Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 33 of 172
Found at i:10338143 original size:43 final size:44
Alignment explanation
Indices: 10338096--10338178 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
10338086 TGAAGCAAAA
* *
10338096 TAGAAATCGTGATAACTATACATTTAAAAA-AATTATAATGCAT
1 TAGAAATAGTGATAACTACACATTTAAAAATAATTATAATGCAT
* * *
10338139 TAGAAGTAGTGATTATTACACATTTAAAAATAATTATAAT
1 TAGAAATAGTGATAACTACACATTTAAAAATAATTATAAT
10338179 TTAATTTACA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 25 0.74
44 9 0.26
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (44 bp):
TAGAAATAGTGATAACTACACATTTAAAAATAATTATAATGCAT
Found at i:10340019 original size:112 final size:112
Alignment explanation
Indices: 10339839--10340176 Score: 676
Period size: 112 Copynumber: 3.0 Consensus size: 112
10339829 AAAGAGATCA
10339839 TTTCTTTTTGTTATCAGAAACTTGCAAAACAAGTTAGGCCAACCCATATTTTAAATATTTTTTTC
1 TTTCTTTTTGTTATCAGAAACTTGCAAAACAAGTTAGGCCAACCCATATTTTAAATATTTTTTTC
10339904 TTTTTTCTACTCAAACCTATTTTGTTTCCAAATATTGAAGAGTTCTG
66 TTTTTTCTACTCAAACCTATTTTGTTTCCAAATATTGAAGAGTTCTG
10339951 TTTCTTTTTGTTATCAGAAACTTGCAAAACAAGTTAGGCCAACCCATATTTTAAATATTTTTTTC
1 TTTCTTTTTGTTATCAGAAACTTGCAAAACAAGTTAGGCCAACCCATATTTTAAATATTTTTTTC
10340016 TTTTTTCTACTCAAACCTATTTTGTTTCCAAATATTGAAGAGTTCTG
66 TTTTTTCTACTCAAACCTATTTTGTTTCCAAATATTGAAGAGTTCTG
10340063 TTTCTTTTTGTTATCAGAAACTTGCAAAACAAGTTAGGCCAACCCATATTTTAAATATTTTTTTC
1 TTTCTTTTTGTTATCAGAAACTTGCAAAACAAGTTAGGCCAACCCATATTTTAAATATTTTTTTC
10340128 TTTTTTCTACTCAAACCTATTTTGTTTCCAAATATTGAAGAGTTCTG
66 TTTTTTCTACTCAAACCTATTTTGTTTCCAAATATTGAAGAGTTCTG
10340175 TT
1 TT
10340177 CTGATTGGAT
Statistics
Matches: 226, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 226 1.00
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (112 bp):
TTTCTTTTTGTTATCAGAAACTTGCAAAACAAGTTAGGCCAACCCATATTTTAAATATTTTTTTC
TTTTTTCTACTCAAACCTATTTTGTTTCCAAATATTGAAGAGTTCTG
Found at i:10352135 original size:26 final size:26
Alignment explanation
Indices: 10352106--10352160 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
10352096 CTCGATTTAT
10352106 AGACATAAGAAGTATAAATGAAGTAG
1 AGACATAAGAAGTATAAATGAAGTAG
10352132 AGACATAAGAAGTATAAATGAAGTAG
1 AGACATAAGAAGTATAAATGAAGTAG
10352158 AGA
1 AGA
10352161 TCCACTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.55, C:0.04, G:0.24, T:0.18
Consensus pattern (26 bp):
AGACATAAGAAGTATAAATGAAGTAG
Found at i:10352819 original size:7 final size:7
Alignment explanation
Indices: 10352807--10352853 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
10352797 TACTCGTTTC
10352807 GTATTTA
1 GTATTTA
10352814 GTATTTA
1 GTATTTA
*
10352821 ATATTTA
1 GTATTTA
*
10352828 ATATTTA
1 GTATTTA
*
10352835 CTATTTA
1 GTATTTA
10352842 GTATTTA
1 GTATTTA
10352849 GTATT
1 GTATT
10352854 ATGTATACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:10353513 original size:18 final size:18
Alignment explanation
Indices: 10353472--10353506 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10353462 GCCAGGTGCG
*
10353472 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
10353490 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
10353507 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:10353825 original size:45 final size:45
Alignment explanation
Indices: 10353772--10353861 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
10353762 GAACCACAAT
10353772 CCCCGCCGGAGCTACCAGAACCCTTTCTGGAACCTGAACCAAGGA
1 CCCCGCCGGAGCTACCAGAACCCTTTCTGGAACCTGAACCAAGGA
10353817 CCCCGCCGGAGCTACCAGAACCCTTTCTGGAACCTGAACCAAGGA
1 CCCCGCCGGAGCTACCAGAACCCTTTCTGGAACCTGAACCAAGGA
10353862 GGAATCCAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.38, G:0.22, T:0.13
Consensus pattern (45 bp):
CCCCGCCGGAGCTACCAGAACCCTTTCTGGAACCTGAACCAAGGA
Found at i:10357366 original size:126 final size:126
Alignment explanation
Indices: 10357135--10357482 Score: 432
Period size: 126 Copynumber: 2.8 Consensus size: 126
10357125 AATAGGAACT
* * * *
10357135 ACTGTAGAAAAAGAGCGTCCATGTGAGAGCTTTTCTT-AGTAATTTTGCTGAAAGTGCATACTGC
1 ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTT-TTCAGTAATTTTGCTGACAGTGCATCCTGC
* * * *
10357199 ATGAAGCATTTTTGACACTATTTGTTCAGAAAGGTCATCTCACAATTATTTTTTCAGATACC
65 TTGAAGCGTTTTTGACACTATTTGTTCAGAAAGGTCATCTCAAAATTATTTTCTCAGATACC
** * *
10357261 ACTGTATCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGCT
1 ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * * *
10357326 TAAAGCGTTTTTTACACTATTTTTTCA-AAAGCGTCTTCTCAAAATTATTTTCTCAGATACC
66 TGAAGCGTTTTTGACACTATTTGTTCAGAAAG-GTCATCTCAAAATTATTTTCTCAGATACC
* * * *
10357387 ACTGTAGAAAAAAAGCATCCACGTGGGAG-TATTTTTCAGGAATTTTGCTGACAGTGCATCCTAC
1 ACTGTAGAAAAAGAGCGTCCACGTGGGAGCT-TTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
* * * *
10357451 TTGAAGCGTTTTGGATACTATTTCTTCTGAAA
65 TTGAAGCGTTTTTGACACTATTTGTTCAGAAA
10357483 CTTCTTCTTA
Statistics
Matches: 188, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
125 7 0.04
126 178 0.95
127 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (126 bp):
ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
TGAAGCGTTTTTGACACTATTTGTTCAGAAAGGTCATCTCAAAATTATTTTCTCAGATACC
Found at i:10357489 original size:126 final size:125
Alignment explanation
Indices: 10357135--10357526 Score: 421
Period size: 126 Copynumber: 3.1 Consensus size: 125
10357125 AATAGGAACT
* * * * *
10357135 ACTGTAGAAAAAGAGCGTCCATGTGAGAGCTTTTCTT-AGTAATTTTGCTGAAAGTGCATACTGC
1 ACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTT-TTCAGTAATTTTGCTGACAGTGCATCCTGC
* * * * * *
10357199 ATGAAGCATTTTTGACACTATTTGTTCAGAAAGGTCATCTCACAATTATTTTTTCAGATACC
65 TTGAAGCGTTTTTGACACTATTTCTTC-GAAACGTCTTCTCAAAATTATTTTTTCAGATACC
** * * *
10357261 ACTGTATCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCCTGCT
1 ACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * * * *
10357326 TAAAGCGTTTTTTACACTATTTTTTCAAAAGCGTCTTCTCAAAATTATTTTCTCAGATACC
66 TGAAGCGTTTTTGACACTATTTCTTCGAAA-CGTCTTCTCAAAATTATTTTTTCAGATACC
* * *
10357387 ACTGTAGAAAAAAAGCATCCACGTGGGAG-TATTTTTCAGGAATTTTGCTGACAGTGCATCCTAC
1 ACTGTAGAAAAAAAGCGTCCACGTGGGAGCT-TTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
* * * * * * *
10357451 TTGAAGCGTTTTGGATACTATTTCTTCTGAAACTTCTTCT-TAATTTTTTTTTTCTAGATACT
65 TTGAAGCGTTTTTGACACTATTTCTTC-GAAACGTCTTCTCAAAATTATTTTTTC-AGATACC
*
10357513 ACTGAAGAAAAAAA
1 ACTGTAGAAAAAAA
10357527 AACCAAAAAT
Statistics
Matches: 222, Mismatches: 39, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
125 16 0.07
126 203 0.91
127 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (125 bp):
ACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
TGAAGCGTTTTTGACACTATTTCTTCGAAACGTCTTCTCAAAATTATTTTTTCAGATACC
Found at i:10357688 original size:26 final size:26
Alignment explanation
Indices: 10357654--10357721 Score: 127
Period size: 26 Copynumber: 2.6 Consensus size: 26
10357644 AATTAATATT
*
10357654 TAATTTAATTAATTAATCTTACACCC
1 TAATTTAATTAATTAATCTTACACAC
10357680 TAATTTAATTAATTAATCTTACACAC
1 TAATTTAATTAATTAATCTTACACAC
10357706 TAATTTAATTAATTAA
1 TAATTTAATTAATTAA
10357722 ACCCTTACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (26 bp):
TAATTTAATTAATTAATCTTACACAC
Found at i:10357758 original size:15 final size:17
Alignment explanation
Indices: 10357719--10357753 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
10357709 TTTAATTAAT
10357719 TAAACCCTTACAAAAACCA
1 TAAA-CCTTA-AAAAACCA
10357738 TAAACCTTAAAAAACC
1 TAAACCTTAAAAAACC
10357754 TAACCCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (17 bp):
TAAACCTTAAAAAACCA
Found at i:10357763 original size:22 final size:22
Alignment explanation
Indices: 10357733--10357781 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
10357723 CCCTTACAAA
* *
10357733 AACCATAAACCTTAAAAAACCT
1 AACCCTAAACCATAAAAAACCT
*
10357755 AACCCTAAACCATAAAAACCCT
1 AACCCTAAACCATAAAAAACCT
10357777 AACCC
1 AACCC
10357782 ACCCTAACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (22 bp):
AACCCTAAACCATAAAAAACCT
Found at i:10357793 original size:32 final size:33
Alignment explanation
Indices: 10357752--10357815 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
10357742 CCTTAAAAAA
10357752 CCTAACCCTAAACCAT-AAAAACCCTAA-CCCAC
1 CCTAACCCT-AACCATAAAAAACCCTAATCCCAC
*
10357784 CCTAACCCTAACCCTAAAAAACCCTAATCCCA
1 CCTAACCCTAACCATAAAAAACCCTAATCCCA
10357816 ACATATGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 20 0.69
33 4 0.14
ACGTcount: A:0.42, C:0.44, G:0.00, T:0.14
Consensus pattern (33 bp):
CCTAACCCTAACCATAAAAAACCCTAATCCCAC
Found at i:10359830 original size:32 final size:32
Alignment explanation
Indices: 10359784--10359848 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
10359774 TAGTATAAGG
*
10359784 ACTAAATGTATATAGGGTAAAAATTGAATTAT
1 ACTAAATGTATATAGGGTAAAAATTAAATTAT
*
10359816 ACTAAATGTGTATAGGGTAAAAATTAAATTAT
1 ACTAAATGTATATAGGGTAAAAATTAAATTAT
10359848 A
1 A
10359849 GATTAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.34
Consensus pattern (32 bp):
ACTAAATGTATATAGGGTAAAAATTAAATTAT
Found at i:10362943 original size:32 final size:32
Alignment explanation
