Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 129 of 145
Found at i:43151513 original size:27 final size:27
Alignment explanation
Indices: 43151478--43151536 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
43151468 ACCATCTCCT
*
43151478 CAGCAACAA-ACGCAGCAACTGCAGCAG
1 CAGCAACAACAC-CAGCAACAGCAGCAG
*
43151505 CAGCAACAACACCAGCAGCAGCAGCAG
1 CAGCAACAACACCAGCAACAGCAGCAG
43151532 CAGCA
1 CAGCA
43151537 GCAGCAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.41, C:0.36, G:0.22, T:0.02
Consensus pattern (27 bp):
CAGCAACAACACCAGCAACAGCAGCAG
Found at i:43156322 original size:28 final size:28
Alignment explanation
Indices: 43156263--43156323 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
43156253 ACGTGCCATT
* * *
43156263 TTTATCACCCATGGGATTATATTAAGGT
1 TTTATCACCCATGGGATTATAATAAAGA
*
43156291 TTTATCACTCATGGGATTATAATAAAGA
1 TTTATCACCCATGGGATTATAATAAAGA
43156319 TTTAT
1 TTTAT
43156324 GATGAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (28 bp):
TTTATCACCCATGGGATTATAATAAAGA
Found at i:43157017 original size:34 final size:33
Alignment explanation
Indices: 43156963--43157041 Score: 124
Period size: 34 Copynumber: 2.4 Consensus size: 33
43156953 ATGAAGTTCC
*
43156963 AAGCTTGATCAA-GGACGAATTGGAGATCATGG
1 AAGCTTGATTAAGGGACGAATTGGAGATCATGG
43156995 AAGCTTGATTAAGTGGACGAATTGGAGATCATGG
1 AAGCTTGATTAAG-GGACGAATTGGAGATCATGG
*
43157029 AAGATTGATTAAG
1 AAGCTTGATTAAG
43157042 CAATGTAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
32 11 0.26
34 32 0.74
ACGTcount: A:0.35, C:0.09, G:0.30, T:0.25
Consensus pattern (33 bp):
AAGCTTGATTAAGGGACGAATTGGAGATCATGG
Found at i:43157163 original size:22 final size:24
Alignment explanation
Indices: 43157111--43157163 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 24
43157101 TTAGCGATTA
*
43157111 TGAAATTGATGTTATATATAAGTG
1 TGAAATTGATGCTATATATAAGTG
** *
43157135 TTTAATTG-TGCTA-ATATTAGTG
1 TGAAATTGATGCTATATATAAGTG
43157157 TGAAATT
1 TGAAATT
43157164 TTATGGCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 13 0.57
23 4 0.17
24 6 0.26
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (24 bp):
TGAAATTGATGCTATATATAAGTG
Found at i:43162809 original size:22 final size:21
Alignment explanation
Indices: 43162783--43162830 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
43162773 TGTGTCATCA
*
43162783 TCACACAGCCGTGTGCCTTCTC
1 TCACACAGCCATGTGCC-TCTC
* *
43162805 TCACACAGGCATGTGCCTCTT
1 TCACACAGCCATGTGCCTCTC
43162826 TCACA
1 TCACA
43162831 TGGGCGTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.19, C:0.38, G:0.17, T:0.27
Consensus pattern (21 bp):
TCACACAGCCATGTGCCTCTC
Found at i:43167145 original size:16 final size:15
Alignment explanation
Indices: 43167118--43167153 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
43167108 GTTTGCTTTA
43167118 CATTTTTTATTTTTT
1 CATTTTTTATTTTTT
43167133 CATTTTATTATTTTTT
1 CATTTT-TTATTTTTT
43167149 CATTT
1 CATTT
43167154 CTTTTCCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (15 bp):
CATTTTTTATTTTTT
Found at i:43180354 original size:20 final size:20
Alignment explanation
Indices: 43180301--43180354 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
43180291 TATTTAAGCT
*
43180301 AAAGTAAGTAAATACAATGG
1 AAAGTAAGTAAATGCAATGG
43180321 AAAGTAAGTAAATGCAATGG
1 AAAGTAAGTAAATGCAATGG
43180341 AAAGTAAGTAAATG
1 AAAGTAAGTAAATG
43180355 GAAGGGTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.54, C:0.04, G:0.22, T:0.20
Consensus pattern (20 bp):
AAAGTAAGTAAATGCAATGG
Found at i:43185980 original size:14 final size:14
Alignment explanation
Indices: 43185963--43185990 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43185953 GTTTGTCAAT
43185963 TTGGCTGCTGGAAA
1 TTGGCTGCTGGAAA
43185977 TTGGCTGCTGGAAA
1 TTGGCTGCTGGAAA
43185991 ATACGGACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (14 bp):
TTGGCTGCTGGAAA
Found at i:43200548 original size:76 final size:75
Alignment explanation
Indices: 43200468--43200607 Score: 165
Period size: 76 Copynumber: 1.9 Consensus size: 75
43200458 GTATAACGGG
* * * *
43200468 AAGCTCTTGCGAGGCAAATATCGGGAAGCTCATACGAGAGCCATA-AACGGGAAGCTCAAAAGAG
1 AAGCTCATGAGAGCCAAATATCGGGAAGCCCAT--GAGAGCCATATAACGGGAAGCTCAAAAGAG
43200532 CCATTAATTGAA
64 CCATTAATTGAA
* * * * * *
43200544 AAGCTCATGAGAGCCAACTATTGGGAAGCCCGTGAGAGCCATATAACTGGATGCTCATAAGAGC
1 AAGCTCATGAGAGCCAAATATCGGGAAGCCCATGAGAGCCATATAACGGGAAGCTCAAAAGAGC
43200608 TAAATAACGG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
74 10 0.19
75 17 0.32
76 26 0.49
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.18
Consensus pattern (75 bp):
AAGCTCATGAGAGCCAAATATCGGGAAGCCCATGAGAGCCATATAACGGGAAGCTCAAAAGAGCC
ATTAATTGAA
Found at i:43210042 original size:42 final size:41
Alignment explanation
Indices: 43209905--43210053 Score: 147
Period size: 42 Copynumber: 3.6 Consensus size: 41
43209895 GTTACTCGGT
* * * *
43209905 GGAATCAGCGCTTAGCAACCAC-TTATAATCAGTGATACGG
1 GGAATCAGCACTTAGCAACCCCTTTACAATCAATGATACGG
* * * *
43209945 GGAATTAGCACATAGCAACCCCTTTCACAATCAAGGATACGCT
1 GGAATCAGCACTTAGCAACCCCTTT-ACAATCAATGATACG-G
* * * * *
43209988 GGAATCAACACTTATCAACCACCTTTAGAATCAATAATTCGG
1 GGAATCAGCACTTAGCAACC-CCTTTACAATCAATGATACGG
43210030 GGAATCAGCACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCCCTT
43210054 AAGGAATCTG
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
40 18 0.21
41 6 0.07
42 30 0.35
43 27 0.31
44 5 0.06
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTTACAATCAATGATACGG
Found at i:43210059 original size:26 final size:26
Alignment explanation
Indices: 43210030--43210079 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
43210020 AATAATTCGG
43210030 GGAATCAGCACTTAGCAACCCCTTAA
1 GGAATCAGCACTTAGCAACCCCTTAA
* *
43210056 GGAATCTGCACTTAGCTACCCCTT
1 GGAATCAGCACTTAGCAACCCCTT
43210080 TTTGATCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (26 bp):
GGAATCAGCACTTAGCAACCCCTTAA
Found at i:43210101 original size:41 final size:41
Alignment explanation
Indices: 43210056--43210202 Score: 240
Period size: 41 Copynumber: 3.6 Consensus size: 41
43210046 AACCCCTTAA
*
43210056 GGAATCTGCACTTAGCTACCCCTTTTTGATCAGAGTTTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTTTCGG
* *
43210097 GGAATTTGCACTTAGCAACCCCTTTTTGATCAGAGTTTTGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTTTCGG
* * *
43210138 GGAATCTGCACTTAGCTACCCCTTTTTGATCAGCGATTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTTTCGG
43210179 GGAATCTGCACTTAGCAACCCCTT
1 GGAATCTGCACTTAGCAACCCCTT
43210203 ACATTCAATG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (41 bp):
GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTTTCGG
Found at i:43211830 original size:13 final size:13
Alignment explanation
Indices: 43211812--43211839 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43211802 AGCGGAAAAT
43211812 TGACCATGTTAAA
1 TGACCATGTTAAA
43211825 TGACCATGTTAAA
1 TGACCATGTTAAA
43211838 TG
1 TG
43211840 TGGTCAACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGACCATGTTAAA
Found at i:43218007 original size:20 final size:20
Alignment explanation
Indices: 43217954--43217998 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
43217944 AGCTCGGTTT
* *
43217954 AGCTCACCTGAGTTTAATTC
1 AGCTCACATGAGCTTAATTC
43217974 AGCTCACATGAGCTTAATTC
1 AGCTCACATGAGCTTAATTC
43217994 AGCTC
1 AGCTC
43217999 GTTTGAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (20 bp):
AGCTCACATGAGCTTAATTC
Found at i:43228102 original size:15 final size:16
Alignment explanation
Indices: 43228077--43228106 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43228067 AGAGAAAAAT
43228077 AAAAGTGAAAATGAAG
1 AAAAGTGAAAATGAAG
43228093 AAAA-TGAAAATGAA
1 AAAAGTGAAAATGAA
43228107 AAAGGCGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (16 bp):
AAAAGTGAAAATGAAG
Found at i:43237686 original size:25 final size:26
Alignment explanation
Indices: 43237657--43237719 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 26
43237647 GAGCATTCTC
43237657 TTATCTTT-ATCTTCTATTCTTTTAT
1 TTATCTTTAATCTTCTATTCTTTTAT
43237682 TTATCTTTTGTTAATCTTCTATTCTTTTAT
1 TTATC---T-TTAATCTTCTATTCTTTTAT
43237712 TTATCTTT
1 TTATCTTT
43237720 TGTTAATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 1 0.03
28 1 0.03
29 2 0.06
30 22 0.67
ACGTcount: A:0.16, C:0.14, G:0.02, T:0.68
Consensus pattern (26 bp):
TTATCTTTAATCTTCTATTCTTTTAT
Found at i:43237701 original size:30 final size:30
Alignment explanation
Indices: 43237665--43237729 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
43237655 TCTTATCTTT
