCTAAATCCCGAAG
65 TTTGTGCGAG-TGACTATATCCGGGCTAAATCCCGAAG
40902406 ATGCTTGGGT
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
119 65 0.71
120 24 0.26
121 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (119 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATGCGGGCCAAGCCCGAAGGCAT
TTGTGCGAGTGACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCTATTGACT
Found at i:40910173 original size:46 final size:46
Alignment explanation
Indices: 40910106--40910280 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
40910096 TGTAACCCGC
* *
40910106 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTTGCAT
1 CCATAAGCGAACTCGAACTCAACTCAACGAG-TTCGGGCATTTGCAT
* * *
40910152 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGAACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * * *
40910202 -C-TCA-CGAACTCGAACTCAACTCACCGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGAACTCAACTCAACGAGTTCGGGCATTTGCAT
** *
40910245 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGAACTCAACTCAACGAGTTCGG
40910281 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 4 0.04
46 57 0.54
47 27 0.26
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGAACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:40910222 original size:93 final size:93
Alignment explanation
Indices: 40910113--40910284 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
40910103 CGCCCATAAG
* * * * *
40910113 CGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTTGCATCCATAAGTGAACTCGAACTCAACTC
1 CGAACTCGAACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTC
40910177 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
40910206 CGAACTCGAACTCAACTCACCGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCA
40910271 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
40910285 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:40916177 original size:83 final size:83
Alignment explanation
Indices: 40916038--40916204 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
40916028 TTGGGGGAGG
40916038 TGGGGGAGGTCGTACATTTGGGTTCGTACGAACGAACTCAGTGTACCATGCACTCATCATTTGGA
1 TGGGGGAGGTCGTACATTTGGGTTCGTACGAACGAACTCAGTGTACCATGCACTCATCATTTGGA
40916103 GAAAGGCTTCCCGATCCC
66 GAAAGGCTTCCCGATCCC
40916121 TGGGGGAGGTCGTACATTTGGGTTCGTACGAACGAACTCAGTGTACCATGCACTCATCATTTGGA
1 TGGGGGAGGTCGTACATTTGGGTTCGTACGAACGAACTCAGTGTACCATGCACTCATCATTTGGA
40916186 GAAAGGCTTCCCGATCCC
66 GAAAGGCTTCCCGATCCC
40916204 T
1 T
40916205 TTCTCCTCCT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (83 bp):
TGGGGGAGGTCGTACATTTGGGTTCGTACGAACGAACTCAGTGTACCATGCACTCATCATTTGGA
GAAAGGCTTCCCGATCCC
Found at i:40917828 original size:46 final size:46
Alignment explanation
Indices: 40917761--40917935 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
40917751 TGTAACCCGC
*
40917761 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
40917807 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
40917857 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
40917900 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
40917936 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:40917880 original size:93 final size:93
Alignment explanation
Indices: 40917768--40917939 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
40917758 CGCCCATAAG
* * *
40917768 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40917833 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
40917861 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40917926 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
40917940 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:40923560 original size:12 final size:12
Alignment explanation
Indices: 40923543--40923568 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
40923533 ACACACACGC