Indices: 10362900--10362961 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
10362890 CACGAAAGCT
*
10362900 GAAATAGAAATTTTAGGGTGTTACAACTCTCC
1 GAAATAAAAATTTTAGGGTGTTACAACTCTCC
10362932 GAAATAAAAATTTTAGGGTGTTACAACTCT
1 GAAATAAAAATTTTAGGGTGTTACAACTCT
10362962 AACCCCCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (32 bp):
GAAATAAAAATTTTAGGGTGTTACAACTCTCC
Found at i:10366784 original size:13 final size:13
Alignment explanation
Indices: 10366766--10366790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10366756 GTTGTTTATT
10366766 AAACTAATTAACA
1 AAACTAATTAACA
10366779 AAACTAATTAAC
1 AAACTAATTAAC
10366791 TAATTAAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
AAACTAATTAACA
Found at i:10369734 original size:6 final size:6
Alignment explanation
Indices: 10369694--10369726 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
10369684 AATAAAATTG
*
10369694 AAATGA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
10369727 AATAAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:10377383 original size:17 final size:17
Alignment explanation
Indices: 10377361--10377398 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10377351 GCAGTCTCTA
*
10377361 TCAGTTTTGCTACAGTC
1 TCAGTTTTACTACAGTC
*
10377378 TCAG-TTTACTACAGTT
1 TCAGTTTTACTACAGTC
10377394 TCAGT
1 TCAGT
10377399 ATACACTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (17 bp):
TCAGTTTTACTACAGTC
Found at i:10385702 original size:15 final size:16
Alignment explanation
Indices: 10385675--10385704 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10385665 AAGTTTTTAG
10385675 AGTTCATAACTTTTTT
1 AGTTCATAACTTTTTT
10385691 AGTTCA-AACTTTTT
1 AGTTCATAACTTTTT
10385705 CTATTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (16 bp):
AGTTCATAACTTTTTT
Found at i:10393034 original size:30 final size:30
Alignment explanation
Indices: 10393000--10393057 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10392990 TCATTAACTC
10393000 AAACTTTTGAAAAATTACAATTTTGCCCTT
1 AAACTTTTGAAAAATTACAATTTTGCCCTT
* * * *
10393030 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGAAAAATTACAATTTTGCCC
10393058 CAAGGCTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCTT
Found at i:10393953 original size:25 final size:25
Alignment explanation
Indices: 10393932--10393979 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
10393922 ACAAGCTATG
*
10393932 AATCGGTAAGCTCATACGAGCTGAA
1 AATCAGTAAGCTCATACGAGCTGAA
*
10393957 AATCAGTAAGCTCATAAGAGCTG
1 AATCAGTAAGCTCATACGAGCTG
10393980 TGGTGTGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (25 bp):
AATCAGTAAGCTCATACGAGCTGAA
Found at i:10399864 original size:20 final size:20
Alignment explanation
Indices: 10399826--10399873 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
10399816 TAAATTCTAA
* **
10399826 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
10399846 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
10399866 AAA-ATAAA
1 AAAGATAAA
10399874 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:10401515 original size:5 final size:5
Alignment explanation
Indices: 10401505--10401582 Score: 90
Period size: 5 Copynumber: 15.2 Consensus size: 5
10401495 TAATATCTGC
10401505 ATAAA ATAAA AT--A ATAAA ATAAA AT-AA ATAAA AGTAAAA ATAAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A-T-AAA AT-AAA
10401550 ATAAA ATAAA ATAAA ATAAA ATTAAA AGTAAA A
1 ATAAA ATAAA ATAAA ATAAA A-TAAA A-TAAA A
10401583 ATTGGGTTGC
Statistics
Matches: 66, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
3 3 0.05
4 4 0.06
5 37 0.56
6 18 0.27
7 4 0.06
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:10401534 original size:22 final size:22
Alignment explanation
Indices: 10401508--10401571 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
10401498 TATCTGCATA
10401508 AAATAAAATAATAAAATAAAAT
1 AAATAAAATAATAAAATAAAAT
10401530 AAATAAAAGT-A-AAAATAAAAAT
1 AAATAAAA-TAATAAAAT-AAAAT
*
10401552 AAA-ATAA-AATAAAATAAAAT
1 AAATAAAATAATAAAATAAAAT
10401572 TAAAAGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
20 6 0.16
21 13 0.35
22 17 0.46
23 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (22 bp):
AAATAAAATAATAAAATAAAAT
Found at i:10401567 original size:33 final size:32
Alignment explanation
Indices: 10401507--10401584 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 32
10401497 ATATCTGCAT
10401507 AAAATAAAATAATAAAATAAAATAAATAAAAGTA
1 AAAAT-AAA-AATAAAATAAAATAAATAAAAGTA
*
10401541 AAAATAAAAATAAAATAAAATAAAATAAAATTA
1 AAAATAAAAATAAAATAAAAT-AAATAAAAGTA
*
10401574 AAAGTAAAAAT
1 AAAATAAAAAT
10401585 TGGGTTGCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 13 0.32
33 23 0.56
34 5 0.12
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (32 bp):
AAAATAAAAATAAAATAAAATAAATAAAAGTA
Found at i:10401575 original size:27 final size:26
Alignment explanation
Indices: 10401505--10401582 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 26
10401495 TAATATCTGC
*
10401505 ATAAAATAAAATAATAAAATAAAATAA
1 ATAAAATAAAATTA-AAAATAAAATAA
*
10401532 ATAAAAGTAAAAATAAAAATAAAATAAA
1 ATAAAA-TAAAATTAAAAATAAAAT-AA
*
10401560 ATAAAATAAAATTAAAAGTAAAA
1 ATAAAATAAAATTAAAAATAAAA
10401583 ATTGGGTTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 31 0.69
28 14 0.31
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (26 bp):
ATAAAATAAAATTAAAAATAAAATAA
Found at i:10404621 original size:38 final size:38
Alignment explanation
Indices: 10404577--10404650 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
10404567 AATTACTTAC
*
10404577 CCTAATATAAATAAAATGGAGTCTTATACAATAAAAAT
1 CCTAATATAAATAAAATGGAGTCTTATAAAATAAAAAT
10404615 CCTAATATAAATAAAATGGAGTCTTATAAAATAAAA
1 CCTAATATAAATAAAATGGAGTCTTATAAAATAAAA
10404651 TCTCTTCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.28
Consensus pattern (38 bp):
CCTAATATAAATAAAATGGAGTCTTATAAAATAAAAAT
Found at i:10404642 original size:19 final size:19
Alignment explanation
Indices: 10404582--10404651 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 19
10404572 CTTACCCTAA
10404582 TATAAATAAAATGGAGTCT
1 TATAAATAAAATGGAGTCT
10404601 TATACAATAAAA---A-TCCT
1 TATA-AATAAAATGGAGT-CT
10404618 AATATAAATAAAATGGAGTCT
1 --TATAAATAAAATGGAGTCT
10404639 TATAAAATAAAAT
1 TAT-AAATAAAAT
10404652 CTCTTCTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 17
0.71 0.00 0.29
Matches are distributed among these distances:
16 1 0.02
17 3 0.07
18 7 0.17
19 11 0.26
20 16 0.38
21 3 0.07
22 1 0.02
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (19 bp):
TATAAATAAAATGGAGTCT
Found at i:10407345 original size:25 final size:25
Alignment explanation
Indices: 10407311--10407364 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
10407301 AATAATAAGA
*
10407311 TTACAGTTTATTCCTTAAAAATTTT
1 TTACAGTTTATTCCTTAAAAAATTT
10407336 TTACAGTTTATTCCTTAAAAAATTT
1 TTACAGTTTATTCCTTAAAAAATTT
10407361 TTAC
1 TTAC
10407365 TACAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.50
Consensus pattern (25 bp):
TTACAGTTTATTCCTTAAAAAATTT
Found at i:10410636 original size:26 final size:26
Alignment explanation
Indices: 10410600--10410652 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
10410590 AACATGGGAC
*
10410600 ATAAGAAATTAACATCAGAATATAAA
1 ATAAGAAATTAAAATCAGAATATAAA
*
10410626 ATAAGAAATTAAAATTAGAATATAAA
1 ATAAGAAATTAAAATCAGAATATAAA
10410652 A
1 A
10410653 CAAATCACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.25
Consensus pattern (26 bp):
ATAAGAAATTAAAATCAGAATATAAA
Found at i:10410965 original size:6 final size:6
Alignment explanation
Indices: 10410954--10410988 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
10410944 CGTCATTGCA
*
10410954 ACAAAT ACAAAT ACAAAT AAAAAT ACAAAT ACAAA
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAA
10410989 GATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (6 bp):
ACAAAT
Found at i:10411935 original size:12 final size:12
Alignment explanation
Indices: 10411918--10411943 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10411908 AACAATTATC
10411918 ACTTACTAGATA
1 ACTTACTAGATA
10411930 ACTTACTAGATA
1 ACTTACTAGATA
10411942 AC
1 AC
10411944 ATAGAGCATT
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:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (12 bp):
ACTTACTAGATA
Found at i:10427710 original size:17 final size:18
Alignment explanation
Indices: 10427682--10427720 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
10427672 ATTTGAAATC
*
10427682 TTTAATTTCTATTTTTAT
1 TTTAATTTCTATTATTAT
10427700 TTTAA-TTCTATTATTAT
1 TTTAATTTCTATTATTAT
10427717 TTTA
1 TTTA
10427721 TTATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAATTTCTATTATTAT
Found at i:10430833 original size:18 final size:18
Alignment explanation
Indices: 10430810--10430848 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10430800 AAAAAAGAGA
* *
10430810 ATATATACATAATAATAT
1 ATATATACAAAAGAATAT
*
10430828 ATATATATAAAAGAATAT
1 ATATATACAAAAGAATAT
10430846 ATA
1 ATA
10430849 AGAAAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
ATATATACAAAAGAATAT
Found at i:10430845 original size:16 final size:17
Alignment explanation
