Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 36 of 226
Found at i:12582999 original size:28 final size:28
Alignment explanation
Indices: 12582959--12583012 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
12582949 GTGTTTTATC
*
12582959 CTTCTTTGCCAAACTCTCAGTTCATATA
1 CTTCTCTGCCAAACTCTCAGTTCATATA
12582987 CTTCTCTGCCAAACTCTCAGTTCATA
1 CTTCTCTGCCAAACTCTCAGTTCATA
12583013 CTCATAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.07, T:0.37
Consensus pattern (28 bp):
CTTCTCTGCCAAACTCTCAGTTCATATA
Found at i:12584115 original size:22 final size:23
Alignment explanation
Indices: 12584090--12584132 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12584080 TCAAAATAGA
* *
12584090 ATGATATTTTTAA-ATTTTTTTC
1 ATGATAATATTAATATTTTTTTC
12584112 ATGATAATATTAATATTTTTT
1 ATGATAATATTAATATTTTTT
12584133 AGATGTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (23 bp):
ATGATAATATTAATATTTTTTTC
Found at i:12584141 original size:22 final size:22
Alignment explanation
Indices: 12584090--12584141 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
12584080 TCAAAATAGA
* * *
12584090 ATGATATTTTTAAATTTTTTTC
1 ATGATAATATTAAATTTTTTAC
*
12584112 ATGATAATATTAATATTTTTTAG
1 ATGATAATATTAA-ATTTTTTAC
12584135 ATG-TAAT
1 ATGATAAT
12584142 TATGTTAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (22 bp):
ATGATAATATTAAATTTTTTAC
Found at i:12588232 original size:50 final size:50
Alignment explanation
Indices: 12588108--12588356 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
12588098 GATAATAACA
* * ** * *
12588108 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
12588159 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
12588209 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
12588259 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
12588314 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
12588357 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:12588286 original size:100 final size:104
Alignment explanation
Indices: 12588107--12588356 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
12588097 TGATAATAAC
**
12588107 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
12588172 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
12588209 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
12588272 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
12588314 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
12588357 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:12588472 original size:13 final size:13
Alignment explanation
Indices: 12588451--12588482 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12588441 GCTTGGATCA
*
12588451 TCATCAAATAAAT
1 TCATAAAATAAAT
12588464 TCATAAAATAAAT
1 TCATAAAATAAAT
12588477 TCATAA
1 TCATAA
12588483 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:12588729 original size:30 final size:30
Alignment explanation
Indices: 12588694--12588751 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
12588684 CCTCGACTCT
*
12588694 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
12588724 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
12588752 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:12593627 original size:18 final size:18
Alignment explanation
Indices: 12593588--12593630 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12593578 GAATAGATTT
*
12593588 TTAATTAAATAAATTTAT
1 TTAATTAAATAAATTTAA
*
12593606 TTAATTAAA-AATTTTAAA
1 TTAATTAAATAAATTT-AA
12593624 TTAATTA
1 TTAATTA
12593631 CACCTTGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTAAATAAATTTAA
Found at i:12599544 original size:28 final size:28
Alignment explanation
Indices: 12599512--12599568 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
12599502 AGATGGAATG
12599512 TATATTACCTTTACTTCAAAATTCTCTA
1 TATATTACCTTTACTTCAAAATTCTCTA
* *
12599540 TATATTACTTTTATTTCAAAATTCTCTA
1 TATATTACCTTTACTTCAAAATTCTCTA
12599568 T
1 T
12599569 CTTCTCTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.51
Consensus pattern (28 bp):
TATATTACCTTTACTTCAAAATTCTCTA
Found at i:12608839 original size:20 final size:19
Alignment explanation
Indices: 12608796--12608839 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
12608786 ATTTTTTTAC
**
12608796 ATTTTTTAAAAACTTACCT
1 ATTTTTTAAAAACTTAAAT
*
12608815 TTTTTTTACAAAACTTAAAT
1 ATTTTTTA-AAAACTTAAAT
12608835 ATTTT
1 ATTTT
12608840 AACAATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTTTAAAAACTTAAAT
Found at i:12608851 original size:10 final size:10
Alignment explanation
Indices: 12608836--12608868 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
12608826 AACTTAAATA
12608836 TTTTAACAA-T
1 TTTTAA-AACT
12608846 TTTTAAAACT
1 TTTTAAAACT
12608856 TTTTAAAACT
1 TTTTAAAACT
12608866 TTT
1 TTT
12608869 ATATTCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 2 0.09
10 20 0.91
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (10 bp):
TTTTAAAACT
Found at i:12608978 original size:10 final size:10
Alignment explanation
Indices: 12608963--12608987 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
12608953 TCAACAGATG
12608963 GTCAAAGTGA
1 GTCAAAGTGA
12608973 GTCAAAGTGA
1 GTCAAAGTGA
12608983 GTCAA
1 GTCAA
12608988 CAACAATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (10 bp):
GTCAAAGTGA
Found at i:12613278 original size:24 final size:24
Alignment explanation
Indices: 12613232--12613278 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
12613222 AAAGTCAAAT
* *
12613232 ATATTATGCTAATAAATGCTAAAA
1 ATATTATACTAATAAATACTAAAA
* *
12613256 ATATTATACTCATAAATATTAAA
1 ATATTATACTAATAAATACTAAA
12613279 TCTTCTAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (24 bp):
ATATTATACTAATAAATACTAAAA
Found at i:12618255 original size:25 final size:25
Alignment explanation
Indices: 12618227--12618295 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 25
12618217 TCCTCCAAGT
*
12618227 TGAATAACGGGAAGCTCATGTGAGC
1 TGAATAACGGGAAGCTCATGCGAGC
* * * *
12618252 TGAATAATGAGAAGTTTATGCGAGC
1 TGAATAACGGGAAGCTCATGCGAGC
* * *
12618277 TGAGTATCGGGATGCTCAT
1 TGAATAACGGGAAGCTCAT
12618296 AAGAGCTTAA
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (25 bp):
TGAATAACGGGAAGCTCATGCGAGC
Found at i:12627007 original size:20 final size:22
Alignment explanation
Indices: 12626984--12627024 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
12626974 ATAATTTTCA
*
12626984 AAAATAGTTTT-T-AGTTTTTT
1 AAAATAATTTTATGAGTTTTTT
12627004 AAAATAATTTTATGAGTTTTT
1 AAAATAATTTTATGAGTTTTT
12627025 AGAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (22 bp):
AAAATAATTTTATGAGTTTTTT
Found at i:12634121 original size:48 final size:48
Alignment explanation
Indices: 12634039--12634132 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
12634029 TTTCTTGGCT
*
12634039 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG
*
12634087 TAAAAACGCTTAAGTCAG-CTCAAC-TCGCGA-CAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-C-ACCAATAAAGGATTCAAC
12634133 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
47 4 0.10
48 36 0.88
49 1 0.02
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG
Found at i:12636631 original size:48 final size:48
Alignment explanation
Indices: 12636549--12636642 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
12636539 TTTCTTGGCT
*
12636549 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG
*
12636597 TAAAAACGCTTAAGTCAG-CTCAAC-TCGCGA-CAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-C-ACCAATAAAGGATTCAAC
12636643 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
47 4 0.10
48 36 0.88
49 1 0.02
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG
Found at i:12637443 original size:2 final size:2
Alignment explanation
Indices: 12637436--12637465 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12637426 AAATACTACA
12637436 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12637466 GATTACATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12639715 original size:89 final size:88
Alignment explanation
Indices: 12639612--12639804 Score: 194
Period size: 90 Copynumber: 2.2 Consensus size: 88
12639602 TTAAGGGTGT
* * *
12639612 AAAAA-ACCTTCAAA-CTTAAAAAAAGAGAGCAATTAAGCCCCTCCT-TTTTTTTACACTCAATT
1 AAAAAGACCCTCAAATCTTAAAAAAA-A-AGCAATTAAACCCCTACTCTTTTTTT-CACTCAATT
*
12639674 GAGCACCGGAACTTTAAAAATGCATA
63 GAGCACCGGAACTTTAAAAATACATA
* * * *
12639700 AAAAAGACCCTCAAACTTCTTCAAAAAAATGCAATTAAACTCTTACTCTTTTTTTCACTCAATTG
1 AAAAAGACCCTCAAA--TCTTAAAAAAAAAGCAATTAAACCCCTACTCTTTTTTTCACTCAATTG
* * ** * *
12639765 GGTACTTGAACTTTCAAAATACATT
64 AGCACCGGAACTTTAAAAATACATA
12639790 AAAAAGACCCTCAAA
1 AAAAAGACCCTCAAA
12639805 ATTTTTCAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
88 5 0.06
89 8 0.09
90 56 0.65
91 8 0.09
92 9 0.10
