Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 52 of 163
Found at i:12920310 original size:60 final size:60
Alignment explanation
Indices: 12920248--12920358 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
12920238 TTAATATTAA
**
12920248 AAAAAATT-AAGTACCAAATT-AGGAAAAAGAGTCAAGTTCAAGTACCAAATTGGATCCC
1 AAAAAATTGAAGTACCAAATTAAAAAAAAAGAGTCAAGTTCAAGTACCAAATTGGATCCC
* * * *
12920306 AAAAAGTTGAAGTACCAAATTAAAAAAAAAGTGTCAAGTTTAGGTACCAAATT
1 AAAAAATTGAAGTACCAAATTAAAAAAAAAGAGTCAAGTTCAAGTACCAAATT
12920359 AGAAAAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 7 0.16
59 12 0.27
60 26 0.58
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.23
Consensus pattern (60 bp):
AAAAAATTGAAGTACCAAATTAAAAAAAAAGAGTCAAGTTCAAGTACCAAATTGGATCCC
Found at i:12920353 original size:32 final size:31
Alignment explanation
Indices: 12920317--12920376 Score: 102
Period size: 32 Copynumber: 1.9 Consensus size: 31
12920307 AAAAGTTGAA
12920317 GTACCAAATTAAAAAAAAAGTGTCAAGTTTAG
1 GTACCAAATTAAAAAAAAA-TGTCAAGTTTAG
*
12920349 GTACCAAATTAGAAAAAAATGTCAAGTT
1 GTACCAAATTAAAAAAAAATGTCAAGTT
12920377 CATATACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (31 bp):
GTACCAAATTAAAAAAAAATGTCAAGTTTAG
Found at i:12929638 original size:31 final size:32
Alignment explanation
Indices: 12929603--12929664 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
12929593 TTTTAACTTT
*
12929603 AATTTTAGGAAT-AAAGTTTTAAATAATTTTA
1 AATTTTAGAAATAAAAGTTTTAAATAATTTTA
* *
12929634 AATTTTAGAAATAAAATTTTTAAATATTTTT
1 AATTTTAGAAATAAAAGTTTTAAATAATTTT
12929665 TATTTTCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (32 bp):
AATTTTAGAAATAAAAGTTTTAAATAATTTTA
Found at i:12935403 original size:39 final size:40
Alignment explanation
Indices: 12935349--12935444 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
12935339 TATGCACTCA
* *
12935349 ATGGACACCTTTTGAAGAGTCACAACC-CTTTCATATTGG
1 ATGGACACCTTTTGAAAAATCACAACCACTTTCATATTGG
* * *
12935388 ATGGACATCTTTTGAAAAATCATAACCATTTTCATATTGG
1 ATGGACACCTTTTGAAAAATCACAACCACTTTCATATTGG
12935428 ATGGACACCTTTTGAAA
1 ATGGACACCTTTTGAAA
12935445 GAGACTTGTC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 23 0.46
40 27 0.54
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (40 bp):
ATGGACACCTTTTGAAAAATCACAACCACTTTCATATTGG
Found at i:12937101 original size:31 final size:31
Alignment explanation
Indices: 12937063--12937122 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
12937053 AACACAAAAG
12937063 TGTGTAGATTTCTGGTTCATATTGAATCTTT
1 TGTGTAGATTTCTGGTTCATATTGAATCTTT
12937094 TGTGTAGATTTCTGGTTCATATTGAATCT
1 TGTGTAGATTTCTGGTTCATATTGAATCT
12937123 AGGATTGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (31 bp):
TGTGTAGATTTCTGGTTCATATTGAATCTTT
Found at i:12944956 original size:19 final size:20
Alignment explanation
Indices: 12944912--12944957 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
12944902 ATAAAAACTG
12944912 GAAAAAAATCTAAAAATATT
1 GAAAAAAATCTAAAAATATT
* * *
12944932 -ACAAAAGTCTAGAAAT-TT
1 GAAAAAAATCTAAAAATATT
12944950 GAAAAAAA
1 GAAAAAAA
12944958 AACCTGGAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 3
0.71 0.18 0.11
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (20 bp):
GAAAAAAATCTAAAAATATT
Found at i:12945738 original size:23 final size:24
Alignment explanation
Indices: 12945712--12945759 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
12945702 ATTATTATTT
* *
12945712 TAATTTTAATTTTTTAT-TTTAAA
1 TAATTTTAACTTTTAATCTTTAAA
12945735 TAATTTTAACTTTTAATCTTTAAA
1 TAATTTTAACTTTTAATCTTTAAA
12945759 T
1 T
12945760 TTTAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TAATTTTAACTTTTAATCTTTAAA
Found at i:12945748 original size:7 final size:6
Alignment explanation
Indices: 12945708--12945766 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
12945698 ATTTATTATT
* *
12945708 ATTTTA ATTTTA ATTTTTT ATTTTA A--ATA ATTTTA ACTTTTA ATCTTTAA
1 ATTTTA ATTTTA A-TTTTA ATTTTA ATTTTA ATTTTA A-TTTTA AT-TTT-A
12945758 ATTTTA ATT
1 ATTTTA ATT
12945767 AAAATATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
4 3 0.07
6 20 0.47
7 17 0.40
8 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (6 bp):
ATTTTA
Found at i:12945749 original size:30 final size:30
Alignment explanation
Indices: 12945671--12945751 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
12945661 TAGAGGTATA
* *
12945671 ATAATAAATTTAATCTTTAAATTTTTTATTT
1 ATAATAATTTTAA-CTTTTAATTTTTTATTT
* *
12945702 ATTATTATTTTAA-TTTTAATTTTTTATTT
1 ATAATAATTTTAACTTTTAATTTTTTATTT
12945731 -TAAATAATTTTAACTTTTAAT
1 AT-AATAATTTTAACTTTTAAT
12945752 CTTTAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
28 1 0.02
29 24 0.57
30 7 0.17
31 10 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
ATAATAATTTTAACTTTTAATTTTTTATTT
Found at i:12945763 original size:36 final size:37
Alignment explanation
Indices: 12945709--12945778 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
12945699 TTTATTATTA
* * *
12945709 TTTTAATTTTAATTTTTTATTTTAAATA-ATTTTAAC
1 TTTTAATTTTAATATTTTAATTAAAATATATTTTAAC
12945745 TTTTAATCTTTAA-ATTTTAATTAAAATATATTTT
1 TTTTAAT-TTTAATATTTTAATTAAAATATATTTT
12945779 TATATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 19 0.66
37 10 0.34
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (37 bp):
TTTTAATTTTAATATTTTAATTAAAATATATTTTAAC
Found at i:12962949 original size:62 final size:62
Alignment explanation
Indices: 12962852--12963025 Score: 269
Period size: 62 Copynumber: 2.8 Consensus size: 62
12962842 ACATCTGATA
* * *
12962852 ACTCACGATGACACAGAGTCATCGGACCTTAAATCCGTAATAGGATTCATTTCTCATTTAAT
1 ACTCATGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTCTCATTTAAT
* *
12962914 ACTCATGATGACACAAAGTCATCAGACCTTTAATCCGTAATAGGATCCATTTCTCATTTAAT
1 ACTCATGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTCTCATTTAAT
* *
12962976 ACTCATGATGACACATAGTCATCGGACCTCATAATCCGTAA-AGGATTCAT
1 ACTCATGATGACACAAAGTCATCGGACCT-TTAATCCGTAATAGGATTCAT
12963026 ATACTCACGA
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
62 92 0.90
63 10 0.10
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (62 bp):
ACTCATGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATTTCTCATTTAAT
Found at i:12963052 original size:52 final size:52
Alignment explanation
Indices: 12962974--12963160 Score: 320
Period size: 52 Copynumber: 3.6 Consensus size: 52
12962964 TTCTCATTTA
*
12962974 ATACTCATGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * **
12963026 ATACTCACGATAACATATAGTCATCGGACCTCATAATTTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
12963078 ATACTCACGATGACACATAGTCATCGGACCTAATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
12963130 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
12963161 TTTTCATTTA
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 125 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:12967872 original size:22 final size:21
Alignment explanation
Indices: 12967844--12967884 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
12967834 AAGTGGGCAC
12967844 CAGATGAAAATAATGCAAATAA
1 CAGATGAAAATAATG-AAATAA
12967866 CAGATGAAAATAATGAAAT
1 CAGATGAAAATAATGAAAT
12967885 CCAGCCTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.20
Consensus pattern (21 bp):
CAGATGAAAATAATGAAATAA
Found at i:12970602 original size:21 final size:21
Alignment explanation
Indices: 12970568--12970608 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12970558 ATTCTTATAT
*
12970568 AAAAATAATTTAAA-TAAATA
1 AAAAATAATATAAATTAAATA
12970588 AAAAGATAATATAAATTAAAT
1 AAAA-ATAATATAAATTAAAT
12970609 CAAATAGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATAATATAAATTAAATA
Found at i:12970917 original size:14 final size:15
Alignment explanation
Indices: 12970891--12970926 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
12970881 ACTAACTCCT
*
12970891 TTTTCAAAAAAAAAAA
1 TTTTC-AAAAAAATAA
12970907 TTTTCAAAAAAATAA
1 TTTTCAAAAAAATAA
12970922 TTTTC
1 TTTTC
12970927 GAATCGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (15 bp):
TTTTCAAAAAAATAA
Found at i:12976112 original size:21 final size:21
Alignment explanation
Indices: 12976088--12976129 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
12976078 ACTGTGTATT
12976088 GACCTTTGATTAAGCACCAAA
1 GACCTTTGATTAAGCACCAAA
12976109 GACCTTTGATTAAGCACCAAA
1 GACCTTTGATTAAGCACCAAA
12976130 TCAACACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (21 bp):
GACCTTTGATTAAGCACCAAA
Found at i:12978817 original size:30 final size:30
Alignment explanation
Indices: 12978781--12978840 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
12978771 AATGGTTTAA
* *
12978781 TGTGCAA-TTATATATATGAACTTTTGATTT
1 TGTGCAAGTTA-ATATATAAAATTTTGATTT
12978811 TGTGCAAGTTAATATATAAAATTTTGATTT
1 TGTGCAAGTTAATATATAAAATTTTGATTT
12978841 GATTCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.48
Consensus pattern (30 bp):
TGTGCAAGTTAATATATAAAATTTTGATTT
Found at i:12980189 original size:26 final size:26
Alignment explanation
Indices: 12980153--12980205 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
12980143 TGAGAATATT
*
12980153 TCTCATGTTAAAAAAATTCAACTTGG
1 TCTCATGTTAAAAAAAATCAACTTGG
12980179 TCTCATGTTAAAAAAAATCAACTTGG
1 TCTCATGTTAAAAAAAATCAACTTGG
12980205 T
1 T
12980206 TTGATTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (26 bp):
TCTCATGTTAAAAAAAATCAACTTGG