Indices: 10430807--10430848 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
10430797 GTAAAAAAAG
10430807 AGAATATATACATAATA
1 AGAATATATACATAATA
* *
10430824 A-TATATATATATAA-A
1 AGAATATATACATAATA
10430839 AGAATATATA
1 AGAATATATA
10430849 AGAAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 2 0.10
16 18 0.86
17 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (17 bp):
AGAATATATACATAATA
Found at i:10434565 original size:13 final size:13
Alignment explanation
Indices: 10434522--10434566 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 13
10434512 CCCTGTAAGT
10434522 TTTTTTTATATTTA
1 TTTTTTTAT-TTTA
*
10434536 TTTTTTTATGTTA
1 TTTTTTTATTTTA
10434549 ---TTTTATTTTA
1 TTTTTTTATTTTA
10434559 TTTTTTTA
1 TTTTTTTA
10434567 AATGGGGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
10 9 0.35
13 8 0.31
14 9 0.35
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:10445573 original size:34 final size:34
Alignment explanation
Indices: 10445530--10445621 Score: 166
Period size: 34 Copynumber: 2.7 Consensus size: 34
10445520 ATCTTCATAT
10445530 CTGTTACTGAGATGGGCTAAGGCCCTAATGCTTA
1 CTGTTACTGAGATGGGCTAAGGCCCTAATGCTTA
10445564 CTGTTACTGAGATGGGCTAAGGCCCTAATGCTTA
1 CTGTTACTGAGATGGGCTAAGGCCCTAATGCTTA
* *
10445598 TTATTACTGAGATGGGCTAAGGCC
1 CTGTTACTGAGATGGGCTAAGGCC
10445622 AAACTGATAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (34 bp):
CTGTTACTGAGATGGGCTAAGGCCCTAATGCTTA
Found at i:10453379 original size:33 final size:33
Alignment explanation
Indices: 10453312--10453380 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
10453302 GAAACACCAT
*
10453312 CACCACCCACAAATACTGAACCACATATTGAAC
1 CACCACCCACAAATACTGAACCACATATTAAAC
*
10453345 CACCACCCATAAATACTGAACCACATGA-TAAAC
1 CACCACCCACAAATACTGAACCACAT-ATTAAAC
10453378 CAC
1 CAC
10453381 ATATTGAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.43, C:0.36, G:0.06, T:0.14
Consensus pattern (33 bp):
CACCACCCACAAATACTGAACCACATATTAAAC
Found at i:10460282 original size:20 final size:20
Alignment explanation
Indices: 10460259--10460296 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
10460249 TATATATATG
10460259 TATATAT-AAAT-TATGAAA
1 TATATATAAAATATATGAAA
10460277 TATATATAAAATATATGAAA
1 TATATATAAAATATATGAAA
10460297 GTGTTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
TATATATAAAATATATGAAA
Found at i:10464730 original size:44 final size:45
Alignment explanation
Indices: 10464635--10464768 Score: 162
Period size: 46 Copynumber: 3.0 Consensus size: 45
10464625 ACAGGACAGA
* *
10464635 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
10464681 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
10464725 ACAGGAATAATTCATGTAAGTCCATGTCAAAGATATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
10464769 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 36 0.48
45 1 0.01
46 38 0.51
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:10467535 original size:30 final size:30
Alignment explanation
Indices: 10467476--10467535 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10467466 TATTTTATTA
* *
10467476 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGACATTTG
* *
10467506 TTAATTTTATTATTATTTTAGAGATATTTG
1 TTAATTTTATTATTATTTTAAAGACATTTG
10467536 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGACATTTG
Found at i:10467936 original size:10 final size:11
Alignment explanation
Indices: 10467915--10467957 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
10467905 ATAAATTGTT
10467915 AAAATTCATAAA
1 AAAATT-ATAAA
10467927 AAAATT-TAAA
1 AAAATTATAAA
* *
10467937 ATAATTATCAA
1 AAAATTATAAA
10467948 AAAATTATAA
1 AAAATTATAA
10467958 GAGTTGGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 9 0.35
11 11 0.42
12 6 0.23
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:10469697 original size:16 final size:17
Alignment explanation
Indices: 10469678--10469711 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10469668 TTAGATTAAC
10469678 TTTTATTTAAAA-ATAA
1 TTTTATTTAAAATATAA
*
10469694 TTTTTTTTAAAATATAA
1 TTTTATTTAAAATATAA
10469711 T
1 T
10469712 ACATGCACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATTTAAAATATAA
Found at i:10469974 original size:28 final size:29
Alignment explanation
Indices: 10469907--10469979 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 29
10469897 TGGGTTAGTG
* *
10469907 ATTTAATATAAATATAAATATATAATTATT
1 ATTTAACAT-AATATAAATAAATAATTATT
*
10469937 ATTTAACAT-ATATAATTAAATAA-TATT
1 ATTTAACATAATATAAATAAATAATTATT
10469964 -TTTATAGCATAATATA
1 ATTTA-A-CATAATATA
10469980 TTCGAGCAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.11
27 5 0.14
28 15 0.41
29 5 0.14
30 8 0.22
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (29 bp):
ATTTAACATAATATAAATAAATAATTATT
Found at i:10475312 original size:19 final size:19
Alignment explanation
Indices: 10475288--10475328 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
10475278 TCATAGGTTA
10475288 TGTCTTTACAATCGGAGGT
1 TGTCTTTACAATCGGAGGT
10475307 TGTCTTTACAATCGGAGGT
1 TGTCTTTACAATCGGAGGT
10475326 TGT
1 TGT
10475329 TCAATCAGTT
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:0.20, C:0.15, G:0.27, T:0.39
Consensus pattern (19 bp):
TGTCTTTACAATCGGAGGT
Found at i:10477926 original size:19 final size:19
Alignment explanation
Indices: 10477884--10477934 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
10477874 TATTGTACAT
* * *
10477884 AAAATATAAAAATATTTTTT
1 AAAA-ATAAAAATAATTATG
10477904 AAAAATAAAAATAATTATG
1 AAAAATAAAAATAATTATG
10477923 AAAAATATAAAA
1 AAAAATA-AAAA
10477935 ACTCTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATAAAAATAATTATG
Found at i:10478202 original size:14 final size:14
Alignment explanation
Indices: 10478183--10478219 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
10478173 GGATCAAAAC
10478183 AAATAAATTATTTA
1 AAATAAATTATTTA
*
10478197 AAATAAAATA-TTA
1 AAATAAATTATTTA
10478210 AAA-AAATTAT
1 AAATAAATTAT
10478220 AAATATCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 5 0.25
13 6 0.30
14 9 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:10483382 original size:16 final size:16
Alignment explanation
Indices: 10483328--10483387 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
10483318 TACCCCTCCA
10483328 TTAATATAATACTGATT
1 TTAATATAATA-TGATT
*
10483345 TTAAT-TAATAT-TTT
1 TTAATATAATATGATT
* *
10483359 TTATTATAACATGATT
1 TTAATATAATATGATT
10483375 TTAATATATATAT
1 TTAATATA-ATAT
10483388 AATATAAGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 14 0.41
17 8 0.24
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAATATAATATGATT
Found at i:10495131 original size:15 final size:14
Alignment explanation
Indices: 10495107--10495162 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
10495097 TCGTATCTTG
*
10495107 GGTTTTTTTACTCTA
1 GGTTTCTTTA-TCTA
10495122 GGTTTCTTTATTCTA
1 GGTTTCTTTA-TCTA
* *
10495137 GGTTTCTCTATCTT
1 GGTTTCTTTATCTA
10495151 GGATTTCTTTAT
1 GG-TTTCTTTAT
10495163 TCGGTTTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 5 0.14
15 30 0.86
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.59
Consensus pattern (14 bp):
GGTTTCTTTATCTA
Found at i:10497474 original size:60 final size:60
Alignment explanation
Indices: 10497401--10497522 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
10497391 TGGTTAGGTC
* *
10497401 ACGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCGGATAATTGGCCACGTGTGTAGT
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGCCACATGTGTAGT
* *
10497461 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGCCACATGTGTAGT
10497521 AC
1 AC
10497523 TACGTGCAGG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (60 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGCCACATGTGTAGT
Found at i:10500583 original size:30 final size:29
Alignment explanation
Indices: 10500548--10500614 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
10500538 GTATCGTATC
*
10500548 TTGGGTTTTTTTACTCTAGG-TTTCTTTAT
1 TTGGGTTTTTCTA-TCTAGGATTTCTTTAT
* *
10500577 TCTGGGTTTCTCTATCTTGGATTTCTTTAT
1 T-TGGGTTTTTCTATCTAGGATTTCTTTAT
10500607 TT-GGTTTT
1 TTGGGTTTT
10500615 CTTGTTATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
28 5 0.16
29 7 0.22
30 20 0.62
ACGTcount: A:0.09, C:0.12, G:0.18, T:0.61
Consensus pattern (29 bp):
TTGGGTTTTTCTATCTAGGATTTCTTTAT
Found at i:10500615 original size:14 final size:14
Alignment explanation
Indices: 10500568--10500617 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
10500558 TTACTCTAGG
*
10500568 TTTCTTTATTCTGGG
1 TTTCTTTATT-TGGA
*
10500583 TTTCTCTATCTTGGA
1 TTTCTTTAT-TTGGA
*
10500598 TTTCTTTATTTGGT
1 TTTCTTTATTTGGA
10500612 TTTCTT
1 TTTCTT
10500618 GTTATCTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 10 0.33
15 19 0.63
16 1 0.03
ACGTcount: A:0.08, C:0.14, G:0.14, T:0.64
Consensus pattern (14 bp):
TTTCTTTATTTGGA
Found at i:10504032 original size:11 final size:11
Alignment explanation
Indices: 10504016--10504041 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10504006 AAATGGTGGA
10504016 GAAAATGTCAT
1 GAAAATGTCAT
10504027 GAAAATGTCAT
1 GAAAATGTCAT
10504038 GAAA
1 GAAA