43237665 ATCTTCTATTCTTTTATTTATCTTTTGTTA
1 ATCTTCTATTCTTTTATTTATCTTTTGTTA
43237695 ATCTTCTATTCTTTTATTTATCTTTTGTTA
1 ATCTTCTATTCTTTTATTTATCTTTTGTTA
43237725 ATCTT
1 ATCTT
43237730 ACCAATTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.17, C:0.14, G:0.03, T:0.66
Consensus pattern (30 bp):
ATCTTCTATTCTTTTATTTATCTTTTGTTA
Found at i:43249903 original size:20 final size:20
Alignment explanation
Indices: 43249861--43249897 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43249851 GTACCCCGAT
*
43249861 CATGTGGAAGCCTACACACC
1 CATGTGAAAGCCTACACACC
43249881 CATGTGAAAG-CTACACA
1 CATGTGAAAGCCTACACA
43249898 TGCCATTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.16
Consensus pattern (20 bp):
CATGTGAAAGCCTACACACC
Found at i:43250772 original size:5 final size:5
Alignment explanation
Indices: 43250762--43250798 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
43250752 TCATACTTCC
*
43250762 AAAAT AAAAT AAAAT AAAAT AAAAT AATA- AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
43250799 TAATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:43253912 original size:17 final size:17
Alignment explanation
Indices: 43253890--43253922 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43253880 TTAATTTAAA
43253890 TAAATAAATTT-CTCAAT
1 TAAAT-AATTTACTCAAT
43253907 TAAATAATTTACTCAA
1 TAAATAATTTACTCAA
43253923 ACGAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATAATTTACTCAAT
Found at i:43266927 original size:199 final size:200
Alignment explanation
Indices: 43266576--43266974 Score: 791
Period size: 199 Copynumber: 2.0 Consensus size: 200
43266566 AACACAATAT
43266576 AAATAATAATATTTATTTAAATACTAGAATTAACGTATATCAATTTTTTTATTTTAGATTTGACC
1 AAATAATAATATTTATTTAAATACTAGAATTAACGTATATCAATTTTTTTATTTTAGATTTGACC
43266641 AACACCTGATAGTAGATCTAAAGCAAATCGACCATTAAAGAACGCCCACACTTGGATCTAATCAA
66 AACACCTGATAGTAGATCTAAAGCAAATCGACCATTAAAGAACGCCCACACTTGGATCTAATCAA
43266706 TAGGTCAACTACTTATCAACAAACGTGATTTCTCATTAGGGAGGTTGTTTTTAACGATTTATAAA
131 TAGGTCAACTACTTATCAACAAACGTGATTTCTCATTAGGGAGGTTGTTTTTAACGATTTATAAA
43266771 ATAAG
196 ATAAG
43266776 AAATAATAAT-TTTATTTAAATACTAGAATTAACGTATATCAATTTTTTTATTTTAGATTTGACC
1 AAATAATAATATTTATTTAAATACTAGAATTAACGTATATCAATTTTTTTATTTTAGATTTGACC
43266840 AACACCTGATAGTAGATCTAAAGCAAATCGACCATTAAAGAACGCCCACACTTGGATCTAATCAA
66 AACACCTGATAGTAGATCTAAAGCAAATCGACCATTAAAGAACGCCCACACTTGGATCTAATCAA
43266905 TAGGTCAACTACTTATCAACAAACGTGATTTCTCATTAGGGAGGTTGTTTTTAACGATTTATAAA
131 TAGGTCAACTACTTATCAACAAACGTGATTTCTCATTAGGGAGGTTGTTTTTAACGATTTATAAA
43266970 ATAAG
196 ATAAG
43266975 TCAATTTAAT
Statistics
Matches: 199, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
199 189 0.95
200 10 0.05
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (200 bp):
AAATAATAATATTTATTTAAATACTAGAATTAACGTATATCAATTTTTTTATTTTAGATTTGACC
AACACCTGATAGTAGATCTAAAGCAAATCGACCATTAAAGAACGCCCACACTTGGATCTAATCAA
TAGGTCAACTACTTATCAACAAACGTGATTTCTCATTAGGGAGGTTGTTTTTAACGATTTATAAA
ATAAG
Found at i:43267582 original size:11 final size:11
Alignment explanation
Indices: 43267546--43267588 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
43267536 AGGAGAGTGA
43267546 TGGTCACGGTAG
1 TGGTC-CGGTAG
*
43267558 TGGTCCGGCAG
1 TGGTCCGGTAG
*
43267569 TGGTCCGGTGG
1 TGGTCCGGTAG
*
43267580 TGGTGCGGT
1 TGGTCCGGT
43267589 TAATTAATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.07, C:0.19, G:0.49, T:0.26
Consensus pattern (11 bp):
TGGTCCGGTAG
Found at i:43272386 original size:33 final size:33
Alignment explanation
Indices: 43272343--43272407 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
43272333 GTTTATTAAC
43272343 TTTACTTCAGCTCAAATAAGTGTTAGTAATTAT
1 TTTACTTCAGCTCAAATAAGTGTTAGTAATTAT
* *
43272376 TTTAGTTCAGCTTAAATAAGTGTTAGTAATTA
1 TTTACTTCAGCTCAAATAAGTGTTAGTAATTA
43272408 ATTTGTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (33 bp):
TTTACTTCAGCTCAAATAAGTGTTAGTAATTAT
Found at i:43273866 original size:10 final size:10
Alignment explanation
Indices: 43273851--43273891 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
43273841 TCATAACGTG
43273851 AAAAAAATC-
1 AAAAAAATCA
*
43273860 AAAAAAATAA
1 AAAAAAATCA
43273870 AAAAAAATCA
1 AAAAAAATCA
43273880 AAAGAAAATCA
1 AAA-AAAATCA
43273891 A
1 A
43273892 GTTGTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 8 0.29
10 12 0.43
11 8 0.29
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.10
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:43273882 original size:11 final size:11
Alignment explanation
Indices: 43273851--43273891 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
43273841 TCATAACGTG
43273851 AAAAAAATC--
1 AAAAAAATCAA
43273860 AAAAAAAT-AA
1 AAAAAAATCAA
43273870 AAAAAAATCAA
1 AAAAAAATCAA
*
43273881 AAGAAAATCAA
1 AAAAAAATCAA
43273892 GTTGTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 8 0.29
10 8 0.29
11 12 0.43
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.10
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:43274887 original size:18 final size:18
Alignment explanation
Indices: 43274864--43274915 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
43274854 CGAAGAGGAA
**
43274864 GAAAAAGAAATAGAAAGT
1 GAAAAAGAAATAGAAAAC
43274882 GAAAAAGAAATAGAAAAC
1 GAAAAAGAAATAGAAAAC
*
43274900 GAAAAAGAAAAAGAAA
1 GAAAAAGAAATAGAAA
43274916 TTGCAAGCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (18 bp):
GAAAAAGAAATAGAAAAC
Found at i:43274916 original size:24 final size:24
Alignment explanation
Indices: 43274882--43274933 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
43274872 AATAGAAAGT
43274882 GAAAAAGAAATAGAAAACGAAAAA
1 GAAAAAGAAATAGAAAACGAAAAA
* * *
43274906 GAAAAAGAAATTGCAAGCGAAAAA
1 GAAAAAGAAATAGAAAACGAAAAA
43274930 GAAA
1 GAAA
43274934 TCGAAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.69, C:0.06, G:0.19, T:0.06
Consensus pattern (24 bp):
GAAAAAGAAATAGAAAACGAAAAA
Found at i:43274933 original size:6 final size:6
Alignment explanation
Indices: 43274862--43274915 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
43274852 AACGAAGAGG
* ** * *
43274862 AAGAAA AAGAAA TAGAAA GTGAAA AAGAAA TAGAAA ACGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
43274910 AAGAAA
1 AAGAAA
43274916 TTGCAAGCGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.06
Consensus pattern (6 bp):
AAGAAA
Found at i:43274951 original size:42 final size:42
Alignment explanation
Indices: 43274862--43274957 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
43274852 AACGAAGAGG
* *
43274862 AAGAAAAAGAAATAGAAAGTGAAAAAGAAATAGAAAACGAAA
1 AAGAAAAAGAAATAGAAAGCGAAAAAGAAATAGAAAAAGAAA
* * * **
43274904 AAGAAAAAGAAATTGCAAGCGAAAAAGAAATCGAAAAAGTGA
1 AAGAAAAAGAAATAGAAAGCGAAAAAGAAATAGAAAAAGAAA
*
43274946 GAGAAAAAGAAA
1 AAGAAAAAGAAA
43274958 AAAAAGAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.68, C:0.04, G:0.21, T:0.07
Consensus pattern (42 bp):
AAGAAAAAGAAATAGAAAGCGAAAAAGAAATAGAAAAAGAAA
Found at i:43279942 original size:26 final size:27
Alignment explanation
Indices: 43279908--43279969 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
43279898 AGGGGTAAAA
*
43279908 CGGTAATTTTACCCCTAG-GGGTATTT
1 CGGTCATTTTACCCCTAGAGGGTATTT
* * *
43279934 TGGTCATTTTACCCTTTGAGGGTATTT
1 CGGTCATTTTACCCCTAGAGGGTATTT
43279961 CGGTCATTT
1 CGGTCATTT
43279970 AACAACATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.44
Consensus pattern (27 bp):
CGGTCATTTTACCCCTAGAGGGTATTT
Found at i:43290773 original size:27 final size:30
Alignment explanation
Indices: 43290702--43290773 Score: 78
Period size: 33 Copynumber: 2.4 Consensus size: 30
43290692 ATCCAGATTT
43290702 TATATTAAATAAATGTTATTAACAATAACAA
1 TATATTAAA-AAATGTTATTAACAATAACAA
*
43290733 TATTTAGTTTAAAAATGTTATTAACAATAA-AA
1 TA--TA-TTAAAAAATGTTATTAACAATAACAA
43290765 -A-ATTAAAAA
1 TATATTAAAAA
43290774 TAAACTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
27 6 0.17
28 1 0.03
31 3 0.08
32 2 0.06
33 20 0.56
34 4 0.11
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (30 bp):
TATATTAAAAAATGTTATTAACAATAACAA
Found at i:43300852 original size:11 final size:11
Alignment explanation
Indices: 43300838--43300862 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43300828 TATTTAAGAT
43300838 TTAATTAATTA
1 TTAATTAATTA
43300849 TTAATTAATTA
1 TTAATTAATTA
43300860 TTA
1 TTA
43300863 CAAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATTAATTA
Found at i:43301774 original size:27 final size:28
Alignment explanation
Indices: 43301725--43301786 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