Found at i:12982080 original size:28 final size:26
Alignment explanation
Indices: 12982025--12982083 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
12982015 GGTTGAAGAA
*
12982025 GGAAAGAATGAGTTTTGTTTTTCAAT
1 GGAAAGAATGAGTTTTCTTTTTCAAT
* *
12982051 GGAAAGAATGGGTTATGTCTTTTTTAAT
1 GGAAAGAATGAGTT-T-TCTTTTTCAAT
12982079 GGAAA
1 GGAAA
12982084 TAATCAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.46
27 1 0.04
28 14 0.50
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.39
Consensus pattern (26 bp):
GGAAAGAATGAGTTTTCTTTTTCAAT
Found at i:12994110 original size:50 final size:50
Alignment explanation
Indices: 12994016--12994120 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 50
12994006 AGGTGTAGAT
* ** *
12994016 TGAAACCGCAATGGAAAATCTCATACACCTAAAGTTGTAAAGGGGCAGAA
1 TGAAGCCGCAATGGAAAATCTCATACACCTAAAACTATAAAGGGGCAGAA
* * * * *
12994066 TGAAGCCGCAATGGCAAATCTCATTCACCTAAAACTATAGAGGGGTAGAT
1 TGAAGCCGCAATGGAAAATCTCATACACCTAAAACTATAAAGGGGCAGAA
12994116 TGAAG
1 TGAAG
12994121 TCACAAGGAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (50 bp):
TGAAGCCGCAATGGAAAATCTCATACACCTAAAACTATAAAGGGGCAGAA
Found at i:12994244 original size:40 final size:40
Alignment explanation
Indices: 12994200--12994427 Score: 169
Period size: 40 Copynumber: 5.8 Consensus size: 40
12994190 AATCAGAGTA
* *
12994200 CAGATTAAAGACCATCCGATCTCCTACCCCGATCATGGGG
1 CAGATTAAAGACCATCCGATCTCTTACCCCGACCATGGGG
**
12994240 CAGATTGAAA-ACCATCCGATCTCTTACCCTAACCA-GAGGG
1 CAGATT-AAAGACCATCCGATCTCTTACCCCGACCATG-GGG
* * * * * * *
12994280 TAAATTGAAGGCCATCCGATCTTTTACCTCGATCATGGGG
1 CAGATTAAAGACCATCCGATCTCTTACCCCGACCATGGGG
* * * * ** **
12994320 CAGATTGAAGA-AATCCAATCTTTTACCCTAACCAAAGGG
1 CAGATTAAAGACCATCCGATCTCTTACCCCGACCATGGGG
* *
12994359 CAGATTGAAA-ACCATCAGATCTCTTACCCCGACCATGAGG
1 CAGATT-AAAGACCATCCGATCTCTTACCCCGACCATGGGG
* * * *
12994399 CAGATTGAA-ACAATCCAATCTTTTACCCC
1 CAGATTAAAGACCATCCGATCTCTTACCCC
12994428 TAAAGTTATA
Statistics
Matches: 143, Mismatches: 39, Indels: 13
0.73 0.20 0.07
Matches are distributed among these distances:
39 48 0.34
40 91 0.64
41 4 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (40 bp):
CAGATTAAAGACCATCCGATCTCTTACCCCGACCATGGGG
Found at i:12994386 original size:79 final size:78
Alignment explanation
Indices: 12994174--12994426 Score: 301
Period size: 79 Copynumber: 3.2 Consensus size: 78
12994164 AGTTACAACC
* * ** *
12994174 TCCAATATTTTACCCTAATCAGAGTACAGATT-AAAGACCATCCGATCTCCTACCCCGATCATGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAA-ACCATCCGATCTCTTACCCCGATCATGG
12994238 GGCAGATTGAAAACCA
65 GGCAGATTGAAAA--A
* * * * ** * *
12994254 TCCGATCTCTTACCCTAACCAGAGGGTAAATTGAAGGCCATCCGATCTTTTACCTCGATCATGGG
1 TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAAACCATCCGATCTCTTACCCCGATCATGGG
12994319 GCAGATTGAAGAAA
66 GCAGATTGAA-AAA
* * * *
12994333 TCCAATCTTTTACCCTAACCAAAGGGCAGATTGAAAACCATCAGATCTCTTACCCCGACCATGAG
1 TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAAACCATCCGATCTCTTACCCCGATCATGGG
12994398 GCAGATTGAAACAA
66 GCAGATTGAAA-AA
12994412 TCCAATCTTTTACCC
1 TCCAATCTTTTACCC
12994427 CTAAAGTTAT
Statistics
Matches: 145, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 1 0.01
79 81 0.56
80 59 0.41
81 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (78 bp):
TCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAAACCATCCGATCTCTTACCCCGATCATGGG
GCAGATTGAAAAA
Found at i:12995711 original size:26 final size:27
Alignment explanation
Indices: 12995667--12995725 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
12995657 AGTTGAAGAA
* *
12995667 GGAAAGAATGTGTTTTG-TTTTTTAAT
1 GGAAAGAATGGGTTATGTTTTTTTAAT
12995693 GGAAAGAATGGGTTATGTTTTTTTTAAT
1 GGAAAGAATGGGTTATG-TTTTTTTAAT
12995721 GGAAA
1 GGAAA
12995726 TAATCAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 15 0.52
28 14 0.48
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (27 bp):
GGAAAGAATGGGTTATGTTTTTTTAAT
Found at i:12995724 original size:28 final size:26
Alignment explanation
Indices: 12995667--12995725 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
12995657 AGTTGAAGAA
*
12995667 GGAAAGAATGTGTTTTGTTTTTTAAT
1 GGAAAGAATGGGTTTTGTTTTTTAAT
*
12995693 GGAAAGAATGGGTTATGTTTTTTTTAAT
1 GGAAAGAATGGGTT-T-TGTTTTTTAAT
12995721 GGAAA
1 GGAAA
12995726 TAATCAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 13 0.45
27 1 0.03
28 15 0.52
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (26 bp):
GGAAAGAATGGGTTTTGTTTTTTAAT
Found at i:12998515 original size:47 final size:45
Alignment explanation
Indices: 12998376--12998535 Score: 196
Period size: 45 Copynumber: 3.5 Consensus size: 45
12998366 GTGCGATACC
* *
12998376 TCATAATGTCTTTCAACTATGGTCTTATTCATTTCGGATATAGTG
1 TCATAGTGTCTTTCAACTATGGTCTTATTCATTTCGAATATAGTG
* *
12998421 CCATAGTGTTTTTCAACTATGGTCTTATTCATTTTC-AATATAGTG
1 TCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTCGAATATAGTG
* * * *
12998466 TCATAGTGTGTTTCAACAACGGTCTTATTCATTTCCGATATATAATG
1 TCATAGTGTCTTTCAACTATGGTCTTATTCATTT-CGA-ATATAGTG
* *
12998513 TCATAGTGCCTTTTAACTATGGT
1 TCATAGTGTCTTTCAACTATGGT
12998536 TTTTTTCGTT
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
44 3 0.03
45 64 0.66
46 5 0.05
47 25 0.26
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (45 bp):
TCATAGTGTCTTTCAACTATGGTCTTATTCATTTCGAATATAGTG
Found at i:13004603 original size:16 final size:18
Alignment explanation
Indices: 13004568--13004604 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
13004558 AATATATAAA
*
13004568 TTTATATTTTAAATATTT
1 TTTATATTTTAAATAGTT
13004586 TTTAT-TTTTAAA-AGTT
1 TTTATATTTTAAATAGTT
13004602 TTT
1 TTT
13004605 GCCACTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 7 0.39
18 5 0.28
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTATATTTTAAATAGTT
Found at i:13006350 original size:20 final size:20
Alignment explanation
Indices: 13006325--13006371 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
13006315 TTATTTGATA
13006325 TCTATAATATTATCTATACT
1 TCTATAATATTATCTATACT
13006345 TCTATAATATTATCTATACT
1 TCTATAATATTATCTATACT
*
13006365 TTTATAA
1 TCTATAA
13006372 CATGATTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TCTATAATATTATCTATACT
Found at i:13009456 original size:33 final size:33
Alignment explanation
Indices: 13009413--13009486 Score: 123
Period size: 33 Copynumber: 2.2 Consensus size: 33
13009403 TCTAAGTTAG
*
13009413 TTTTTT-AAATTCTAAAATATTTTTTAATTATA
1 TTTTTTAAAATTCTAAAATAATTTTTAATTATA
13009445 TTTTTTAAAATTCTAAAATAATTTTTAATTATA
1 TTTTTTAAAATTCTAAAATAATTTTTAATTATA
13009478 TTTTCTTAA
1 TTTT-TTAA
13009487 TTCAATTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 6 0.15
33 29 0.74
34 4 0.10
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (33 bp):
TTTTTTAAAATTCTAAAATAATTTTTAATTATA
Found at i:13010052 original size:3 final size:3
Alignment explanation
Indices: 13010044--13010095 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
13010034 CTACAATCTC
13010044 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13010092 ATA A
1 ATA A
13010096 ATATCTTAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13026163 original size:22 final size:23
Alignment explanation
Indices: 13026122--13026164 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
13026112 GATCAAATTT
* *
13026122 TTTTATTTTTCAAGATTGTCAAA
1 TTTTATTTTTCAAAAATGTCAAA
13026145 TTTT-TTTTTCAAAAATGTCA
1 TTTTATTTTTCAAAAATGTCA
13026165 CATGGTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.53
Consensus pattern (23 bp):
TTTTATTTTTCAAAAATGTCAAA
Found at i:13027254 original size:29 final size:29
Alignment explanation
Indices: 13027192--13027255 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
13027182 TAGATTTTTG
* *
13027192 AAATTAATAAAGTAAAAGGATTAAAATTT
1 AAATTTATAAAGTAAAAGGACTAAAATTT
*
13027221 TAATTTATAAAGTATAAA-GACT-AAATTT
1 AAATTTATAAAGTA-AAAGGACTAAAATTT
13027249 CAAATTT
1 -AAATTT
13027256 TGTTGAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.21
29 20 0.69
30 3 0.10
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (29 bp):
AAATTTATAAAGTAAAAGGACTAAAATTT
Found at i:13032835 original size:20 final size:20
Alignment explanation
Indices: 13032771--13032837 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
13032761 ATTGATGTGA
* * *
13032771 ATATATACATACATGCATGC
1 ATATGTACATACATACATAC
* **
13032791 ATATATACATACATATGTAC
1 ATATGTACATACATACATAC
13032811 ATATGTACATACATACATAC
1 ATATGTACATACATACATAC
*
13032831 GTATGTA
1 ATATGTA
13032838 TTTGGAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (20 bp):
ATATGTACATACATACATAC
Found at i:13035979 original size:6 final size:6
Alignment explanation
Indices: 13035968--13035998 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
13035958 GAAACTAAGA
13035968 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG A
1 AGAAAG AGAAAG AGAAAG AGAAAG AGAAAG A
13035999 TGGTGATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:13036006 original size:6 final size:6
Alignment explanation
Indices: 13035997--13036036 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
13035987 GAAAGAGAAA
* * *
13035997 GATGGT GATGGT GATGGT AATGAT GATGGT GATGAT GATG
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATG
13036037 TTGGAGATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (6 bp):
GATGGT
Found at i:13036012 original size:12 final size:12
Alignment explanation