10504042 GTGTATTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (11 bp):
GAAAATGTCAT
Found at i:10509582 original size:10 final size:10
Alignment explanation
Indices: 10509567--10509595 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
10509557 AGAAAAAGAA
10509567 AAATTAAAAT
1 AAATTAAAAT
10509577 AAATTAAAAT
1 AAATTAAAAT
10509587 AAATTAAAA
1 AAATTAAAA
10509596 AATAAGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:10509609 original size:13 final size:12
Alignment explanation
Indices: 10509523--10509609 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 12
10509513 TATGTCTTTC
10509523 AAAATAAAATAAT
1 AAAATAAAA-AAT
**
10509536 AAAAT-TGAAAT
1 AAAATAAAAAAT
10509547 GAAAATAAAAAGA-
1 -AAAATAAAAA-AT
* *
10509560 AAAAGAAAAATT
1 AAAATAAAAAAT
10509572 AAAATAAATTAAAAT
1 AAAAT-AA--AAAAT
*
10509587 AAATTAAAAAAT
1 AAAATAAAAAAT
10509599 AAGAATAAAAA
1 AA-AATAAAAA
10509610 GTTGGGAGGA
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
11 3 0.05
12 26 0.46
13 16 0.29
14 3 0.05
15 8 0.14
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:10521874 original size:27 final size:27
Alignment explanation
Indices: 10521844--10521897 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
10521834 TGTCATGTGA
*
10521844 AATTGAATGGCAAATTATTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
10521871 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
10521898 GGTTGTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:10526629 original size:40 final size:40
Alignment explanation
Indices: 10526574--10526798 Score: 303
Period size: 40 Copynumber: 5.6 Consensus size: 40
10526564 TATTCGAATG
* *
10526574 ATATCCTGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
10526614 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
10526657 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
10526697 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
10526737 ATATCCGGGCTAAGACCCGAAGGCGTTTGTGCGAGT-AGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CT
* *
10526777 ATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
10526799 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 18 0.11
40 112 0.67
43 35 0.21
44 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:10526713 original size:83 final size:80
Alignment explanation
Indices: 10526574--10526798 Score: 312
Period size: 83 Copynumber: 2.8 Consensus size: 80
10526564 TATTCGAATG
* * *
10526574 ATATCCTGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCGAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
10526639 TTTGTGCGAGTAGTTG-CT
66 TTTGTGC---TA-TTGACT
10526657 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
10526722 TTTGTGCTATTGACT
66 TTTGTGCTATTGACT
* * * * *
10526737 ATATCCGGGCTAAGACCCGAAGGCGTTTGTGCGAGT-AGCTATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CTATATCCGGGCTAAGTCCCGAAGG
10526799 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
79 20 0.15
80 43 0.33
83 69 0.52
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTATTGACT
Found at i:10532722 original size:46 final size:45
Alignment explanation
Indices: 10532655--10532742 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 45
10532645 TTGGTTCGGT
*
10532655 TATTTTACTTAGTAGTTTTATTTAACTTAGTTTATTTACTTTTCAC
1 TATTTTACTTAGTAGTTTTATTTAACTTAG-TTATTTAATTTTCAC
*
10532701 TATTTTACTTAGTA-TCTTTATTTAGCTTAGTTATTTAATTTT
1 TATTTTACTTAGTAGT-TTTATTTAACTTAGTTATTTAATTTT
10532743 TACAGGTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
45 12 0.31
46 27 0.69
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (45 bp):
TATTTTACTTAGTAGTTTTATTTAACTTAGTTATTTAATTTTCAC
Found at i:10538342 original size:48 final size:48
Alignment explanation
Indices: 10538252--10538425 Score: 206
Period size: 48 Copynumber: 3.6 Consensus size: 48
10538242 CTCATAACAG
* * * ** * *
10538252 TGCCGATGCCATGTCCCAAACATGGTCTTGTACGGGACCTCATATCGA
1 TGCCGATGCCATATCCCAGATATGGTCTTACAAGGGATCTCATATCGA
* * *
10538300 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATGTCGA
1 TGCCGATGCCATATCCCAGATATGGTCTTACAAGGGATCTCATATCGA
** * *
10538348 TG-CGTATATCATATCCCAGATACGGTCTTACAAGGGATCTCATATTGA
1 TGCCG-ATGCCATATCCCAGATATGGTCTTACAAGGGATCTCATATCGA
10538396 TGCCGATGCCATATCCCAGATATGGTCTTA
1 TGCCGATGCCATATCCCAGATATGGTCTTA
10538426 TACAGGATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.01
48 102 0.97
49 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (48 bp):
TGCCGATGCCATATCCCAGATATGGTCTTACAAGGGATCTCATATCGA
Found at i:10542540 original size:16 final size:15
Alignment explanation
Indices: 10542506--10542543 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
10542496 GGTTTAGTTA
10542506 TTAAAT-TATAAAGG
1 TTAAATATATAAAGG
*
10542520 TTAAATATATAAAATG
1 TTAAATATAT-AAAGG
10542536 TTAAATAT
1 TTAAATAT
10542544 GTTATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 3 0.14
16 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (15 bp):
TTAAATATATAAAGG
Found at i:10543500 original size:43 final size:42
Alignment explanation
Indices: 10543453--10543604 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 42
10543443 TGTTCTCGCG
*
10543453 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTA
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATT-CGTA
* * * * *
10543496 TAAGATCA-GTCTGGTACATTGGCATCG-TATTTGATTCGTT
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTCGTA
* * *
10543536 TAAGACC-CTGTCTGGGACAG-TGGCATCAATATGTGATTGCATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATT-CGTA
* *
10543579 TAAGACCACGTCTAGGATGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
10543605 TGTACGATAT
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
40 9 0.10
41 23 0.26
42 25 0.29
43 29 0.33
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTCGTA
Found at i:10543521 original size:42 final size:42
Alignment explanation
Indices: 10543453--10543573 Score: 131
Period size: 41 Copynumber: 2.9 Consensus size: 42
10543443 TGTTCTCGCG
*
10543453 TAAGACCACA-TCTGGGACGTTGGCATCGATATGTGATTACGTA
1 TAAGACC-CAGTCTGGGACATTGGCATCGATATGTGATT-CGTA
* * * *
10543496 TAAGA-TCAGTCTGGTACATTGGCATCG-TATTTGATTCGTT
1 TAAGACCCAGTCTGGGACATTGGCATCGATATGTGATTCGTA
* * *
10543536 TAAGACCCTGTCTGGGACAGTGGCATCAATATGTGATT
1 TAAGACCCAGTCTGGGACATTGGCATCGATATGTGATT
10543574 GCATGTAAGA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
40 8 0.12
41 27 0.42
42 24 0.38
43 5 0.08
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TAAGACCCAGTCTGGGACATTGGCATCGATATGTGATTCGTA
Found at i:10543549 original size:41 final size:42
Alignment explanation
Indices: 10543453--10543591 Score: 129
Period size: 42 Copynumber: 3.3 Consensus size: 42
10543443 TGTTCTCGCG
* *
10543453 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTA
1 TAAGACCA-GTCTGGGACATTGGCATCGATATGTGATTACGTA
* * * *
10543496 TAAGATCAGTCTGGTACATTGGCATCG-TATTTGATT-CGTT
1 TAAGACCAGTCTGGGACATTGGCATCGATATGTGATTACGTA
* * * * * *
10543536 TAAGACCCTGTCTGGGACAGTGGCATCAATATGTGATTGCATG
1 TAAGA-CCAGTCTGGGACATTGGCATCGATATGTGATTACGTA
10543579 TAAGACCACGTCT
1 TAAGACCA-GTCT
10543592 AGGATGTTGG
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
40 8 0.10
41 25 0.32
42 26 0.34
43 18 0.23
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
TAAGACCAGTCTGGGACATTGGCATCGATATGTGATTACGTA
Found at i:10543794 original size:18 final size:19
Alignment explanation
Indices: 10543760--10543797 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
10543750 GATACAAATT
10543760 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
10543779 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
10543797 A
1 A
10543798 GTACATTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:10549415 original size:48 final size:48
Alignment explanation
Indices: 10549234--10549407 Score: 224
Period size: 48 Copynumber: 3.6 Consensus size: 48
10549224 CTCATAATAG
* * * *
10549234 TGTCGATGCCATGTCCCAGACATGGTCTTATATGGGACCTCATATTGA
1 TGTCGATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATTGA
* * * *
10549282 TGCCGATGTCATATCCCAGATATGGTCTTACATGGGATCTCATGTCGA
1 TGTCGATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATTGA
* * * *
10549330 TG-CTTATGTCATATCCCAGATACGGTCTTACAAGGGATCTCATATTGA
1 TGTC-GATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATTGA
10549378 TGTCGATGCCATATCCCAGATATGGTCTTA
1 TGTCGATGCCATATCCCAGATATGGTCTTA
10549408 TACGGGATTT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
47 1 0.01
48 106 0.98
49 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (48 bp):
TGTCGATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATTGA
Found at i:10549440 original size:96 final size:95
Alignment explanation
Indices: 10549247--10549441 Score: 214
Period size: 96 Copynumber: 2.0 Consensus size: 95
10549237 CGATGCCATG
* * * *
10549247 TCCCAGACATGGTCTTATATGGGACCTCATATTGATGCCGATGTCATATCCCAGATATGGTCTTA
1 TCCCAGACACGGTCTTACAAGGGACCTCATATTGATGCCGATGCCATATCCCAGATATGGTCTTA
* ** * *
10549312 CATGGGATCTCATGTCGATGCTTATGTCATA
66 CACGGGATCTCAACTCCATGCTCATG-CATA
* * *
10549343 TCCCAGATACGGTCTTACAAGGGATCTCATATTGATGTCGATGCCATATCCCAGATATGGTCTTA
1 TCCCAGACACGGTCTTACAAGGGACCTCATATTGATGCCGATGCCATATCCCAGATATGGTCTTA
