Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold158
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: 3161772
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 138004 characters in sequence are not A, C, G, or T
File 4 of 9
Found at i:1017728 original size:152 final size:152
Alignment explanation
Indices: 1017494--1017816 Score: 452
Period size: 152 Copynumber: 2.1 Consensus size: 152
1017484 TACGCCCAGT
* *
1017494 GCTAGTTGGATAAACCGACGATATCAAATGTGTGCCCAGCACTATTCGGATAAACTGACAATGAG
1 GCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTATTCGGATAAACCGACAATGAG
* *
1017559 TTGCGCCCAGCGTTAGTCAG-GTAAACTGACAATATCAAATGTGTGCCCAGCACTAGTTGGATGT
66 TTGCGCCCAGCGCTAGTC-GTGTAAACTGACAATATCAAATGTGTGCCCAACACTAGTTGGATGT
1017623 ACCAACAATGAGTTGTGCCCAAC
130 ACCAACAATGAGTTGTGCCCAAC
* * * ** *
1017646 GCTAGTCGGGTAAATCGATGATATCAAATGTGTGCCCAGCACTAGTT-GGATGTACCGATAATGA
1 GCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTA-TTCGGATAAACCGACAATGA
*
1017710 GTTGCGCCCAGCGCTAGTCGTGTAAACTGACGATATCAAATGTGTGCCCAACACTAGTTGGATGT
65 GTTGCGCCCAGCGCTAGTCGTGTAAACTGACAATATCAAATGTGTGCCCAACACTAGTTGGATGT
* ** *
1017775 ACTAACAATGAGTTGCACCCAGC
130 ACCAACAATGAGTTGTGCCCAAC
* **
1017798 ACTAGTCAAATAAACCGAC
1 GCTAGTCGGATAAACCGAC
1017817 AAATACATAC
Statistics
Matches: 148, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
151 1 0.01
152 145 0.98
153 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (152 bp):
GCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTATTCGGATAAACCGACAATGAG
TTGCGCCCAGCGCTAGTCGTGTAAACTGACAATATCAAATGTGTGCCCAACACTAGTTGGATGTA
CCAACAATGAGTTGTGCCCAAC
Found at i:1017812 original size:76 final size:76
Alignment explanation
Indices: 1017486--1017805 Score: 405
Period size: 76 Copynumber: 4.2 Consensus size: 76
1017476 TAATGTTTTA
* * * **
1017486 CGCCCAGTGCTAGT-TGGATAAACCGACGATATCAAATGTGTGCCCAGCACTA-TTCGGATAAAC
1 CGCCCAGCGCTAGTCAGG-TAAACTGACGATATCAAATGTGTGCCCAGCACTAGTT-GGATGTAC
**
1017549 TGACAATGAGTTG
64 CAACAATGAGTTG
* *
1017562 CGCCCAGCGTTAGTCAGGTAAACTGACAATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCA
1 CGCCCAGCGCTAGTCAGGTAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCA
1017627 ACAATGAGTTG
66 ACAATGAGTTG
* * * *
1017638 TGCCCAACGCTAGTCGGGTAAA-TCGATGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACC
1 CGCCCAGCGCTAGTCAGGTAAACT-GACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACC
* *
1017702 GATAATGAGTTG
65 AACAATGAGTTG
* *
1017714 CGCCCAGCGCTAGTC-GTGTAAACTGACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACT
1 CGCCCAGCGCTAGTCAG-GTAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACC
1017778 AACAATGAGTTG
65 AACAATGAGTTG
* *
1017790 CACCCAGCACTAGTCA
1 CGCCCAGCGCTAGTCA
1017806 AATAAACCGA
Statistics
Matches: 212, Mismatches: 26, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
75 2 0.01
76 205 0.97
77 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (76 bp):
CGCCCAGCGCTAGTCAGGTAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCA
ACAATGAGTTG
Found at i:1018688 original size:40 final size:39
Alignment explanation
Indices: 1018602--1018679 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
1018592 AGCGCTTGTG
* *
1018602 AGAAAACGCCACTAAAAATTAAGCTTTAGGGGTGATTCTA
1 AGAAAACGCCACTAAAAA-TAAGCATTAGCGGTGATTCTA
*
1018642 AGAAAACGCCACTAAAAA-AATGCATTAGCGGTGTTTCT
1 AGAAAACGCCACTAAAAATAA-GCATTAGCGGTGATTCT
1018680 GCTGAAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 2 0.06
39 14 0.41
40 18 0.53
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (39 bp):
AGAAAACGCCACTAAAAATAAGCATTAGCGGTGATTCTA
Found at i:1018846 original size:42 final size:41
Alignment explanation
Indices: 1018789--1018906 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 41
1018779 TTTTAACGAG
* * *
1018789 TTTTTAAGTATGCGCCGCTAATGGTAGGGTGTTTTAGCGGCA
1 TTTTTAAGGAAGCGCCGCTAATGTTAGGGT-TTTTAGCGGCA
* ** * *
1018831 TTTTTAATGAAGCGCCGCTAATGTTACTGTTTTTAGTGGCG
1 TTTTTAAGGAAGCGCCGCTAATGTTAGGGTTTTTAGCGGCA
** *
1018872 TTTTTGGGGAAGCGCCTCTAATGTTAGGGTTTTTA
1 TTTTTAAGGAAGCGCCGCTAATGTTAGGGTTTTTA
1018907 CACTACACCA
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
41 38 0.61
42 24 0.39
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.40
Consensus pattern (41 bp):
TTTTTAAGGAAGCGCCGCTAATGTTAGGGTTTTTAGCGGCA
Found at i:1032312 original size:198 final size:198
Alignment explanation
Indices: 1031974--1032355 Score: 628
Period size: 198 Copynumber: 1.9 Consensus size: 198
1031964 TTTGCGGCGT
* * *
1031974 TTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCTCGATCAATTAACTCAAAGT
1 TTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAATTAACTAAAACT
* * *
1032039 CATTGCGTTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGCGGCGTTTACTA
66 CATGGCGTTTTAGAGAAAACGACATCATCTCCATAAAAATTAAAACATTTTTGCGGCGTTTACTA
1032104 AAAGCGCCACTAAAAG-TAAATAAGAAAAC-GAAGCCGTTTTCCTAAACAATTTCTGTAATTTAC
131 AAAGCGCCACT-AAAGTTAAATAAGAAAACAG-AGCCGTTTTCCTAAACAATTTCTGTAATTTAC
1032167 AGCGC
194 AGCGC
* *
1032172 TTATATACCAA-CGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATTAGTTAACTAAAAC
1 TTATATA-CAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAATTAACTAAAAC
1032236 TCATGGCGTTTTAGAGAAAACGACATCATCTCCATAAAAATTAAAACCA-TTTTGCGGCGTTTAC
65 TCATGGCGTTTTAGAGAAAACGACATCATCTCCATAAAAATTAAAA-CATTTTTGCGGCGTTTAC
1032300 TAAAAGCGCCACTAAAGTTAAATAAGAAAACAGAGCCGTTTTCCTAAACAATTTCT
129 TAAAAGCGCCACTAAAGTTAAATAAGAAAACAGAGCCGTTTTCCTAAACAATTTCT
1032356 ATAAATTGCG
Statistics
Matches: 172, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
197 4 0.02
198 162 0.94
199 6 0.03
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (198 bp):
TTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAATTAACTAAAACT
CATGGCGTTTTAGAGAAAACGACATCATCTCCATAAAAATTAAAACATTTTTGCGGCGTTTACTA
AAAGCGCCACTAAAGTTAAATAAGAAAACAGAGCCGTTTTCCTAAACAATTTCTGTAATTTACAG
CGC
Found at i:1032886 original size:24 final size:24
Alignment explanation
Indices: 1032841--1032886 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1032831 AATTTTAGTT
* *
1032841 TTTTTATTTCTTTTTTATTTTTTA
1 TTTTCATTTCTTTTTTAATTTTTA
1032865 TTTTCATTT-TTTTTGTAATTTT
1 TTTTCATTTCTTTTT-TAATTTT
1032887 GACAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTTCATTTCTTTTTTAATTTTTA
Found at i:1033992 original size:227 final size:227
Alignment explanation
Indices: 1033595--1035429 Score: 3230
Period size: 227 Copynumber: 8.1 Consensus size: 227
1033585 TTTTGCGGCG
* * * * *
1033595 TTTTTTAATAAGCGCCACTAACTCTAATCTACCTCAAGACCAAACGGTGCGTTTTGGTTAAGATC
1 TTTTTTAA-AAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATA
* * * * *
1033660 TTTGCGGCGCTTTTTGTAATACGCCGCTAATACTGTTCTTTAGCGGCGTTTTCTCGTAAACGCCA
65 TTTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCA
* ** * *
1033725 CTAATTCTAATATAC-CTCAAAACCAAACGCTGCTTTTTGGTTAAGGTATTTTGCGGCGCTT-AC
130 CTAATTCTAATATACAAT-TGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGA-
* * *
1033788 AAATAAACGCCACTAATGATGTTCTTTTACGGCGT
193 AAGTAAACGCCACTAATTATGTTCTTTTACGGCTT
* * * * *
1033823 TTGTTTAAAAACGCCACTAATACTAATCTACCTCGAGACCAAACGCTGCGTTTTCGTTAAGATAT
1 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1033888 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
66 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
* * *
1033953 TAATTCTAATATACAATTGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGTGCTT-ACAA
131 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGA-AA
* * *
1034017 ATAAACGCCACTAATGATGTTCTTTTACGGCGT
195 GTAAACGCCACTAATTATGTTCTTTTACGGCTT
* * * * *
1034050 TTGTTTAAAAACGCCACTAATACTAATCTACCTCGAGACCAAACGCTGCGTTTTCGTTAAGATAT
1 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1034115 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
66 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
1034180 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
131 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
1034245 TAAACGCCACTAATTATGTTCTTTTACGGCTT
196 TAAACGCCACTAATTATGTTCTTTTACGGCTT
1034277 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1034342 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
66 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
1034407 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
131 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
1034472 TAAACGCCACTAATTATGTTCTTTTACGGCTT
196 TAAACGCCACTAATTATGTTCTTTTACGGCTT
1034504 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1034569 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
66 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
1034634 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
131 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
1034699 TAAACGCCACTAATTATGTTCTTTTACGGCTT
196 TAAACGCCACTAATTATGTTCTTTTACGGCTT
1034731 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1034796 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
66 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
1034861 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
131 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
1034926 TAAACGCCACTAATTATGTTCTTTTACGGCTT
196 TAAACGCCACTAATTATGTTCTTTTACGGCTT
1034958 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1035023 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
66 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
1035088 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
131 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
1035153 TAAACGCCACTAATTATGTTCTTTTACGGCTT
196 TAAACGCCACTAATTATGTTCTTTTACGGCTT
1035185 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
1 TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
*
1035250 TTGCGGCGCTTTTTGTAAAACGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
66 TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
* *
1035315 TAATTCTAATATACAATTGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTT-ACAA
131 TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGA-AA
* *
1035379 -TAAACGCCACTAATTATGTTCTTTTACAGCGT
195 GTAAACGCCACTAATTATGTTCTTTTACGGCTT
*
1035411 TTTTTTAGAAACGCCACTA
1 TTTTTTAAAAACGCCACTA
1035430 GTTGTTCAGG
Statistics
Matches: 1569, Mismatches: 35, Indels: 8
0.97 0.02 0.00
Matches are distributed among these distances:
226 49 0.03
227 1511 0.96
228 9 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (227 bp):
TTTTTTAAAAACGCCACTAACACTAATCTACCTCAAGACCAAATGGTGCGTTTTCGTTAAGATAT
TTGCGGCGCTTTTTGTAAAATGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCAC
TAATTCTAATATACAATTGATCCAAACGCTGCATTTTGGTTAAGGTATTTTGCGGCGCTTGAAAG
TAAACGCCACTAATTATGTTCTTTTACGGCTT
Found at i:1035607 original size:41 final size:41
Alignment explanation
Indices: 1035562--1035653 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 41
1035552 CATTTTTAAT
* *
1035562 GAAGCGCTGCTAAAGTTAAGGTTTTTAGCGACGTTTTT-TG
1 GAAGCGCCGCTAAAGTTAAGGGTTTTAGCGACGTTTTTGTG
* * *
1035602 AGAAGCGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTGTG
1 -GAAGCGCCGCTAAAGTTAAGGGTTTTAGCGACGTTTTTGTG
1035644 GAAGCGCCGC
1 GAAGCGCCGC
1035654 AAAAAACATT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.32
Consensus pattern (41 bp):
GAAGCGCCGCTAAAGTTAAGGGTTTTAGCGACGTTTTTGTG
Found at i:1035793 original size:23 final size:25
Alignment explanation
Indices: 1035748--1035794 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
1035738 AGAAAAAAAT
*
1035748 AACACATAGAAATAATTTGAAATAA
1 AACACATAGAAATAATTTAAAATAA
*
1035773 AACACATGGAAA-AA-TTAAAATA
1 AACACATAGAAATAATTTAAAATA
1035795 CTATTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 2 0.10
25 11 0.55
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.21
Consensus pattern (25 bp):
AACACATAGAAATAATTTAAAATAA
Found at i:1036603 original size:7 final size:7
Alignment explanation
Indices: 1036591--1036649 Score: 64
Period size: 7 Copynumber: 7.9 Consensus size: 7
1036581 AGATTAAGGT
1036591 TTAGGGG
1 TTAGGGG
1036598 TTAGGGG
1 TTAGGGG
1036605 TTAGTGGG
1 TTAG-GGG
1036613 ATTTAGGGG
1 --TTAGGGG
1036622 TTAGGGG
1 TTAGGGG
*
1036629 TTAGGGAT
1 TTAGGG-G
*
1036637 TTAGGGT
1 TTAGGGG
1036644 TTAGGG
1 TTAGGG
1036650 TATCAAGGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
7 31 0.66
8 9 0.19
9 3 0.06
10 4 0.09
ACGTcount: A:0.17, C:0.00, G:0.49, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:1036638 original size:22 final size:23
Alignment explanation
Indices: 1036590--1036649 Score: 95
Period size: 24 Copynumber: 2.6 Consensus size: 23
1036580 GAGATTAAGG
1036590 TTTAGGGGTTAGGGGTTAGTGGGA
1 TTTAGGGGTTAGGGGTTAG-GGGA
1036614 TTTAGGGGTTAGGGGTTA-GGGA
1 TTTAGGGGTTAGGGGTTAGGGGA
*
1036636 TTTAGGGTTTAGGG
1 TTTAGGGGTTAGGG
1036650 TATCAAGGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 17 0.49
24 18 0.51
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.35
Consensus pattern (23 bp):
TTTAGGGGTTAGGGGTTAGGGGA
Found at i:1038767 original size:12 final size:12
Alignment explanation
Indices: 1038750--1038775 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1038740 TAGTTTGAAA
1038750 TTGTTCATAATT
1 TTGTTCATAATT
1038762 TTGTTCATAATT
1 TTGTTCATAATT
1038774 TT
1 TT
1038776 CACTATCCTA
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:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (12 bp):
TTGTTCATAATT
Found at i:1039381 original size:25 final size:26
Alignment explanation
Indices: 1039347--1039404 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
1039337 CTCGTTGCAT
*
1039347 AATAATTCTTACTCTAT-GCGTATCA
1 AATAATTCTTACTCTATAGCGTATAA
*