Indices: 13035997--13036036 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
13035987 GAAAGAGAAA
*
13035997 GATGGTGATGGT
1 GATGGTGATGAT
*
13036009 GATGGTAATGAT
1 GATGGTGATGAT
13036021 GATGGTGATGAT
1 GATGGTGATGAT
13036033 GATG
1 GATG
13036037 TTGGAGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (12 bp):
GATGGTGATGAT
Found at i:13054915 original size:20 final size:20
Alignment explanation
Indices: 13054890--13054943 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
13054880 CTCCAGTGAG
* * *
13054890 ACTTCTACCGGTAGAACTCT
1 ACTTCTACCGATACAACTCC
13054910 ACTTCTACCGATACAACTCC
1 ACTTCTACCGATACAACTCC
13054930 ACTTCTACCGATAC
1 ACTTCTACCGATAC
13054944 CTTGAAGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.35, G:0.09, T:0.28
Consensus pattern (20 bp):
ACTTCTACCGATACAACTCC
Found at i:13057420 original size:28 final size:28
Alignment explanation
Indices: 13057389--13057525 Score: 159
Period size: 28 Copynumber: 4.9 Consensus size: 28
13057379 TCTTATCTGT
*
13057389 AAGGATATTATTGGAAAGGGATATCCGC
1 AAGGATATTATTGAAAAGGGATATCCGC
* * * * *
13057417 AAGGATATCAATGAAAAGGAATATTC-T
1 AAGGATATTATTGAAAAGGGATATCCGC
13057444 AAGGATATTATTGAAAAGGGATATCCGC
1 AAGGATATTATTGAAAAGGGATATCCGC
* * * * *
13057472 AAGGATATCAATGAAAAGGAATACCCGT
1 AAGGATATTATTGAAAAGGGATATCCGC
*
13057500 AAGGATACTATTGAAAAGGGATATCC
1 AAGGATATTATTGAAAAGGGATATCC
13057526 AAAAAGATAT
Statistics
Matches: 87, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
27 22 0.25
28 65 0.75
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.23
Consensus pattern (28 bp):
AAGGATATTATTGAAAAGGGATATCCGC
Found at i:13057447 original size:27 final size:28
Alignment explanation
Indices: 13057389--13057562 Score: 138
Period size: 28 Copynumber: 6.2 Consensus size: 28
13057379 TCTTATCTGT
* * * *
13057389 AAGGATATTATTGGAAAGGGATATCCGC
1 AAGGATATCAATGAAAAGGAATATCCGC
* *
13057417 AAGGATATCAATGAAAAGGAATATTC-T
1 AAGGATATCAATGAAAAGGAATATCCGC
* * *
13057444 AAGGATATTATTGAAAAGGGATATCCGC
1 AAGGATATCAATGAAAAGGAATATCCGC
* *
13057472 AAGGATATCAATGAAAAGGAATACCCGT
1 AAGGATATCAATGAAAAGGAATATCCGC
* * **
13057500 AAGGATA-CTATTGAAAAGGGATATCCAA
1 AAGGATATC-AATGAAAAGGAATATCCGC
* * * *
13057528 AAAGATATCAA-CAAAAGGGAATATCTGT
1 AAGGATATCAATGAAAA-GGAATATCCGC
13057556 AAGGATA
1 AAGGATA
13057563 CTTTAAAAAG
Statistics
Matches: 113, Mismatches: 29, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
27 27 0.24
28 85 0.75
29 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.22
Consensus pattern (28 bp):
AAGGATATCAATGAAAAGGAATATCCGC
Found at i:13057535 original size:56 final size:56
Alignment explanation
Indices: 13057382--13057578 Score: 256
Period size: 55 Copynumber: 3.6 Consensus size: 56
13057372 TTGATTTTCT
* * *
13057382 TATCTGTAAGGATATTATTGGAAAGGGATATCCGCAAGGATATCAATGAAAAGGAA
1 TATCCGTAAGGATACTATTGAAAAGGGATATCCGCAAGGATATCAATGAAAAGGAA
* *
13057438 TATTC-TAAGGATATTATTGAAAAGGGATATCCGCAAGGATATCAATGAAAAGGAA
1 TATCCGTAAGGATACTATTGAAAAGGGATATCCGCAAGGATATCAATGAAAAGGAA
* ** * *
13057493 TACCCGTAAGGATACTATTGAAAAGGGATATCCAAAAAGATATCAA-CAAAAGGGAA
1 TATCCGTAAGGATACTATTGAAAAGGGATATCCGCAAGGATATCAATGAAAA-GGAA
* *
13057549 TATCTGTAAGGATACT-TTAAAAAGGGATAT
1 TATCCGTAAGGATACTATTGAAAAGGGATAT
13057579 TTGTAAGGAT
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
55 69 0.55
56 57 0.45
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (56 bp):
TATCCGTAAGGATACTATTGAAAAGGGATATCCGCAAGGATATCAATGAAAAGGAA
Found at i:13057587 original size:111 final size:111
Alignment explanation
Indices: 13057387--13057594 Score: 267
Period size: 111 Copynumber: 1.9 Consensus size: 111
13057377 TTTCTTATCT
* * ** * * *
13057387 GTAAGGATATTATTGGAAAGGGATATCCGCAAGGATATCAATGAAAAGGAATATTCTAAGGATAT
1 GTAAGGATACTATTGAAAAGGGATATCCAAAAAGATATCAATCAAAAGGAATATTCTAAGGATAC
* *
13057452 TATTGAAAAGGGATATCCGCAAGGATATCAATGAAAAGGAATACCC
66 TATTAAAAAGGGATATCCGCAAGGATACCAATGAAAAGGAATACCC
*
13057498 GTAAGGATACTATTGAAAAGGGATATCCAAAAAGATATCAA-CAAAAGGGAATATCTGTAAGGAT
1 GTAAGGATACTATTGAAAAGGGATATCCAAAAAGATATCAATCAAAA-GGAATAT-TCTAAGGAT
** *
13057562 ACT-TTAAAAAGGGATATTTGTAAGGATACCAAT
64 ACTATTAAAAAGGGATATCCGCAAGGATACCAAT
13057595 TAAAGAGGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
110 4 0.05
111 68 0.83
112 10 0.12
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (111 bp):
GTAAGGATACTATTGAAAAGGGATATCCAAAAAGATATCAATCAAAAGGAATATTCTAAGGATAC
TATTAAAAAGGGATATCCGCAAGGATACCAATGAAAAGGAATACCC
Found at i:13058073 original size:21 final size:21
Alignment explanation
Indices: 13058035--13058074 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13058025 AACCTTGATC
*
13058035 TATTGAATATGTATTTATGCT
1 TATTGAATATGTACTTATGCT
13058056 TATTGAACTATG-ACTTATG
1 TATTGAA-TATGTACTTATG
13058075 TAGGTGATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.47
Consensus pattern (21 bp):
TATTGAATATGTACTTATGCT
Found at i:13065575 original size:20 final size:20
Alignment explanation
Indices: 13065525--13065575 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
13065515 ACGAATATCA
*
13065525 ATTTT-ATTTTAATAAGTTT
1 ATTTTGATTTTTATAAGTTT
* *
13065544 ATATTGAATTTTATAA-TTAT
1 ATTTTGATTTTTATAAGTT-T
13065564 ATTTTGATTTTT
1 ATTTTGATTTTT
13065576 CAAACAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (20 bp):
ATTTTGATTTTTATAAGTTT
Found at i:13066962 original size:29 final size:30
Alignment explanation
Indices: 13066900--13066956 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13066890 AATTTACGAT
*
13066900 AATTAAATTAAATCAAAATTTCATGTATAA
1 AATTAAATAAAATCAAAATTTCATGTATAA
* *
13066930 AATTACATAAAATCAAAGTTT-ATGTAT
1 AATTAAATAAAATCAAAATTTCATGTAT
13066957 GCAATTGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (30 bp):
AATTAAATAAAATCAAAATTTCATGTATAA
Found at i:13069269 original size:15 final size:15
Alignment explanation
Indices: 13069249--13069298 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
13069239 AATTTTATAA
13069249 TTAATTGTATATATT
1 TTAATTGTATATATT
13069264 TTAATTAG-A-A-ATT
1 TTAATT-GTATATATT
*
13069277 TTAATTTTTATATATT
1 TTAA-TTGTATATATT
13069293 TTAATT
1 TTAATT
13069299 AGAATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 7 0.24
14 4 0.14
15 10 0.34
16 8 0.28
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (15 bp):
TTAATTGTATATATT
Found at i:13069527 original size:10 final size:10
Alignment explanation
Indices: 13069512--13069547 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
13069502 TTTTGACACG
13069512 TATTTTTTTA
1 TATTTTTTTA
13069522 TATTTTTTTA
1 TATTTTTTTA
*
13069532 TTATTTTTATA
1 -TATTTTTTTA
13069543 TATTT
1 TATTT
13069548 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TATTTTTTTA
Found at i:13069681 original size:27 final size:27
Alignment explanation
Indices: 13069642--13069698 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
13069632 AAATACCTGA
* *
13069642 CACCAGTGGAGGAACACCAAGTGGCGG
1 CACCAATGAAGGAACACCAAGTGGCGG
* *
13069669 CACCAATGAAGGAATATCAAGTGGCGG
1 CACCAATGAAGGAACACCAAGTGGCGG
13069696 CAC
1 CAC
13069699 TAAGGGGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.32, T:0.11
Consensus pattern (27 bp):
CACCAATGAAGGAACACCAAGTGGCGG
Found at i:13069877 original size:4 final size:4
Alignment explanation
Indices: 13069868--13069931 Score: 58
Period size: 4 Copynumber: 15.2 Consensus size: 4
13069858 AAATAAACGG
* *
13069868 GAAA GAAA GAAA GAAA GGAGAG GAAA GAAA GAAA GGAGAG GAAA GAAA
1 GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA -GA-AA GAAA GAAA
*
13069916 G-AA GAAG GAAA GAAA G
1 GAAA GAAA GAAA GAAA G
13069932 GTAATGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
3 3 0.06
4 36 0.73
5 8 0.16
6 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:13069895 original size:18 final size:18
Alignment explanation
Indices: 13069872--13069931 Score: 99
Period size: 18 Copynumber: 3.5 Consensus size: 18
13069862 AAACGGGAAA
13069872 GAAAGAAAGAAAGGAGAG
1 GAAAGAAAGAAAGGAGAG
13069890 GAAAGAAAGAAAGGAGAG
1 GAAAGAAAGAAAGGAGAG
13069908 GAAAGAAAG-AA-GA-AG
1 GAAAGAAAGAAAGGAGAG
13069923 GAAAGAAAG
1 GAAAGAAAG
13069932 GTAATGTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
15 11 0.26
16 2 0.05
17 2 0.05
18 27 0.64
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAAAGGAGAG
Found at i:13073194 original size:21 final size:20
Alignment explanation
Indices: 13073161--13073207 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
13073151 TTAGGGTCCA
*
13073161 ATTGTCCCGGAGGAGTAGAGT
1 ATTG-CCCGGAGGAGTAAAGT
13073182 ATTGCCCGAGAGGAGTAAAGT
1 ATTGCCCG-GAGGAGTAAAGT
13073203 ATTGC
1 ATTGC
13073208 GATGGCTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (20 bp):
ATTGCCCGGAGGAGTAAAGT
Found at i:13074730 original size:94 final size:94
Alignment explanation
Indices: 13074569--13075120 Score: 916
Period size: 94 Copynumber: 5.9 Consensus size: 94
13074559 CACCATTGTT
* *
13074569 ATTATTAAATTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTACTAACAACAA
1 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTATTACTACTACTAACAACAA
13074634 AATAAAATTACTAACTAATTTTTTTAAAC
66 AATAAAATTACTAACTAATTTTTTTAAAC
13074663 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTATTACTACTACTAACAACAA
1 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTATTACTACTACTAACAACAA
13074728 AATAAAATTACTAACTAATTTTTTTAAAC
66 AATAAAATTACTAACTAATTTTTTTAAAC
* * *
13074757 ATTATTAAATTTTAATTCAATAAATATGAATAATGTTTTTTACTTACTACTACTACTAACAACAA