43301715 ATAATAATAA
* *
43301725 TTTTATATTAATGTGTATGA-TTTAGGG
1 TTTTATATTAACGTGTATAATTTTAGGG
43301752 TTTTATATTAACGTTGT-TAATTTTAGGG
1 TTTTATATTAACG-TGTATAATTTTAGGG
43301780 TTTTATA
1 TTTTATA
43301787 AATTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 14 0.45
28 17 0.55
ACGTcount: A:0.26, C:0.02, G:0.18, T:0.55
Consensus pattern (28 bp):
TTTTATATTAACGTGTATAATTTTAGGG
Found at i:43302784 original size:139 final size:140
Alignment explanation
Indices: 43302605--43302885 Score: 555
Period size: 139 Copynumber: 2.0 Consensus size: 140
43302595 TTAATATTAA
43302605 ATTTAAGTTTAAATTTATTATATTTTAAAAAATATCTATGTATTTTTATATATTTTCTTGAATTT
1 ATTTAAGTTTAAATTTATTATATTTTAAAAAATATCTATGTATTTTTATATATTTTCTTGAATTT
43302670 TTTAGAATTAGGATCAAATTGAAACTATTAGTAAATTTTGAAGGTAATTTTTTTTAAAATTATTA
66 TTTAGAATTAGGATCAAATTGAAACTATTAGTAAATTTTGAAGGTAATTTTTTTTAAAATTATTA
43302735 CTAAATTGAT
131 CTAAATTGAT
43302745 ATTTAAGTTT-AATTTATTATATTTTAAAAAATATCTATGTATTTTTATATATTTTCTTGAATTT
1 ATTTAAGTTTAAATTTATTATATTTTAAAAAATATCTATGTATTTTTATATATTTTCTTGAATTT
43302809 TTTAGAATTAGGATCAAATTGAAACTATTAGTAAATTTTGAAGGTAATTTTTTTTAAAATTATTA
66 TTTAGAATTAGGATCAAATTGAAACTATTAGTAAATTTTGAAGGTAATTTTTTTTAAAATTATTA
43302874 CTAAATTGAT
131 CTAAATTGAT
43302884 AT
1 AT
43302886 AAAATGTAAT
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
139 131 0.93
140 10 0.07
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.50
Consensus pattern (140 bp):
ATTTAAGTTTAAATTTATTATATTTTAAAAAATATCTATGTATTTTTATATATTTTCTTGAATTT
TTTAGAATTAGGATCAAATTGAAACTATTAGTAAATTTTGAAGGTAATTTTTTTTAAAATTATTA
CTAAATTGAT
Found at i:43304705 original size:210 final size:210
Alignment explanation
Indices: 43304336--43304758 Score: 724
Period size: 210 Copynumber: 2.0 Consensus size: 210
43304326 ATAGAGGATG
* *
43304336 CGATAAGTAAATACAACTTCTATGTTTCTTAACGATATTGCGCTTTTATGGTGGCGAGGCAGGTC
1 CGATAAGTAAATACAACTTCCATGTTTCTTAACGATATTGCGCTTTTATGGTGGCGAGGCAAGTC
43304401 CACAGATAAAAGGCATAGTGAGATTCGGATATGGGAAGAGTTCCAACATGAGTTAATGGGGTAGT
66 CACAGATAAAAGGCATAGTGAGATTCGGATATGGGAAGAGTTCCAACATGAGTTAATGGGGTAGT
* *
43304466 TTTATCCAGAATTTGGTGAGGGCGAAGCTCGAGCAAAGTTTCAATAGCTTACGCAATGAGGCACA
131 TTTATCCAAAATTTGGCGAGGGCGAAGCTCGAGCAAAGTTTCAATAGCTTACGCAATGAGGCACA
43304531 ATGAGGGAGTATGTT
196 ATGAGGGAGTATGTT
* * *
43304546 CGATAAGTAAATACTACTTCCATGTTTCTTAATGATATTGCGCTTTTATGGTGGTGAGGCAAGTC
1 CGATAAGTAAATACAACTTCCATGTTTCTTAACGATATTGCGCTTTTATGGTGGCGAGGCAAGTC
*
43304611 CACAGATAAAAGGCATAGTGAGATTCGGATGTGGGAAGAGTTCCAACATGAGTTAAAT-GGGTAG
66 CACAGATAAAAGGCATAGTGAGATTCGGATATGGGAAGAGTTCCAACATGAGTT-AATGGGGTAG
*
43304675 TTTTATCCAAAATTTGGCGAGGAG-GAAGCTCGAGCAAAGTTTCAATGGCTTACGCAATGAGGCA
130 TTTTATCCAAAATTTGGCGAGG-GCGAAGCTCGAGCAAAGTTTCAATAGCTTACGCAATGAGGCA
*
43304739 CAATGGGGGAGTATGTT
194 CAATGAGGGAGTATGTT
43304756 CGA
1 CGA
43304759 GAGTTCAAGG
Statistics
Matches: 201, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
210 197 0.98
211 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (210 bp):
CGATAAGTAAATACAACTTCCATGTTTCTTAACGATATTGCGCTTTTATGGTGGCGAGGCAAGTC
CACAGATAAAAGGCATAGTGAGATTCGGATATGGGAAGAGTTCCAACATGAGTTAATGGGGTAGT
TTTATCCAAAATTTGGCGAGGGCGAAGCTCGAGCAAAGTTTCAATAGCTTACGCAATGAGGCACA
ATGAGGGAGTATGTT
Found at i:43309671 original size:24 final size:23
Alignment explanation
Indices: 43309653--43309696 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
43309643 TAAATATGTT
43309653 TATTTACAGTTTATTAAATTAAG
1 TATTTACAGTTTATTAAATTAAG
*
43309676 TGTTTACAGTTTATT-AATTAA
1 TATTTACAGTTTATTAAATTAA
43309697 ACTTAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (23 bp):
TATTTACAGTTTATTAAATTAAG
Found at i:43309790 original size:74 final size:74
Alignment explanation
Indices: 43309698--43309845 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
43309688 ATTAATTAAA
*
43309698 CTTAATAAGTTTAGTGTGTTAAAATGTGTTTTAATGTGTTTGTTAATAACTGCTTGCAGGTGACT
1 CTTAATAAGTTTAGTGTGTTAAAATGTGTTTTAATGTGTTTGTTAATAAATGCTTGCAGGTGACT
43309763 ATTTAGTTG
66 ATTTAGTTG
* *
43309772 CTTATTAAGTTTAGTGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATGCTTGCAGGTGACT
1 CTTAATAAGTTTAGTGTGTTAAAATGTGTTTTAATGTGTTTGTTAATAAATGCTTGCAGGTGACT
*
43309837 ATTTGGTTG
66 ATTTAGTTG
43309846 GAATCAATTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.47
Consensus pattern (74 bp):
CTTAATAAGTTTAGTGTGTTAAAATGTGTTTTAATGTGTTTGTTAATAAATGCTTGCAGGTGACT
ATTTAGTTG
Found at i:43309971 original size:45 final size:45
Alignment explanation
Indices: 43309915--43310006 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
43309905 GGCTACATAC
*
43309915 AAGGGGCTGTTACATCAATTAAAGGACAA-CATTATACATCATTTA
1 AAGGAGCTGTTACATCAATTAAAGGA-AATCATTATACATCATTTA
* * *
43309960 AAGGAGCTGTTATATCATTTAAAGGAAATCATTATACATCCTTTA
1 AAGGAGCTGTTACATCAATTAAAGGAAATCATTATACATCATTTA
43310005 AA
1 AA
43310007 ATTCGGCAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 2 0.05
45 40 0.95
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (45 bp):
AAGGAGCTGTTACATCAATTAAAGGAAATCATTATACATCATTTA
Found at i:43310006 original size:24 final size:24
Alignment explanation
Indices: 43309925--43310006 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
43309915 AAGGGGCTGT
*
43309925 TACATCAATTAAAGGACAA-CATTA
1 TACATCATTTAAAGGA-AATCATTA
** *
43309949 TACATCATTTAAAGGAGCT-GTTA
1 TACATCATTTAAAGGAAATCATTA
43309972 T--ATCATTTAAAGGAAATCATTA
1 TACATCATTTAAAGGAAATCATTA
*
43309994 TACATCCTTTAAA
1 TACATCATTTAAA
43310007 ATTCGGCAGC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 14 0.30
22 4 0.09
23 4 0.09
24 24 0.52
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (24 bp):
TACATCATTTAAAGGAAATCATTA
Found at i:43316118 original size:50 final size:51
Alignment explanation
Indices: 43316043--43316194 Score: 180
Period size: 50 Copynumber: 2.9 Consensus size: 51
43316033 NNNNNNCATA
* * *
43316043 TCGGTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTC-ATC
1 TCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAATC
* *
43316093 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATC
1 TCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC--AATC
* * *
43316146 TCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TC---GGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
43316195 TTACCCAAAT
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
50 42 0.48
53 5 0.06
56 41 0.47
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (51 bp):
TCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAATC
Found at i:43318887 original size:74 final size:74
Alignment explanation
Indices: 43318795--43318942 Score: 233
Period size: 74 Copynumber: 2.0 Consensus size: 74
43318785 ATTAATTAAA
*
43318795 CTTATTAAGTTTAGTGTGTTAAAAAGTTTTTTAATGTATTTGTTAATAAATGCTTGCAAATGACT
1 CTTATTAAGTTTAGTGTGTTAAAAAGTGTTTTAATGTATTTGTTAATAAATGCTTGCAAATGACT
43318860 ATTTAGTTG
66 ATTTAGTTG
* * * **
43318869 CTTATTAAGTTTAGTGTGTTAAAATGTGTTTTAGTGTGTTTGTTAATAAATGCTTGCAGGTGACT
1 CTTATTAAGTTTAGTGTGTTAAAAAGTGTTTTAATGTATTTGTTAATAAATGCTTGCAAATGACT
*
43318934 ATTTGGTTG
66 ATTTAGTTG
43318943 GAATCAGTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.47
Consensus pattern (74 bp):
CTTATTAAGTTTAGTGTGTTAAAAAGTGTTTTAATGTATTTGTTAATAAATGCTTGCAAATGACT
ATTTAGTTG
Found at i:43328944 original size:13 final size:13
Alignment explanation
Indices: 43328926--43328992 Score: 107
Period size: 13 Copynumber: 5.2 Consensus size: 13
43328916 AGGGCCTGGC
*
43328926 ACACAGGCGTGTG
1 ACACAGCCGTGTG
43328939 ACACAGCCGTGTG
1 ACACAGCCGTGTG
*
43328952 ACACAGGCGTGTG
1 ACACAGCCGTGTG
*
43328965 ACACAGCCATGTG
1 ACACAGCCGTGTG
43328978 ACACAGCCGTGTG
1 ACACAGCCGTGTG
43328991 AC
1 AC
43328993 CCTACTTAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACAGCCGTGTG
Found at i:43330676 original size:52 final size:51
Alignment explanation
Indices: 43330545--43330676 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
43330535 ATGTGTTCTG
* * * *
43330545 CATTTAATAAAGTCATGCACTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
* * *
43330596 CA-TAAATTATGACATGCATTATGCAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCAT
* *
43330647 CATTAAATTAAGTTATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
43330677 ATTTGTTCAT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
50 31 0.46
51 14 0.21
52 22 0.33
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:43330862 original size:53 final size:53
Alignment explanation
Indices: 43330804--43330912 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
43330794 AGTTAAAGTG
43330804 TGTTTATTTTCATTTTAAATAAGGTGATTTAAGTTGCATGTTCAATTAATTAA
