Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 44 of 128
Found at i:13837737 original size:23 final size:22
Alignment explanation
Indices: 13837666--13837774 Score: 116
Period size: 23 Copynumber: 5.0 Consensus size: 22
13837656 CCTGATCAGT
13837666 ATACGACACAT-AAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
****
13837687 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATAAAGTGCCTGA
13837707 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
*
13837729 GATACGACACATAAAGTGCTTGA
1 -ATACGACACATAAAGTGCCTGA
* *
13837752 TGTATGACACATAAAGTGCCTGA
1 -ATACGACACATAAAGTGCCTGA
13837775 TCGACAAAGC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
20 10 0.14
21 21 0.29
22 1 0.01
23 40 0.56
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:13838036 original size:36 final size:37
Alignment explanation
Indices: 13837982--13838058 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
13837972 AAATTCATAT
* *
13837982 TTCAATTCAATTTCACTTTTTCACTTTCAA-TCACAA
1 TTCAATTCAATTTCACTTTTCCACTTTCAAGTCAAAA
*
13838018 TTCAATTCAAATTT-ACTTTTCCATTTTCAAGTCAAAA
1 TTCAATTC-AATTTCACTTTTCCACTTTCAAGTCAAAA
13838055 TTCA
1 TTCA
13838059 TTTTAATTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 22 0.61
37 14 0.39
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.44
Consensus pattern (37 bp):
TTCAATTCAATTTCACTTTTCCACTTTCAAGTCAAAA
Found at i:13839021 original size:14 final size:17
Alignment explanation
Indices: 13839002--13839039 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
13838992 ATTTATTTCT
13839002 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
13839016 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
13839033 TAATATA
1 TAATATA
13839040 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:13839191 original size:51 final size:51
Alignment explanation
Indices: 13839115--13839214 Score: 182
Period size: 51 Copynumber: 2.0 Consensus size: 51
13839105 AGCCTCAACC
* *
13839115 TCCAAATGTGGCTTAATTTCCCATTTGGTCCCTATTATTTTCCTTTAATTT
1 TCCAAATGTGGCTTAATTGCCCATTTGGTCCCTATTATTTTCATTTAATTT
13839166 TCCAAATGTGGCTTAATTGCCCATTTGGTCCCTATTATTTTCATTTAAT
1 TCCAAATGTGGCTTAATTGCCCATTTGGTCCCTATTATTTTCATTTAAT
13839215 CTATAATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (51 bp):
TCCAAATGTGGCTTAATTGCCCATTTGGTCCCTATTATTTTCATTTAATTT
Found at i:13839698 original size:13 final size:13
Alignment explanation
Indices: 13839673--13839711 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
13839663 TATTATTTTT
13839673 TAATTTT-AAATA
1 TAATTTTAAAATA
13839685 TAATTTTAAAATA
1 TAATTTTAAAATA
13839698 TACA-TTTAAAATA
1 TA-ATTTTAAAATA
13839711 T
1 T
13839712 TATAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 17 0.68
14 1 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTTTAAAATA
Found at i:13839780 original size:86 final size:86
Alignment explanation
Indices: 13839641--13839901 Score: 490
Period size: 86 Copynumber: 3.0 Consensus size: 86
13839631 GGAGCCACTC
*
13839641 TAAATGGCACCACCAAATAAAATATTA-TTTTTTAATTTTAAATATAATTTTAAAATATACATTT
1 TAAATGGCTCCACCAAATAAAATATTATTTTTTTAATTTTAAATATAATTTTAAAATATACATTT
13839705 AAAATATTATAAAACAAATAA
66 AAAATATTATAAAACAAATAA
13839726 TAAATGGCTCCACCAAATAAAATATTATTTTTTTAATTTTAAATATAATTTTAAAATATACATTT
1 TAAATGGCTCCACCAAATAAAATATTATTTTTTTAATTTTAAATATAATTTTAAAATATACATTT
13839791 AAAATATTATAAAACAAATAA
66 AAAATATTATAAAACAAATAA
13839812 TAAATGGCTCCACCAAATAAAATATTATTTTTTTAATTTTAAATATAATTTTAAAATATACATTT
1 TAAATGGCTCCACCAAATAAAATATTATTTTTTTAATTTTAAATATAATTTTAAAATATACATTT
13839877 AAAATATTATAAAAC-AATAAA
66 AAAATATTATAAAACAAAT-AA
13839898 TAAA
1 TAAA
13839902 GGACAAATAA
Statistics
Matches: 173, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
85 29 0.17
86 144 0.83
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (86 bp):
TAAATGGCTCCACCAAATAAAATATTATTTTTTTAATTTTAAATATAATTTTAAAATATACATTT
AAAATATTATAAAACAAATAA
Found at i:13839784 original size:13 final size:13
Alignment explanation
Indices: 13839759--13839797 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
13839749 ATTATTTTTT
13839759 TAATTTT-AAATA
1 TAATTTTAAAATA
13839771 TAATTTTAAAATA
1 TAATTTTAAAATA
13839784 TACA-TTTAAAATA
1 TA-ATTTTAAAATA
13839797 T
1 T
13839798 TATAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 17 0.68
14 1 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTTTAAAATA
Found at i:13839870 original size:13 final size:13
Alignment explanation
Indices: 13839845--13839883 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
13839835 ATTATTTTTT
13839845 TAATTTT-AAATA
1 TAATTTTAAAATA
13839857 TAATTTTAAAATA
1 TAATTTTAAAATA
13839870 TACA-TTTAAAATA
1 TA-ATTTTAAAATA
13839883 T
1 T
13839884 TATAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 17 0.68
14 1 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTTTAAAATA
Found at i:13840737 original size:24 final size:22
Alignment explanation
Indices: 13840702--13840760 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
13840692 AAAATTAGTT
* * *
13840702 AAAATTTCAAAACATATATATAA
1 AAAAATTCAAAA-ATAAAAATAA
*
13840725 AAAAATTCGAAAAATAAAAATTA
1 AAAAATTC-AAAAATAAAAATAA
13840748 AAAAATT-AAAAAT
1 AAAAATTCAAAAAT
13840761 TGAAAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.19
23 21 0.68
24 4 0.13
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAATTCAAAAATAAAAATAA
Found at i:13840743 original size:15 final size:15
Alignment explanation
Indices: 13840725--13840766 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
13840715 ATATATATAA
13840725 AAAAATTCGAAAAA-T
1 AAAAATT-GAAAAATT
*
13840740 AAAAATTAAAAAATT
1 AAAAATTGAAAAATT
13840755 AAAAATTGAAAA
1 AAAAATTGAAAA
13840767 TATAGAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (15 bp):
AAAAATTGAAAAATT
Found at i:13840907 original size:18 final size:19
Alignment explanation
Indices: 13840875--13840920 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
13840865 TGTGTTTTTA
13840875 TTTTTTTATTGTTTG-AAT
1 TTTTTTTATTGTTTGAAAT
13840893 TTTTTATTATT-TTTGAAAT
1 TTTTT-TTATTGTTTGAAAT
*
13840912 TTTATTTAT
1 TTTTTTTAT
13840921 ATTCAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTTTTATTGTTTGAAAT
Found at i:13840914 original size:17 final size:19
Alignment explanation
Indices: 13840873--13840917 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
13840863 AATGTGTTTT
*
13840873 TATTTTTTTATTGTTTGAA
1 TATTTTATTATTGTTTGAA
*
13840892 TTTTTTATTATT-TTTGAA
1 TATTTTATTATTGTTTGAA
13840910 -ATTTTATT
1 TATTTTATT
13840918 TATATTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 7 0.30
18 6 0.26
19 10 0.43
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (19 bp):
TATTTTATTATTGTTTGAA
Found at i:13848074 original size:59 final size:59
Alignment explanation
Indices: 13847986--13848289 Score: 434
Period size: 59 Copynumber: 5.2 Consensus size: 59
13847976 TCATCGACCA
13847986 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * *
13848045 ATGAAAAGGGATAGCTTCGGCTATAGATTATGAAAAGGGATGGTGATGGCCATCGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * * *
13848104 ATGTAAAGGGATAGCTTTGACTATCGATTATGAAAAAGGATGGTGACGACCATC-AATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * * *
13848162 ATGAAAAGGGAAAGC-TCGGCTATCGATTACGAAAAGAGATGGTGACGACCATTGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * * * * *
13848220 ATGAAAAGGGATAACTTTGACTATTGATTATAAAAAGGGATGGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
13848278 ATGAAAAGGGAT
1 ATGAAAAGGGAT
13848290 GGTGACGACC
Statistics
Matches: 215, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
57 32 0.15
58 49 0.23
59 134 0.62
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (59 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
Found at i:13848238 original size:116 final size:117
Alignment explanation
Indices: 13847986--13848288 Score: 448
Period size: 116 Copynumber: 2.6 Consensus size: 117
13847976 TCATCGACCA
* * *
13847986 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAA
1 ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAAGGATGGTGACGACCATC-AATTATGAAA
* * * * *
13848051 AGGGATAGCTTCGGCTATAGATTATGAAAAGGGATGGTGATGGCCATCGAATT
65 AGGGAAAGCTTCGGCTATAGATTACGAAAAGAGATGGTGACGACCATCGAATT
*
13848104 ATGTAAAGGGATAGCTTTGACTATCGATTATGAAAAAGGATGGTGACGACCATCAATTATGAAAA
1 ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAAGGATGGTGACGACCATCAATTATGAAAA
* *
13848169 GGGAAAGC-TCGGCTATCGATTACGAAAAGAGATGGTGACGACCATTGAATT
66 GGGAAAGCTTCGGCTATAGATTACGAAAAGAGATGGTGACGACCATCGAATT
* * *
13848220 ATGAAAAGGGATAACTTTGACTATTGATTAT-AAAAAGGGATGGTGACGACCATCAACTATGAAA
1 ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAA-GGATGGTGACGACCATCAATTATGAAA
13848284 AGGGA
65 AGGGA
13848289 TGGTGACGAC
Statistics
Matches: 169, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
115 5 0.03
116 96 0.57
117 18 0.11
118 50 0.30
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (117 bp):
ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAAGGATGGTGACGACCATCAATTATGAAAA
GGGAAAGCTTCGGCTATAGATTACGAAAAGAGATGGTGACGACCATCGAATT
Found at i:13848284 original size:29 final size:29
Alignment explanation
Indices: 13848012--13848301 Score: 196
Period size: 29 Copynumber: 9.9 Consensus size: 29
13848002 TCGGCTATCG
13848012 ATTATGAAAAGGGATGGTGACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATC-A
* * * *
13848042 ATTATGAAAAGGGATAGCT-TCGGCTAT-A
1 ATTATGAAAAGGGAT-GGTGACGACCATCA
* *
13848070 GATTATGAAAAGGGATGGTGATGGCCATCGA
1 -ATTATGAAAAGGGATGGTGACGACCATC-A
* * ** * *
13848101 ATTATGTAAAGGGATAGCT-TTGACTATCG
1 ATTATGAAAAGGGAT-GGTGACGACCATCA
*
13848130 ATTATGAAAAAGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
* * * * *
13848159 ATTATGAAAAGGGAAAGCT--CGGCTATCG
1 ATTATGAAAAGGG-ATGGTGACGACCATCA
* * *
13848187 ATTACGAAAAGAGATGGTGACGACCATTGA
1 ATTATGAAAAGGGATGGTGACGACCA-TCA
** ** * **
13848217 ATTATGAAAAGGGATAACT-TTGACTATTG
1 ATTATGAAAAGGGAT-GGTGACGACCATCA
*
13848246 ATTATAAAAAGGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
*
13848275 ACTATGAAAAGGGATGGTGACGACCAT
1 ATTATGAAAAGGGATGGTGACGACCAT
13848302 GTGTCCCTAC
Statistics
Matches: 193, Mismatches: 54, Indels: 27
0.70 0.20 0.10
Matches are distributed among these distances:
27 3 0.02
28 23 0.12
29 100 0.52
30 61 0.32
31 6 0.03
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGACGACCATCA
Found at i:13848598 original size:21 final size:20
Alignment explanation
Indices: 13848561--13848599 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13848551 CTGCAATTTG
*
13848561 AAAAATTCTAACTTTTTCCC
1 AAAAATTCTAACATTTTCCC
13848581 AAAAATTCTATACATTTTC
1 AAAAATTCTA-ACATTTTC
13848600 TATTTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATTCTAACATTTTCCC
Found at i:13850850 original size:100 final size:100
Alignment explanation
Indices: 13850726--13850925 Score: 346
Period size: 100 Copynumber: 2.0 Consensus size: 100
13850716 CTTATAATAA
13850726 GAACAAGAGATCTTTCTCGATCAATCCCTTTGCCCCTCATTCTTCGAGAATCAGAAAAATCATTT