* *
10549408 TACGGGATTTCAAAACTCACATG-TCATG-ATA
66 CACGGGATCTC--AACTC-CATGCTCATGCATA
10549439 TCC
1 TCC
10549442 GTATCTTAGC
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
96 72 0.88
98 7 0.09
99 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (95 bp):
TCCCAGACACGGTCTTACAAGGGACCTCATATTGATGCCGATGCCATATCCCAGATATGGTCTTA
CACGGGATCTCAACTCCATGCTCATGCATA
Found at i:10555344 original size:18 final size:18
Alignment explanation
Indices: 10555318--10555354 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10555308 TTTAAAAATC
*
10555318 AAATTAAAATTTTCAATA
1 AAATGAAAATTTTCAATA
*
10555336 AAATGAAAATTTTTAATA
1 AAATGAAAATTTTCAATA
10555354 A
1 A
10555355 TTTATCAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATGAAAATTTTCAATA
Found at i:10556547 original size:20 final size:21
Alignment explanation
Indices: 10556515--10556556 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
10556505 TTATTAATTA
10556515 TTAATTTTCTTTATATATTCT
1 TTAATTTTCTTTATATATTCT
*
10556536 TTAATTTT-TTTATATTTTCT
1 TTAATTTTCTTTATATATTCT
10556556 T
1 T
10556557 AAAAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (21 bp):
TTAATTTTCTTTATATATTCT
Found at i:10557201 original size:29 final size:29
Alignment explanation
Indices: 10557168--10557231 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
10557158 CTTTATAGGG
* *
10557168 TTTTATTTTTTTATAAAAATTATATAATT
1 TTTTAATTGTTTATAAAAATTATATAATT
*
10557197 TTTTAATTGTTTATAAAAATTTTATAATT
1 TTTTAATTGTTTATAAAAATTATATAATT
*
10557226 TATTAA
1 TTTTAA
10557232 AATTATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTAATTGTTTATAAAAATTATATAATT
Found at i:10557915 original size:29 final size:30
Alignment explanation
Indices: 10557860--10557933 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
10557850 TTGAGAGGTA
* *
10557860 AAATTAAATTTTTTAAAAAAATTAAAAT-T
1 AAATTATATTTTTTAAAAAAATAAAAATAT
** *
10557889 AAATTATATTTTTTATGATAATAAAAATAT
1 AAATTATATTTTTTAAAAAAATAAAAATAT
10557919 AAATT-TATTATTTTA
1 AAATTATATT-TTTTA
10557934 GTAGTCTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 27 0.71
30 11 0.29
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (30 bp):
AAATTATATTTTTTAAAAAAATAAAAATAT
Found at i:10562148 original size:7 final size:7
Alignment explanation
Indices: 10562138--10562184 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
10562128 TAAGATTTAA
10562138 GGGTTAG
1 GGGTTAG
*
10562145 GGGTTAA
1 GGGTTAG
*
10562152 GGATTAG
1 GGGTTAG
10562159 GGGTTAG
1 GGGTTAG
*
10562166 TGGTTAG
1 GGGTTAG
10562173 GGGTTAG
1 GGGTTAG
10562180 GGGTT
1 GGGTT
10562185 TATGGTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.32
Consensus pattern (7 bp):
GGGTTAG
Found at i:10562153 original size:14 final size:14
Alignment explanation
Indices: 10562134--10562201 Score: 75
Period size: 14 Copynumber: 4.8 Consensus size: 14
10562124 AGTTTAAGAT
10562134 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
10562148 TTAAGGATTAGGGG
1 TTAAGGGTTAGGGG
10562162 TT-AGTGGTTAGGGG
1 TTAAG-GGTTAGGGG
* * *
10562176 TTAGGGGTTTATGGT
1 TTAAGGG-TTAGGGG
10562191 TTAAGGGTTAG
1 TTAAGGGTTAG
10562202 AGTCTAAGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
13 2 0.05
14 30 0.68
15 12 0.27
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:10562179 original size:21 final size:21
Alignment explanation
Indices: 10562138--10562201 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
10562128 TAAGATTTAA
* *
10562138 GGGTTAGGGGTTAAGGATTAG
1 GGGTTAGTGGTTAAGGGTTAG
*
10562159 GGGTTAGTGGTTAGGGGTTAG
1 GGGTTAGTGGTTAAGGGTTAG
10562180 GGGTTTA-TGGTTTAAGGGTTAG
1 GGG-TTAGTGG-TTAAGGGTTAG
10562202 AGTCTAAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (21 bp):
GGGTTAGTGGTTAAGGGTTAG
Found at i:10563404 original size:41 final size:41
Alignment explanation
Indices: 10563379--10563535 Score: 201
Period size: 41 Copynumber: 3.9 Consensus size: 41
10563369 TAAAAGCTAG
*
10563379 AGCATTAGTGGCGCTTTTGGTAAAACGCCGCTAAAAACC-A
1 AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAA
* * * * *
10563419 GGCATTAGTGGTGCTTTTGGTAAAATGCCGCTAAAAACTAA
1 AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAA
* *
10563460 AGAATTAGCGGCGCTTTCT-GTAAAACGCTGCTAAAAACCAA
1 AGCATTAGCGGCGCTTT-TGGTAAAACGCCGCTAAAAACCAA
* *
10563501 AGCATTAGCAGCGCTTTCGGTAAAACGCCGCTAAA
1 AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
10563536 TGTCATATAA
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
40 35 0.35
41 63 0.64
42 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAA
Found at i:10563428 original size:81 final size:82
Alignment explanation
Indices: 10563329--10563508 Score: 186
Period size: 81 Copynumber: 2.2 Consensus size: 82
10563319 GTTTTTGCTA
* * * ** * * * *
10563329 AAAAAACATAGCAATAGTGGTG-TTTTACCAAAAACGTTGCTAAAAGCTAGAGCATTAGTGGCGC
1 AAAAACCAAAGCATTAGTGGTGCTTTT-CCAAAAACGCCGCTAAAAACTAAAGAATTAGCGGCGC
10563393 TTT-TGGTAAAACGCCGCT
65 TTTCT-GTAAAACGCCGCT
* *** *
10563411 AAAAACC-AGGCATTAGTGGTGCTTTTGGTAAAATGCCGCTAAAAACTAAAGAATTAGCGGCGCT
1 AAAAACCAAAGCATTAGTGGTGCTTTTCCAAAAACGCCGCTAAAAACTAAAGAATTAGCGGCGCT
*
10563475 TTCTGTAAAACGCTGCT
66 TTCTGTAAAACGCCGCT
10563492 AAAAACCAAAGCATTAG
1 AAAAACCAAAGCATTAG
10563509 CAGCGCTTTC
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
81 60 0.76
82 19 0.24
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (82 bp):
AAAAACCAAAGCATTAGTGGTGCTTTTCCAAAAACGCCGCTAAAAACTAAAGAATTAGCGGCGCT
TTCTGTAAAACGCCGCT
Found at i:10563607 original size:28 final size:29
Alignment explanation
Indices: 10563575--10563636 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
10563565 CAAAAAAACA
* * *
10563575 TAAACACTAATCTATAACCCTTAAACCT-
1 TAAACACTAAACTACAACCCTTAAAACTC
*
10563603 TAAACACTAAACTACAACCTTTAAAACTC
1 TAAACACTAAACTACAACCCTTAAAACTC
10563632 TAAAC
1 TAAAC
10563637 CCCAAAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (29 bp):
TAAACACTAAACTACAACCCTTAAAACTC
Found at i:10564100 original size:278 final size:278
Alignment explanation
Indices: 10563603--10564157 Score: 1065
Period size: 278 Copynumber: 2.0 Consensus size: 278
10563593 CCTTAAACCT
*
10563603 TAAACACTAAACTACAACCTTTAAAACTCTAAACCCCAAAAAACATCATATGGATGTTGATGTGT
1 TAAACACTAAACTACAACATTTAAAACTCTAAACCCCAAAAAACATCATATGGATGTTGATGTGT
10563668 ATATACATAAATATTAATGTAAAAGCTTATGTTCATAATAAATTATGGAAGCAATACTTAATATT
66 ATATACATAAATATTAATGTAAAAGCTTATGTTCATAATAAATTATGGAAGCAATACTTAATATT
10563733 GATTAAATTTATTTTTGGGTTTAAGGTTTAATATTAAAGGTTTAAGGTCTATGGTTTAGGGTTTT
131 GATTAAATTTATTTTTGGGTTTAAGGTTTAATATTAAAGGTTTAAGGTCTATGGTTTAGGGTTTT
*
10563798 ATGGTTTAAGTTTAATGGCCATGGGTATATAGTATGTTAATCTCAAGTGAATCATATTCAATAAT
196 ATGGTTTAAGTTTAATGGCCATGGGTATATAGTATGTGAATCTCAAGTGAATCATATTCAATAAT
10563863 TAAATCCTAAACCCTATC
261 TAAATCCTAAACCCTATC
*
10563881 TAAACACTAAACTATAACATTTAAAACTCTAAACCCCAAAAAACATCATATGGATGTTGATGTGT
1 TAAACACTAAACTACAACATTTAAAACTCTAAACCCCAAAAAACATCATATGGATGTTGATGTGT
*
10563946 ATATACATAGATATTAATGTAAAAGCTTATGTTCATAATAAATTATGGAAGCAATACTTAATATT
66 ATATACATAAATATTAATGTAAAAGCTTATGTTCATAATAAATTATGGAAGCAATACTTAATATT
10564011 GATTAAATTTATTTTTGGGTTTAAGGTTTAATATTAAAGGTTTAAGGTCTATGGTTTAGGGTTTT
131 GATTAAATTTATTTTTGGGTTTAAGGTTTAATATTAAAGGTTTAAGGTCTATGGTTTAGGGTTTT
10564076 ATGGTTTAAGTTTAATGGCCATGGGTATATAGTATGTGAATCTCAAGTGAATCATATTCAATAAT
196 ATGGTTTAAGTTTAATGGCCATGGGTATATAGTATGTGAATCTCAAGTGAATCATATTCAATAAT
*
10564141 TAAATCCTAGACCCTAT
261 TAAATCCTAAACCCTAT
10564158 AATTAATTAT
Statistics
Matches: 272, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
278 272 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (278 bp):
TAAACACTAAACTACAACATTTAAAACTCTAAACCCCAAAAAACATCATATGGATGTTGATGTGT
ATATACATAAATATTAATGTAAAAGCTTATGTTCATAATAAATTATGGAAGCAATACTTAATATT
GATTAAATTTATTTTTGGGTTTAAGGTTTAATATTAAAGGTTTAAGGTCTATGGTTTAGGGTTTT
ATGGTTTAAGTTTAATGGCCATGGGTATATAGTATGTGAATCTCAAGTGAATCATATTCAATAAT
TAAATCCTAAACCCTATC
Found at i:10564635 original size:21 final size:20
Alignment explanation
Indices: 10564606--10564676 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
10564596 GTTTATAGTC
*
10564606 TGAGATTTATGGTTTGGGATT
1 TGAGGTTTA-GGTTTGGGATT
*
10564627 TGTGGTTTAGGATTTGGGATT
1 TGAGGTTTAGG-TTTGGGATT
* * *
10564648 TGAGATTTGGGGTTTGGGGTT
1 TGAGGTTT-AGGTTTGGGATT
*
10564669 TGGGGTTT
1 TGAGGTTT
10564677 GGGGTTAAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.13, C:0.00, G:0.41, T:0.46
Consensus pattern (20 bp):
TGAGGTTTAGGTTTGGGATT
Found at i:10564654 original size:14 final size:14
Alignment explanation
Indices: 10564606--10564677 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
10564596 GTTTATAGTC
**
10564606 TGAGATTTATGGTT
1 TGAGATTTGGGGTT
* *
10564620 TGGGATTTGTGGTT
1 TGAGATTTGGGGTT
*
10564634 T-AGGATTTGGGATT
1 TGA-GATTTGGGGTT
10564648 TGAGATTTGGGGTT
1 TGAGATTTGGGGTT
* *
10564662 TGGGGTTTGGGGTT
1 TGAGATTTGGGGTT
10564676 TG
1 TG
10564678 GGGTTAAGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 47 0.98
15 1 0.02
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.46
Consensus pattern (14 bp):
TGAGATTTGGGGTT
Found at i:10564677 original size:21 final size:21
Alignment explanation
