Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 131 of 189
Found at i:37788328 original size:57 final size:58
Alignment explanation
Indices: 37788260--37788380 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 58
37788250 TCATTTTCAT
* * ** *
37788260 TTTTAATTTTCATTTTGGAGAAAACTACATTCATTTCCAAAT-TATTCTATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAATGTATTCCATTTCTCCA
* *
37788317 TTTTCATTTTCATTTTGGAGAAAACCATAACCATTTCCAAATGTTTTCCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAATGTATTCCATTTCTCCA
*
37788375 CTTTCA
1 TTTTCA
37788381 CCATTTTTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 37 0.67
58 18 0.33
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (58 bp):
TTTTCATTTTCATTTTGGAGAAAACCACAACCATTTCCAAATGTATTCCATTTCTCCA
Found at i:37803491 original size:40 final size:40
Alignment explanation
Indices: 37803398--37803622 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
37803388 GCTCCTCGTT
* * * *
37803398 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
37803438 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
37803477 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
37803517 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * * *
37803557 CAAATGCCTTC-GGATCTTAGTCCGAATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
37803598 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
37803623 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 38 0.25
40 103 0.66
41 14 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:37808903 original size:66 final size:66
Alignment explanation
Indices: 37808791--37808923 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 66
37808781 ATGATAATGG
** * *
37808791 TTCCCTTAGTCTTGTAATTATGGGTTTGAATTGAATTTCAAGGCAAGAATATACCTCATCTTATT
1 TTCCCTTAGTCTTGTAATTACCGGTTTGAATTGAATTTCAAAGCAAGAATATACCTCATCTCATT
37808856 T
66 T
* * * *
37808857 TTCCCTTGGTCTTGTAATTACCTGTTTTAATTGAATTGT-AAAGCAAGAATATACTTCATCTCAT
1 TTCCCTTAGTCTTGTAATTACCGGTTTGAATTGAATT-TCAAAGCAAGAATATACCTCATCTCAT
37808921 TT
65 TT
37808923 T
1 T
37808924 AAGCTCATCA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 57 0.98
67 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (66 bp):
TTCCCTTAGTCTTGTAATTACCGGTTTGAATTGAATTTCAAAGCAAGAATATACCTCATCTCATT
T
Found at i:37810864 original size:16 final size:16
Alignment explanation
Indices: 37810851--37810884 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
37810841 TTTTTGCTAT
37810851 TTTAGGTATTTGCTTC
1 TTTAGGTATTTGCTTC
37810867 TTTAGGTATTTGCTTC
1 TTTAGGTATTTGCTTC
37810883 TT
1 TT
37810885 GCTTAGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.59
Consensus pattern (16 bp):
TTTAGGTATTTGCTTC
Found at i:37817633 original size:9 final size:9
Alignment explanation
Indices: 37817608--37817640 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
37817598 AAAAATTAAC
37817608 CGAATTAAC-
1 CGAATT-ACT
37817617 CGAATTACT
1 CGAATTACT
37817626 CGAATTACT
1 CGAATTACT
37817635 CGAATT
1 CGAATT
37817641 GAATCACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 2 0.09
9 21 0.91
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (9 bp):
CGAATTACT
Found at i:37817918 original size:39 final size:39
Alignment explanation
Indices: 37817835--37817947 Score: 183
Period size: 39 Copynumber: 2.9 Consensus size: 39
37817825 ACTTAAGAGT
*
37817835 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
* *
37817873 TGGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTTGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
37817912 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATT
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATT
37817948 AACCGAATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 26 0.38
39 43 0.62
ACGTcount: A:0.19, C:0.03, G:0.27, T:0.52
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:37827792 original size:35 final size:36
Alignment explanation
Indices: 37827751--37827825 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
37827741 AACTGACAAG
37827751 AAAACCAAAAAAATTAAT-AAAAAAAGAGAAAAGAA
1 AAAACCAAAAAAATTAATAAAAAAAAGAGAAAAGAA
*
37827786 AAAACCAAAAAAATTAATAAAAAAAAGAGAAAAGGA
1 AAAACCAAAAAAATTAATAAAAAAAAGAGAAAAGAA
37827822 AAAA
1 AAAA
37827826 GCTAACGTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 18 0.47
36 20 0.53
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.08
Consensus pattern (36 bp):
AAAACCAAAAAAATTAATAAAAAAAAGAGAAAAGAA
Found at i:37837185 original size:12 final size:13
Alignment explanation
Indices: 37837158--37837190 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
37837148 CCAAAAATAA
37837158 AAATACAATAAAAT
1 AAATA-AATAAAAT
37837172 AAATAAAT-AAAT
1 AAATAAATAAAAT
37837184 AAATAAA
1 AAATAAA
37837191 GCTTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 3 0.16
14 5 0.26
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:37837639 original size:37 final size:37
Alignment explanation
Indices: 37837584--37837666 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 37
37837574 TTGAGTATTA
* *
37837584 CTCAACTGAGCATCACCTACTGATATACCGACTAAAG
1 CTCAACTGAGCATCACCTACTGATAAACCGAATAAAG
*
37837621 CTCAACTGAGCGAT-ACCTACTGGTAAACCGAATAAAG
1 CTCAACTGAGC-ATCACCTACTGATAAACCGAATAAAG
*
37837658 CTTAACTGA
1 CTCAACTGA
37837667 ACATTATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 39 0.95
38 2 0.05
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (37 bp):
CTCAACTGAGCATCACCTACTGATAAACCGAATAAAG
Found at i:37839889 original size:33 final size:30
Alignment explanation
Indices: 37839852--37839931 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 30
37839842 GACAGCTGCG
*
37839852 AAGGCATCCTTGCACAATATATAGATAGCCACA
1 AAGGCATCC-TACAC-ATAT-TAGATAGCCACA
* *
37839885 AAGGCA-CCTACTCATATTAGATAGCCGCA
1 AAGGCATCCTACACATATTAGATAGCCACA
* *
37839914 AAGGTATCCAAGCACATA
1 AAGGCATCCTA-CACATA
37839932 CACAAGGTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 16 0.41
30 7 0.18
31 8 0.21
32 2 0.05
33 6 0.15
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (30 bp):
AAGGCATCCTACACATATTAGATAGCCACA
Found at i:37840483 original size:51 final size:53
Alignment explanation
Indices: 37840362--37840495 Score: 146
Period size: 51 Copynumber: 2.5 Consensus size: 53
37840352 ACGTGACATG
* * * *
37840362 ATAGTCCCAGAATAGGTCTTACACTATATGGTCTCTTTTCCCCCATATGATGCC
1 ATAGTCCAAGACTAGGTCTTACACTATATGG-CTCATTTCCCCCATATGATACC
* * * * *
37840416 ATAGTCCCAGATTAGGTCTTACACTATATGG-T-ATTTCCCCTATTTGATATC
1 ATAGTCCAAGACTAGGTCTTACACTATATGGCTCATTTCCCCCATATGATACC
**
37840467 ATAGTTTAAGACTAGGTCTTACACTATAT
1 ATAGTCCAAGACTAGGTCTTACACTATAT
37840496 AGTCTTCTTG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 39 0.56
52 1 0.01
54 30 0.43
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (53 bp):
ATAGTCCAAGACTAGGTCTTACACTATATGGCTCATTTCCCCCATATGATACC
Found at i:37842825 original size:51 final size:51
Alignment explanation
Indices: 37842645--37842826 Score: 215
Period size: 51 Copynumber: 3.6 Consensus size: 51
37842635 GATGGTTACG
* * * * * *
37842645 TGTGTAGTGCTATGTGTAGGCTACTACGTGTACCAGA-ATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGGATAGGTCACA
* ** * * *
37842695 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGGATAGGTCACA
* *
37842746 TGTGTAGTACTATGTGTAGGCTACTATGTGTATCGGATAGGGAT-GGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATA-GGATAGGTCACA
37842797 TGTGTAGTACTATGTGCAGGCTACTATGTG
1 TGTGTAGTACTATGTGCAGGCTACTATGTG
37842827 AATCAGTATC
Statistics
Matches: 110, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
50 32 0.29
51 76 0.69
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGGATAGGTCACA
Found at i:37843071 original size:16 final size:16
Alignment explanation
Indices: 37843050--37843081 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37843040 TGATTGAAAG
*
37843050 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
37843066 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
37843082 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:37848200 original size:104 final size:103
Alignment explanation
Indices: 37848020--37848284 Score: 458
Period size: 104 Copynumber: 2.6 Consensus size: 103
37848010 AACCGTTATT
* * *
37848020 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
37848085 ATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCC-TTTTCATTTCAAAGATAC
*
37848124 GGTGGATATCGCACTTAGCATCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
37848189 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
* *
37848227 GGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACATAGAAACCCC
1 GGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCC
37848285 CTTTCACATT
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
103 46 0.30
104 107 0.70
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (103 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAC
Found at i:37848309 original size:78 final size:76
Alignment explanation
Indices: 37848184--37848366 Score: 260
Period size: 77 Copynumber: 2.4 Consensus size: 76
37848174 CAACCCCTCG
* * *
37848184 GGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATACGGTGGAT-ATCGCACTTAGCAC
1 GGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACGGTGGATCA-CACACATAGCAC
37848248 CACCAATGAAATC
65 CACCAATG-AATC
* *
37848261 GGGGAATCAGCACATAGAAACCCCCTTTCACATTTCAAAGATATGGTGGATCACACACATAGCAC
1 GGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACGGTGGATCACACACATAGCAC
37848326 CACCAATGAATC
65 CACCAATGAATC
* * *
37848338 AGGGAATCAGCACACAGCAACCCCTTTTA
1 GGGGAATCAGCACATAGCAACCCCCTTTA
37848367 TATACAACAT
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
76 1 0.01
77 55 0.58
78 38 0.40
79 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.20