1 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTATTACTACTACTAACAACAA
***
13074822 AATAAAATTACTAACTAGCA-AAATTTAAAC
66 AATAAAATTACTAACTA--ATTTTTTTAAAC
13074852 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTATTACTACTACTAACAACAA
1 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTATTACTACTACTAACAACAA
13074917 AATAAAATTACTAACTAATTTTTTTAAAC
66 AATAAAATTACTAACTAATTTTTTTAAAC
13074946 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTACTTACTACTACTAACAACA
1 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTA-TTACTACTACTAACAACA
***
13075011 AAATAAAATTACTAACTAGCA-AAATTTAAAC
65 AAATAAAATTACTAACTA--ATTTTTTTAAAC
13075042 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTAC---TTACTACTACTAACAACAA
1 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTATTACTACTACTAACAACAA
*
13075104 AATTAAATTACTAACTA
66 AATAAAATTACTAACTA
13075121 GCAAAATTAA
Statistics
Matches: 434, Mismatches: 18, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
92 35 0.08
93 1 0.00
94 224 0.52
95 122 0.28
96 51 0.12
97 1 0.00
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (94 bp):
ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTATTACTACTACTAACAACAA
AATAAAATTACTAACTAATTTTTTTAAAC
Found at i:13074920 original size:189 final size:189
Alignment explanation
Indices: 13074569--13075120 Score: 988
Period size: 189 Copynumber: 2.9 Consensus size: 189
13074559 CACCATTGTT
*
13074569 ATTATTAAATTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTACTAACAACAA
1 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTACTACTACTACTAACAACAA
***
13074634 AATAAAATTACTAACTA--ATTTTTTTAAACATTATTAAATTTTAAATCAATAAATATGAACAAT
66 AATAAAATTACTAACTAGCA-AAATTTAAACATTATTAAATTTTAAATCAATAAATATGAACAAT
13074697 GTTTTTTACTTATTACTACTACTAACAACAAAATAAAATTACTAACTAATTTTTTTAAAC
130 GTTTTTTACTTATTACTACTACTAACAACAAAATAAAATTACTAACTAATTTTTTTAAAC
* *
13074757 ATTATTAAATTTTAATTCAATAAATATGAATAATGTTTTTTACTTACTACTACTACTAACAACAA
1 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTACTACTACTACTAACAACAA
13074822 AATAAAATTACTAACTAGCAAAATTTAAACATTATTAAATTTTAAATCAATAAATATGAACAATG
66 AATAAAATTACTAACTAGCAAAATTTAAACATTATTAAATTTTAAATCAATAAATATGAACAATG
13074887 TTTTTTACTTATTACTACTACTAACAACAAAATAAAATTACTAACTAATTTTTTTAAAC
131 TTTTTTACTTATTACTACTACTAACAACAAAATAAAATTACTAACTAATTTTTTTAAAC
13074946 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTACTTACTACTACTAACAACA
1 ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTAC-TACTACTACTAACAACA
13075011 AAATAAAATTACTAACTAGCAAAATTTAAACATTATTAAATTTTAAATCAATAAATATGAACAAT
65 AAATAAAATTACTAACTAGCAAAATTTAAACATTATTAAATTTTAAATCAATAAATATGAACAAT
*
13075076 GTTTTTTAC---TTACTACTACTAACAACAAAATTAAATTACTAACTA
130 GTTTTTTACTTATTACTACTACTAACAACAAAATAAAATTACTAACTA
13075121 GCAAAATTAA
Statistics
Matches: 352, Mismatches: 9, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
187 35 0.10
188 79 0.22
189 146 0.41
190 92 0.26
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (189 bp):
ATTATTAAATTTTAAATCAATAAATATGAACAATGTTTTTTACTTACTACTACTACTAACAACAA
AATAAAATTACTAACTAGCAAAATTTAAACATTATTAAATTTTAAATCAATAAATATGAACAATG
TTTTTTACTTATTACTACTACTAACAACAAAATAAAATTACTAACTAATTTTTTTAAAC
Found at i:13075117 original size:20 final size:21
Alignment explanation
Indices: 13075092--13075134 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13075082 TACTTACTAC
13075092 TACTAAC-AACAAAATTAAAT
1 TACTAACTAACAAAATTAAAT
*
13075112 TACTAACTAGCAAAATTAAAT
1 TACTAACTAACAAAATTAAAT
13075133 TA
1 TA
13075135 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (21 bp):
TACTAACTAACAAAATTAAAT
Found at i:13075504 original size:4 final size:4
Alignment explanation
Indices: 13075497--13075540 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
13075487 TTCTTCCTTC
*
13075497 TTCT TTCT TTCT TTCT TTCT TTAT TT-T TT-T TTCT TTCT TT-T TTC
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
13075541 CCTCAATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
3 9 0.24
4 28 0.76
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (4 bp):
TTCT
Found at i:13076303 original size:20 final size:20
Alignment explanation
Indices: 13076278--13076316 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13076268 AATACAAAAA
13076278 AAATTA-AAAGAAAAATATTT
1 AAATTATAAA-AAAAATATTT
13076298 AAATTATAAAAAAAATATT
1 AAATTATAAAAAAAATATT
13076317 AAAACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AAATTATAAAAAAAATATTT
Found at i:13079837 original size:6 final size:6
Alignment explanation
Indices: 13079819--13079926 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
13079809 TTAAATTGAT
* * *
13079819 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAAA TTAAATA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAA-A
* ** *
13079866 TTTAAA TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
13079914 TTTAACA TTTAAA
1 TTTAA-A TTTAAA
13079927 AGTCCAAATG
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 50 0.60
7 21 0.25
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:13079849 original size:17 final size:17
Alignment explanation
Indices: 13079819--13079895 Score: 77
Period size: 17 Copynumber: 4.4 Consensus size: 17
13079809 TTAAATTGAT
13079819 TTTAAATTTA-TTTAAA
1 TTTAAATTTATTTTAAA
*
13079835 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
13079852 TTTAAAATTAAATATTTAAA
1 TTT-AAATT-TAT-TTTAAA
*
13079872 TTT-AATTTGAATTTAAA
1 TTTAAATTT-ATTTTAAA
13079889 TTTAAAT
1 TTTAAAT
13079896 AAAAATTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
16 9 0.18
17 18 0.36
18 12 0.24
19 2 0.04
20 9 0.18
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:13079884 original size:11 final size:11
Alignment explanation
Indices: 13079809--13079895 Score: 61
Period size: 11 Copynumber: 7.5 Consensus size: 11
13079799 GACTTTTGAG
* *
13079809 TTAAATTGATT
1 TTAAATTTAAT
13079820 TTAAATTT-AT
1 TTAAATTTAAT
13079830 TTAAATTTAGAT
1 TTAAATTTA-AT
*
13079842 TT-ATTTTAAAT
1 TTAAATTT-AAT
*
13079853 TTAAAATTAAATAT
1 TT-AAATT-TA-AT
13079867 TTAAATTTAAT
1 TTAAATTTAAT
*
13079878 TTGAATTTAAAT
1 TTAAATTT-AAT
13079890 TTAAAT
1 TTAAAT
13079896 AAAAATTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
10 9 0.15
11 24 0.40
12 14 0.23
13 9 0.15
14 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:13079916 original size:31 final size:30
Alignment explanation
Indices: 13079846--13079926 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
13079836 TTAGATTTAT
* * *
13079846 TTTAAATTTAAAATTAAATATTTAAATTTAA
1 TTTAAATTTAAATTTAAATA-TAAAATTAAA
*
13079877 TTTGAATTTAAATTTAAATA-AAAATTAAAA
1 TTTAAATTTAAATTTAAATATAAAATT-AAA
13079907 TATTAAATTTAACATTTAAA
1 T-TTAAATTTAA-ATTTAAA
13079927 AGTCCAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 5 0.12
30 3 0.07
31 27 0.64
32 7 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (30 bp):
TTTAAATTTAAATTTAAATATAAAATTAAA
Found at i:13079974 original size:14 final size:14
Alignment explanation
Indices: 13079955--13079988 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13079945 CATGGCCCAC
*
13079955 GGCCCAATTACAAT
1 GGCCCAATTACAAA
13079969 GGCCCAATTACAAA
1 GGCCCAATTACAAA
13079983 GGCCCA
1 GGCCCA
13079989 TTTTTCGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:13081623 original size:161 final size:163
Alignment explanation
Indices: 13081448--13081760 Score: 488
Period size: 162 Copynumber: 1.9 Consensus size: 163
13081438 TTTATAATTT
* *
13081448 AGTCCTTTGACTGTTTGACTGTACCATAGACTGCCACGTGTCA-CTTTTTGGATCATTTCTGCAT
1 AGTCCTTTGACTGTTTGACTGCACCAGAGACTGCCACGTGTCATCTTTTTGGATCATTTCTGCAT
* *
13081512 TTAGTACTTTTTATTTTTTATTTGTTTTAATTTAATCC-CAAATCAAC-TTTATTTTAATTACGA
66 TTAGTACTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTA-TTTAATTACAA
*
13081575 AATTGGCCCAATAATTTTTCAAGGTTTATAAACC
130 AATTGGCCCAAAAATTTTTCAAGGTTTATAAACC
* * *
13081609 AGTCCTTTGACTGTTTGACTGCACCAGAGATTGCCACGTGTCATCTTTTTGGATTATTTCTGTAT
1 AGTCCTTTGACTGTTTGACTGCACCAGAGACTGCCACGTGTCATCTTTTTGGATCATTTCTGCAT
* * *
13081674 TTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTTAAATCGACTTTTATTTAATTACAAA
66 TTAGTACTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAA
*
13081739 ATTGGTCCAAAAATTTTTCAAG
131 ATTGGCCCAAAAATTTTTCAAG
13081761 ATTTTCAAAT
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
161 40 0.29
162 55 0.40
163 38 0.28
164 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (163 bp):
AGTCCTTTGACTGTTTGACTGCACCAGAGACTGCCACGTGTCATCTTTTTGGATCATTTCTGCAT
TTAGTACTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAA
ATTGGCCCAAAAATTTTTCAAGGTTTATAAACC
Found at i:13096817 original size:68 final size:68
Alignment explanation
Indices: 13096703--13097551 Score: 1351
Period size: 68 Copynumber: 12.4 Consensus size: 68
13096693 TTTTCTGCAG
13096703 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
13096768 TAA
66 TAA
*
13096771 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
13096836 TAA
66 TAA
* * * * *
13096839 GAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAATTGAA
1 G-AGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAA
13096904 GTAA
65 GTAA
*
13096908 GAGTAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
13096973 TAA
66 TAA
13096976 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
13097041 TAA
66 TAA
* * * * *
13097044 GAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAATTGAA
1 G-AGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAA
13097109 GTAA
65 GTAA
*
13097113 GAGTAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
13097178 TAA
66 TAA
* * *
13097181 GAACAACGTCATCCCCTTGAAATTAAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
13097246 TAA
66 TAA
* * * * *
13097249 GAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAATTGAA
1 G-AGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAA
13097314 GT-A
65 GTAA
*
13097317 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
13097382 TAA
66 TAA
* *
13097385 GAACAACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAA
1 GAGCAACGTCATTCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAA
13097450 GTAA
65 GTAA
* * * * * *
13097454 GAAGCAACGTCATCCCCTCGAAATTGAAGTAAAGTGGATAACACATCTTTACCTCTGAAATTGAA
1 G-AGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAA
13097519 GTAA
65 GTAA
*
13097523 GAGCAACGTCA-TCCTCTTGGAATTGAAGT
1 GAGCAACGTCATTCC-CTTGAAATTGAAGT
13097552 GAAGTTGGAC
Statistics
Matches: 723, Mismatches: 51, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
67 63 0.09
68 362 0.50
69 284 0.39
70 14 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (68 bp):
GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
TAA
Found at i:13097059 original size:205 final size:205
Alignment explanation
Indices: 13096703--13097551 Score: 1567
Period size: 205 Copynumber: 4.1 Consensus size: 205
13096693 TTTTCTGCAG
13096703 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
* * *
13096768 TAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTG
66 TAAGAACAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTG
13096833 AAGTAAGAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAA
131 AAGTAAGAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAA
13096898 ATTGAAGTAA
196 ATTGAAGTAA
*
13096908 GAGTAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
* *
13096973 TAAGAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTG
66 TAAGAACAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTG
13097038 AAGTAAGAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAA
131 AAGTAAGAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAA
13097103 ATTGAAGTAA
196 ATTGAAGTAA
*
13097113 GAGTAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
*
13097178 TAAGAACAACGTCATCCCCTTGAAATTAAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTG
66 TAAGAACAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTG
13097243 AAGTAAGAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAA
131 AAGTAAGAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAA
13097308 ATTGAAGT-A
196 ATTGAAGTAA
*
13097317 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAG
1 GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
13097382 TAAGAACAACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATT
66 TAAGAACAACGTCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATT
*
13097447 GAAGTAAGAAGCAACGTCATCCCCTCGAAATTGAAGTAAAGTGGATAACACATCTTTACCTCTGA
130 GAAGTAAGAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGA
13097512 AATTGAAGTAA
195 AATTGAAGTAA
*
13097523 GAGCAACGTCA-TCCTCTTGGAATTGAAGT
1 GAGCAACGTCATTCC-CTTGAAATTGAAGT
13097552 GAAGTTGGAC
Statistics
Matches: 631, Mismatches: 10, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
204 83 0.13
205 523 0.83
206 25 0.04
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (205 bp):
GAGCAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
TAAGAACAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTG
AAGTAAGAAGCAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAA
ATTGAAGTAA
Found at i:13097846 original size:31 final size:31
Alignment explanation
Indices: 13097805--13097867 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
13097795 TTGATTTTAA
* *
13097805 ATTTAGATTTATTTTAAATTTAAAATTAAAT
1 ATTTAAATTTAATTTAAATTTAAAATTAAAT
* *
13097836 ATTTAAATTTAATTTGAATTTAAATTTAAAT
1 ATTTAAATTTAATTTAAATTTAAAATTAAAT
13097867 A
1 A
13097868 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (31 bp):
ATTTAAATTTAATTTAAATTTAAAATTAAAT
Found at i:13097855 original size:11 final size:11
Alignment explanation
Indices: 13097804--13097866 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
13097794 ATTGATTTTA
*
13097804 AATTTAGATTT
1 AATTTAAATTT
*
13097815 ATTTTAAATTT
1 AATTTAAATTT
*
13097826 AAAATTAAA--T
1 -AATTTAAATTT
13097836 -ATTTAAATTT
1 AATTTAAATTT
*
13097846 AATTTGAATTT
1 AATTTAAATTT
13097857 AAATTTAAAT
1 -AATTTAAAT
13097867 AAAAATTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
8 6 0.15
10 2 0.05
11 18 0.45
12 14 0.35
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:13097864 original size:17 final size:17
Alignment explanation
Indices: 13097790--13097864 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
13097780 GACTTTTGAG
* *
13097790 TTAAATTGATTTTAAAT
1 TTAATTTGAATTTAAAT
*
13097807 TTAGATTT-ATTTTAAAT
1 TTA-ATTTGAATTTAAAT
**
13097824 TTAAAATTAAATATTTAAAT
1 TT--AATTTGA-ATTTAAAT
13097844 TTAATTTGAATTTAAAT
1 TTAATTTGAATTTAAAT
13097861 TTAA
1 TTAA
13097865 ATAAAAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
17 26 0.54
18 11 0.23
19 2 0.04
20 9 0.19
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
TTAATTTGAATTTAAAT
Found at i:13097887 original size:31 final size:30
Alignment explanation
Indices: 13097817--13097897 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
13097807 TTAGATTTAT
* * *
13097817 TTTAAATTTAAAATTAAATATTTAAATTTAA
1 TTTAAATTTAAATTTAAATA-TAAAATTAAA
*
13097848 TTTGAATTTAAATTTAAATA-AAAATTAAAA
1 TTTAAATTTAAATTTAAATATAAAATT-AAA
13097878 TATTAAATTTAACATTTAAA
1 T-TTAAATTTAA-ATTTAAA
13097898 AGTCCAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 5 0.12
30 3 0.07
31 27 0.64
32 7 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (30 bp):
TTTAAATTTAAATTTAAATATAAAATTAAA
Found at i:13097894 original size:7 final size:6
Alignment explanation
Indices: 13097800--13097897 Score: 83
Period size: 6 Copynumber: 16.0 Consensus size: 6
13097790 TTAAATTGAT
* * *
13097800 TTTAAA TTTAGA TTT-AT TTTAAA TTTAAAA TTAAATA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAA-A TTTAAA TTTAAA
* ** *
13097848 TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A TTTAAA
13097898 AGTCCAAATG
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
5 8 0.11
6 46 0.61
7 21 0.28
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:13097953 original size:14 final size:14
Alignment explanation
Indices: 13097934--13097967 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13097924 CATGGCCCAC
*
13097934 GGCCCAATTACAAT
1 GGCCCAATTACAAA
13097948 GGCCCAATTACAAA
1 GGCCCAATTACAAA
13097962 GGCCCA
1 GGCCCA
13097968 TTTTTCGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:13099598 original size:161 final size:163
Alignment explanation
Indices: 13099423--13099735 Score: 481
Period size: 162 Copynumber: 1.9 Consensus size: 163
13099413 TTTATAATTT
* *
13099423 AGTCCTTTGACTGTTTGACTGTACCATAGACTGCCACGTGTCA-CTTTTTGGATCATTTCTGCAT
1 AGTCCTTTGACTGTTTGACTGCACCAGAGACTGCCACGTGTCATCTTTTTGGATCATTTCTGCAT
* * *
13099487 TTAGTCCTTTTTATTTTTTATTTGTTTTAATTTAATCC-CAAATCAAC-TTTATTTTAATTACGA
66 TTAGTCCTTTTTATTTTTAATTTATTTTAATTTAATCCTCAAATCAACTTTTA-TTTAATTACAA
13099550 AATTGGCCCAATAA-TTTTTCAAGGTTTATAAACC
130 AATTGGCCCAA-AATTTTTTCAAGGTTTATAAACC
* * *
13099584 AGTCCTTTGACTGTTTGACTGCACCAGAGATTGCCACGTGTCATCTTTTTGGATTATTTCTGTAT
1 AGTCCTTTGACTGTTTGACTGCACCAGAGACTGCCACGTGTCATCTTTTTGGATCATTTCTGCAT
* *
13099649 TTAGTCCTTTTTATTTTTAATTTATTTTAATTTAATCCTTAAATCGACTTTTATTTAATTACAAA
66 TTAGTCCTTTTTATTTTTAATTTATTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAA
*
13099714 ATTGGTCCAAAATTTTTTCAAG
131 ATTGGCCCAAAATTTTTTCAAG
13099736 ATTTTCAAAT
Statistics
Matches: 137, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
161 40 0.29
162 57 0.42
163 36 0.26
164 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.46
Consensus pattern (163 bp):
AGTCCTTTGACTGTTTGACTGCACCAGAGACTGCCACGTGTCATCTTTTTGGATCATTTCTGCAT
TTAGTCCTTTTTATTTTTAATTTATTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAA
ATTGGCCCAAAATTTTTTCAAGGTTTATAAACC
Found at i:13099867 original size:30 final size:28
Alignment explanation
Indices: 13099833--13099933 Score: 130
Period size: 30 Copynumber: 3.4 Consensus size: 28
13099823 AATTGTCTAG
*
13099833 AAATTACATTTTGACCCTAAAATTTTCCCA
1 AAATTACATTTTGACCC-AAAACTTT-CCA
*
13099863 AAATTACATTTTGAACCCGAAACTTTACCA
1 AAATTACATTTTG-ACCCAAAACTTT-CCA
*
13099893 AAATTACGTTTTGACCCCAAAACTTTCCA
1 AAATTACATTTTGA-CCCAAAACTTTCCA
13099922 AAATTACATTTT
1 AAATTACATTTT
13099934 TAACCCCGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
29 15 0.24
30 44 0.70
31 4 0.06
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (28 bp):
AAATTACATTTTGACCCAAAACTTTCCA
Found at i:13099955 original size:59 final size:59
Alignment explanation
Indices: 13099907--13100200 Score: 419
Period size: 59 Copynumber: 5.0 Consensus size: 59
13099897 TACGTTTTGA
* * *
13099907 CCCCAAAACTTTCCAAAATTACATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
1 CCCCAAATCTTT-TAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* * * * *
13099967 CCTCGAATCTCTTAAAATTCCGTTTTTAACCCTGATTTCACCAAAAATTACCATTTTAC
1 CCCCAAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* * *
13100026 CCCCGAATCTTTTAAAATT-CAGTTTTTAACCTCGATTTCATCAAAAATTACCATTTTAC