1 TGTTTATTTTCATTTTAAATAAGGTGATTTAAGTTGCATGTTCAATTAATTAA
*
43330857 TGTTTATTTTCATTTTAAATAAGGTGATTTAAGTTTCATGTTCAATTAATTAA
1 TGTTTATTTTCATTTTAAATAAGGTGATTTAAGTTGCATGTTCAATTAATTAA
43330910 TGT
1 TGT
43330913 GCATGAGTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (53 bp):
TGTTTATTTTCATTTTAAATAAGGTGATTTAAGTTGCATGTTCAATTAATTAA
Found at i:43330894 original size:26 final size:26
Alignment explanation
Indices: 43330811--43330895 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
43330801 GTGTGTTTAT
43330811 TTTCATTTTAAATAAGGTGATTTAAG
1 TTTCATTTTAAATAAGGTGATTTAAG
* * * * * * *
43330837 TTGCATGTTCAATTAA-TTAATGTTTAT
1 TTTCAT-TTTAAATAAGGTGAT-TTAAG
43330864 TTTCATTTTAAATAAGGTGATTTAAG
1 TTTCATTTTAAATAAGGTGATTTAAG
43330890 TTTCAT
1 TTTCAT
43330896 GTTCAATTAA
Statistics
Matches: 42, Mismatches: 14, Indels: 6
0.68 0.23 0.10
Matches are distributed among these distances:
26 24 0.57
27 18 0.43
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (26 bp):
TTTCATTTTAAATAAGGTGATTTAAG
Found at i:43331399 original size:36 final size:36
Alignment explanation
Indices: 43331352--43331427 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
43331342 GCTGAATATG
43331352 ATACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATA
1 ATACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATA
*
43331388 ATACAAGAGTTAACAAAGAAATTAGTGCTTGTAATA
1 ATACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATA
43331424 ATAC
1 ATAC
43331428 TAGTTAATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.28
Consensus pattern (36 bp):
ATACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATA
Found at i:43332939 original size:21 final size:20
Alignment explanation
Indices: 43332915--43332971 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
43332905 TGATAATGAG
*
43332915 AGAAAATGAGTGAAAAATAAA
1 AGAAAATGAGAGAAAAA-AAA
* **
43332936 AGAAATTGAGAGATGAAAAA
1 AGAAAATGAGAGAAAAAAAA
43332956 AG-AAATGAGAGAAAAA
1 AGAAAATGAGAGAAAAA
43332972 GAAATTTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 11 0.38
20 5 0.17
21 13 0.45
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (20 bp):
AGAAAATGAGAGAAAAAAAA
Found at i:43332971 original size:17 final size:19
Alignment explanation
Indices: 43332933--43332971 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
43332923 AGTGAAAAAT
43332933 AAAAGAAATTGAGAGATGAA
1 AAAAGAAATTGAGAGA-GAA
43332953 AAAAGAAA-TGAGAGA-AA
1 AAAAGAAATTGAGAGAGAA
43332970 AA
1 AA
43332972 GAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (19 bp):
AAAAGAAATTGAGAGAGAA
Found at i:43334223 original size:12 final size:12
Alignment explanation
Indices: 43334198--43334236 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
43334188 ACTCGCTTCT
* *
43334198 TTACTTACTCAC
1 TTACTTGCTTAC
*
43334210 TTACTTGTTTAC
1 TTACTTGCTTAC
43334222 TTACTTGCTTAC
1 TTACTTGCTTAC
43334234 TTA
1 TTA
43334237 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:43335047 original size:30 final size:30
Alignment explanation
Indices: 43335013--43335071 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
43335003 TCCTTGACTC
43335013 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * *
43335043 AAACTTTTGCATAATTACACTTTTGCCCC
1 AAACTTTGGAAAAATTACAATTTTGCCCC
43335072 AAAGCTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:43345587 original size:14 final size:14
Alignment explanation
Indices: 43345568--43345594 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43345558 AATTTCTTTA
43345568 ATATTTTATTTAAG
1 ATATTTTATTTAAG
43345582 ATATTTTATTTAA
1 ATATTTTATTTAA
43345595 ATAAATAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
ATATTTTATTTAAG
Found at i:43351466 original size:3 final size:3
Alignment explanation
Indices: 43351458--43351489 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
43351448 GGCATCAGTT
43351458 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
43351490 TACTGAAGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:43354469 original size:40 final size:41
Alignment explanation
Indices: 43354394--43354474 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 41
43354384 TCGTGTTATA
* * *
43354394 CTTTCTGTTTGGCGTGTTTCGAGTGGACTAGCTCTTATGAG
1 CTTTCTGTTTGGCATATTTCGAGTGGACTAACTCTTATGAG
* *
43354435 CTTT-TGTTTGGCATATTTCG-GTTGGATTAACTCTTGTGAG
1 CTTTCTGTTTGGCATATTTCGAG-TGGACTAACTCTTATGAG
43354475 GTTATGTCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.03
40 29 0.85
41 4 0.12
ACGTcount: A:0.14, C:0.15, G:0.27, T:0.44
Consensus pattern (41 bp):
CTTTCTGTTTGGCATATTTCGAGTGGACTAACTCTTATGAG
Found at i:43358688 original size:49 final size:50
Alignment explanation
Indices: 43358549--43358688 Score: 167
Period size: 49 Copynumber: 2.8 Consensus size: 50
43358539 AAAACACCAC
* *
43358549 TTGTGGACAAGCCACCACTGATTTGCAGATAAATTGCCACTGATAATACT
1 TTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACTGATAACACT
* * * * * *
43358599 TTGTAGACACGCCACCACT-AGTATGCATATATACTGCCACTGA-AACATT
1 TTGTGGACAAGCCACCACTGA-TTTGCAGATAAACTGCCACTGATAACACT
* *
43358648 TTGTGGACAAGCCACCATTGATTTGCAGATAAACTACCACT
1 TTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACT
43358689 TACTTCCACC
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
49 37 0.51
50 36 0.49
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (50 bp):
TTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACTGATAACACT
Found at i:43386050 original size:13 final size:14
Alignment explanation
Indices: 43386032--43386060 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
43386022 AAAATTGCTT
43386032 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
43386045 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
43386059 AA
1 AA
43386061 GCCACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:43391633 original size:12 final size:12
Alignment explanation
Indices: 43391616--43391644 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
43391606 GAGATCGAGC
43391616 AACAATTAAAGG
1 AACAATTAAAGG
43391628 AACAATTAAAGG
1 AACAATTAAAGG
43391640 AACAA
1 AACAA
43391645 AGGTTTGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (12 bp):
AACAATTAAAGG
Found at i:43410890 original size:394 final size:394
Alignment explanation
Indices: 43410162--43410951 Score: 1580
Period size: 394 Copynumber: 2.0 Consensus size: 394
43410152 AGTTGAAATG
43410162 GTAAGTTTTGTTTGTGAATTACAAACTTACTAAGCATTACATGCTTACTTCGTGTTATTTTTTGT
1 GTAAGTTTTGTTTGTGAATTACAAACTTACTAAGCATTACATGCTTACTTCGTGTTATTTTTTGT
43410227 GTGTGTCTAGATAATCGGAAGCTTGTTCGGGTTGGAAGTTGTCTGAGGTTTCATCACTCTATCCA
66 GTGTGTCTAGATAATCGGAAGCTTGTTCGGGTTGGAAGTTGTCTGAGGTTTCATCACTCTATCCA
43410292 TTGGTTATATCGGTATATTTTGAAAGTTTTGTGTCATGGGTATAATGGCATGTATATGTGTTTTG
131 TTGGTTATATCGGTATATTTTGAAAGTTTTGTGTCATGGGTATAATGGCATGTATATGTGTTTTG
43410357 TTTGATGAATTCTAGCCATTAAGTGCGGATAATATATTTGTCATTATAGTTTATGATCTTTTTGG
196 TTTGATGAATTCTAGCCATTAAGTGCGGATAATATATTTGTCATTATAGTTTATGATCTTTTTGG
43410422 TATGATCTATATTTATGTGGCATTTTGTTTAGTTGTTAAATTGATGTTGTGTTGGTTAAGATAAT
261 TATGATCTATATTTATGTGGCATTTTGTTTAGTTGTTAAATTGATGTTGTGTTGGTTAAGATAAT
43410487 GGTAAGGAAATGTTGGTGGGAATGATTTAGTAGCAATTTATTGTTGATGTGGAATGAATGTAGCA
326 GGTAAGGAAATGTTGGTGGGAATGATTTAGTAGCAATTTATTGTTGATGTGGAATGAATGTAGCA
43410552 TAAT
391 TAAT
43410556 GTAAGTTTTGTTTGTGAATTACAAACTTACTAAGCATTACATGCTTACTTCGTGTTATTTTTTGT
1 GTAAGTTTTGTTTGTGAATTACAAACTTACTAAGCATTACATGCTTACTTCGTGTTATTTTTTGT
43410621 GTGTGTCTAGATAATCGGAAGCTTGTTCGGGTTGGAAGTTGTCTGAGGTTTCATCACTCTATCCA
66 GTGTGTCTAGATAATCGGAAGCTTGTTCGGGTTGGAAGTTGTCTGAGGTTTCATCACTCTATCCA
43410686 TTGGTTATATCGGTATATTTTGAAAGTTTTGTGTCATGGGTATAATGGCATGTATATGTGTTTTG
131 TTGGTTATATCGGTATATTTTGAAAGTTTTGTGTCATGGGTATAATGGCATGTATATGTGTTTTG
43410751 TTTGATGAATTCTAGCCATTAAGTGCGGATAATATATTTGTCATTATAGTTTATGATCTTTTTGG
196 TTTGATGAATTCTAGCCATTAAGTGCGGATAATATATTTGTCATTATAGTTTATGATCTTTTTGG
43410816 TATGATCTATATTTATGTGGCATTTTGTTTAGTTGTTAAATTGATGTTGTGTTGGTTAAGATAAT
261 TATGATCTATATTTATGTGGCATTTTGTTTAGTTGTTAAATTGATGTTGTGTTGGTTAAGATAAT
43410881 GGTAAGGAAATGTTGGTGGGAATGATTTAGTAGCAATTTATTGTTGATGTGGAATGAATGTAGCA
326 GGTAAGGAAATGTTGGTGGGAATGATTTAGTAGCAATTTATTGTTGATGTGGAATGAATGTAGCA
43410946 TAAT
391 TAAT
43410950 GT
1 GT
43410952 TGAAACTGGT
Statistics
Matches: 396, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
394 396 1.00
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (394 bp):
GTAAGTTTTGTTTGTGAATTACAAACTTACTAAGCATTACATGCTTACTTCGTGTTATTTTTTGT
GTGTGTCTAGATAATCGGAAGCTTGTTCGGGTTGGAAGTTGTCTGAGGTTTCATCACTCTATCCA
TTGGTTATATCGGTATATTTTGAAAGTTTTGTGTCATGGGTATAATGGCATGTATATGTGTTTTG