Consensus pattern (76 bp):
GGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACGGTGGATCACACACATAGCACC
ACCAATGAATC
Found at i:37848726 original size:30 final size:29
Alignment explanation
Indices: 37848692--37848756 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
37848682 TAATCCACCA
37848692 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
37848722 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
37848752 CCCAA
1 CCCAA
37848757 GCTCAGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:37848730 original size:31 final size:30
Alignment explanation
Indices: 37848699--37848756 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37848689 CCACCCAACT
37848699 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
37848729 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
37848757 GCTCAGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:37851529 original size:32 final size:32
Alignment explanation
Indices: 37851488--37851552 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37851478 CCAAGCTCCA
37851488 TAGTAAGTAATTCCAAGCCCCGTTTTTAATGT
1 TAGTAAGTAATTCCAAGCCCCGTTTTTAATGT
37851520 TAGTAAGTAATTCCAAGCCCCGTTTTTAATGT
1 TAGTAAGTAATTCCAAGCCCCGTTTTTAATGT
37851552 T
1 T
37851553 CTTTACGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (32 bp):
TAGTAAGTAATTCCAAGCCCCGTTTTTAATGT
Found at i:37852246 original size:26 final size:26
Alignment explanation
Indices: 37852217--37852297 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
37852207 TTCGATCACG
37852217 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
*
37852243 TGTGTA-T-CGGATAGTG-ATGG-TAAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
*
37852268 TGTGTAGTACTATGTGCAGGCTGCTA
1 TGTGTAGTACTATGTGCAGGCTACTA
37852294 TGTG
1 TGTG
37852298 AACCGGTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:37852296 original size:51 final size:51
Alignment explanation
Indices: 37852153--37852303 Score: 198
Period size: 51 Copynumber: 3.0 Consensus size: 51
37852143 TGAAAGTGAA
* *
37852153 AGTGATGGTTACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGATGGTAACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* * *
37852204 AGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAT
1 AG-TGAT-GGTAACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* * *
37852255 AGTGATGGTAACATGTGTAGTACTATGTGCAGGCTGCTATGTGAACCGG
1 AGTGATGGTAACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG
37852304 TATCATTAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
50 2 0.02
51 82 0.95
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (51 bp):
AGTGATGGTAACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
Found at i:37852542 original size:16 final size:16
Alignment explanation
Indices: 37852521--37852552 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37852511 TGGTTGAAAG
*
37852521 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
37852537 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
37852553 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:37859491 original size:28 final size:28
Alignment explanation
Indices: 37859427--37859491 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
37859417 CGCCATGAAT
***
37859427 GATACTCTTTCATAATCTTTCACAAAGGC
1 GATACT-TTTCATAATCAACCACAAAGGC
* * *
37859456 TATTCTTTTCATAATCAACCACACAGGC
1 GATACTTTTCATAATCAACCACAAAGGC
37859484 GATACTTT
1 GATACTTT
37859492 CACATTGTGC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (28 bp):
GATACTTTTCATAATCAACCACAAAGGC
Found at i:37859591 original size:27 final size:27
Alignment explanation
Indices: 37859527--37859592 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
37859517 TTCATATTAC
37859527 GCCACAAAGGCTATCACATCAGAATTT
1 GCCACAAAGGCTATCACATCAGAATTT
* * * *
37859554 ACCATAGAGGCTATTC-CTTC-GAAGTTT
1 GCCACAAAGGCTA-TCACATCAGAA-TTT
37859581 GCCACAAAGGCT
1 GCCACAAAGGCT
37859593 CCCTTTTCAG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
26 3 0.10
27 25 0.83
28 2 0.07
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (27 bp):
GCCACAAAGGCTATCACATCAGAATTT
Found at i:37859611 original size:27 final size:27
Alignment explanation
Indices: 37859581--37860057 Score: 444
Period size: 27 Copynumber: 17.7 Consensus size: 27
37859571 TTCGAAGTTT
* *
37859581 GCCACAAAGGCTCCCTTTTCAGTGTTC
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
* *
37859608 GCCACAAAGGCTTCCTTTTTAGAGTTA
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
* * *
37859635 GCCACAAAGGTTTCCTTTTTAGAGTTA
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
*
37859662 GCCACAAAGGCTTCCTTTTCAGAGTTA
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
* * * *
37859689 GCGACAAATGCTTTCTTTTCAGTGTTC
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
* * * *
37859716 GCCATAAAGACTTCTTTTTTAGTGTTCA
1 GCCACAAAGGCTTCCTTTTCAGTGTT-A
* * **
37859744 -CCACAAAGGCTTACTTTTTAAAGTTA
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
* * *
37859770 GCCACAAATGCTTCATTTTCAGAGTTA
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
** *
37859797 GCCGTAAAGGCTTCCTTTTCAATGTTCA
1 GCCACAAAGGCTTCCTTTTCAGTGTT-A
*
37859825 -CTACAAAGGCTTCCTTTTCA-TAGTTA
1 GCCACAAAGGCTTCCTTTTCAGT-GTTA
* *
37859851 GCCACAAAGACTTCATTTTCAGTGTTCA
1 GCCACAAAGGCTTCCTTTTCAGTGTT-A
* *
37859879 -CCACAAAGGCTTTCTTTTCAATGTTCA
1 GCCACAAAGGCTTCCTTTTCAGTGTT-A
** *
37859906 -CCACAAAGGCTT-CTTATTCAAAGTTC
1 GCCACAAAGGCTTCCTT-TTCAGTGTTA
* * *
37859932 GCCGCAAAGTCTTCCTTTTCAGAGTTA
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
*
37859959 GCCATAAAGGCTTCCTTTTCAGTGTTA
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
**
37859986 GCCACAAAGGCTTCCTTTTCAAAGTTA
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
* **
37860013 GCCACAAAAGCTTTATTTTCAGTGTTA
1 GCCACAAAGGCTTCCTTTTCAGTGTTA
* * *
37860040 GCAATAAAGGATTCCTTT
1 GCCACAAAGGCTTCCTTT
37860058 CCTGATGTGT
Statistics
Matches: 369, Mismatches: 71, Indels: 20
0.80 0.15 0.04
Matches are distributed among these distances:
26 6 0.02
27 357 0.97
28 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTTCAGTGTTA
Found at i:37859666 original size:81 final size:81
Alignment explanation
Indices: 37859582--37860057 Score: 498
Period size: 81 Copynumber: 5.9 Consensus size: 81
37859572 TCGAAGTTTG
* ** * * * * *
37859582 CCACAAAGGCTCCCTTTTCAGTGTTCGCCACAAAGGCTTCCTTTTTAGAGTTAGCCACAAAGGTT
1 CCACAAAGGCTTCCTTTTCAAAGTTAGCCACAAAGGCTTCATTTTCAGAGTTAGCCATAAAGGCT
*
37859647 TCCTTTTTAGAGTT-A
66 TCCTTTTCAGAGTTCA
* * * * * *
37859662 GCCACAAAGGCTTCCTTTTCAGAGTTAGCGACAAATGCTTTC-TTTTCAGTGTTCGCCATAAAGA
1 -CCACAAAGGCTTCCTTTTCAAAGTTAGCCACAAAGGC-TTCATTTTCAGAGTTAGCCATAAAGG
* * *
37859726 CTTCTTTTTTAGTGTTCA
64 CTTCCTTTTCAGAGTTCA
* * * *
37859744 CCACAAAGGCTTACTTTTTAAAGTTAGCCACAAATGCTTCATTTTCAGAGTTAGCCGTAAAGGCT
1 CCACAAAGGCTTCCTTTTCAAAGTTAGCCACAAAGGCTTCATTTTCAGAGTTAGCCATAAAGGCT
37859809 TCCTTTTCA-ATGTTCA
66 TCCTTTTCAGA-GTTCA
* * * * *
37859825 CTACAAAGGCTTCCTTTTCATAGTTAGCCACAAAGACTTCATTTTCAGTGTTCA-CCACAAAGGC
1 CCACAAAGGCTTCCTTTTCAAAGTTAGCCACAAAGGCTTCATTTTCAGAGTT-AGCCATAAAGGC
*
37859889 TTTCTTTTCA-ATGTTCA
65 TTCCTTTTCAGA-GTTCA
* * * *
37859906 CCACAAAGGCTT-CTTATTCAAAGTTCGCCGCAAAGTCTTCCTTTTCAGAGTTAGCCATAAAGGC
1 CCACAAAGGCTTCCTT-TTCAAAGTTAGCCACAAAGGCTTCATTTTCAGAGTTAGCCATAAAGGC
*
37859970 TTCCTTTTCAGTGTT-A
65 TTCCTTTTCAGAGTTCA
* * * * *
37859986 GCCACAAAGGCTTCCTTTTCAAAGTTAGCCACAAAAGCTTTATTTTCAGTGTTAGCAATAAAGGA
1 -CCACAAAGGCTTCCTTTTCAAAGTTAGCCACAAAGGCTTCATTTTCAGAGTTAGCCATAAAGGC
37860051 TTCCTTT
65 TTCCTTT
37860058 CCTGATGTGT
Statistics
Matches: 332, Mismatches: 53, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
80 8 0.02
81 316 0.95
82 8 0.02
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (81 bp):
CCACAAAGGCTTCCTTTTCAAAGTTAGCCACAAAGGCTTCATTTTCAGAGTTAGCCATAAAGGCT
TCCTTTTCAGAGTTCA
Found at i:37864923 original size:20 final size:20
Alignment explanation
Indices: 37864898--37864935 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37864888 ACCACTTAAC
37864898 GAAAATATC-AGTACCCTATT
1 GAAAATATCGA-TACCCTATT
37864918 GAAAATATCGATACCCTA
1 GAAAATATCGATACCCTA
37864936 GTATCAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (20 bp):
GAAAATATCGATACCCTATT
Found at i:37878777 original size:14 final size:14
Alignment explanation
Indices: 37878754--37878797 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
37878744 TTGCAATACT
*
37878754 ATAAATGAAGTAAA
1 ATAAAGGAAGTAAA
*
37878768 ATAAAGGAAGTAAGC
1 ATAAAGGAAGTAA-A
37878783 ATAAAGGAAAGTAAA
1 ATAAAGG-AAGTAAA
37878798 TAACAACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 12 0.48
15 7 0.28
16 6 0.24
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.16
Consensus pattern (14 bp):
ATAAAGGAAGTAAA
Found at i:37879223 original size:50 final size:50
Alignment explanation
Indices: 37879097--37879345 Score: 200
Period size: 50 Copynumber: 4.9 Consensus size: 50
37879087 GATAATAACA
* ** * * *
37879097 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * * **
37879146 TACCAATGCCATATCCCTGATATGGTCTTGCATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
37879196 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
37879246 TGCCAACGCCATGTCCAAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
37879302 TGCCAATGCCATATTCCAAACATGGTCTTACATGGGA--TCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
37879346 ACCCAAATGT
Statistics
Matches: 158, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
48 1 0.01
49 36 0.23
50 79 0.50
53 3 0.02
54 6 0.04
56 33 0.21
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:37890834 original size:435 final size:435
Alignment explanation
Indices: 37890024--37891329 Score: 2423
Period size: 435 Copynumber: 3.0 Consensus size: 435