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.28
Consensus pattern (88 bp):
AAAAAGACCCTCAAATCTTAAAAAAAAAGCAATTAAACCCCTACTCTTTTTTTCACTCAATTGAG
CACCGGAACTTTAAAAATACATA
Found at i:12639752 original size:90 final size:88
Alignment explanation
Indices: 12639658--12639825 Score: 228
Period size: 90 Copynumber: 1.9 Consensus size: 88
12639648 GCCCCTCCTT
* *
12639658 TTTTTTACACTCAATTGAGCACCGGAACTTTAAAAATGCATAAAAAAGACCCTCAAACTTCTTCA
1 TTTTTTACACTCAATTGAGCACCGGAACTTTAAAAATACATAAAAAAGACCCTCAAAATTCTTC-
12639723 AAAAAATGCAATTAAACTCTTACTC
65 AAAAAA-GCAATTAAACTCTTACTC
* * * ** * * *
12639748 TTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATACATTAAAAAGACCCTCAAAATTTTTCA
1 TTTTTTACACTCAATTGAGCACCGGAACTTTAAAAATACATAAAAAAGACCCTCAAAATTCTTCA
12639813 AAAAAGCAATTAA
66 AAAAAGCAATTAA
12639826 GCCCATGCTC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
88 8 0.12
89 6 0.09
90 54 0.79
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (88 bp):
TTTTTTACACTCAATTGAGCACCGGAACTTTAAAAATACATAAAAAAGACCCTCAAAATTCTTCA
AAAAAGCAATTAAACTCTTACTC
Found at i:12639962 original size:44 final size:44
Alignment explanation
Indices: 12639836--12639969 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 44
12639826 GCCCATGCTC
* * *
12639836 TTATTAAAAATTAGAATTTTTTTATAAAAAATAAAAAAAAATAAATT
1 TTATT-AAAATTAGAA-TTTTTTAT-AAAAATCATAAAAAATAAAAT
** * * * * *
12639883 TTAGAAAAATTATTAAATTTTAATAGAAA-CATAAAAATTAAAAT
1 TTATTAAAATTA-GAATTTTTTATAAAAATCATAAAAAATAAAAT
*
12639927 TTATTAAAATTAGAATTTTTTATAAAAATCGTAAAAAATAAAA
1 TTATTAAAATTAGAATTTTTTATAAAAATCATAAAAAATAAAA
12639970 AAATTATAAA
Statistics
Matches: 67, Mismatches: 18, Indels: 7
0.73 0.20 0.08
Matches are distributed among these distances:
43 12 0.18
44 33 0.49
45 4 0.06
46 13 0.19
47 5 0.07
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (44 bp):
TTATTAAAATTAGAATTTTTTATAAAAATCATAAAAAATAAAAT
Found at i:12639973 original size:37 final size:38
Alignment explanation
Indices: 12639932--12640003 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 38
12639922 AAAATTTATT
**
12639932 AAAATTAGAATTTTTTATAAAAATC-GTAAAAAATAAA
1 AAAATTAGAAAATTTTATAAAAATCAGTAAAAAATAAA
* * *
12639969 AAAATTATAAAATTTTATAAATATCATTAAAAAAT
1 AAAATTAGAAAATTTTATAAAAATCAGTAAAAAAT
12640004 TAACGACCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 21 0.72
38 8 0.28
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (38 bp):
AAAATTAGAAAATTTTATAAAAATCAGTAAAAAATAAA
Found at i:12640198 original size:21 final size:21
Alignment explanation
Indices: 12640174--12640213 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12640164 TTATATTTCT
* * *
12640174 TTACATTTTTTTATAATTTAC
1 TTACAATTTTATAAAATTTAC
12640195 TTACAATTTTATAAAATTT
1 TTACAATTTTATAAAATTT
12640214 TATATTTCTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TTACAATTTTATAAAATTTAC
Found at i:12640241 original size:10 final size:10
Alignment explanation
Indices: 12640228--12640314 Score: 59
Period size: 10 Copynumber: 8.3 Consensus size: 10
12640218 TTTCTATATA
12640228 TTTTATAATT
1 TTTTATAATT
* *
12640238 TTTTACGATTT
1 TTTTA-TAATT
**
12640249 TTTTATAAAA
1 TTTTATAATT
*
12640259 TTTTACAATTTT
1 TTTTATAA--TT
*
12640271 TTTTATATTT
1 TTTTATAATT
12640281 TTTTATAA-T
1 TTTTATAATT
*
12640290 TTTTAGATATAT
1 TTTTATA-AT-T
12640302 TTTTATAATT
1 TTTTATAATT
12640312 TTT
1 TTT
12640315 AATATTTAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
9 7 0.12
10 27 0.47
11 10 0.18
12 13 0.23
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:12640284 original size:22 final size:22
Alignment explanation
Indices: 12640228--12640293 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
12640218 TTTCTATATA
*
12640228 TTTTATAATTTTTTACGA-TTT
1 TTTTATAATTTTTTACAATTTT
**
12640249 TTTTATAAAATTTTACAATTTT
1 TTTTATAATTTTTTACAATTTT
* *
12640271 TTTTATATTTTTTTATAATTTT
1 TTTTATAATTTTTTACAATTTT
12640293 T
1 T
12640294 AGATATATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 15 0.41
22 22 0.59
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTATAATTTTTTACAATTTT
Found at i:12640299 original size:21 final size:20
Alignment explanation
Indices: 12640269--12640321 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
12640259 TTTTACAATT
*
12640269 TTTTTTATATTTTTTTATAA
1 TTTTTAATATTTTTTTATAA
*
12640289 TTTTTAGATATATTTTTATAA
1 TTTTTA-ATATTTTTTTATAA
12640310 TTTTTAATATTT
1 TTTTTAATATTT
12640322 AAATGTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 10 0.34
21 19 0.66
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTAATATTTTTTTATAA
Found at i:12640305 original size:32 final size:32
Alignment explanation
Indices: 12640235--12640314 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
12640225 ATATTTTATA
*
12640235 ATTTTTTACGATTTTTTTATAAAATTTTACAAT
1 ATTTTTTA-TATTTTTTTATAAAATTTTACAAT
* * *
12640268 TTTTTTTATATTTTTTTAT-AATTTTTA-GAT
1 ATTTTTTATATTTTTTTATAAAATTTTACAAT
*
12640298 ATATTTTTATAATTTTT
1 AT-TTTTTATATTTTTT
12640315 AATATTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 3 0.08
31 20 0.50
32 10 0.25
33 7 0.17
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (32 bp):
ATTTTTTATATTTTTTTATAAAATTTTACAAT
Found at i:12640609 original size:92 final size:92
Alignment explanation
Indices: 12640422--12640631 Score: 243
Period size: 92 Copynumber: 2.3 Consensus size: 92
12640412 GGCTTAATTA
* * * *
12640422 TTTTTTTGAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTG
1 TTTTTTTGAAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAATTCAAGTACCAAAATGAGTG
* ** ** *
12640487 TAAAAAAAAAGTAGGGGTTTAATTGCTT
66 CAAAAAAAAAG-AAAGACTTAATTACTT
* * *
12640515 TTTTTTTG-AAAAGGTTTGTGGGCCTTTTTGATGCATTTTGAAAATTCAAGTACCAAAATGAGTG
1 TTTTTTTGAAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAATTCAAGTACCAAAATGAGTG
12640579 CAAAAAAAAA-AAAGACTTAATTAC--
66 CAAAAAAAAAGAAAGACTTAATTACTT
*
12640603 TTTTTTTGAAAAAA-TTTGA-GGACTTTTTG
1 TTTTTTTGAAAAAAGTTTGAGGGCCTTTTTG
12640632 CACTCTTAAT
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
87 9 0.09
88 12 0.12
89 4 0.04
90 9 0.09
92 58 0.58
93 8 0.08
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.39
Consensus pattern (92 bp):
TTTTTTTGAAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAATTCAAGTACCAAAATGAGTG
CAAAAAAAAAGAAAGACTTAATTACTT
Found at i:12642258 original size:24 final size:24
Alignment explanation
Indices: 12642230--12642281 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12642220 TTTTTAAAAG
* *
12642230 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
12642254 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
12642278 ATTT
1 ATTT
12642282 GAATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:12642292 original size:24 final size:24
Alignment explanation
Indices: 12642230--12642293 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
12642220 TTTTTAAAAG
* * *
12642230 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGCATAATAT
*
12642254 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGAATTTATTAGCATAATAT
12642278 ATTT-GAATTTGATTAG
1 ATTTAGAATTT-ATTAG
12642294 AATTAGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATAT
Found at i:12646677 original size:24 final size:24
Alignment explanation
Indices: 12646650--12646701 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12646640 TTTATAGAAG
* *
12646650 ATTTAGTATTTATGAGTATAATAT
1 ATTTAATATTTATGAGCATAATAT
*
12646674 ATTTAATATTTATTAGCATAATAT
1 ATTTAATATTTATGAGCATAATAT
12646698 ATTT
1 ATTT
12646702 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAATATTTATGAGCATAATAT
Found at i:12648060 original size:19 final size:19
Alignment explanation
Indices: 12648036--12648075 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
12648026 CCTCAATTTA
12648036 TATATATGT-TTTTAACTTT
1 TATATAT-TATTTTAACTTT
12648055 TATATATTATTTTAACTTT
1 TATATATTATTTTAACTTT
12648074 TA
1 TA
12648076 AAATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
TATATATTATTTTAACTTT
Found at i:12648089 original size:32 final size:31
Alignment explanation
Indices: 12648053--12648118 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 31
12648043 GTTTTTAACT
*
12648053 TTTATATATTATTTTAACTTT-TAAAATTTATA
1 TTTATATATT-TTATAACTTTATAAAATTT-TA
*
12648085 TTTATATATTTTATAATTTTATAAAATTTTA
1 TTTATATATTTTATAACTTTATAAAATTTTA
12648116 TTT
1 TTT
12648119 TTAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 13 0.42
32 18 0.58
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTATATATTTTATAACTTTATAAAATTTTA
Found at i:12658796 original size:34 final size:34
Alignment explanation
Indices: 12658756--12658820 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
12658746 TATAAATATA
*
12658756 AATATAAAATGTTTTAAATATTTTAATATAATTT
1 AATATAAAATATTTTAAATATTTTAATATAATTT
*
12658790 AATATAAAATATTTTATATATTTTAATATAA
1 AATATAAAATATTTTAAATATTTTAATATAA