40923543 CCGTGTGCTAGG
1 CCGTGTGCTAGG
40923555 CCGTGTGCTAGG
1 CCGTGTGCTAGG
40923567 CC
1 CC
40923569 ATGCCAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:40924451 original size:35 final size:35
Alignment explanation
Indices: 40924411--40924486 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
40924401 ATTAAAGTGT
40924411 TAACTTGTATTCAATAACAAATATAACAATGAACA
1 TAACTTGTATTCAATAACAAATATAACAATGAACA
40924446 TAACTTGTATTCAATAACAAATATAACAATGAACA
1 TAACTTGTATTCAATAACAAATATAACAATGAACA
40924481 TAACTT
1 TAACTT
40924487 CCATAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.30
Consensus pattern (35 bp):
TAACTTGTATTCAATAACAAATATAACAATGAACA
Found at i:40929561 original size:48 final size:48
Alignment explanation
Indices: 40929490--40929807 Score: 297
Period size: 48 Copynumber: 6.6 Consensus size: 48
40929480 GTGTGCTAGC
*
40929490 GTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGT
* * * ** * * *
40929538 GTAAGAGCATGTCTAGGACATGGCATCAGCGTCGA-TATGTGTGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGT
40929586 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGT
* * * * * * *
40929634 ATAAGACCATGTCTAGGACATGGAATCGG---TATTGAGACGAGAGCTAAT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCCAGT
* * ** *
40929682 GTAAGACCATGTCTGGGACATGGCATCGG-TATTAAAATGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGAGAGCCAGT
* * * *
40929730 GTAAGACCATGTCTGGGACATGGCATTGGCCTCGA-CATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGT
* *
40929778 ATAAGACCATGTCTAGGACATGGCATCGGC
1 GTAAGACCATGTCTGGGACATGGCATCGGC
40929808 AATTTAACCT
Statistics
Matches: 219, Mismatches: 41, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
45 3 0.01
47 1 0.00
48 211 0.96
49 2 0.01
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGT
Found at i:40929639 original size:96 final size:96
Alignment explanation
Indices: 40929475--40929807 Score: 407
Period size: 96 Copynumber: 3.5 Consensus size: 96
40929465 ACATTTGGTT
* * *
40929475 GATATGTGTGCTAGCGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCCAGTGT
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGT
* * *
40929540 AAGAGCATGTCTAGGACATGGCATCAGCGTC
66 AAGACCATGTCTAGGACATGGCATCGGCATC
* *
40929571 GATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTAT
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGT
* * *
40929636 AAGACCATGTCTAGGACATGGAATCGGTATT
66 AAGACCATGTCTAGGACATGGCATCGGCATC
* * * * * * ** *
40929667 GAGACGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCGG-TATTAAAATGAGAGCTAGTG
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGAGAGCCAGTG
* * *
40929731 TAAGACCATGTCTGGGACATGGCATTGGCCTC
65 TAAGACCATGTCTAGGACATGGCATCGGCATC
* * * *
40929763 GACATGTGAGCCAGTATAAGACCATGTCTAGGACATGGCATCGGC
1 GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
40929808 AATTTAACCT
Statistics
Matches: 202, Mismatches: 33, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
95 1 0.00
96 201 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
GATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGT
AAGACCATGTCTAGGACATGGCATCGGCATC
Found at i:40935412 original size:34 final size:34
Alignment explanation
Indices: 40935373--40935442 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
40935363 AAAACATGGG
40935373 TATTGGAAATCTGGTTAAGATTTATGTTCTTTGA
1 TATTGGAAATCTGGTTAAGATTTATGTTCTTTGA
40935407 TATTGGAAATCTGGTTAAGATTTATGTTCTTTGA
1 TATTGGAAATCTGGTTAAGATTTATGTTCTTTGA
40935441 TA
1 TA
40935443 AGTATGAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.06, G:0.20, T:0.47
Consensus pattern (34 bp):
TATTGGAAATCTGGTTAAGATTTATGTTCTTTGA
Found at i:40945957 original size:48 final size:47
Alignment explanation
Indices: 40945893--40946078 Score: 212
Period size: 48 Copynumber: 3.9 Consensus size: 47
40945883 CATTTGGTTG