1 GAACAAGAGATCTTTCTCGATCAATCCCTTTGCCCCTCATTCTTCGAGAATCAGAAAAATCATTT
*
13850791 TTAAGTTTGAATTTGTTCATTTGGAATCTGGGTTC
66 TCAAGTTTGAATTTGTTCATTTGGAATCTGGGTTC
* * * * *
13850826 GAACAAGATATCTTTCTTGATCAATTCCTTTGCCCCTCATTCTTCGAGAATCAGAAAGATCCTTT
1 GAACAAGAGATCTTTCTCGATCAATCCCTTTGCCCCTCATTCTTCGAGAATCAGAAAAATCATTT
13850891 TCAAGTTTGAATTTGTTCATTTGGAATCTGGGTTC
66 TCAAGTTTGAATTTGTTCATTTGGAATCTGGGTTC
13850926 TTCTACTTCA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (100 bp):
GAACAAGAGATCTTTCTCGATCAATCCCTTTGCCCCTCATTCTTCGAGAATCAGAAAAATCATTT
TCAAGTTTGAATTTGTTCATTTGGAATCTGGGTTC
Found at i:13851526 original size:13 final size:13
Alignment explanation
Indices: 13851510--13851536 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13851500 TATATTAGTA
13851510 TTTTCTATTCTAT
1 TTTTCTATTCTAT
13851523 TTTTCTATTCTAT
1 TTTTCTATTCTAT
13851536 T
1 T
13851537 AGTATTAGAT
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:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCTATTCTAT
Found at i:13851548 original size:11 final size:11
Alignment explanation
Indices: 13851534--13851580 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
13851524 TTTCTATTCT
13851534 ATTAGTATTAG
1 ATTAGTATTAG
13851545 ATTAGTATTAG
1 ATTAGTATTAG
*
13851556 -TTAG-CTTAG
1 ATTAGTATTAG
13851565 ATTAGTATTAG
1 ATTAGTATTAG
13851576 -TTAGT
1 ATTAGT
13851581 GATCCCGGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 4 0.12
10 13 0.41
11 15 0.47
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:13851566 original size:20 final size:20
Alignment explanation
Indices: 13851541--13851579 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
13851531 TCTATTAGTA
13851541 TTAGATTAGTATTAGTTAGC
1 TTAGATTAGTATTAGTTAGC
13851561 TTAGATTAGTATTAGTTAG
1 TTAGATTAGTATTAGTTAG
13851580 TGATCCCGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
TTAGATTAGTATTAGTTAGC
Found at i:13856353 original size:29 final size:28
Alignment explanation
Indices: 13856315--13856533 Score: 88
Period size: 29 Copynumber: 7.5 Consensus size: 28
13856305 TCATCGACCA
*
13856315 ATGAATAGGGATGGCTTCAGCTATCGATT
1 ATGAAAAGGGATGG-TTCAGCTATCGATT
* * *
13856344 ATGAAAAGGGATGG-TGACGACCATCAATT
1 ATGAAAAGGGATGGTTCA-G-CTATCGATT
** * *
13856373 ATGAAAAGGGATGGGAC-GACCATCGAAGT
1 ATGAAAAGGGATGGTTCAG-CTATCG-ATT
* ** * *
13856402 ATGAAAAGGGATAGCTTTGGATATTGATT
1 ATGAAAAGGGAT-GGTTCAGCTATCGATT
* * **
13856431 ATGAAAAGGGATGGTGATGACCT-TTAATT
1 ATGAAAAGGGATGGT--TCAGCTATCGATT
* *
13856460 ATGAAAATGGG-TGG-TGATGACCATCGAATT
1 ATGAAAA-GGGATGGTTCA-G-CTATCG-ATT
* * *
13856490 ATGAAAAGGGAAAGCTTCGGCTATCGATT
1 ATGAAAAGGG-ATGGTTCAGCTATCGATT
13856519 ATGAAAAGGGATGGT
1 ATGAAAAGGGATGGT
13856534 GATGACCATT
Statistics
Matches: 141, Mismatches: 33, Indels: 33
0.68 0.16 0.16
Matches are distributed among these distances:
26 3 0.02
27 2 0.01
28 14 0.10
29 94 0.67
30 24 0.17
31 3 0.02
32 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.26
Consensus pattern (28 bp):
ATGAAAAGGGATGGTTCAGCTATCGATT
Found at i:13856519 original size:88 final size:87
Alignment explanation
Indices: 13856328--13856560 Score: 333
Period size: 88 Copynumber: 2.7 Consensus size: 87
13856318 AATAGGGATG
* * *
13856328 GCTTCAGCTATCGATTATGAAAAGGGATGGTGACGACCATCAATTATGAAAAGGGATGGGACGAC
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCTTCAATTATGAAAAGGGATGGGACGAC
*
13856393 CATCGAAGTATGAAAAGGGATA
66 CATCGAAGTATGAAAAGGGAAA
* * * * *
13856415 GCTTTGGATATTGATTATGAAAAGGGATGGTGATGACCTTTAATTATGAAAATGGG-TGGTGATG
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCTTCAATTATGAAAA-GGGATGG-GACG
*
13856479 ACCATCGAATTATGAAAAGGGAAA
64 ACCATCGAAGTATGAAAAGGGAAA
*
13856503 GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATTGAATTATGAAAAGGGAT
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACC-TTCAATTATGAAAAGGGAT
13856561 AGCTTCGGCT
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
87 48 0.38
88 66 0.52
89 14 0.11
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (87 bp):
GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCTTCAATTATGAAAAGGGATGGGACGAC
CATCGAAGTATGAAAAGGGAAA
Found at i:13856520 original size:59 final size:60
Alignment explanation
Indices: 13856457--13856617 Score: 233
Period size: 59 Copynumber: 2.8 Consensus size: 60
13856447 ATGACCTTTA
13856457 ATTATGAAAATGGG-TGGTGATGACCATCGAATTATGAAAAGGGAAAGCTTCGGCTATCG
1 ATTATGAAAATGGGATGGTGATGACCATCGAATTATGAAAAGGGAAAGCTTCGGCTATCG
* * *
13856516 ATTATGAAAA-GGGATGGTGATGACCATTGAATTATGAAAAGGGATAGCTTCGGCTATTG
1 ATTATGAAAATGGGATGGTGATGACCATCGAATTATGAAAAGGGAAAGCTTCGGCTATCG
* *
13856575 ATTAT-AAAATGGGAAT-GTGACGACCATC-AACTATGAAAAGGGA
1 ATTATGAAAATGGG-ATGGTGATGACCATCGAATTATGAAAAGGGA
13856618 TGGTGACGAC
Statistics
Matches: 93, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
58 21 0.23
59 70 0.75
60 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (60 bp):
ATTATGAAAATGGGATGGTGATGACCATCGAATTATGAAAAGGGAAAGCTTCGGCTATCG
Found at i:13856579 original size:88 final size:88
Alignment explanation
Indices: 13856328--13856630 Score: 305
Period size: 88 Copynumber: 3.5 Consensus size: 88
13856318 AATAGGGATG
* **
13856328 GCTTCAGCTATCGATTATGAAAAGGGATGGTGACGACCA-TCAATTATGAAAAGGGATGGGACGA
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATTCAATTATGAAAAGGGATGGTTCGA
* *
13856392 CCATCGAAGTATGAAAAGGGATA
66 CCATCGAATTATGAAAAGGGAAA
* * * * *
13856415 GCTTTGGATATTGATTATGAAAAGGGATGGTGATGACC-TTTAATTATGAAAATGGG-TGGTGAT
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATTCAATTATGAAAA-GGGATGGT--T
13856478 -GACCATCGAATTATGAAAAGGGAAA
63 CGACCATCGAATTATGAAAAGGGAAA
* * *
13856503 GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATTGAATTATGAAAAGGGATAGCTTCG
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATTCAATTATGAAAAGGGAT-GGTTCG
* * * *
13856568 GCTATTG-ATTAT-AAAATGGGAAT
65 ACCATCGAATTATGAAAA-GGGAAA
* * * * *
13856591 G-TGACGACCATCAACTATGAAAAGGGATGGTGACGACCAT
1 GCT-TCGGCTATCGATTATGAAAAGGGATGGTGACGACCAT
13856631 CATGATTCCA
Statistics
Matches: 181, Mismatches: 25, Indels: 19
0.80 0.11 0.08
Matches are distributed among these distances:
87 53 0.29
88 107 0.59
89 19 0.10
90 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (88 bp):
GCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATTCAATTATGAAAAGGGATGGTTCGA
CCATCGAATTATGAAAAGGGAAA
Found at i:13856627 original size:29 final size:29
Alignment explanation
Indices: 13856341--13856632 Score: 211
Period size: 29 Copynumber: 10.0 Consensus size: 29
13856331 TCAGCTATCG
13856341 ATTATGAAAAGGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
13856370 ATTATGAAAAGGGATGG-GACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATC-A
* * *** * **
13856399 AGTATGAAAAGGGATAGCTTTGGA-TATTG
1 ATTATGAAAAGGGAT-GGTGACGACCATCA
* * *
13856428 ATTATGAAAAGGGATGGTGATGACCTTTA
1 ATTATGAAAAGGGATGGTGACGACCATCA
*
13856457 ATTATGAAAATGGG-TGGTGATGACCATCGA
1 ATTATGAAAA-GGGATGGTGACGACCATC-A
* * * * * *
13856487 ATTATGAAAAGGGAAAGCT-TCGGCTATCG
1 ATTATGAAAAGGG-ATGGTGACGACCATCA
* *
13856516 ATTATGAAAAGGGATGGTGATGACCATTGA
1 ATTATGAAAAGGGATGGTGACGACCA-TCA
* * * * **
13856546 ATTATGAAAAGGGATAGCT-TCGGCTATTG
1 ATTATGAAAAGGGAT-GGTGACGACCATCA
13856575 ATTAT-AAAATGGGAAT-GTGACGACCATCA
1 ATTATGAAAA-GGG-ATGGTGACGACCATCA
*
13856604 ACTATGAAAAGGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
13856633 TGATTCCACT
Statistics
Matches: 200, Mismatches: 47, Indels: 32
0.72 0.17 0.11
Matches are distributed among these distances:
28 24 0.12
29 123 0.62
30 47 0.23
31 6 0.03
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGACGACCATCA
Found at i:13857849 original size:21 final size:20
Alignment explanation
Indices: 13857812--13857850 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13857802 CTGCAGTTTG
*
13857812 AAAAATTCTAACTTTTTCCT
1 AAAAATTCTAACGTTTTCCT
13857832 AAAAATTCTATACGTTTTC
1 AAAAATTCTA-ACGTTTTC
13857851 GATTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.44
Consensus pattern (20 bp):
AAAAATTCTAACGTTTTCCT
Found at i:13863549 original size:30 final size:30
Alignment explanation
Indices: 13863466--13863550 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 30
13863456 AACCATCCAT
* * *
13863466 TACAAACA-AAATTGAACCATCCATCAAAA
1 TACAAACATCAATTAAACCGTCCATCAAAA
** *
13863495 TACAAACATCAA-TAAAGTGTCCATCAAGA
1 TACAAACATCAATTAAACCGTCCATCAAAA
* *
13863524 TACAACCTTCAATTAAACCGTCCATCA
1 TACAAACATCAATTAAACCGTCCATCA
13863551 TCGAAATACA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 30 0.68
30 14 0.32
ACGTcount: A:0.47, C:0.26, G:0.06, T:0.21
Consensus pattern (30 bp):
TACAAACATCAATTAAACCGTCCATCAAAA
Found at i:13866462 original size:18 final size:19
Alignment explanation
Indices: 13866429--13866469 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
13866419 CTATCCCCAC
*
13866429 ATTTAACTCTTTCATTATA
1 ATTTAACTCTTTCATTACA
*
13866448 ATTTAATTC-TTCATTACA
1 ATTTAACTCTTTCATTACA
13866466 ATTT
1 ATTT
13866470 TGTTCCCCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAACTCTTTCATTACA
Found at i:13867053 original size:60 final size:57
Alignment explanation
Indices: 13867014--13867198 Score: 139
Period size: 56 Copynumber: 3.2 Consensus size: 57
13867004 TACATACATT
* *
13867014 AAACATGACATACATAATATACA-AACATAATAGTAATATAACACATAACAAACATAC
1 AAACAT-ACATACATAATATACATAACATAACAATAATATAACACATAACAAACATAC
* * *
13867071 AAATATACATACATAATATACATAACA-ATAC-ATAAAATAACATACAT-ACAAATATAC
1 AAACATACATACATAATATACATAACATA-ACAATAATATAAC--ACATAACAAACATAC
* * * *
13867128 AAACATAACAATAAACATAACATACAT-ATATAACAATACATA-ACATAACATAACATACATAC
1 AAACAT-AC-AT--ACATAATATACATAACATAACAATA-ATATA-A-CACATAACAAACATAC
*
13867190 AAATATACA
1 AAACATACA
13867199 AGCACAACAG
Statistics
Matches: 101, Mismatches: 13, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
56 25 0.25
57 24 0.24
58 6 0.06
59 2 0.02
60 5 0.05
61 23 0.23
62 16 0.16
ACGTcount: A:0.59, C:0.17, G:0.01, T:0.22
Consensus pattern (57 bp):
AAACATACATACATAATATACATAACATAACAATAATATAACACATAACAAACATAC
Found at i:13867116 original size:37 final size:36
Alignment explanation
Indices: 13867075--13867326 Score: 218
Period size: 37 Copynumber: 6.8 Consensus size: 36
13867065 ACATACAAAT
13867075 ATACATACATAATATACATAACAATACATAAA-ATAAC
1 ATACATACATAATATACA-AAC-ATACATAAACATAAC
13867112 ATACATACA-AATATACAAACATAACAATAAACATAAC
1 ATACATACATAATATACAAACAT-AC-ATAAACATAAC
13867149 ATACAT--AT-ATA-ACAATACATAACAT-AACATAAC
1 ATACATACATAATATACAA-ACAT-ACATAAACATAAC
13867182 ATACATACA-AATATACAAGCACA-ACAGTAAACATAAC
1 ATACATACATAATATACAA--ACATACA-TAAACATAAC
*
13867219 ATACATACA-AATATACAAACATAACAGTAAACATATC
1 ATACATACATAATATACAAACAT-ACA-TAAACATAAC
* * * * *
13867256 ATCCACATATAACAATACATAACATAATAGTAAACATAAC
1 ATACATACATAA-TATACA-AACAT-ACA-TAAACATAAC
*
13867296 ATACATACATAACAATACATAACATACATAA
1 ATACATACATAA-TATACA-AACATACATAA
13867327 TATACATAAC
Statistics
Matches: 186, Mismatches: 12, Indels: 33
0.81 0.05 0.14
Matches are distributed among these distances:
33 14 0.08
34 8 0.04
35 26 0.14
36 18 0.10