12658821 AAAATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (34 bp):
AATATAAAATATTTTAAATATTTTAATATAATTT
Found at i:12658844 original size:7 final size:8
Alignment explanation
Indices: 12658767--12658851 Score: 57
Period size: 8 Copynumber: 10.2 Consensus size: 8
12658757 ATATAAAATG
12658767 TTTTAAATA
1 TTTT-AATA
12658776 TTTTAATA
1 TTTTAATA
12658784 TAATTTAATA
1 T--TTTAATA
**
12658794 -TAAAATA
1 TTTTAATA
12658801 TTTTATATA
1 TTTTA-ATA
12658810 TTTTAATA
1 TTTTAATA
***
12658818 TAAAAAATA
1 T-TTTAATA
12658827 TTTTAATA
1 TTTTAATA
12658835 TTTT-ATA
1 TTTTAATA
*
12658842 TTTAAATA
1 TTTTAATA
12658850 TT
1 TT
12658852 ATTCTTTAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
7 11 0.19
8 24 0.41
9 17 0.29
10 7 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTTAATA
Found at i:12658854 original size:26 final size:23
Alignment explanation
Indices: 12658771--12658839 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 23
12658761 AAAATGTTTT
12658771 AAATATTTTAATATAATTTAATATA
1 AAATATTTTAATAT--TTTAATATA
12658796 AAATATTTTATATATTTTAATATAAA
1 AAATATTTTA-ATATTTTAATAT--A
12658822 AAATATTTTAATATTTTA
1 AAATATTTTAATATTTTA
12658840 TATTTAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
24 8 0.20
25 18 0.44
26 15 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AAATATTTTAATATTTTAATATA
Found at i:12670441 original size:122 final size:122
Alignment explanation
Indices: 12670193--12670443 Score: 362
Period size: 122 Copynumber: 2.0 Consensus size: 122
12670183 ACAATTTTTC
* **
12670193 GTAG-AGAGTGAGGATAAAACTTTAATACATGAATAATACCTTCAATTGTTGACCATTTAAGTTG
1 GTAGTAGAGTAAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGACCATTTAAGTTG
* * *
12670257 GCTATTCAAAAAACAACACTTTGAAGATTTCTTACAGAGTTAATTCTATTGTTAATA
66 GATATTCAAAAAACAACACTTTGAAGACTTCTTACAGAGTTAATCCTATTGTTAATA
12670314 GTAGTAGAGTAAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGA-CAGTTTAAGTT
1 GTAGTAGAGTAAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGACCA-TTTAAGTT
* * * *
12670378 GGATATTCAAAGAACGACACTTTGAAGACTTCTTATAGAGGAGTTGATCCTATTGTTAATA
65 GGATATTCAAAAAACAACACTTTGAAGACTTC-T-TACA-GAGTTAATCCTATTGTTAATA
12670439 GTAGT
1 GTAGT
12670444 CATCAAAGTT
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
121 6 0.05
122 81 0.70
123 1 0.01
124 3 0.03
125 24 0.21
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (122 bp):
GTAGTAGAGTAAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGACCATTTAAGTTG
GATATTCAAAAAACAACACTTTGAAGACTTCTTACAGAGTTAATCCTATTGTTAATA
Found at i:12670551 original size:18 final size:17
Alignment explanation
Indices: 12670528--12670561 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12670518 GACTTGGATT
12670528 GAAAAAATAATTTAAATG
1 GAAAAAATAA-TTAAATG
*
12670546 GAAAAATTAATTAAAT
1 GAAAAAATAATTAAAT
12670562 TTATTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (17 bp):
GAAAAAATAATTAAATG
Found at i:12678159 original size:9 final size:8
Alignment explanation
Indices: 12678139--12678223 Score: 55
Period size: 9 Copynumber: 9.5 Consensus size: 8
12678129 GTAGTGATTC
12678139 AATTCGGTT
1 AATTCGG-T
12678148 AATTCAGGT
1 AATTC-GGT
*
12678157 AATTCGATT
1 AATTCG-GT
12678166 AATTCGGGT
1 AATTC-GGT
12678175 AA-TCTGGTT
1 AATTC-GG-T
*
12678184 AATTCAGTT
1 AATTC-GGT
12678193 AATTCGGGT
1 AATTC-GGT
12678202 AATTCGGTT
1 AATTCGG-T
12678211 AATTCGGTT
1 AATTCGG-T
12678220 AATT
1 AATT
12678224 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
8 7 0.11
9 50 0.79
10 6 0.10
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (8 bp):
AATTCGGT
Found at i:12678162 original size:18 final size:18
Alignment explanation
Indices: 12678139--12678223 Score: 102
Period size: 18 Copynumber: 4.7 Consensus size: 18
12678129 GTAGTGATTC
12678139 AATTCGGTTAATTCAGGT
1 AATTCGGTTAATTCAGGT
* *
12678157 AATTCGATTAATTCGGGT
1 AATTCGGTTAATTCAGGT
*
12678175 AA-TCTGGTTAATTCAGTT
1 AATTC-GGTTAATTCAGGT
*
12678193 AATTCGGGTAATTC-GGTT
1 AATTCGGTTAATTCAGG-T
12678211 AATTCGGTTAATT
1 AATTCGGTTAATT
12678224 TTTAACCAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.05
18 51 0.91
19 2 0.04
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (18 bp):
AATTCGGTTAATTCAGGT
Found at i:12678171 original size:27 final size:27
Alignment explanation
Indices: 12678134--12678223 Score: 103
Period size: 27 Copynumber: 3.3 Consensus size: 27
12678124 ATTATGTAGT
* * *
12678134 GATTCAATTCGGTTAATTCAGGTAATTC
1 GATT-AATTCGGGTAATTCGGTTAATTC
12678162 GATTAATTCGGGTAA-TCTGGTTAATTC
1 GATTAATTCGGGTAATTC-GGTTAATTC
12678189 -AGTTAATTCGGGTAATTCGGTTAATTC
1 GA-TTAATTCGGGTAATTCGGTTAATTC
*
12678216 GGTTAATT
1 GATTAATT
12678224 TTTAACCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
26 3 0.06
27 45 0.83
28 6 0.11
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (27 bp):
GATTAATTCGGGTAATTCGGTTAATTC
Found at i:12678716 original size:30 final size:30
Alignment explanation
Indices: 12678674--12678737 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
12678664 AACTTATTTT
12678674 ATTT-TTAATTTTGTTATTATTTTAAAGAC
1 ATTTGTTAATTTTGTTATTATTTTAAAGAC
* *
12678703 ATTTGTTAGTTTTGTTATTATTTTAGAGAC
1 ATTTGTTAATTTTGTTATTATTTTAAAGAC
12678733 ATTTG
1 ATTTG
12678738 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
ATTTGTTAATTTTGTTATTATTTTAAAGAC
Found at i:12678840 original size:18 final size:18
Alignment explanation
Indices: 12678819--12678858 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
12678809 GGAATATTTA
*
12678819 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
12678837 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
12678855 TTTT
1 TTTT
12678859 TAAAATTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:12683669 original size:6 final size:6
Alignment explanation
Indices: 12683631--12683662 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
12683621 ATTGATAATC
12683631 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT AT
1 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT AT
12683663 ACCTATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
ATCTAT
Found at i:12685648 original size:48 final size:48
Alignment explanation
Indices: 12685583--12685787 Score: 234
Period size: 48 Copynumber: 4.2 Consensus size: 48
12685573 TGGGGAGAAT
* * *
12685583 TTACTAAAAGTAATAATAATGGCCTTGCTCCCAAATGCATGGAGAGGC
1 TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCATGGGGAGGC
* *
12685631 TTACGAAAAGTAGTAATAATGGCCCTAG-TCCCAGATGCATTGAGGGAGGC
1 TTACGAAAAGTAGTAATAATGG-CCTTGCTCCCAAATGCA-TG-GGGAGGC
* * ** *
12685681 TTACAAAAAGTAGTAATAATGGCTTTGCTCTTAAACGCATGGGGGAGGC
1 TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCAT-GGGGAGGC
* *
12685730 TTACGAAAAGTAGTAATAATGGCCCTGCT-CCAAATGCATGGGGGAAGC
1 TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCAT-GGGGAGGC
*
12685778 TTACAAAAAG
1 TTACGAAAAG
12685788 CAAAAAAAAT
Statistics
Matches: 132, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
48 54 0.41
49 43 0.33
50 35 0.27
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (48 bp):
TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCATGGGGAGGC
Found at i:12685698 original size:98 final size:97
Alignment explanation
Indices: 12685583--12685787 Score: 279
Period size: 98 Copynumber: 2.1 Consensus size: 97
12685573 TGGGGAGAAT
* *
12685583 TTACTAAAAGTAATAATAATGGCCTTGCTCCCAAATGCAT-GGAGAGGCTTACGAAAAGTAGTAA
1 TTACAAAAAGTAATAATAATGGCCTTGCTCCCAAACGCATGGGAGAGGCTTACGAAAAGTAGTAA
* *
12685647 TAATGGCCCTAG-TCCCAGATGCATTGAGGGAGGC
66 TAATGGCCCT-GCT-CCAAATGCA-TGAGGGAAGC
* * ** *
12685681 TTACAAAAAGTAGTAATAATGGCTTTGCTCTTAAACGCATGGGGGAGGCTTACGAAAAGTAGTAA
1 TTACAAAAAGTAATAATAATGGCCTTGCTCCCAAACGCATGGGAGAGGCTTACGAAAAGTAGTAA
*
12685746 TAATGGCCCTGCTCCAAATGCATGGGGGAAGC
66 TAATGGCCCTGCTCCAAATGCATGAGGGAAGC
12685778 TTACAAAAAG
1 TTACAAAAAG
12685788 CAAAAAAAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
97 18 0.19
98 43 0.45
99 34 0.36
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (97 bp):
TTACAAAAAGTAATAATAATGGCCTTGCTCCCAAACGCATGGGAGAGGCTTACGAAAAGTAGTAA
TAATGGCCCTGCTCCAAATGCATGAGGGAAGC
Found at i:12689305 original size:13 final size:13
Alignment explanation
Indices: 12689287--12689313 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12689277 AGTTCTTCAT
12689287 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
12689300 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
12689313 T
1 T
12689314 TTAGTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:12692619 original size:3 final size:3
Alignment explanation
Indices: 12692613--12692644 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12692603 AAAACACAAA
12692613 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
12692645 ACCCTAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:12711919 original size:140 final size:140