* * *
40945893 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGACATTGGCCAC
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCTC
* ** *
40945940 ATTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGA-ATCGGTGTTG
1 A-TATGTGAGCTAGTGTAAGACCATGTCTGGGACAT-GACATCGG-CCTC
* *
40945989 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCTC
* * * *
40946036 GACATGTGAGCCAGTATAAGACCATGTCTGGGACATGGCATCG
1 -ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCG
40946079 ACAATTTAAC
Statistics
Matches: 117, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
47 3 0.03
48 111 0.95
49 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (47 bp):
ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCTC
Found at i:40946056 original size:96 final size:96
Alignment explanation
Indices: 40945889--40946078 Score: 292
Period size: 96 Copynumber: 2.0 Consensus size: 96
40945879 ACAACATTTG
* * *
40945889 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGACATTGGCCACATTATGAGAGCTAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACATCATGAGAGCCAG
*
40945954 TGTAAGACCATGTCTGGGACATGGAATCGGT
66 TATAAGACCATGTCTGGGACATGGAATCGGT
* * *
40945985 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGCCA
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCAC-ATCATGAGAGCCA
*
40946049 GTATAAGACCATGTCTGGGACATGGCATCG
65 GTATAAGACCATGTCTGGGACATGGAATCG
40946079 ACAATTTAAC
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
96 84 0.99
97 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.27
Consensus pattern (96 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACATCATGAGAGCCAG
TATAAGACCATGTCTGGGACATGGAATCGGT
Found at i:40948222 original size:141 final size:141
Alignment explanation
Indices: 40947968--40948236 Score: 434
Period size: 141 Copynumber: 1.9 Consensus size: 141
40947958 TTGATATATG
*
40947968 ATTCAATTCTGAATGGTTCAACGGGAAATGATAAAATTTGAACGATGGTGTAAAACGAGCTAAGA
1 ATTCAATTCTGAATGGTTCAACGGGAAATGATAAAATTTGAACGATGGTGTAAAACAAGCTAAGA
* * *
40948033 CGATCAGGTATGAGTTAGTTGATTACCTATTTGAAAATAAGGTAAGTTGGCTATTTGATATATAT
66 AGATCAGGTATGAGTTAGTTGATTACCTATTCGAAAATAAGGTAAGTTGGCCATTTGATATATAT
40948098 CTGAGTATCCT
131 CTGAGTATCCT
* * *
40948109 ATTCAATTAC-GAATGGTTCAACGGGCAATGAT-AAGTTGTGAACGATGGTGTAAAATAAGCTAA
1 ATTCAATT-CTGAATGGTTCAACGGGAAATGATAAAATT-TGAACGATGGTGTAAAACAAGCTAA
*
40948172 GAATATCAGGTATGAGTTAGTTGATTACCTATTCGAAAATAAGGTAAGTTGGCCATTTGATATAT
64 GAAGATCAGGTATGAGTTAGTTGATTACCTATTCGAAAATAAGGTAAGTTGGCCATTTGATATAT
40948237 GATGCAAATT
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
140 4 0.03
141 113 0.96
142 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.32
Consensus pattern (141 bp):
ATTCAATTCTGAATGGTTCAACGGGAAATGATAAAATTTGAACGATGGTGTAAAACAAGCTAAGA
AGATCAGGTATGAGTTAGTTGATTACCTATTCGAAAATAAGGTAAGTTGGCCATTTGATATATAT
CTGAGTATCCT
Found at i:40954943 original size:45 final size:43
Alignment explanation
Indices: 40954858--40954990 Score: 128
Period size: 45 Copynumber: 3.0 Consensus size: 43
40954848 AGAATTTTTG
* **
40954858 ATATGTGTTCTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
1 ATATGTGTT-TCGTGTAAGACCATGTCTGGGA-CATGGCATCGAT
* *
40954903 ATATGTGTTTACGAGTAAGACCATGTCTAGGACATCGGCATCG-T
1 ATATGTGTTT-CGTGTAAGACCATGTCTGGGACAT-GGCATCGAT
* * *
40954947 AT-T-TGATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCAAT
1 ATATGTGTTTCGTGTAAGACCATGTCTGGGACA-TGGCATCGAT
40954989 AT
1 AT
40954991 GAGATAACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
41 26 0.35
42 8 0.11
43 1 0.01
44 5 0.07
45 34 0.46
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
ATATGTGTTTCGTGTAAGACCATGTCTGGGACATGGCATCGAT
Found at i:40957168 original size:47 final size:47
Alignment explanation
Indices: 40957082--40957180 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