1039372 AATAATTCTTACTCTATAGCTTATAA
1 AATAATTCTTACTCTATAGCGTATAA
1039398 AATAATT
1 AATAATT
1039405 AAATTCTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (26 bp):
AATAATTCTTACTCTATAGCGTATAA
Found at i:1040420 original size:16 final size:16
Alignment explanation
Indices: 1040399--1040676 Score: 169
Period size: 16 Copynumber: 16.8 Consensus size: 16
1040389 CTTATATATA
1040399 AACTTACATAATACAT
1 AACTTACATAATACAT
*
1040415 AACTTACATAATATAT
1 AACTTACATAATACAT
* * *
1040431 AGCCTACATAAATTGCAT
1 AACTTACAT-AA-TACAT
* *
1040449 AACTCACATAATACAC
1 AACTTACATAATACAT
*
1040465 AACTTACATAACTTAAAT
1 AACTTACATAA--TACAT
*
1040483 AACTTACATAATAAAT
1 AACTTACATAATACAT
1040499 AACTTA-ATTAATTA-AT
1 AACTTACA-TAA-TACAT
*
1040515 -ATTATACATAACTTACAT
1 AACT-TACATAA--TACAT
* *
1040533 AGCTTACA-ACTTACAT
1 AACTTACATA-ATACAT
1040549 AACTTA-ATTAATTA-AT
1 AACTTACA-TAA-TACAT
* *
1040565 -ATTATACACAACTTACAT
1 AACT-TACATAA--TACAT
*
1040583 AACATACATAATACAT
1 AACTTACATAATACAT
*
1040599 AACTTACATAATACAC
1 AACTTACATAATACAT
*
1040615 AACTTACATAGCTTACAT
1 AACTTACATA--ATACAT
1040633 AA--TACATAACTTACAT
1 AACTTACATAA--TACAT
*
1040649 AACTTATATAATACAT
1 AACTTACATAATACAT
1040665 AACTTACATAAT
1 AACTTACATAAT
1040677 TTACGTAATA
Statistics
Matches: 205, Mismatches: 31, Indels: 52
0.71 0.11 0.18
Matches are distributed among these distances:
15 6 0.03
16 130 0.63
17 18 0.09
18 49 0.24
19 2 0.01
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:1040452 original size:34 final size:34
Alignment explanation
Indices: 1040403--1040495 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 34
1040393 TATATAAACT
* * *
1040403 TACAT-AA-TACATAACTTACATAATATATAGCC
1 TACATAAATTACATAACTTACATAATACACAACC
* * *
1040435 TACATAAATTGCATAACTCACATAATACACAACT
1 TACATAAATTACATAACTTACATAATACACAACC
* *
1040469 TACATAACTTAAATAACTTACATAATA
1 TACATAAATTACATAACTTACATAATA
1040496 AATAACTTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
32 5 0.10
33 2 0.04
34 42 0.86
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.30
Consensus pattern (34 bp):
TACATAAATTACATAACTTACATAATACACAACC
Found at i:1040484 original size:25 final size:25
Alignment explanation
Indices: 1040399--1040691 Score: 209
Period size: 25 Copynumber: 11.7 Consensus size: 25
1040389 CTTATATATA
1040399 AACTTACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * * *
1040424 AA--TATATAGCCTACATAAATTGCAT
1 AACTTACATA--ATACATAACTTACAT
* *
1040449 AACTCACATAATACACAACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
1040474 AACTTAAATAACTTACATAA--TAAAT
1 AACTTACATAA--TACATAACTTACAT
*
1040499 AACTTA-ATTAATTA-AT-ATTATACAT
1 AACTTACA-TAA-TACATAACT-TACAT
*
1040524 AACTTACATAGCTTAC--AACTTACAT
1 AACTTACATA--ATACATAACTTACAT
* *
1040549 AACTTA-ATTAATTA-AT-ATTATACAC
1 AACTTACA-TAA-TACATAACT-TACAT
1040574 AACTTACATAACATACATAA--TACAT
1 AACTTACAT-A-ATACATAACTTACAT
*
1040599 AACTTACATAATACACAACTTACAT
1 AACTTACATAATACATAACTTACAT
*
1040624 AGCTTACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
*
1040649 AACTTATATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
1040674 AATTTACGTAATACATAA
1 AACTTACATAATACATAA
1040692 ATATATATCA
Statistics
Matches: 212, Mismatches: 29, Indels: 54
0.72 0.10 0.18
Matches are distributed among these distances:
22 1 0.00
23 14 0.07
24 10 0.05
25 164 0.77
26 9 0.04
27 13 0.06
28 1 0.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.33
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:1040613 original size:41 final size:41
Alignment explanation
Indices: 1040568--1040650 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
1040558 AATTAATATT
1040568 ATACACAACTTACATAACATACATAATACATAACTTACATA
1 ATACACAACTTACATAACATACATAATACATAACTTACATA
* *
1040609 ATACACAACTTACATAGCTTACATAATACATAACTTACATA
1 ATACACAACTTACATAACATACATAATACATAACTTACATA
1040650 A
1 A
1040651 CTTATATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.49, C:0.22, G:0.01, T:0.28
Consensus pattern (41 bp):
ATACACAACTTACATAACATACATAATACATAACTTACATA
Found at i:1040664 original size:41 final size:40
Alignment explanation
Indices: 1040568--1040676 Score: 139
Period size: 41 Copynumber: 2.6 Consensus size: 40
1040558 AATTAATATT
*
1040568 ATACACAACTTACATAACATACATAATACATAACTTACATA
1 ATACACAAC-TACATAACTTACATAATACATAACTTACATA
*
1040609 ATACACAACTTACATAGCTTACATAATACATAACTTACATA
1 ATACACAAC-TACATAACTTACATAATACATAACTTACATA
* *
1040650 ACTTATATAA-TACATAACTTACATAAT
1 A--TACACAACTACATAACTTACATAAT
1040677 TTACGTAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
41 56 0.92
43 5 0.08
ACGTcount: A:0.49, C:0.20, G:0.01, T:0.30
Consensus pattern (40 bp):
ATACACAACTACATAACTTACATAATACATAACTTACATA
Found at i:1040906 original size:66 final size:66
Alignment explanation
Indices: 1040824--1040975 Score: 216
Period size: 66 Copynumber: 2.3 Consensus size: 66
1040814 GTCAAGGGTA
* *
1040824 AGCATCGAGAGAAGCTGAGGTTCAAAA-AAGATATGAAGAACTTCAGCTACAACTTAAAGCAGAA
1 AGCAGCGAGAGAAGCTGAGGTTCAAAAGAAG-TATGAAGAACTCCAGCTACAACTTAAAGCAGAA
1040888 GC
65 GC
* * *
1040890 AGCAGCGAGAGAAGCTGAGGTTCAAAAGAAGTATGAAGAACTCCAGCTTCAGCTTAAAGCAGAGG
1 AGCAGCGAGAGAAGCTGAGGTTCAAAAGAAGTATGAAGAACTCCAGCTACAACTTAAAGCAGAAG
1040955 C
66 C
* * *
1040956 GGCAGCGAGGGAAGCAGAGG
1 AGCAGCGAGAGAAGCTGAGG
1040976 CAGCAGCGAG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 74 0.96
67 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.30, T:0.14
Consensus pattern (66 bp):
AGCAGCGAGAGAAGCTGAGGTTCAAAAGAAGTATGAAGAACTCCAGCTACAACTTAAAGCAGAAG
C
Found at i:1040970 original size:21 final size:21
Alignment explanation
Indices: 1040946--1040995 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1040936 CTTCAGCTTA
* *
1040946 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
1040967 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
1040988 AAACAGAG
1 AAGCAGAG
1040996 CAGAGCAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.44, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:1041353 original size:43 final size:43
Alignment explanation
Indices: 1041318--1041522 Score: 302
Period size: 43 Copynumber: 4.8 Consensus size: 43
1041308 CGTTTTTAAA
* * * *
1041318 AAAAACGCCACTAAAGGTCATGGCCTATAGCGGCGTTTGTGTG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTTTGGG
* *
1041361 AAAAGCACCGATAAAGGTCATGGCCTATAGCGGCGTTTTTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTTTGGG
*
1041404 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTTTGGG
* * *
1041447 AAAAGCGCCGCCAAAGGTCGTGGCCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTTTGGG
**
1041490 AAAAGCGCCGCTAAAGGTTGTGGCCTATAGCGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGG
1041523 AGGCGTTTAT
Statistics
Matches: 149, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 149 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTTTGGG
Found at i:1043984 original size:66 final size:67
Alignment explanation
Indices: 1043825--1044017 Score: 239
Period size: 66 Copynumber: 2.9 Consensus size: 67
1043815 AAAAGTATTT
* ** *
1043825 TTAT-TTTTTACATCAAGAATATACTTATTTACAATTTACGAAAAAATGAAAAATTGTTGGTATA
1 TTATATTTTTACATCAACAATATACTTATTTACAATTTACGAAAAAATGAAAAA--AAT-GCATA
1043889 TTGTA
63 TTGTA
* *
1043894 TTGTATTTTTACATCAACAATATACTTATTTATAATTTACGAAAAAAATGAAAAAAAT-CAT-TT
1 TTATATTTTTACATCAACAATATACTTATTTACAATTTACG-AAAAAATGAAAAAAATGCATATT
1043957 GTA
65 GTA
* ** *
1043960 TTATATTTTTACATCAATAATATACTTATTTACAATTTACCCAAAAATGGAAAAAATG
1 TTATATTTTTACATCAACAATATACTTATTTACAATTTACGAAAAAATGAAAAAAATG
1044018 AATTATTTTT
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
65 14 0.13
66 42 0.39
67 2 0.02
69 4 0.04
70 34 0.31
71 13 0.12
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (67 bp):
TTATATTTTTACATCAACAATATACTTATTTACAATTTACGAAAAAATGAAAAAAATGCATATTG
TA
Found at i:1049442 original size:26 final size:27
Alignment explanation
Indices: 1049400--1049471 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
1049390 TCTTATCCCT
* *
1049400 ATTTTA-CCCTCAATAAAA-AATTGACG
1 ATTTTACCCCT-AGTAAAATAATTAACG
**
1049426 ATTTTACCCCTAGTAAAATTTTTAACG
1 ATTTTACCCCTAGTAAAATAATTAACG
* *
1049453 ATTTTACCCTTGGTAAAAT
1 ATTTTACCCCTAGTAAAAT
1049472 TTTAAGAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 12 0.32
27 26 0.68
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAATAATTAACG
Found at i:1049476 original size:26 final size:27
Alignment explanation
Indices: 1049423--1049474 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1049413 TAAAAAATTG
1049423 ACGATTTTACCCCTAGTAAAATTTTTA
1 ACGATTTTACCCCTAGTAAAATTTTTA
* *
1049450 ACGATTTTACCCTTGGTAAAATTTT
1 ACGATTTTACCCCTAGTAAAATTTT
1049475 AAGAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (27 bp):
ACGATTTTACCCCTAGTAAAATTTTTA
Found at i:1055380 original size:18 final size:18
Alignment explanation
Indices: 1055357--1055392 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1055347 AAACCCTAGA
1055357 ATTCTTT-TGAGTCTGATT
1 ATTCTTTGTGA-TCTGATT
1055375 ATTCTTTGTGATCTGATT
1 ATTCTTTGTGATCTGATT
1055393 TTTTTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.56
Consensus pattern (18 bp):
ATTCTTTGTGATCTGATT
Found at i:1063543 original size:21 final size:21
Alignment explanation
Indices: 1063512--1063568 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
1063502 ATTGTTGTTG
*
1063512 AGAAGGAAGTTGCTGCTGCAGA
1 AGAA-GAAGTTGCTGCTGAAGA
* *
1063534 AG-AGAAAGTTGTTTCTGAAGA
1 AGAAG-AAGTTGCTGCTGAAGA
1063555 AGAAGAAGTTGCTG
1 AGAAGAAGTTGCTG
1063569 AAAATGAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 1 0.04
21 23 0.82
22 4 0.14
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.23
Consensus pattern (21 bp):
AGAAGAAGTTGCTGCTGAAGA
Found at i:1064044 original size:17 final size:17
Alignment explanation
Indices: 1064022--1064055 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1064012 GATAAATATA
* *
1064022 TATTGTGATTGCATTTT
1 TATTGTCATTACATTTT
1064039 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
1064056 CATGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:1068248 original size:15 final size:16
Alignment explanation
Indices: 1068225--1068257 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1068215 ATAAATGTCT
1068225 TTAAAAATAAAA-AAA
1 TTAAAAATAAAATAAA
*
1068240 TTAACAATAAAATAAA
1 TTAAAAATAAAATAAA
1068256 TT
1 TT
1068258 TTATATGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
TTAAAAATAAAATAAA
Found at i:1068909 original size:30 final size:30
Alignment explanation
Indices: 1068875--1068934 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1068865 ACTTAACAAG
1068875 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
1068905 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
1068935 TAATAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:1079925 original size:33 final size:34
Alignment explanation
Indices: 1079849--1079925 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
1079839 TTTTAATTTC
*
1079849 TTTGGGTTTTTTATTTGATTTAAATGTTTTCAAG
1 TTTGGATTTTTTATTTGATTTAAATGTTTTCAAG
** *
1079883 TTTATATTTTTTATTTGATTTAAATGTTTT-GAG
1 TTTGGATTTTTTATTTGATTTAAATGTTTTCAAG
1079916 TTTGGATTTT
1 TTTGGATTTT
1079926 GAATTTAGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 10 0.27
34 27 0.73
ACGTcount: A:0.21, C:0.01, G:0.16, T:0.62
Consensus pattern (34 bp):
TTTGGATTTTTTATTTGATTTAAATGTTTTCAAG
Found at i:1081825 original size:43 final size:43
Alignment explanation
Indices: 1081774--1081887 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
1081764 TGTGTTATCG
* * *
1081774 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TGTGTTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATC-AATGCGTGATTACA
1081817 TGTAAGACC-CTGTCTGGGACAG-TGGCATCAATGCGTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATGCGTGATTACA
1081860 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
1081888 TGTAAGAATT
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
42 4 0.06
43 57 0.90
44 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATGCGTGATTACA
Found at i:1082760 original size:23 final size:23
Alignment explanation
Indices: 1082733--1082879 Score: 143
Period size: 23 Copynumber: 6.3 Consensus size: 23
1082723 ATGAGTTGAA
*
1082733 CCAATTTGTTACATACATGCTGT
1 CCAATTTGTTACATATATGCTGT
* * * * *
1082756 CCAATTTTGATGA-TTAAATGTTGC
1 CCAA-TTTG-TTACATATATGCTGT
1082780 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
1082803 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
* * * * *
1082826 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTACATATATGCTGT
* *
1082850 CCAGTTTGTTGCATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
1082873 CCAATTT
1 CCAATTT
1082880 TGGTGTAAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
22 2 0.02
23 63 0.64
24 32 0.32
25 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.41
Consensus pattern (23 bp):
CCAATTTGTTACATATATGCTGT
Found at i:1082851 original size:70 final size:70
Alignment explanation
Indices: 1082733--1082879 Score: 249
Period size: 70 Copynumber: 2.1 Consensus size: 70
1082723 ATGAGTTGAA
*
1082733 CCAATTTGTTACATACATGCTGTCCAATTTTGATGATTAAATGTTGCCCAATTTGTTACATATAT
1 CCAATTTGTTACATACATGCTGTCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
1082798 GCTGT
66 GCTGT
* * * *
1082803 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAGTTTGTTGCATATAT
1 CCAATTTGTTACATACATGCTGTCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
1082868 GCTGT
66 GCTGT
1082873 CCAATTT
1 CCAATTT
1082880 TGGTGTAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.41
Consensus pattern (70 bp):
CCAATTTGTTACATACATGCTGTCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
GCTGT
Found at i:1082892 original size:47 final size:47
Alignment explanation
Indices: 1082796--1082889 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 47
1082786 TGTTACATAT
* *
1082796 ATGCTGTCCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAA
1 ATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGATGCTAAA
* * *
1082843 ATGCTGCCCAGTTTGTTGCATATATGCTGTCCAATTTTGGTG-TAAA
1 ATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGATGCTAAA
1082889 A
1 A
1082890 ATGTTGCTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 4 0.10
47 38 0.90
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.40
Consensus pattern (47 bp):
ATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGATGCTAAA
Found at i:1082907 original size:47 final size:47
Alignment explanation
Indices: 1082809--1082923 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
1082799 CTGTCCAATT
* * ***
1082809 TGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAGTT
1 TGTTGCATATATGCTGTCCAATTTTGATGCTAAAATGCTGCCCAAAC
* * *
1082856 TGTTGCATATATGCTGTCCAATTTTGGTG-TAAAAATGTTGCTCAAAC
1 TGTTGCATATATGCTGTCCAATTTTGATGCT-AAAATGCTGCCCAAAC
* *
1082903 TGTTGTATATATGCTGCCCAA
1 TGTTGCATATATGCTGTCCAA
1082924 ATTGATGTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 56 0.98
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.39
Consensus pattern (47 bp):
TGTTGCATATATGCTGTCCAATTTTGATGCTAAAATGCTGCCCAAAC
Found at i:1082948 original size:23 final size:23
Alignment explanation
Indices: 1082792--1082949 Score: 75
Period size: 23 Copynumber: 6.8 Consensus size: 23
1082782 AATTTGTTAC
* * * **
1082792 ATATATGCTGTCCAATTTGTTAC
1 ATATATGCTGCCCAAATTGATGT
* *
1082815 ATATATGCTGTCCAATTTTGATGCT
1 ATATATGCTGCCCAA-ATTGATG-T
* ** * *
1082840 -TAAATGCTGCCCAGTTTGTTGC
1 ATATATGCTGCCCAAATTGATGT
* * *
1082862 ATATATGCTGTCCAATTTTGGTGT
1 ATATATGCTGCCCAA-ATTGATGT
* * * * * *
1082886 AAAAATGTTGCTCAAACTGTTGT
1 ATATATGCTGCCCAAATTGATGT
1082909 ATATATGCTGCCCAAATTGATGT
1 ATATATGCTGCCCAAATTGATGT
* *
1082932 ATTTATGCTGTCCAAATT
1 ATATATGCTGCCCAAATT
1082950 TTAGCGTGAA
Statistics
Matches: 102, Mismatches: 29, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
23 70 0.69
24 32 0.31
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (23 bp):
ATATATGCTGCCCAAATTGATGT
Found at i:1087929 original size:45 final size:45
Alignment explanation
Indices: 1087865--1087953 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
1087855 AACAGATACT
* *
1087865 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
1087910 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1087954 TCAGTTCACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:1088029 original size:51 final size:51
Alignment explanation
Indices: 1087960--1088100 Score: 185
Period size: 51 Copynumber: 2.8 Consensus size: 51
1087950 ATGTTCAGTT
* * * *
1087960 CACATAGTAGCATTCACATAGTACTACACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATA
* * * *
1088011 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATCCGATA
*
1088062 CGCATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
1088101 CACTTTCACT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.03
51 73 0.95
52 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATA
Found at i:1090740 original size:24 final size:24
Alignment explanation
Indices: 1090713--1090771 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
1090703 ATTGCCTTTG
1090713 TGGCATATTCTGTAAATGCCTCTA
1 TGGCATATTCTGTAAATGCCTCTA
* * * * *
1090737 TGGCGTATTTTGTAATTGCCTTTG
1 TGGCATATTCTGTAAATGCCTCTA
*
1090761 TGGAATATTCT
1 TGGCATATTCT
1090772 ATGATGTCTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (24 bp):
TGGCATATTCTGTAAATGCCTCTA
Found at i:1093363 original size:21 final size:20
Alignment explanation
Indices: 1093339--1093378 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1093329 AGGAAATTAC
1093339 TTTAAATGATTTCAAAATGTG
1 TTTAAA-GATTTCAAAATGTG
* *
1093360 TTTAAAGCTTTGAAAATGT
1 TTTAAAGATTTCAAAATGT
1093379 TGGAAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (20 bp):
TTTAAAGATTTCAAAATGTG
Found at i:1095917 original size:143 final size:132
Alignment explanation
Indices: 1095752--1096027 Score: 354
Period size: 143 Copynumber: 2.0 Consensus size: 132
1095742 CATCATGTGC
** * **
1095752 AAGATCATGTGAAACAATTTACACGAGCCTTGAGGGGTGATATGGATATGAAACAAATCGAATCG
1 AAGATCATGCAAAACAATTTACACGAGCCTCGAGGGCCGATATGGATATG----AAA-CGAATCG
* *
1095817 ACTGATTCAAAAATGAAATGAGATAATGGAATGAATATATATATACACACATATATGATTGTTGC
61 ACCGATTCAAAAATGAAATGAGATAATGAAATG-A-ATATATAT----ACATATATGATTGTTGC
*
1095882 AAACTAACTATCG
120 AAACTAACAATCG
* *
1095895 AAGATCATGCAAAACGATTTACAGGAGCCTCGAGGGCCGATATGGATATGAAACGAATCGACCGA
1 AAGATCATGCAAAACAATTTACACGAGCCTCGAGGGCCGATATGGATATGAAACGAATCGACCGA
*
1095960 TTCAGAAATGAAATGAGATAATGAAATGAATATATATACATATATGATTGTTGCAAACTAACAAT
66 TTCAAAAATGAAATGAGATAATGAAATGAATATATATACATATATGATTGTTGCAAACTAACAAT
1096025 CG
131 CG
1096027 A
1 A
1096028 GGTAAGCATA
Statistics
Matches: 122, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
132 30 0.25
136 8 0.07
137 1 0.01
138 37 0.30
139 3 0.02
143 43 0.35
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (132 bp):
AAGATCATGCAAAACAATTTACACGAGCCTCGAGGGCCGATATGGATATGAAACGAATCGACCGA
TTCAAAAATGAAATGAGATAATGAAATGAATATATATACATATATGATTGTTGCAAACTAACAAT
CG
Found at i:1100975 original size:18 final size:18
Alignment explanation
Indices: 1100945--1100979 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1100935 ATGTTGTACA
1100945 TGTTATGACATTGTGATT
1 TGTTATGACATTGTGATT
1100963 TGTTGATGA-ATTGTGAT
1 TGTT-ATGACATTGTGAT
1100980 GATCAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.49
Consensus pattern (18 bp):
TGTTATGACATTGTGATT
Found at i:1106248 original size:388 final size:387
Alignment explanation
Indices: 1105522--1106300 Score: 1513
Period size: 388 Copynumber: 2.0 Consensus size: 387
1105512 GTGGTTTTAG
* *
1105522 ATGAGGTATCGGACCTCGTTTCTATAAACTGAGCCATAAATATTTTTATAAATATTTAGAGAATG
1 ATGAGGTATCGGACCTCATTTCTATAAACTGAGCCATAAATATTTTTATAAATATTTACAGAATG
1105587 TTATTAAGGTGGTATTAAATTTTCGTTAAAAAATTTTAACGTTTCGATAGTTAATTAAGCGAAAA
66 TTATTAAGGTGGTATTAAATTTTCGTTAAAAAATTTTAACGTTTCGATAGTTAATTAAGCGAAAA
1105652 GGACTAAATCTTAAAAAGTGTAAAATGTGATCCCTATTTGATTAGAGTGATTAAATGGCTTATTG
131 GGACTAAATCTTAAAAAGTGTAAAATGTGATCCCTATTTGATTAGAGTGATTAAATGGCTTATTG
1105717 AATAAAGGAAAAGTGACCTAGATGGTAATTGGACCATTATTATAAATAGTGGACAAAGGTGGACA
196 AATAAAGGAAAAGTGACCTAGATGGTAATTGGACCATTATTATAAATAGTGGACAAAGGTGGACA
1105782 TTAAATAGGTGATTTTTGATATTATAAAAAAGGTTGATTTAGTAATTTATTTATTAAAAGAAATT
261 TTAAATAGGTGATTTTTGATATTATAAAAAAGGTTGATTTAGTAATTTATTTATTAAAAGAAATT
*
1105847 TAAAACAAATAAAAAAATGGCATCATCTTTTTTAAATTTAGTTCCACAAAATTTGTTGAAGA
326 TAAAACAAATAAAAAAATGGCATCATCTTCTTTAAATTTAGTTCCACAAAATTTGTTGAAGA
1105909 ATGAGGTATCGGGACCTCATTTCTATAAACTGAGCCATAAATATTTTTATAAATATTTACAGAAT
1 ATGAGGTATC-GGACCTCATTTCTATAAACTGAGCCATAAATATTTTTATAAATATTTACAGAAT
1105974 GTTATTAAGGTGGTATTAAATTTTCGTTAAAAAATTTTAACGTTTCGATAGTTAATTAAGCGAAA
65 GTTATTAAGGTGGTATTAAATTTTCGTTAAAAAATTTTAACGTTTCGATAGTTAATTAAGCGAAA
1106039 AGGACTAAATCTTAAAAAGTGTAAAATGTGATCCCTATTTGATTAGAGTGATTAAATGGCTTATT
130 AGGACTAAATCTTAAAAAGTGTAAAATGTGATCCCTATTTGATTAGAGTGATTAAATGGCTTATT
*
1106104 GAATAAAGGAAAAGTGACCTAGATGGTAATTGGACCATTATTATAAATAGTGGACAAGGGTGGAC
195 GAATAAAGGAAAAGTGACCTAGATGGTAATTGGACCATTATTATAAATAGTGGACAAAGGTGGAC
1106169 ATTAAATAGGTGATTTTTGATATTATAAAAAAGGTTGATTTAGTAATTTATTTATTAAAAGAAAT
260 ATTAAATAGGTGATTTTTGATATTATAAAAAAGGTTGATTTAGTAATTTATTTATTAAAAGAAAT
1106234 TTAAAACAAATAAAAAAATGGCATCATCTTCTTTAAATTTAGTTCCACAAAATTTGTTGAAGA
325 TTAAAACAAATAAAAAAATGGCATCATCTTCTTTAAATTTAGTTCCACAAAATTTGTTGAAGA
1106297 ATGA
1 ATGA
1106301 AGCCATAGCT
Statistics
Matches: 387, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
387 10 0.03
388 377 0.97
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (387 bp):
ATGAGGTATCGGACCTCATTTCTATAAACTGAGCCATAAATATTTTTATAAATATTTACAGAATG
TTATTAAGGTGGTATTAAATTTTCGTTAAAAAATTTTAACGTTTCGATAGTTAATTAAGCGAAAA
GGACTAAATCTTAAAAAGTGTAAAATGTGATCCCTATTTGATTAGAGTGATTAAATGGCTTATTG
AATAAAGGAAAAGTGACCTAGATGGTAATTGGACCATTATTATAAATAGTGGACAAAGGTGGACA
TTAAATAGGTGATTTTTGATATTATAAAAAAGGTTGATTTAGTAATTTATTTATTAAAAGAAATT
TAAAACAAATAAAAAAATGGCATCATCTTCTTTAAATTTAGTTCCACAAAATTTGTTGAAGA
Found at i:1107061 original size:33 final size:33
Alignment explanation
Indices: 1107024--1107133 Score: 89
Period size: 33 Copynumber: 3.3 Consensus size: 33
1107014 GAAAAATGTA
1107024 TAAGACCATGGTTGGACCATGGTAATGTTTACG
1 TAAGACCATGGTTGGACCATGGTAATGTTTACG
*** * * * *
1107057 TAAGACCATAGCAAGG-CTATGGCAGT-TTTCAGACA
1 TAAGACCAT-GGTTGGACCATGGTAATGTTT---ACG
* *
1107092 CAAGACTATGGTTGGACCATGGTAATGTTTACG
1 TAAGACCATGGTTGGACCATGGTAATGTTTACG
1107125 TAAGACCAT
1 TAAGACCAT
1107134 AGCGAGGCTA
Statistics
Matches: 53, Mismatches: 18, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
32 3 0.06
33 25 0.47
34 6 0.11
35 16 0.30
36 3 0.06
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (33 bp):
TAAGACCATGGTTGGACCATGGTAATGTTTACG
Found at i:1107134 original size:68 final size:68
Alignment explanation
Indices: 1107025--1107188 Score: 240
Period size: 68 Copynumber: 2.4 Consensus size: 68
1107015 AAAAATGTAT
*
1107025 AAGACCATGGTTGGACCATGGTAATGTTTACGTAAGACCATAGCAAGGCTATGGCAGTT-TTCAG
1 AAGA-CATGGTTGGACCATGGTAATGTTTACGTAAGACCATAGCAAGGCTATGACAGTTGTTCAG
1107089 ACAC
65 ACAC
* *
1107093 AAGACTATGGTTGGACCATGGTAATGTTTACGTAAGACCATAGCGAGGCTATGACATTTGTTCAG
1 AAGAC-ATGGTTGGACCATGGTAATGTTTACGTAAGACCATAGCAAGGCTATGACAGTTGTTCAG
**
1107158 ACGT
65 ACAC
*
1107162 AAGAACATGGTTGGACCATGGCAATGT
1 AAG-ACATGGTTGGACCATGGTAATGT
1107189 ATATATATAT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
67 1 0.01
68 54 0.62
69 30 0.34
70 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (68 bp):
AAGACATGGTTGGACCATGGTAATGTTTACGTAAGACCATAGCAAGGCTATGACAGTTGTTCAGA
CAC
Found at i:1107400 original size:29 final size:30
Alignment explanation
Indices: 1107367--1107426 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1107357 TTGCAGTGTT
*
1107367 CATCGAAT-ATGAAAATGGATGGTTTAGAC
1 CATCGAATAAAGAAAATGGATGGTTTAGAC
* *
1107396 CATCGATTAAAGAAAATGGATGGTTTCGAC
1 CATCGAATAAAGAAAATGGATGGTTTAGAC
1107426 C
1 C
1107427 TTCATTTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (30 bp):
CATCGAATAAAGAAAATGGATGGTTTAGAC
Found at i:1111627 original size:103 final size:103
Alignment explanation
Indices: 1111461--1111656 Score: 392
Period size: 103 Copynumber: 1.9 Consensus size: 103
1111451 CAAGGGTCAC
1111461 GCGGCCGTGTGGACATTCGAAATAGGGACACATGGCCGTGTCCCAGCCCATGTTCGTGCCCATGT
1 GCGGCCGTGTGGACATTCGAAATAGGGACACATGGCCGTGTCCCAGCCCATGTTCGTGCCCATGT
1111526 AACTCACTGACTTGTGACACATGGCCAAAGTTGCAAGG
66 AACTCACTGACTTGTGACACATGGCCAAAGTTGCAAGG
1111564 GCGGCCGTGTGGACATTCGAAATAGGGACACATGGCCGTGTCCCAGCCCATGTTCGTGCCCATGT
1 GCGGCCGTGTGGACATTCGAAATAGGGACACATGGCCGTGTCCCAGCCCATGTTCGTGCCCATGT
1111629 AACTCACTGACTTGTGACACATGGCCAA
66 AACTCACTGACTTGTGACACATGGCCAA
1111657 GCCATATGCT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.21
Consensus pattern (103 bp):
GCGGCCGTGTGGACATTCGAAATAGGGACACATGGCCGTGTCCCAGCCCATGTTCGTGCCCATGT
AACTCACTGACTTGTGACACATGGCCAAAGTTGCAAGG
Found at i:1112723 original size:24 final size:22
Alignment explanation
Indices: 1112682--1112725 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
1112672 CATTATTCCA
*
1112682 ATTTCATATACATGTATCATAT
1 ATTTCATATACATATATCATAT
1112704 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
1112726 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTCATATACATATATCATAT
Found at i:1112982 original size:25 final size:24
Alignment explanation
Indices: 1112954--1113031 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 24
1112944 TCATACGAGT
1112954 TGAATATTGTTAAGCTCTCTTGAGC
1 TGAATATTG-TAAGCTCTCTTGAGC
* *
1112979 TGAATATTAGAAAGCTCAT-GTGAGC
1 TGAATATT-GTAAGCTC-TCTTGAGC
* * *
1113004 TAAATATCGGTAAGCTCTCTCGAGC
1 TGAATAT-TGTAAGCTCTCTTGAGC
1113029 TGA
1 TGA
1113032 GAATCGGTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
24 1 0.02
25 38 0.93
26 2 0.05
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (24 bp):
TGAATATTGTAAGCTCTCTTGAGC
Found at i:1117011 original size:52 final size:52
Alignment explanation
Indices: 1116949--1117051 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
1116939 GCCAAAGACC
*
1116949 ATCCATGGTTAAAGCTGCCCATGAAGAAGACAAATACCAACAAAATTTGGAT
1 ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGAT
1117001 ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGA
1 ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGA
1117052 CAGACTTAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.20
Consensus pattern (52 bp):
ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGAT
Found at i:1118164 original size:30 final size:31
Alignment explanation
Indices: 1118128--1118186 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
1118118 TTCGAGCTTG
1118128 GGGACAAAAAT-GTAATTATG-CAAAAGTTTA
1 GGGAC-AAAATCGTAATTATGACAAAAGTTTA
*
1118158 GGGACAAAATCGTAATTTTGACAAAAGTT
1 GGGACAAAATCGTAATTATGACAAAAGTT
1118187 GAGTCGAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 5 0.19
30 13 0.50
31 8 0.31
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.27
Consensus pattern (31 bp):
GGGACAAAATCGTAATTATGACAAAAGTTTA
Found at i:1127503 original size:20 final size:20
Alignment explanation