Alignment explanation
Indices: 12711665--12711948 Score: 550
Period size: 140 Copynumber: 2.0 Consensus size: 140
12711655 ACCCGTATTC
*
12711665 AACACCAGAATAGGGTACGAGGCATTACCAGAACAAATAAACTGTAAACGTATTGAACCGAGTTA
1 AACACCAGAATAGGGTACGAGGCATTACCAGAACAAATAAACTGTAAACGTATTGAACCAAGTTA
12711730 TAAAATTTCATTAAAAAAATTAAAACTTTCAAATTATTAACATGCTTTTATAATTCTTCACAATA
66 TAAAATTTCATTAAAAAAATTAAAACTTTCAAATTATTAACATGCTTTTATAATTCTTCACAATA
12711795 TATATAATGT
131 TATATAATGT
12711805 AACACCAGAATAGGGTACGAGGCATTACCAGAACAAATAAACTGTAAACGTATTGAACCAAGTTA
1 AACACCAGAATAGGGTACGAGGCATTACCAGAACAAATAAACTGTAAACGTATTGAACCAAGTTA
*
12711870 TAAAATTTCATTAAAAAAATTAAAACTTTCAAATTATTAACATGTTTTTATAATTCTTCACAATA
66 TAAAATTTCATTAAAAAAATTAAAACTTTCAAATTATTAACATGCTTTTATAATTCTTCACAATA
12711935 TATATAATGT
131 TATATAATGT
12711945 AACA
1 AACA
12711949 TTTCCTGTCA
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 142 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (140 bp):
AACACCAGAATAGGGTACGAGGCATTACCAGAACAAATAAACTGTAAACGTATTGAACCAAGTTA
TAAAATTTCATTAAAAAAATTAAAACTTTCAAATTATTAACATGCTTTTATAATTCTTCACAATA
TATATAATGT
Found at i:12712191 original size:46 final size:46
Alignment explanation
Indices: 12712138--12712319 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
12712128 TTGCTATAAT
* *
12712138 TCAGTATGGTTTTCTTCAC-GAAAATATCATACCTACTTTTCATAAC
1 TCAGTATGGTTTTCTTCACTG-AAATACCATACCTACTTTTCACAAC
* *
12712184 TCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAAT
1 TCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCACAAC
* * * * *
12712230 TCAATATGGTTTTCTTTATTGAAATATCATATCTACTTTTCACAAC
1 TCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCACAAC
*
12712276 TCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCACA
1 TCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCACA
12712320 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
46 117 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (46 bp):
TCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCACAAC
Found at i:12712292 original size:92 final size:92
Alignment explanation
Indices: 12712135--12712319 Score: 291
Period size: 92 Copynumber: 2.0 Consensus size: 92
12712125 ACATTGCTAT
* *
12712135 AATTCAGTATGGTTTTCTTCACGAAAATATCATACCTACTTTTCATAACTCAGTATGGTTTTCTT
1 AATTCAATATGGTTTTCTTCACGAAAATATCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
*
12712200 CACTGAAACACCATACCTACTTTTCAC
66 CACTGAAACACCATACCTACGTTTCAC
* * *
12712227 AATTCAATATGGTTTTCTTTATTG-AAATATCATATCTACTTTTCACAACTCAGTATGGTTTTCT
1 AATTCAATATGGTTTTCTTCA-CGAAAATATCATACCTACTTTTCACAACTCAGTATGGTTTTCT
*
12712291 TCACTGAAATACCATACCTACGTTTCAC
65 TCACTGAAACACCATACCTACGTTTCAC
12712319 A
1 A
12712320 CTTTGCCATG
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 84 0.99
93 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (92 bp):
AATTCAATATGGTTTTCTTCACGAAAATATCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
CACTGAAACACCATACCTACGTTTCAC
Found at i:12720171 original size:39 final size:39
Alignment explanation
Indices: 12720113--12720193 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
12720103 ATCCACGGAT
* *
12720113 TAAGTGTATAAGGTTGAAAGTA-TCGGTTCAAGGACCCAG
1 TAAGTGTATAAGGTGGAAAGTACT-GCTTCAAGGACCCAG
*
12720152 TAAGTGTATAAGGTGGAAAGTACTGCTTCAAGGACCTAG
1 TAAGTGTATAAGGTGGAAAGTACTGCTTCAAGGACCCAG
12720191 TAA
1 TAA
12720194 ATCAATCTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 37 0.97
40 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (39 bp):
TAAGTGTATAAGGTGGAAAGTACTGCTTCAAGGACCCAG
Found at i:12734425 original size:18 final size:17
Alignment explanation
Indices: 12734391--12734425 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
12734381 CTATATAATC
*
12734391 AAATACCATACATATAT
1 AAATACCATAAATATAT
12734408 AAATACCATGAAATATAT
1 AAATACCAT-AAATATAT
12734426 TTTCATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATACCATAAATATAT
Found at i:12735087 original size:42 final size:43
Alignment explanation
Indices: 12734975--12735091 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
12734965 AAAAGCTCGT
* * * * *
12734975 ACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAACA
1 ACAACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAACA
* * * * *
12735018 ACAATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATA-T
1 ACAACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAACA
* *
12735060 ACGACGCCAATGTCCCAGATATGGTCTTACAC
1 ACAACGCCAATGTCCCAGACATGGTCTTACAC
12735092 AAAAATCTCA
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
ACAACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAACA
Found at i:12739492 original size:21 final size:23
Alignment explanation
Indices: 12739469--12739512 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
12739459 TTTTTAATTT
**
12739469 AAAT-TTAATTATGAAATATATA
1 AAATGTTAATTAAAAAATATATA
12739491 AAATGTTAATTAAAAAATATAT
1 AAATGTTAATTAAAAAATATAT
12739513 TGAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (23 bp):
AAATGTTAATTAAAAAATATATA
Found at i:12740325 original size:22 final size:22
Alignment explanation
Indices: 12740291--12740332 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12740281 TGTACAAGTA
* *
12740291 ATATTACTTGAATAGTTATGAG
1 ATATTACTAGAATAATTATGAG
*
12740313 ATATTAGTAGAATAATTATG
1 ATATTACTAGAATAATTATG
12740333 TCTCTTTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (22 bp):
ATATTACTAGAATAATTATGAG
Found at i:12743953 original size:30 final size:31
Alignment explanation
Indices: 12743908--12743967 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
12743898 GGAGGTGGGA
12743908 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
* * *
12743939 TGGG-AGGGAGTAAAATTTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAGTTTTAGGGGAAAA
12743968 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
Found at i:12744195 original size:9 final size:9
Alignment explanation
Indices: 12744181--12744217 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12744171 TGTAGTTTGA
12744181 TATTCGAAT
1 TATTCGAAT
12744190 TATTCGAAT
1 TATTCGAAT
*
12744199 TATTCGAGT
1 TATTCGAAT
12744208 TATTCGAAT
1 TATTCGAAT
12744217 T
1 T
12744218 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12745095 original size:21 final size:21
Alignment explanation
Indices: 12745065--12745122 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
12745055 GTGCTAAACA
12745065 GAAACCCATAAGGGTTGAATG
1 GAAACCCATAAGGGTTGAATG
* * * * *
12745086 GAAGCTCATAAGAGCTGATTG
1 GAAACCCATAAGGGTTGAATG
12745107 GAAACCCATAAGGGTT
1 GAAACCCATAAGGGTT
12745123 AAACAGAACT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.21
Consensus pattern (21 bp):
GAAACCCATAAGGGTTGAATG
Found at i:12745287 original size:25 final size:25
Alignment explanation
Indices: 12745229--12745319 Score: 103
Period size: 25 Copynumber: 3.7 Consensus size: 25
12745219 TATATTTATC
* * *
12745229 GTCAATTCATCCTTTGCA-TATACT
1 GTCAATTCATCATTTGCATTTTACA
*
12745253 GTCAATTCATCATTTTCATTTTACA
1 GTCAATTCATCATTTGCATTTTACA
* *
12745278 GTCAATTCATCCTTTGCATTTTACC
1 GTCAATTCATCATTTGCATTTTACA
* *
12745303 GTTAATTCATAATTTGC
1 GTCAATTCATCATTTGC
12745320 CAAAAAATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
24 16 0.29
25 40 0.71
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (25 bp):
GTCAATTCATCATTTGCATTTTACA
Found at i:12758817 original size:30 final size:31
Alignment explanation
Indices: 12758776--12758860 Score: 109
Period size: 30 Copynumber: 2.7 Consensus size: 31
12758766 CTCAATATTT
12758776 AATTAATTTTTAAATTTTAAAAA-ATTATAG
1 AATTAATTTTTAAATTTTAAAAATATTATAG
* ** *
12758806 AATTTATTTTTAAAAATTAAAAATATTATAT
1 AATTAATTTTTAAATTTTAAAAATATTATAG
*
12758837 ATAATAATTTTTAAATTTTAAAAA
1 A-ATTAATTTTTAAATTTTAAAAA
12758861 CTAATTAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
30 20 0.44
31 7 0.16
32 18 0.40
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
AATTAATTTTTAAATTTTAAAAATATTATAG
Found at i:12758834 original size:22 final size:22
Alignment explanation
Indices: 12758789--12758834 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12758779 TAATTTTTAA
*
12758789 ATTTTAAAAAATTATAGAATTT
1 ATTTTAAAAAATTATAAAATTT
*
12758811 ATTTTTAAAAATTA-AAAATATT
1 ATTTTAAAAAATTATAAAAT-TT
12758833 AT
1 AT
12758835 ATATAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTTAAAAAATTATAAAATTT
Found at i:12777261 original size:25 final size:25
Alignment explanation
Indices: 12777224--12777305 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
12777214 CTTCCTCAAT
**
12777224 ATGGCTCTTATGAGCTTCCCGTTAC
1 ATGGCTCACATGAGCTTCCCGTTAC
* *
12777249 ATGGCTCACATGAGATTCCCATTAC
1 ATGGCTCACATGAGCTTCCCGTTAC
* * *
12777274 ATGACTCACATAAGCTTCCCGTTAT
1 ATGGCTCACATGAGCTTCCCGTTAC
12777299 ATGGCTC
1 ATGGCTC