37890014 TGATGTCTCC
37890024 AAATCTTCAACGCAAATACAATGGCAGCTAGCTCTAAATCATGCGTCGGGTAGTTTTTCTCATGT
1 AAATCTTCAACGCAAATACAATGGCAGCTAGCTCTAAATCATGCGTCGGGTAGTTTTTCTCATGT
* * *
37890089 AGCTTTAACTATATGGAAGCAAATGCTATTACTTTACCTTCCTACATAAGTACACAACCCAATCC
66 AGCTTTAACTGTACGGAAGCATATGCTATTACTTTACCTTCCTACATAAGTACACAACCCAATCC
** *
37890154 ATTCAAGGATGCATTACTGTAAATCACAAATTCTTTACCCGGTTCTAGCTGTACTAAAATAGGAG
131 ATTCAAGGATGCATTACTGTAAATCACAAATTCTTTACCTAGTTCTAGCTGTACTAAAACAGGAG
**
37890219 CTTGAGTGAACAATGCCTTTAACTTGTCAAAACTTTGCTGACACTTCTCAGTCCATTAAAACTTG
196 CTTGAGTGAACAATGCCTTTAACTTGTCAAAACTCAGCTGACACTTCTCAGTCCATTAAAACTTG
* * * *
37890284 ATATCTTTCTGGAAAAATATTGTCAATGGGGTAAATATCATGGAAAATTCCTTTACAAACCGTCT
261 ATATCTTTCTGGAACAATCTTGTCAATGGGGTAACTATCATGGAAAATCCCTTTACAAACCGTCT
37890349 GTAATAACCAGCTAATCCAAGAAAACTTCTAACCTCTGATACATTCCTAGGTGGTTTCCACTCAA
326 GTAATAACCAGCTAATCCAAGAAAACTTCTAACCTCTGATACATTCCTAGGTGGTTTCCACTCAA
*
37890414 TAATTGCTAAAATTTTACTCGGATCAACTTTAATACCATCACCTG
391 CAATTGCTAAAATTTTACTCGGATCAACTTTAATACCATCACCTG
37890459 AAATCTTCAACGCAAATACAATGGCAGCTAGCTCTAAATCATGCGTCGGGTAGTTTTTCTCATGT
1 AAATCTTCAACGCAAATACAATGGCAGCTAGCTCTAAATCATGCGTCGGGTAGTTTTTCTCATGT
37890524 AGCTTTAACTGTACGGAAGCATATGCTATTACTTTACCTTCCTACATAAGTACACAACCCAATCC
66 AGCTTTAACTGTACGGAAGCATATGCTATTACTTTACCTTCCTACATAAGTACACAACCCAATCC
37890589 ATTCAAGGATGCATTACTGTAAATCACAAATTCTTTACCTAGTTCTAGCTGTACTAAAACAGGAG
131 ATTCAAGGATGCATTACTGTAAATCACAAATTCTTTACCTAGTTCTAGCTGTACTAAAACAGGAG
* *
37890654 CTTGAGTGAACAATGCCTTTAACTTGTCAAAACTCAGTTGACACTTCTCAGTCTATTAAAACTTG
196 CTTGAGTGAACAATGCCTTTAACTTGTCAAAACTCAGCTGACACTTCTCAGTCCATTAAAACTTG
*
37890719 ATATCTTTCTGGAACAATCTTTTCAATGGGGTAACTATCATGGAAAATCCCTTTACAAACCGTCT
261 ATATCTTTCTGGAACAATCTTGTCAATGGGGTAACTATCATGGAAAATCCCTTTACAAACCGTCT
37890784 GTAATAACCAGCTAATCCAAGAAAACTTCTAACCTCTGATACATTCCTAGGTGGTTTCCACTCAA
326 GTAATAACCAGCTAATCCAAGAAAACTTCTAACCTCTGATACATTCCTAGGTGGTTTCCACTCAA
37890849 CAATTGCTAAAATTTTACTCGGATCAACTTTAATACCATCACCTG
391 CAATTGCTAAAATTTTACTCGGATCAACTTTAATACCATCACCTG
37890894 AAATCTTCAACGCAAATACAATGGCAGCTAGCTCTAAATCATGCGTCGGGTAGTTTTTCTCATGT
1 AAATCTTCAACGCAAATACAATGGCAGCTAGCTCTAAATCATGCGTCGGGTAGTTTTTCTCATGT
37890959 AGCTTTAACTGTACGGAAGCATATGCTATTACTTTACCTTCCTACATAAGTACACAACCCAATCC
66 AGCTTTAACTGTACGGAAGCATATGCTATTACTTTACCTTCCTACATAAGTACACAACCCAATCC
37891024 ATTCAAGGATGCATTACTGTAAATCACAAATTCTTTACCTAGTTCTAGCTGTACTAAAACAGGAG
131 ATTCAAGGATGCATTACTGTAAATCACAAATTCTTTACCTAGTTCTAGCTGTACTAAAACAGGAG
*
37891089 CTTGAGTGAACAATGCCTTTAACTTGTCAAAACTCAGCTGACACTTCTCAGTCCATTAAAACTTT
196 CTTGAGTGAACAATGCCTTTAACTTGTCAAAACTCAGCTGACACTTCTCAGTCCATTAAAACTTG
*
37891154 ATATCTTTCTGGAACAATCTTGTCAATGGGGTAACTATCATTGAAAATCCCTTTACAAACCGTCT
261 ATATCTTTCTGGAACAATCTTGTCAATGGGGTAACTATCATGGAAAATCCCTTTACAAACCGTCT
* *
37891219 GTAATAACCAACTAATCCAAGAAAACTTCTAACCTCTGATACATTCCTAGGTGGTTTTCACTCAA
326 GTAATAACCAGCTAATCCAAGAAAACTTCTAACCTCTGATACATTCCTAGGTGGTTTCCACTCAA
*
37891284 CAATTGCTGAAATTTTACTCGGATCAACTTTAATACCATCACCTG
391 CAATTGCTAAAATTTTACTCGGATCAACTTTAATACCATCACCTG
37891329 A
1 A
37891330 GACAATATGC
Statistics
Matches: 847, Mismatches: 24, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
435 847 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (435 bp):
AAATCTTCAACGCAAATACAATGGCAGCTAGCTCTAAATCATGCGTCGGGTAGTTTTTCTCATGT
AGCTTTAACTGTACGGAAGCATATGCTATTACTTTACCTTCCTACATAAGTACACAACCCAATCC
ATTCAAGGATGCATTACTGTAAATCACAAATTCTTTACCTAGTTCTAGCTGTACTAAAACAGGAG
CTTGAGTGAACAATGCCTTTAACTTGTCAAAACTCAGCTGACACTTCTCAGTCCATTAAAACTTG
ATATCTTTCTGGAACAATCTTGTCAATGGGGTAACTATCATGGAAAATCCCTTTACAAACCGTCT
GTAATAACCAGCTAATCCAAGAAAACTTCTAACCTCTGATACATTCCTAGGTGGTTTCCACTCAA
CAATTGCTAAAATTTTACTCGGATCAACTTTAATACCATCACCTG
Found at i:37894671 original size:50 final size:50
Alignment explanation
Indices: 37894617--37894790 Score: 258
Period size: 50 Copynumber: 3.5 Consensus size: 50
37894607 TATCTCAAAT
** * * * * *
37894617 ATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTCTCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
**
37894667 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
37894717 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
37894767 ATGGTCTTACATGAGACCTCTCAT
1 ATGGTCTTACATGGGACCTCTCAT
37894791 AATCTCAATG
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 112 1.00
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:37898633 original size:27 final size:27
Alignment explanation
Indices: 37898600--37898679 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
37898590 CACTCAAGCA
**
37898600 TTCCTTTCACT-TTGCGCCATAAATTCG
1 TTCCTTTCA-TATTGCGCCATAAAGGCG
* *
37898627 TTTCTTTCATATTGCGCCACAAAGGCG
1 TTCCTTTCATATTGCGCCATAAAGGCG
*
37898654 TTCCTTTCATATTGCACCATAAAGGC
1 TTCCTTTCATATTGCGCCATAAAGGC
37898680 TATCATATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.36
Consensus pattern (27 bp):
TTCCTTTCATATTGCGCCATAAAGGCG
Found at i:37898749 original size:27 final size:27
Alignment explanation
Indices: 37898717--37899009 Score: 288
Period size: 27 Copynumber: 10.9 Consensus size: 27
37898707 TATTCCTTTG
* *
37898717 GAGTTCGCCACAATGGCTCCCTTTTCA
1 GAGTTCGCCACAAAGGCTTCCTTTTCA
* *
37898744 GTGTTCGCTACAAAGGCTTCCTTTTCA
1 GAGTTCGCCACAAAGGCTTCCTTTTCA
** * *
37898771 -AAATAGCCACAAAGGCTTCATGTTT-A
1 GAGTTCGCCACAAAGGCTTCCT-TTTCA
* * *
37898797 GAGTTAGCCACAAATGCTTCCTTTTTA
1 GAGTTCGCCACAAAGGCTTCCTTTTCA
*
37898824 GAGTTAGCCACAAAGGCTTCCTTTTCA
1 GAGTTCGCCACAAAGGCTTCCTTTTCA
* *
37898851 GTGTTCGCCACAAAGGCTTCCATTTCA
1 GAGTTCGCCACAAAGGCTTCCTTTTCA
37898878 GAGTTCGCCACAAAGGCTTCCTTTTCA
1 GAGTTCGCCACAAAGGCTTCCTTTTCA
* * * **
37898905 GAGTTAGTCATAAAGGCTTAATTTTCA
1 GAGTTCGCCACAAAGGCTTCCTTTTCA
* * * * *
37898932 -ATGTTAGCTATAAAAGCTTCCTTTTTA
1 GA-GTTCGCCACAAAGGCTTCCTTTTCA
*
37898959 GAGTTAGCCACAAAGGCTTCCCTTTT-A
1 GAGTTCGCCACAAAGGCTT-CCTTTTCA
* *
37898986 GATTTAGCCACAAAGGCTTCCTTT
1 GAGTTCGCCACAAAGGCTTCCTTT
37899010 CCTAACATGT
Statistics
Matches: 224, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
26 25 0.11
27 192 0.86
28 7 0.03
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (27 bp):
GAGTTCGCCACAAAGGCTTCCTTTTCA
Found at i:37898889 original size:81 final size:80
Alignment explanation
Indices: 37898717--37899009 Score: 329
Period size: 81 Copynumber: 3.6 Consensus size: 80
37898707 TATTCCTTTG
* * * * * * ***
37898717 GAGTTCGCCACAATGGCTCCCTTTTCAGTGTTCGCTACAAAGGCTTCCTTTTCAAAATAGCCACA
1 GAGTTAGCCACAAAGGCTTCCTTTTCAGAGTTAGCCACAAAGGCTTCCTTTTCATGTTAGCCACA
37898782 AAGGCTT-CATGTTTA
66 AAGGCTTCCAT-TTTA
* * *
37898797 GAGTTAGCCACAAATGCTTCCTTTTTAGAGTTAGCCACAAAGGCTTCCTTTTCAGTGTTCGCCAC
1 GAGTTAGCCACAAAGGCTTCCTTTTCAGAGTTAGCCACAAAGGCTTCCTTTTCA-TGTTAGCCAC
*
37898862 AAAGGCTTCCATTTCA
65 AAAGGCTTCCATTTTA
* * * ** * *
37898878 GAGTTCGCCACAAAGGCTTCCTTTTCAGAGTTAGTCATAAAGGCTTAATTTTCAATGTTAGCTAT
1 GAGTTAGCCACAAAGGCTTCCTTTTCAGAGTTAGCCACAAAGGCTTCCTTTTC-ATGTTAGCCAC
* *
37898943 AAAAGCTTCCTTTTTA
65 AAAGGCTTCCATTTTA
*
37898959 GAGTTAGCCACAAAGGCTTCCCTTTT-AGATTTAGCCACAAAGGCTTCCTTT
1 GAGTTAGCCACAAAGGCTT-CCTTTTCAGAGTTAGCCACAAAGGCTTCCTTT
37899010 CCTAACATGT
Statistics
Matches: 177, Mismatches: 32, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
80 46 0.26
81 121 0.68
82 10 0.06
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (80 bp):
GAGTTAGCCACAAAGGCTTCCTTTTCAGAGTTAGCCACAAAGGCTTCCTTTTCATGTTAGCCACA
AAGGCTTCCATTTTA
Found at i:37901369 original size:35 final size:35
Alignment explanation
Indices: 37901310--37901458 Score: 163
Period size: 35 Copynumber: 4.2 Consensus size: 35
37901300 ACTCTCTGTT
* ** *
37901310 TTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
* *
37901345 TCGGTGTGTTTCGGGGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
* * *
37901380 TTGGTGTGTTTCGAAGGGATTAACTCTTTTGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
* * * * *
37901415 TTGGTGTGTTTCGAATGGATTGGCTCTTGTAAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
37901450 TTTGGTGTG
1 -TTGGTGTG
37901459 CTTTGGTTGG
Statistics
Matches: 98, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 90 0.92
36 8 0.08
ACGTcount: A:0.16, C:0.12, G:0.32, T:0.40
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
Found at i:37905377 original size:17 final size:17
Alignment explanation
Indices: 37905357--37905390 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37905347 TATGCAAAAC
*
37905357 AATTTAAAGTAGATAAT
1 AATTTAAAGTAAATAAT
37905374 AATTTAAAGTAAATAAT
1 AATTTAAAGTAAATAAT
37905391 TTATAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (17 bp):
AATTTAAAGTAAATAAT
Found at i:37905476 original size:23 final size:22
Alignment explanation
Indices: 37905407--37905494 Score: 79
Period size: 24 Copynumber: 3.8 Consensus size: 22
37905397 GAACAATTCA
*
37905407 AAAATAAATAATAA-AAGGCTT
1 AAAATAAATAATAATAAAGCTT
* * *
37905428 CAAATAAACAATATATAAAAACTT
1 AAAATAAATAATA-AT-AAAGCTT
*
37905452 AAAATAAATAATAATAACAGTTT
1 AAAATAAATAATAATAA-AGCTT
37905475 AAAATAAATAAATAAATAAA
1 AAAATAAAT-AAT-AATAAA
37905495 CATACAACAG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
21 11 0.21
22 3 0.06
23 14 0.26
24 20 0.38
25 5 0.09
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAATAAATAATAATAAAGCTT
Found at i:37911851 original size:104 final size:104
Alignment explanation
Indices: 37911731--37911950 Score: 322
Period size: 104 Copynumber: 2.1 Consensus size: 104
37911721 ATTATGGATA
**
37911731 AAAATAA-AA-AATAAATT-AGGAGTGTGTTGGGCTGAGTAACTGGGGTGGAGTGCTTGGGTTGT
1 AAAATAATAATAATAAATTCA-GAGTGTGTTGGGCTGAGTAACAAGGGTGGAGTGCTTGGGTTGT
* **
37911793 CATTCCACTTTGCGTCAAAAGGGCCAATACATTCTTAAAC
65 CATTCCACTTCGCGTCAAAAAAGCCAATACATTCTTAAAC
*
37911833 AAAATAATAATAATAAATTCAGAGTGTGTTGGGCTGAGTAACAAGGGTGGGGTGCTTGGGTTGTC