37 68 0.37
38 5 0.03
39 7 0.04
40 40 0.22
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (36 bp):
ATACATACATAATATACAAACATACATAAACATAAC
Found at i:13867130 original size:65 final size:66
Alignment explanation
Indices: 13867005--13867332 Score: 216
Period size: 70 Copynumber: 4.9 Consensus size: 66
13866995 CACATAATAT
* * * *
13867005 ACAT-ACATTAAACATGACATACATA-ATATACAA-ACATAATAGTAATATAAC--AC--ATA-A
1 ACATAACAATAAACATAACATACATATATA-ACAATACATAA-AATAACATAACATACAAATATA
13867062 CAA
64 CAA
*
13867065 ACAT-ACAAATATACAT-ACATA-ATATACATAACAATACATAAAATAACAT-ACATACAAATAT
1 ACATAAC-AATAAACATAACATACATAT--ATAACAATACATAAAATAACATAACATACAAATAT
13867126 ACAA
63 ACAA
*
13867130 ACATAACAATAAACATAACATACATATATAACAATACATAACATAACATAACATACATACAAATA
1 ACATAACAATAAACATAACATACATATATAACAATACATAAAATAACAT---A-ACATACAAATA
13867195 TACAA
62 TACAA
* * * * * * * *
13867200 GCACAACAGTAAACATAACATACATACAAATATACAA-ACATAACAGTAAACATATCATCCACAT
1 ACATAACAATAAACATAACATACAT--ATATA-ACAATACATAA-AAT-AACATAACATACAAAT
13867264 ATAACAA
61 AT-ACAA
* * *
13867271 TACATAACATAATAGTAAACATAACATACATACATAACAATACATAACAT-ACATAATATACA
1 -ACATAAC---A-A-TAAACATAACATACATATATAACAATACATAAAATAACATAACATACA
13867333 TAACAATTTA
Statistics
Matches: 213, Mismatches: 24, Indels: 50
0.74 0.08 0.17
Matches are distributed among these distances:
59 3 0.01
60 13 0.06
61 17 0.08
62 11 0.05
64 3 0.01
65 37 0.17
66 7 0.03
67 4 0.02
70 47 0.22
71 5 0.02
72 24 0.11
73 5 0.02
74 10 0.05
75 11 0.05
77 16 0.08
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.22
Consensus pattern (66 bp):
ACATAACAATAAACATAACATACATATATAACAATACATAAAATAACATAACATACAAATATACA
A
Found at i:13867190 original size:70 final size:70
Alignment explanation
Indices: 13867100--13867353 Score: 282
Period size: 70 Copynumber: 3.5 Consensus size: 70
13867090 ACATAACAAT
* * *
13867100 ACATAAAATAACATACATACAAATATACAAACATAACAATAAACATAACATACATATATAACAAT
1 ACATAACATAACATACATACAAATATACAAACATAACAGTAAACATAACATACATAAATAACAAT
13867165 ACATA
66 ACATA
* *
13867170 ACATAACATAACATACATACAAATATACAAGCACAACAGTAAACATAACATACATACAAATATAC
1 ACATAACATAACATACATACAAATATACAAACATAACAGTAAACATAACATACAT--AAATA-AC
13867235 AA-ACATA
63 AATACATA
* * * *
13867242 ACAGTAAACATATCATCCACATATAACA-ATACATAACATAATAGTAAACATAACATACATACAT
1 ACA-T-AACATAACAT--ACATACAA-ATATACA-AACATAACAGTAAACATAACATACATAAAT
13867306 AACAATACATA
60 AACAATACATA
* * *
13867317 ACAT-ACATAATATACATA-ACAATTTAAAAACATAACA
1 ACATAACATAACATACATACA-AATATACAAACATAACA
13867354 TACATACATA
Statistics
Matches: 156, Mismatches: 16, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
69 10 0.06
70 60 0.38
72 19 0.12
73 5 0.03
74 14 0.09
75 12 0.08
76 12 0.08
77 24 0.15
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (70 bp):
ACATAACATAACATACATACAAATATACAAACATAACAGTAAACATAACATACATAAATAACAAT
ACATA
Found at i:13867229 original size:107 final size:107
Alignment explanation
Indices: 13867049--13867325 Score: 333
Period size: 107 Copynumber: 2.6 Consensus size: 107
13867039 CATAATAGTA
*
13867049 ATATAACACATAACA-AACAT-ACA-AATATACATACATAATATACATAACAATACATAAAATAA
1 ATATAACA-AT-ACATAACATAACATAACATACATACATAATATACATAACAATACATAAAATAA
*
13867111 CATACATACAAATATACAAACATAACAATAAACATAACATACAT
64 CATACATACAAATATACAAACATAACAATAAACATAACATACAC
*
13867155 ATATAACAATACATAACATAACATAACATACATACA-AATATACA-AGCACA-ACAGTAAACATA
1 ATATAACAATACATAACATAACATAACATACATACATAATATACATAACA-ATACA-TAAA-ATA
* * *
13867217 ACATACATACAAATATACAAACATAACAGTAAACATATCATCCAC
63 ACATACATACAAATATACAAACATAACAATAAACATAACATACAC
* * *
13867262 ATATAACAATACATAACATAATAGT-A-A-ACATAACAT-ACATACATAACAATACATAACAT-A
1 ATATAACAATACATAACATAACA-TAACATACAT-ACATAATATACATAACAATACATAAAATAA
13867322 CATA
64 CATA
13867326 ATATACATAA
Statistics
Matches: 150, Mismatches: 10, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
104 8 0.05
105 19 0.13
106 38 0.25
107 84 0.56
108 1 0.01
ACGTcount: A:0.58, C:0.19, G:0.01, T:0.21
Consensus pattern (107 bp):
ATATAACAATACATAACATAACATAACATACATACATAATATACATAACAATACATAAAATAACA
TACATACAAATATACAAACATAACAATAAACATAACATACAC
Found at i:13867289 original size:40 final size:39
Alignment explanation
Indices: 13867139--13867321 Score: 167
Period size: 40 Copynumber: 4.9 Consensus size: 39
13867129 AACATAACAA
*
13867139 TAAACATAACATACATATATAACAATACATAACATAACA-
1 TAAACATAACAT-CACATATAACAATACATAACATAACAG
* * *
13867178 T-AACAT-ACAT-AC--A-AA-TATACA-AGCACAACAG
1 TAAACATAACATCACATATAACAATACATAACATAACAG
*
13867209 TAAACATAACAT-ACATACAA-ATATACA-AACATAACAG
1 TAAACATAACATCACATATAACA-ATACATAACATAACAG
* *
13867246 TAAACATATCATCCACATATAACAATACATAACATAATAG
1 TAAACATAACAT-CACATATAACAATACATAACATAACAG
13867286 TAAACATAACAT-ACATACATAACAATACATAACATA
1 TAAACATAACATCACAT--ATAACAATACATAACATA
13867322 CATAATATAC
Statistics
Matches: 120, Mismatches: 11, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
30 7 0.06
31 6 0.05
32 7 0.06
33 7 0.06
35 2 0.02
36 2 0.02
37 28 0.23
38 9 0.08
39 13 0.11
40 39 0.32
ACGTcount: A:0.57, C:0.20, G:0.02, T:0.21
Consensus pattern (39 bp):
TAAACATAACATCACATATAACAATACATAACATAACAG
Found at i:13867305 original size:30 final size:27
Alignment explanation
Indices: 13867264--13867393 Score: 86
Period size: 30 Copynumber: 4.4 Consensus size: 27
13867254 TCATCCACAT
13867264 ATAACAATACATAACATAATAGTAAACATAAC
1 ATAAC-ATACATAACA-AATA--AAACAT-AC
13867296 AT-ACATACATAAC-AATACATAACATAC
1 ATAACATACATAACAAATA-A-AACATAC
* *
13867323 ATAATATACATAACAATTTAAAAACATAAC
1 ATAACATACATAACAA-AT-AAAACAT-AC
*
13867353 AT-ACATACATAAACAATAAAGAAACATAC
1 ATAACATACAT-AACAA-ATA-AAACATAC
*
13867382 ATAACAGACATA
1 ATAACATACATA
13867394 CCTTTCACCC
Statistics
Matches: 82, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
27 5 0.06
28 19 0.23
29 19 0.23
30 34 0.41
31 3 0.04
32 2 0.02
ACGTcount: A:0.59, C:0.17, G:0.02, T:0.22
Consensus pattern (27 bp):
ATAACATACATAACAAATAAAACATAC
Found at i:13867991 original size:16 final size:16
Alignment explanation
Indices: 13867970--13868016 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
13867960 GTTTTCTTTC
13867970 AGATGAAGAATTGTTT
1 AGATGAAGAATTGTTT
* *
13867986 AGATGAAAAATCGTTT
1 AGATGAAGAATTGTTT
13868002 AGATGAAGAATTGTT
1 AGATGAAGAATTGTT
13868017 CATATTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.34
Consensus pattern (16 bp):
AGATGAAGAATTGTTT
Found at i:13871996 original size:37 final size:37
Alignment explanation
Indices: 13871909--13871999 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
13871899 AGTGATTATC
* * *
13871909 TTAATATTAAATGTAATTTAATATTTATCTTATAGAT
1 TTAATATTAAATTTAATCTAATATTTATCTGATAGAT
13871946 TTAATATTAAATTTAATCTAATATTTATCTAGATA-AT
1 TTAATATTAAATTTAATCTAATATTTATCT-GATAGAT
*
13871983 TATTATATT-AATTTAAT
1 T-TAATATTAAATTTAAT
13872000 ATTAAAGTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
37 39 0.81
38 9 0.19
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (37 bp):
TTAATATTAAATTTAATCTAATATTTATCTGATAGAT
Found at i:13872546 original size:17 final size:19
Alignment explanation
Indices: 13872499--13872571 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
13872489 TAGTATTTTA
13872499 ATAATTTAATATTAAAGTG
1 ATAATTTAATATTAAAGTG
*
13872518 ATTATCTTAATATTAAA-TG
1 ATAAT-TTAATATTAAAGTG
* ** *
13872537 -TAATTTAATATTTATCTT
1 ATAATTTAATATTAAAGTG
13872555 ATAGATTTAATATTAAA
1 ATA-ATTTAATATTAAA
13872572 TTTAATTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
17 9 0.21
18 4 0.09
19 8 0.19
20 22 0.51
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (19 bp):
ATAATTTAATATTAAAGTG
Found at i:13872613 original size:67 final size:68
Alignment explanation
Indices: 13872457--13872657 Score: 200
Period size: 67 Copynumber: 3.0 Consensus size: 68
13872447 AGATTTAATA
* *
13872457 TTAA-ATTAAATTAAATTTAATATTTATCTGAATAGTATTTTAATAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAATTTAATATTTATCTGAATAGTATTTTAATAATTTAATATTAAAGAGATT
13872521 ATC
66 ATC
* * *
13872524 TTAATATTAAATGTAATTTAATATTTATCT-TATAG-A-TTTAAT-ATTAAATTTAATTAAA-AG
1 TTAATATTAAATTTAATTTAATATTTATCTGAATAGTATTTTAATAATTTAA--T-ATTAAAGAG
*
13872584 ATTCATT
63 ATT-ATC
* * * * *
13872591 TTAATATTAAATTTAATCTAATATTTATCT-AGATAATTATTATATTAATTTAATATTAAAGTGA
1 TTAATATTAAATTTAATTTAATATTTATCTGA-AT-AGTATTTTAATAATTTAATATTAAAGAGA
13872655 TTA
64 TTA
13872658 AACTTAATCA
Statistics
Matches: 109, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
64 5 0.05
65 6 0.06
66 6 0.06
67 44 0.40
68 25 0.23
69 8 0.07
70 6 0.06
71 4 0.04
72 5 0.05
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAATATTTATCTGAATAGTATTTTAATAATTTAATATTAAAGAGATT
ATC
Found at i:13882329 original size:16 final size:16
Alignment explanation
Indices: 13882310--13882342 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13882300 ATTAATTTAA
13882310 TATTAAA-TCGATTATC
1 TATTAAAGT-GATTATC
13882326 TATTAAAGTGATTATC
1 TATTAAAGTGATTATC
13882342 T
1 T
13882343 TAATACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (16 bp):
TATTAAAGTGATTATC
Found at i:13883182 original size:31 final size:31
Alignment explanation
Indices: 13883147--13883240 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
13883137 ATGAACAAAG
* *
13883147 ACTTATCATAGAGAGCTCACATAGGGAGCTT
1 ACTTATCACAGAGAGCTCGCATAGGGAGCTT
* * * *
13883178 ACTTATCACAAAGAGATCGTATATGGAGCTT
1 ACTTATCACAGAGAGCTCGCATAGGGAGCTT
*
13883209 ACTTATCACAGAGAGCTTGCATAGGGAGCTT
1 ACTTATCACAGAGAGCTCGCATAGGGAGCTT
13883240 A
1 A
13883241 TTTGAAAATA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (31 bp):
ACTTATCACAGAGAGCTCGCATAGGGAGCTT
Found at i:13895399 original size:16 final size:16
Alignment explanation
Indices: 13895380--13895412 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13895370 ATTAATTTAA
13895380 TATTAAA-TCGATTATC
1 TATTAAAGT-GATTATC
13895396 TATTAAAGTGATTATC
1 TATTAAAGTGATTATC
13895412 T
1 T
13895413 TAATACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (16 bp):
TATTAAAGTGATTATC
Found at i:13905886 original size:26 final size:25
Alignment explanation
Indices: 13905847--13905914 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
13905837 CCATATCGGA
* *
13905847 AAGCTCCGATGAGCCATTAATTAGG
1 AAGCTCCAAAGAGCCATTAATTAGG
13905872 AAGCTCACAAAGAG-CATTTAATTAGG
1 AAGCTC-CAAAGAGCCA-TTAATTAGG
*
13905898 AAGCTCCGAAGAGCCAT
1 AAGCTCCAAAGAGCCAT
13905915 ATTTCGGGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 15 0.41
26 22 0.59
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (25 bp):
AAGCTCCAAAGAGCCATTAATTAGG
Found at i:13906058 original size:25 final size:25
Alignment explanation
Indices: 13906016--13906063 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13906006 CTCGCAGGAA
* *
13906016 CCATATAACGGGAAGCTCGAGAGGG
1 CCATATAACGAGAAGCTCAAGAGGG
* *
13906041 CCATATATCGAGATGCTCAAGAG
1 CCATATAACGAGAAGCTCAAGAG
13906064 AGCTAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
CCATATAACGAGAAGCTCAAGAGGG
Found at i:13913496 original size:61 final size:61
Alignment explanation