12777306 GAGAGAGTGC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (25 bp):
ATGGCTCACATGAGCTTCCCGTTAC
Found at i:12785154 original size:27 final size:26
Alignment explanation
Indices: 12785112--12785322 Score: 230
Period size: 27 Copynumber: 7.8 Consensus size: 26
12785102 TACGATTCAT
12785112 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGAC-GAAATACCCTCGAAG
12785139 GGTAAAATGATCGAAATACCCTCGAAG
1 GGTAAAATGA-CGAAATACCCTCGAAG
12785166 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGAC-GAAATACCCTCGAAG
* *
12785193 GATAAAATGACCGGAATA-CCTCCGAAG
1 GGTAAAATGA-CGAAATACCCT-CGAAG
* *
12785220 GGTAAAATGATCGAAATACCCTTGAAA
1 GGTAAAATGA-CGAAATACCCTCGAAG
*
12785247 GGTAAAATGACCGAAATACCC-CCAGAG
1 GGTAAAATGA-CGAAATACCCTCGA-AG
* * *
12785274 GGTAAAAAGATCAAAATATCCC-CAAAG
1 GGTAAAATGA-CGAAATA-CCCTCGAAG
12785301 GGTAAAATGACTGAAATACCCT
1 GGTAAAATGAC-GAAATACCCT
12785323 TATAAAGTAA
Statistics
Matches: 158, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.06
27 139 0.88
28 10 0.06
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (26 bp):
GGTAAAATGACGAAATACCCTCGAAG
Found at i:12785219 original size:81 final size:81
Alignment explanation
Indices: 12785114--12785322 Score: 255
Period size: 81 Copynumber: 2.6 Consensus size: 81
12785104 CGATTCATGG
* * *
12785114 TAAAATGACTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAAGGTAAAATGACCG
12785179 AAATACCCTCGAAGGA
66 AAATACCCTCGAAGGA
* *
12785195 TAAAATGACCGGAATA-CCTCCGAAGGGTAAAATGATCGAAATACCCTTGAAAGGTAAAATGACC
1 TAAAATGACCGAAATACCCT-CGAAGGGTAAAATGATCGAAATACCCTCGAAAGGTAAAATGACC
* *
12785259 GAAATACCC-CCAGAGGG
65 GAAATACCCTCGA-AGGA
* * * *
12785276 TAAAAAGATCAAAATATCCC-CAAAGGGTAAAATGA-CTGAAATACCCT
1 TAAAATGACCGAAATA-CCCTCGAAGGGTAAAATGATC-GAAATACCCT
12785323 TATAAAGTAA
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
80 6 0.05
81 103 0.93
83 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.18
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAAGGTAAAATGACCG
AAATACCCTCGAAGGA
Found at i:12791519 original size:38 final size:39
Alignment explanation
Indices: 12791467--12791542 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 39
12791457 TATGTTAAAT
* *
12791467 ATAACCCAAGAATCTGCAAC-AAGGCTAGATCTCATTAA
1 ATAACCCAAAAATCTACAACAAAGGCTAGATCTCATTAA
* *
12791505 ATAACCCAAAAATCTATAACAAATGCTAGATCTCATTA
1 ATAACCCAAAAATCTACAACAAAGGCTAGATCTCATTA
12791543 TAACCTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
38 17 0.52
39 16 0.48
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.24
Consensus pattern (39 bp):
ATAACCCAAAAATCTACAACAAAGGCTAGATCTCATTAA
Found at i:12793256 original size:27 final size:28
Alignment explanation
Indices: 12793210--12793262 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
12793200 AATAAAAAAA
12793210 TTTAAAAATTAAAAATTAAAA-ATATTT
1 TTTAAAAATTAAAAATTAAAATATATTT
*
12793237 TTTAAAAA-TAAAATTATAAAATATAT
1 TTTAAAAATTAAAAAT-TAAAATATAT
12793263 AAGTGTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 13 0.57
28 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
TTTAAAAATTAAAAATTAAAATATATTT
Found at i:12793257 original size:26 final size:27
Alignment explanation
Indices: 12793210--12793260 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
12793200 AATAAAAAAA
12793210 TTTAAAAATTAAAAATTAAAAATATTT
1 TTTAAAAATTAAAAATTAAAAATATTT
12793237 TTTAAAAA-T-AAAATTATAAAATAT
1 TTTAAAAATTAAAAATTA-AAAATAT
12793261 ATAAGTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 8 0.35
27 8 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
TTTAAAAATTAAAAATTAAAAATATTT
Found at i:12793310 original size:37 final size:35
Alignment explanation
Indices: 12793269--12793352 Score: 87
Period size: 37 Copynumber: 2.3 Consensus size: 35
12793259 ATATAAGTGT
*
12793269 AAATTCTAAAAAAACATATAATATATGAAATTTAAAA
1 AAATT-TAAAAAAACAAATAATAT-TGAAATTTAAAA
* *** *
12793306 AAATTATAAATATTTAAATAATATTTAAATTTAAAA
1 AAATT-TAAAAAAACAAATAATATTGAAATTTAAAA
12793342 AAATTTAAAAA
1 AAATTTAAAAA
12793353 CATATATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 5 0.13
36 16 0.41
37 18 0.46
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (35 bp):
AAATTTAAAAAAACAAATAATATTGAAATTTAAAA
Found at i:12793324 original size:25 final size:27
Alignment explanation
Indices: 12793268--12793324 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
12793258 TATATAAGTG
12793268 TAAATTCTAAAAAAACATATAATATAT
1 TAAATTCTAAAAAAACATATAATATAT
* *
12793295 GAAATT-TAAAAAAA-TTATAA-ATATT
1 TAAATTCTAAAAAAACATATAATATA-T
12793320 TAAAT
1 TAAAT
12793325 AATATTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.12
25 10 0.38
26 8 0.31
27 5 0.19
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (27 bp):
TAAATTCTAAAAAAACATATAATATAT
Found at i:12793339 original size:17 final size:16
Alignment explanation
Indices: 12793296--12793350 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 16
12793286 ATAATATATG
12793296 AAATTTAAAAAAATTAT
1 AAATTTAAAAAAATT-T
*
12793313 AAATATTTAAATAATATTT
1 -AA-ATTTAAA-AAAATTT
12793332 AAATTTAAAAAAATTT
1 AAATTTAAAAAAATTT
12793348 AAA
1 AAA
12793351 AACATATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 9 0.27
17 7 0.21
18 4 0.12
19 8 0.24
20 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTTAAAAAAATTT
Found at i:12794263 original size:109 final size:109
Alignment explanation
Indices: 12794072--12794292 Score: 318
Period size: 109 Copynumber: 2.0 Consensus size: 109
12794062 ATCACATGCA
* * **
12794072 TATGCTTGTGAAAACTTAAAACACAAATTCTTGTTTAAAAATAACATACAATAAACAATGACTGG
1 TATGCGTGTGAAAACGTAAAACACAAATTCTTGTTTAAAAATAACATACAATAAACAATGACCCG
12794137 TATGGTTTGAAACTAATTATGCAACTAATGTAGATAATAAATGG
66 TATGGTTTGAAACTAATTATGCAACTAATGTAGATAATAAATGG
* * * * *
12794181 TATGCGTGTGAAAACGTAAAACACGAATGT-TTGTTTAAAAGTAACATATAATAAGCAATGTCCC
1 TATGCGTGTGAAAACGTAAAACACAAAT-TCTTGTTTAAAAATAACATACAATAAACAATGACCC
** *
12794245 GTATGGTTTGAAACTAATTATGCAACTGGTGTAGATAATAAATTG
65 GTATGGTTTGAAACTAATTATGCAACTAATGTAGATAATAAATGG
12794290 TAT
1 TAT
12794293 ATATTAAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
109 98 0.99
110 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (109 bp):
TATGCGTGTGAAAACGTAAAACACAAATTCTTGTTTAAAAATAACATACAATAAACAATGACCCG
TATGGTTTGAAACTAATTATGCAACTAATGTAGATAATAAATGG
Found at i:12797802 original size:16 final size:16
Alignment explanation
Indices: 12797781--12797811 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12797771 CACTAGAATT
12797781 GAATAGAGTTGTAATG
1 GAATAGAGTTGTAATG
12797797 GAATAGAGTTGTAAT
1 GAATAGAGTTGTAAT
12797812 TAGTAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (16 bp):
GAATAGAGTTGTAATG
Found at i:12798167 original size:18 final size:18
Alignment explanation
Indices: 12798144--12798183 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
12798134 ATTAATATAT
12798144 ATTAATATTTTATATTAA
1 ATTAATATTTTATATTAA
*
12798162 ATTAATATTTTATCTTAA
1 ATTAATATTTTATATTAA
12798180 ATTA
1 ATTA
12798184 TTTAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTAATATTTTATATTAA
Found at i:12799623 original size:345 final size:343
Alignment explanation
Indices: 12798995--12799677 Score: 1082
Period size: 345 Copynumber: 2.0 Consensus size: 343
12798985 AGTCAGTGCA
* * *
12798995 AAAGACATTTTTGTAAATATGATGCAGAGTGAATTTAAGATAAGTATGATGGGTGAATTGTCATA
1 AAAGACATTTTTGTAAATATGATGCAGAGCGAATTCAAGATAAATATGATGGGTGAATTGTCATA
* *
12799060 CTTTCTTGGGTTTTAGATTAAGGAGATCGGATATGGTACTTTTCTCTTGTAGAAGTATGTGAATA
66 CTTTCTTGGGTTTTAGATTAAGGAGATCGGATATGGTACTTTTCTCTTGAAGAAGTATGTGAAGA
* * * *
12799125 ACTTAATAAAGAAGTTTGGTACGGAGAGTTGTAAGCCTACCAGGACTCCTTTGTTTATAAATGAA
131 ACTTAATAAAGAAGTTTAGTACGGAGAATTGTAAGCCTACCAGGACTCCTTTATCTATAAATGAA
* *
12799190 AAAATAAGTGCAGATGCAACGAAAGCCCCACTTTTGATACCACTTATAGAAGCATACTTGAAAGT
196 AAAATAAGCGCAGATGCAACGAAAGCCCCACTTTCGATACCACTTATAGAAGCATACTTGAAAGT
12799255 CTGTTATATCTCGTTACAAGCCTGTTGGGATCTAGTGCCCTTAGTATAGTTTTCCTTCATATGTA
261 CTGTTATATCTCGTTACAAGCCTGTTGGGATCTAGTGCCCTTAGTATAGTTTTCCTTCATATGTA
*
12799320 TTTGTAA-TTTTTCTGCG
326 CTTGTAAGTTTTTCTGCG
12799337 AAAGACATTTTTGTAAATATGATGCAGAGCGAATTCAAGATAAATATGATGGGTGAATTGTCATA
1 AAAGACATTTTTGTAAATATGATGCAGAGCGAATTCAAGATAAATATGATGGGTGAATTGTCATA
*
12799402 CTTTCTTGGGTTTTAGATTAAGGAGATGGGATATGGTACTTTTCTCTTGCAGAAGAAGTATGTGA
66 CTTTCTTGGGTTTTAGATTAAGGAGATCGGATATGGTACTTTTCTCTT---GAAGAAGTATGTGA
* * ** * *
12799467 GGAACTTAATAAAGAAGTTTAGTATGGAGAATTGTAAGTTTACTAGGACT-CTCTTATCTATAAG
128 AGAACTTAATAAAGAAGTTTAGTACGGAGAATTGTAAGCCTACCAGGACTCCT-TTATCTATAAA
* * * * * *
12799531 TGAGAAAATAAGCGTAGATGCAACGAGAGCCCCACTTTCGATATCACTTATAGAAGTATACTTGG
192 TGAAAAAATAAGCGCAGATGCAACGAAAGCCCCACTTTCGATACCACTTATAGAAGCATACTTGA
*
12799596 AAGTTTGTTATATCTCGTTACAAGCCTGTTGGGATCTAGTGCCCTTAGTATAGTTTTCCTTCATA
257 AAGTCTGTTATATCTCGTTACAAGCCTGTTGGGATCTAGTGCCCTTAGTATAGTTTTCCTTCATA