1 AAAATAATAATAATAAATTCAGAGTGTGTTGGGCTGAGTAACAAGGGTGGAGTGCTTGGGTTGTC
* *
37911898 ATTCCACTTCGTGTCAAAAAAGCCAATACATTCTTAAAT
66 ATTCCACTTCGCGTCAAAAAAGCCAATACATTCTTAAAC
37911937 AAAAT-ATATATAAT
1 AAAATAATA-ATAAT
37911951 TTGACAAAAT
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
102 7 0.07
103 5 0.05
104 93 0.88
105 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.30
Consensus pattern (104 bp):
AAAATAATAATAATAAATTCAGAGTGTGTTGGGCTGAGTAACAAGGGTGGAGTGCTTGGGTTGTC
ATTCCACTTCGCGTCAAAAAAGCCAATACATTCTTAAAC
Found at i:37920495 original size:23 final size:23
Alignment explanation
Indices: 37920453--37920496 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
37920443 CGATTGTAAA
37920453 TTGAGTTATAAGTATAATGTTAG
1 TTGAGTTATAAGTATAATGTTAG
37920476 TTGAGTATATAAGTAT-ATGTT
1 TTGAGT-TATAAGTATAATGTT
37920497 TGTGTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (23 bp):
TTGAGTTATAAGTATAATGTTAG
Found at i:37923230 original size:25 final size:25
Alignment explanation
Indices: 37923202--37923280 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
37923192 CTAATGGCCG
37923202 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
37923227 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
37923249 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
37923274 ATGTGAT
1 ATGTGAT
37923281 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:37923341 original size:49 final size:47
Alignment explanation
Indices: 37923155--37923522 Score: 576
Period size: 47 Copynumber: 7.7 Consensus size: 47
37923145 TTAGGATTCT
* * *
37923155 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
37923202 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
37923249 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
37923296 ATGTGATGAATGTGAAAGTGTATATATATGTTATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
37923345 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
37923394 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
37923441 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
37923488 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
37923523 TCCCGAAGGG
Statistics
Matches: 303, Mismatches: 15, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 208 0.69
49 94 0.31
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:37923710 original size:37 final size:37
Alignment explanation
Indices: 37923641--37923719 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
37923631 CCGAGCTCTA
* * * *
37923641 AAGACCCGATGACTACATGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATATGGAGATTATGTCCGGGT
* *
37923678 AAGACCCGATAACTTCGTATGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATATGGAGATTATGTCCGGGT
37923715 AAGAC
1 AAGAC
37923720 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATATGGAGATTATGTCCGGGT
Found at i:37925389 original size:33 final size:33
Alignment explanation
Indices: 37925352--37925421 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
37925342 ACTCTTTATT
37925352 TGGTGTGTTGGTTGGACTAGCTCTTATGAGCAC
1 TGGTGTGTTGGTTGGACTAGCTCTTATGAGCAC
* * *
37925385 TGGTGTGTTGGTTGGATTAGCTCTTCTGAGCAT
1 TGGTGTGTTGGTTGGACTAGCTCTTATGAGCAC
37925418 TGGT
1 TGGT
37925422 ATGCTGGAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.13, G:0.34, T:0.40
Consensus pattern (33 bp):
TGGTGTGTTGGTTGGACTAGCTCTTATGAGCAC
Found at i:37925435 original size:33 final size:33
Alignment explanation
Indices: 37925369--37925440 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
37925359 TTGGTTGGAC
* * **
37925369 TAGCTCTTATGAGCACTGGTGTGTTGGTTGGAT
1 TAGCTCTTATGAGCACTGGTATGCTGGAGGGAT
* *
37925402 TAGCTCTTCTGAGCATTGGTATGCTGGAGGGAT
1 TAGCTCTTATGAGCACTGGTATGCTGGAGGGAT
*
37925435 TGGCTC
1 TAGCTC
37925441 GTGTGAGTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.36
Consensus pattern (33 bp):
TAGCTCTTATGAGCACTGGTATGCTGGAGGGAT
Found at i:37929720 original size:27 final size:27
Alignment explanation
Indices: 37929661--37929725 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
37929651 AATTTTGTTT
* * *
37929661 CATTCTTTTATTAGTTTATTTTTTTTA
1 CATTATTTTATTAGTTAATTTCTTTTA
* * *
37929688 CTTTATTTTATTTGTTAATTTCTTTTC
1 CATTATTTTATTAGTTAATTTCTTTTA
*
37929715 CATTATCTTAT
1 CATTATTTTAT
37929726 ATTGCATATT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.11, G:0.03, T:0.68
Consensus pattern (27 bp):
CATTATTTTATTAGTTAATTTCTTTTA
Found at i:37938026 original size:15 final size:15
Alignment explanation
Indices: 37938002--37938034 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37937992 CTAAATTTTG
*
37938002 AAATTTAAAAAATTA
1 AAATTAAAAAAATTA
37938017 AAATTAAAAAAATTA
1 AAATTAAAAAAATTA
37938032 AAA
1 AAA
37938035 AGACTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTAAAAAAATTA
Found at i:37938201 original size:25 final size:25
Alignment explanation
Indices: 37938167--37938215 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
37938157 TACATGGACA
37938167 ACTATTAAGCATAGATTAAATTTTC
1 ACTATTAAGCATAGATTAAATTTTC
37938192 ACTATTAAGCATAGATTAAATTTT
1 ACTATTAAGCATAGATTAAATTTT
37938216 TACTGTACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (25 bp):
ACTATTAAGCATAGATTAAATTTTC
Found at i:37938383 original size:106 final size:107
Alignment explanation
Indices: 37938249--37938464 Score: 256
Period size: 106 Copynumber: 2.0 Consensus size: 107
37938239 TTTTTAATTA
* * * * * * * * ***
37938249 TATCTATATTATTATTTAAGTGTTTGATTGAGTT-AGTGTCGCAAGTTAATTCAATATTAATTTA
1 TATCTATACTATTATTTAAGTATGTGATTGAGTTGA-TATCACAAGTCAACTCAACATTAACCCA
*
37938313 GTTAA-AAAAATACTAAAATAACCTTATATATTTAAAATAAAT
65 GTCAAGAAAAATACTAAAATAACCTTATATATTTAAAATAAAT
* *
37938355 TATCTATACTATTATTTAAGTATGTGATTGAGTTGATATCACGAGTCAACTCGACATTAACCCAG
1 TATCTATACTATTATTTAAGTATGTGATTGAGTTGATATCACAAGTCAACTCAACATTAACCCAG
* * *
37938420 TCAAGAAAATTACTAAAATAATCTTATATATTTAAGATAAAT
66 TCAAGAAAAATACTAAAATAACCTTATATATTTAAAATAAAT
37938462 TAT
1 TAT
37938465 ATTATTACGA
Statistics
Matches: 91, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
106 53 0.58
107 38 0.42
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (107 bp):
TATCTATACTATTATTTAAGTATGTGATTGAGTTGATATCACAAGTCAACTCAACATTAACCCAG
TCAAGAAAAATACTAAAATAACCTTATATATTTAAAATAAAT
Found at i:37938594 original size:2 final size:2
Alignment explanation
Indices: 37938589--37938622 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
37938579 CACCGAAGCT
37938589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37938623 CATTTCAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37939558 original size:33 final size:31
Alignment explanation
Indices: 37939491--37939576 Score: 82
Period size: 33 Copynumber: 2.6 Consensus size: 31
37939481 ATATTTTAAA
* * *
37939491 TAAAAACATAAAAATAAAAAATATATAATTTT
1 TAAAAA-ATAAAAATAAAAAATAAAAAATCTT
*
37939523 TAAAAAATAAAAATATGAAAAGTAAAAAATCTT
1 TAAAAAATAAAAATA--AAAAATAAAAAATCTT
**
37939556 TAAAATTTAAAAATAATAAAA
1 TAAAAAATAAAAATAA-AAAA
37939577 AATACTTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
31 10 0.23
32 9 0.20
33 25 0.57
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (31 bp):
TAAAAAATAAAAATAAAAAATAAAAAATCTT
Found at i:37939565 original size:40 final size:40
Alignment explanation
Indices: 37939488--37939577 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
37939478 TTCATATTTT
* *
37939488 AAATAAAAACATAAAAATAAAAAATATAT-AATTTTTAAA
1 AAATAAAAACATAAAAATAAAAAATATATAAAATTTAAAA
* * * *
37939527 AAATAAAAATATGAAAAGTAAAAAATCTTTAAAATTTAAAA
1 AAATAAAAACAT-AAAAATAAAAAATATATAAAATTTAAAA
37939568 ATAATAAAAA
1 A-AATAAAAA
37939578 ATACTTTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 11 0.26
40 14 0.33
41 9 0.21
42 8 0.19
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (40 bp):
AAATAAAAACATAAAAATAAAAAATATATAAAATTTAAAA
Found at i:37939741 original size:24 final size:24
Alignment explanation
Indices: 37939705--37939750 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
37939695 GGTTTGTATC
37939705 ATTTTTAATATTT-TTTACTTTTG
1 ATTTTTAATATTTATTTACTTTTG
*
37939728 ATTTTTAATAATTTATTTGCTTT
1 ATTTTTAAT-ATTTATTTACTTT
37939751 GAACTAGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (24 bp):
ATTTTTAATATTTATTTACTTTTG
Found at i:37941779 original size:23 final size:23
Alignment explanation
Indices: 37941753--37941828 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
37941743 ATAAGTGCCA
37941753 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
37941776 CACTAATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
37941799 CACTGAGATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
37941822 CACTGAT
1 CACTGAT
37941829 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:37943271 original size:59 final size:60
Alignment explanation
Indices: 37943199--37943332 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 60
37943189 GATTATTATT
* * *
37943199 ATTAGATTTTAATAGGATAATTATCAAAAATAATTTAAT-AAAA-AACAATAAATAATTTA
1 ATTATATTTTAATAGAATAATTAT-AAAAATAATTTAATAAAAATAAAAATAAATAATTTA
* * * * *
37943258 ATTATATTTTAATATAATTATTATTAATATAATTTAATAAAAATAAAAATATATAATTTA
1 ATTATATTTTAATAGAATAATTATAAAAATAATTTAATAAAAATAAAAATAAATAATTTA
*
37943318 ATAATATTTTTAATA
1 ATTATA-TTTTAATA
37943333 TAATTATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
58 12 0.19
59 24 0.38
60 19 0.30
61 8 0.13
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (60 bp):
ATTATATTTTAATAGAATAATTATAAAAATAATTTAATAAAAATAAAAATAAATAATTTA
Found at i:37943275 original size:16 final size:15
Alignment explanation
Indices: 37943251--37943291 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
37943241 AAACAATAAA
* *
37943251 TAATTTAATTATATTT
1 TAATATAATTAT-TAT
37943267 TAATATAATTATTAT
1 TAATATAATTATTAT
37943282 TAATATAATT
1 TAATATAATT