40957072 TACTGATATA
* * ** * *
40957082 TCAGCTCATAAGAACTTACTGTTTTTAGCTTGTTGGAGCTTTCTGTT
1 TCAGCCCATAAGAACTTACTGTTTTTAGCTCGTCAGAGCTTACCGTT
40957129 TCAGCCCATAA-AAGCTTACTGTTTTTAGCTCGTCAGAGCTTACCGTT
1 TCAGCCCATAAGAA-CTTACTGTTTTTAGCTCGTCAGAGCTTACCGTT
40957176 TCAGC
1 TCAGC
40957181 TTAATCGAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 2 0.04
47 43 0.96
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.38
Consensus pattern (47 bp):
TCAGCCCATAAGAACTTACTGTTTTTAGCTCGTCAGAGCTTACCGTT
Found at i:40957170 original size:24 final size:24
Alignment explanation
Indices: 40957058--40957176 Score: 71
Period size: 24 Copynumber: 4.9 Consensus size: 24
40957048 GGGTGTTACA
* *
40957058 AGCTCG-AATGAGCTTACTGATATATC
1 AGCTCGTAA-GAGCTTACTG-T-TTTT
* *
40957084 AGCTCATAAGAACTTACTGTTTTT
1 AGCTCGTAAGAGCTTACTGTTTTT
* ** * *
40957108 AGCTTGTTGGAGCTTTCTG-TTTC
1 AGCTCGTAAGAGCTTACTGTTTTT
* * *
40957131 AGCCCATAAAAGCTTACTGTTTTT
1 AGCTCGTAAGAGCTTACTGTTTTT
* *
40957155 AGCTCGTCAGAGCTTACCGTTT
1 AGCTCGTAAGAGCTTACTGTTT
40957177 CAGCTTAATC
Statistics
Matches: 67, Mismatches: 24, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
23 15 0.22
24 35 0.52
25 1 0.01
26 14 0.21
27 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACTGTTTTT
Found at i:40961793 original size:47 final size:47
Alignment explanation
Indices: 40961733--40961852 Score: 195
Period size: 47 Copynumber: 2.6 Consensus size: 47
40961723 GCGTTAGCAC
*
40961733 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
40961780 TAAGAAAAGGATACCATGTAAGACAATGTTTGGAACATGTCATTTGG
1 TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
40961827 TAAGATAAGGATATCATGTAAGACCA
1 TAAGAAAAGGATACCATGTAAGACCA
40961853 AGCCAAGGCG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:40961898 original size:54 final size:54
Alignment explanation
Indices: 40961840--40962040 Score: 210
Period size: 55 Copynumber: 3.7 Consensus size: 54
40961830 GATAAGGATA
* * * *
40961840 TCATGTAAGACCAAGCCAAGGCGTGGAATTGATAAGTTCTATAAGGAAAGGAAG
1 TCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAC
* * * *
40961894 TCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TC
1 TCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGG-AAAGGAAC
* * *
40961949 CCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-ATAAGGCAAGGATAC
1 TCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGA-AC
* * * * *
40962003 -CACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 TCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
40962041 AAAAAGTAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.03
53 40 0.32
54 34 0.27
55 41 0.33
56 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
TCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAC
Found at i:40961960 original size:55 final size:55
Alignment explanation
Indices: 40961833--40962040 Score: 228
Period size: 53 Copynumber: 3.8 Consensus size: 55
40961823 TTGGTAAGAT
* * * * *
40961833 AAGGATATCATGTAAGACCAAGCCAAGGCGTGGAATTGATAAGTTCTATAAGG-A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCA
* * *
40961887 AAGGA-AGTCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCA
1 AAGGATA-CCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCA
* * *
40961943 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-ATAAGGC-
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCA
* * * *
40961995 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
40962041 AAAAAGTAAA
Statistics
Matches: 132, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.03
53 44 0.33
54 38 0.29
55 41 0.31
56 5 0.04
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCA
Found at i:40969566 original size:47 final size:47
Alignment explanation
Indices: 40969407--40969842 Score: 692
Period size: 47 Copynumber: 9.1 Consensus size: 47