12799661 TGTACTTGTAAGTTTTT
322 TGTACTTGTAAGTTTTT
12799678 TGAAAAGATT
Statistics
Matches: 310, Mismatches: 26, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
342 109 0.35
344 2 0.01
345 194 0.63
346 5 0.02
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (343 bp):
AAAGACATTTTTGTAAATATGATGCAGAGCGAATTCAAGATAAATATGATGGGTGAATTGTCATA
CTTTCTTGGGTTTTAGATTAAGGAGATCGGATATGGTACTTTTCTCTTGAAGAAGTATGTGAAGA
ACTTAATAAAGAAGTTTAGTACGGAGAATTGTAAGCCTACCAGGACTCCTTTATCTATAAATGAA
AAAATAAGCGCAGATGCAACGAAAGCCCCACTTTCGATACCACTTATAGAAGCATACTTGAAAGT
CTGTTATATCTCGTTACAAGCCTGTTGGGATCTAGTGCCCTTAGTATAGTTTTCCTTCATATGTA
CTTGTAAGTTTTTCTGCG
Found at i:12801998 original size:29 final size:28
Alignment explanation
Indices: 12801961--12802015 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
12801951 ATAATTTTAG
*
12801961 ATTTATATATATTTGTTTTTATAAAATAAA
1 ATTTATATATATTT-TTTAT-TAAAATAAA
12801991 ATTT-TATATATTTTTTATTAAAATA
1 ATTTATATATATTTTTTATTAAAATA
12802016 CCACGCGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 7 0.29
28 4 0.17
29 9 0.38
30 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTTATATATATTTTTTATTAAAATAAA
Found at i:12802006 original size:27 final size:30
Alignment explanation
Indices: 12801961--12802015 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 30
12801951 ATAATTTTAG
12801961 ATTTATATATATTTGTTTTTA-TAAAATAAA
1 ATTTATATATA-TTGTTTTTATTAAAATAAA
12801991 ATTT-TATATA-T-TTTTTATTAAAATA
1 ATTTATATATATTGTTTTTATTAAAATA
12802016 CCACGCGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 6 0.25
27 8 0.33
29 6 0.25
30 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
ATTTATATATATTGTTTTTATTAAAATAAA
Found at i:12815688 original size:14 final size:13
Alignment explanation
Indices: 12815669--12815698 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
12815659 GGGCTCACAA
12815669 AAAATAATAAAATC
1 AAAATAATAAAA-C
12815683 AAAATAATAAAAC
1 AAAATAATAAAAC
12815696 AAA
1 AAA
12815699 GTCTAAGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAATAAAAC
Found at i:12815828 original size:21 final size:20
Alignment explanation
Indices: 12815803--12815859 Score: 98
Period size: 21 Copynumber: 2.9 Consensus size: 20
12815793 TAATCTTCAA
12815803 GTATATGCAATCTTAGATAT
1 GTATATGCAATCTTAGATAT
12815823 GATATATGCAATCTTAGATAT
1 G-TATATGCAATCTTAGATAT
12815844 G-ATATGCAATCTTAGA
1 GTATATGCAATCTTAGA
12815860 AGATATGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.42
20 1 0.03
21 20 0.56
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
GTATATGCAATCTTAGATAT
Found at i:12816626 original size:23 final size:22
Alignment explanation
Indices: 12816596--12816639 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
12816586 ATAATTCACA
12816596 TACATATATATATTTCTTATATG
1 TACATATATATATTT-TTATATG
12816619 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
12816640 TTTATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:12816825 original size:3 final size:3
Alignment explanation
Indices: 12816819--12816846 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12816809 ATCTTTTCAC
12816819 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12816847 CTTGTTCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:12818475 original size:21 final size:21
Alignment explanation
Indices: 12818451--12818491 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12818441 GAAAAAAAAG
12818451 TGTACAAGCTTAAAA-AGGCTT
1 TGTA-AAGCTTAAAACAGGCTT
*
12818472 TGTATAGCTTAAAACAGGCT
1 TGTAAAGCTTAAAACAGGCT
12818492 CCAAAGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (21 bp):
TGTAAAGCTTAAAACAGGCTT
Found at i:12820345 original size:22 final size:23
Alignment explanation
Indices: 12820304--12820346 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12820294 TTAGTTCTTG
*
12820304 TTTTTTTTTTCTGTTCTTCCTTC
1 TTTTATTTTTCTGTTCTTCCTTC
*
12820327 TTTTATTTTTCT-TTTTTCCT
1 TTTTATTTTTCTGTTCTTCCT
12820347 GCAATCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTATTTTTCTGTTCTTCCTTC
Found at i:12821017 original size:42 final size:42
Alignment explanation
Indices: 12820951--12821032 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
12820941 GACTTAGGGC
*
12820951 CACACGGGTAAGCACACAGACGTGTG-CCTAGGCCGTGTAAGT
1 CACACGGGTAAGCACACAGACGTGTGTCC-AAGCCGTGTAAGT
*
12820993 CACACGGGTAAGGACAC-GATCGTGTGTCCAAGCCGTGTAA
1 CACACGGGTAAGCACACAGA-CGTGTGTCCAAGCCGTGTAA
12821033 CTCTCTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 2 0.06
42 32 0.89
43 2 0.06
ACGTcount: A:0.27, C:0.26, G:0.30, T:0.17
Consensus pattern (42 bp):
CACACGGGTAAGCACACAGACGTGTGTCCAAGCCGTGTAAGT
Found at i:12830209 original size:25 final size:25
Alignment explanation
Indices: 12830163--12830291 Score: 70
Period size: 25 Copynumber: 5.2 Consensus size: 25
12830153 AAGCTCTTTC
* * * *
12830163 GAGCCATATAACGGGAATCTCATGT
1 GAGCCATGTAACGAGAAGCTCATGA
* *
12830188 GAGCCATGTAACAAGAAGCTCATAA
1 GAGCCATGTAACGAGAAGCTCATGA
*
12830213 GAGCC--GTAATCGAGAAGCTCATGC
1 GAGCCATGTAA-CGAGAAGCTCATGA
* * * **
12830237 GATCCA-ATATCG-GAAAGCTCCGGA
1 GAGCCATGTAACGAG-AAGCTCATGA
* *
12830261 GAGCCAT-TAATCGGGAAGCTCATGT
1 GAGCCATGTAA-CGAGAAGCTCATGA
12830286 GAGCCA
1 GAGCCA
12830292 ATTATCGGGA
Statistics
Matches: 78, Mismatches: 20, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
23 5 0.06
24 31 0.40
25 41 0.53
26 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
GAGCCATGTAACGAGAAGCTCATGA
Found at i:12830298 original size:25 final size:25
Alignment explanation
Indices: 12830202--12830339 Score: 95
Period size: 25 Copynumber: 5.6 Consensus size: 25
12830192 CATGTAACAA
* * * *
12830202 GAAGCTCATAAGAGCC-GTAATCGA
1 GAAGCTCATGAGAGCCAATTATCGG
* *
12830226 GAAGCTCATGCGATCCAA-TATCGG
1 GAAGCTCATGAGAGCCAATTATCGG
* **
12830250 AAAGCTCCGGAGAGCC-ATTAATCGG
1 GAAGCTCATGAGAGCCAATT-ATCGG
*
12830275 GAAGCTCATGTGAGCCAATTATCGG
1 GAAGCTCATGAGAGCCAATTATCGG
* * * *
12830300 GAAGCTCGTGAAAGCTAAATATCGG
1 GAAGCTCATGAGAGCCAATTATCGG
*
12830325 GACA-CTCATAAGAGC
1 GA-AGCTCATGAGAGC
12830340 TGTGGTGTGT
Statistics
Matches: 86, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
23 1 0.01
24 29 0.34
25 52 0.60
26 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCAATTATCGG
Found at i:12839009 original size:5 final size:5
Alignment explanation
Indices: 12839001--12839033 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
12838991 TATTATTGTA
12839001 AAAAG AAAAG AAAAG AAAAG AAAATG -AAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAA
12839034 GAATAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 24 0.92
6 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:12843914 original size:15 final size:16
Alignment explanation
Indices: 12843882--12843914 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12843872 GAGTAGCGTT
12843882 AACGGTTAGATGAGCA
1 AACGGTTAGATGAGCA
*
12843898 AACGGTTATAT-AGCA
1 AACGGTTAGATGAGCA
12843913 AA
1 AA
12843915 GCAGGGGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (16 bp):
AACGGTTAGATGAGCA
Found at i:12844332 original size:3 final size:3
Alignment explanation
Indices: 12844324--12844350 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12844314 TTTCACAGAC
12844324 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
12844351 AAGAAGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:12857541 original size:42 final size:42
Alignment explanation
Indices: 12857399--12857650 Score: 251
Period size: 42 Copynumber: 5.9 Consensus size: 42
12857389 TTACAAAATT
12857399 AAACGCCGCTAAATG-TCATGTTCTTTAGCGGCGCTTAGG--AA
1 AAACGCCGCTAAA-GATCATGTTCTTTAGCGGCGCTT-GGTTAA
* ** **
12857440 ACAGACTCCGCTAAAGATCATGTTCTTTAGGTAGCGGCGCTTTCTTCGC
1 A-A-ACGCCGCTAAAGATCATGTTC-TT---TAGCGGCGCTTGGTT-AA
12857489 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTTAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTTAA
* *
12857531 AAACGCCGCTAAAGATCATGTTCTTTAGAGGCGCTTGGTAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTTAA
* * ** *
12857573 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTATTCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTT-AA
* * *
12857616 TAACGCCACTAAAGA-CATGATCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
12857651 TTATAAAAAA
Statistics
Matches: 179, Mismatches: 21, Indels: 21
0.81 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 96 0.54
43 45 0.25
44 2 0.01
46 2 0.01
47 31 0.17
48 1 0.01
49 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTTAA
Found at i:12857667 original size:42 final size:42
Alignment explanation
Indices: 12857489--12857669 Score: 193
Period size: 42 Copynumber: 4.3 Consensus size: 42
12857479 CTTTCTTCGC
* * ** *
12857489 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTTAA
1 AAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTTATAAA
* * * **
12857531 AAACGCCGCTAAAGATCATGTTCTTTAGAGGCGCTTGGTAAA