Indices: 1127478--1127530 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1127468 AAGTTTATGC
*
1127478 TAAGTAAATTGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
* *
1127498 TAAGTAAATGGAATGGTAAT
1 TAAGTAAATGGAATGGAAAG
1127518 TAAGTAAATGGAA
1 TAAGTAAATGGAA
1127531 CGGTTCTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.25, T:0.26
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:1138426 original size:89 final size:89
Alignment explanation
Indices: 1138213--1138562 Score: 402
Period size: 89 Copynumber: 3.9 Consensus size: 89
1138203 AAGGTTGGTG
* * * ** *
1138213 TCTTCGATCTGCTTTGTTGCCAGTACAAGAAGACAAGATCTGCTATCTTCAGTCTACTCCGCTGC
1 TCTTCGATCTACTTCGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
** * * * * *
1138278 AACTTAGGGAGATAAGACTAG-TG
66 TTCTCAGAGAGATAAGGCTGGCTA
* *
1138301 TCTTCGATCTACTTCGCTACCAGTAC-AGAAAGACAAGACCTGCTATCTTCAACCTACTCCACTG
1 TCTTCGATCTACTTCGCTGCCAGTACAAG-AAGACAAGATCTGCTATCTTCAACCTACTCCACTG
1138365 CTTCTCAGAGAGATAAGGCTGGCTA
65 CTTCTCAGAGAGATAAGGCTGGCTA
* * * * *
1138390 TCTTCGATCTGCTTCGCTGCCAATACAGGAAGACAAGATTTGCTATCTTCAACCTATTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
* *
1138455 TTCACA-AGGAGATAAGGCTGACTA
66 TTCTCAGA-GAGATAAGGCTGGCTA
* * * *
1138479 TCTTTGATCTACTTTGCTGCCAGTACAAGAAGACAAGATCTGCTATTTTCAATCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
*
1138544 TGT-TCAGGGAGATAAGGCT
66 T-TCTCAGAGAGATAAGGCT
1138563 TTGTGGTTTC
Statistics
Matches: 221, Mismatches: 35, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
87 2 0.01
88 70 0.32
89 147 0.67
90 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTACTTCGCTGCCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
TTCTCAGAGAGATAAGGCTGGCTA
Found at i:1138543 original size:178 final size:177
Alignment explanation
Indices: 1138213--1138562 Score: 443
Period size: 178 Copynumber: 2.0 Consensus size: 177
1138203 AAGGTTGGTG
* * * ** *
1138213 TCTTCGATCTGCTTTGTTGCCAGTACAAGAAGACAAGATCTGCTATCTTCAGTCTACTCCGCTGC
1 TCTTCGATCTGCTTCGCTGCCAATACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
** * * *
1138278 AACTTAGGGAGATAAGACTAGTGTCTTCGATCTACTTCGCTACCAGTACAGAAAGACAAGACCTG
66 AACACAAGGAGATAAGACTACTATCTTCGATCTACTTCGCTACCAGTACAGAAAGACAAGACCTG
1138343 CTATCTTCAACCTACTCCACTGCT-TCTCAGAGAGATAAGGCTGGCTA
131 CTATCTTCAACCTACTCCACTGCTGT-TCAGAGAGATAAGGCTGGCTA
* * *
1138390 TCTTCGATCTGCTTCGCTGCCAATACAGGAAGACAAGATTTGCTATCTTCAACCTATTCCACTGC
1 TCTTCGATCTGCTTCGCTGCCAATACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
** * * * * *
1138455 TTCACAAGGAGATAAGGCTGACTATCTTTGATCTACTTTGCTGCCAGTACA-AGAAGACAAGATC
66 AACACAAGGAGATAAGACT-ACTATCTTCGATCTACTTCGCTACCAGTACAGA-AAGACAAGACC
* * *
1138519 TGCTATTTTCAATCTACTCCACTGCTGTTCAGGGAGATAAGGCT
129 TGCTATCTTCAACCTACTCCACTGCTGTTCAGAGAGATAAGGCT
1138563 TTGTGGTTTC
Statistics
Matches: 146, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
177 70 0.48
178 75 0.51
179 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (177 bp):
TCTTCGATCTGCTTCGCTGCCAATACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
AACACAAGGAGATAAGACTACTATCTTCGATCTACTTCGCTACCAGTACAGAAAGACAAGACCTG
CTATCTTCAACCTACTCCACTGCTGTTCAGAGAGATAAGGCTGGCTA
Found at i:1151177 original size:48 final size:48
Alignment explanation
Indices: 1151091--1151232 Score: 176
Period size: 48 Copynumber: 3.0 Consensus size: 48
1151081 GATTTCTCGA
* * * * ** * *
1151091 TGGCCTATACATAGTCCGTACCACCTTTGTGTAATAACAGACTCTCAG
1 TGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATCAG
**
1151139 TGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATTGG
1 TGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATCAG
* *
1151187 TGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATC
1 TGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATC
1151233 GGTACGCATA
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
TGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATCAG
Found at i:1156811 original size:48 final size:48
Alignment explanation
Indices: 1156741--1156939 Score: 218
Period size: 48 Copynumber: 4.1 Consensus size: 48
1156731 AAAACATATT
* * * * *
1156741 TCTCGGTGGCCTATACACAGTCCGTACCACCTTTGTGTAATAACAGAC
1 TCTCGGTGGCCTACACACAGTCCGTGCCACCCTTGTATAATAACAGAA
* **
1156789 TCTCGGTGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAA
1 TCTCGGTGGCCTACACACAGTCCGTGCCACCCTTGTATAATAACAGAA
* * * * **
1156837 TATTGGTGGCCTGCACACAGTCCGTGCCACCCTTATATCTTAACAGAA
1 TCTCGGTGGCCTACACACAGTCCGTGCCACCCTTGTATAATAACAGAA
* * * **
1156885 TATTGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAA
1 TCTCGGTGGCCTACACACAGTCCGTGCCACCCTTGTATAATAACAGAA
*
1156933 TATCGGT
1 TCTCGGT
1156940 ACGCATAGTA
Statistics
Matches: 136, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 136 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
TCTCGGTGGCCTACACACAGTCCGTGCCACCCTTGTATAATAACAGAA
Found at i:1162070 original size:15 final size:16
Alignment explanation
Indices: 1162039--1162071 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1162029 AGTGCTTTTC
*
1162039 AAAAGCACTTTTGAAA
1 AAAAGCACTTCTGAAA
1162055 AAAAGCACTTCT-AAA
1 AAAAGCACTTCTGAAA
1162070 AA
1 AA
1162072 GGAGAAGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAAGCACTTCTGAAA
Found at i:1162559 original size:13 final size:13
Alignment explanation
Indices: 1162543--1162595 Score: 97
Period size: 13 Copynumber: 4.1 Consensus size: 13
1162533 TTTAAACCAA
1162543 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
1162556 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
1162569 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
1162582 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
1162595 A
1 A
1162596 TTGCCAAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:1162939 original size:41 final size:42
Alignment explanation
Indices: 1162882--1162968 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 42
1162872 TAGCTAAACG
1162882 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA-
1 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTAT
*
1162923 ATATTTTATATGAAATGTGATTGAAATTGGTATACTATGTAT
1 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTAT
1162965 ATAT
1 ATAT
1162969 GTACATGAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 40 0.91
42 4 0.09
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (42 bp):
ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTAT
Found at i:1162977 original size:41 final size:41
Alignment explanation
Indices: 1162891--1162981 Score: 141
Period size: 41 Copynumber: 2.2 Consensus size: 41
1162881 GATATTTGAT
* *
1162891 ATGAAATGTGATTGAAATTGGTATACTATGTAATATTTTAT
1 ATGAAATGTGATTGAAATTGGTATACTATGTAATATTGTAC
1162932 ATGAAATGTGATTGAAATTGGTATACTATGT-ATATATGTAC
1 ATGAAATGTGATTGAAATTGGTATACTATGTAATAT-TGTAC
1162973 ATG-AATGTG
1 ATGAAATGTG
1162982 GAAAATTACA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
40 10 0.21
41 37 0.79
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (41 bp):
ATGAAATGTGATTGAAATTGGTATACTATGTAATATTGTAC
Found at i:1164111 original size:75 final size:75
Alignment explanation
Indices: 1164025--1164249 Score: 369
Period size: 75 Copynumber: 3.0 Consensus size: 75
1164015 GAAAAACGAA
* *
1164025 GATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAAGAAATTATATTCTTTCCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
*
1164090 AAGATTATTG
66 AAGAATATTG
* *
1164100 TATTATTCCCTTATTAATAAAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
1164165 AAGAATATTG
66 AAGAATATTG
* * *
1164175 GATTATTCCCTAATTAATAGAAAAGACAAATGGAAAGTTAGAAAAAAGGAATTACATTCTTTCCA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAG-AAAAAGGAATTATATTCTTTCCA
1164240 AAAGAATATT
65 AAAGAATATT
1164250 AATTTTCATA
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
75 107 0.77
76 32 0.23
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (75 bp):
GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
AAGAATATTG
Found at i:1164470 original size:138 final size:138
Alignment explanation
Indices: 1164224--1164644 Score: 650
Period size: 138 Copynumber: 3.1 Consensus size: 138
1164214 AGAAAAAAGG
* * * *
1164224 AATTACATTCTTTCCAAAAGAATATTAATTTTCATATC--TTGTATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
*
1164287 TATAACTGTGTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
1164352 CATATATT
131 CATATATT
1164360 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
** *
1164425 TGCAACTGTTTATATTAATAAGA-TCAGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAA-ATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
1164489 TCATATATT
130 TCATATATT
* * * *
1164498 AGTTATATTCCTTCTAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
* * * * * *
1164563 TATAACTATTTATATTAATAAATTTGGTTAAACATATACAATAAATATTTTGTATGAATCAAATG
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
1164628 CATATATT
131 CATATATT
1164636 AATTATATT
1 AATTATATT
1164645 TATGTTCTCT
Statistics
Matches: 259, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
136 36 0.14
137 1 0.00
138 221 0.85
139 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.43
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:1166683 original size:14 final size:14
Alignment explanation
Indices: 1166664--1166690 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1166654 CATTTCTTGG
1166664 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
1166678 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
1166691 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:1177342 original size:27 final size:27
Alignment explanation
Indices: 1177304--1177499 Score: 193
Period size: 27 Copynumber: 7.3 Consensus size: 27
1177294 GCAAGTGATC
* *
1177304 GAAATACCCTCGAAGGGTAAAATAACT
1 GAAATACCCTCAAAGGGTAAAATGACT
* *
1177331 GAAATACCCTCGAAGGGTAAAATGACC
1 GAAATACCCTCAAAGGGTAAAATGACT
* ** * *
1177358 AAAATATCCC-CAAAATGTAAAATAACC
1 GAAATA-CCCTCAAAGGGTAAAATGACT
* * *
1177385 AAAATACCTTTAAAGGGTAAAATGACT
1 GAAATACCCTCAAAGGGTAAAATGACT
* *
1177412 GAAATACCCT-TAAGGGTAAAATGATT
1 GAAATACCCTCAAAGGGTAAAATGACT
1177438 GAAATAACCC-CAAAGGGTAAAATGACT
1 GAAAT-ACCCTCAAAGGGTAAAATGACT
* *
1177465 GAAA-ACCCTCATAGGGTAAAATGGCT
1 GAAATACCCTCAAAGGGTAAAATGACT
*
1177491 GATATACCC
1 GAAATACCC
1177500 CTAAGAGATG
Statistics
Matches: 141, Mismatches: 22, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
25 4 0.03
26 39 0.28
27 95 0.67
28 3 0.02
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (27 bp):
GAAATACCCTCAAAGGGTAAAATGACT
Found at i:1177514 original size:53 final size:53
Alignment explanation
Indices: 1177304--1177516 Score: 148
Period size: 53 Copynumber: 4.0 Consensus size: 53
1177294 GCAAGTGATC
* * * *
1177304 GAAATACCCTCGAAGGGTAAAATAACTGAAAT-ACCCTCGAAGGGTAAAATGACC
1 GAAATACCCTC-AAGGGTAAAATGACTGAAATAACCC-CAAAGGATAAAATGACT
* ** * ** ** *
1177358 AAAATATCCC-CAAAATGTAAAATAACCAAAAT-ACCTTTAAAGGGTAAAATGACT
1 GAAATA-CCCTC-AAGGGTAAAATGACTGAAATAACC-CCAAAGGATAAAATGACT
* * *
1177412 GAAATACCCTTAAGGGTAAAATGATTGAAATAACCCCAAAGGGTAAAATGACT
1 GAAATACCCTCAAGGGTAAAATGACTGAAATAACCCCAAAGGATAAAATGACT
* * * *
1177465 GAAA-ACCCTCATAGGGTAAAATGGCTGATAT-ACCCCTAAGAGATGAAATGAC
1 GAAATACCCTCA-AGGGTAAAATGACTGAAATAACCCCAAAG-GATAAAATGAC
1177517 CATTATAGCC
Statistics
Matches: 126, Mismatches: 27, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
52 14 0.11
53 62 0.49
54 47 0.37
55 3 0.02
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (53 bp):
GAAATACCCTCAAGGGTAAAATGACTGAAATAACCCCAAAGGATAAAATGACT
Found at i:1187166 original size:50 final size:50
Alignment explanation
Indices: 1187086--1187185 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
1187076 ACTAGCCCGC
** *
1187086 CTCGGTGTTAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCAT
1 CTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
*
1187136 CTCGGTGCCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCAT
1 CTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
1187186 AATCTCAATG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (50 bp):
CTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
Found at i:1188856 original size:51 final size:51
Alignment explanation
Indices: 1188758--1189046 Score: 293
Period size: 51 Copynumber: 5.6 Consensus size: 51
1188748 NNNNNNNACA
* * * * * *
1188758 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGA-GAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAAC-TTGGTCACG
* * * *
1188809 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA-ACTTGGTCACG
* * *
1188860 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACC-A-AAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAA-C-TTGGTCACG
* *
1188911 TGTGTAGTACTATGTGAAGGCTACTACATGAACCG-TAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACTTGGTCACG
* *
1188961 TGTGTAGTACTATGTGAAGGCGAAGGCTACTACTTGAACCG-TAAAACTTGATCACG
1 TGTGTAGTACTATGT------GAAGGCTACTACGTGAACCGATAAAACTTGGTCACG
1189017 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
1189047 TATCGAATGA
Statistics
Matches: 201, Mismatches: 24, Indels: 27
0.80 0.10 0.11
Matches are distributed among these distances:
48 1 0.00
49 3 0.01
50 38 0.19
51 104 0.52
52 6 0.03
56 49 0.24
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACTTGGTCACG
Found at i:1188931 original size:102 final size:102
Alignment explanation
Indices: 1188755--1189052 Score: 354
Period size: 102 Copynumber: 2.9 Consensus size: 102
1188745 NNNNNNNNNN
* * *
1188755 ACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACT
1 ACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCAAAAAGCTTTGGTCACGTGTGTAGTACT
* *