37943292 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATATAATTATTAT
Found at i:37943299 original size:58 final size:61
Alignment explanation
Indices: 37943228--37943340 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 61
37943218 ATTATCAAAA
* *
37943228 ATAATTTAAT-AAAA-AACAATAAATAATTTAATTATA-TTTTAATATAATTATTATTAAT
1 ATAATTTAATAAAAATAAAAATAAATAATTTAATAATATTTTTAATATAATTATTATTAAT
*
37943286 ATAATTTAATAAAAATAAAAATATATAATTTAATAATATTTTTAATATAATTATT
1 ATAATTTAATAAAAATAAAAATAAATAATTTAATAATATTTTTAATATAATTATT
37943341 TTTATATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
58 10 0.20
59 4 0.08
60 19 0.39
61 16 0.33
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (61 bp):
ATAATTTAATAAAAATAAAAATAAATAATTTAATAATATTTTTAATATAATTATTATTAAT
Found at i:37950044 original size:19 final size:18
Alignment explanation
Indices: 37950002--37950045 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
37949992 GGAAAAGGGA
37950002 AATGAGAGAGAGAATGAT
1 AATGAGAGAGAGAATGAT
37950020 AGATGAGAGA-ATGAATGAT
1 A-ATGAGAGAGA-GAATGAT
37950039 GAATGAG
1 -AATGAG
37950046 TGTTGAGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.09
19 20 0.87
20 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.34, T:0.18
Consensus pattern (18 bp):
AATGAGAGAGAGAATGAT
Found at i:37964227 original size:31 final size:29
Alignment explanation
Indices: 37964192--37964262 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
37964182 AACGGCTCAA
* *
37964192 TGACTAAAATGTTACAACATGATAACGTAAG
1 TGACTAAAATGTAAC-ACATGA-AACATAAG
* **
37964223 TGACTAAAACGTAACATTTGAAACATAAG
1 TGACTAAAATGTAACACATGAAACATAAG
37964252 TGACTAAAATG
1 TGACTAAAATG
37964263 CAACCTAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.50
30 4 0.12
31 13 0.38
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (29 bp):
TGACTAAAATGTAACACATGAAACATAAG
Found at i:37965193 original size:16 final size:16
Alignment explanation
Indices: 37965151--37965198 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
37965141 ATTAGTTTAG
*
37965151 AATTAAATTGTAA-TGA
1 AATTTAATT-TAATTGA
*
37965167 AGTTT-ATTTAATTGA
1 AATTTAATTTAATTGA
37965182 AATTTAATTTAATTGA
1 AATTTAATTTAATTGA
37965198 A
1 A
37965199 GAGCCAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 3 0.11
15 10 0.37
16 14 0.52
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (16 bp):
AATTTAATTTAATTGA
Found at i:37965853 original size:35 final size:35
Alignment explanation
Indices: 37965799--37965914 Score: 169
Period size: 35 Copynumber: 3.3 Consensus size: 35
37965789 TGAATTGTTA
*
37965799 TGCTGGATGGTACTTGCTCTTATGAGCAACTGGTG
1 TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
* *
37965834 TGCTAGATGGTAATGGCTCTTATGAGCAACTGGTG
1 TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
* * *
37965869 TGCTGGATGGTACTGACTCTTATGAGTATCTGGTG
1 TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
*
37965904 TGTTGGATGGT
1 TGCTGGATGGT
37965915 TAACCGTGTG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 72 1.00
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.35
Consensus pattern (35 bp):
TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
Found at i:37966225 original size:60 final size:60
Alignment explanation
Indices: 37966131--37966252 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
37966121 TTATTAATCG
*
37966131 AATTATTATGCGTAATTTAGTAAGATTTAGTATTTAATCGATGAACTTACTAAGCTTTAT
1 AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATCGATGAACTTACTAAGCTTTAT
*
37966191 AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATTGATGAACTTACTAAGCTTTAT
1 AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATCGATGAACTTACTAAGCTTTAT
37966251 AA
1 AA
37966253 AAGCTTACTC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.43
Consensus pattern (60 bp):
AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATCGATGAACTTACTAAGCTTTAT
Found at i:37969900 original size:20 final size:20
Alignment explanation
Indices: 37969866--37969903 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37969856 CTCAATTGAG
**
37969866 GATAATTAATTATTTAATTA
1 GATAATTAAAGATTTAATTA
37969886 GATAATTAAAGATTTAAT
1 GATAATTAAAGATTTAAT
37969904 CGATCACAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (20 bp):
GATAATTAAAGATTTAATTA
Found at i:37974108 original size:57 final size:58
Alignment explanation
Indices: 37974025--37974148 Score: 155
Period size: 57 Copynumber: 2.2 Consensus size: 58
37974015 AAATGAATAG
* **
37974025 AAATGGAGAAATAGAAAATATTTGGAAATG-ATTAAGGTTTTCTCCAACTTGAAAATGA
1 AAATGGAAAAATAGAAAATATTTGGAAATGAATT-AGGTTTTCTCCAAAATGAAAATGA
* * *
37974083 AAATGGAAAAAT-G-AAATCATTTGGAAATGAATTTGGTTTTCTCCAAAATGGAAATGG
1 AAATGGAAAAATAGAAAAT-ATTTGGAAATGAATTAGGTTTTCTCCAAAATGAAAATGA
37974140 AAATGGAAA
1 AAATGGAAA
37974149 TGAATGCGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
56 4 0.07
57 40 0.69
58 14 0.24
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.28
Consensus pattern (58 bp):
AAATGGAAAAATAGAAAATATTTGGAAATGAATTAGGTTTTCTCCAAAATGAAAATGA
Found at i:38001418 original size:27 final size:27
Alignment explanation
Indices: 38001178--38001407 Score: 327
Period size: 27 Copynumber: 8.6 Consensus size: 27
38001168 ATACCCTAAA
*
38001178 ATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
38001205 ATAGGATAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
38001232 ATAGGATAAAATGACCGAAATACTCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
**
38001259 ATAGGGTAAAATGACTAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
38001286 ATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
**
38001313 ATAGGGTAAAATGACAAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
** *
38001340 ATAGGGTAAAATGACAAAAATA-TCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
38001366 ATAGGGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
38001393 ATAAGGTAAAATGAC
1 ATAGGGTAAAATGAC
38001408 TGTTATACCC
Statistics
Matches: 182, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 23 0.13
27 159 0.87
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.18
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCC
Found at i:38016740 original size:6 final size:6
Alignment explanation
Indices: 38016724--38016776 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
38016714 AAGGCTTCCA
* * *
38016724 AAAATG GAAATG AAAATG AAAATG AAAATG AAAATG GAAATG GAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
*
38016772 GAAAT
1 AAAAT
38016777 TTGCAATCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:38016747 original size:18 final size:18
Alignment explanation
Indices: 38016724--38016776 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
38016714 AAGGCTTCCA
38016724 AAAATGGAAATGAAAATG
1 AAAATGGAAATGAAAATG
*
38016742 AAAATGAAAATGAAAATG
1 AAAATGGAAATGAAAATG
* *
38016760 GAAATGGAAATGGAAAT
1 AAAATGGAAATGAAAAT
38016777 TTGCAATCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
AAAATGGAAATGAAAATG
Found at i:38023578 original size:252 final size:252
Alignment explanation
Indices: 38023133--38023623 Score: 752
Period size: 252 Copynumber: 1.9 Consensus size: 252
38023123 AAGTATGTAT
* * *
38023133 ACCTTATGCACCACAAGAGTGAAACCTTCAATAAGTTCTAAAAGTTTTGTGCAAAAGTTGAGAAA
1 ACCTTATGCACCACAAGAGTGAAACCTTCAATAAGTTCAAAAAGTTTTGTGCAAAAGTGGAAAAA
*
38023198 CAACTAGGTTTAACCATAAAGACACTTCAGTCTGGTCGAGGTGGGGAATATTTATCTAATTAGTT
66 CAACTAGGTTTAACCATAAAGACACTTCAGTCTGGTCGAGGTGGGGAATATTGATCTAATTAGTT
* * *
38023263 CTTAGGATACCTCATAGAGAATGTGATTCTATCCCAGTTGATTGCACTGGGCACTCCACAATAGA
131 CTTAGGATACCTCATAGAGAATGGGATTCTATCCCAGTTGACTGCACTAGGCACTCCACAATAGA
* * *
38023328 ATGGCATGGAAGAGAGAAGGAATCAAATGTTATTAGACATGGTACGTTTGATGTTAA
196 ATGACATGGAAGAGAGAAAGAATCAAATGTTATTAAACATGGTACGTTTGATGTTAA
* * * *
38023385 ACCTTATGCACTACAATAGTGAAACC-TCTGATTAGTTCAAAAAGTTTTGTGCAGAAA-TGGAAA
1 ACCTTATGCACCACAAGAGTGAAACCTTC-AATAAGTTCAAAAAGTTTTGTGCA-AAAGTGGAAA
* * * *
38023448 AACAACTAGGTTTACCCATAAAGATACTTCGGTCTGGTTGAGGTGGGGAATATTGATCTAATTAG
64 AACAACTAGGTTTAACCATAAAGACACTTCAGTCTGGTCGAGGTGGGGAATATTGATCTAATTAG
* *
38023513 TTTTTAGGGTACCTCATAGAGAATGGGATTCTATCCCAGTTGACTGCACTAGGCACTCCACAATA
129 TTCTTAGGATACCTCATAGAGAATGGGATTCTATCCCAGTTGACTGCACTAGGCACTCCACAATA
**
38023578 GAATGATGTGGAAGAGAGAAAGAATCAAATGTTATTAAACATGGTA
194 GAATGACATGGAAGAGAGAAAGAATCAAATGTTATTAAACATGGTA
38023624 TGTTCAATGT
Statistics
Matches: 215, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
251 2 0.01
252 210 0.98
253 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (252 bp):
ACCTTATGCACCACAAGAGTGAAACCTTCAATAAGTTCAAAAAGTTTTGTGCAAAAGTGGAAAAA
CAACTAGGTTTAACCATAAAGACACTTCAGTCTGGTCGAGGTGGGGAATATTGATCTAATTAGTT
CTTAGGATACCTCATAGAGAATGGGATTCTATCCCAGTTGACTGCACTAGGCACTCCACAATAGA
ATGACATGGAAGAGAGAAAGAATCAAATGTTATTAAACATGGTACGTTTGATGTTAA
Found at i:38028933 original size:28 final size:28
Alignment explanation
Indices: 38028870--38028992 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
38028860 ATATTAAGTC
*
38028870 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
38028897 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
38028925 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38028953 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
38028982 CGCACACTTAG
1 CGCACACTTAG
38028993 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38033158 original size:104 final size:103
Alignment explanation
Indices: 38032979--38033244 Score: 453
Period size: 104 Copynumber: 2.6 Consensus size: 103
38032969 TGTATATAAA
** *
38032979 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATGGTGGTGCTATGTGCG-TGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGAT-ATCCACCATATCTT
38033043 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