40969397 TATGAAATGA
40969407 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
40969456 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
*
40969505 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
40969552 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
40969599 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
40969646 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* *
40969693 TGATAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
40969740 TGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATAAG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--G
* * * * * * * *
40969789 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
40969836 TGATAAG
1 TGATAAG
40969843 TCCCGAAGGG
Statistics
Matches: 367, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
47 242 0.66
49 125 0.34
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:40971746 original size:10 final size:10
Alignment explanation
Indices: 40971733--40971775 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
40971723 AGGATTTACT
40971733 TTTATTTATC
1 TTTATTTATC
* *
40971743 TTTAATTATA
1 TTTATTTATC
40971753 TTTATTTAT-
1 TTTATTTATC
40971762 TTGTATTTATC
1 TT-TATTTATC
40971773 TTT
1 TTT
40971776 TAGAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 2 0.07
10 24 0.86
11 2 0.07
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATTTATC
Found at i:40979587 original size:12 final size:12
Alignment explanation
Indices: 40979570--40979594 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40979560 ACCCAATTTT
40979570 TGTTTCTCTTTA
1 TGTTTCTCTTTA
40979582 TGTTTCTCTTTA
1 TGTTTCTCTTTA
40979594 T
1 T
40979595 TTTTTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (12 bp):
TGTTTCTCTTTA
Found at i:40979622 original size:21 final size:21
Alignment explanation
Indices: 40979598--40979642 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
40979588 TCTTTATTTT
*
40979598 TTTTATTTTAATTATTTATTA
1 TTTTATCTTAATTATTTATTA
40979619 TTTTATCTTAATTATTTATTA
1 TTTTATCTTAATTATTTATTA
40979640 TTT
1 TTT
40979643 AATTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATCTTAATTATTTATTA
Found at i:40981605 original size:10 final size:10
Alignment explanation
Indices: 40981590--40981641 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
40981580 TAAATTTAGG
40981590 ATTTATTTTT
1 ATTTATTTTT
*
40981600 ATTTATCTTT
1 ATTTATTTTT
* *
40981610 AATTATCTTT
1 ATTTATTTTT
*
40981620 ATTTATTTGT
1 ATTTATTTTT
40981630 ATTTATCTTTT
1 ATTTAT-TTTT
40981641 A
1 A
40981642 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:40983556 original size:44 final size:45
Alignment explanation
Indices: 40983464--40983558 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
40983454 ATATTTTCGA
* ** *
40983464 GTAAGACCACATCTGGGACGTTGGCATCGATATATGTGTTTTCAT
1 GTAAGACCACATCTGAGACGTTGGCATCGATATATGTGGCTACAT
* * *
40983509 GTAAGACCA-GTCTGAGAGGTTGGCATCGATATATGTGGCTACGT
1 GTAAGACCACATCTGAGACGTTGGCATCGATATATGTGGCTACAT
40983553 GTAAGA
1 GTAAGA
40983559 TCATTTCTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 34 0.79
45 9 0.21
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (45 bp):
GTAAGACCACATCTGAGACGTTGGCATCGATATATGTGGCTACAT
Found at i:40984156 original size:18 final size:18
Alignment explanation
Indices: 40984133--40984176 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
40984123 ATTTGCTTAA
40984133 GGCTTACTAAGCTAAGTT
1 GGCTTACTAAGCTAAGTT
40984151 GGCTTACTAAGCTAAGTT
1 GGCTTACTAAGCTAAGTT
*
40984169 AGCTTACT
1 GGCTTACT
40984177 TTGTGTGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (18 bp):
GGCTTACTAAGCTAAGTT
Found at i:40986473 original size:23 final size:22
Alignment explanation
Indices: 40986427--40986483 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
40986417 CACATAAATC