1 CCCCAAATCTTTTAAAATTCCA-TTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* * *
13100085 CCCCAAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTAC
1 CCCCAAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* *
13100144 CCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTT
1 CCCCAAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTT
13100201 TAATCCCGAT
Statistics
Matches: 207, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
58 1 0.00
59 196 0.95
60 10 0.05
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.36
Consensus pattern (59 bp):
CCCCAAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
Found at i:13100256 original size:89 final size:88
Alignment explanation
Indices: 13099921--13100271 Score: 216
Period size: 89 Copynumber: 4.0 Consensus size: 88
13099911 AAAACTTTCC
* * * * * *
13099921 AAAATTACATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAATCTCTTAAAATT
1 AAAATTCCATTTTTAACCCCGATTACACCGAAAATTACCATTTTACCCCCGAATCTCATAAAATC
* *
13099986 CCGTTTTTAACCCTGATTTCACCA
66 CCATTTTCAACCC-GATTTCACCA
* * **** * * *
13100010 AAAATTACCA-TTTTACCCCCGAAT-CTTTTAAAATT--CAGTTTTTAACCTCG-ATTTCATCAA
1 AAAATT-CCATTTTTAACCCCGATTACACCGAAAATTACCA--TTTTACCCCCGAATCTCAT--A
* * * *** ** *
13100070 AAATTACCATTTT-ACCCCCAAAGCTTCT
61 AAA-TCCCATTTTCAACCCGATTTCACCA
* ** *
13100098 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTTAAAATT
1 AAAATTCCATTTTTAACCCCGATTACACCGAAAATTACCATTTTACCCCCGAATCTCATAAAATC
*
13100163 CCATTTTTAACCCTGATTTCACCA
66 CCATTTTCAACCC-GATTTCACCA
* * *
13100187 AAAATTACCATTTTTAATCCCGATTACACC-AAAATTACCATTTTGCCCCCGGGTATC-CAT-AA
1 AAAATT-CCATTTTTAACCCCGATTACACCGAAAATTACCATTTTACCCCC--GAATCTCATAAA
* *
13100249 GTCCCATTTTCATCCCGATTTCA
63 ATCCCATTTTCAACCCGATTTCA
13100272 TCATTTGTCA
Statistics
Matches: 196, Mismatches: 50, Indels: 33
0.70 0.18 0.12
Matches are distributed among these distances:
86 2 0.01
87 16 0.08
88 53 0.27
89 84 0.43
90 35 0.18
91 6 0.03
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (88 bp):
AAAATTCCATTTTTAACCCCGATTACACCGAAAATTACCATTTTACCCCCGAATCTCATAAAATC
CCATTTTCAACCCGATTTCACCA
Found at i:13101574 original size:30 final size:30
Alignment explanation
Indices: 13101527--13101592 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
13101517 GTTAATGTTA
* **
13101527 ATGAAGAATGGACAGAATCTGATGGTGGTG
1 ATGAAGAATGGAAAGAATCTGATAATGGTG
* * *
13101557 ATGAAGAATGTAAAGAATTTGGTAATGGTG
1 ATGAAGAATGGAAAGAATCTGATAATGGTG
13101587 ATGAAG
1 ATGAAG
13101593 GAGGAATAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.26
Consensus pattern (30 bp):
ATGAAGAATGGAAAGAATCTGATAATGGTG
Found at i:13105344 original size:16 final size:18
Alignment explanation
Indices: 13105323--13105356 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13105313 AATTGAAAAG
13105323 TAAATT-AA-GAGGAATT
1 TAAATTAAAGGAGGAATT
13105339 TAAATTAAAGGAGGAATT
1 TAAATTAAAGGAGGAATT
13105357 AGAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TAAATTAAAGGAGGAATT
Found at i:13107051 original size:19 final size:19
Alignment explanation
Indices: 13107002--13107054 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
13106992 AATTTATTTA
13107002 TTAGAATTTTT-TGAAGTTG
1 TTAGAATTTTTAT-AAGTTG
* *
13107021 TT-GTATTATTTATAAGTTT
1 TTAGAATT-TTTATAAGTTG
13107040 TTAGAATTTTTATAA
1 TTAGAATTTTTATAA
13107055 AATTTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.14
19 19 0.68
20 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (19 bp):
TTAGAATTTTTATAAGTTG
Found at i:13108205 original size:15 final size:16
Alignment explanation
Indices: 13108174--13108214 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
13108164 ATAATAAATA
*
13108174 TATAATTATATTATTTT
1 TATAATTTTA-TATTTT
13108191 TAT-ATTTTATATTTT
1 TATAATTTTATATTTT
13108206 TATAATTTT
1 TATAATTTT
13108215 TAAAAGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 9 0.41
16 10 0.45
17 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATAATTTTATATTTT
Found at i:13109672 original size:18 final size:21
Alignment explanation
Indices: 13109641--13109683 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
13109631 AAAGAAACTC
*
13109641 AAATAATTT-TTAAAATT-TA
1 AAATAATTTATAAAAATTCTA
13109660 AAAT-ATTTATAAAAATTCTA
1 AAATAATTTATAAAAATTCTA
13109680 AAAT
1 AAAT
13109684 TTATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 11 0.52
20 6 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAATTTATAAAAATTCTA
Found at i:13109738 original size:22 final size:21
Alignment explanation
Indices: 13109691--13109746 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
13109681 AATTTATTTT
* *
13109691 TAAAAAAATTATAAAAAGTTA
1 TAAAGAAATTATAAAAAATTA
* *
13109712 AAAAGAAATTCTAAAAAATATA
1 TAAAGAAATTATAAAAAAT-TA
13109734 TAAAGAAAATTAT
1 TAAAG-AAATTAT
13109747 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 15 0.56
22 6 0.22
23 6 0.22
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (21 bp):
TAAAGAAATTATAAAAAATTA
Found at i:13111018 original size:7 final size:7
Alignment explanation
Indices: 13111006--13111076 Score: 142
Period size: 7 Copynumber: 10.1 Consensus size: 7
13110996 ATGATTATTG
13111006 CTCACCA
1 CTCACCA
13111013 CTCACCA
1 CTCACCA
13111020 CTCACCA
1 CTCACCA
13111027 CTCACCA
1 CTCACCA
13111034 CTCACCA
1 CTCACCA
13111041 CTCACCA
1 CTCACCA
13111048 CTCACCA
1 CTCACCA
13111055 CTCACCA
1 CTCACCA
13111062 CTCACCA
1 CTCACCA
13111069 CTCACCA
1 CTCACCA
13111076 C
1 C
13111077 CTTTTAATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 64 1.00
ACGTcount: A:0.28, C:0.58, G:0.00, T:0.14
Consensus pattern (7 bp):
CTCACCA
Found at i:13112464 original size:31 final size:31
Alignment explanation
Indices: 13112429--13112491 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 31
13112419 CCTAGAGCTT
13112429 AGGCCCCAATATCAA-AAC-AGTCGTCAAGTTC
1 AGGCCCCAATAT-AAGAACTAGT-GTCAAGTTC
13112460 AGGCCCCAATATAAGAACTAGTGTCAAGTTC
1 AGGCCCCAATATAAGAACTAGTGTCAAGTTC
13112491 A
1 A
13112492 AGGATTAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 2 0.07
31 25 0.83
32 3 0.10
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (31 bp):
AGGCCCCAATATAAGAACTAGTGTCAAGTTC
Found at i:13116452 original size:112 final size:112
Alignment explanation
Indices: 13116255--13116484 Score: 352
Period size: 112 Copynumber: 2.1 Consensus size: 112
13116245 CTTTTGTAAA
* * * * * *
13116255 TTACTTGCTTGTTGATGCTCCCATCATTTTCTGAATGTGAATAACTCAGTTTTTAGAAGCTTCTT
1 TTACTTGCTTGTTGATGCTCCCAGCATCTCCTGAATGTGAATAACTCAATTCTTACAAGCTTCTT
* * * *
13116320 TGAATGTCAATTTGTTCTCTATTTCTGTTTCAATTCTTATTTTATGG
66 TGAATGGCAATTTGTTCTCTATTTCTATTTCAATTCTTACTCTATGG
13116367 TTACTTGCTTGTTGATGCTCCCAGCATCTCCTGAATGTGAATAACTCAATTCTTACAAGCTTCTT
1 TTACTTGCTTGTTGATGCTCCCAGCATCTCCTGAATGTGAATAACTCAATTCTTACAAGCTTCTT
* *
13116432 TGAATGGCAGTTTGTTCTCTATTTCTATTTCATTTCTTACTCTATGG
66 TGAATGGCAATTTGTTCTCTATTTCTATTTCAATTCTTACTCTATGG
13116479 TTACTT
1 TTACTT
13116485 CAACAATTGG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (112 bp):
TTACTTGCTTGTTGATGCTCCCAGCATCTCCTGAATGTGAATAACTCAATTCTTACAAGCTTCTT
TGAATGGCAATTTGTTCTCTATTTCTATTTCAATTCTTACTCTATGG
Found at i:13127107 original size:64 final size:64
Alignment explanation
Indices: 13127005--13127129 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 64
13126995 TATCAGTGTT
* * * *
13127005 TTTAAATTTTTTTACATATATATTTATAGTTTCATTTTTAGTTTTTTAATAAATTATATATACA
1 TTTAAATATTTTTACATAGATATTTATAGTTTAATTTTTAGTTTCTTAATAAATTATATATACA
* *
13127069 TTTAAATATTTTT-CATAGATCTTTATTGTTTAACTTTTTAGTTTCTTAATAAATTATATAT
1 TTTAAATATTTTTACATAGATATTTATAGTTTAA-TTTTTAGTTTCTTAATAAATTATATAT
13127130 TATTTTGATA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 16 0.30
64 38 0.70
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (64 bp):
TTTAAATATTTTTACATAGATATTTATAGTTTAATTTTTAGTTTCTTAATAAATTATATATACA
Found at i:13127996 original size:20 final size:20
Alignment explanation
Indices: 13127971--13128012 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13127961 TAATTCTGTA
13127971 TATTTATATGATATGAT-TAC
1 TATTTATA-GATATGATATAC
*
13127991 TATTTATAGATGTGATATAC
1 TATTTATAGATATGATATAC
13128011 TA
1 TA
13128013 GGTAGGTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (20 bp):
TATTTATAGATATGATATAC
Found at i:13130468 original size:15 final size:15
Alignment explanation
Indices: 13130450--13130480 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13130440 CTCTTTATCA
13130450 TTTTT-CCTTTCTTT
1 TTTTTCCCTTTCTTT
13130464 TTTTTCCCTTTCTTT
1 TTTTTCCCTTTCTTT
13130479 TT
1 TT
13130481 CCATTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTCCCTTTCTTT
Found at i:13137439 original size:23 final size:22
Alignment explanation
Indices: 13137413--13137550 Score: 118
Period size: 23 Copynumber: 5.9 Consensus size: 22
13137403 TTACCGTTCA
*
13137413 GCACTGTGTGTGCTTACTGTTTC
1 GCACT-TGTGTGCCTACTGTTTC
13137436 GCACTTTGTGTGCCTACTGTTTC
1 GCAC-TTGTGTGCCTACTGTTTC
13137459 GCACTTCGTGTGCCTACTGATTT-
1 GCACTT-GTGTGCCTACTG-TTTC
* * *
13137482 GCGCTATGTGCGCCTACTGATT-
1 GCACT-TGTGTGCCTACTGTTTC
*
13137504 GCACTGTGTGTGCTTACTGTTTTCCC
1 GCACT-TGTGTGCCTACTG-TTT--C
*
13137530 AGCACTTGTGTGCTTACTGTT
1 -GCACTTGTGTGCCTACTGTT
13137551 AAGTACTTCG
Statistics
Matches: 97, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
22 19 0.20
23 53 0.55
24 5 0.05
25 2 0.02
26 13 0.13
27 5 0.05
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.41