Indices: 13913422--13913560 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 61
13913412 TGGAGTTTTC
* *
13913422 CCACAAAGGCATTCTTTAACATTCAGTAGTCACCACAAAGCCTTTCATGTCCAAAGTATTA
1 CCACAAAGGCATTCCTTAACATTCAGTACTCACCACAAAGCCTTTCATGTCCAAAGTATTA
* * ** * * *
13913483 CCACAAAGGCATTCCTTAACATTCAGTACTCGCCACAGAGGTTTTCGTGTCCAGAGTATTG
1 CCACAAAGGCATTCCTTAACATTCAGTACTCACCACAAAGCCTTTCATGTCCAAAGTATTA
*
13913544 CCACAAAGGTATTCCTT
1 CCACAAAGGCATTCCTT
13913561 CCACTGGTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (61 bp):
CCACAAAGGCATTCCTTAACATTCAGTACTCACCACAAAGCCTTTCATGTCCAAAGTATTA
Found at i:13917517 original size:42 final size:43
Alignment explanation
Indices: 13917436--13917528 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
13917426 CCCAGATGTA
* * *
13917436 GTCTTACATGTAATCAAATATCGATGCCACTGTCGCAGACAGG
1 GTCTTACAGGAAATCAAATATCGATGCCACTATCGCAGACAGG
* * *
13917479 GTCTTACAGGAAATCATATA-CGATGCCGA-TATCTCAGACATG
1 GTCTTACAGGAAATCAAATATCGATGCC-ACTATCGCAGACAGG
*
13917521 TTCTTACA
1 GTCTTACA
13917529 CGTAAATCTC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 24 0.57
43 18 0.43
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
GTCTTACAGGAAATCAAATATCGATGCCACTATCGCAGACAGG
Found at i:13923471 original size:74 final size:74
Alignment explanation
Indices: 13923350--13923522 Score: 249
Period size: 74 Copynumber: 2.3 Consensus size: 74
13923340 AGTTTACTGT
*
13923350 ATGGTACGTAGCTTCATAAATAAACGAGGTGATATGGTGACAGGTTAT-CTATTTCAGACCTTTA
1 ATGGTACGTAGCTTCATAAATAAACGAGGGGATATGGTGACAGGTTATGC-ATTTCAGACCTTTA
13923414 GAGTAAACAC
65 GAGTAAACAC
* * * * *
13923424 ATGGTACGCAACTTCATAAATAAACTAGGGGATATGGTGACTGGTTATGCATTTCAGACTTTTAG
1 ATGGTACGTAGCTTCATAAATAAACGAGGGGATATGGTGACAGGTTATGCATTTCAGACCTTTAG
* *
13923489 AGTAGACGC
66 AGTAAACAC
*
13923498 ATGGTATGTAGCTTCATAAATAAAC
1 ATGGTACGTAGCTTCATAAATAAAC
13923523 CGTGGAAAGA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 86 0.99
75 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (74 bp):
ATGGTACGTAGCTTCATAAATAAACGAGGGGATATGGTGACAGGTTATGCATTTCAGACCTTTAG
AGTAAACAC
Found at i:13924025 original size:26 final size:27
Alignment explanation
Indices: 13923989--13924041 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 27
13923979 TCGGAAATAC
13923989 ATTTTAAAAATAA-AAAATAAAAAAGT
1 ATTTTAAAAATAATAAAATAAAAAAGT
13924015 ATTTTAAAAATAATTTAAAATAAAAAA
1 ATTTTAAAAATAA--TAAAATAAAAAA
13924042 AATATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 13 0.54
29 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (27 bp):
ATTTTAAAAATAATAAAATAAAAAAGT
Found at i:13924061 original size:13 final size:13
Alignment explanation
Indices: 13924043--13924069 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13924033 AATAAAAAAA
13924043 ATATTTATTATAT
1 ATATTTATTATAT
13924056 ATATTTATTATAT
1 ATATTTATTATAT
13924069 A
1 A
13924070 GATACTAAAT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTTATTATAT
Found at i:13925795 original size:27 final size:27
Alignment explanation
Indices: 13925751--13925809 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
13925741 CTAACGAGAT
*
13925751 AAGAATATTGGTTCAACAATTAATGTA
1 AAGAATATTGATTCAACAATTAATGTA
*
13925778 AAGAATATTGATTGAACAATTAATGTA
1 AAGAATATTGATTCAACAATTAATGTA
13925805 AAGAA
1 AAGAA
13925810 GTTTTAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (27 bp):
AAGAATATTGATTCAACAATTAATGTA
Found at i:13926755 original size:24 final size:25
Alignment explanation
Indices: 13926723--13926775 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
13926713 AAAGCTAAAA
*
13926723 TTTTGGATAAAATGGAAATTTA-CT
1 TTTTGGATAAAATGGAAACTTATCT
* *
13926747 TTTTTGATAAATTGGAAACTTATCT
1 TTTTGGATAAAATGGAAACTTATCT
13926772 TTTT
1 TTTT
13926776 CTTCAATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (25 bp):
TTTTGGATAAAATGGAAACTTATCT
Found at i:13929326 original size:25 final size:23
Alignment explanation
Indices: 13929281--13929342 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 23
13929271 GGCTCTTATG
*
13929281 AGCTTCCCGTTATACAGCTCAGATA
1 AGCTTCCCG-T-TACAGCTCACATA
*
13929306 AGCTTCCCGTTACATGTCTCACTTA
1 AGCTTCCCGTTACA-G-CTCACATA
*
13929331 AGCTTCCTGTTA
1 AGCTTCCCGTTA
13929343 TATGACTCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.12
24 2 0.06
25 26 0.81
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (23 bp):
AGCTTCCCGTTACAGCTCACATA
Found at i:13931102 original size:3 final size:3
Alignment explanation
Indices: 13931094--13931154 Score: 61
Period size: 3 Copynumber: 19.3 Consensus size: 3
13931084 ATTATATTTG
* *
13931094 TAT TAT TAT TGT TAT TAT TAT TATT TATT TAT CTAG T-T TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT -TAT TAT TA-T TAT TAT
13931142 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
13931155 TATTCGGTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 1 0.02
3 37 0.74
4 12 0.24
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13931818 original size:106 final size:109
Alignment explanation
Indices: 13931626--13931822 Score: 283
Period size: 106 Copynumber: 1.8 Consensus size: 109
13931616 TTTCTAATTG
* *
13931626 AGGCAATATTTAGAGTTTGAAAATTCGAGATAACATGCCCTAAGGTGCTGGGTGTCGGTTTTTCT
1 AGGCAATATTTAGAGTTTGAAAATTCGAGAGAACATGCCCTAAGGTGCTGGGTGTCGGTATTTCT
*
13931691 CGTTCAATCAAATAGCTAAATATCCTTTCAAAAATTACAGAATA
66 CGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAGAATA
* * * * *
13931735 AGGCAATTTTTTGCGTTTGAAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTC-G-ATTTCT
1 AGGCAATATTTAGAGTTTGAAAATTCGAGAGAACATGCCCTAAGGTGCTGGGTGTCGGTATTTCT
* *
13931797 CGTTTAACCAAATTGCTAAATATCCT
66 CGTTCAACCAAATAGCTAAATATCCT
13931823 CTTGAATTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
106 28 0.36
107 1 0.01
108 23 0.29
109 26 0.33
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (109 bp):
AGGCAATATTTAGAGTTTGAAAATTCGAGAGAACATGCCCTAAGGTGCTGGGTGTCGGTATTTCT
CGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAGAATA
Found at i:13936069 original size:24 final size:26
Alignment explanation
Indices: 13936015--13936071 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
13936005 ACATTCATTT
*
13936015 ATTAAAACATACTTATGAAAGAAATA
1 ATTAAAACATACTTATGAAAGAAAAA
*
13936041 ATTAAAGCATAC-T-TGAAA-AAAAA
1 ATTAAAACATACTTATGAAAGAAAAA
13936064 ATTTAAAA
1 A-TTAAAA
13936072 GTTTGAGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.19
24 10 0.37
25 1 0.04
26 11 0.41
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (26 bp):
ATTAAAACATACTTATGAAAGAAAAA
Found at i:13938164 original size:21 final size:20
Alignment explanation
Indices: 13938140--13938182 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
13938130 CTCCTTTATT
*
13938140 AACATAAAAAATTAAAATTTA
1 AACAGAAAAAA-TAAAATTTA
* *
13938161 AACAGAATAAATGAAATTTA
1 AACAGAAAAAATAAAATTTA
13938181 AA
1 AA
13938183 AAAAAGTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
AACAGAAAAAATAAAATTTA
Found at i:13940020 original size:46 final size:43
Alignment explanation
Indices: 13939947--13940050 Score: 120
Period size: 46 Copynumber: 2.3 Consensus size: 43
13939937 TTCTATGTGA
*
13939947 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* *
13939990 ACCGGATATCATTGATTACAAAGGGTGGTTGTTATGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
13940036 ACCGTGTATCTATTA
1 ACCG-GTATC-ATTA
13940051 TTATTCCGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
43 5 0.10
44 11 0.22
45 2 0.04
46 27 0.53
47 6 0.12
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:13945258 original size:39 final size:39
Alignment explanation
Indices: 13945204--13945333 Score: 154
Period size: 39 Copynumber: 3.3 Consensus size: 39
13945194 AACATGTTTT
* * *
13945204 TGAGTATTTTAATATATTCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATTCTTAAATGTTATGTGATAATA
* ***
13945243 TGAGTATTGTGATATATGCTTAAATGTTATGTGACGGTA
1 TGAGTATTGTGATATATTCTTAAATGTTATGTGATAATA
*
13945282 TGAGTATTGTGATATATGT-TTGAATGTTATGTGATAATA
1 TGAGTATTGTGATATAT-TCTTAAATGTTATGTGATAATA
* *
13945321 TGTGTAATGTGAT
1 TGAGTATTGTGAT
13945334 TCATGCTTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATTCTTAAATGTTATGTGATAATA
Found at i:13945329 original size:22 final size:22
Alignment explanation
Indices: 13945289--13945330 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13945279 GTATGAGTAT
*
13945289 TGTGATATATGTTTGAATGTTA
1 TGTGATATATGTGTGAATGTTA
13945311 TGTGATAATATGTGT-AATGT
1 TGTGAT-ATATGTGTGAATGT
13945331 GATTCATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (22 bp):
TGTGATATATGTGTGAATGTTA
Found at i:13947918 original size:463 final size:463
Alignment explanation
Indices: 13945986--13947919 Score: 2644
Period size: 464 Copynumber: 4.2 Consensus size: 463
13945976 TGAGATAGTT
* * * * * *
13945986 AGAAGGGAGCTTGATCGAAGCCCCTGTGAACA-GCTGCCGTAACTATAACGGTCCTAAGGTAGCA
1 AGAAGGGAGTTTGACCGAAGCCCCGGTGAA-AGGCGGCCGTAACTATAATGGTCCTAAGGTAGCG
** * ** * * * *
13946050 AAATTATTTAT-TGGTAAGTTCTGACCTACACGAAAGGCGTAATGATTTGGGCACTATCTCGGAG
65 AAATTCCTTATCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAG
** * * * * * * * * *
13946114 AGAGGCTCAGTGAGATAGACATGTCTGTGAAGATGTAGACTACCTGCACCTGGACTGAGAG-TCG
130 AGAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGACAGAAAGACCA
* * * *
13946178 TATGAAACTTCACTGTTCCCTAGGATTGGCTTTGGGCTTTTCCTACGCAGCTTAGGTGGAAGGC-
195 TATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGCAGCTTATGTGGAAGGCG
* * * *
13946242 AATGAAGGCCTCCTTCCAGGGGGCCAGAGCCATGAGTGAGATACCACTCTGGAAGAGCTAGAATT
260 AA-GAAGGCCACCTTCCAGGGGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATT
** **
13946307 CTA-ACCTTGTGTCAGGACCTACAAGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGT
324 CTAGA-CTTGTGTCAAAACCTACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGT
* * * *
13946371 AAGCCTCCAAAAAGGTAATGGAGGCGTGCAAAGGTTTCCTCGGGCCGGACGGAGATT-GACCCTC
388 AGGCCTCCCAAAAGGTAATGGAGGCATGCAAAGGTTTCCTCGGGCCGAACGGAGATTAG-CCCTC
* *
13946435 GAGTGTAAAGGT
452 GAGTGCAAAGGC
* * * * * ** * * * **
13946447 AAAAGGGAGCTTGACTGAAGCCCCGATGAACGAAGACCGTAACTGTAACGGTCCTAAGGTAGTAA
1 AGAAGGGAGTTTGACCGAAGCCCCGGTGAAAGGCGGCCGTAACTATAATGGTCCTAAGGTAGCGA
* * * * *
13946512 AATTCCTTGTCGGGTAAGTTCTGACCCGCACGACAGTCGTAACAATCTGGGCACAGTCTCGGAGA
66 AATTCCTTATCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAGA
* *
13946577 GAGGCTTGGTGAAATAAAAATGTCTGTGAAGATGCAGACTACCCGTACTTGGACAGAAAGACCAT
131 GAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGACAGAAAGACCAT
*
13946642 ATGAAGCTTCACTGTTCCCAGGGATTGGCTTTGGGCTTTTCCTGCGCAGCTTATGTGGAAGGCGA
196 ATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGCAGCTTATGTGGAAGGCGA
**
13946707 AGAAGGCCACCTTCTGGGGGGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATTC
261 AGAAGGCCACCTTC-CAGGGGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATTC
* *
13946772 TAGACTTGTGTCAAAACTTACGGGCCAAGGGACAGTCTCAGGTAGATAGTTTCTATGGGGCGTAG
325 TAGACTTGTGTCAAAACCTACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGTAG
* * * **
13946837 GCCTCCCAAAAGGTAATGGAGGCATACAAAGGTTTTCTCGGGCCGAATGGAGATTAGCGTTCGAG