Indices: 10564616--10564682 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
10564606 TGAGATTTAT
* *
10564616 GGTTTGGGATTTGTGGTTTAG
1 GGTTTGGGATTTGAGGTTTGG
* *
10564637 GATTTGGGATTTGAGATTTGG
1 GGTTTGGGATTTGAGGTTTGG
* *
10564658 GGTTTGGGGTTTGGGGTTTGG
1 GGTTTGGGATTTGAGGTTTGG
10564679 GGTT
1 GGTT
10564683 AAGGGTTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.09, C:0.00, G:0.46, T:0.45
Consensus pattern (21 bp):
GGTTTGGGATTTGAGGTTTGG
Found at i:10564680 original size:7 final size:7
Alignment explanation
Indices: 10564616--10564682 Score: 71
Period size: 7 Copynumber: 9.6 Consensus size: 7
10564606 TGAGATTTAT
10564616 GGTTTGG
1 GGTTTGG
* *
10564623 GATTTGT
1 GGTTTGG
*
10564630 GGTTTAG
1 GGTTTGG
*
10564637 GATTTGG
1 GGTTTGG
* *
10564644 GATTTGA
1 GGTTTGG
*
10564651 GATTTGG
1 GGTTTGG
10564658 GGTTTGG
1 GGTTTGG
10564665 GGTTTGG
1 GGTTTGG
10564672 GGTTTGG
1 GGTTTGG
10564679 GGTT
1 GGTT
10564683 AAGGGTTTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.09, C:0.00, G:0.46, T:0.45
Consensus pattern (7 bp):
GGTTTGG
Found at i:10564682 original size:14 final size:14
Alignment explanation
Indices: 10564616--10564679 Score: 83
Period size: 14 Copynumber: 4.6 Consensus size: 14
10564606 TGAGATTTAT
*
10564616 GGTTTGGGATTTGT
1 GGTTTGGGATTTGG
*
10564630 GGTTTAGGATTTGG
1 GGTTTGGGATTTGG
* *
10564644 GATTTGAGATTTGG
1 GGTTTGGGATTTGG
*
10564658 GGTTTGGGGTTTGG
1 GGTTTGGGATTTGG
10564672 GGTTTGGG
1 GGTTTGGG
10564680 GTTAAGGGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.09, C:0.00, G:0.47, T:0.44
Consensus pattern (14 bp):
GGTTTGGGATTTGG
Found at i:10564688 original size:14 final size:14
Alignment explanation
Indices: 10564657--10564690 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10564647 TTGAGATTTG
**
10564657 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTAA
10564671 GGGTTTGGGGTTAA
1 GGGTTTGGGGTTAA
10564685 GGGTTT
1 GGGTTT
10564691 AAGGGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.53, T:0.41
Consensus pattern (14 bp):
GGGTTTGGGGTTAA
Found at i:10565006 original size:7 final size:7
Alignment explanation
Indices: 10564985--10565094 Score: 55
Period size: 7 Copynumber: 15.4 Consensus size: 7
10564975 CTATTTATCA
*
10564985 TTATAGT
1 TTATGGT
*
10564992 TTAGGGT
1 TTATGGT
10564999 TTATGGT
1 TTATGGT
*
10565006 TTAGGGT
1 TTATGGT
*
10565013 ATATGGT
1 TTATGGT
10565020 TTA-GTGT
1 TTATG-GT
**
10565027 TTAAAGT
1 TTATGGT
*
10565034 GTATGAGT
1 TTATG-GT
10565042 TACTAT--T
1 T--TATGGT
*
10565049 TTAAGGT
1 TTATGGT
*
10565056 TTATGGA
1 TTATGGT
10565063 TTATGGGT
1 TTAT-GGT
*
10565071 TTAGGGT
1 TTATGGT
10565078 TTATGGT
1 TTATGGT
*
10565085 GTATGGT
1 TTATGGT
10565092 TTA
1 TTA
10565095 AGGGTTGGAG
Statistics
Matches: 75, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
5 2 0.03
6 1 0.01
7 62 0.83
8 7 0.09
10 3 0.04
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:10565007 original size:14 final size:14
Alignment explanation
Indices: 10564985--10565100 Score: 65
Period size: 14 Copynumber: 8.1 Consensus size: 14
10564975 CTATTTATCA
*
10564985 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
10564999 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
10565013 ATATGGTTTAGTGT
1 TTATGGTTTAGGGT
** * *
10565027 TTAAAGTGTATGAGT
1 TTATGGTTTA-GGGT
*
10565042 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
*
10565056 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* *
10565071 TTAGGGTTTATGGT
1 TTATGGTTTAGGGT
*
10565085 GTATGGTTTAAGGGT
1 TTATGGTTT-AGGGT
10565100 T
1 T
10565101 GGAGATTAAG
Statistics
Matches: 74, Mismatches: 21, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
12 3 0.04
14 47 0.64
15 22 0.30
17 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:10565098 original size:22 final size:23
Alignment explanation
Indices: 10565048--10565100 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
10565038 GAGTTACTAT
10565048 TTTAA-GGTTTATGGATTATGGG
1 TTTAAGGGTTTATGGATTATGGG
10565070 TTT-AGGGTTTATGG-TGTAT-GG
1 TTTAAGGGTTTATGGAT-TATGGG
10565091 TTTAAGGGTT
1 TTTAAGGGTT
10565101 GGAGATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (23 bp):
TTTAAGGGTTTATGGATTATGGG
Found at i:10565912 original size:116 final size:113
Alignment explanation
Indices: 10565555--10566078 Score: 481
Period size: 114 Copynumber: 4.7 Consensus size: 113
10565545 CACCGTTTTC
* * * *
10565555 TTTGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGATTG-ATTTATCGGCGC-AAGG
1 TTTGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATA-GTTTGCCTTTAGCGGCGCTAGGG
* * * *
10565618 TTATAAATGCCTCTAATGGTTATTTTGTTTATATCAAAACG-GTGTAGTTT
65 ATA-AAACGCCACTAATGGTTATTCTGTTTATATCAAAACGCGT-TAGTTT
* * * * * *
10565668 TCATGAATTTTTAGTGGCGTTTTTGGTTAAAACGCCACAATAGGTTTG-ATTTAGTGGCGCTAGG
1 T-TTGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATA-GTTTGCCTTTAGCGGCGCTAGG
* *
10565732 G-TATAAACGCCACTAATGGTTATTTTGTTTATATCAAAACG-ATGTAGTTT
64 GATA-AAACGCCACTAATGGTTATTCTGTTTATATCAAAACGCGT-TAGTTT
* * * *
10565782 TATTCGATTCTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGTTTCGCCTTTAGCGGCGCTTGG
1 T-TTGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGTTT-GCCTTTAGCGGCGCTAGG
* * *
10565847 AGATAAAATGCCACTAAAT-GTTATTCTGTTTATATGAAAACGCCGTTACTTT
64 -GATAAAACGCCACT-AATGGTTATTCTGTTTATATCAAAACG-CGTTAGTTT
* * *
10565899 TTTGGATTTTTAGTGGCATTTTAGGGTT-AAACGCCGCAATTGATTTGCCATTAGCGGCGCTAGG
1 TTTGGATTTTTAGTGGCGTTTTA-GGTTAAAACGCCGCAATAG-TTTGCCTTTAGCGGCGCTAGG
* * * *
10565963 GAAAAAACGCCACTAAAGTTTATTCTGTTTATAT-----CGTCGTT--TTG
64 GATAAAACGCCACTAATGGTTATTCTGTTTATATCAAAACG-CGTTAGTTT
* *
10566007 TTT-GATTTTTAGTGGCG-TTTATGTTAAAACGCCGCAATTGGTTTGCCTTTAGCGGCGCTA-GG
1 TTTGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAA-TAGTTTGCCTTTAGCGGCGCTAGGG
*
10566069 AGAAAACGCC
65 ATAAAACGCC
10566079 GCAAATGTTA
Statistics
Matches: 352, Mismatches: 45, Indels: 36
0.81 0.10 0.08
Matches are distributed among these distances:
105 14 0.04
106 33 0.09
107 15 0.04
108 5 0.01
110 6 0.02
113 5 0.01
114 134 0.38
115 43 0.12
116 79 0.22
117 17 0.05
118 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (113 bp):
TTTGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGTTTGCCTTTAGCGGCGCTAGGGA
TAAAACGCCACTAATGGTTATTCTGTTTATATCAAAACGCGTTAGTTT
Found at i:10565933 original size:230 final size:228
Alignment explanation
Indices: 10565491--10565997 Score: 526
Period size: 230 Copynumber: 2.2 Consensus size: 228
10565481 AACATTGGAT
* * * * * * ****
10565491 TTAGCGGCGTTAGGGAATAAACGGCGCTAAAGGTTATTCT-ATTATA-CAAGACGACACCGTTTT
1 TTAGCGGCGCTAGGGAAAAAACGCCACTAAAGGTTATTCTGTTTATATCAAAACGATGTAGTTTT
* * * * * *
10565554 CTTTGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGATTGATTTATCGGCGCAAGGT
66 -ATTCGATTCTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGATTGATTTAGCGGCGCAAGGA
* * * *
10565619 TATAAATGCCTCTAATGGTTATTTTGTTTATATCAAAACGGTGTAGTTTTCATGAATTTTTAGTG
130 GATAAATGCCACTAATGGTTATTCTGTTTATATCAAAACGGTGTACTTTTCATGAATTTTTAGTG
* * *
10565684 GCGTTTTTGGTTAAAACGCCACAATAGGTTTG-A
195 GCATTTTGGGTTAAAACGCCACAATAGATTTGCA
* * * * *
10565717 TTTAGTGGCGCTAGGGTATAAACGCCACTAATGGTTATTTTGTTTATATCAAAACGATGTAGTTT
1 -TTAGCGGCGCTAGGGAAAAAACGCCACTAAAGGTTATTCTGTTTATATCAAAACGATGTAGTTT
* * **
10565782 TATTCGATTCTTAGTGGCGTTTTAGGGTAAAACGCCGCAATA-GTTTCGCCTTTAGCGGCGCTTG
65 TATTCGATTCTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGATT-G-ATTTAGCGGCGCAAG
* * *
10565846 GAGATAAAATGCCACTAAAT-GTTATTCTGTTTATATGAAAACGCCGT-TACTTTT-TTGGATTT
128 GAGAT-AAATGCCACT-AATGGTTATTCTGTTTATATCAAAACG--GTGTACTTTTCATGAATTT
* *
10565908 TTAGTGGCATTTTAGGGTT-AAACGCCGCAATTGATTTGCCA
189 TTAGTGGCATTTT-GGGTTAAAACGCCACAATAGATTTG-CA
*
10565949 TTAGCGGCGCTAGGGAAAAAACGCCACTAAAGTTTATTCTGTTTATATC
1 TTAGCGGCGCTAGGGAAAAAACGCCACTAAAGGTTATTCTGTTTATATC
10565998 GTCGTTTTGT
Statistics
Matches: 228, Mismatches: 41, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
227 36 0.16
228 43 0.19
229 26 0.11
230 64 0.28
231 56 0.25
232 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (228 bp):
TTAGCGGCGCTAGGGAAAAAACGCCACTAAAGGTTATTCTGTTTATATCAAAACGATGTAGTTTT
ATTCGATTCTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGATTGATTTAGCGGCGCAAGGAG
ATAAATGCCACTAATGGTTATTCTGTTTATATCAAAACGGTGTACTTTTCATGAATTTTTAGTGG
CATTTTGGGTTAAAACGCCACAATAGATTTGCA
Found at i:10566059 original size:106 final size:107
Alignment explanation
Indices: 10565674--10566088 Score: 342
Period size: 116 Copynumber: 3.7 Consensus size: 107
10565664 GTTTTCATGA
* * * * * * *
10565674 ATTTTTAGTGGCGTTTTTGGTTAAAACGCCACAATAGGTTTG-ATTTAGTGGCGCTAGGGTATAA
1 ATTTTTAGTGGCG-TTTAGGTTAAAACGCCGCAATTGGTTTGCCTTTAGCGGCGCTAGGGAAAAA
* ** *
10565738 ACGCCACT-AATGGTTATTTTGTTTATATCAAAACGATGTAGTTTTATTCG
65 ACGCCACTAAAT-GTTATTCTGTTTATAT----AC---GCCGTTTTATTTG
* * * * *
10565788 ATTCTTAGTGGCGTTTTAGGGTAAAACGCCGCAA-TAGTTTCGCCTTTAGCGGCGCTTGGAGATA
1 ATTTTTAGTGGCG-TTTAGGTTAAAACGCCGCAATTGGTTT-GCCTTTAGCGGCGCTAGG-GAAA
* *
10565852 AAATGCCACTAAATGTTATTCTGTTTATATGAAAACGCCGTTACTTTTTTGG
63 AAACGCCACTAAATGTTATTCTGTTTATAT----ACGCCGTT--TTATTT-G
* * *
10565904 ATTTTTAGTGGCATTTTAGGGTT-AAACGCCGCAATTGATTTGCCATTAGCGGCGCTAGGGAAAA