TTTGATGAATTCTAGCCATTAAGTGCGGATAATATATTTGTCATTATAGTTTATGATCTTTTTGG
TATGATCTATATTTATGTGGCATTTTGTTTAGTTGTTAAATTGATGTTGTGTTGGTTAAGATAAT
GGTAAGGAAATGTTGGTGGGAATGATTTAGTAGCAATTTATTGTTGATGTGGAATGAATGTAGCA
TAAT
Found at i:43411457 original size:12 final size:12
Alignment explanation
Indices: 43411440--43411469 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43411430 TCAAGCTGTT
43411440 ACACGGCCTAGC
1 ACACGGCCTAGC
*
43411452 ACACGGCCTGGC
1 ACACGGCCTAGC
43411464 ACACGG
1 ACACGG
43411470 GCGTGTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:43432365 original size:50 final size:50
Alignment explanation
Indices: 43432250--43432487 Score: 280
Period size: 50 Copynumber: 4.6 Consensus size: 50
43432240 GGTAAAAACA
* * * * ** *
43432250 TGCCAAAGCTATGTCCCACACATGGTCTTACATGGGATGTTCTCATGTTC-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
*
43432301 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
43432351 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
43432401 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTATCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACC--TC-TCATCTC--GG
*
43432456 ATGTCAATGCCATGTCCCAGACATGGTCTTAC
1 -TGCCAATGCCATGTCCCAGACATGGTCTTAC
43432488 GTGGGATCTC
Statistics
Matches: 163, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 2 0.01
50 90 0.55
51 32 0.20
52 2 0.01
53 6 0.04
55 2 0.01
56 29 0.18
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:43432425 original size:100 final size:104
Alignment explanation
Indices: 43432249--43432498 Score: 330
Period size: 100 Copynumber: 2.4 Consensus size: 104
43432239 TGGTAAAAAC
* * ** *
43432249 ATGCCAAAGCTATGTCCCACACATGGTCTTACATGGGATGTTCTCATGTTCGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATGCTCGTGCCCATGCCATG
43432314 TCCCAGACATGGTCTTACAGGGGACC-TC-TCATCTC-GG
65 TCCCAGACATGGTCTTACAGGGGACCATCATCATCTCAGG
*
43432351 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGCTC-GTGCCCATGCCATG
*
43432414 TCCCAGACATGGTCTTACAGGGGACCTATCATGATCTCAAGG
65 TCCCAGACATGGTCTTACAGGGGACC-ATCATCATCTC-AGG
* * * *
43432456 ATGTCAATGCCATGTCCCAGACATGGTCTTACGTGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
43432499 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
99 2 0.02
100 46 0.35
101 34 0.26
102 2 0.02
103 6 0.05
105 2 0.02
106 38 0.29
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGCTCGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCATCATCATCTCAGG
Found at i:43435861 original size:43 final size:43
Alignment explanation
Indices: 43435772--43435864 Score: 105
Period size: 43 Copynumber: 2.2 Consensus size: 43
43435762 AGATACGGGC
* * * * **
43435772 GTGTGTCTCAGCCGTGTATGAGACACGGCCAGGCGACATGGTT
1 GTGTGTCTCAACCGTGTATGACACACGGCCAAGCGACACGACT
* * *
43435815 GTGTGTCTCAACTGTGTATGACACACTGCCAAGCGGCACGACT
1 GTGTGTCTCAACCGTGTATGACACACGGCCAAGCGACACGACT
43435858 GTGTGTC
1 GTGTGTC
43435865 CCCTGTAGCT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (43 bp):
GTGTGTCTCAACCGTGTATGACACACGGCCAAGCGACACGACT
Found at i:43439383 original size:40 final size:40
Alignment explanation
Indices: 43439334--43439624 Score: 336
Period size: 40 Copynumber: 7.3 Consensus size: 40
43439324 ATCATCAGAT
* * *
43439334 CAACC-AAACACACCAAATAGAAGCTCATAAGAGTTCATC
1 CAACCGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
* *
43439373 CAATCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
1 CAACCGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
* *
43439413 CAACCGAAAAACACCAAACAAAAGCTCATAAGAGCTGATC
1 CAACCGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
* ** * * * *
43439453 AAATTGAAACACACCAAATAAAATCTCATAATAGCTGATC
1 CAACCGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
*
43439493 CAA-CGAAA-ACACGACAAACAGAAGCTCATAAGAGTTGATC
1 CAACCGAAACACAC--CAAACAGAAGCTCATAAGAGCTGATC
* ** *
43439533 CAACTGAAACATGCCAAACAGAAGCTCATAAGAGCTCATC
1 CAACCGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
** *
43439573 CAACCGAAACATGCCAAGCAGAAGCTCATAAGAGCTGATC
1 CAACCGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
*
43439613 CAACCAAAACAC
1 CAACCGAAACAC
43439625 GTCGAATAGA
Statistics
Matches: 214, Mismatches: 33, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
38 4 0.02
39 8 0.04
40 196 0.92
41 4 0.02
42 2 0.01
ACGTcount: A:0.46, C:0.26, G:0.14, T:0.14
Consensus pattern (40 bp):
CAACCGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
Found at i:43439552 original size:120 final size:120
Alignment explanation
Indices: 43439335--43439625 Score: 370
Period size: 120 Copynumber: 2.4 Consensus size: 120
43439325 TCATCAGATC
* * *
43439335 AACC-AAACACACCAAATAGAAGCTCATAAGAGTTCATCCAATCG-AAACACGCCAAACAGAAGC
1 AACCGAAACACACCAAATAGAAGCTCATAAGAGCTGATCCAA-CGAAAACACGACAAACAGAAGC
*
43439398 TCATAAGAGCTGATCCAACCGAAAAACACCAAACAAAAGCTCATAAGAGCTGATCA
65 TCATAAGAGCTGATCCAACCGAAAAACACCAAACAAAAGCTCATAAGAGCTCATCA
** * * *
43439454 AATTGAAACACACCAAATAAAATCTCATAATAGCTGATCCAACGAAAACACGACAAACAGAAGCT
1 AACCGAAACACACCAAATAGAAGCTCATAAGAGCTGATCCAACGAAAACACGACAAACAGAAGCT
* * * ** * *
43439519 CATAAGAGTTGATCCAACTGAAACATGCCAAACAGAAGCTCATAAGAGCTCATCC
66 CATAAGAGCTGATCCAACCGAAAAACACCAAACAAAAGCTCATAAGAGCTCATCA
** ** *
43439574 AACCGAAACATGCCAAGCAGAAGCTCATAAGAGCTGATCCAACCAAAACACG
1 AACCGAAACACACCAAATAGAAGCTCATAAGAGCTGATCCAACGAAAACACG
43439626 TCGAATAGAG
Statistics
Matches: 144, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
119 4 0.03
120 140 0.97
ACGTcount: A:0.46, C:0.26, G:0.14, T:0.14
Consensus pattern (120 bp):
AACCGAAACACACCAAATAGAAGCTCATAAGAGCTGATCCAACGAAAACACGACAAACAGAAGCT
CATAAGAGCTGATCCAACCGAAAAACACCAAACAAAAGCTCATAAGAGCTCATCA
Found at i:43440580 original size:21 final size:21
Alignment explanation
Indices: 43440556--43440598 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
43440546 GAAGTTAAAA
**
43440556 TGTTTTAATTTCACTTTAATT
1 TGTTTTAATTTCAAATTAATT
43440577 TGTTTTAATTTCAAATTAATT
1 TGTTTTAATTTCAAATTAATT
43440598 T
1 T
43440599 CAAAATTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (21 bp):
TGTTTTAATTTCAAATTAATT
Found at i:43442600 original size:24 final size:23
Alignment explanation
Indices: 43442558--43442602 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
43442548 AATTGCCATA
**
43442558 TTTTTTACTTTTTGGCTTTTCAG
1 TTTTTTACTTTTTAACTTTTCAG
43442581 TTTTTTGACTTTTTAACTTTTC
1 TTTTTT-ACTTTTTAACTTTTC
43442603 TACTTTTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (23 bp):
TTTTTTACTTTTTAACTTTTCAG
Found at i:43442624 original size:16 final size:16
Alignment explanation
Indices: 43442573--43442625 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
43442563 TACTTTTTGG
* *
43442573 CTTTTCAGTTTTTTGA
1 CTTTTCAGCTTTTCGA
* * *
43442589 CTTTTTAACTTTTCTA
1 CTTTTCAGCTTTTCGA
*
43442605 CTTTTCAGCTTTTCGG
1 CTTTTCAGCTTTTCGA
43442621 CTTTT
1 CTTTT
43442626 TCGATTCACA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.11, C:0.19, G:0.09, T:0.60
Consensus pattern (16 bp):
CTTTTCAGCTTTTCGA
Found at i:43446270 original size:8 final size:8
Alignment explanation
Indices: 43446256--43446293 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
43446246 CGTATTTCTT
43446256 GCTTTTTG
1 GCTTTTTG
*
43446264 ACTTTTTG
1 GCTTTTTG
43446272 GCTTTTTG
1 GCTTTTTG
*
43446280 GCTTTTCG
1 GCTTTTTG
43446288 GCTTTT
1 GCTTTT
43446294 ACCGATTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.03, C:0.16, G:0.21, T:0.61
Consensus pattern (8 bp):
GCTTTTTG
Found at i:43451081 original size:41 final size:41
Alignment explanation
Indices: 43451036--43451242 Score: 243
Period size: 41 Copynumber: 5.0 Consensus size: 41
43451026 ATACCCTTAC
* * * * *
43451036 TTGTACTTCGGTACCCCTGCATTGAACATATGTGCCCCTGC
1 TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
*
43451077 TTGTACTTCAGTACCCCTGAATTTCACATACGTGCCCCTGT
1 TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
* *
43451118 TTGTACTTCAGTACCGCTGAATTTCACATACGTGCCCCTGT
1 TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
* * * * * *
43451159 TTGTACTTCAATAGCCTTGAAATGCACATGCGTTCCCCTGT
1 TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
* * * * *
43451200 TTGTACTTCGGTACCCCTAAATTGCATATATGTGCCCTTGT
1 TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
43451241 TT
1 TT
43451243 ACACTCTAGT
Statistics
Matches: 140, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (41 bp):
TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
Found at i:43451095 original size:20 final size:20
Alignment explanation
Indices: 43451035--43451095 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