38033082 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGATATCCACCATATCTT
38033147 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
38033186 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGATATCCACCA
38033245 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
103 28 0.18
104 125 0.81
105 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGATATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:38040142 original size:104 final size:105
Alignment explanation
Indices: 38039896--38040163 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
38039886 TTGTATATAA
** *
38039896 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
38039960 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
38040001 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
38040066 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
38040105 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
38040164 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 85 0.55
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:38060686 original size:26 final size:26
Alignment explanation
Indices: 38060651--38060701 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
38060641 AATGTGAAAG
*
38060651 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
38060677 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
38060702 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:38060713 original size:103 final size:104
Alignment explanation
Indices: 38060573--38060795 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
38060563 TGTATATAAA
** * *
38060573 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
38060637 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
38060676 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
38060741 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
38060780 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
38060796 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:38060847 original size:71 final size:72
Alignment explanation
Indices: 38060714--38060865 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
38060704 TCATTGGTGG
* *
38060714 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
38060779 GAGGGGT
66 GAGGGGT
***
38060786 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
38060850 GAGGGGT
66 GAGGGGT
38060857 TGCTAAGTG
1 TGCTAAGTG
38060866 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:38070773 original size:25 final size:25
Alignment explanation
Indices: 38070718--38070809 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 25
38070708 TCTAACCCAT
* * *
38070718 AGCTCATGTGAGCATACCGAGTT-AT
1 AGCTCGTGAGAGCATACCGA-TTCAC
* *
38070743 AACTCGTGAGAGCATACTGA-TCTAC
1 AGCTCGTGAGAGCATACCGATTC-AC
* *
38070768 AGCTCGAGTGAGCATACCGATTCAC
1 AGCTCGTGAGAGCATACCGATTCAC
38070793 AGCTCGT-ATGAGCATAC
1 AGCTCGTGA-GAGCATAC
38070810 ATGTACATGA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
23 1 0.02
25 49 0.94
26 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTCAC
Found at i:38073814 original size:51 final size:51
Alignment explanation
Indices: 38073759--38074040 Score: 247
Period size: 51 Copynumber: 5.6 Consensus size: 51
38073749 GATGAACATG
* * * *
38073759 TGTGTAGTACTGTGTGGAGGCTACTACGTGAATCGATGAATGACGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGACGGTCACA
* * * * * * ** **
38073810 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGACGGTCACA
* *
38073861 TGTGTAGTAC--TGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGACGGTCACA
* * * ***
38073910 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGTTTTGGTCA-A
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA-TGACGGTCACA
* *
38073960 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA--ACTTGATTACA
1 -TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGAC--GGTCACA
38074011 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
38074041 TATCTAATGA
Statistics
Matches: 184, Mismatches: 37, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
48 1 0.01
49 37 0.20
50 37 0.20
51 108 0.59
52 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGACGGTCACA
Found at i:38073930 original size:100 final size:101
Alignment explanation
Indices: 38073755--38074034 Score: 402
Period size: 100 Copynumber: 2.8 Consensus size: 101
38073745 TATCGATGAA
* * *
38073755 CATGTGTGTAGTACTGTGTGGAGGCTACTACGTGAATCGATGAATGACGGTCACATGTGTAGTAC
1 CATGTGTGTAGTACT-TGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
38073820 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
65 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
38073857 CATGTGTGTAGTAC-TGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACT
1 CATGTGTGTAGTACTTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACT
* *
38073921 AAGTGAAGGCTACTATGTGTACCGAAAAGTTTTGGT
66 AAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
* * *** * *
38073957 CAAGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATTACATGTGTAGTAC
1 CATGTGTGTAGTACT-TGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
38074021 TATGTGAAGGCTAC
65 TAAGTGAAGGCTAC
38074035 TACGTGTATC
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
100 93 0.57
101 33 0.20
102 36 0.22
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (101 bp):
CATGTGTGTAGTACTTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACT
AAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
Found at i:38074306 original size:37 final size:38
Alignment explanation
Indices: 38074237--38074309 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
38074227 ATGTGTGGAA
* **
38074237 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
38074275 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
38074310 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:38092261 original size:17 final size:17
Alignment explanation
Indices: 38092239--38092271 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38092229 TAGGGGTCGC
38092239 TTGAATTAAATTAATTA
1 TTGAATTAAATTAATTA
*
38092256 TTGAATTAATTTAATT
1 TTGAATTAAATTAATT
38092272 CGATAATCAA
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:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TTGAATTAAATTAATTA
Found at i:38099852 original size:15 final size:16
Alignment explanation
Indices: 38099832--38099861 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38099822 TAACAACTAA
38099832 TATATAAT-TATATTT
1 TATATAATATATATTT
38099847 TATATAATATATATT
1 TATATAATATATATT
38099862 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:38100030 original size:130 final size:130
Alignment explanation
Indices: 38099797--38100039 Score: 282
Period size: 130 Copynumber: 1.9 Consensus size: 130
38099787 AGGTTTTTAA
* ** *
38099797 TTTTTATTTTTAATAAATAGGATACTAACAACTAATATATAATTATATTTTATATAATATATATT
1 TTTTTATTTTTAATAAATAAGATAAAAACAAATAATATATAATTATATTTTATAT-ATATATATT
* *
38099862 AATTGTTATTAACCTTTTATAATATTAGAATTGTTAA-TTATT-TTATCATTATTCTACCTAAGA
65 AATTGTTATTAACCTTTTATAACATTAGAATAGTTAATTTATTATTATCATTATTCTACCTAAGA
38099925 G
130 G
*
38099926 TTTTTATTTTTAAATAAATAAGATAAAAATAAATAATATATTAA-TATATTTT-TAT-TATATAT
1 TTTTTATTTTT-AATAAATAAGATAAAAACAAATAATATA-TAATTATATTTTATATATATATAT
** * *
38099988 TAATTGTTATT-TTCTTTATATAGCATTAAGAGTAGTACTAATTTATTATTAT
64 TAATTGTTATTAACCTTT-TATAACATT-AGAATAGT--TAATTTATTATTAT
38100040 TTTCCTTTAG
Statistics
Matches: 95, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
126 4 0.04
127 25 0.26
128 6 0.06
129 14 0.15
130 34 0.36
131 8 0.08
132 4 0.04
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (130 bp):
TTTTTATTTTTAATAAATAAGATAAAAACAAATAATATATAATTATATTTTATATATATATATTA
ATTGTTATTAACCTTTTATAACATTAGAATAGTTAATTTATTATTATCATTATTCTACCTAAGAG
Found at i:38101983 original size:12 final size:12
Alignment explanation
Indices: 38101966--38101992 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38101956 AGTTCTTCAA
38101966 GAATTTTCTCTT
1 GAATTTTCTCTT
38101978 GAATTTTCTCTT
1 GAATTTTCTCTT
38101990 GAA
1 GAA
38101993 GTAGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (12 bp):
GAATTTTCTCTT
Found at i:38113793 original size:45 final size:45
Alignment explanation
Indices: 38113715--38113848 Score: 182
Period size: 45 Copynumber: 3.0 Consensus size: 45
38113705 TATTCGTCCG
* *
38113715 ATTCATGATGCCATTAAAGTCTTTTAGCTATGGTCTTACTCGTTACA
1 ATTCATGATGCCA-TAACGTCTTTCAGCTATGGTCTTACTCGTTA-A
* * *
38113762 A-TCATGATACCATAACGTCTTTCAGTTATGGTCTTACTCATTAA
1 ATTCATGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTTAA
38113806 ATTCATGATGCCATAACGTCTTTC-GACTATGGTCTTACTCGTT
1 ATTCATGATGCCATAACGTCTTTCAG-CTATGGTCTTACTCGTT
38113849 TTTGGTATGA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
44 3 0.04
45 63 0.82
46 10 0.13
47 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (45 bp):
ATTCATGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTTAA
Found at i:38115359 original size:24 final size:24
Alignment explanation
Indices: 38115332--38115380 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
38115322 GGAACACATT
38115332 GCCTTTATTTAAATGTTTTTTTAG
1 GCCTTTATTTAAATGTTTTTTTAG
38115356 GCCTTTATTTAAATGTTTTTTTAG
1 GCCTTTATTTAAATGTTTTTTTAG
38115380 G
1 G
38115381 AACATGCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.57
Consensus pattern (24 bp):
GCCTTTATTTAAATGTTTTTTTAG
Found at i:38119086 original size:13 final size:13
Alignment explanation
Indices: 38119065--38119128 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
38119055 ACACTCAAAT
38119065 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
38119078 TTCTCAAAAGCAT
1 TTTTCAAAAGCAC
*
38119091 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
*
38119104 TTTTGAAAAGCAC
1 TTTTCAAAAGCAC
38119117 TTTTCAAAAGCA
1 TTTTCAAAAGCA