Consensus pattern (22 bp):
GCACTTGTGTGCCTACTGTTTC
Found at i:13137497 original size:46 final size:45
Alignment explanation
Indices: 13137413--13137525 Score: 140
Period size: 46 Copynumber: 2.5 Consensus size: 45
13137403 TTACCGTTCA
* * *
13137413 GCACTGTGTGTGCTTACTGTTTCGCACTTTGTGTGCCTACTGTTT
1 GCACTGTGTGTGCTTACTGTTTCGCACTATGTGCGCCTACTGATT
* *
13137458 CGCACT-TCGTGTGCCTACTGATTT-GCGCTATGTGCGCCTACTGATT
1 -GCACTGT-GTGTGCTTACTG-TTTCGCACTATGTGCGCCTACTGATT
13137504 GCACTGTGTGTGCTTACTGTTT
1 GCACTGTGTGTGCTTACTGTTT
13137526 TCCCAGCACT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
44 3 0.05
45 17 0.29
46 35 0.60
47 3 0.05
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.41
Consensus pattern (45 bp):
GCACTGTGTGTGCTTACTGTTTCGCACTATGTGCGCCTACTGATT
Found at i:13141966 original size:18 final size:18
Alignment explanation
Indices: 13141943--13141978 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13141933 CTCAGCTCCT
*
13141943 GAGACTGTTCCTCTGCCC
1 GAGACTGGTCCTCTGCCC
13141961 GAGACTGGTCCTCTGCCC
1 GAGACTGGTCCTCTGCCC
13141979 AAAGTCTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.39, G:0.25, T:0.25
Consensus pattern (18 bp):
GAGACTGGTCCTCTGCCC
Found at i:13143403 original size:18 final size:18
Alignment explanation
Indices: 13143380--13143416 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13143370 TCGGCTCCCG
* *
13143380 AGATTGTTCCTTTGCCCA
1 AGATTGCTCCTCTGCCCA
13143398 AGATTGCTCCTCTGCCCA
1 AGATTGCTCCTCTGCCCA
13143416 A
1 A
13143417 AGTCTCCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.32
Consensus pattern (18 bp):
AGATTGCTCCTCTGCCCA
Found at i:13144764 original size:48 final size:48
Alignment explanation
Indices: 13144712--13144803 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
13144702 CTTTGTTTTC
*
13144712 TTTTACTTT-TTGCCTCAAATTTTATTTTGATT-TTAATTTAATCCCTTT
1 TTTTA-TTTCTTGCCTCAAATTTTATTTTG-TTCTTAATTCAATCCCTTT
** *
13144760 TTTTATTTCTTGTTTTAAATTTTATTTTGTTCTTAATTCAATCC
1 TTTTATTTCTTGCCTCAAATTTTATTTTGTTCTTAATTCAATCC
13144804 TCTAATGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 5 0.13
48 33 0.87
ACGTcount: A:0.21, C:0.13, G:0.04, T:0.62
Consensus pattern (48 bp):
TTTTATTTCTTGCCTCAAATTTTATTTTGTTCTTAATTCAATCCCTTT
Found at i:13145206 original size:3 final size:3
Alignment explanation
Indices: 13145198--13145230 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13145188 TCATATCTTG
13145198 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13145231 GTACGCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13149188 original size:44 final size:44
Alignment explanation
Indices: 13149133--13149217 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
13149123 CTTATTAATT
* * * *
13149133 ATTTAACTAAATTATATAGTGTTTATTACAAGTTATTTATAGTA
1 ATTTAACTAAATTATATACTATTTATTACAAATGATTTATAGTA
*
13149177 ATTTAATTAAATTATATACTATTTATTACAAATGATTTATA
1 ATTTAACTAAATTATATACTATTTATTACAAATGATTTATA
13149218 CTTGGCCAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (44 bp):
ATTTAACTAAATTATATACTATTTATTACAAATGATTTATAGTA
Found at i:13149209 original size:21 final size:21
Alignment explanation
Indices: 13149141--13149209 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
13149131 TTATTTAACT
*
13149141 AAATTATATAGTGTTTATTAC
1 AAATTATATAGTATTTATTAC
*
13149162 AAGTTATTTATAGTAATTTAATT--
1 AAATTA--TATAGT-ATTT-ATTAC
*
13149185 AAATTATATACTATTTATTAC
1 AAATTATATAGTATTTATTAC
13149206 AAAT
1 AAAT
13149210 GATTTATACT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
19 3 0.08
20 4 0.11
21 14 0.37
23 11 0.29
24 3 0.08
25 3 0.08
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (21 bp):
AAATTATATAGTATTTATTAC
Found at i:13157535 original size:16 final size:16
Alignment explanation
Indices: 13157495--13157544 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
13157485 ATATTTTCTC
* *
13157495 TTAAAAATCATAAAAAC
1 TTAAAAAT-ATTAAAAT
*
13157512 TTATAAATATTAAAAT
1 TTAAAAATATTAAAAT
13157528 TTAAAAATATTAAAAT
1 TTAAAAATATTAAAAT
13157544 T
1 T
13157545 GATAAAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 22 0.76
17 7 0.24
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAAATATTAAAAT
Found at i:13157571 original size:10 final size:9
Alignment explanation
Indices: 13157496--13157570 Score: 61
Period size: 9 Copynumber: 8.7 Consensus size: 9
13157486 TATTTTCTCT
*
13157496 TAAAAATCA
1 TAAAAATTA
13157505 TAAAAACTTA
1 TAAAAA-TTA
13157515 T--AAA-TA
1 TAAAAATTA
*
13157521 TTAAAATT-
1 TAAAAATTA
13157529 TAAAAA-TA
1 TAAAAATTA
*
13157537 TTAAAATTGA
1 TAAAAATT-A
*
13157547 TAAAACTTA
1 TAAAAATTA
13157556 TAAAAATTA
1 TAAAAATTA
13157565 TAAAAA
1 TAAAAA
13157571 AATCATAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
6 3 0.06
7 1 0.02
8 16 0.30
9 23 0.43
10 10 0.19
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:13157683 original size:17 final size:17
Alignment explanation
Indices: 13157661--13157693 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13157651 ATAAACCTTA
*
13157661 TTTAAAATATTTATAAT
1 TTTAAAAAATTTATAAT
13157678 TTTAAAAAATTTATAA
1 TTTAAAAAATTTATAA
13157694 AAATATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAAAAAATTTATAAT
Found at i:13157702 original size:19 final size:18
Alignment explanation
Indices: 13157675--13157749 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 18
13157665 AAATATTTAT
*
13157675 AATTTTAAAAAATTTATAA
1 AATTATAAAAAATTTA-AA
*
13157694 AAATATAAAAAGATTCTAATA
1 AATTATAAAAA-ATT-TAA-A
* *
13157715 AATTATAAAAAAATTAGA
1 AATTATAAAAAATTTAAA
13157733 AATTATAAAAAAATTTA
1 AATTAT-AAAAAATTTA
13157750 TTTAAACCCC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.15
19 20 0.43
20 6 0.13
21 13 0.28
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (18 bp):
AATTATAAAAAATTTAAA
Found at i:13158716 original size:23 final size:23
Alignment explanation
Indices: 13158650--13158710 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
13158640 GGCAGAAGCA
* **
13158650 TGCCACAAGGCAAAGGAAAAGCG
1 TGCCACAAGACAAAGGAAAAATG
13158673 TGCCACAAGACAAAGGAAAAATG
1 TGCCACAAGACAAAGGAAAAATG
13158696 TGCCACAAAGACAAA
1 TGCCAC-AAGACAAA
13158711 TAAAAACTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 26 0.76
24 8 0.24
ACGTcount: A:0.49, C:0.21, G:0.23, T:0.07
Consensus pattern (23 bp):
TGCCACAAGACAAAGGAAAAATG
Found at i:13159628 original size:31 final size:31
Alignment explanation
Indices: 13159579--13159668 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 31
13159569 TGAAGTCACG
* * *
13159579 TAAAAATAAGAAATATATATAATATATTTC-
1 TAAATATATGAAAAATATATAATATATTTCT
* *
13159609 TAAATATATGGAAAGATATATGATATA-TTCT
1 TAAATATAT-GAAAAATATATAATATATTTCT
13159640 TAAATATATGAAAAATATATAATATATTT
1 TAAATATATGAAAAATATATAATATATTT
13159669 AGATATTCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 25 0.49
31 26 0.51
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (31 bp):
TAAATATATGAAAAATATATAATATATTTCT
Found at i:13169583 original size:9 final size:10
Alignment explanation
Indices: 13169564--13169599 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
13169554 TGCCCTAAAC
13169564 CTTTTTCTTT
1 CTTTTTCTTT
13169574 CTTTTT-TTT
1 CTTTTTCTTT
13169583 CTTTTTCTTT
1 CTTTTTCTTT
13169593 CTTTTTC
1 CTTTTTC
13169600 CCTTGCCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:13170101 original size:21 final size:22
Alignment explanation
Indices: 13170065--13170110 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
13170055 ACCCATTAAG
13170065 CCCAAATCCTATTTAAACCAAA
1 CCCAAATCCTATTTAAACCAAA
*
13170087 CCCAAATTC-ATTTAAACCAAA
1 CCCAAATCCTATTTAAACCAAA
13170108 CCC
1 CCC
13170111 TTTTGAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (22 bp):
CCCAAATCCTATTTAAACCAAA
Found at i:13170186 original size:20 final size:21
Alignment explanation
Indices: 13170161--13170214 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
13170151 AGTCAAACCA
*
13170161 TTGACCGATGTTGACCG-GCG
1 TTGACCGATGTTGACCGACCG
*
13170181 TTGACCGACGTTGACCGACCG
1 TTGACCGATGTTGACCGACCG
*
13170202 TTGACCGGTGTTG
1 TTGACCGATGTTG
13170215 TTTGACCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (21 bp):
TTGACCGATGTTGACCGACCG
Found at i:13170214 original size:10 final size:10
Alignment explanation
Indices: 13170161--13170208 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
13170151 AGTCAAACCA
*
13170161 TTGACCGATG
1 TTGACCGACG
*
13170171 TTGACCGGCG
1 TTGACCGACG
13170181 TTGACCGACG
1 TTGACCGACG
13170191 TTGACCGACCG
1 TTGACCGA-CG
13170202 TTGACCG
1 TTGACCG
13170209 GTGTTGTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.23
Consensus pattern (10 bp):
TTGACCGACG
Found at i:13170269 original size:13 final size:13
Alignment explanation
Indices: 13170215--13170270 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
13170205 ACCGGTGTTG
*
13170215 TTTGACCATTGAC
1 TTTGACCGTTGAC
13170228 TTTGACCGTTGACC
1 TTTGACCGTTGA-C
** *
13170242 ACTGACCGTTAAC
1 TTTGACCGTTGAC
*
13170255 TTTGATCGTTGAC
1 TTTGACCGTTGAC
13170268 TTT
1 TTT
13170271 TTTTCAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
13 24 0.71
14 10 0.29
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (13 bp):
TTTGACCGTTGAC
Found at i:13171321 original size:3 final size:3
Alignment explanation
Indices: 13171313--13171343 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13171303 TAGAATATTC