*
40986427 TCAATTCAATATTTTCACATTT
1 TCAATTCAATATTTTCACACTT
40986449 TCAATTCAATTATTTTC-CACCTT
1 TCAATTCAA-TATTTTCACA-CTT
*
40986472 TCAA-CCAATATT
1 TCAATTCAATATT
40986484 CAATTCACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.13
22 14 0.45
23 13 0.42
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.46
Consensus pattern (22 bp):
TCAATTCAATATTTTCACACTT
Found at i:40987405 original size:15 final size:15
Alignment explanation
Indices: 40987394--40987423 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
40987384 CTTTATATAT
40987394 ATATATAATATAATA
1 ATATATAATATAATA
40987409 ATATATAATAATAAT
1 ATATATAAT-ATAAT
40987424 TTCTTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATATAATATAATA
Found at i:40987540 original size:5 final size:5
Alignment explanation
Indices: 40987532--40987608 Score: 58
Period size: 5 Copynumber: 15.8 Consensus size: 5
40987522 TGATTTATTT
*
40987532 TATAA TATAA TAT-- TATAA TATAA T-TAA TATAA TTTACAA TATAA TA-ATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA --TATAA TATAA TATA-A
*
40987581 TAATAA TATAA TCTAA T-TAA -ATAA TATA
1 T-ATAA TATAA TATAA TATAA TATAA TATA
40987609 TTTATAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
3 3 0.05
4 11 0.19
5 37 0.63
6 3 0.05
7 5 0.08
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:40987590 original size:8 final size:8
Alignment explanation
Indices: 40987538--40987592 Score: 56
Period size: 8 Copynumber: 6.2 Consensus size: 8
40987528 ATTTTATAAT
*
40987538 ATAATATT
1 ATAATATA
40987546 ATAATATA
1 ATAATATA
40987554 ATTAATATA
1 A-TAATATA
40987563 ATTTACAATATA
1 A--T--AATATA
40987575 ATAATATA
1 ATAATATA
40987583 ATAATATA
1 ATAATATA
40987591 AT
1 AT
40987593 CTAATTAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
8 24 0.57
9 8 0.19
10 3 0.07
12 7 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATATA
Found at i:40990749 original size:25 final size:25
Alignment explanation
Indices: 40990714--40990769 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
40990704 GTTTACACAC
*
40990714 GGCCGTGTAACACGTCCGTGTCCAG
1 GGCCGTATAACACGTCCGTGTCCAG
*
40990739 GGCCGTATAACACGTCCGTGTCTAG
1 GGCCGTATAACACGTCCGTGTCCAG
40990764 GGCCGT
1 GGCCGT
40990770 GTCAACCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.21
Consensus pattern (25 bp):
GGCCGTATAACACGTCCGTGTCCAG
Found at i:40995798 original size:43 final size:43
Alignment explanation
Indices: 40995676--40995841 Score: 121
Period size: 43 Copynumber: 3.9 Consensus size: 43
40995666 AAAGCTTGTA
* *
40995676 CAATGCCAAC-GTCCCAGACATGGTCTTACA-TGTAATCAAATAT
1 CAATGCC-ACTGTCCTAGACATGGTCTTACACT-AAATCAAATAT
* * *
40995719 CAATGCCACTAT-CTCAGACAGGGTCTTACACGAAATCAAATA-
1 CAATGCCACTGTCCT-AGACATGGTCTTACACTAAATCAAATAT
* *
40995761 CAATGTCGA-TGTCCTAGACATGGTCTTACACATAAATCTCAA-AT
1 CAATG-CCACTGTCCTAGACATGGTCTTACAC-TAAATC-AAATAT
* * * *
40995805 CGATGCCAAC-GTCCCAGACGTGGTCTTACACGAAATC
1 CAATGCC-ACTGTCCTAGACATGGTCTTACACTAAATC
40995842 GTATATCGAA
Statistics
Matches: 98, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 25 0.26
43 47 0.48
44 26 0.27
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
CAATGCCACTGTCCTAGACATGGTCTTACACTAAATCAAATAT
Found at i:40997713 original size:40 final size:39
Alignment explanation
Indices: 40997669--40997786 Score: 139
Period size: 40 Copynumber: 3.0 Consensus size: 39
40997659 AAGAAAATGC
*
40997669 CGCTAAAGATCAATCATTAGTGGCGCTTTTTTAAAAACG
1 CGCTAAAGATCAATCATTAGCGGCGCTTTTTTAAAAACG
* * *
40997708 TCGCTAAAGATCGAGCATTAGCGGCGCTTTTTTAAAAATG
1 -CGCTAAAGATCAATCATTAGCGGCGCTTTTTTAAAAACG
* * *
40997748 CTGCTAAAGATCGAGT-GTTAGCGGCGCTTTTTGAAAAAC
1 C-GCTAAAGATC-AATCATTAGCGGCGCTTTTTTAAAAAC
40997787 ACCGCAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 65 0.98
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (39 bp):