1188820 GTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTC
66 ATGTGAAGGCTACTACGTGAATCGATAAA-ACATGATC
1188857 ACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCAAAAAGCTTTGGTCACGTGTGTAGTACT
1 ACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCAAAAAGCTTTGGTCACGTGTGTAGTACT
* * *
1188922 ATGTGAAGGCTACTACATGAACCG-TAAAACTTGATC
66 ATGTGAAGGCTACTACGTGAATCGATAAAACATGATC
* * * * *
1188958 ACGTGTGTAGTACTATGTGAAGGCGAAGGCTACTACT-TGAACCGTAAAA-C-TTGATCACGTGT
1 ACATGTGTAGTAC----T-AA-GTGAAGGCTACTA-TGTGTACC-AAAAAGCTTTGGTCACGTGT
*
1189020 GTAGTACTATGTGAAGGCTACTACGTGTATCGA
58 GTAGTACTATGTGAAGGCTACTACGTGAATCGA
1189053 ATGATAAAAG
Statistics
Matches: 170, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
100 1 0.01
101 20 0.12
102 83 0.49
105 1 0.01
106 42 0.25
107 18 0.11
108 5 0.03
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
ACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCAAAAAGCTTTGGTCACGTGTGTAGTACT
ATGTGAAGGCTACTACGTGAATCGATAAAACATGATC
Found at i:1189012 original size:56 final size:56
Alignment explanation
Indices: 1188926--1189037 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
1188916 AGTACTATGT
1188926 GAAGGCTACTACATGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGC
1 GAAGGCTACTACATGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGC
*
1188982 GAAGGCTACTACTTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGC
1 GAAGGCTACTACATGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGC
1189038 TACTACGTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (56 bp):
GAAGGCTACTACATGAACCGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGGC
Found at i:1195686 original size:102 final size:101
Alignment explanation
Indices: 1195507--1195850 Score: 451
Period size: 102 Copynumber: 3.4 Consensus size: 101
1195497 TATCGATGAA
* * * *
1195507 CACGTGTGTAGTACTGTGTGAAGGCTACTACCTGTATTGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
1195572 TAAGTGAAGGCTACAATGTCTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* * *
1195609 CATGTGTGTAGTACTCTATGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
1195674 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* * * * *
1195711 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTACTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTA
* * * *
1195774 CTATGTGAAGGCTACTATGTGAACCGTAAAAC-TTGAT
65 CTAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* *
1195811 CACGTGTGTAGTGCTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
1195851 ATGATAAAAG
Statistics
Matches: 215, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
100 41 0.19
101 46 0.21
102 127 0.59
103 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:1195777 original size:50 final size:50
Alignment explanation
Indices: 1195507--1195844 Score: 315
Period size: 51 Copynumber: 6.7 Consensus size: 50
1195497 TATCGATGAA
* * * ** * *
1195507 CACGTGTGTAGTACTGTGTGAAGGCTACTACCTGTATTGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
* * * * ** * *
1195558 CACATGTGTAGTACTAAGTGAAGGCTACAATGTCTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGAT
* * * * * *
1195609 CATGTGTGTAGTACTCTATGAAGGCTACTACGTGAATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
* * * * *
1195660 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
1195711 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* *
1195761 CACGTGTGTACTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
*
1195811 CACGTGTGTAGTGCTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1195845 TATCGAATGA
Statistics
Matches: 235, Mismatches: 42, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.00
49 4 0.02
50 85 0.36
51 138 0.59
52 6 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:1202661 original size:18 final size:18
Alignment explanation
Indices: 1202628--1202676 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
1202618 GGGCTTGACC
* *
1202628 TTGCCATTGTCCTTAGGCT
1 TTGCCTTTG-CCTTAGCCT
1202647 TTGCCTTTGCCTTAGCCT
1 TTGCCTTTGCCTTAGCCT
*
1202665 TAGCCTTT-CCTT
1 TTGCCTTTGCCTT
1202677 TGCCCTTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 4 0.15
18 15 0.56
19 8 0.30
ACGTcount: A:0.08, C:0.31, G:0.16, T:0.45
Consensus pattern (18 bp):
TTGCCTTTGCCTTAGCCT
Found at i:1207543 original size:22 final size:22
Alignment explanation
Indices: 1207518--1207561 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1207508 AAATTAAATC
*
1207518 AAAATTTATGAAAATTTAATAT
1 AAAATTAATGAAAATTTAATAT
*
1207540 AAAATTAATTAAAATTTAATAT
1 AAAATTAATGAAAATTTAATAT
1207562 GTTAACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATTAATGAAAATTTAATAT
Found at i:1207558 original size:11 final size:11
Alignment explanation
Indices: 1207508--1207559 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
1207498 AAATCTGTCG
* *
1207508 AAATTAAATCA
1 AAATTTAATTA
*
1207519 AAATTT-ATGA
1 AAATTTAATTA
1207529 AAATTTAATATA
1 AAATTTAAT-TA
1207541 AAA-TTAATTA
1 AAATTTAATTA
1207551 AAATTTAAT
1 AAATTTAAT
1207560 ATGTTAACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 14 0.40
11 17 0.49
12 4 0.11
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
AAATTTAATTA
Found at i:1210674 original size:5 final size:5
Alignment explanation
Indices: 1210664--1210701 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
1210654 GTAATTAGTT
1210664 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AAT
1210702 CAAAATGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:1221446 original size:6 final size:6
Alignment explanation
Indices: 1221435--1221509 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
1221425 AAACCATTCT
1221435 TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC
1 TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC
1221483 TTTTCC TTTTCC TTTTCC TTTTCC TTT
1 TTTTCC TTTTCC TTTTCC TTTTCC TTT
1221510 ACATCGATGC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTCC
Found at i:1226616 original size:144 final size:144
Alignment explanation
Indices: 1226341--1226618 Score: 342
Period size: 144 Copynumber: 1.9 Consensus size: 144
1226331 TTTAGGGTGG
* * * * *
1226341 CAAGCTTAACTCAATTTACTCAAATAAATGAAGGTTGTGAGTATAACTCATTTAACTTTTAAACA
1 CAAGCTTAACTCAACTTACTCAAATAAATAAAGGTTGTAAGTATAACTCATCTAACCTTTAAACA
* * * * **
1226406 TTGGCTGGGAGAGTAAGACCGCGAGCTATGTTGAAGTTTATCAGCTGGAAGAGTAGGTCTGCGAG
66 TAGGCTGAGAGAGTAAGACCACGAGCTATGTTGAAGTTTATCAGCTGGAAGAGTAGATCCACGAG
1226471 CTGTTCTAGAGTAA
131 CTGTTCTAGAGTAA
* *
1226485 CAAGCTTAACTCAGCTTACTCAAATAAATAAAGGTTTTAAGTATAACTCATCTAACCTTTAAACA
1 CAAGCTTAACTCAACTTACTCAAATAAATAAAGGTTGTAAGTATAACTCATCTAACCTTTAAACA
* * ** * * * * *
1226550 TCAGTCT-AGAGCGTAAGTTCACGAGCTGTGTTGAAGTTTTTCAGCTGGGAGCGTAGATCCATGA
66 T-AGGCTGAGAGAGTAAGACCACGAGCTATGTTGAAGTTTATCAGCTGGAAGAGTAGATCCACGA
1226614 GCTGT
130 GCTGT
1226619 CAGCTGGGAG
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
144 108 0.97
145 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (144 bp):
CAAGCTTAACTCAACTTACTCAAATAAATAAAGGTTGTAAGTATAACTCATCTAACCTTTAAACA
TAGGCTGAGAGAGTAAGACCACGAGCTATGTTGAAGTTTATCAGCTGGAAGAGTAGATCCACGAG
CTGTTCTAGAGTAA
Found at i:1226643 original size:28 final size:28
Alignment explanation
Indices: 1226590--1226644 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
1226580 TTGAAGTTTT
* *
1226590 TCAGCTGGGAGCGTAGATCCATGAGCTG
1 TCAGCTGGGAGCATAGATCCACGAGCTG
* *
1226618 TCAGCTGGGAGCATAGGTCCGCGAGCT
1 TCAGCTGGGAGCATAGATCCACGAGCT
1226645 ATTCCAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.36, T:0.20
Consensus pattern (28 bp):
TCAGCTGGGAGCATAGATCCACGAGCTG
Found at i:1226852 original size:104 final size:104
Alignment explanation
Indices: 1226618--1226854 Score: 357
Period size: 104 Copynumber: 2.3 Consensus size: 104
1226608 CCATGAGCTG
* *
1226618 TCAGCTGGGAGCATAGGTCCGCGAGCTATTCCAAAGTAGCGAGCTTAACGCAGCTTACTCAAATA
1 TCAGCTGGGAACATAGGTCCGCGAGCTATTCCAAAGTAGCAAGCTTAACGCAGCTTACTCAAATA
1226683 AATGAAGGTTGTGAGTATAACTCATCTAACCTTTAAACA
66 AATGAAGGTTGTGAGTATAACTCATCTAACCTTTAAACA
* * ** * * * * *
1226722 TCAACTGGGAACGTAATTCTGTGAGCTGTTCCAGAGTAGCAAGCTTAACTCAGCTTACTCAAATA
1 TCAGCTGGGAACATAGGTCCGCGAGCTATTCCAAAGTAGCAAGCTTAACGCAGCTTACTCAAATA
* *
1226787 AATGAATGTTTTGAGTATAACTCATCTAACCTTTAAACA
66 AATGAAGGTTGTGAGTATAACTCATCTAACCTTTAAACA
1226826 TCAGCTGGGAACATAGGTCCGCGAGCTAT
1 TCAGCTGGGAACATAGGTCCGCGAGCTAT
1226855 GTTGACAAAC
Statistics
Matches: 113, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 113 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (104 bp):
TCAGCTGGGAACATAGGTCCGCGAGCTATTCCAAAGTAGCAAGCTTAACGCAGCTTACTCAAATA
AATGAAGGTTGTGAGTATAACTCATCTAACCTTTAAACA
Found at i:1228464 original size:20 final size:20
Alignment explanation
Indices: 1228439--1228480 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1228429 GCTACGATTG
1228439 AATGACACTTCTTCAGAACT
1 AATGACACTTCTTCAGAACT
1228459 AATGACACTTCTTCAGAACT
1 AATGACACTTCTTCAGAACT
1228479 AA
1 AA
1228481 CTCTTTCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (20 bp):
AATGACACTTCTTCAGAACT
Found at i:1229169 original size:197 final size:198
Alignment explanation
Indices: 1228822--1229218 Score: 787
Period size: 197 Copynumber: 2.0 Consensus size: 198
1228812 GTTCGGGACC
1228822 AAACCGAGAACTTTTGAAAACTTTGAAAATTTTCTTGAAAAACAAGGGCACACGTCCTGAGCACA
1 AAACCGAGAACTTTTGAAAACTTTGAAAATTTTCTTGAAAAACAAGGGCACACGTCCTGAGCACA
1228887 TGGCCATGTGGCCAGCCGTGTGGATGAAAGTTAGGATATTTACCAAGCCCTTTTCCATCCAAAAA
66 TGGCCATGTGGCCAGCCGTGTGGATGAAAGTTAGGATATTTACCAAGCCCTTTTCCATCCAAAAA
1228952 TTTACACACTTATACCAAATTTATCAACACACAACATGGCATTATCATAAACATACAACTTAACC
131 TTTACACACTTATACCAAATTTATCAACACACAACATGGCATTATCATAAACATACAACTTAACC
1229017 AAT
196 AAT
1229020 AAACCGAGAAC-TTTGAAAACTTTGAAAATTTTCTTGAAAAACAAGGGCACACGTCCTGAGCACA
1 AAACCGAGAACTTTTGAAAACTTTGAAAATTTTCTTGAAAAACAAGGGCACACGTCCTGAGCACA
1229084 TGGCCATGTGGCCAGCCGTGTGGATGAAAGTTAGGATATTTACCAAGCCCTTTTCCATCCAAAAA
66 TGGCCATGTGGCCAGCCGTGTGGATGAAAGTTAGGATATTTACCAAGCCCTTTTCCATCCAAAAA
1229149 TTTACACACTTATACCAAATTTATCAACACACAACATGGCATTATCATAAACATACAACTTAACC
131 TTTACACACTTATACCAAATTTATCAACACACAACATGGCATTATCATAAACATACAACTTAACC
1229214 AAT
196 AAT
1229217 AA
1 AA
1229219 TAGCCAACAT
Statistics
Matches: 199, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
197 188 0.94
198 11 0.06
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (198 bp):
AAACCGAGAACTTTTGAAAACTTTGAAAATTTTCTTGAAAAACAAGGGCACACGTCCTGAGCACA
TGGCCATGTGGCCAGCCGTGTGGATGAAAGTTAGGATATTTACCAAGCCCTTTTCCATCCAAAAA
TTTACACACTTATACCAAATTTATCAACACACAACATGGCATTATCATAAACATACAACTTAACC
AAT
Found at i:1236285 original size:30 final size:30
Alignment explanation
Indices: 1236250--1236308 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
1236240 TATTTTATTG
*
1236250 TTAATTTTTTTATTATTTTAAAGACATTTA
1 TTAATTTTGTTATTATTTTAAAGACATTTA
* *
1236280 TTAATTTTGTTATTATTTTAGAGGCATTT
1 TTAATTTTGTTATTATTTTAAAGACATTT
1236309 GCTTGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.59
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTA
Found at i:1243249 original size:14 final size:14
Alignment explanation
Indices: 1243227--1243256 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1243217 GAGAATCTAC
*
1243227 AAAGTAAAAAAAAG
1 AAAGAAAAAAAAAG
1243241 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
1243255 AA
1 AA
1243257 CTTTTTCGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:1245093 original size:124 final size:125
Alignment explanation
Indices: 1244949--1245219 Score: 370
Period size: 124 Copynumber: 2.2 Consensus size: 125
1244939 TTTTTTCGAG
* * * ** * *
1244949 TTGACGTTTCTG-GTTAAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTAGAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* *
1245013 GAAATAGTGGCCTCGTGGACGCGATTTCGCTACAG-TGGTCATGT-GAGAAATAA-TTTTTT
65 GAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAG-GAAATAATTTTTTT
* * *
1245072 TTGACGTTTTCTGAGGAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTAGAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
*
1245137 GAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTT
65 GAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTT
1245198 TTGACGTTTCTGAGCAAATAGT
1 TTGACGTTTCTGAGCAAATAGT
1245220 NNNNNNNNNN
Statistics
Matches: 130, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
123 6 0.05
124 79 0.61
125 32 0.25
126 13 0.10
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTAGAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTG
AAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTT
Found at i:1250044 original size:27 final size:26
Alignment explanation
Indices: 1249986--1250056 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
1249976 AAGTTAATAT
* *
1249986 TTTTACTATTA-AATATTATTTTTTAA
1 TTTTAC-ATTATAATATAATTATTTAA
1250012 TATTTACATTATAATATAATATATTTAA
1 T-TTTACATTATAATATAAT-TATTTAA
1250040 TTTT--A-TATAATATAATT
1 TTTTACATTATAATATAATT
1250057 TACATAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 1 0.03
24 11 0.28
25 1 0.03
26 5 0.12
27 15 0.38
28 7 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTACATTATAATATAATTATTTAA
Found at i:1250047 original size:19 final size:21
Alignment explanation
Indices: 1250011--1250080 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 21
1250001 TTATTTTTTA
1250011 ATATTTACATTATAATATAAT
1 ATATTTACATTATAATATAAT
*
1250032 ATATTTA-ATT-TTATATAAT
1 ATATTTACATTATAATATAAT
1250051 ATAATTTACA-TA-AA-ATAAT
1 AT-ATTTACATTATAATATAAT
1250070 ATAATTTACAT
1 AT-ATTTACAT
1250081 AAAATATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