13171313 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13171344 TTGGGATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13176794 original size:10 final size:10
Alignment explanation
Indices: 13176779--13176815 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
13176769 TGCCCCAAAC
13176779 CTTTTTCTTT
1 CTTTTTCTTT
*
13176789 CTTTTTTTTT
1 CTTTTTCTTT
13176799 CTTTTTCTTT
1 CTTTTTCTTT
13176809 CTTTTTC
1 CTTTTTC
13176816 CCTTGCCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:13177320 original size:21 final size:22
Alignment explanation
Indices: 13177284--13177329 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
13177274 ACCCATTAAG
13177284 CCCAAATCCTATTTAAACCAAA
1 CCCAAATCCTATTTAAACCAAA
*
13177306 CCCAAATTC-ATTTAAACCAAA
1 CCCAAATCCTATTTAAACCAAA
13177327 CCC
1 CCC
13177330 TTTTGAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (22 bp):
CCCAAATCCTATTTAAACCAAA
Found at i:13177393 original size:10 final size:10
Alignment explanation
Indices: 13177380--13177434 Score: 74
Period size: 10 Copynumber: 5.4 Consensus size: 10
13177370 AGTCAAACCA
13177380 TTGACCGACG
1 TTGACCGACG
*
13177390 TTGACCGGCG
1 TTGACCGACG
13177400 TTGACCGACG
1 TTGACCGACG
* *
13177410 TTGACCGGCA
1 TTGACCGACG
13177420 TTGACCGACCG
1 TTGACCGA-CG
13177431 TTGA
1 TTGA
13177435 TCGGTGTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
10 33 0.87
11 5 0.13
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.22
Consensus pattern (10 bp):
TTGACCGACG
Found at i:13177405 original size:20 final size:20
Alignment explanation
Indices: 13177378--13177434 Score: 96
Period size: 20 Copynumber: 2.8 Consensus size: 20
13177368 CAAGTCAAAC
13177378 CATTGACCGACGTTGACCGG
1 CATTGACCGACGTTGACCGG
*
13177398 CGTTGACCGACGTTGACCGG
1 CATTGACCGACGTTGACCGG
13177418 CATTGACCGACCGTTGA
1 CATTGACCGA-CGTTGA
13177435 TCGGTGTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 28 0.82
21 6 0.18
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (20 bp):
CATTGACCGACGTTGACCGG
Found at i:13177462 original size:13 final size:13
Alignment explanation
Indices: 13177444--13177572 Score: 135
Period size: 13 Copynumber: 10.2 Consensus size: 13
13177434 ATCGGTGTTG
13177444 TTTGACCGTTGAC
1 TTTGACCGTTGAC
13177457 TTTGACCGTTGAC
1 TTTGACCGTTGAC
*
13177470 TTTGACCTTTGACC
1 TTTGACCGTTGA-C
**
13177484 ACTGACCGTTGAC
1 TTTGACCGTTGAC
*
13177497 TTTGACAGTTG--
1 TTTGACCGTTGAC
13177508 --T--CCGTTGAC
1 TTTGACCGTTGAC
13177517 TTTGACCGTTGACC
1 TTTGACCGTTGA-C
**
13177531 ACTGACCGTTGAC
1 TTTGACCGTTGAC
13177544 TTTGACCGTTGAC
1 TTTGACCGTTGAC
*
13177557 TTTGATCGTTGAC
1 TTTGACCGTTGAC
13177570 TTT
1 TTT
13177573 TTTTCAAAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
7 5 0.05
9 1 0.01
11 1 0.01
13 67 0.71
14 21 0.22
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (13 bp):
TTTGACCGTTGAC
Found at i:13177492 original size:40 final size:40
Alignment explanation
Indices: 13177446--13177569 Score: 167
Period size: 47 Copynumber: 2.9 Consensus size: 40
13177436 CGGTGTTGTT
*
13177446 TGACCGTTGACTTTGACCGTTGACTTTGACCTTTGACCAC
1 TGACCGTTGACTTTGACCGTTGACTTTGACCGTTGACCAC
13177486 TGACCGTTGACTTTGACAGTTGTCCGTTGACTTTGACCGTTGACCAC
1 TGACCGTTGACTTTG--A-----CCGTTGACTTTGACCGTTGACCAC
*
13177533 TGACCGTTGACTTTGACCGTTGACTTTGATCGTTGAC
1 TGACCGTTGACTTTGACCGTTGACTTTGACCGTTGAC
13177570 TTTTTTTCAA
Statistics
Matches: 75, Mismatches: 2, Indels: 14
0.82 0.02 0.15
Matches are distributed among these distances:
40 35 0.47
42 1 0.01
45 1 0.01
47 38 0.51
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (40 bp):
TGACCGTTGACTTTGACCGTTGACTTTGACCGTTGACCAC
Found at i:13177497 original size:27 final size:27
Alignment explanation
Indices: 13177444--13177556 Score: 134
Period size: 27 Copynumber: 4.5 Consensus size: 27
13177434 ATCGGTGTTG
**
13177444 TTTGACCGTTGA-CTTTGACCGTTGAC
1 TTTGACCGTTGACCACTGACCGTTGAC
*
13177470 TTTGACCTTTGACCACTGACCGTTGAC
1 TTTGACCGTTGACCACTGACCGTTGAC
*
13177497 TTTGACAGTTG-----T--CCGTTGAC
1 TTTGACCGTTGACCACTGACCGTTGAC
13177517 TTTGACCGTTGACCACTGACCGTTGAC
1 TTTGACCGTTGACCACTGACCGTTGAC
13177544 TTTGACCGTTGAC
1 TTTGACCGTTGAC
13177557 TTTGATCGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
20 18 0.25
22 1 0.01
25 1 0.01
26 11 0.15
27 42 0.58
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (27 bp):
TTTGACCGTTGACCACTGACCGTTGAC
Found at i:13177513 original size:47 final size:47
Alignment explanation
Indices: 13177462--13177554 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
13177452 TTGACTTTGA
*
13177462 CCGTTGACTTTGACCTTTGACCACTGACCGTTGACTTTGACAGTTGT
1 CCGTTGACTTTGACCGTTGACCACTGACCGTTGACTTTGACAGTTGT
*
13177509 CCGTTGACTTTGACCGTTGACCACTGACCGTTGACTTTGACCGTTG
1 CCGTTGACTTTGACCGTTGACCACTGACCGTTGACTTTGACAGTTG
13177555 ACTTTGATCG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (47 bp):
CCGTTGACTTTGACCGTTGACCACTGACCGTTGACTTTGACAGTTGT
Found at i:13178623 original size:3 final size:3
Alignment explanation
Indices: 13178615--13178645 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13178605 TAGAATATTC
13178615 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13178646 TTGGGATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13184096 original size:10 final size:10
Alignment explanation
Indices: 13184081--13184117 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
13184071 TGCCCCAAAC
13184081 CTTTTTCTTT
1 CTTTTTCTTT
*
13184091 CTTTTTTTTT
1 CTTTTTCTTT
13184101 CTTTTTCTTT
1 CTTTTTCTTT
13184111 CTTTTTC
1 CTTTTTC
13184118 CCTTGCCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:13184622 original size:21 final size:22
Alignment explanation
Indices: 13184586--13184631 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
13184576 ACCCATTAAG
13184586 CCCAAATCCTATTTAAACCAAA
1 CCCAAATCCTATTTAAACCAAA
*
13184608 CCCAAATTC-ATTTAAACCAAA
1 CCCAAATCCTATTTAAACCAAA
13184629 CCC
1 CCC
13184632 TTTTGAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (22 bp):
CCCAAATCCTATTTAAACCAAA
Found at i:13184695 original size:10 final size:10
Alignment explanation
Indices: 13184682--13184736 Score: 74
Period size: 10 Copynumber: 5.4 Consensus size: 10
13184672 AGTCAAACCA
13184682 TTGACCGACG
1 TTGACCGACG
*
13184692 TTGACCGGCG
1 TTGACCGACG
13184702 TTGACCGACG
1 TTGACCGACG
* *
13184712 TTGACCGGCA
1 TTGACCGACG
13184722 TTGACCGACCG
1 TTGACCGA-CG
13184733 TTGA
1 TTGA
13184737 TCGGTGTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
10 33 0.87
11 5 0.13
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.22
Consensus pattern (10 bp):
TTGACCGACG
Found at i:13184707 original size:20 final size:20
Alignment explanation
Indices: 13184680--13184736 Score: 96
Period size: 20 Copynumber: 2.8 Consensus size: 20
13184670 CAAGTCAAAC
13184680 CATTGACCGACGTTGACCGG
1 CATTGACCGACGTTGACCGG
*
13184700 CGTTGACCGACGTTGACCGG
1 CATTGACCGACGTTGACCGG
13184720 CATTGACCGACCGTTGA
1 CATTGACCGA-CGTTGA
13184737 TCGGTGTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 28 0.82
21 6 0.18
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (20 bp):
CATTGACCGACGTTGACCGG
Found at i:13184764 original size:13 final size:13
Alignment explanation
Indices: 13184746--13184874 Score: 135
Period size: 13 Copynumber: 10.2 Consensus size: 13
13184736 ATCGGTGTTG
13184746 TTTGACCGTTGAC
1 TTTGACCGTTGAC
13184759 TTTGACCGTTGAC
1 TTTGACCGTTGAC
*
13184772 TTTGACCTTTGACC
1 TTTGACCGTTGA-C
**
13184786 ACTGACCGTTGAC
1 TTTGACCGTTGAC
*
13184799 TTTGACAGTTG--
1 TTTGACCGTTGAC
13184810 --T--CCGTTGAC
1 TTTGACCGTTGAC
13184819 TTTGACCGTTGACC
1 TTTGACCGTTGA-C
**
13184833 ACTGACCGTTGAC
1 TTTGACCGTTGAC
13184846 TTTGACCGTTGAC
1 TTTGACCGTTGAC
*
13184859 TTTGATCGTTGAC
1 TTTGACCGTTGAC
13184872 TTT
1 TTT
13184875 TTTTCAAAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
7 5 0.05
9 1 0.01
11 1 0.01
13 67 0.71
14 21 0.22
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (13 bp):
TTTGACCGTTGAC
Found at i:13184794 original size:40 final size:40
Alignment explanation
Indices: 13184748--13184871 Score: 167
Period size: 47 Copynumber: 2.9 Consensus size: 40
13184738 CGGTGTTGTT
*
13184748 TGACCGTTGACTTTGACCGTTGACTTTGACCTTTGACCAC
1 TGACCGTTGACTTTGACCGTTGACTTTGACCGTTGACCAC
13184788 TGACCGTTGACTTTGACAGTTGTCCGTTGACTTTGACCGTTGACCAC
1 TGACCGTTGACTTTG--A-----CCGTTGACTTTGACCGTTGACCAC
*
13184835 TGACCGTTGACTTTGACCGTTGACTTTGATCGTTGAC
1 TGACCGTTGACTTTGACCGTTGACTTTGACCGTTGAC
13184872 TTTTTTTCAA
Statistics
Matches: 75, Mismatches: 2, Indels: 14
0.82 0.02 0.15
Matches are distributed among these distances:
40 35 0.47
42 1 0.01
45 1 0.01
47 38 0.51
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (40 bp):
TGACCGTTGACTTTGACCGTTGACTTTGACCGTTGACCAC
Found at i:13184799 original size:27 final size:27
Alignment explanation
Indices: 13184746--13184858 Score: 134
Period size: 27 Copynumber: 4.5 Consensus size: 27
13184736 ATCGGTGTTG
**
13184746 TTTGACCGTTGA-CTTTGACCGTTGAC
1 TTTGACCGTTGACCACTGACCGTTGAC
*
13184772 TTTGACCTTTGACCACTGACCGTTGAC
1 TTTGACCGTTGACCACTGACCGTTGAC
*
13184799 TTTGACAGTTG-----T--CCGTTGAC
1 TTTGACCGTTGACCACTGACCGTTGAC
13184819 TTTGACCGTTGACCACTGACCGTTGAC
1 TTTGACCGTTGACCACTGACCGTTGAC
13184846 TTTGACCGTTGAC
1 TTTGACCGTTGAC
13184859 TTTGATCGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
20 18 0.25
22 1 0.01
25 1 0.01
26 11 0.15
27 42 0.58
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (27 bp):
TTTGACCGTTGACCACTGACCGTTGAC
Done.