1 ATTTTTAGTGGC-GTTTA-GGTTAAAACGCCGCAATTGGTTTGCCTTTAGCGGCGCTAGGGAAAA
* *
10565968 AACGCCACTAAA-GTTTATTCTGTTTATAT-CGTCGTTTTGTTTG
64 AACGCCACTAAATG-TTATTCTGTTTATATACGCCGTTTTATTTG
* *
10566011 ATTTTTAGTGGCGTTTATGTTAAAACGCCGCAATTGGTTTGCCTTTAGCGGCGCTA-GGAGAAAA
1 ATTTTTAGTGGCGTTTAGGTTAAAACGCCGCAATTGGTTTGCCTTTAGCGGCGCTAGGGAAAAAA
*
10566075 CGCCGC-AAATGTTA
66 CGCCACTAAATGTTA
10566089 ATTTATTTTG
Statistics
Matches: 252, Mismatches: 36, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
104 6 0.02
105 16 0.06
106 36 0.14
107 13 0.05
108 5 0.02
110 6 0.02
113 8 0.03
114 32 0.13
115 47 0.19
116 73 0.29
117 10 0.04
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (107 bp):
ATTTTTAGTGGCGTTTAGGTTAAAACGCCGCAATTGGTTTGCCTTTAGCGGCGCTAGGGAAAAAA
CGCCACTAAATGTTATTCTGTTTATATACGCCGTTTTATTTG
Found at i:10566248 original size:59 final size:60
Alignment explanation
Indices: 10566156--10566277 Score: 158
Period size: 59 Copynumber: 2.0 Consensus size: 60
10566146 TATTCATTTC
* * * * *
10566156 CCCCCTTCTCCCTGGTTTATTTTCCTCATTTTCCCTT--CTCTGAATCCCTAAAATAATCA
1 CCCCCTTCTCCCTAGTTTATTTCCCCCATTTTCCCTTAATTC-GAAACCCTAAAATAATCA
* *
10566215 CCCCCTTCTCCCTAGTTTATTTCCCCCCTTTTCCCTTAATTCGAAACCCTAAAATAATTA
1 CCCCCTTCTCCCTAGTTTATTTCCCCCATTTTCCCTTAATTCGAAACCCTAAAATAATCA
10566275 CCC
1 CCC
10566278 TTTTTTCCCC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 33 0.61
60 19 0.35
61 2 0.04
ACGTcount: A:0.20, C:0.38, G:0.04, T:0.38
Consensus pattern (60 bp):
CCCCCTTCTCCCTAGTTTATTTCCCCCATTTTCCCTTAATTCGAAACCCTAAAATAATCA
Found at i:10569378 original size:90 final size:85
Alignment explanation
Indices: 10569191--10569397 Score: 414
Period size: 85 Copynumber: 2.4 Consensus size: 85
10569181 TTGATCCAAA
10569191 ATTTTAAATATTTTATTTTATTTCACTTTAATTTAATTGCAGTGCTATAGCAACTTGAATTAAAT
1 ATTTTAAATATTTTATTTTATTTCACTTTAATTTAATTGCAGTGCTATAGCAACTTGAATTAAAT
10569256 TAAATTGTATTTAAAGTTTT
66 TAAATTGTATTTAAAGTTTT
10569276 ATTTTAAATATTTTATTTTATTTCACTTTAATTTAATTGCAGTGCTATAGCAACTTGAATTAAAT
1 ATTTTAAATATTTTATTTTATTTCACTTTAATTTAATTGCAGTGCTATAGCAACTTGAATTAAAT
10569341 TAAATTGTATTTAAAGTTTT
66 TAAATTGTATTTAAAGTTTT
10569361 ATTTTAAATATTTTATTTTATTTCACTTTAATTTAAT
1 ATTTTAAATATTTTATTTTATTTCACTTTAATTTAAT
10569398 CACAACATAT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 122 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.53
Consensus pattern (85 bp):
ATTTTAAATATTTTATTTTATTTCACTTTAATTTAATTGCAGTGCTATAGCAACTTGAATTAAAT
TAAATTGTATTTAAAGTTTT
Found at i:10569495 original size:25 final size:24
Alignment explanation
Indices: 10569467--10569540 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 24
10569457 TTTATTTTGG
10569467 ATTAATCAGGACACAATTTTTTTAA
1 ATTAATCA-GACACAATTTTTTTAA
**
10569492 ATT-A-C-GACAC-ATATTTTGCAA
1 ATTAATCAGACACAAT-TTTTTTAA
*
10569513 TTTAATCACGACACAA-TTTTTTAA
1 ATTAATCA-GACACAATTTTTTTAA
10569537 ATTA
1 ATTA
10569541 CATATTTTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 13
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.05
21 13 0.35
22 1 0.03
23 2 0.05
24 10 0.27
25 8 0.22
26 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (24 bp):
ATTAATCAGACACAATTTTTTTAA
Found at i:10569650 original size:9 final size:9
Alignment explanation
Indices: 10569638--10569663 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10569628 ATCATATAAT
10569638 AACTTACAA
1 AACTTACAA
10569647 AACTTACAA
1 AACTTACAA
10569656 AACTTACA
1 AACTTACA
10569664 TATTACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (9 bp):
AACTTACAA
Found at i:10569685 original size:13 final size:13
Alignment explanation
Indices: 10569669--10569754 Score: 68
Period size: 13 Copynumber: 6.3 Consensus size: 13
10569659 TTACATATTA
10569669 CATAAATATATAT
1 CATAAATATATAT
10569682 CATAAATATATAT
1 CATAAATATATAT
*
10569695 CATATCATA-ACT-T
1 CATA-AATATA-TAT
* *
10569708 ACACAAATAACATAAT
1 -CATAAAT-ATAT-AT
*
10569724 ACATAAATATATTT
1 -CATAAATATATAT
10569738 CATAAATATATAT
1 CATAAATATATAT
10569751 CATA
1 CATA
10569755 TCATAACTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
13 37 0.63
14 10 0.17
15 4 0.07
16 8 0.14
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:10569705 original size:65 final size:69
Alignment explanation
Indices: 10569623--10569754 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 69
10569613 TAATGTTTAT
* *
10569623 TATATATCATATAATAACTTACA-AAACTTACA-AA-AC-T-TACATATTACATAAATATATATC
1 TATATATCATATAATAACTTACACAAA-TAACATAATACATAAACATATTACATAAATATATATC
10569683 ATAAA
65 ATAAA
* * *
10569688 TATATATCATATCATAACTTACACAAATAACATAATACATAAATATATTTCATAAATATATATCA
1 TATATATCATATAATAACTTACACAAATAACATAATACATAAACATATTACATAAATATATATCA
10569753 TA
66 TA
10569755 TCATAACTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
65 26 0.46
66 5 0.09
67 2 0.04
68 1 0.02
69 23 0.40
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.35
Consensus pattern (69 bp):
TATATATCATATAATAACTTACACAAATAACATAATACATAAACATATTACATAAATATATATCA
TAAA
Found at i:10569708 original size:56 final size:56
Alignment explanation
Indices: 10569647--10569795 Score: 221
Period size: 56 Copynumber: 2.6 Consensus size: 56
10569637 TAACTTACAA
*
10569647 AACTTACAAAACTTACATATTACATAAATATATATCATAAATATATATCATATCAT
1 AACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCAT
* *
10569703 AACTTACACAAA-TAACATAATACATAAATATATTTCATAAATATATATCATATCAT
1 AACTTACA-AAACTTACATAATACATAAATATATATCATAAATATATATCATATCAT
*
10569759 AACTTACACAACTTACATAATAC-TCCAAATATATATC
1 AACTTACAAAACTTACATAATACAT--AAATATATATC
10569796 TTATCATAAC
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
55 3 0.04
56 67 0.81
57 13 0.16
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.34
Consensus pattern (56 bp):
AACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCAT
Found at i:10569734 original size:43 final size:43
Alignment explanation
Indices: 10569682--10569853 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
10569672 AAATATATAT
10569682 CATAAATATATATCATATCATAACTTACACAAATAACATAATA
1 CATAAATATATATCATATCATAACTTACACAAATAACATAATA
* * * *
10569725 CATAAATATATTTCATAAAT-ATATATCATATCATAACTTACACAACTTACATAA
1 CATAAATATATATCAT--ATCATA-A-CTTA-CACAA-ATA-AC-A--TA-AT-A
* * * *
10569779 TACTCCAAATATATATCTTATCATAACTTACACAACTTACATAATA
1 CA-T--AAATATATATCATATCATAACTTACACAAATAACATAATA
10569825 CATAAATATATATCATATCATAACTTACA
1 CATAAATATATATCATATCATAACTTACA
10569854 TACCTTACAT
Statistics
Matches: 100, Mismatches: 13, Indels: 32
0.69 0.09 0.22
Matches are distributed among these distances:
43 40 0.40
44 3 0.03
45 4 0.04
46 5 0.05
47 6 0.06
48 4 0.04
49 2 0.02
50 2 0.02
51 2 0.02
52 3 0.03
53 6 0.06
54 5 0.05
55 4 0.04
56 3 0.03
57 11 0.11
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (43 bp):
CATAAATATATATCATATCATAACTTACACAAATAACATAATA
Found at i:10569791 original size:44 final size:43
Alignment explanation
Indices: 10569738--10569865 Score: 204
Period size: 44 Copynumber: 3.0 Consensus size: 43
10569728 AAATATATTT
10569738 CATAAATATATATCATATCATAACTTACACAACTTACATAATA
1 CATAAATATATATCATATCATAACTTACACAACTTACATAATA
*
10569781 C-TCCAAATATATATCTTATCATAACTTACACAACTTACATAATA
1 CAT--AAATATATATCATATCATAACTTACACAACTTACATAATA
* *
10569825 CATAAATATATATCATATCATAACTTACATACCTTACATAA
1 CATAAATATATATCATATCATAACTTACACAACTTACATAA
10569866 ATGCATATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
42 1 0.01
43 36 0.46
44 40 0.51
45 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (43 bp):
CATAAATATATATCATATCATAACTTACACAACTTACATAATA
Found at i:10569897 original size:36 final size:36
Alignment explanation
Indices: 10569823--10569897 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
10569813 ACTTACATAA
* * *
10569823 TACATAAATATATATCATATCATAACTTACATACCT
1 TACATAAATACATATCATAACATAACTTACAAACCT
* *
10569859 TACATAAATGCATATCATAACATAACTTACAAAGCT
1 TACATAAATACATATCATAACATAACTTACAAACCT
10569895 TAC
1 TAC
10569898 TTAACTTACG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (36 bp):
TACATAAATACATATCATAACATAACTTACAAACCT
Found at i:10574939 original size:13 final size:14
Alignment explanation
Indices: 10574923--10574951 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10574913 TTATAAATAT
10574923 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
10574936 TTATAATGGTTTAA
1 TTATAATGGTTTAA
10574950 TT
1 TT
10574952 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:10575404 original size:21 final size:21
Alignment explanation
Indices: 10575361--10575405 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10575351 ACTTAGAGCG
* *
10575361 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGCAGACA
10575382 GAGGCAGCAGCGATGGCA-ACA
1 GAGGCAGCAGCGA-GGCAGACA
10575403 GAG
1 GAG
10575406 CAGAGCAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.31, C:0.20, G:0.47, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGCAGACA
Found at i:10575835 original size:43 final size:43
Alignment explanation
Indices: 10575787--10575909 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
10575777 TTTGTGAAAA
* *
10575787 AAACGCCGCTAAAAGCCATGAATTTTAGCGGCGC-TTTCCTCAC
1 AAACGCCGCTAAAAGCCATGAACTTTAGCGGCGCTTTTCC-AAC