19 25 0.58
20 10 0.23
21 8 0.19
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTTACATTATAATATAAT
Found at i:1250081 original size:19 final size:19
Alignment explanation
Indices: 1250046--1250086 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
1250036 TTAATTTTAT
1250046 ATAATATAATTTACATAAA
1 ATAATATAATTTACATAAA
1250065 ATAATATAATTTACATAAA
1 ATAATATAATTTACATAAA
1250084 ATA
1 ATA
1250087 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATATAATTTACATAAA
Found at i:1250704 original size:30 final size:31
Alignment explanation
Indices: 1250637--1250704 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
1250627 ATATTTATTT
*
1250637 ATTTTTTAAATTTTAAAATATTTTTAAAATAC
1 ATTTTTTAAATTTT-AAATATTTTTAAAATAA
* **
1250669 TTTTTTTAAATTTT-TTTATTTTTAAAATAA
1 ATTTTTTAAATTTTAAATATTTTTAAAATAA
1250699 ATTTTT
1 ATTTTT
1250705 AGTGTTTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 18 0.58
32 13 0.42
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (31 bp):
ATTTTTTAAATTTTAAATATTTTTAAAATAA
Found at i:1251277 original size:15 final size:16
Alignment explanation
Indices: 1251252--1251282 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1251242 TGAGTGAGTT
1251252 TTTTATTATATTTTAA
1 TTTTATTATATTTTAA
1251268 TTTT-TTATATTTTAA
1 TTTTATTATATTTTAA
1251283 ATGTGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTATATTTTAA
Found at i:1251352 original size:18 final size:18
Alignment explanation
Indices: 1251329--1251363 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1251319 TTTTTTAAAG
1251329 AAAAAAT-TTAAAATTTTT
1 AAAAAATGTT-AAATTTTT
1251347 AAAAAATGTTAAATTTT
1 AAAAAATGTTAAATTTT
1251364 ACTTTCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAAAAATGTTAAATTTTT
Found at i:1251903 original size:11 final size:12
Alignment explanation
Indices: 1251870--1251897 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1251860 CGGCCCACCC
1251870 ATATTAATTTTT
1 ATATTAATTTTT
1251882 ATATTAATTTTT
1 ATATTAATTTTT
1251894 ATAT
1 ATAT
1251898 AGTTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:1252513 original size:22 final size:22
Alignment explanation
Indices: 1252488--1252530 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1252478 TATCCAAACA
1252488 ATAAAAACAAAATAGTAGCAAC
1 ATAAAAACAAAATAGTAGCAAC
* **
1252510 ATAATAGTAAAATAGTAGCAA
1 ATAAAAACAAAATAGTAGCAA
1252531 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAAAAACAAAATAGTAGCAAC
Found at i:1252534 original size:11 final size:11
Alignment explanation
Indices: 1252495--1252535 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
1252485 ACAATAAAAA
1252495 CAAAATAGTAG
1 CAAAATAGTAG
* *
1252506 CAACATAATAG
1 CAAAATAGTAG
*
1252517 TAAAATAGTAG
1 CAAAATAGTAG
1252528 CAAAATAG
1 CAAAATAG
1252536 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:1254343 original size:18 final size:18
Alignment explanation
Indices: 1254278--1254358 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
1254268 TTATTTTTTC
*
1254278 TTATTATTAA-TACTATTA
1 TTATTA-TAATTACAATTA
* * * *
1254296 ATATTATTATTGCCATTA
1 TTATTATAATTACAATTA
*
1254314 TTATTATAATTATAATTA
1 TTATTATAATTACAATTA
* * *
1254332 TTATTTTCATTACCATTA
1 TTATTATAATTACAATTA
1254350 TTATATATA
1 TTAT-TATA
1254359 TTTAGTTATT
Statistics
Matches: 46, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
17 2 0.04
18 42 0.91
19 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.54
Consensus pattern (18 bp):
TTATTATAATTACAATTA
Found at i:1254353 original size:3 final size:3
Alignment explanation
Indices: 1254129--1254336 Score: 149
Period size: 3 Copynumber: 70.7 Consensus size: 3
1254119 CTTTGTCCTT
*
1254129 TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
1254177 TTA CTA GTA TTA TTA TTA GTT- TTA TTG CTA TT- TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * ** * * *
1254221 ACA TCA TTA TTA GAA TTA TTA TTA ATG TTA TTA CTA TTTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * * * * **
1254266 TT- TTA TT- TT- TTC TTA TTA TTA ATA CTA TTA ATA TTA TTA TTG CCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1254311 TTA TTA TTA TAA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1254337 TTCATTACCA
Statistics
Matches: 157, Mismatches: 41, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
2 12 0.08
3 141 0.90
4 4 0.03
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1259520 original size:19 final size:19
Alignment explanation
Indices: 1259496--1259542 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1259486 AACATCTCTT
*
1259496 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
1259515 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
1259534 TATGCATTA
1 TTTGCATTA
1259543 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:1262340 original size:17 final size:17
Alignment explanation
Indices: 1262318--1262357 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1262308 AAAAAATAGG
*
1262318 GAAAAAAATAAACAAAT
1 GAAAAAAATAAAAAAAT
1262335 GAAAAAAATAAAAAAAT
1 GAAAAAAATAAAAAAAT
1262352 -AAAAAA
1 GAAAAAA
1262358 CAAAAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (17 bp):
GAAAAAAATAAAAAAAT
Found at i:1262347 original size:8 final size:8
Alignment explanation
Indices: 1262319--1262357 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
1262309 AAAAATAGGG
1262319 AAAAAAAT
1 AAAAAAAT
*
1262327 AAACAAAT
1 AAAAAAAT
1262335 GAAAAAAAT
1 -AAAAAAAT
1262344 AAAAAAAT
1 AAAAAAAT
1262352 AAAAAA
1 AAAAAA
1262358 CAAAAAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:1262767 original size:17 final size:17
Alignment explanation
Indices: 1262740--1262772 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
1262730 AATGTTTCAT
1262740 AAAAAAGAAAGGAAAAAC
1 AAAAAAGAAA-GAAAAAC
1262758 AAAAAA-AAAGAAAAA
1 AAAAAAGAAAGAAAAA
1262773 AAATGAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAGAAAAAC
Found at i:1262773 original size:17 final size:18
Alignment explanation
Indices: 1262740--1262773 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1262730 AATGTTTCAT
*
1262740 AAAAAAGAAAGGAAAAAC
1 AAAAAAGAAAGAAAAAAC
1262758 AAAAAA-AAAGAAAAAA
1 AAAAAAGAAAGAAAAAA
1262774 AATGAGAGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAGAAAAAAC
Found at i:1263777 original size:43 final size:44
Alignment explanation
Indices: 1263658--1263804 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 44
1263648 ATGGCGAATT
* **
1263658 TTATCTCCCTGAAGTTGCAGTGGGGT-AGATTAAAGCCTCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGGGTAAG-TTGAAGCAACAAACC
* * * * * * *
1263702 TTATCTCTCTGAAGCTGCAGTAGAGCATGTTGAAGTAACAAACC
1 TTATCTCCCTGAAGTTGCAGTGGGGTAAGTTGAAGCAACAAACC
* **
1263746 TTATC-CCCTGAAGTTGCAGTGGGGTAAGTTGAAG-ATACCAGTC
1 TTATCTCCCTGAAGTTGCAGTGGGGTAAGTTGAAGCA-ACAAACC
1263789 TTATCTCCCTGAAGTT
1 TTATCTCCCTGAAGTT
1263805 ATAGTGGAGC
Statistics
Matches: 81, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
42 1 0.01
43 32 0.40
44 47 0.58
45 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGGGTAAGTTGAAGCAACAAACC
Found at i:1263823 original size:44 final size:44
Alignment explanation
Indices: 1263775--1263858 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
1263765 TGGGGTAAGT
* * * *
1263775 TGAAGATACCAGTCTTATCTCCCTGAAGTTATAGTGGAGCAGAC
1 TGAAGATACCAATCCTATCTCCCTGAAGTTACAGTAGAGCAGAC
* *
1263819 TGAAGCTACTAATCCTATCTCCCTGAAGTTACAGTAGAGC
1 TGAAGATACCAATCCTATCTCCCTGAAGTTACAGTAGAGC
1263859 GGATTAAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
TGAAGATACCAATCCTATCTCCCTGAAGTTACAGTAGAGCAGAC
Found at i:1264296 original size:51 final size:49
Alignment explanation
Indices: 1263986--1265122 Score: 458
Period size: 45 Copynumber: 24.7 Consensus size: 49
1263976 CATATCAAAC
* * ** * *
1263986 CTTATCTCCCTGAAGTCGCAGTGGAGCAGGTT-AAAAATAAAT-CA-CT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
* * *** *
1264032 CTTATCTCCTTGAAGTTGCAGTAGAGCAGATTGAAG-ACGGGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTA-TAATTACAGAT
* * * ** *
1264081 CTTATCTCTCTGAAGTTTCAGTAGAGCAGATTGAAG--CCACT--A-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
* * * *
1264125 CTTATCCCCCTGAAGTTACAGTGGGGCAGATTG-A-TCAT-ACTA-AG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-ATAATTACAGAT
* * *
1264170 CTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAG-AT-A--AC-GAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAG-AT
* * *
1264215 CTTATTTCACTGAAGTTGCAGTGGAACAGATTGAAGCTATAGATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TATA-ATTACAGAT
* *
1264266 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATT--A-TATCAA--AC--A-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAT-AATTACAGAT
** * ** * *
1264308 -TTATCTCTTTGAAGTTGCAGTGGAGCAGGTT-AAAAATAAAT-CA-AC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
* * *** *
1264353 CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAG-ACGGGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTA-TAATTACAGAT
* *
1264402 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CT-ACT--A-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
* * * *
1264446 CTTATCCCCCTGAATTTGCAGTGGGGCAGATTGAA-TA-AATCA-AG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
* *
1264491 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAG-AT-A--AC-GAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAG-AT
* * *
1264536 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAT-AATTACAGAT
* * * ** *
1264587 CTTATCTCCCTGAAGTTGTAGTGGAGAAAATTGAAG--CCACT--A-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
* * * * * *
1264631 CTTATCCCCCTGAAGTTGCACTGGGGTAAATTGAA-TA-AATCA-AG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
* * *
1264676 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAG-AT-A--GC-GAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAG-AT
* * *
1264721 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAT-AATTACAGAT
* * * * * *
1264772 CTTATTTCTCTGAAGTTGTAATAGAGCAGA-T-CA-TATCAA--AC----
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAT-AATTACAGAT
* ** *
1264813 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAAAATAAAT-CA-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
* * *
1264859 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG-AT-A--GC-GAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAG-AT
* * * * * * * *
1264904 CTTATTTCCTTGATGTTACAGTAGAACAAATTGAAGCTATAAATTACGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAT-AATTACAGAT
** * * *
1264955 CTTATCTCTTTGAAGTTGCAATAGAGCAGA-T----CAT-ATTA-A-A-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
* * * * ** *
1264995 CATTATCTCCTTGAAATTGCAGTGGAACAGGTT-AAAAATAAAT-CA-AT
1 C-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
* * * * **
1265042 CTTATCTCCTTGAAGTTGTACTGGAGCAGATTGAAG-ACAGGCTAC-GAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATA-ATTACAG-AT
1265091 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1265123 AAAGCCACAA
Statistics
Matches: 832, Mismatches: 163, Indels: 189
0.70 0.14 0.16
Matches are distributed among these distances:
40 1 0.00
41 76 0.09
42 8 0.01
43 17 0.02
44 103 0.12
45 236 0.28
46 120 0.14
47 33 0.04
48 6 0.01
49 106 0.13
50 2 0.00
51 121 0.15
52 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (49 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTATAATTACAGAT
Found at i:1264313 original size:41 final size:42
Alignment explanation
Indices: 1264267--1264384 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 42
1264257 ATTACAGATC
1264267 TTATCTCTCTGAAGTTGCAGTAGAGCAGATT-AT-ATCAAACA
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAATAATC-AACA
* * * *
1264308 TTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATT---AAT-AATCAACA
* *
1264354 TTATCTCCCTAAAGTTGCAGTAGAGCAGATT
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATT
1264385 GAAGACGGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 28 0.45
45 2 0.03
46 29 0.47
47 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (42 bp):
TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAATAATCAACA
Found at i:1264421 original size:136 final size:137
Alignment explanation
Indices: 1263981--1265248 Score: 410
Period size: 138 Copynumber: 9.2 Consensus size: 137
1263971 CTTATCATAT
* * * * ** * * **
1263981 CAAACCTTATCTCCCTGAAGTCGCAGTGGAGCAGGTTAAAAATAAATCACTCTTATCTCCTTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGATCAT-ACTAAGACTTATCTCCTTGAA
* * ** * * * * *
1264046 GTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCTCTGAAGTTTCAGTAGAGCAGA
65 GTTGCAGTGGAGCAGACT-AA-A--AATAACGAACCTTATCTCACTGAAGTTGCAGTAGAGCAGA
*
1264111 TTGAAG-C--CA
126 TTGAAGACGTTA
* * * * *
1264120 CTAATCTTATCCCCCTGAAGTTACAGTGGGGCAGATTGATCATACTAAGTCTTATCTCCTTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGATCATACTAAGACTTATCTCCTTGAAG
* * * * * * *
1264185 TTGTAGTGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTGCAGTGGAACAGATTGAA
66 TTGCAGTGGAGCAGACTAAAAATAACGAACCTTATCTCACTGAAGTTGCAGTAGAGCAGATTGAA
*
1264250 GCTATAGATTA
131 G--A-CG-TTA
* * * *
1264261 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT-AT-AT-C-AA-ACATTATCTCTTTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGATCATACTAAGAC-TTATCTCCTTGAA
** * *
1264321 GTTGCAGTGGAGCAGGTTAAAAATAAATC-AACCTTATCTCCCTAAAGTTGCAGTAGAGCAGATT
65 GTTGCAGTGGAGCAGACTAAAAAT-AA-CGAACCTTATCTCACTGAAGTTGCAGTAGAGCAGATT
1264385 GAAGACGGGTTA
128 GAAGAC--GTTA
* * * *
1264397 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-TACTAA-TCTTATCCCCCTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-ATCATACTAAGACTTATCTCCTTGAA