1 AAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTTATAAA
* * * *
12857573 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTATTCAC
1 AAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTTA-TAAA
*
12857616 TAACGCCACTAAAGA-CATGATCTTTAGCGGCGCTTTTATAAA
1 AAACGCCACTAAAGATCATGATCTTTAGCGGCGC-TTTATAAA
*
12857658 AAACACCACTAA
1 AAACGCCACTAA
12857670 TTTTGGGATT
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
42 103 0.84
43 19 0.16
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (42 bp):
AAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTTATAAA
Found at i:12858060 original size:66 final size:66
Alignment explanation
Indices: 12857972--12858106 Score: 225
Period size: 66 Copynumber: 2.0 Consensus size: 66
12857962 TTCTGCTCTG
* * *
12857972 CTCTGCTTCTCTCGATGTCGCATCTGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCCTTTGAA
12858037 C
66 C
* *
12858038 CTCTGCTTCCCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
1 CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCCTTTGAA
12858103 C
66 C
12858104 CTC
1 CTC
12858107 AACTGTGGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.41
Consensus pattern (66 bp):
CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCCTTTGAA
C
Found at i:12859220 original size:41 final size:41
Alignment explanation
Indices: 12859117--12859225 Score: 155
Period size: 41 Copynumber: 2.7 Consensus size: 41
12859107 TTTAACATAT
* * *
12859117 TCACCGGCACTTAACCTGCTAAGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * *
12859158 TCACCGGAACTTAGCCTGCTAGGTTTATAACCTGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
12859199 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
12859226 AAGTCCGAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:12859902 original size:115 final size:114
Alignment explanation
Indices: 12859707--12860046 Score: 554
Period size: 115 Copynumber: 3.0 Consensus size: 114
12859697 TCATATATAC
* *
12859707 ATATTCGAACTTCATTAATGCTTATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
12859772 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
* * *
12859821 ATATTCGAACTTCATTTATTCATATATATAACATTCACACATTAACTAATTTCAATTTGTATACT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATAC-TTAACTAATTTCAATTTATATACT
*
12859886 TTCAATTATAGCTCATCAAATATACAATAGATATGCATATATATTTACAT
65 TTCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
* * *
12859936 ATATTCAAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATATTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
* * * *
12860001 TTAATTATAGCTCATAAAATATAAAATAAATATACATATATATTTA
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTA
12860047 TGCTGATTTG
Statistics
Matches: 208, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
114 99 0.48
115 109 0.52
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.41
Consensus pattern (114 bp):
ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
Found at i:12861038 original size:13 final size:13
Alignment explanation
Indices: 12861020--12861044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12861010 CAATCAAATG
12861020 CACACAAAATAAA
1 CACACAAAATAAA
12861033 CACACAAAATAA
1 CACACAAAATAA
12861045 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:12865374 original size:16 final size:16
Alignment explanation
Indices: 12865349--12865381 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12865339 CAGCTCTGAA
*
12865349 ATTATGTAAGTTATGT
1 ATTATATAAGTTATGT
12865365 ATTATATAAGTTATGT
1 ATTATATAAGTTATGT
12865381 A
1 A
12865382 AGTTACGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (16 bp):
ATTATATAAGTTATGT
Found at i:12865384 original size:25 final size:25
Alignment explanation
Indices: 12865350--12865428 Score: 104
Period size: 25 Copynumber: 3.2 Consensus size: 25
12865340 AGCTCTGAAA
*
12865350 TTATGTAAGTTATGTATTATATAAG
1 TTATGTAAGTTATGTATTATGTAAG
*
12865375 TTATGTAAGTTACGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* * * *
12865400 CTATGTAAGTTGTATTTTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
12865425 TTAT
1 TTAT
12865429 TTATTATGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.48
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTAAG
Found at i:12865394 original size:41 final size:41
Alignment explanation
Indices: 12865375--12865506 Score: 219
Period size: 41 Copynumber: 3.2 Consensus size: 41
12865365 ATTATATAAG
**
12865375 TTATGTAAGTTACGTATTATGTAAGCTATGTAAGTTGTATT
1 TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTATT
12865416 TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTATT
1 TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTATT
* * *
12865457 TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTA
1 TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTATT
12865498 TTATGTAAG
1 TTATGTAAG
12865507 CTATGTCATA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.48
Consensus pattern (41 bp):
TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTATT
Found at i:12865445 original size:25 final size:25
Alignment explanation
Indices: 12865417--12865465 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
12865407 AGTTGTATTT
12865417 TATGTAAGTTAT-TTATTATGTAAGC
1 TATGTAAGTTATATT-TTATGTAAGC
*
12865442 TATGTAAGTTGTATTTTATGTAAG
1 TATGTAAGTTATATTTTATGTAAG
12865466 TTATTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (25 bp):
TATGTAAGTTATATTTTATGTAAGC
Found at i:12865479 original size:25 final size:25
Alignment explanation
Indices: 12865430--12865504 Score: 50
Period size: 25 Copynumber: 3.1 Consensus size: 25
12865420 GTAAGTTATT
* * *
12865430 TATTATGTAAGCTATGTAAGTTGTA
1 TATTATGTAAGTTATGTAAGTTATG
* *
12865455 TTTTATGTAAGTTAT-TTA-TTATG
1 TATTATGTAAGTTATGTAAGTTATG
*
12865478 TAAGCTATGTAAGTTATGT-A-TTATG
1 T-A-TTATGTAAGTTATGTAAGTTATG
12865503 TA
1 TA
12865505 AGCTATGTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
23 4 0.10
24 3 0.08
25 32 0.80
26 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (25 bp):
TATTATGTAAGTTATGTAAGTTATG
Found at i:12865505 original size:25 final size:25
Alignment explanation
Indices: 12865458--12865512 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
12865448 AGTTGTATTT
*
12865458 TATGTAAGTTATTTATTATGTAAGC
1 TATGTAAGTTATGTATTATGTAAGC
12865483 TATGTAAGTTATGTATTATGTAAGC
1 TATGTAAGTTATGTATTATGTAAGC
12865508 TATGT
1 TATGT
12865513 CATAGACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTATGTATTATGTAAGC
Found at i:12865555 original size:18 final size:16
Alignment explanation
Indices: 12865401--12865566 Score: 66
Period size: 16 Copynumber: 10.6 Consensus size: 16
12865391 TTATGTAAGC
12865401 TATGTAAGTTGTATTT
1 TATGTAAGTTGTATTT
12865417 TATGTAAG-T-TA-TT
1 TATGTAAGTTGTATTT
***
12865430 TAT-T-A--TGTAAGC
1 TATGTAAGTTGTATTT
12865442 TATGTAAGTTGTATTT
1 TATGTAAGTTGTATTT
*
12865458 TATGTAAGTTAT-TTAT
1 TATGTAAGTTGTATT-T
**
12865474 TATGTAAGCTATGTAAGT
1 TATGTAAG-T-TGTATTT
* ***
12865492 TATGT-ATTATGTAAGC
1 TATGTAAGT-TGTATTT
*
12865508 TATGTCATAGACT-T-TTT
1 TATGT-A-AG-TTGTATTT
12865525 TATGTAAGTTGTATTT
1 TATGTAAGTTGTATTT
* *
12865541 TATGTAAGTTGTGTAT
1 TATGTAAGTTGTATTT
*
12865557 TATGTGAGTT
1 TATGTAAGTT
12865567 ATTTAAGTTA
Statistics
Matches: 114, Mismatches: 20, Indels: 32
0.69 0.12 0.19
Matches are distributed among these distances:
10 1 0.01
11 3 0.03
12 4 0.04
13 6 0.05
14 4 0.04
15 6 0.05
16 72 0.63
17 7 0.06
18 9 0.08
19 2 0.02
ACGTcount: A:0.28, C:0.03, G:0.19, T:0.51
Consensus pattern (16 bp):
TATGTAAGTTGTATTT
Found at i:12865802 original size:30 final size:30
Alignment explanation
Indices: 12865761--12865822 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
12865751 ACATAAATTA
*
12865761 TGAAATCTGATCGTAAGATTTTGCAAGTTT
1 TGAAATCTGATCGTAAGATTATGCAAGTTT
* * * *
12865791 TGAAATTTGATCTTAATATTATGTAAGTTT
1 TGAAATCTGATCGTAAGATTATGCAAGTTT
12865821 TG
1 TG
12865823 TATTAAGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (30 bp):
TGAAATCTGATCGTAAGATTATGCAAGTTT
Found at i:12867707 original size:19 final size:19
Alignment explanation
Indices: 12867664--12867708 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
12867654 CTGGACTACG
12867664 TTGGGGAACTGTTAGGGAT
1 TTGGGGAACTGTTAGGGAT
* *
12867683 TAGGGGAA-TTTTAGGGATT
1 TTGGGGAACTGTTAGGGA-T
12867702 TTGGGGA
1 TTGGGGA
12867709 GATGAGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.33
Consensus pattern (19 bp):
TTGGGGAACTGTTAGGGAT
Found at i:12868473 original size:26 final size:26
Alignment explanation
Indices: 12868434--12868484 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
12868424 CGGCGTCGTT
12868434 TTCATGAATACAATTTAACACTAAAG
1 TTCATGAATACAATTTAACACTAAAG
* *
12868460 TTCATGAATTCAATTTAACATTAAA
1 TTCATGAATACAATTTAACACTAAA
12868485 CCATCCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (26 bp):