38119129 ATAAAGAACT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 3 0.07
13 34 0.83
14 4 0.10
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:38120788 original size:5 final size:5
Alignment explanation
Indices: 38120778--38120817 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
38120768 TTTTATATGT
38120778 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
38120818 GTGTAGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:38122320 original size:30 final size:31
Alignment explanation
Indices: 38122260--38122320 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
38122250 GGGTTGGGAG
* * *
38122260 GGGAGGGGAGTAAAAGTTTTGGGGGTAAAGT
1 GGGAGGGGAGTAAAAATTTTGGGAGAAAAGT
38122291 GGGA-GGGAGTAAAAATTTTGGGAGAAAAGT
1 GGGAGGGGAGTAAAAATTTTGGGAGAAAAGT
38122321 AAAAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.44, T:0.21
Consensus pattern (31 bp):
GGGAGGGGAGTAAAAATTTTGGGAGAAAAGT
Found at i:38122384 original size:9 final size:9
Alignment explanation
Indices: 38122370--38122406 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
38122360 TATAATTTGA
38122370 TATTCGAAT
1 TATTCGAAT
38122379 TATTCGAAT
1 TATTCGAAT
* *
38122388 TATTTGAGT
1 TATTCGAAT
38122397 TATTCGAAT
1 TATTCGAAT
38122406 T
1 T
38122407 CAAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:38132116 original size:61 final size:59
Alignment explanation
Indices: 38132046--38132223 Score: 155
Period size: 61 Copynumber: 2.9 Consensus size: 59
38132036 TTGTTAAATT
38132046 ATATTTAATAATAATTATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 ATATTTAATAATAA-TATTTTATA-TATTATATATTATGATTTTAGTAAATTCATATAAGA
* * * * ** * * * *
38132107 ATATTTAATACTAAGAATTTTATTAAATTATATATTTTTG-TTAAATTATATTTA-ATAATA
1 ATATTTAATAATAA-TATTTTA-TATATTATATA-TTATGATTTTAGTAAATTCATATAAGA
* * *
38132167 ATTATTTTA-AATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
1 A-TATTTAATAATAATATTTTAT-ATATTATATATTATGATTTTAGTAAATTCATATA
38132224 TTTTATCAAA
Statistics
Matches: 88, Mismatches: 23, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
58 4 0.05
59 24 0.27
60 12 0.14
61 42 0.48
62 6 0.07
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (59 bp):
ATATTTAATAATAATATTTTATATATTATATATTATGATTTTAGTAAATTCATATAAGA
Found at i:38132176 original size:26 final size:25
Alignment explanation
Indices: 38132138--38132196 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
38132128 ATTAAATTAT
*
38132138 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
38132164 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
38132190 ATATTAT
1 ATATTAT
38132197 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:38132195 original size:15 final size:15
Alignment explanation
Indices: 38132151--38132206 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
38132141 TTTTTGTTAA
*
38132151 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
38132166 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
38132177 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
38132192 ATTATATATTATAAT
1 ATTATATTTTATAAT
38132207 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:38132224 original size:41 final size:40
Alignment explanation
Indices: 38132061--38132246 Score: 122
Period size: 41 Copynumber: 4.6 Consensus size: 40
38132051 TAATAATAAT
* *
38132061 TATTTTATAGTATTATATATTATGATTTTAGTAAATTCATA
1 TATTTTATAATATTATATATTATAATTTTAGTAAATT-ATA
* * * *
38132102 TA----AGAATATT-TAATACTAAGAATTTTATTAAATTATA
1 TATTTTATAATATTAT-ATA-TTATAATTTTAGTAAATTATA
* **
38132139 TATTTTTGTTAA-ATTATAT-TTAATAATAATTATTTTAAA-T-TA
1 TA-TTTT-ATAATATTATATATT-ATAAT--TT-TAGTAAATTATA
38132181 TATTTTATAATATTATATATTATAATTTTAGTAAATTCATA
1 TATTTTATAATATTATATATTATAATTTTAGTAAATT-ATA
38132222 TATTTTATCAA-ATTATATATTATAA
1 TATTTTAT-AATATTATATATTATAA
38132247 AAAATATATA
Statistics
Matches: 112, Mismatches: 14, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
36 1 0.01
37 14 0.12
38 19 0.17
39 3 0.03
40 4 0.04
41 46 0.41
42 13 0.12
43 6 0.05
44 6 0.05
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (40 bp):
TATTTTATAATATTATATATTATAATTTTAGTAAATTATA
Found at i:38132228 original size:18 final size:17
Alignment explanation
Indices: 38132199--38132242 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
38132189 AATATTATAT
38132199 ATTATA-ATTTTAGT-AA
1 ATTATATATTTTA-TCAA
38132215 ATTCATATATTTTATCAA
1 ATT-ATATATTTTATCAA
38132233 ATTATATATT
1 ATTATATATT
38132243 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 11 0.44
18 11 0.44
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTATATATTTTATCAA
Found at i:38132447 original size:39 final size:40
Alignment explanation
Indices: 38132404--38132508 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
38132394 TTCCATTATG
38132404 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
38132443 CTATTACGCCTCTATTCCGTTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
38132488 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
38132509 ACACCTTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:38132502 original size:45 final size:43
Alignment explanation
Indices: 38132402--38132511 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
38132392 TTTTCCATTA
38132402 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCTTACATTCAACCAAACACAAGAT
* * ***
38132441 TACTATTACGCCTCTATTCCGTTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCC-TTACATTCAACCAAACACAAGA-T
38132486 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCC-TTACA
38132512 CCTTTAATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 24 0.42
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCTTACATTCAACCAAACACAAGAT
Found at i:38132511 original size:16 final size:16
Alignment explanation
Indices: 38132492--38132543 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
38132482 GATTTGCTAT
* *
38132492 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
38132508 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
38132524 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38132540 TACA
1 TACA
38132544 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:38138924 original size:31 final size:31
Alignment explanation
Indices: 38138886--38138947 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
38138876 ATCTGACGTG
*
38138886 TAAGTCCGTAAATATTACTATTTAATATTTA
1 TAAGTCCGTAAATATTACAATTTAATATTTA
38138917 TAAGTCCGTAAATATTACAATTTAATATTTA
1 TAAGTCCGTAAATATTACAATTTAATATTTA
38138948 CGAGTCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (31 bp):
TAAGTCCGTAAATATTACAATTTAATATTTA
Found at i:38140639 original size:19 final size:19
Alignment explanation
Indices: 38140615--38140658 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
38140605 ATTTTGAAGT
*
38140615 TGAAAATACA-TGTTTGTTA
1 TGAAAA-ACAGTGTTTATTA
*
38140634 TGAAAAACAGTGTTTATTG
1 TGAAAAACAGTGTTTATTA
38140653 TGAAAA
1 TGAAAA
38140659 CTTATTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (19 bp):
TGAAAAACAGTGTTTATTA
Found at i:38141231 original size:27 final size:27
Alignment explanation
Indices: 38141199--38141277 Score: 140
Period size: 27 Copynumber: 2.9 Consensus size: 27
38141189 GTACAATATA
38141199 TGTGGCAAAGCCACCAGTAACAGTAAT
1 TGTGGCAAAGCCACCAGTAACAGTAAT
*
38141226 TGTGGCAAAGCCACCAATAACAGTAAT
1 TGTGGCAAAGCCACCAGTAACAGTAAT
*
38141253 TGTGGCAAAACCACCAGTAACAGTA
1 TGTGGCAAAGCCACCAGTAACAGTA
38141278 CTTTCTCCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (27 bp):
TGTGGCAAAGCCACCAGTAACAGTAAT
Found at i:38141476 original size:26 final size:26
Alignment explanation
Indices: 38141447--38141498 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
38141437 ACGGTCATTC
* *
38141447 TACCCTTCGGGGGTATTTCGATAATT
1 TACCCATCGAGGGTATTTCGATAATT
38141473 TACCCATCGAGGGTATTTCGATAATT
1 TACCCATCGAGGGTATTTCGATAATT
38141499 AAGGCCCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (26 bp):
TACCCATCGAGGGTATTTCGATAATT
Found at i:38147905 original size:20 final size:19
Alignment explanation
Indices: 38147880--38147921 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
38147870 TTTAAAGTTG
*
38147880 AAAATACGTGTTTGTTATGA
1 AAAATA-GTATTTGTTATGA
*
38147900 AAAATAGTATTTGTTGTGA
1 AAAATAGTATTTGTTATGA
38147919 AAA
1 AAA
38147922 CTTATTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (19 bp):
AAAATAGTATTTGTTATGA
Found at i:38148276 original size:33 final size:34
Alignment explanation
Indices: 38148204--38148276 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 34
38148194 CGACCCCTTT
* *
38148204 CAGTATCAGTGTGGGCCTCAGCCCAATATAATTTA
1 CAGTATCAGTGCGGGCCTCAGCCCAATATAA-TAA
*
38148239 -AGTAT-AGTGCGGGCCTTAGCCCAATATAGA-AA
1 CAGTATCAGTGCGGGCCTCAGCCCAATATA-ATAA
38148271 CAGTAT
1 CAGTAT
38148277 GGGCCTAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
32 1 0.03
33 26 0.79
34 6 0.18
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTGCGGGCCTCAGCCCAATATAATAA
Found at i:38148441 original size:26 final size:26
Alignment explanation
Indices: 38148406--38148455 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
38148396 CCCACACACC
* *
38148406 AATATTGCAGCAGAGTTGCCAGTAAT
1 AATATCGCAGCAGAGCTGCCAGTAAT
*
38148432 AATATCGCAGTAGAGCTGCCAGTA
1 AATATCGCAGCAGAGCTGCCAGTA
38148456 GAGTATGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (26 bp):
AATATCGCAGCAGAGCTGCCAGTAAT
Found at i:38152351 original size:28 final size:28
Alignment explanation
Indices: 38152319--38152374 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
38152309 TAACACAGAG
38152319 TAAGCATTTAAGCTTAGTAAGTTCATAT
1 TAAGCATTTAAGCTTAGTAAGTTCATAT
38152347 TAAGCATTTAAGCTTAGTAAGTTCATAT
1 TAAGCATTTAAGCTTAGTAAGTTCATAT
38152375 AACATAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (28 bp):