* * * * * * * *
1264460 TTTGCAGTGGGGCAGATTGAATAAAT--C-AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAC
65 GTTGCAGTGGAGCAGACT-AA-AAATAACGAA-CCTTATCTCACTGAAGTTGCAGTAGAGCAGAT
*
1264522 TGAAGA--TAA
127 TGAAGACGTTA
* * * * * *
1264531 CGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCC
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-ATC-AT--ACTA-AGA-CTTATCTCC
* * * * ** *** * * * * * * * * *
1264596 CTGAAGTTGTAGTGGAG-AAAATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCACTGGGGTAA
60 TTGAAGTTGCAGTGGAGCAGACTAAAAATAACGAACCTTATCTCACTGAAGTTGCAGTAGAGCAG
* **
1264660 ATTGAATA-AAT-
125 ATTGAAGACGTTA
* * * ** * * * *
1264671 CAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAA-TCTTATTTCCCTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGATCATA-CTAAGACTTATCTCCTTGAA
* * * * * * * *
1264735 GTTGCAGTGGAACAGATTAAAGCTATAAATTAC-AGATCTTATTTCTCTGAAGTTGTAATAGAGC
65 GTTGCAGTGGAGCAG-----A-CTAAAAATAACGA-ACCTTATCTCACTGAAGTTGCAGTAGAGC
* *
1264799 AGA-T-CATA---T-
123 AGATTGAAGACGTTA
* * * ** * * * *
1264808 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAA-TCTTATCTCCCTAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGATCAT-ACT-AAGACTTATCTCCTTGA
* * * * * * * * *
1264872 AGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTC-CTTGATGTTACAGTAGAACAAATT
64 AGTTGCAGTGGAGCAGACTAAAAATAACGAACCTTATCTCAC-TGAAGTTGCAGTAGAGCAGATT
**
1264936 GAAGCTATAAATTA
128 GAAG----ACGTTA
** ** * * *
1264950 CGGATCTTATCTCTTTGAAGTTGCAATAGAGC--A--GATCATATTAA-ACATTATCTCCTTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGATCATACTAAGAC-TTATCTCCTTGAA
* * ** * * * *
1265010 ATTGCAGTGGAACAGGTTAAAAATAAATC-AATCTTATCTC-CTTGAAGTTGTACTGGAGCAGAT
65 GTTGCAGTGGAGCAGACTAAAAAT-AA-CGAACCTTATCTCAC-TGAAGTTGCAGTAGAGCAGAT
*
1265073 TGAAGACAGGCTA
127 TGAAGAC--GTTA
* * * *
1265086 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-CAC-AA-ACCTTATCT-CTCTG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GATCATACTAAGA-CTTATCTCCT-TG
* * * ** * * * * *
1265147 AAGTTGCAGTAGATCAG-GTTGAAATAACAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAGATT
63 AAGTTGCAGTGGAGCAGACTAAAAATAACGAACCTTATCTCACTGAAGTTGCAGTAGAGCAGATT
1265211 GAAG-C--TA
128 GAAGACGTTA
* * **
1265218 CTAATCCTATCTCCCTGAAGTTATAGTGGAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG
1265249 TGAATTAAAA
Statistics
Matches: 860, Mismatches: 201, Indels: 143
0.71 0.17 0.12
Matches are distributed among these distances:
131 1 0.00
132 59 0.07
133 3 0.00
134 104 0.12
135 1 0.00
136 77 0.09
137 143 0.17
138 186 0.22
139 93 0.11
140 78 0.09
141 90 0.10
142 25 0.03
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (137 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGATCATACTAAGACTTATCTCCTTGAAG
TTGCAGTGGAGCAGACTAAAAATAACGAACCTTATCTCACTGAAGTTGCAGTAGAGCAGATTGAA
GACGTTA
Found at i:1264559 original size:321 final size:321
Alignment explanation
Indices: 1263977--1264604 Score: 1046
Period size: 321 Copynumber: 2.0 Consensus size: 321
1263967 GGATCTTATC
* *
1263977 ATATCAAACCTTATCTCCCTGAAGTCGCAGTGGAGCAGGTTAAAAATAAATCACTCTTATCTCCT
1 ATATCAAACATTATCTCCCTGAAGTCGCAGTGGAGCAGGTTAAAAATAAATCACTCTTATCTCCC
* * *
1264042 TGAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCTCTGAAGTTTCAGTAGAG
66 TAAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAG
*
1264107 CAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTACAGTGGGGCAGATTGATCATACTAAGTCT
131 CAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTACAGTGGGGCAGATTGATAATACTAAGTCT
*
1264172 TATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTGCAGT
196 TATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTGCAGT
* * *
1264237 GGAACAGATTGAAGCTATAGATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
261 GGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT
** *
1264298 ATATCAAACATTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAAC-CTTATCTCC
1 ATATCAAACATTATCTCCCTGAAGTCGCAGTGGAGCAGGTTAAAAATAAATC-ACTCTTATCTCC
*
1264362 CTAAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGA
65 CTAAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGA
* * *
1264427 GCAGATTGAAGCTACTAATCTTATCCCCCTGAATTTGCAGTGGGGCAGATTGAATAA-A-TCAAG
130 GCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTACAGTGGGGCAGATTG-ATAATACT-AAG
*
1264490 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGC
193 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTGC
1264555 AGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTG
258 AGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTG
1264605 TAGTGGAGAA
Statistics
Matches: 286, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
320 1 0.00
321 280 0.98
322 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (321 bp):
ATATCAAACATTATCTCCCTGAAGTCGCAGTGGAGCAGGTTAAAAATAAATCACTCTTATCTCCC
TAAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAG
CAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTACAGTGGGGCAGATTGATAATACTAAGTCT
TATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTGCAGT
GGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT
Found at i:1264612 original size:185 final size:181
Alignment explanation
Indices: 1264394--1265127 Score: 788
Period size: 185 Copynumber: 4.0 Consensus size: 181
1264384 TGAAGACGGG
* *
1264394 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCCCCCTGA
1 TTACAAATCTTATCTCCCTGAAGTTGCAATAGAGCAGA-T-AA--TACTAATCTTATCCCCCTGA
* * * *
1264459 ATTTGCAGTGGGGCAGATT-GAATAAATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
62 AGTTGCAGTGGAGCAGATTAAAATAAATCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
*
1264523 GAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAA
126 GAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAA
* * * * * *
1264579 TTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGAAAATTGAAGCCACTAATCTTATCCCCCTGA
1 TTACAAATCTTATCTCCCTGAAGTTGCAATAGAGCAGA-T-AA--TACTAATCTTATCCCCCTGA
* * * * * *
1264644 AGTTGCACTGGGGTAAATT-GAATAAATCAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT
62 AGTTGCAGTGGAGCAGATTAAAATAAATCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
*
1264708 GAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAA
126 GAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAA
* * * * * * * *
1264764 TTACAGATCTTATTTCTCTGAAGTTGTAATAGAGCAGATCATATCAAACCTTATCTCCCTGAAGT
1 TTACAAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATAATA-CTAATCTTATCCCCCTGAAGT
* *
1264829 TGCAGTGGAGCAGGTTAAAAATAAATCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAA
65 TGCAGTGGAGCAGATT-AAAATAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
* * * * * * *
1264894 GATAGCGAATCTTATTTCCTTGATGTTACAGTAGAACAAATTGAAGCTATAAA
129 GATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAA
** ** * * * * * *
1264947 TTACGGATCTTATCTCTTTGAAGTTGCAATAGAGCAGATCATATTAAACATTATCTCCTTGAAAT
1 TTACAAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATAATACTAATC-TTATCCCCCTGAAGT
* * * * * *
1265012 TGCAGTGGAACAGGTTAAAAATAAATCAATCTTATCTCCTTGAAGTTGTACTGGAGCAGATTGAA
65 TGCAGTGGAGCAGATT-AAAATAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
* * *
1265077 GACAGGCTACGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
129 GATA----ACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGC
1265128 CACAAACCTT
Statistics
Matches: 478, Mismatches: 63, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
181 1 0.00
182 32 0.07
183 196 0.41
184 11 0.02
185 204 0.43
187 34 0.07
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (181 bp):
TTACAAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATAATACTAATCTTATCCCCCTGAAGTT
GCAGTGGAGCAGATTAAAATAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
TAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAA
Found at i:1264692 original size:45 final size:44
Alignment explanation
Indices: 1264264--1265248 Score: 475
Period size: 44 Copynumber: 21.6 Consensus size: 44
1264254 TAGATTACAG
* *
1264264 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT--AT--ATCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATCA
* ** * *
1264304 AACATTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATT--GAATAAATCA
* * * * **
1264351 ACCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATA---AAT-C-A
*
1264400 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACT-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA--TAAATCA
* * *
1264444 ATCTTATCCCCCTGAATTTGCAGTGGGGCAGATTGAATAAATCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATCA
* * *
1264488 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAA-CGA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATA-AATC-A
* *
1264534 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-A---ATAAA-T-C-A
* * * ***
1264585 ATCTTATCTCCCTGAAGTTGTAGTGGAGAAAATTGAAGCCA-CTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATC-A
* * * * *
1264629 ATCTTATCCCCCTGAAGTTGCACTGGGGTAAATTGAATAAATCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATCA
* * * * *
1264673 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATC-A
* * *
1264719 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G-AATAAA-T-CA
* * * * * *
1264769 GATCTTATTTCTCTGAAGTTGTAATAGAGCAGA-T-CAT--ATCAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATC-A
* * *
1264811 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--GAATAAATCA
* * * * *
1264857 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATC-A
* * * * * * * *
1264902 ATCTTATTTCCTTGATGTTACAGTAGAACAAATTGAAGCTATAAATTACGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-A---ATAAA-T-C-A
** * * *
1264953 ATCTTATCTCTTTGAAGTTGCAATAGAGCAGATCAT-ATTAAA-C-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT--TGAATAAATCA
* * * * *
1264996 A--TTATCTCCTTGAAATTGCAGTGGAACAGGTTAAAAATAAATCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--GAATAAATCA
* * * * *
1265040 ATCTTATCTCCTTGAAGTTGTACTGGAGCAGATTGAAGACAGGCTACGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATA-A--AT-C-A
* ***
1265089 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATC-A
* * * * *
1265133 ACCTTATCTCTCTGAAGTTGCAGTAGATCAGGTTGAA-ATAA-CAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATA-AATC-A
* * * *
1265177 ACCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCT-ACT-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA--TAAATCA
* **
1265221 ATCCTATCTCCCTGAAGTTATAGTGGAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG
1265249 TGAATTAAAA
Statistics
Matches: 721, Mismatches: 155, Indels: 134
0.71 0.15 0.13
Matches are distributed among these distances:
39 1 0.00
40 2 0.00
41 78 0.11
42 9 0.01
43 5 0.01
44 179 0.25
45 162 0.22
46 91 0.13
47 14 0.02
48 9 0.01
49 78 0.11
50 3 0.00
51 89 0.12
53 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAAATCA
Found at i:1264836 original size:92 final size:92
Alignment explanation
Indices: 1264536--1265030 Score: 312
Period size: 92 Copynumber: 5.4 Consensus size: 92
1264526 GATAACGAAT
* * * *
1264536 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
* * * * * * * *
1264601 GTTGTAGTGGAGAAAATTGA-AGCCACTAAT
66 GTTGCAATAGAGCAGA-TCATA-TCA--AAC
* * *** * * * *
1264631 CTTATCCCCCTGAAGTTGCACTGGGGTAAATT---G-AATAAATCA-AG-TCTTATCTCCCTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
* * * * *
1264690 GTTGCAATGGAGCAGACTGAAGATAGCGAAT
66 GTTGCAATAGAGCAGA-T---CATATCAAAC
* *
1264721 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATTTCTCTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
*
1264786 GTTGTAATAGAGCAGATCATATCAAAC
66 GTTGCAATAGAGCAGATCATATCAAAC
* * * * *
1264813 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAA--AATAAA-T-CA-ATCTTATCTCCCTAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
* * * * * *
1264873 GTTGCAGTGGAGCAGACTGAAGATAGCGAAT
66 GTTGCAATAGAGCAGA-T---CATATCAAAC
* * * * * * * * *
1264904 CTTATTTCCTTGATGTTACAGTAGAACAAATTGAAGCTATAAATTACGGATCTTATCTCTTTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
*
1264969 GTTGCAATAGAGCAGATCATATTAAAC
66 GTTGCAATAGAGCAGATCATATCAAAC
* * * *
1264996 ATTATCTCCTTGAAATTGCAGTGGAACAGGTTAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAA
1265031 AATAAATCAA
Statistics
Matches: 303, Mismatches: 78, Indels: 41
0.72 0.18 0.10
Matches are distributed among these distances:
87 26 0.09
88 3 0.01
89 29 0.10
90 34 0.11
91 39 0.13
92 73 0.24
93 7 0.02
94 8 0.03
95 30 0.10
96 54 0.18
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (92 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
GTTGCAATAGAGCAGATCATATCAAAC
Found at i:1264943 original size:183 final size:182
Alignment explanation
Indices: 1264446--1265127 Score: 803
Period size: 183 Copynumber: 3.7 Consensus size: 182
1264436 AGCTACTAAT
* * * *
1264446 CTTATCCCCCTGAATTTGCAGTGGGGCAGATTGAATAAATCAAGTCTTATCTCCCTGAAGTTGTA
1 CTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAATAAATCAAGTCTTATCTCCCTGAAGTTGCA
*
1264511 GTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT
66 GTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT
* * * * * * * * *
1264576 AAATTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGAAAATTGA-AGCCACTAAT
131 AAATTACAGATCTTATCTCTCTGAAGTTGTAATAGAGCAGA-TCATA-TCA--AAC
* * * * *
1264631 CTTATCCCCCTGAAGTTGCACTGGGGTAAATTGAATAAATCAAGTCTTATCTCCCTGAAGTTGCA
1 CTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAATAAATCAAGTCTTATCTCCCTGAAGTTGCA
* *
1264696 ATGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAT
66 GTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT
*
1264761 AAATTACAGATCTTATTTCTCTGAAGTTGTAATAGAGCAGATCATATCAAAC
131 AAATTACAGATCTTATCTCTCTGAAGTTGTAATAGAGCAGATCATATCAAAC
* * *
1264813 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAA-TCTTATCTCCCTAAAGTTG
1 CTTATCCCCCTGAAGTTGCAGTGGAGCAGATT--AAATAAATCAAGTCTTATCTCCCTGAAGTTG
* * * * *
1264877 CAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGATGTTACAGTAGAACAAATTGAAGCT
64 CAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
* * * *
1264942 ATAAATTACGGATCTTATCTCTTTGAAGTTGCAATAGAGCAGATCATATTAAAC
129 ATAAATTACAGATCTTATCTCTCTGAAGTTGTAATAGAGCAGATCATATCAAAC
* * * * * * *
1264996 ATTATCTCCTTGAAATTGCAGTGGAACAGGTTAAAAATAAATCAA-TCTTATCTCCTTGAAGTTG
1 CTTATCCCCCTGAAGTTGCAGTGGAGCAGATT--AAATAAATCAAGTCTTATCTCCCTGAAGTTG
* * * * * * *
1265060 TACTGGAGCAGATTGAAGACAGGCTACGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
64 CAGTGGAGCAGACTGAAGATA-G---CGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGA
1265125 AGC
125 AGC
1265128 CACAAACCTT
Statistics
Matches: 434, Mismatches: 56, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
182 28 0.06
183 200 0.46
184 15 0.03
185 157 0.36
187 34 0.08
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (182 bp):
CTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAATAAATCAAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT
AAATTACAGATCTTATCTCTCTGAAGTTGTAATAGAGCAGATCATATCAAAC
Found at i:1265045 original size:506 final size:497
Alignment explanation
Indices: 1263974--1265154 Score: 1433
Period size: 506 Copynumber: 2.3 Consensus size: 497
1263964 AGCGGATCTT
* * * *
1263974 ATCATATCAAACCTTATCTCCCTGAAGTCGCAGTGGAGCAGGTTAAAAATAAATCACTCTTATCT
1 ATCATATTAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAATCTTATCT
* * *
1264039 CCTTGAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCTCTGAAGTT-TCAGT
66 CCTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGTTACAAATCTTATCTCCCTGAAGTTGT-AGT
* * * * *
1264103 AGAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTACAGTGGGGCAGATTGATCATACTAA
130 GGAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCACTGGGGCAAATTGATAATACTAA
* * *
1264168 GTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTG
195 GTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTG
* * * *
1264233 CAGTGGAACAGATTGAAGCTATAGATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
260 CAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATC
**
1264298 ATATCAAACATTATCTCTTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCTCCC
325 ATATCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCTCCC
* * * *
1264363 TAAAGTTGCAGTAGAGCAGATTGAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
390 TAAAGTTGCAGTAGAGCAGACTGAAGA---G-TACAAATCTTATCTCCCTGAAGTTACAGTAGAA
* * * * *
1264428 CAGATTGAAGCTACTAATCTTATCCCCCTGAATTTGCAGTGGGGCAG
451 CAAATTGAAGCTACTAATCTTATCCCCCTGAAGTTGCAATAGAGCAG
* * ** * *
1264475 AT--TGAATAAATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGAT-AA-CGAAT
1 ATCAT-ATTAAA-C-A---TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATC-AAT
* * * * **
1264536 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAA
59 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG--ACAGGTTACAAATCTTATCTCCCTGAA
* * *
1264601 GTTGTAGTGGAGAAAATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCACTGGGGTAAATTGAA
122 GTTGTAGTGGAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCACTGGGGCAAATTG-A
*
1264666 TAA-A-TCAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTATTTC
186 TAATACT-AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAACGAATCTTATTTC
* * *
1264729 CCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATTTCTCTGAAGTTGTAAT
250 ACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAAT
* *
1264794 AGAGCAGATCATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAAT
315 AGAGCAGATCATATCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAAC
* * * * *
1264859 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGA-TAGCGAATCTTATTTCCTTGATGTTAC
380 CTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGAGTA-CAAATCTTATCTCCCTGAAGTTAC
* * **
1264923 AGTAGAACAAATTGAAGCTATAAATTACGGATCTTATCTCTTTGAAGTTGCAATAGAGCAG
444 AGTAGAACAAATTGAAGC--T--ACTA---ATCTTATCCCCCTGAAGTTGCAATAGAGCAG
* * *
1264984 ATCATATTAAACATTATCTCCTTGAAATTGCAGTGGAACAGGTTAAAAATAAATCAATCTTATCT
1 ATCATATTAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAATCTTATCT
* * * * *
1265049 CCTTGAAGTTGTACTGGAGCAGATTGAAGACAGGCTACGAATCTTATCTCCCTGAAGTTGCAGTG
66 CCTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGTTACAAATCTTATCTCCCTGAAGTTGTAGTG
* * * * *
1265114 GAGCAGATTAAAGCCACAAACCTTATCTCTCTGAAGTTGCA
131 GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCA
1265155 GTAGATCAGG
Statistics
Matches: 569, Mismatches: 87, Indels: 45
0.81 0.12 0.06
Matches are distributed among these distances:
499 1 0.00
500 4 0.01
501 5 0.01
502 34 0.06
503 1 0.00
504 101 0.18
505 61 0.11
506 323 0.57
507 5 0.01
508 1 0.00
509 27 0.05
510 5 0.01
511 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (497 bp):
ATCATATTAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAATCTTATCT
CCTTGAAGTTGCAGTGGAGCAGATTGAAGACAGGTTACAAATCTTATCTCCCTGAAGTTGTAGTG
GAGCAGATTGAAGCCACTAATCTTATCCCCCTGAAGTTGCACTGGGGCAAATTGATAATACTAAG
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAACGAATCTTATTTCACTGAAGTTGC
AGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCA
TATCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAACCTTATCTCCCT
AAAGTTGCAGTAGAGCAGACTGAAGAGTACAAATCTTATCTCCCTGAAGTTACAGTAGAACAAAT
TGAAGCTACTAATCTTATCCCCCTGAAGTTGCAATAGAGCAG
Found at i:1265186 original size:183 final size:179
Alignment explanation
Indices: 1264479--1265203 Score: 696
Period size: 183 Copynumber: 3.9 Consensus size: 179
1264469 GGGCAGATTG
* * *
1264479 AATAAATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAACGAATCTTATTTC
1 AATAAATCAA-TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTATTTC
* * * *
1264544 CCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGTAGT
65 CCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAA-TAC--A-CTTATCTCTCTGAAGTTGCAAT
* * * * * * * * *
1264609 GGAGAAAATTGA-AGCCACTAATCTTATCCCCCTGAAGTTGCACTGG----GG-TAAA
126 AGAGCAGA-TCATA-TCA--AACCTTATCTCCCTGAAATTGCAGTGGAACAGGTTAAA
1264661 TTGAATAAATCAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTAT
1 ---AATAAATCAA-TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTAT
* *
1264726 TTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATTTCTCTGAAGTTGT
62 TTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAA-TAC--A-CTTATCTCTCTGAAGTTGC
* *
1264791 AATAGAGCAGATCATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAA
123 AATAGAGCAGATCATATCAAACCTTATCTCCCTGAAATTGCAGTGGAACAGGTTAAA
* *
1264848 AATAAATCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCC
1 AATAAATCAATCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTATTTCC
* * * * * * *
1264913 TTGATGTTACAGTAGAACAAATTGAAGCTATAAATTACGGATCTTATCTCTTTGAAGTTGCAATA
66 CTGAAGTTGCAGTGGAACAGATTAAAGCTATAAA-TAC--A-CTTATCTCTCTGAAGTTGCAATA
* * *
1264978 GAGCAGATCATATTAAACATTATCTCCTTGAAATTGCAGTGGAACAGGTTAAA
127 GAGCAGATCATATCAAACCTTATCTCCCTGAAATTGCAGTGGAACAGGTTAAA
* * * * *
1265031 AATAAATCAATCTTATCTCCTTGAAGTTGTACTGGAGCAGATTGAAGACAGGCTACGAATCTTAT
1 AATAAATCAATCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATA-G---CGAATCTTAT
* * * * *
1265096 CTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAA-AC-CTTATCTCTCTGAAGTTGCAGTA
62 TTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATACACTTATCTCTCTGAAGTTGCAATA
* * * * *
1265158 GATCAGGTTGAAATAACAAACCTTATCTCCCT-AAAGTTGTAGTGGA
127 GAGCA-GAT--CATATCAAACCTTATCTCCCTGAAA-TTGCAGTGGA
1265204 GCAGATTGAA
Statistics
Matches: 467, Mismatches: 59, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
180 25 0.05
181 2 0.00
182 27 0.06
183 225 0.48
184 17 0.04
185 128 0.27
186 4 0.01
187 39 0.08
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (179 bp):
AATAAATCAATCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTATTTCC
CTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATACACTTATCTCTCTGAAGTTGCAATAGAGC
AGATCATATCAAACCTTATCTCCCTGAAATTGCAGTGGAACAGGTTAAA
Found at i:1266850 original size:18 final size:18
Alignment explanation
Indices: 1266785--1266865 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
1266775 TTATTTTTTC
*
1266785 TTATTATTAA-TACTATTA
1 TTATTA-TAATTACAATTA
* * * *
1266803 ATATTATTATTGCCATTA
1 TTATTATAATTACAATTA
*
1266821 TTATTATAATTATAATTA
1 TTATTATAATTACAATTA
* * *
1266839 TTATTTTCATTACCATTA
1 TTATTATAATTACAATTA
1266857 TTATATATA
1 TTAT-TATA
1266866 TTTAGTTATT
Statistics
Matches: 46, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
17 2 0.04
18 42 0.91
19 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.54
Consensus pattern (18 bp):
TTATTATAATTACAATTA
Found at i:1266860 original size:3 final size:3
Alignment explanation
Indices: 1266676--1266843 Score: 87
Period size: 3 Copynumber: 57.3 Consensus size: 3
1266666 AATTTTGTCC
* **
1266676 TAT TAT TAT TAT TAT TAT TAT TAT CAGT T-T TAT TGC TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * * * * * *
1266720 TAC TAT TAA CAT CAT TAT TAG AAT TAT TAT TAA TGT TAT TAC TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * *
1266766 TAT T-T TAT T-T TAT T-T T-T TCT TAT TAT TAA TAC TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * *
1266810 TAT TGC CAT TAT TAT TAT AAT TAT AAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1266844 TTCATTACCA
Statistics
Matches: 120, Mismatches: 38, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
2 12 0.10
3 105 0.88
4 3 0.03
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:1268996 original size:44 final size:44
Alignment explanation
Indices: 1268946--1269036 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
1268936 GGTGAAATAA
* * * *
1268946 AATAGAAGTTGTGGTAATTATGCATTTAAAACA-AATTGTAATTT
1 AATAGAAGTTCTGATAATTACGCATTTAAAA-ATAATTATAATTT
*
1268990 AATAGAAGTTCTGATAATTACGTATTTAAAAATAATTATAATTT
1 AATAGAAGTTCTGATAATTACGCATTTAAAAATAATTATAATTT
1269034 AAT
1 AAT
1269037 TTACATTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (44 bp):
AATAGAAGTTCTGATAATTACGCATTTAAAAATAATTATAATTT
Found at i:1270742 original size:19 final size:19
Alignment explanation
Indices: 1270706--1270780 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
1270696 ACTTATTGGT
*
1270706 TAGGATACAC-CTCATGTGC
1 TAGGATACACTCT-GTGTGC
*
1270725 CAGGATACACTCTGTGTGC
1 TAGGATACACTCTGTGTGC
* * * **
1270744 TAGAATGCACTTTGTACGC
1 TAGGATACACTCTGTGTGC
*
1270763 TAGGATACACTTTGTGTG
1 TAGGATACACTCTGTGTG
1270781 TCAAGATGCG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
19 41 0.95
20 2 0.05
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (19 bp):
TAGGATACACTCTGTGTGC
Found at i:1282922 original size:30 final size:31
Alignment explanation
Indices: 1282887--1283017 Score: 137
Period size: 30 Copynumber: 4.4 Consensus size: 31
1282877 AATTAATTAA
*
1282887 AAAATTATATTTTAACCCCTAAACTTTTCT-
1 AAAATTACATTTTAACCCCTAAACTTTTCTC
* *
1282917 AAAATTACATTTTGACCCCTAAAATTTT-TC
1 AAAATTACATTTTAACCCCTAAACTTTTCTC
* *
1282947 AAAATTACATTTCAACCCCTTAA-TTTT-TC
1 AAAATTACATTTTAACCCCTAAACTTTTCTC
* * * * *
1282976 TAAATTACTTTTTAAACACTACAC-TTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTTCTC
1283006 AAAATTACATTT
1 AAAATTACATTT
1283018 CGGCCCCAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
29 26 0.31
30 57 0.69
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.42
Consensus pattern (31 bp):
AAAATTACATTTTAACCCCTAAACTTTTCTC
Found at i:1283013 original size:59 final size:60
Alignment explanation
Indices: 1282887--1283018 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 60
1282877 AATTAATTAA
* * * * * *
1282887 AAAATTATATTTTAACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAAATTTTTC
1 AAAATTACATTTCAACCCCTAAACTTTTCTAAAATTACATTTTAAACACTAAAATTTCTC
* * * * *
1282947 AAAATTACATTTCAACCCCTTAATTTTTCT-AAATTACTTTTTAAACACTACACTTTCTC
1 AAAATTACATTTCAACCCCTAAACTTTTCTAAAATTACATTTTAAACACTAAAATTTCTC
1283006 AAAATTACATTTC
1 AAAATTACATTTC
1283019 GGCCCCAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
59 35 0.57
60 26 0.43
ACGTcount: A:0.36, C:0.21, G:0.01, T:0.42
Consensus pattern (60 bp):
AAAATTACATTTCAACCCCTAAACTTTTCTAAAATTACATTTTAAACACTAAAATTTCTC
Found at i:1283376 original size:21 final size:21
Alignment explanation
Indices: 1283352--1283409 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
1283342 AAGCAAAGAC
*
1283352 ACAAAAAATAAAAAAAAGCAA
1 ACAAAAAAGAAAAAAAAGCAA
*
1283373 ACAAAAAAGAAAAAATAGCAA
1 ACAAAAAAGAAAAAAAAGCAA
*
1283394 AGAAAGAAAAGAAAAA
1 A-CAA-AAAAGAAAAA
1283410 GAAGAAAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 20 0.62
22 2 0.06
23 10 0.31
ACGTcount: A:0.79, C:0.07, G:0.10, T:0.03
Consensus pattern (21 bp):
ACAAAAAAGAAAAAAAAGCAA
Found at i:1283510 original size:13 final size:13
Alignment explanation
Indices: 1283492--1283565 Score: 77
Period size: 13 Copynumber: 6.0 Consensus size: 13
1283482 GGGCTCATCG
1283492 AGAAAGAAGAAAA
1 AGAAAGAAGAAAA
1283505 AGAAAGAAG-AAA
1 AGAAAGAAGAAAA
**
1283517 AG-GGGAAGAAGAA
1 AGAAAGAAGAA-AA
1283530 AG-AAGAA-AAAA
1 AGAAAGAAGAAAA
1283541 AGAAA-AAGAAAA
1 AGAAAGAAGAAAA
*
1283553 AGAAAAAAGAAAA
1 AGAAAGAAGAAAA
1283566 TAACTTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
11 10 0.19
12 19 0.37
13 23 0.44
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAAAA
Done.