390 GCCTCCCAAAAGGTAATGGAGGCATGCAAAGGTTTCCTCGGGCCGAACGGAGATTAGCCCTCGAG
13946902 TGCAAAGGC
455 TGCAAAGGC
* * *
13946911 AGAAGGGTGTTTGACCGAAGCCCCAGG-GAAAGGCGGCCGTAACTATAATGGTCCTAAGCTTGCG
1 AGAAGGGAGTTTGACCGAAGCCCC-GGTGAAAGGCGGCCGTAACTATAATGGTCCTAAGGTAGCG
** * *
13946975 AAATTTATTACCGGGTAAGTTCTGACCCGCACGAAGGCCGTAACGATCTGGGCACTGTCTCGGAG
65 AAATTCCTTATCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAG
*
13947040 AGAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCGGACTACCCGCACTTGGACAGAAAGACCA
130 AGAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGACAGAAAGACCA
* *
13947105 TATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGACTTTTCCTGCGCAGCTTATGTAGAAGGCG
195 TATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGCAGCTTATGTGGAAGGCG
* *
13947170 AAGAAGGCCACCTTCCGGGTGGGGCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATT
260 AAGAAGGCCACCTTCCAGG-GGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATT
*
13947235 CTAGACTTGTGTCAAAACTTACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGTA
324 CTAGACTTGTGTCAAAACCTACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGTA
* * **
13947300 GGCCTCCCAAAAGGTAATGGAGGCA-GACAAAGGTTTTCTCGGGCCGAATGGAGATTAGCGTTCG
389 GGCCTCCCAAAAGGTAATGGAGGCATG-CAAAGGTTTCCTCGGGCCGAACGGAGATTAGCCCTCG
13947364 AGTGCAAAGGC
453 AGTGCAAAGGC
* * * * *
13947375 AGAAGGGTGTTTGACCGAAGCCCCGGGGAAAGGCGGTCGTAACTATAATGGTCCTAAGCTTGCGA
1 AGAAGGGAGTTTGACCGAAGCCCCGGTGAAAGGCGGCCGTAACTATAATGGTCCTAAGGTAGCGA
* * *
13947440 AATTTCTTATCGGGTAAGTTCTGACCCGCACGAAAGCCATAACGATCTAGGCACTGTCTCGGAGA
66 AATTCCTTATCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAGA
* *
13947505 GAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCGGACTACCCGCACTTGGACAAAAAGACCAT
131 GAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGACAGAAAGACCAT
* * * *
13947570 ATGAAGCTTCACTGTTCCCTGGGATTGGTTTTAGGCTTTTCCTGTGTAGCTTATGTGGAAGGCGA
196 ATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGCAGCTTATGTGGAAGGCGA
* * * * **
13947635 AGAAGGCCTCCTTCTAGGGGGCCAGAGCCATGAGTGAGATACCACTCGGGAAGAGCTAGAATTCT
261 AGAAGGCCACCTTCCAGGGGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATTCT
* * *
13947700 A-ACCTTGTGTTAAGACCTACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCATAG
326 AGA-CTTGTGTCAAAACCTACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGTAG
*
13947764 GCCTCCCAAAAGGTAACGGAGGCATGCAAAGGTTTCCTCGGGCCGAACGGAGATTAGCCCTCGAG
390 GCCTCCCAAAAGGTAATGGAGGCATGCAAAGGTTTCCTCGGGCCGAACGGAGATTAGCCCTCGAG
13947829 TGCAAAGGC
455 TGCAAAGGC
* ** * *
13947838 AGAAGGAAGTTTGACTAAAGCCCCGGTGAAAGGCGGTCGTAACTATAATGGTCCTAAGGTAGCTA
1 AGAAGGGAGTTTGACCGAAGCCCCGGTGAAAGGCGGCCGTAACTATAATGGTCCTAAGGTAGCGA
*
13947903 AATTCCTTGTCGGGTAA
66 AATTCCTTATCGGGTAA
13947920 TGTAACAGCC
Statistics
Matches: 1320, Mismatches: 140, Indels: 24
0.89 0.09 0.02
Matches are distributed among these distances:
461 59 0.04
462 94 0.07
463 316 0.24
464 848 0.64
465 3 0.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (463 bp):
AGAAGGGAGTTTGACCGAAGCCCCGGTGAAAGGCGGCCGTAACTATAATGGTCCTAAGGTAGCGA
AATTCCTTATCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAGA
GAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGACAGAAAGACCAT
ATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGCAGCTTATGTGGAAGGCGA
AGAAGGCCACCTTCCAGGGGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATTCT
AGACTTGTGTCAAAACCTACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGTAGG
CCTCCCAAAAGGTAATGGAGGCATGCAAAGGTTTCCTCGGGCCGAACGGAGATTAGCCCTCGAGT
GCAAAGGC
Found at i:13948066 original size:13 final size:11
Alignment explanation
Indices: 13948026--13948069 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 11
13948016 CAAATTCACG
13948026 GAAAGATTTCGT
1 GAAA-ATTTCGT
13948038 GAAAATTTCGT
1 GAAAATTTCGT
13948049 GAAAATTTCGTTT
1 GAAAATTTCG--T
13948062 GAAAATTT
1 GAAAATTT
13948070 TTACGTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.57
12 4 0.13
13 9 0.30
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (11 bp):
GAAAATTTCGT
Found at i:13949316 original size:48 final size:48
Alignment explanation
Indices: 13949245--13949451 Score: 245
Period size: 48 Copynumber: 4.3 Consensus size: 48
13949235 TACTATGCGT
* *
13949245 ACCGATAATCTGTTATGACACAAGGGTGGCACGTACCGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * *
13949293 ACCGATATTCTGTTGTGACACAAGGGCGGCACGGACTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * * *
13949341 ACCAATAA-CTTGTTAAGATACAAGGGTGGCACGGACTATGTCCAGGCC
1 ACCGATAATC-TGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * * *
13949389 ACCGAGAATCTATTATTACACAAAGGTGGTACGGACTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
*
13949437 ACCGAGAAATCTGTT
1 ACCGA-TAATCTGTT
13949452 TTTATTCCGA
Statistics
Matches: 131, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 122 0.93
49 8 0.06
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (48 bp):
ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
Found at i:13952089 original size:21 final size:22
Alignment explanation
Indices: 13952063--13952106 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
13952053 AAGAAAGTTA
13952063 AAAATTTATATTAATT-ATTTT
1 AAAATTTATATTAATTAATTTT
13952084 AAAATTTATATTAATTAATTTT
1 AAAATTTATATTAATTAATTTT
13952106 A
1 A
13952107 TTTAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AAAATTTATATTAATTAATTTT
Found at i:13955355 original size:19 final size:22
Alignment explanation
Indices: 13955331--13955415 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 22
13955321 ACCTTACTTT
13955331 TATTTATTTTT-TTATT-TT-A
1 TATTTATTTTTATTATTATTAA
13955350 TATTTATTTTTATTATTATTAA
1 TATTTATTTTTATTATTATTAA
*
13955372 TATTTTATTCATTTATTACTTATT-G
1 TA-TTTATT--TTTATTA-TTATTAA
*
13955397 T-TTTATTTTTCTTATTATT
1 TATTTATTTTTATTATTATT
13955416 CTTAGCTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
19 11 0.19
20 10 0.18
21 8 0.14
22 3 0.05
23 12 0.21
25 8 0.14
26 5 0.09
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.72
Consensus pattern (22 bp):
TATTTATTTTTATTATTATTAA
Found at i:13968161 original size:27 final size:27
Alignment explanation
Indices: 13968131--13968182 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
13968121 AAGGCTGAAG
*
13968131 GTGGTGCCAATGAGAATGGCGGCACCA
1 GTGGTACCAATGAGAATGGCGGCACCA
13968158 GTGGTACCAATGAGAATGGCGGCAC
1 GTGGTACCAATGAGAATGGCGGCAC
13968183 AGGACTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.21, G:0.37, T:0.15
Consensus pattern (27 bp):
GTGGTACCAATGAGAATGGCGGCACCA
Found at i:13968721 original size:28 final size:26
Alignment explanation
Indices: 13968681--13968755 Score: 123
Period size: 28 Copynumber: 2.8 Consensus size: 26
13968671 GCCTTCTTTT
13968681 TTTTTTTGGTATATTTTGGTAAATAATA
1 TTTTTTTGGTATATTTTGGTAAAT-A-A
*
13968709 TTTTTTTGATATATTTTGGTAAATAA
1 TTTTTTTGGTATATTTTGGTAAATAA
13968735 TTTTTTTGGTATATTTTGGTA
1 TTTTTTTGGTATATTTTGGTA
13968756 TATTTTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 21 0.47
27 1 0.02
28 23 0.51
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (26 bp):
TTTTTTTGGTATATTTTGGTAAATAA
Found at i:13970035 original size:44 final size:44
Alignment explanation
Indices: 13969975--13970073 Score: 171
Period size: 44 Copynumber: 2.2 Consensus size: 44
13969965 AACAACCTCC
* *
13969975 TTTCTTTCTCTTTTCTTCTCTTCCTCTAATTATTCTTGTTCCCT
1 TTTCTTTCTCCTTTCTTCCCTTCCTCTAATTATTCTTGTTCCCT
*
13970019 TTTCTTTCTCCTTTCTTCCCTTCCTCTAATTCTTCTTGTTCCCT
1 TTTCTTTCTCCTTTCTTCCCTTCCTCTAATTATTCTTGTTCCCT
13970063 TTTCTTTCTCC
1 TTTCTTTCTCC
13970074 CCTTATTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.05, C:0.33, G:0.02, T:0.60
Consensus pattern (44 bp):
TTTCTTTCTCCTTTCTTCCCTTCCTCTAATTATTCTTGTTCCCT
Found at i:13970817 original size:19 final size:19
Alignment explanation
Indices: 13970793--13970832 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13970783 AAAAATTATA
13970793 ATTATTTATAATCGAAACC
1 ATTATTTATAATCGAAACC
13970812 ATTATTTATAATCGAAACC
1 ATTATTTATAATCGAAACC
13970831 AT
1 AT
13970833 GTTAGAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (19 bp):
ATTATTTATAATCGAAACC
Found at i:13972830 original size:25 final size:24
Alignment explanation
Indices: 13972745--13972860 Score: 81
Period size: 25 Copynumber: 4.7 Consensus size: 24
13972735 GTACATGTAT
* * * *
13972745 GCTCATACGAGCTCAGAATCGGTAT
1 GCTCATACGAGCTGA-AAACAGTAA
* * **
13972770 GCTCTTACGAGCTGTAAATGGTAA
1 GCTCATACGAGCTGAAAACAGTAA
* *
13972794 GCTCCTCCGAGCTGAATAACAGTAA
1 GCTCATACGAGCTGAA-AACAGTAA
**
13972819 GCTCATGA-GAGCTGAGAATTAGTAA
1 GCTCAT-ACGAGCTGA-AAACAGTAA
13972844 GCTCATACGAGCTGAAA
1 GCTCATACGAGCTGAAA
13972861 TCGGTAACCT
Statistics
Matches: 72, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
24 22 0.31
25 49 0.68
26 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (24 bp):
GCTCATACGAGCTGAAAACAGTAA
Found at i:13973318 original size:28 final size:28
Alignment explanation
Indices: 13973286--13973344 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
13973276 TCCTTACCCA
*
13973286 AGCCTAGCCGATCTTTATACATATTAAT
1 AGCCTAGCCGATCGTTATACATATTAAT
13973314 AGCCTAGCCGATCGTTATACATATTAAT
1 AGCCTAGCCGATCGTTATACATATTAAT
13973342 AGC
1 AGC
13973345 AGTCCATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (28 bp):
AGCCTAGCCGATCGTTATACATATTAAT
Found at i:13975283 original size:6 final size:6
Alignment explanation
Indices: 13975272--13975298 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13975262 GTATTTTGCT
13975272 ATTAAA ATTAAA ATTAAA ATTAAA ATT
1 ATTAAA ATTAAA ATTAAA ATTAAA ATT
13975299 TCAAAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATTAAA
Found at i:13982112 original size:2 final size:2
Alignment explanation
Indices: 13982105--13982134 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13982095 AAACGAATCA
13982105 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
13982135 GTTATTATGC
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:13982394 original size:26 final size:26
Alignment explanation
Indices: 13982363--13982455 Score: 132
Period size: 26 Copynumber: 3.6 Consensus size: 26
13982353 TATTCTGACC
*
13982363 CACAGCTCGTGTGAGTAGGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
*
13982389 CACAGCCCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
* * **
13982415 CCCTGCTCGTGTGAGCAAACCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
13982441 CACAGCTCGTGTGAG
1 CACAGCTCGTGTGAG
13982456 AAACCATGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 58 1.00
ACGTcount: A:0.19, C:0.31, G:0.26, T:0.24
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGGCCCATTT
Found at i:14013887 original size:85 final size:84
Alignment explanation
Indices: 14013730--14013940 Score: 224
Period size: 85 Copynumber: 2.5 Consensus size: 84
14013720 TTATTTTGAA
* * * * ** *
14013730 AATATGTTTTGCACTCACAACAAGTGGTAGTAACTGTAAATATGTGACTCGTCCACAAACTTAGT
1 AATATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATATGTGACTCATCCACAAACCCAAT
*
14013795 TGTAGTTTGTTTAATCTAC
66 TGCAGTTTGTTTAATCTAC
* * * * ** *
14013814 GAATATATTGTGCACTCACAATAAGTGGCAGTGACTGCAAATATGTGGCTCATTGACAAGCCCAA
1 -AATATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATATGTGACTCATCCACAAACCCAA
* *
14013879 TTGCAGTTTTTTTAATCTGC
65 TTGCAGTTTGTTTAATCTAC
* * *
14013899 AACTATGTTGTGCACTGACAACAAGTGACAGTAATTGCAAAT
1 AA-TATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAAT
14013941 GTTTTTATCT
Statistics
Matches: 102, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
84 2 0.02
85 100 0.98
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (84 bp):
AATATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATATGTGACTCATCCACAAACCCAAT
TGCAGTTTGTTTAATCTAC
Found at i:14019046 original size:2 final size:2
Alignment explanation
Indices: 14019039--14019071 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14019029 GTTATATTTC
14019039 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14019072 CATGCATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14019109 original size:18 final size:17
Alignment explanation
Indices: 14019086--14019120 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14019076 CATATGGTAC
*
14019086 CATTTCATATAATCATTT
1 CATTTCAAAT-ATCATTT
14019104 CATTTCAAATATCATTT
1 CATTTCAAATATCATTT
14019121 ATCAAGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (17 bp):
CATTTCAAATATCATTT
Found at i:14024713 original size:21 final size:19
Alignment explanation
Indices: 14024682--14024721 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
14024672 TTAATTTCTA
14024682 TTTAGTTTAATAAGTTTTC
1 TTTAGTTTAATAAGTTTTC
*
14024701 TTTAGATTGTAATAATTTTTC
1 TTTAG-TT-TAATAAGTTTTC
14024722 AGTTGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTAGTTTAATAAGTTTTC
Found at i:14029706 original size:25 final size:25
Alignment explanation
Indices: 14029678--14029739 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
14029668 CATCTCGTAT
* *
14029678 GAGCTTATTGTTTTTCAACTCAGAG
1 GAGCTTATCGTTATTCAACTCAGAG
* *
14029703 GAGCTTATCGTTATTCAGCTCGGAG
1 GAGCTTATCGTTATTCAACTCAGAG
*
14029728 GAGCTTACCGTT
1 GAGCTTATCGTT
14029740 TACAGCTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (25 bp):
GAGCTTATCGTTATTCAACTCAGAG
Found at i:14029755 original size:24 final size:25
Alignment explanation
Indices: 14029700--14029748 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14029690 TTTCAACTCA
* *
14029700 GAGGAGCTTATCGTTATTCAGCTCG
1 GAGGAGCTTACCGTTATACAGCTCG
14029725 GAGGAGCTTACCGTT-TACAGCTCG
1 GAGGAGCTTACCGTTATACAGCTCG
14029749 TATGAGCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (25 bp):
GAGGAGCTTACCGTTATACAGCTCG
Found at i:14029926 original size:26 final size:26
Alignment explanation
Indices: 14029897--14029948 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
14029887 CATAGGTAAT
*
14029897 TACATGAGATATATGA-AAATGATTTG
1 TACACGAGATATA-GATAAATGATTTG
* *
14029923 TACACGATATATAGATACATGATTTG
1 TACACGAGATATAGATAAATGATTTG
14029949 GAAATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (26 bp):
TACACGAGATATAGATAAATGATTTG
Found at i:14033230 original size:18 final size:18
Alignment explanation
Indices: 14033207--14033241 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14033197 CTAGAACAAG
14033207 AAGCATAAAAATAGTTTC
1 AAGCATAAAAATAGTTTC
*
14033225 AAGCATGAAAATAGTTT
1 AAGCATAAAAATAGTTT
14033242 GGCACATCAT
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:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATAAAAATAGTTTC
Found at i:14039548 original size:23 final size:23
Alignment explanation
Indices: 14039498--14039549 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
14039488 AGTGGTAAAA
*
14039498 TGTTAGCTTACCTTGAGGTCTCG
1 TGTTTGCTTACCTTGAGGTCTCG
*
14039521 TGTTTGCTTGCCTTGAGGTCTCG
1 TGTTTGCTTACCTTGAGGTCTCG
14039544 TGTTTG
1 TGTTTG
14039550 AACCCCCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.44
Consensus pattern (23 bp):
TGTTTGCTTACCTTGAGGTCTCG
Found at i:14044949 original size:33 final size:33
Alignment explanation
Indices: 14044907--14044972 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
14044897 GGAAATAAGA
14044907 TGTATCGGGATCTTCGTGAGTTGTATTGGTGGT
1 TGTATCGGGATCTTCGTGAGTTGTATTGGTGGT
14044940 TGTATCGGGATCTTCGTGAGTTGTATTGGTGGT
1 TGTATCGGGATCTTCGTGAGTTGTATTGGTGGT
14044973 CGGGGTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.09, G:0.36, T:0.42
Consensus pattern (33 bp):
TGTATCGGGATCTTCGTGAGTTGTATTGGTGGT
Found at i:14046983 original size:26 final size:26
Alignment explanation
Indices: 14046954--14047004 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
14046944 TAGTTGTTGT
* * *
14046954 TTTCGTCGTCTGTAAGTTTGTGTGCA
1 TTTCATCGTCGGTAAGTTCGTGTGCA
14046980 TTTCATCGTCGGTAAGTTCGTGTGC
1 TTTCATCGTCGGTAAGTTCGTGTGC
14047005 GTTGTTAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.12, C:0.18, G:0.27, T:0.43
Consensus pattern (26 bp):
TTTCATCGTCGGTAAGTTCGTGTGCA
Found at i:14068415 original size:35 final size:35
Alignment explanation
Indices: 14068369--14068461 Score: 132
Period size: 35 Copynumber: 2.6 Consensus size: 35
14068359 GGTTGGATTT
*
14068369 GCTCTTATGAGCATTGGTGTGTCGCGGATGGACTA
1 GCTCTTATGAGCATTGGTGTGTCGCAGATGGACTA
** *
14068404 GCTCTTATGAGCATTGGTGTGTTTCAGATGGATTA
1 GCTCTTATGAGCATTGGTGTGTCGCAGATGGACTA
*
14068439 TCTCTTATGAGCATCTGGTGTGT
1 GCTCTTATGAGCAT-TGGTGTGT
14068462 TTTGGTTGGA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
35 44 0.85
36 8 0.15
ACGTcount: A:0.17, C:0.15, G:0.30, T:0.38
Consensus pattern (35 bp):
GCTCTTATGAGCATTGGTGTGTCGCAGATGGACTA
Found at i:14071793 original size:12 final size:12
Alignment explanation
Indices: 14071772--14071808 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
14071762 ACTTAATCAC
14071772 TTTAATATTAAA
1 TTTAATATTAAA
*
14071784 TTTAAGATTAAA
1 TTTAATATTAAA
14071796 TTTAATATTAAA
1 TTTAATATTAAA
14071808 T
1 T
14071809 CTTATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:14073280 original size:33 final size:33
Alignment explanation
Indices: 14073236--14073534 Score: 135
Period size: 33 Copynumber: 8.4 Consensus size: 33
14073226 ATAGGTGGAT
* *
14073236 TCAGCAGTTAGCAACCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* *
14073269 TCAGCACTTAGCAACCCATCTCACATTTAAGATACGGTGGGA
1 TCAGCACTTAGCAA-CCA-C-CA-A--T--GATTCGG-GGAA
* *
14073311 TCAGCACTTAGGAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* * * *
14073344 TTAGCACTTAGCAACCCCCCTCACATTTAAAATACGGTGGAA
1 TCAGCACTTAGCAA--CCAC-CA-A--T--GATTCGG-GGAA
* * *
14073386 TCAGCACCTAGCAACCACCAATGAGTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
14073419 TCAGCACTTAGCAACC-CC-----TT-GGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGG-GAA
* * * *
14073446 TCAGCACTTACCAACGCCCTTCACATTTAAAATACGGTGGAA
1 TCAGCACTTAGCAAC-CAC--CA-A--T--GATTCGG-GGAA
14073488 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
14073521 TCAACACTTAGCAA
1 TCAGCACTTAGCAA
14073535 TCCCTTGGGG
Statistics
Matches: 200, Mismatches: 31, Indels: 70
0.66 0.10 0.23
Matches are distributed among these distances:
26 2 0.01
27 18 0.09
28 1 0.00
29 1 0.00
31 1 0.00
32 2 0.01
33 64 0.32
34 16 0.08
35 4 0.02
36 7 0.04
37 1 0.00
38 3 0.01
39 8 0.04
40 4 0.02
41 16 0.08
42 51 0.25
43 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCGGGGAA
Found at i:14073436 original size:75 final size:75
Alignment explanation
Indices: 14073229--14073436 Score: 308
Period size: 75 Copynumber: 2.8 Consensus size: 75
14073219 GTCCGTTATA
* * * * **
14073229 GGTGGATTCAGCAGTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCATCTCACA
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCCTCACA
*
14073294 TTTAAGATAC
66 TTTAAAATAC
* * *
14073304 GGTGGGATCAGCACTTAGGAACCACCAATGAGTCGGGGAATTAGCACTTAGCAACCCCCCTCACA
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCCTCACA
14073369 TTTAAAATAC
66 TTTAAAATAC
* *
14073379 GGTGGAATCAGCACCTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCC
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
14073437 TTGGGAGAAT
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 118 1.00
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (75 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCCTCACA
TTTAAAATAC
Found at i:14073492 original size:102 final size:102
Alignment explanation
Indices: 14073341--14073568 Score: 366
Period size: 102 Copynumber: 2.2 Consensus size: 102
14073331 ATGAGTCGGG
* *
14073341 GAATTAGCACTTAGCAACCCCCCTCACATTTAAAATACGGTGGAATCAGCACCTAGCAACCACCA
1 GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACCTAGCAACCACCA
*
14073406 ATGAGTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
66 ATGAGTCAGGGAATCAACACTTAGCAACCCCTTGGGA
* * *
14073443 GAATCAGCACTTACCAACGCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCA
1 GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACCTAGCAACCACCA
* * * *
14073508 ATGATTCGGGGAATCAACACTTAGCAATCCCTTGGGG
66 ATGAGTCAGGGAATCAACACTTAGCAACCCCTTGGGA
14073545 GAATCAGCACTTAGCAACCCCCTT
1 GAATCAGCACTTAGCAACCCCCTT
14073569 TATATTCAAT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 114 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.20
Consensus pattern (102 bp):
GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACCTAGCAACCACCA
ATGAGTCAGGGAATCAACACTTAGCAACCCCTTGGGA
Found at i:14080773 original size:33 final size:33
Alignment explanation
Indices: 14080718--14080985 Score: 188
Period size: 33 Copynumber: 7.7 Consensus size: 33
14080708 TTGTCCGTTA
* *
14080718 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
* *
14080752 TCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
** * *
14080793 AAGGTGGGATCAGCACTTAGCAACCACCAATGAG
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
14080827 TCGGGGAATCAGTACTTAGCAACC-CC--T--T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
*
14080855 T-GGGGAATCAGCACTTAGCAACCACCAATGAG
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* *
14080887 TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
1 TCGGGGAATCAGCACTTAGCAA-CCAC--CA-A--T--GAT
* *
14080928 ATGGGGGAATCAACACTTAGCAACCACCAATGAT
1 -TCGGGGAATCAGCACTTAGCAACCACCAATGAT
*
14080962 TCAGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
14080986 CCCTTTATAT
Statistics
Matches: 183, Mismatches: 27, Indels: 49
0.71 0.10 0.19
Matches are distributed among these distances:
27 21 0.11
28 3 0.02
30 2 0.01
32 3 0.02
33 78 0.43
34 13 0.07
36 6 0.03
37 1 0.01
38 2 0.01
39 6 0.03
41 9 0.05
42 39 0.21
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:14080969 original size:135 final size:135
Alignment explanation
Indices: 14080727--14080987 Score: 416
Period size: 135 Copynumber: 1.9 Consensus size: 135
14080717 ATCGGTGGAT
* * * *
14080727 TCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAA
* * *
14080792 TAAGGTGGGATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGTACTTAGCAACCCCTTTG
66 TAAGGTGGGATCAACACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCTTTG
14080857 GGGAA
131 GGGAA
*
14080862 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAA
* *
14080927 TATGG-GGGAATCAACACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCC
66 TAAGGTGGG-ATCAACACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCC
14080988 CTTTATATTC
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
134 3 0.03
135 112 0.97
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (135 bp):
TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAA
TAAGGTGGGATCAACACTTAGCAACCACCAATGAGTCAGGGAATCAGCACTTAGCAACCCCTTTG
GGGAA
Found at i:14089551 original size:23 final size:23
Alignment explanation
Indices: 14089520--14089575 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
14089510 GCCTATAGAA
*
14089520 ACTTCTGTTACTAGTACTACGAT
1 ACTTATGTTACTAGTACTACGAT
* * *
14089543 ACTTATGTTATTAGTACTTCGGT
1 ACTTATGTTACTAGTACTACGAT
*
14089566 ACTTTTGTTA
1 ACTTATGTTA
14089576 ATGACACTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.46
Consensus pattern (23 bp):
ACTTATGTTACTAGTACTACGAT
Found at i:14093431 original size:50 final size:50
Alignment explanation
Indices: 14093364--14093601 Score: 260
Period size: 50 Copynumber: 4.6 Consensus size: 50
14093354 ACTACCAATT
* * ** * * * * *
14093364 CCATATCCCAGATATGGTCTTACATGGGAGTTCTAATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACG
* *
14093414 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGCTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACG
14093464 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACG
* * * *
14093514 CCATGTCCTAGAGATGGTCTTACATGGGACCTCTCATAATCTCAATAATTATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC------GATGCCAACG
14093573 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
14093602 TCTCATTCCC
Statistics
Matches: 161, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
50 121 0.75
53 5 0.03
59 35 0.22
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACG
Found at i:14100108 original size:26 final size:26
Alignment explanation
Indices: 14100078--14100139 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
14100068 ACATATTTTC
*
14100078 TCAAAATTTTA-CTAGAGGCAAAATCG
1 TCAAAATTTTACCAAG-GGCAAAATCG
* *
14100104 TCAAAATTTTACCAAGGGTAAAATTG
1 TCAAAATTTTACCAAGGGCAAAATCG
14100130 TCAAAATTTT
1 TCAAAATTTT
14100140 GCTGGGGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 29 0.91
27 3 0.09
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCG
Found at i:14100745 original size:43 final size:43
Alignment explanation
Indices: 14100695--14100866 Score: 344
Period size: 43 Copynumber: 4.0 Consensus size: 43
14100685 AACACAAATA
14100695 CAATTTCGGTTAAGGTTTATTGCTATAAATATCACAAATTAGG
1 CAATTTCGGTTAAGGTTTATTGCTATAAATATCACAAATTAGG
14100738 CAATTTCGGTTAAGGTTTATTGCTATAAATATCACAAATTAGG
1 CAATTTCGGTTAAGGTTTATTGCTATAAATATCACAAATTAGG
14100781 CAATTTCGGTTAAGGTTTATTGCTATAAATATCACAAATTAGG
1 CAATTTCGGTTAAGGTTTATTGCTATAAATATCACAAATTAGG
14100824 CAATTTCGGTTAAGGTTTATTGCTATAAATATCACAAATTAGG
1 CAATTTCGGTTAAGGTTTATTGCTATAAATATCACAAATTAGG
14100867 TCATTTTTAA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (43 bp):
CAATTTCGGTTAAGGTTTATTGCTATAAATATCACAAATTAGG
Found at i:14103564 original size:145 final size:146
Alignment explanation
Indices: 14103378--14103669 Score: 577
Period size: 145 Copynumber: 2.0 Consensus size: 146
14103368 CAGAAAAAAT
14103378 ATAGAAAAGTATAATATTATTTAAAAAATTAAGAATTATAAGAAATTATAAAGATATATTGTTTT
1 ATAGAAAAGTATAATATTATTTAAAAAATTAAGAATTATAAGAAATTATAAAGATATATTGTTTT
14103443 TATTAAAAATTAAAAATTATTATAAACCCTACTTAGAATGAACCTGGACAACTAGTTGTCTAGGT
66 TATTAAAAATTAAAAATTATTATAAACCCTACTTAGAATGAACCTGGACAACTAGTTGTCTAGGT
14103508 TCAAATGCATCTAGAC
131 TCAAATGCATCTAGAC
14103524 ATAGAAAAGT-TAATATTATTTAAAAAATTAAGAATTATAAGAAATTATAAAGATATATTGTTTT
1 ATAGAAAAGTATAATATTATTTAAAAAATTAAGAATTATAAGAAATTATAAAGATATATTGTTTT
14103588 TATTAAAAATTAAAAATTATTATAAACCCTACTTAGAATGAACCTGGACAACTAGTTGTCTAGGT
66 TATTAAAAATTAAAAATTATTATAAACCCTACTTAGAATGAACCTGGACAACTAGTTGTCTAGGT
14103653 TCAAATGCATCTAGAC
131 TCAAATGCATCTAGAC
14103669 A
1 A
14103670 ACAGCTTGTC
Statistics
Matches: 146, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
145 136 0.93
146 10 0.07
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (146 bp):
ATAGAAAAGTATAATATTATTTAAAAAATTAAGAATTATAAGAAATTATAAAGATATATTGTTTT
TATTAAAAATTAAAAATTATTATAAACCCTACTTAGAATGAACCTGGACAACTAGTTGTCTAGGT
TCAAATGCATCTAGAC
Found at i:14105483 original size:26 final size:26
Alignment explanation
Indices: 14105454--14105504 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
14105444 GGTTTAAATT
* * *
14105454 CTTACAAAATTAAAACTAGAGATTAC
1 CTTAAAAAACTAAAACTAGAAATTAC
*
14105480 CTTAAAAAACTAAAATTAGAAATTA
1 CTTAAAAAACTAAAACTAGAAATTA
14105505 AATTCATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (26 bp):
CTTAAAAAACTAAAACTAGAAATTAC
Found at i:14105881 original size:16 final size:17
Alignment explanation
Indices: 14105860--14105891 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14105850 GAATTTTTGC
14105860 TGTTAAATTT-TATAAT
1 TGTTAAATTTATATAAT
14105876 TGTTAAATTTATATAA
1 TGTTAAATTTATATAA
14105892 AAATTTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TGTTAAATTTATATAAT
Found at i:14105957 original size:28 final size:28
Alignment explanation
Indices: 14105925--14105992 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
14105915 ATATAAGTAC
*
14105925 TAAATATAATTATGTTGTTGGATAAAAG
1 TAAATATAATTATATTGTTGGATAAAAG
*
14105953 TAAATATAATTATATTGTTTGATAAAAG
1 TAAATATAATTATATTGTTGGATAAAAG
14105981 TAAATATTAATT
1 TAAATA-TAATT
14105993 TTAAAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 32 0.86
29 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.43
Consensus pattern (28 bp):
TAAATATAATTATATTGTTGGATAAAAG
Found at i:14107690 original size:7 final size:8
Alignment explanation
Indices: 14107674--14107705 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
14107664 ATTTTTAAAA
14107674 TTATTTTT
1 TTATTTTT
14107682 TTATTTTT
1 TTATTTTT
14107690 TTATTTTT
1 TTATTTTT
14107698 TTATTTTT
1 TTATTTTT
14107706 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:14113807 original size:13 final size:13
Alignment explanation
Indices: 14113789--14113813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14113779 ACATGAGCAT
14113789 GTGGACCACACGG
1 GTGGACCACACGG
14113802 GTGGACCACACG
1 GTGGACCACACG
14113814 CCCCCTTCCC
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:0.24, C:0.32, G:0.36, T:0.08
Consensus pattern (13 bp):
GTGGACCACACGG
Found at i:14114474 original size:90 final size:90
Alignment explanation
Indices: 14114321--14114589 Score: 349
Period size: 90 Copynumber: 3.0 Consensus size: 90
14114311 AATTAATAAT
* ** * * * * *
14114321 CTGCAACTCTGGTGGTTCATCCACAGATTATCTGGCAGTTTTTATCTACAAATATGTTGTGCATT
1 CTGCAACACTGGTGGTTCATCCACCCATTTTCTGACAGCTCTTATCTACAATTATGTTGTGCATT
*
14114386 CACAACCATCTAGCAGCATATTAAC
66 CACAACCATCTAGCAACATATTAAC
* * * *
14114411 CTGCAACACTGGTGGTTCATCCACCCATTTTCTGACAGCTCTTATATGCAATTTTGTTGTGCATC
1 CTGCAACACTGGTGGTTCATCCACCCATTTTCTGACAGCTCTTATCTACAATTATGTTGTGCATT
*
14114476 CACAACCATCTGGCAACATATTAAC
66 CACAACCATCTAGCAACATATTAAC
* ** * *
14114501 CTGCAACATTGGTGGTTCATCCACCCACATTCTGACAGCTCTCATCTACAATTATGTTGTGCACT
1 CTGCAACACTGGTGGTTCATCCACCCATTTTCTGACAGCTCTTATCTACAATTATGTTGTGCATT
* *
14114566 CACAACCATCTGGCAACGTATTAA
66 CACAACCATCTAGCAACATATTAA
14114590 ACTGTAACTT
Statistics
Matches: 155, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 155 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (90 bp):
CTGCAACACTGGTGGTTCATCCACCCATTTTCTGACAGCTCTTATCTACAATTATGTTGTGCATT
CACAACCATCTAGCAACATATTAAC
Found at i:14114763 original size:6 final size:6
Alignment explanation
Indices: 14114752--14114787 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
14114742 TTTTGAGATG
14114752 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
14114788 TGTAGAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:14123027 original size:3 final size:3
Alignment explanation
Indices: 14123019--14123057 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
14123009 ATAATTCGAG
14123019 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14123058 AAATTCTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14129318 original size:25 final size:26
Alignment explanation
Indices: 14129260--14129318 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
14129250 TTGTATGATT
*
14129260 ATACAAGC-ATGTAAGCGGGAAGCTC
1 ATACAAGCTAAGTAAGCGGGAAGCTC
***
14129285 ATGTGAGCTAAGTAA-CGGGAAGCTC
1 ATACAAGCTAAGTAAGCGGGAAGCTC
14129310 ATACAAGCT
1 ATACAAGCT
14129319 GTATATTAGG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (26 bp):
ATACAAGCTAAGTAAGCGGGAAGCTC
Found at i:14130728 original size:25 final size:26
Alignment explanation
Indices: 14130669--14130737 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
14130659 GATTCATTGC
* *
14130669 AAAGGTTTTCCAAA-AATTTACCACA
1 AAAGCTTTTCCAAAGAATTTACCAAA
* *
14130694 AAGGCTTTTCCAAAGAATTTTCCAAA
1 AAAGCTTTTCCAAAGAATTTACCAAA
*
14130720 AAAGC-TTTCCAGAGAATT
1 AAAGCTTTTCCAAAGAATT
14130738 CGCCATAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 24 0.65
26 13 0.35
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (26 bp):
AAAGCTTTTCCAAAGAATTTACCAAA
Found at i:14130822 original size:51 final size:50
Alignment explanation
Indices: 14130673--14130822 Score: 142
Period size: 51 Copynumber: 3.0 Consensus size: 50
14130663 CATTGCAAAG
* * *
14130673 GTTTTCCAAA-AATTTACCACAAAGGCTTTTCCAAAGAATTTTC-CAAAAAA
1 GTTTTCCAAAGAATTTGCCACAAAGGCTTTT-TAGAGAATTTTCAC-AAAAA
* * * * * * *
14130723 GCTTTCCAGAGAATTCGCCATAAAAGCCTTTTAGAGAATTATTGACAAAAA
1 GTTTTCCAAAGAATTTGCCACAAAGGCTTTTTAGAGAATT-TTCACAAAAA
* *
14130774 GTTTTCTAAAGAATTTGCCAGAAAGGCTTTTTAGAGAATTTGTCACAAA
1 GTTTTCCAAAGAATTTGCCACAAAGGCTTTTTAGAGAATTT-TCACAAA
14130823 GGCTTTTCAG
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
50 16 0.21
51 61 0.78
52 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (50 bp):
GTTTTCCAAAGAATTTGCCACAAAGGCTTTTTAGAGAATTTTCACAAAAA
Found at i:14130837 original size:24 final size:25
Alignment explanation
Indices: 14130683--14130837 Score: 102
Period size: 25 Copynumber: 6.2 Consensus size: 25
14130673 GTTTTCCAAA
* *
14130683 AATTTACCACAAAGGCTTTTCCAAAG
1 AATTTGCCACAAAGGCTTTT-CAGAG
* * * *
14130709 AATTTTCCAAAAAAGCTTTCCAGAG
1 AATTTGCCACAAAGGCTTTTCAGAG
* * *
14130734 AATTCGCCATAAAAGCCTTTT-AGAG
1 AATTTGCCA-CAAAGGCTTTTCAGAG
* * *
14130759 AATTATTGACA-AAAAG-TTTTCTAAAG
1 AA-T-TTGCCACAAAGGCTTTTC-AGAG
* *
14130785 AATTTGCCAGAAAGGCTTTTTAGAG
1 AATTTGCCACAAAGGCTTTTCAGAG
*
14130810 AATTTGTCACAAAGGCTTTTCAGA-
1 AATTTGCCACAAAGGCTTTTCAGAG
14130834 AATT
1 AATT
14130838 CGTGTTTATT
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
24 13 0.13
25 49 0.49
26 34 0.34
27 4 0.04
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (25 bp):
AATTTGCCACAAAGGCTTTTCAGAG
Found at i:14132442 original size:22 final size:22
Alignment explanation