TAAGCATTTAAGCTTAGTAAGTTCATAT
Found at i:38152798 original size:25 final size:25
Alignment explanation
Indices: 38152770--38152842 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
38152760 GTTTGCTCTC
**
38152770 CCAAGCTGAATAATGGTAAGCTCCT
1 CCAAGCTGAATAACAGTAAGCTCCT
*
38152795 CCAAGCTGAATAACAGTAAGCTCAT
1 CCAAGCTGAATAACAGTAAGCTCCT
* * * *
38152820 ACGAGCTGAGTATCAGTAAGCTC
1 CCAAGCTGAATAACAGTAAGCTC
38152843 ATAAGAGCTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (25 bp):
CCAAGCTGAATAACAGTAAGCTCCT
Found at i:38152843 original size:25 final size:25
Alignment explanation
Indices: 38152798--38152854 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
38152788 AGCTCCTCCA
*
38152798 AGCTGAATAACAGTAAGCTCATACG
1 AGCTGAATAACAGTAAGCTCATAAG
* *
38152823 AGCTGAGTATCAGTAAGCTCATAAG
1 AGCTGAATAACAGTAAGCTCATAAG
38152848 AGCTGAA
1 AGCTGAA
38152855 ATCGGTAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (25 bp):
AGCTGAATAACAGTAAGCTCATAAG
Found at i:38162339 original size:33 final size:30
Alignment explanation
Indices: 38162294--38162388 Score: 88
Period size: 33 Copynumber: 3.0 Consensus size: 30
38162284 GGTAGCAGTC
*
38162294 TGGGCCTGAGCCCTATTCAGTAACAGTACAATG
1 TGGGCCTTAGCCC-A-TCA-TAACAGTACAATG
38162327 TGGGCCTTAGCCCA--AT-ACAGTAACAATG
1 TGGGCCTTAGCCCATCATAACAGT-ACAATG
*
38162355 TGGGCCTTAGCCCAATACAATATCAGTACAATG
1 TGGGCCTTAGCCC-AT-C-ATAACAGTACAATG
38162388 T
1 T
38162389 AGTAATGCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
27 5 0.09
28 20 0.38
29 2 0.04
32 1 0.02
33 21 0.40
34 4 0.08
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (30 bp):
TGGGCCTTAGCCCATCATAACAGTACAATG
Found at i:38162346 original size:27 final size:28
Alignment explanation
Indices: 38162316--38162373 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
38162306 CTATTCAGTA
38162316 ACAGT-ACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
38162343 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
38162371 ACA
1 ACA
38162374 ATATCAGTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:38162513 original size:26 final size:26
Alignment explanation
Indices: 38162484--38162534 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
38162474 AACACACCAA
*
38162484 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGCAACAG
*
38162510 TATCGTAGCAAAGCTGCCAGCAACA
1 TATCGCAGCAAAGCTGCCAGCAACA
38162535 TTATACTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGCAACAG
Found at i:38163971 original size:17 final size:17
Alignment explanation
Indices: 38163949--38163985 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
38163939 TTTACACAAA
38163949 ACCAAAATGAAG-AGTAT
1 ACCAAAATG-AGCAGTAT
38163966 ACCAAAATGAGCAGTAT
1 ACCAAAATGAGCAGTAT
38163983 ACC
1 ACC
38163986 CCTCTGGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (17 bp):
ACCAAAATGAGCAGTAT
Found at i:38170206 original size:17 final size:17
Alignment explanation
Indices: 38170174--38170208 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
38170164 AGACATAATC
* *
38170174 TAAAAATTTTAGGGTTT
1 TAAAAATTTAAAGGTTT
38170191 TAAAAATTTAAAGGTTT
1 TAAAAATTTAAAGGTTT
38170208 T
1 T
38170209 GAAAGGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (17 bp):
TAAAAATTTAAAGGTTT
Found at i:38180410 original size:16 final size:15
Alignment explanation
Indices: 38180365--38180421 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 15
38180355 AAGGTGATAC
38180365 TTTCATTTTTTTTCATT
1 TTTCA-TTTTTTTC-TT
**
38180382 TTTGTTTTATTTTCTT
1 TTTCATTT-TTTTCTT
38180398 TTATCATTTTTTTCTT
1 TT-TCATTTTTTTCTT
38180414 TTTCATTT
1 TTTCATTT
38180422 CGAAATAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 6 0.18
16 16 0.47
17 12 0.35
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTCATTTTTTTCTT
Found at i:38181442 original size:25 final size:24
Alignment explanation
Indices: 38181402--38181448 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
38181392 TAAATCACCT
* *
38181402 ACATTTTTATTTTTATTTATTTGC
1 ACATTTTTATTATTATCTATTTGC
38181426 ACATTTATTATTATTATCTATTT
1 ACATTT-TTATTATTATCTATTT
38181449 TTCCTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (24 bp):
ACATTTTTATTATTATCTATTTGC
Found at i:38186997 original size:143 final size:143
Alignment explanation
Indices: 38186738--38187061 Score: 425
Period size: 143 Copynumber: 2.3 Consensus size: 143
38186728 GAAAACCCAA
* * * * *
38186738 CCTTATCTTCCTAAAGTTGTAGCAGAGCAAACTGAAGACAGCGAATCTTATTTCCCCGGCATTAC
1 CCTTATCTCCCTAAAGTTGCAGCGGAGCAAACTGAAGACAGCGAATATTAGTTCCCCGGCATTAC
* * * * * **
38186803 AATGGAACAGATTAAAGCTACAAGTTATGACAGATTTTATCTTCCTGAAGTTGTAGTGGATTAGA
66 AATGGAACAGATTAAAGCTACAAATTATGACAAATATTATCTTCCTAAAGTTGCAGTGGAGCAGA
38186868 TTGAAGCCACCAG
131 TTGAAGCCACCAG
* * * * *
38186881 CCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATATTAGTTCCCTGGCGTTGC
1 CCTTATCTCCCTAAAGTTGCAGCGGAGCAAACTGAAGACAGCGAATATTAGTTCCCCGGCATTAC
* * *
38186946 AGTGGAATACG-TTAAAGCTACAAATTATGGCAAATATTATCTTCCTAAAGTTGCAGTGGAGCAG
66 AATGGAACA-GATTAAAGCTACAAATTATGACAAATATTATCTTCCTAAAGTTGCAGTGGAGCAG
*
38187010 ATTGAAGCCACTAG
130 ATTGAAGCCACCAG
* *
38187024 CCTTATCTCCCTAAAGTTGCAGTGGAGAAAACTGAAGA
1 CCTTATCTCCCTAAAGTTGCAGCGGAGCAAACTGAAGA
38187062 TAGTGAATCT
Statistics
Matches: 155, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
143 154 0.99
144 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (143 bp):
CCTTATCTCCCTAAAGTTGCAGCGGAGCAAACTGAAGACAGCGAATATTAGTTCCCCGGCATTAC
AATGGAACAGATTAAAGCTACAAATTATGACAAATATTATCTTCCTAAAGTTGCAGTGGAGCAGA
TTGAAGCCACCAG
Found at i:38187777 original size:12 final size:12
Alignment explanation
Indices: 38187760--38187785 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38187750 TGATACTTCA
38187760 TTTTATTTTATT
1 TTTTATTTTATT
38187772 TTTTATTTTATT
1 TTTTATTTTATT
38187784 TT
1 TT
38187786 ATCATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:38187805 original size:15 final size:16
Alignment explanation
Indices: 38187760--38187807 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
38187750 TGATACTTCA
**
38187760 TTTTATTTTATTTTTT
1 TTTTATTTTATCATTT
38187776 ATTTTATTTTATCATTT
1 -TTTTATTTTATCATTT
*
38187793 TTTTCTTTT-TCATTT
1 TTTTATTTTATCATTT
38187808 CTAAATAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 6 0.21
16 8 0.29
17 14 0.50
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTTATCATTT
Found at i:38190627 original size:19 final size:19
Alignment explanation
Indices: 38190584--38190642 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
38190574 AGTGAAATAT
* *
38190584 AATGTTATTTACTTCAATAA
1 AATGTTATTTAATT-AATTA
38190604 AATGTTATTTAATTAATTA
1 AATGTTATTTAATTAATTA
38190623 AATGTTATTTAATTAATTA
1 AATGTTATTTAATTAATTA
38190642 A
1 A
38190643 TTTGTGAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
19 24 0.65
20 13 0.35
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (19 bp):
AATGTTATTTAATTAATTA
Found at i:38195045 original size:13 final size:13
Alignment explanation
Indices: 38195027--38195057 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
38195017 TTGCGAAGCT
*
38195027 TACTTTGCCTATG
1 TACTTTGCATATG
38195040 TACTTTGCATATG
1 TACTTTGCATATG
38195053 TACTT
1 TACTT
38195058 GATAGTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (13 bp):
TACTTTGCATATG
Found at i:38195656 original size:11 final size:11
Alignment explanation
Indices: 38195623--38195655 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
38195613 GTTAAGTTCC
38195623 AGTGTCAGAAA
1 AGTGTCAGAAA
*
38195634 AGTTTCAGAAA
1 AGTGTCAGAAA
38195645 AGTGTCA-AAA
1 AGTGTCAGAAA
38195655 A
1 A
38195656 ATATTCGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.21
Consensus pattern (11 bp):
AGTGTCAGAAA
Found at i:38197873 original size:25 final size:25
Alignment explanation
Indices: 38197845--38197893 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
38197835 TATAGTTTTT
38197845 ATATTAT-TTATAAAGGTTATAATAC
1 ATATTATATTAT-AAGGTTATAATAC
*
38197870 ATATTATATTATAATGTTATAATA
1 ATATTATATTATAAGGTTATAATA
38197894 AAACAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (25 bp):
ATATTATATTATAAGGTTATAATAC
Found at i:38203643 original size:15 final size:15
Alignment explanation
Indices: 38203619--38203648 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38203609 GATTTCTTGT
38203619 TTTTCATTTATTTAC
1 TTTTCATTTATTTAC
*
38203634 TTTTCTTTTATTTAC
1 TTTTCATTTATTTAC
38203649 CTCCTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCATTTATTTAC
Found at i:38206500 original size:29 final size:29
Alignment explanation
Indices: 38206453--38206742 Score: 185
Period size: 29 Copynumber: 9.9 Consensus size: 29
38206443 TTGATGGTCG
*
38206453 TCACCATCCCTTTTCATAATCGATAG-CC
1 TCACTATCCCTTTTCATAATCGATAGTCC
** * *
38206481 AAAGCTATCCCTTTTCATAATTCGATGGTCT
1 TCA-CTATCCCTTTTCATAA-TCGATAGTCC
* * * * *
38206512 TTACTATCCTTTTTCATAGTTGATGGTCC
1 TCACTATCCCTTTTCATAATCGATAGTCC
* * ** * *
38206541 TCACGATCCCTTTTCATAGTTAATGGTCG
1 TCACTATCCCTTTTCATAATCGATAGTCC
*
38206570 TCACCATCCCCTTTT-ATAATCGATAG-CC
1 TCACTAT-CCCTTTTCATAATCGATAGTCC
** * * *
38206598 GAAGCTATCCCTTTTCATAGTTCGATGGTCA
1 TCA-CTATCCCTTTTCATA-ATCGATAGTCC
*
38206629 TCACCATCCCTTTTCATAATCGATAG--C
1 TCACTATCCCTTTTCATAATCGATAGTCC
* * * *
38206656 TGAATCTATCCCTTTTCATAATTTGATGGTCG
1 T-CA-CTATCCCTTTTCATAA-TCGATAGTCC
* * * *
38206688 TCACCATCCCTTTTCATAGTTGATAGTCG
1 TCACTATCCCTTTTCATAATCGATAGTCC
*
38206717 TCACCATCCCTTTTCATAATCGATAG
1 TCACTATCCCTTTTCATAATCGATAG
38206743 CCAAAACTAT
Statistics
Matches: 204, Mismatches: 45, Indels: 25
0.74 0.16 0.09
Matches are distributed among these distances:
27 1 0.00
28 11 0.05
29 120 0.59
30 66 0.32
31 5 0.02
32 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (29 bp):
TCACTATCCCTTTTCATAATCGATAGTCC
Done.