43451025 CATACCCTTA
*
43451035 CTTGTACTTCGGTACCCCTG
1 CTTGTACTTCAGTACCCCTG
* * *
43451055 CATTGAACAT-ATGTGCCCCTG
1 C-TTGTACTTCA-GTACCCCTG
43451076 CTTGTACTTCAGTACCCCTG
1 CTTGTACTTCAGTACCCCTG
43451096 AATTTCACAT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.16, C:0.33, G:0.18, T:0.33
Consensus pattern (20 bp):
CTTGTACTTCAGTACCCCTG
Found at i:43451116 original size:21 final size:21
Alignment explanation
Indices: 43451090--43451157 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
43451080 TACTTCAGTA
43451090 CCCCTGAATTTCACATACGTG
1 CCCCTGAATTTCACATACGTG
* * *
43451111 CCCCTG--TTTGTAC-TTCAGTA
1 CCCCTGAATTT-CACATAC-GTG
*
43451131 CCGCTGAATTTCACATACGTG
1 CCCCTGAATTTCACATACGTG
43451152 CCCCTG
1 CCCCTG
43451158 TTTGTACTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 5 0.15
20 9 0.26
21 15 0.44
22 5 0.15
ACGTcount: A:0.19, C:0.34, G:0.16, T:0.31
Consensus pattern (21 bp):
CCCCTGAATTTCACATACGTG
Found at i:43457402 original size:318 final size:319
Alignment explanation
Indices: 43456814--43457450 Score: 1267
Period size: 318 Copynumber: 2.0 Consensus size: 319
43456804 ATTTTAATGT
43456814 CTGTGGAATATTTTAGTAAGGTCATATAAAAATTTCATTAAGAAATTTTGACGTTTGCATGCTTA
1 CTGTGGAATATTTTAGTAAGGTCATATAAAAATTTCATTAAGAAATTTTGACGTTTGCATGCTTA
43456879 ATTTCGTGAAAAAGGCTAAACCGTAAAAGATGCAAAAGTAGAGTTCTAGTAAATAAAAGTATCAA
66 ATTTCGTGAAAAAGGCTAAACCGTAAAAGATGCAAAAGTAGAGTTCTAGTAAATAAAAGTATCAA
43456944 ATAGCTATGAAAATTTAAAGTAAAAGTACTTAGATGGCAAATATACCATTTAAATTTTTTGTAAC
131 ATAGCTATGAAAATTTAAAGTAAAAGTACTTAGATGGCAAATATACCATTTAAATTTTTTGTAAC
43457009 ACCCGAAACTTCGGCCTAGGAGTTATGGTCGTATCTGGTGTGTCAAATGAAGTGTCTTTCGAAAA
196 ACCCGAAACTTCGGCCTAGGAGTTATGGTCGTATCTGGTGTGTCAAATGAAGTGTCTTTCGAAAA
43457074 ATTGGACTCGTTGAAAAAAAAACTTGTTTCTAAGTTTAAAATAAATAAGAAAGAGCCCA
261 ATTGGACTCGTTGAAAAAAAAACTTGTTTCTAAGTTTAAAATAAATAAGAAAGAGCCCA
43457133 CTGTGGAATA-TTTAGTAAGGTCATATAAAAATTTCATTAAGAAATTTTGACGTTTGCATGCTTA
1 CTGTGGAATATTTTAGTAAGGTCATATAAAAATTTCATTAAGAAATTTTGACGTTTGCATGCTTA
43457197 ATTTCGTGAAAAAGGCTAAACCGTAAAAGATGCAAAAGTAGAGTTCTAGTAAATAAAAGTATCAA
66 ATTTCGTGAAAAAGGCTAAACCGTAAAAGATGCAAAAGTAGAGTTCTAGTAAATAAAAGTATCAA
43457262 ATAGCTATGAAAATTTAAAGTAAAAGTACTTAGATGGCAAATATACCATTTAAATTTTTTGTAAC
131 ATAGCTATGAAAATTTAAAGTAAAAGTACTTAGATGGCAAATATACCATTTAAATTTTTTGTAAC
43457327 ACCCGAAACTTCGGCCTAGGAGTTATGGTCGTATCTGGTGTGTCAAATGAAGTGTCTTTCGAAAA
196 ACCCGAAACTTCGGCCTAGGAGTTATGGTCGTATCTGGTGTGTCAAATGAAGTGTCTTTCGAAAA
43457392 ATTGGACTCGTTGAAAAAAAAACTTGTTTCTAAGTTTAAAATAAATAAGAAAGAGCCCA
261 ATTGGACTCGTTGAAAAAAAAACTTGTTTCTAAGTTTAAAATAAATAAGAAAGAGCCCA
43457451 ATTAAAAATA
Statistics
Matches: 318, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
318 308 0.97
319 10 0.03
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (319 bp):
CTGTGGAATATTTTAGTAAGGTCATATAAAAATTTCATTAAGAAATTTTGACGTTTGCATGCTTA
ATTTCGTGAAAAAGGCTAAACCGTAAAAGATGCAAAAGTAGAGTTCTAGTAAATAAAAGTATCAA
ATAGCTATGAAAATTTAAAGTAAAAGTACTTAGATGGCAAATATACCATTTAAATTTTTTGTAAC
ACCCGAAACTTCGGCCTAGGAGTTATGGTCGTATCTGGTGTGTCAAATGAAGTGTCTTTCGAAAA
ATTGGACTCGTTGAAAAAAAAACTTGTTTCTAAGTTTAAAATAAATAAGAAAGAGCCCA
Found at i:43457760 original size:30 final size:30
Alignment explanation
Indices: 43457689--43457804 Score: 142
Period size: 30 Copynumber: 3.9 Consensus size: 30
43457679 AAAATCAGTC
* * * *
43457689 TGGGCCTAAGCCCTATACAGTACCAGTGTG
1 TGGGCCTTAGCCCAATACAGTAACAGAGTG
* * *
43457719 TAGGCCATAGCCCAATACAGTAATAGAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGAGTG
* *
43457749 TGGGCCTTAGCCCAATATAGTAACAAAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGAGTG
*
43457779 TGGGCCTTTGCCCAATACAGTAACAG
1 TGGGCCTTAGCCCAATACAGTAACAG
43457805 TGCAAATGCA
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 71 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (30 bp):
TGGGCCTTAGCCCAATACAGTAACAGAGTG
Found at i:43457953 original size:26 final size:26
Alignment explanation
Indices: 43457945--43458039 Score: 100
Period size: 26 Copynumber: 3.7 Consensus size: 26
43457935 AATGTAGCAG
*
43457945 AGCTACCAGTAATAGTAACACAACAA
1 AGCTACCAGTAACAGTAACACAACAA
* ** * *
43457971 AGCTACCAGTAAAAGTAATGCAGCAG
1 AGCTACCAGTAACAGTAACACAACAA
* * *
43457997 AGCTGCCAGTATCAGTAACATAACAA
1 AGCTACCAGTAACAGTAACACAACAA
*
43458023 AGTTACCAGTAACAGTA
1 AGCTACCAGTAACAGTA
43458040 TTTGTGGCAA
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (26 bp):
AGCTACCAGTAACAGTAACACAACAA
Found at i:43458006 original size:52 final size:52
Alignment explanation
Indices: 43457924--43458039 Score: 171
Period size: 52 Copynumber: 2.2 Consensus size: 52
43457914 CAGCAATATG
*
43457924 CCAGTAACAGTAATGTAGCAGAGCTACCAGTAAT-AGTAACACAACAAAGCTA
1 CCAGTAACAGTAATGCAGCAGAGCTACCAGT-ATCAGTAACACAACAAAGCTA
* * * *
43457976 CCAGTAAAAGTAATGCAGCAGAGCTGCCAGTATCAGTAACATAACAAAGTTA
1 CCAGTAACAGTAATGCAGCAGAGCTACCAGTATCAGTAACACAACAAAGCTA
43458028 CCAGTAACAGTA
1 CCAGTAACAGTA
43458040 TTTGTGGCAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 2 0.04
52 55 0.96
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (52 bp):
CCAGTAACAGTAATGCAGCAGAGCTACCAGTATCAGTAACACAACAAAGCTA
Found at i:43458297 original size:27 final size:27
Alignment explanation
Indices: 43458267--43458347 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
43458257 CGGTAATTTT
*
43458267 GTGTTTCAGTAATTTTACCCATCGGGG
1 GTGTTTCAGTAATTTTACCCATCGAGG
* *
43458294 GTGTTTCAGTAATATTACCCATTGAGG
1 GTGTTTCAGTAATTTTACCCATCGAGG
* *
43458321 GTATTTCGGTAATTTTACCCATCGAGG
1 GTGTTTCAGTAATTTTACCCATCGAGG
43458348 TGCATTCGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (27 bp):
GTGTTTCAGTAATTTTACCCATCGAGG
Found at i:43458355 original size:27 final size:26
Alignment explanation
Indices: 43458275--43458358 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 26
43458265 TTGTGTTTCA
* * *
43458275 GTAATTTTACCCATCGGGGGTGTTTCA
1 GTAATTTTACCCATC-GAGGTGATTCG
* *
43458302 GTAATATTACCCATTGAGG-GTATTTCG
1 GTAATTTTACCCATCGAGGTG-A-TTCG
43458329 GTAATTTTACCCATCGAGGTGCATTCG
1 GTAATTTTACCCATCGAGGTG-ATTCG
43458356 GTA
1 GTA
43458359 GTATTTGACT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 40 0.87
28 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.36
Consensus pattern (26 bp):
GTAATTTTACCCATCGAGGTGATTCG
Found at i:43459597 original size:21 final size:21
Alignment explanation
Indices: 43459573--43459615 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
43459563 CTTAGAGTTA
*
43459573 ATTAATCACTAAATTGCACAT
1 ATTAACCACTAAATTGCACAT
43459594 ATTAACCACTAAATTGCACAT
1 ATTAACCACTAAATTGCACAT
43459615 A
1 A
43459616 CGTGTGCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (21 bp):
ATTAACCACTAAATTGCACAT
Found at i:43459647 original size:20 final size:20
Alignment explanation
Indices: 43459622--43459688 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
43459612 CATACGTGTG
43459622 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * * *
43459642 CCCCTGAATTGCAC-ACACGTG
1 CCCCTG-TTTGTACTTC-GGTA
*
43459663 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
43459683 CCCCTG
1 CCCCTG
43459689 AATTACACAT
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.15, C:0.36, G:0.18, T:0.31
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:43459674 original size:41 final size:41
Alignment explanation
Indices: 43459602--43459871 Score: 326
Period size: 41 Copynumber: 6.6 Consensus size: 41
43459592 ATATTAACCA
*
43459602 CTAAATTGCACATACGTGTGCCCCTGTTTGTACTTCGGTACCC
1 CTAAATTGCACATAC--GTGCCCCTATTTGTACTTCGGTACCC
* *
43459645 CTGAATTGCACACACGTGCCCCTATTTGTACTTCGGTACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * * * ** *
43459686 CTGAATTACACATACATGCCCCTGTTTGTACTTTAGTATCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* ** *
43459727 CTAAATTGAACATACGTGCTACTATTTGTACTTTGGTACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
*
43459768 CTAAATTGCACATACGTGCCCCT-TTTGTACTTTGGTACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * * *
43459808 CTAAATTCCACATATGTGCCACTATTTGTACTTCGATACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* *
43459849 CTGAATAGCACATACGTGCCCCT
1 CTAAATTGCACATACGTGCCCCT
43459872 GTTTACACTC
Statistics
Matches: 194, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 37 0.19
41 144 0.74
43 13 0.07
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (41 bp):
CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
Found at i:43459838 original size:81 final size:82
Alignment explanation
Indices: 43459602--43459875 Score: 370
Period size: 82 Copynumber: 3.3 Consensus size: 82