Indices: 14132377--14132442 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
14132367 TTTTAAAATA
*
14132377 AATTTATATTTTATTAGTTTTAT
1 AATTTATATTTTATT-TTTTTAT
*
14132400 -ATTTATATTTTATAGTTTTTAT
1 AATTTATATTTTAT-TTTTTTAT
14132422 AATTT-TATTTTATTTTATTTA
1 AATTTATATTTTATTTT-TTTA
14132443 ATAAAAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.05
22 31 0.84
23 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
AATTTATATTTTATTTTTTTAT
Found at i:14132499 original size:25 final size:26
Alignment explanation
Indices: 14132464--14132519 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
14132454 TAAATTATAT
*
14132464 TATTTTCATAATTATGTAATTTTT-AA
1 TATTTTCATAATTAT-AAATTTTTGAA
14132490 TATTTT-ATAATTATAAATTTTTGAA
1 TATTTTCATAATTATAAATTTTTGAA
14132515 TATTT
1 TATTT
14132520 AAAATAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (26 bp):
TATTTTCATAATTATAAATTTTTGAA
Found at i:14132986 original size:7 final size:7
Alignment explanation
Indices: 14132974--14133000 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14132964 TATAGTAATA
14132974 TAAAATT
1 TAAAATT
14132981 TAAAATT
1 TAAAATT
14132988 TAAAATT
1 TAAAATT
14132995 TAAAAT
1 TAAAAT
14133001 ACAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAAAATT
Found at i:14133240 original size:20 final size:17
Alignment explanation
Indices: 14133195--14133243 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
14133185 AAGATAATAT
14133195 ATATTTATATTTTTACA
1 ATATTTATATTTTTACA
* *
14133212 ATATATATACTATTTTATA
1 ATATTTATA-T-TTTTACA
14133231 ATTATTTATATTT
1 A-TATTTATATTT
14133244 AATTATGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 8 0.31
18 3 0.12
19 8 0.31
20 7 0.27
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTTATATTTTTACA
Found at i:14135509 original size:33 final size:33
Alignment explanation
Indices: 14135464--14135542 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
14135454 AGTTTGTTCC
*
14135464 AAGTTTGTTCCAATGAATCT-AATTGAAATTACA
1 AAGTTTGTTCCAATAAATCTAAATT-AAATTACA
*
14135497 AATTTTGTTCCAATAAATCTAAATTAAATTACA
1 AAGTTTGTTCCAATAAATCTAAATTAAATTACA
14135530 AAGTTTGTTCCAA
1 AAGTTTGTTCCAA
14135543 GTTTGATGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
33 38 0.90
34 4 0.10
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (33 bp):
AAGTTTGTTCCAATAAATCTAAATTAAATTACA
Found at i:14136481 original size:266 final size:266
Alignment explanation
Indices: 14136007--14136541 Score: 890
Period size: 266 Copynumber: 2.0 Consensus size: 266
14135997 ACTATGTAAG
* * * *
14136007 AGACCGCTCGGGATTGGGTGTCGGCTCGGGTTCAGGTAAGGGCTCTGGCTTGAGTGCAAGAGGCA
1 AGACCGCTCGGGATTGGGTGTCGGCTCAGGTTCAAGCAAGGGCTCTGGCTCGAGTGCAAGAGGCA
*
14136072 AATGTGGAAAGGGATGGGCTGATTACCTAAGTCATGACAACCCCATCTCAGAGTGCCACTGTATG
66 AATGTGGAAAGGGATGGGCTGATTACCTAAGTCATGACAACCCCATCTCAGAGTGCCACTATATG
* * *
14136137 TACTCTAACGATGGCTACAAATCGAAAGAAAGATCCATCTGAGGTCTGCGCCCCATCCGGTTATC
131 TACTCTAACGATGGCTACAAATCGAAAGAAAGATCCATCTGAGGTATCCCCCCCATCCGGTTATC
* *
14136202 CCACACTGCAATATATTATTGATGCACTGCCATCCAATTATATCCCTATTTTCCCCTTTTGTTAA
196 CCACACTGCAATATATTATTGATGCACTACCATCCAATTATATCCCTATTTTCCCCTCTTGTTAA
14136267 TCCCGT
261 TCCCGT
* * *
14136273 AGACCGCTCGGGATTGGGTGTCGGCTCAGGTTCAAGCGAGGGTTTTGGCTCGAGTGCAAGAGGCA
1 AGACCGCTCGGGATTGGGTGTCGGCTCAGGTTCAAGCAAGGGCTCTGGCTCGAGTGCAAGAGGCA
* *
14136338 GATGTGGAAAGGGATGGGCTGGTTACCTAAGTCATGACAACCCCATCTCAGAGTGCCACTATATG
66 AATGTGGAAAGGGATGGGCTGATTACCTAAGTCATGACAACCCCATCTCAGAGTGCCACTATATG
* * *
14136403 TACTCTAACGATGGCTACAAATCGAAAGAAAGATGCATCTGAGGTATCCCCCCCATTCGGTTATT
131 TACTCTAACGATGGCTACAAATCGAAAGAAAGATCCATCTGAGGTATCCCCCCCATCCGGTTATC
* *
14136468 CCACATTGCAATATATTGTTGATGCACTACCATCCAATTATATCCCTATTTTCCCCTCTTGTTAA
196 CCACACTGCAATATATTATTGATGCACTACCATCCAATTATATCCCTATTTTCCCCTCTTGTTAA
14136533 TCCCGT
261 TCCCGT
14136539 AGA
1 AGA
14136542 TCTTCCCCAA
Statistics
Matches: 249, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
266 249 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (266 bp):
AGACCGCTCGGGATTGGGTGTCGGCTCAGGTTCAAGCAAGGGCTCTGGCTCGAGTGCAAGAGGCA
AATGTGGAAAGGGATGGGCTGATTACCTAAGTCATGACAACCCCATCTCAGAGTGCCACTATATG
TACTCTAACGATGGCTACAAATCGAAAGAAAGATCCATCTGAGGTATCCCCCCCATCCGGTTATC
CCACACTGCAATATATTATTGATGCACTACCATCCAATTATATCCCTATTTTCCCCTCTTGTTAA
TCCCGT
Found at i:14138096 original size:26 final size:28
Alignment explanation
Indices: 14138067--14138126 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
14138057 TCAAAACACC
*
14138067 TAAATGCAATACAATAA-AT-ATTACAA
1 TAAATACAATACAATAATATCATTACAA
* *
14138093 TAAATATAGTACAATAATATCATTACAA
1 TAAATACAATACAATAATATCATTACAA
14138121 -AAATAC
1 TAAATAC
14138127 TAAACATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 14 0.50
27 7 0.25
28 7 0.25
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (28 bp):
TAAATACAATACAATAATATCATTACAA
Found at i:14138107 original size:14 final size:12
Alignment explanation
Indices: 14138076--14138125 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
14138066 CTAAATGCAA
14138076 TACAATAAATAT
1 TACAATAAATAT
14138088 TACAATAAATAT
1 TACAATAAATAT
14138100 AGTACAATAATATCAT
1 --TACAATAA-AT-AT
14138116 TACAA-AAATA
1 TACAATAAATA
14138126 CTAAACATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 14 0.41
13 2 0.06
14 13 0.38
15 2 0.06
16 2 0.06
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (12 bp):
TACAATAAATAT
Found at i:14138559 original size:42 final size:42
Alignment explanation
Indices: 14138471--14138559 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 42
14138461 TCAAAATCTC
* ***
14138471 AATAAATAAAAAACATTTGTCAAATAATTCAAAAAAAAACCC
1 AATAAATAAAAAACATTTGTCAAATAATTAAAAAAAAAAAAA
* *
14138513 AATAAAT-AAAAA-A-TTGTCAAATAATTAAAAAACAACAAA
1 AATAAATAAAAAACATTTGTCAAATAATTAAAAAAAAAAAAA
14138552 AA-AAATAA
1 AATAAATAA
14138560 CATTTATAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
38 4 0.10
39 23 0.57
40 1 0.03
41 5 0.12
42 7 0.17
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.20
Consensus pattern (42 bp):
AATAAATAAAAAACATTTGTCAAATAATTAAAAAAAAAAAAA
Found at i:14138767 original size:32 final size:32
Alignment explanation
Indices: 14138696--14138766 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
14138686 TCTTTTTACC
*
14138696 CTTTTTTTAAACCCTAAACAAAACCCTTTAAT
1 CTTTTTTTAAACCCTAAACAAAACCCTCTAAT
* * *
14138728 ATATTTTT-AACCCTAAACAAATCCC-CTAAT
1 CTTTTTTTAAACCCTAAACAAAACCCTCTAAT
14138758 CTCTTTTTT
1 CT-TTTTTT
14138767 TCCAAACCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
30 5 0.16
31 21 0.66
32 6 0.19
ACGTcount: A:0.34, C:0.25, G:0.00, T:0.41
Consensus pattern (32 bp):
CTTTTTTTAAACCCTAAACAAAACCCTCTAAT
Found at i:14139585 original size:23 final size:24
Alignment explanation
Indices: 14139545--14139590 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
14139535 TTCACCCTAA
14139545 TTTTTCAGTTTTCTTTTT-TTTTC
1 TTTTTCAGTTTTCTTTTTGTTTTC
*
14139568 TTTTTCA-TTTTGTATTTTGTTTT
1 TTTTTCAGTTTTCT-TTTTGTTTT
14139591 GTATTTGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTTCAGTTTTCTTTTTGTTTTC
Found at i:14139932 original size:380 final size:379
Alignment explanation
Indices: 14139145--14140290 Score: 1838
Period size: 380 Copynumber: 3.0 Consensus size: 379
14139135 GACACATAGC
*
14139145 CTTCACCCTAATTTTTTAGTTTTCCTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTTG
1 CTTCACCCTAATTTTTCAGTTTT-CTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTTG
*
14139210 TACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCC-ATCAACAAGGCT-ACATCATTAA-TTTT
65 TACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGA-ACCATTAATTTTT
14139272 TTTAACTAAATCCGACGGGTGTGAGAAAATAGAGGTGGTGCTGCCTCTGCACCACCCTCCACCAC
129 TTTAACTAAATCCGACGGGTGTGAGAAAAT--A-G-GG-G-TG-----GCACCACCCTCCACCAC
* *
14139337 CCTTGGTATACCATTTTCGTAAATAATTCAGTTCGCATATTATTTTAGATATTTTTAAATTTTTT
183 CCTTGGTATACCATTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTT
*
14139402 ATATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGGCATTTCACC
248 ATATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC
*
14139467 AAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATACGGCCTTGCAATGGAATTGCAAAC
313 AAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAAC
14139532 AA
378 AA
14139534 CTTCACCCTAATTTTTCAGTTTTCTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTTGT
1 CTTCACCCTAATTTTTCAGTTTTCTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTTGT
*
14139599 ACTCGGGTTGGGTATTCAGGTTTTTTAATGCCGCCTATCAACAAGGCTGAACCATTAATTTTTTT
66 ACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGAACCATTAATTTTTTT
* *
14139664 TAACTAAATCCGACGAGTGTGAGAAAATAGGGGTGGCAGCACCCTCCACCACCCTTGGTATACCA
131 TAACTAAATCCGACGGGTGTGAGAAAATAGGGGTGGCACCACCCTCCACCACCCTTGGTATACCA
* * *
14139729 TTTTCTTAAATAATTTAGCTCGTTTATTATTTTAGATATTTTTAAA-TTTTTATATTATATATGT
196 TTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTTATATTATATATGT
*
14139793 AAAAAAGCCAATAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACCAAAAAAAATAAAT
261 AAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC--AAAAAATAAAT
*
14139858 ACTAATAAGACAAAAATTATAGAATAAATATGGCCTTGCAATGGAATTGCAAACAA
324 ACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAACAA
* *
14139914 CTTCACCCTAATTTTTCAGTTTTCCTTTTTTTTATTTTTCATTTTGTATTTTGTTTTGTATTTGT
1 CTTCACCCTAATTTTTCAGTTTTCTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTTGT
** * * *
14139979 ACTTAGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATGAACAAGGTTGCACCATTAAATTTTTT
66 ACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGAACCATT-AATTTTTT
**
14140044 TTAACTAAATCCGACGGGTGTGAGAAAATA--GGCAGCACCACCCTCCACCACCCTTGGTATACC
130 TTAACTAAATCCGACGGGTGTGAGAAAATAGGGGTGGCACCACCCTCCACCACCCTTGGTATACC
* * *
14140107 ATTTTCGTAAATAATTCAACTAGTATATTTTTTTAGATATTTTTAAATTTTTTATATTATATATG
195 ATTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTTATATTATATATG
* *
14140172 TAAAAAAGTCACTAACTTACAAGTTGCTCAAAATACTAGTAAGATATTTCACCAAAAAA-AAATA
260 TAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACCAAAAAATAAATA
*
14140236 CTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGAAATTGCAAACAA
325 CTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAACAA
14140291 TTTGCAATTA
Statistics
Matches: 713, Mismatches: 37, Indels: 26
0.92 0.05 0.03
Matches are distributed among these distances:
377 58 0.08
378 74 0.10
379 141 0.20
380 245 0.34
381 37 0.05
384 2 0.00
385 1 0.00
386 2 0.00
387 1 0.00
388 77 0.11
389 41 0.06
390 34 0.05
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (379 bp):
CTTCACCCTAATTTTTCAGTTTTCTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTTGT
ACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGAACCATTAATTTTTTT
TAACTAAATCCGACGGGTGTGAGAAAATAGGGGTGGCACCACCCTCCACCACCCTTGGTATACCA
TTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTTATATTATATATGT
AAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACCAAAAAATAAATAC
TAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAACAA
Done.