* *
10575830 AAACGCCGCTAAAAGCCATGACCTTTAGCGGTGCTTTTCCAAC
1 AAACGCCGCTAAAAGCCATGAACTTTAGCGGCGCTTTTCCAAC
* * * *
10575873 AAACGCTGCTAAAAGTCATG--CTTTATCGGCCCTTTTC
1 AAACGCCGCTAAAAGCCATGAACTTTAGCGGCGCTTTTC
10575910 TCACAATGCC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 14 0.20
43 51 0.73
44 5 0.07
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAAGCCATGAACTTTAGCGGCGCTTTTCCAAC
Found at i:10579048 original size:13 final size:14
Alignment explanation
Indices: 10579020--10579051 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
10579010 ATAATAACAT
10579020 ATAATGAAAGAATA
1 ATAATGAAAGAATA
10579034 ATAATGAAA-AATA
1 ATAATGAAAGAATA
10579047 ATAAT
1 ATAAT
10579052 CAGATATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (14 bp):
ATAATGAAAGAATA
Found at i:10579521 original size:28 final size:28
Alignment explanation
Indices: 10579481--10579537 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10579471 TGATATGGTT
10579481 TGTTAAGAATAACATAAAATAAATGATC
1 TGTTAAGAATAACATAAAATAAATGATC
10579509 TGTTAAGAATAACATAAAATAAATGATC
1 TGTTAAGAATAACATAAAATAAATGATC
10579537 T
1 T
10579538 TGAAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (28 bp):
TGTTAAGAATAACATAAAATAAATGATC
Found at i:10580980 original size:18 final size:18
Alignment explanation
Indices: 10580959--10580993 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10580949 AATACATAAT
10580959 ATATTAATTATTATATTA
1 ATATTAATTATTATATTA
*
10580977 ATATTTATTATTATATT
1 ATATTAATTATTATATT
10580994 GATTGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTAATTATTATATTA
Found at i:10581237 original size:29 final size:29
Alignment explanation
Indices: 10581179--10581238 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
10581169 TATAATGTAA
* **
10581179 TAATAGTTATATATGTATTAAAGTTTTAG
1 TAATAGTTACATATGTATTAAAGTAATAG
*
10581208 TAATAGTTACATACTGTATT-ATGTAATAG
1 TAATAGTTACATA-TGTATTAAAGTAATAG
10581237 TA
1 TA
10581239 TAGCATCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.45
Consensus pattern (29 bp):
TAATAGTTACATATGTATTAAAGTAATAG
Found at i:10583942 original size:16 final size:16
Alignment explanation
Indices: 10583923--10583955 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10583913 TTTTATATTA
10583923 AAATATTATT-ATTTTT
1 AAAT-TTATTGATTTTT
10583939 AAATTTATTGATTTTT
1 AAATTTATTGATTTTT
10583955 A
1 A
10583956 TTAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
AAATTTATTGATTTTT
Found at i:10583972 original size:18 final size:18
Alignment explanation
Indices: 10583912--10583974 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
10583902 ACATCATCCC
10583912 TTTTTATATTAAAATATTA
1 TTTTT-TATTAAAATATTA
* *
10583931 TTATTT-TTAAATTTATTGA
1 TTTTTTATTAAA-ATATT-A
10583950 -TTTTTATTAAAATATTA
1 TTTTTTATTAAAATATTA
10583967 TTTTTTAT
1 TTTTTTAT
10583975 AGTTGGCACC
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
17 6 0.17
18 20 0.56
19 10 0.28
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTTATTAAAATATTA
Found at i:10584740 original size:13 final size:13
Alignment explanation
Indices: 10584722--10584747 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10584712 TTTTCGAATG
10584722 AACTTACTAAGCA
1 AACTTACTAAGCA
10584735 AACTTACTAAGCA
1 AACTTACTAAGCA
10584748 CCGTGTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
AACTTACTAAGCA
Found at i:10587164 original size:171 final size:171
Alignment explanation
Indices: 10586879--10587211 Score: 506
Period size: 171 Copynumber: 1.9 Consensus size: 171
10586869 GGGGTCATTC
* *
10586879 TGGGTGGCCTATTAAATATTAATTCAACTAAGCCATCTTGATGTCGAGAAATTTCACTTAAAGAA
1 TGGGTGGCCTATTAAATAATAATTCAACTAAGCCATCTTGATGTCGAGAAATTTCACTTAAAAAA
* *
10586944 GTGTTTCTAATTGGGGTTAGTGCAATAGGGGCTAAGCACCTTCTAGTTTTCATTTGGTAAGGAGA
66 GTGTTTCTAATTGAGGTTAGTGCAACAGGGGCTAAGCACCTTCTAGTTTTCATTTGGTAAGGAGA
*
10587009 TTGATTTCATGTCATTGCATTGTTCTTGGGATGTCATGTTT
131 TTGATTTCATGTCATTGCATTGCTCTTGGGATGTCATGTTT
* * * * *
10587050 TGGGTGGCCTATTGAATAATAATTCAATTGAGCCATCTTGGTGTGGAGAAATTTCACTTAAAAAA
1 TGGGTGGCCTATTAAATAATAATTCAACTAAGCCATCTTGATGTCGAGAAATTTCACTTAAAAAA
* * * * *
10587115 GTGTTTTTTATTGAGGTTAGTGTAACAGGGTCTATAGCACC-TCTAGTTTTCATTTGGTAGGGAG
66 GTGTTTCTAATTGAGGTTAGTGCAACAGGGGCTA-AGCACCTTCTAGTTTTCATTTGGTAAGGAG
*
10587179 ATTGATTTCATGTCATTGTATTGCTCTTGGGAT
130 ATTGATTTCATGTCATTGCATTGCTCTTGGGAT
10587212 TATGGTATGA
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
171 139 0.96
172 6 0.04
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (171 bp):
TGGGTGGCCTATTAAATAATAATTCAACTAAGCCATCTTGATGTCGAGAAATTTCACTTAAAAAA
GTGTTTCTAATTGAGGTTAGTGCAACAGGGGCTAAGCACCTTCTAGTTTTCATTTGGTAAGGAGA
TTGATTTCATGTCATTGCATTGCTCTTGGGATGTCATGTTT
Found at i:10587682 original size:21 final size:21
Alignment explanation
Indices: 10587658--10587709 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
10587648 CTATTAATAA
10587658 TTGGATAGTTTCATATTCTTT
1 TTGGATAGTTTCATATTCTTT
10587679 TTGGATAGTTTCATATTCTTT
1 TTGGATAGTTTCATATTCTTT
10587700 TTGGATAGTT
1 TTGGATAGTT
10587710 GAACTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.08, G:0.17, T:0.56
Consensus pattern (21 bp):
TTGGATAGTTTCATATTCTTT
Found at i:10588819 original size:24 final size:25
Alignment explanation
Indices: 10588791--10588846 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
10588781 TGAATTTTAT
*
10588791 AATTTTTATTTTTAT-TTTTTTACA
1 AATTTTTATTTTTATAATTTTTACA
* **
10588815 AATTTAT-TTTTTATAATTTTTAGT
1 AATTTTTATTTTTATAATTTTTACA
10588839 AATTTTTA
1 AATTTTTA
10588847 ATAATTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (25 bp):
AATTTTTATTTTTATAATTTTTACA
Found at i:10588856 original size:10 final size:10
Alignment explanation
Indices: 10588820--10588856 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
10588810 TTACAAATTT
*
10588820 ATTTTTTATA
1 ATTTTTAATA
*
10588830 ATTTTTAGTA
1 ATTTTTAATA
10588840 ATTTTTAATA
1 ATTTTTAATA
10588850 ATTTTTA
1 ATTTTTA
10588857 CAAATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:10588862 original size:20 final size:20
Alignment explanation
Indices: 10588820--10588867 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
10588810 TTACAAATTT
* **
10588820 ATTTTTTATAATTTTTAGTA
1 ATTTTTAATAATTTTTACAA
10588840 ATTTTTAATAATTTTTACAA
1 ATTTTTAATAATTTTTACAA
*
10588860 ATTGTTAA
1 ATTTTTAA
10588868 ACTTTTGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
ATTTTTAATAATTTTTACAA
Found at i:10610475 original size:21 final size:21
Alignment explanation
Indices: 10610432--10610480 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
10610422 GCACCAAGGG
*
10610432 AAAT-CTTTAGAAACATTGTT
1 AAATCCTTTAGAAACATTGGT
**
10610452 AAATCCTTTAGAAATTTTGGT
1 AAATCCTTTAGAAACATTGGT
*
10610473 AAAGCCTT
1 AAATCCTT
10610481 AGGAATATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (21 bp):
AAATCCTTTAGAAACATTGGT
Found at i:10619670 original size:26 final size:26
Alignment explanation
Indices: 10619634--10619686 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10619624 GTCTTAAGAG
10619634 TAAGACTTCTATGTACTCATTATGTT
1 TAAGACTTCTATGTACTCATTATGTT
10619660 TAAGACTTCTATGTACTCATTATGTT
1 TAAGACTTCTATGTACTCATTATGTT
10619686 T
1 T
10619687 TGGAATTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.47
Consensus pattern (26 bp):
TAAGACTTCTATGTACTCATTATGTT
Found at i:10641165 original size:20 final size:19
Alignment explanation
Indices: 10641131--10641186 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
10641121 TACATATTTC
10641131 ATCATT-TAA-AAAAAATAT
1 ATCATTATAATAAAAAAT-T
*
10641149 AT-ATTTATTATAAAAAATT
1 ATCA-TTATAATAAAAAATT
10641168 ATCATTATAATAAAAAATT
1 ATCATTATAATAAAAAATT
10641187 TAAAACGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 1 0.03
18 4 0.12
19 19 0.59
20 8 0.25
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
ATCATTATAATAAAAAATT
Found at i:10642143 original size:11 final size:12
Alignment explanation
Indices: 10642120--10642148 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
10642110 TATAAGTATA
10642120 TTATAATACTTT
1 TTATAATACTTT
10642132 TTATAATA-TTT
1 TTATAATACTTT
10642143 TTATAA
1 TTATAA
10642149 CTCACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATAATACTTT
Found at i:10645770 original size:31 final size:32
Alignment explanation
Indices: 10645713--10645786 Score: 123
Period size: 31 Copynumber: 2.3 Consensus size: 32
10645703 GGCTAAGCCG
10645713 TGTGGGCCACACGGGCAAGGCCAATTTGGGCA
1 TGTGGGCCACACGGGCAAGGCCAATTTGGGCA
*
10645745 TGTGGGCCACACGGGCAA-GCCAATTTGGGCG
1 TGTGGGCCACACGGGCAAGGCCAATTTGGGCA
*
10645776 TATGGGCCACA
1 TGTGGGCCACA
10645787 GGGACGTGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 22 0.55
32 18 0.45
ACGTcount: A:0.22, C:0.26, G:0.36, T:0.16
Consensus pattern (32 bp):
TGTGGGCCACACGGGCAAGGCCAATTTGGGCA
Found at i:10646652 original size:13 final size:13
Alignment explanation
Indices: 10646636--10646661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10646626 ACATTACGCA
10646636 AACAAATGGTTTT
1 AACAAATGGTTTT
10646649 AACAAATGGTTTT
1 AACAAATGGTTTT
10646662 TTTGGAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Done.