43459592 ATATTAACCA
* * * *
43459602 CTAAATTGCACATACGTGTGCCCCTGTTTGTACTTCGGTACCCCTGAATTGCACACACGTGCCCC
1 CTAAATTGCACATAC--GTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCAC
43459667 TATTTGTACTTCGGTACCC
64 TATTTGTACTTCGGTACCC
* * * * * * *
43459686 CTGAATTACACATACATGCCCCTGTTTGTACTTTAGTATCCCTAAATTGAACATACGTGCTACTA
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCACTA
*
43459751 TTTGTACTTTGGTACCC
66 TTTGTACTTCGGTACCC
* *
43459768 CTAAATTGCACATACGTGCCCCT-TTTGTACTTTGGTACCCCTAAATTCCACATATGTGCCACTA
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCACTA
*
43459832 TTTGTACTTCGATACCC
66 TTTGTACTTCGGTACCC
* *
43459849 CTGAATAGCACATACGTGCCCCTGTTT
1 CTAAATTGCACATACGTGCCCCTGTTT
43459876 ACACTCTAGT
Statistics
Matches: 164, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
81 71 0.43
82 80 0.49
84 13 0.08
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (82 bp):
CTAAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCACTA
TTTGTACTTCGGTACCC
Found at i:43462522 original size:23 final size:22
Alignment explanation
Indices: 43462479--43462522 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
43462469 TTCTAAGTCG
43462479 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
43462502 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
43462523 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:43462624 original size:45 final size:45
Alignment explanation
Indices: 43462567--43462655 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
43462557 AACATATACT
* *
43462567 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATAATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
*
43462612 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGT
43462656 TTGGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
Found at i:43478760 original size:19 final size:19
Alignment explanation
Indices: 43478736--43478779 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
43478726 GTTCTAGCCA
43478736 AGGTTATAATGGCATGTAT
1 AGGTTATAATGGCATGTAT
43478755 AGGTTATAATGGCATGTAT
1 AGGTTATAATGGCATGTAT
43478774 AGGTTA
1 AGGTTA
43478780 AATTGTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (19 bp):
AGGTTATAATGGCATGTAT
Found at i:43485310 original size:15 final size:15
Alignment explanation
Indices: 43485282--43485315 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
43485272 TATTATAACA
* *
43485282 AAATTTAGTTATTAT
1 AAATTAAGTAATTAT
43485297 AAATTAAGTAATTAT
1 AAATTAAGTAATTAT
43485312 AAAT
1 AAAT
43485316 ATTTAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
AAATTAAGTAATTAT
Found at i:43485335 original size:72 final size:73
Alignment explanation
Indices: 43485217--43485361 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 73
43485207 ACTATTTAAT
43485217 TTATTATAAAATTAAGTAATTATAAATATTTAACATATTTATTTTTAATAATAAATATTATAACA
1 TTATTATAAAATTAAGTAATTATAAATATTTAACATATTTATTTTTAATAATAAATATTATAACA
43485282 AAATTTAG
66 AAATTTAG
43485290 TTATTAT-AAATTAAGTAATTATAAATATTTAACATATTTATTTTTAATAATAAATATTATAACA
1 TTATTATAAAATTAAGTAATTATAAATATTTAACATATTTATTTTTAATAATAAATATTATAACA
43485354 AAATTTAG
66 AAATTTAG
43485362 ATTAAGAACC
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 65 0.90
73 7 0.10
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (73 bp):
TTATTATAAAATTAAGTAATTATAAATATTTAACATATTTATTTTTAATAATAAATATTATAACA
AAATTTAG
Found at i:43486495 original size:79 final size:79
Alignment explanation
Indices: 43486364--43486522 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
43486354 ATTGATGTCT
*
43486364 CTTTCATATTCATTTTTAGCTTGAATGTAAAGTGTAAAAGATACAATGCAAGAGCAATAAAAGCA
1 CTTTCATATTCATTTTTAGCTTGAATGTAAAGTGTAAAAGATACAATGCAAGACCAATAAAAGCA
43486429 TCATAAAAATAGGA
66 TCATAAAAATAGGA
*
43486443 CTTTCATATTCATTTTTAGCTTGAATGTGAAGTGTAAAAGATACAATGCAAGACCAATAAAAGCA
1 CTTTCATATTCATTTTTAGCTTGAATGTAAAGTGTAAAAGATACAATGCAAGACCAATAAAAGCA
43486508 TCATAAAAATAGGA
66 TCATAAAAATAGGA
43486522 C
1 C
43486523 GATCTTTTCA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (79 bp):
CTTTCATATTCATTTTTAGCTTGAATGTAAAGTGTAAAAGATACAATGCAAGACCAATAAAAGCA
TCATAAAAATAGGA
Found at i:43489903 original size:10 final size:10
Alignment explanation
Indices: 43489876--43489914 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
43489866 ATATATTTTA
43489876 TAATTTTAGT
1 TAATTTTAGT
*
43489886 T-TTTTTAGT
1 TAATTTTAGT
43489895 TAATTTTAGT
1 TAATTTTAGT
43489905 TAATTTTAGT
1 TAATTTTAGT
43489915 CTTTTAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (10 bp):
TAATTTTAGT
Found at i:43490634 original size:21 final size:21
Alignment explanation
Indices: 43490596--43490652 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
43490586 ATAATTCCAT
* *
43490596 TTTAATTTATTACATGATTTA-
1 TTTAATTT-TAACTTGATTTAC
43490617 TTTAAATTTTAACTTGATTTAC
1 TTT-AATTTTAACTTGATTTAC
*
43490639 TTTACTTTTAACTT
1 TTTAATTTTAACTT
43490653 TTAAGTCCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 23 0.74
22 8 0.26
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTAATTTTAACTTGATTTAC
Found at i:43497688 original size:23 final size:23
Alignment explanation
Indices: 43497654--43497697 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
43497644 CAAACTTTTC
43497654 AAATCATATCAATAA-ACACATTA
1 AAATCATATCAA-AACACACATTA
43497677 AAATCA-ATTCAAAACACACAT
1 AAATCATA-TCAAAACACACAT
43497698 ATTGTCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATCATATCAAAACACACATTA
Found at i:43499158 original size:30 final size:29
Alignment explanation
Indices: 43499124--43499199 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
43499114 CGAAGCTATC
* *
43499124 CCTTTTCATAATTTGATGGTCGTCACCATT
1 CCTTTTCATAATTCGATGGCCGTCACCA-T
* *
43499154 CCTTTTCATAGTTCGATGGCCTTCACCAT
1 CCTTTTCATAATTCGATGGCCGTCACCAT
*
43499183 CAATTTTCATAA-TCGAT
1 C-CTTTTCATAATTCGAT
43499200 AATCGAAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 7 0.18
30 32 0.82
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (29 bp):
CCTTTTCATAATTCGATGGCCGTCACCAT
Found at i:43499218 original size:29 final size:29
Alignment explanation
Indices: 43499186--43499249 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
43499176 TCACCATCAA
*
43499186 TTTTCATAATCGATAATCGAAGCTATCCC
1 TTTTCATAATCGATAACCGAAGCTATCCC
* * *
43499215 TTTTCGTATTCGATAGCCGAAGCTATCCC
1 TTTTCATAATCGATAACCGAAGCTATCCC
43499244 TTTTCA
1 TTTTCA
43499250 ATTGTTGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (29 bp):
TTTTCATAATCGATAACCGAAGCTATCCC
Found at i:43512123 original size:58 final size:59
Alignment explanation
Indices: 43512053--43512168 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 59
43512043 ATCACTTTAA
* * *
43512053 TATTAAATTAATATAAT-TCTTATC-AAGA-AAAGTATTAGATTAAATTTAATATTAAATC
1 TATTAAAGTAATAGAATAT-TTATCTAAGATAAA-TATTAAATTAAATTTAATATTAAATC
*
43512111 TATTAAAGTAATAGAATATTTATCTATAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAAGTAATAGAATATTTATC--TAAGATAAATATTAAATTAAATTTAATATTAA
43512169 GATAATCACT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
58 20 0.41
59 1 0.02
61 25 0.51
62 3 0.06
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (59 bp):
TATTAAAGTAATAGAATATTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:43514545 original size:12 final size:12
Alignment explanation
Indices: 43514528--43514552 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43514518 ACCTTTAACG
43514528 TTTACATTTTTA
1 TTTACATTTTTA
43514540 TTTACATTTTTA
1 TTTACATTTTTA
43514552 T
1 T
43514553 CAGTTTGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTACATTTTTA
Found at i:43521309 original size:31 final size:29
Alignment explanation
Indices: 43521273--43521338 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
43521263 ATTAATAAAA
*
43521273 ATAAAATTACACTTTAACTCACTCTAAAATT
1 ATAAAATTACAATTTAA-T-ACTCTAAAATT
** *
43521304 ATAAAATTTTAATTTAATACTTTAAAATT
1 ATAAAATTACAATTTAATACTCTAAAATT
43521333 ATAAAA
1 ATAAAA
43521339 ATATAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.52
30 1 0.03
31 14 0.45
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (29 bp):
ATAAAATTACAATTTAATACTCTAAAATT
Found at i:43521346 original size:15 final size:15
Alignment explanation
Indices: 43521328--43521360 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
43521318 TAATACTTTA
43521328 AAATTATAAAAATAT
1 AAATTATAAAAATAT
*
43521343 AAATTATAAAAATTT
1 AAATTATAAAAATAT
43521358 AAA
1 AAA
43521361 ATTTTATTCG
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTATAAAAATAT
Found at i:43522113 original size:2 final size:2