TTCATGAATACAATTTAACACTAAAG
Found at i:12868804 original size:14 final size:14
Alignment explanation
Indices: 12868766--12868798 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12868756 TCAAACTTAA
*
12868766 AAACCC-AAATCAC
1 AAACCCTAAACCAC
12868779 AAACCCTAAACCAC
1 AAACCCTAAACCAC
12868793 AAACCC
1 AAACCC
12868799 CTAACCCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.52, C:0.42, G:0.00, T:0.06
Consensus pattern (14 bp):
AAACCCTAAACCAC
Found at i:12869105 original size:14 final size:14
Alignment explanation
Indices: 12869058--12869120 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 14
12869048 ATTAATCTAG
*
12869058 ACCCTAAACCCT-A
1 ACCCTAACCCCTAA
*
12869071 ACCC-GACCCCTATA
1 ACCCTAACCCCTA-A
*
12869085 ACACTAACCCCTAA
1 ACCCTAACCCCTAA
12869099 ACCCTAAACCCCTAA
1 ACCCT-AACCCCTAA
*
12869114 CCCCTAA
1 ACCCTAA
12869121 GCATCTCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
12 5 0.12
13 4 0.10
14 11 0.28
15 20 0.50
ACGTcount: A:0.37, C:0.48, G:0.02, T:0.14
Consensus pattern (14 bp):
ACCCTAACCCCTAA
Found at i:12869495 original size:14 final size:14
Alignment explanation
Indices: 12869476--12869515 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
12869466 TTGTTTGGCA
12869476 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
12869490 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
12869504 GGAAAATGTTTT
1 GTAAAATGTTTT
12869516 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:12869524 original size:20 final size:20
Alignment explanation
Indices: 12869499--12869538 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12869489 CGTAAAATGA
*
12869499 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
12869519 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
12869539 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:12869528 original size:34 final size:35
Alignment explanation
Indices: 12869484--12869550 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
12869474 CAGTAAAATG
*
12869484 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
12869518 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
12869551 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:12869554 original size:14 final size:15
Alignment explanation
Indices: 12869478--12869554 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
12869468 GTTTGGCAGT
* *
12869478 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
12869492 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
12869506 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
12869526 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
12869541 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
12869555 TGTTTGGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:12869609 original size:32 final size:31
Alignment explanation
Indices: 12869531--12869615 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 31
12869521 TCTGTAAAAT
* *
12869531 GATTTACTGGAAAATATTTTCTGGTGTTTGGTA
1 GATTT-CT-GAAAATATTTTCTGCTGTTTGGCA
* * *
12869564 AATCTGTGTAAAATATTTTCTGCTGTTTGGCA
1 GATTTCTG-AAAATATTTTCTGCTGTTTGGCA
12869596 GATTTCCTGAAAATATTTTC
1 GATTT-CTGAAAATATTTTC
12869616 CGGAAAAGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
31 1 0.02
32 36 0.86
33 5 0.12
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (31 bp):
GATTTCTGAAAATATTTTCTGCTGTTTGGCA
Found at i:12869667 original size:14 final size:14
Alignment explanation
Indices: 12869648--12869675 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12869638 ATTTTACATA
12869648 TATTAATATATATT
1 TATTAATATATATT
12869662 TATTAATATATATT
1 TATTAATATATATT
12869676 AATAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:12869676 original size:24 final size:25
Alignment explanation
Indices: 12869645--12869697 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
12869635 TATATTTTAC
*
12869645 ATATATTAATATA-TATTTATTA-AT
1 ATATATTAATAAATTATTT-TTACAT
12869669 ATATATTAATAAATTATTTTTACAT
1 ATATATTAATAAATTATTTTTACAT
12869694 ATAT
1 ATAT
12869698 TGCAATGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATATTAATAAATTATTTTTACAT
Found at i:12869982 original size:71 final size:72
Alignment explanation
Indices: 12869866--12870008 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 72
12869856 ATAATAATAT
*
12869866 TATCCAAATACATAATTAATGGTACACCACATAATAACAACATTGT-CTAGTGCATAATATTACA
1 TATCCAAATACATAATTAATGGTACACCACATAATAACAACATTGTCCAAGTGCATAATATTACA
12869930 CCACATA
66 CCACATA
*
12869937 TATCCAAATACATAATTAATGGTACACCACATAATAAGAACATTGTCCAAGTGCATAATATTACA
1 TATCCAAATACATAATTAATGGTACACCACATAATAACAACATTGTCCAAGTGCATAATATTACA
12870002 CCACATA
66 CCACATA
12870009 AAGGTATCAA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 45 0.65
72 24 0.35
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (72 bp):
TATCCAAATACATAATTAATGGTACACCACATAATAACAACATTGTCCAAGTGCATAATATTACA
CCACATA
Found at i:12870996 original size:35 final size:36
Alignment explanation
Indices: 12870950--12871018 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
12870940 ATTCAACCAT
12870950 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
12870985 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
12871019 TCTAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:12871016 original size:27 final size:28
Alignment explanation
Indices: 12870986--12871055 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
12870976 AATAATAAAT
*
12870986 TCAATATCCAACAAGCTT-AAAACATA-A
1 TCAATATCCAACAA-ATTCAAAACATATA
* *
12871013 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAACAAATTCAAAACATATA
*
12871041 TCAAAATCCAACAAA
1 TCAATATCCAACAAA
12871056 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.06
27 20 0.56
28 14 0.39
ACGTcount: A:0.53, C:0.21, G:0.03, T:0.23
Consensus pattern (28 bp):
TCAATATCCAACAAATTCAAAACATATA
Found at i:12872569 original size:15 final size:16
Alignment explanation
Indices: 12872549--12872581 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
12872539 AGTGCCACTT
12872549 AAAATGAAAGCA-TGA
1 AAAATGAAAGCATTGA
12872564 AAAATGAAAGCATTGA
1 AAAATGAAAGCATTGA
12872580 AA
1 AA
12872582 GTACCACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.61, C:0.06, G:0.18, T:0.15
Consensus pattern (16 bp):
AAAATGAAAGCATTGA
Found at i:12875195 original size:25 final size:25
Alignment explanation
Indices: 12875140--12875207 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 25
12875130 AAGCTTTGAG
12875140 GAATGGAAAATGACTGCTGCTTAGAAGA
1 GAATGGAAAATG--T-CTGCTTAGAAGA
12875168 GAATGGAAAATGTCTGCTTAG-AGAA
1 GAATGGAAAATGTCTGCTTAGAAG-A
*
12875193 GAATAGAAAATGTCT
1 GAATGGAAAATGTCT
12875208 TACCAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
24 2 0.05
25 23 0.61
26 1 0.03
28 12 0.32
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (25 bp):
GAATGGAAAATGTCTGCTTAGAAGA
Found at i:12876121 original size:113 final size:114
Alignment explanation
Indices: 12875635--12876121 Score: 664
Period size: 113 Copynumber: 4.3 Consensus size: 114
12875625 GCATTAACAG
* *
12875635 CGCTTTTTCAGAAAACGCCACTAAAGGCCCAAAAACTCAGAAAAC-AGCGTCGTTGGCCTTAGGT
1 CGCTTTTT-AAAAAACGCCGCTAAAGGCCC-AAAACTCAGAAAACGAGCGTCGTTGGCCTTAGGT
* **** *
12875699 TTTTTGCGGCGCTTTTTAGAAAACGCCGCTAAAG--GAAAGAGCATTAGCGG
64 TTTTTGCGACGCTTTTTAGAAAACGCCGCT-AAGTCCCCCGAGCATTAGCGA
* * *
12875749 CGCTTTTGAAAAAACGCCGCTAAAGACCCAAAAACTTAGAAAACG-GCGTCGTTGGCCTTAGG-T
1 CGCTTTTTAAAAAACGCCGCTAAAGGCCC-AAAACTCAGAAAACGAGCGTCGTTGGCCTTAGGTT
* *
12875812 TTTTGCGACGCTTTTTAGAAAACGCCTCTAAGTCCCCCGAGCATTAGCGG
65 TTTTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGA
* * * *
12875862 CGCTTTTTAAAAACCACCGCTAAAGGCCCAAAACTCAGAAAA-TAGCGGCGTTGGCCTTAGGTTT
1 CGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAACTCAGAAAACGAGCGTCGTTGGCCTTAGGTTT
** *
12875926 TTTGCGACGCTTTTCGGAAAACGCCGCTAAGTCCCCCGAACATTAGCGA
66 TTTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGA
*
12875975 CGCTTTTTAAAAAACGCCGTTAAAGGCCCAAAACTCAGAAAACGA-CGTCGTTGGCCTTAGGTTT
1 CGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAACTCAGAAAACGAGCGTCGTTGGCCTTAGGTTT
****
12876039 TTTGCGGTATTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGA
66 TTTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGA
12876088 CGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAAC
1 CGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAAC
12876122 GTTGGCCTTA
Statistics
Matches: 331, Mismatches: 36, Indels: 13
0.87 0.09 0.03
Matches are distributed among these distances:
111 3 0.01
112 56 0.17
113 264 0.80
114 8 0.02
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (114 bp):
CGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAACTCAGAAAACGAGCGTCGTTGGCCTTAGGTTT
TTTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGA
Done.