CGCTAAAGATCAATCATTAGCGGCGCTTTTTTAAAAACG
Found at i:40998162 original size:21 final size:21
Alignment explanation
Indices: 40998133--40998187 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
40998123 GTAATATATA
* *
40998133 TTTAGGGTTTAGGATGTAAGT
1 TTTATGGTTTAGGATGTAAGG
* * *
40998154 TTTATGGTTTATGATTTAGGG
1 TTTATGGTTTAGGATGTAAGG
*
40998175 TTTATGATTTAGG
1 TTTATGGTTTAGG
40998188 GTTTATGGTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (21 bp):
TTTATGGTTTAGGATGTAAGG
Found at i:40998192 original size:21 final size:21
Alignment explanation
Indices: 40998140--40998198 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
40998130 ATATTTAGGG
* * * *
40998140 TTTAGGATGTAAGTTTTATGG
1 TTTAGGATTTAGGGTTTATGA
*
40998161 TTTATGATTTAGGGTTTATGA
1 TTTAGGATTTAGGGTTTATGA
* *
40998182 TTTAGGGTTTATGGTTT
1 TTTAGGATTTAGGGTTT
40998199 GAGTTTTTAG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (21 bp):
TTTAGGATTTAGGGTTTATGA
Found at i:40998233 original size:14 final size:14
Alignment explanation
Indices: 40998154--40998235 Score: 78
Period size: 14 Copynumber: 5.9 Consensus size: 14
40998144 GGATGTAAGT
* *
40998154 TTTATGGTTTATGA
1 TTTAGGGTTTATGG
*
40998168 TTTAGGGTTTATGA
1 TTTAGGGTTTATGG
40998182 TTTAGGGTTTATGG
1 TTTAGGGTTTATGG
* *
40998196 TTT-GAGTTTTTAGG
1 TTTAGGGTTTAT-GG
*
40998210 TTT-GGTGTTTGTGG
1 TTTAGG-GTTTATGG
40998224 TTTAGGGTTTAT
1 TTTAGGGTTTAT
40998236 TTTTTAGGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
13 6 0.10
14 45 0.78
15 7 0.12
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:40998820 original size:8 final size:8
Alignment explanation
Indices: 40998809--40998873 Score: 55
Period size: 8 Copynumber: 8.5 Consensus size: 8
40998799 AAAATCTTCA
40998809 AAAAAATT
1 AAAAAATT
40998817 -AAAAATT
1 AAAAAATT
*
40998824 -GAAAATT
1 AAAAAATT
* * *
40998831 GAAAGATA
1 AAAAAATT
40998839 AAAAAATT
1 AAAAAATT
40998847 -AAAAATT
1 AAAAAATT
*
40998854 AAAAACTT
1 AAAAAATT
*
40998862 AAAAACTT
1 AAAAAATT
40998870 AAAA
1 AAAA
40998874 TTTTAATATT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
7 20 0.43
8 27 0.57
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (8 bp):
AAAAAATT
Found at i:40998857 original size:6 final size:7
Alignment explanation
Indices: 40998810--40998873 Score: 65
Period size: 7 Copynumber: 8.6 Consensus size: 7
40998800 AAATCTTCAA
40998810 AAAAATT
1 AAAAATT
40998817 AAAAATT
1 AAAAATT
*
40998824 GAAAATT
1 AAAAATT
* *
40998831 GAAAGATAA
1 -AAAAAT-T
40998840 AAAAATT
1 AAAAATT
40998847 AAAAATT
1 AAAAATT
40998854 AAAAACTT
1 AAAAA-TT
40998862 AAAAACTT
1 AAAAA-TT
40998870 AAAA
1 AAAA
40998874 TTTTAATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
7 25 0.52
8 23 0.48
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:40998879 original size:16 final size:15
Alignment explanation
Indices: 40998809--40998873 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
40998799 AAAATCTTCA
*
40998809 AAAAAATTAAAAATT
1 AAAAACTTAAAAATT
* * *
40998824 GAAAA-TTGAAAGATA
1 AAAAACTT-AAAAATT
*
40998839 AAAAAATTAAAAATT
1 AAAAACTTAAAAATT
40998854 AAAAACTTAAAAACTT
1 AAAAACTTAAAAA-TT
40998870 AAAA
1 AAAA
40998874 TTTTAATATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
14 2 0.05
15 30 0.75
16 8 0.20
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (15 bp):
AAAAACTTAAAAATT
Found at i:40998945 original size:17 final size:18
Alignment explanation
Indices: 40998925--40998961 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
40998915 ATCAATATTC
40998925 AAAAATGCCAAAAAA-AT
1 AAAAATGCCAAAAAATAT
*
40998942 AAAAATTCCAAAAAATAT
1 AAAAATGCCAAAAAATAT
40998960 AA
1 AA
40998962 TCTCAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.70, C:0.11, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAAATGCCAAAAAATAT
Done.