Alignment explanation
Indices: 43522108--43522178 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
43522098 ATCTTTCCTT
43522108 TA TA TA TA 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 TA TA TA TA
43522150 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43522179 GTAAAGCTGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43535158 original size:25 final size:25
Alignment explanation
Indices: 43535124--43535175 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
43535114 TGCAGATCTA
43535124 ATGGAATTACCTTTTAGAGAATTTG
1 ATGGAATTACCTTTTAGAGAATTTG
*
43535149 ATGGAATTACCTTTTGGAGAATTTG
1 ATGGAATTACCTTTTAGAGAATTTG
43535174 AT
1 AT
43535176 CTCATATTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (25 bp):
ATGGAATTACCTTTTAGAGAATTTG
Found at i:43549654 original size:22 final size:23
Alignment explanation
Indices: 43549628--43549678 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
43549618 CATAAACAGA
* * *
43549628 TTCACACCTAACACTTAAGT-TG
1 TTCACACCTAAAACATAAATGTG
43549650 TTCACA-CTAAAACATAAATGTG
1 TTCACACCTAAAACATAAATGTG
43549672 TTCACAC
1 TTCACAC
43549679 TCCATGAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.29
Consensus pattern (23 bp):
TTCACACCTAAAACATAAATGTG
Found at i:43561030 original size:709 final size:709
Alignment explanation
Indices: 43559673--43561448 Score: 3133
Period size: 709 Copynumber: 2.5 Consensus size: 709
43559663 NNNNNNNNNN
*
43559673 TTTTTGCCTAGGATTTATAGCATGTATACTAACATGTTTGGTGTGGATATGCCCCTATACTTTGA
1 TTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTGGTGTGGATATGCCCCTATACTTTGA
*
43559738 CATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTACTACGTATAATTTTGATTAAATTAA
66 CATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTACTATGTATAATTTTGATTAAATTAA
* *
43559803 ATGTTATTATATGATTTTATTGAAAGTGAATCAATACATATATGTTAATTATACAATTTATTGAA
131 ATGTTATTATATGATTTTATTGAAAATGAATCAATACATATATGTTAATTATACAATTTATCGAA
43559868 TAAAGAAATGATGAAAATTCAACGACGTACGACGACTATCTAGCCCCATTTGAACCTTAAGAATA
196 TAAAGAAATGATGAAAATTCAACGACGTACGACGACTATCTAGCCCCATTTGAACCTTAAGAATA
* * * * *
43559933 TATATGTTACAAATGACATGTCATTAGGGTTACTGTATTTTTGGTGTTGGTCTTGAACGTTCTAC
261 TATAAGATACAAATGACATGTCATTAGGGTTACTGTATTTTAGGTGCTGGTCTTGAACGTCCTAC
* *
43559998 CGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTACCTGATAGCTTGTGTGAGCAGCACCGTGTAAC
326 CGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTACCTGACAGCTTGTGTCAGCAGCACCGTGTAAC
*
43560063 TACGTTCTGACTGACAGCTTGTGTAAGCAGACCCATTTATGGATCGAGGGAGAGAATCTATGTAA
391 TACGTTCTGACTGACAGCTTCTGTAAGCAGACCCATTTATGGATCGAGGGAGAGAATCTATGTAA
* * * *
43560128 AGGCAAGGGAAATAAATGGTTTCGAGCATATATTAGCAAACAGTGTGTGAGATTTCCGCGTATTC
456 AGGAAAAGGAAATAAATGGTTTCGAGCATATATTAGCAAACAGTGTGTGAGATTCCCGCATATTC
43560193 GATATTGTTTTAAGTTATTCAACGGGCATACAAAGGGAAGGAACGATAAGTGTTCTGATTGGCAA
521 GATATTGTTTTAAGTTATTCAACGGGCATACAAAGGGAAGGAACGATAAGTGTTCTGATTGGCAA
43560258 TGTTATGAACTAAGGCATGTGCATATATGAAATTCTTTGATATGATGATACATGAAAATTATGAA
586 TGTTATGAACTAAGGCATGTGCATATATGAAATTCTTTGATATGATGATACATGAAAATTATGAA
43560323 AGTTGATATAGGTGACAATTTCTAATGGTTCATGTCGGAGATCAA-GGATATATATGTTA
651 AGTTGATATAGGTGACAATTTCTAATGGTTCATGTC-GAGATCAATGGATATATATGTTA
43560382 TTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTGGTGTGGATATGCCCCTATACTTTGA
1 TTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTGGTGTGGATATGCCCCTATACTTTGA
*
43560447 CATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTAATATGTATAATTTTGATTAAATTAA
66 CATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTACTATGTATAATTTTGATTAAATTAA
43560512 ATGTTATTATATGATTTTATTGAAAATGAATCAATACATATATGTTAATTATACAATTTATCGAA
131 ATGTTATTATATGATTTTATTGAAAATGAATCAATACATATATGTTAATTATACAATTTATCGAA
* * *
43560577 TAAAGAAATGATGAAAATTCAACGATGTAGGACGACTATCTAACCCCATTTGAACCTTAAGAATA
196 TAAAGAAATGATGAAAATTCAACGACGTACGACGACTATCTAGCCCCATTTGAACCTTAAGAATA
* * *
43560642 TATAGGATACAAATGACATGTCATTAAGGTTACTGTATTTTAGGTGCTGGTCTTGAATGTCCTAC
261 TATAAGATACAAATGACATGTCATTAGGGTTACTGTATTTTAGGTGCTGGTCTTGAACGTCCTAC
* *
43560707 CGCTGGCTGAGTGTCCGTCATGTGTTGTGGTTACCTGACAGCTTGTGTCAGCAGCACCGTGTGAC
326 CGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTACCTGACAGCTTGTGTCAGCAGCACCGTGTAAC
* * *
43560772 TACGTTCTGATTGACAGCTTCTGTGAGCAGACCCATTTATGGCTCGAGGGAGAGAATCTATGTAA
391 TACGTTCTGACTGACAGCTTCTGTAAGCAGACCCATTTATGGATCGAGGGAGAGAATCTATGTAA
* *
43560837 AGGAAAAGGAAATAAATGG-TTCGAGCATATATTAGCATACAGTGTGTGAGATTCCCTTCATATT
456 AGGAAAAGGAAATAAATGGTTTCGAGCATATATTAGCAAACAGTGTGTGAGATTCCC-GCATATT
*
43560901 CGATATTGTTTTAAGTTATTCAACGGGCATACAAAGGGAAGGAATGATAAGTGTTCTGATTGGCA
520 CGATATTGTTTTAAGTTATTCAACGGGCATACAAAGGGAAGGAACGATAAGTGTTCTGATTGGCA
*
43560966 ATGTTATGAACTAAGGCATGTGCATATATGAAATTCTTTGATATGTTGATACATGAAAATTATGA
585 ATGTTATGAACTAAGGCATGTGCATATATGAAATTCTTTGATATGATGATACATGAAAATTATGA
43561031 AAGTTGATATAGGTGACAATTTCTAATGGTTCATGTCGAGATCAATGGATATATATGTTA
650 AAGTTGATATAGGTGACAATTTCTAATGGTTCATGTCGAGATCAATGGATATATATGTTA
43561091 TTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTGGTGTGGATATGCCCCTATACTTTGA
1 TTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTGGTGTGGATATGCCCCTATACTTTGA
* * * * *
43561156 AATTTCTGCAAGTTAGCTAGGGAAGATTGTATGAAATGTACCATGTATAATTTGGATTAAATTGA
66 CATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTACTATGTATAATTTTGATTAAATTAA
*
43561221 ATGTTATTATATGATTTTATTGAAAATGAATGAATACATATATGTTAATTATACAATTTATCGAA
131 ATGTTATTATATGATTTTATTGAAAATGAATCAATACATATATGTTAATTATACAATTTATCGAA
43561286 TAAAGAAATGATGAAAATTCAACGACGTACGACGACTATCTAGCCCCATTTGAACCTTAAGAATA
196 TAAAGAAATGATGAAAATTCAACGACGTACGACGACTATCTAGCCCCATTTGAACCTTAAGAATA
* * * *
43561351 TATAAGATACAAATGACTTGTCATTAGGGTTACTGTATTTTAGGTGCTAGTGTTGAACATCCTAC
261 TATAAGATACAAATGACATGTCATTAGGGTTACTGTATTTTAGGTGCTGGTCTTGAACGTCCTAC
*
43561416 CGGTAGCTGAGTGTCCGTCATGTGTTGTGGTTA
326 CGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTA
43561449 NNNNNNNNNN
Statistics
Matches: 1015, Mismatches: 50, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
708 43 0.04
709 972 0.96
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (709 bp):
TTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTGGTGTGGATATGCCCCTATACTTTGA
CATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTACTATGTATAATTTTGATTAAATTAA
ATGTTATTATATGATTTTATTGAAAATGAATCAATACATATATGTTAATTATACAATTTATCGAA
TAAAGAAATGATGAAAATTCAACGACGTACGACGACTATCTAGCCCCATTTGAACCTTAAGAATA
TATAAGATACAAATGACATGTCATTAGGGTTACTGTATTTTAGGTGCTGGTCTTGAACGTCCTAC
CGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTACCTGACAGCTTGTGTCAGCAGCACCGTGTAAC
TACGTTCTGACTGACAGCTTCTGTAAGCAGACCCATTTATGGATCGAGGGAGAGAATCTATGTAA
AGGAAAAGGAAATAAATGGTTTCGAGCATATATTAGCAAACAGTGTGTGAGATTCCCGCATATTC
GATATTGTTTTAAGTTATTCAACGGGCATACAAAGGGAAGGAACGATAAGTGTTCTGATTGGCAA
TGTTATGAACTAAGGCATGTGCATATATGAAATTCTTTGATATGATGATACATGAAAATTATGAA
AGTTGATATAGGTGACAATTTCTAATGGTTCATGTCGAGATCAATGGATATATATGTTA
Found at i:43564258 original size:709 final size:709
Alignment explanation
Indices: 43561871--43565944 Score: 7127
Period size: 708 Copynumber: 5.7 Consensus size: 709
43561861 NNNNNNNNNN
*
43561871 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAGGATACAAATGACATGTCATTAGGGTTACT
1 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAAGATACAAATGACATGTCATTAGGGTTACT
** * * * *
43561936 GTATTTTTCGTGTTGGTCTTGAACGTCCTACCGGTGGCTGAGTGTCTGTCATGTGTTGTGGTTAC
66 GTATTTTAGGTGCTAGTCTTGAACATCCTACCGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTAC
* *
43562001 CTGATAGCTTGTGTGAGCAGCACCGTGTAACTACGTTCTGACTGACAGCTTGTGTGAGCAGACCC
131 CTGACAGCTTGTGTGAGCAGCACCGTGTAACTACGTTCTGACTGACAGCTTCTGTGAGCAGACCC
* *
43562066 ATTTATGGCTCGAGAGAGAGAATCTATGTAAAGGCAAAGGAAATAAATGGTTTCGAGCATATATT
196 ATTTATGGCTCGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGCATATATT
* *
43562131 TGCATACAGTGTGTGAGATTCCCGCGTATTCGATATTGTTTTAAGTTATTCAATGGGCATACAAA
261 AGCATACAGTGTGTGAGATTCCCGCGTATTCGATATTGTTTTAAGTTATTCAACGGGCATACAAA
43562196 GGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAATT
326 GGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAATT
* * *
43562261 CTTTGATATGATGGTACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAAGGGTTCATG
391 CTTTGATATGTTGATACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAATGGTTCATG
43562326 TCGAGATCAATGGATATATATGTTATTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTG
456 TCGAGATCAATGGATATATATGTTATTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTG
*
43562391 GTGTGGATATGCCCCTACACTTTGACATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTA
521 GTGTGGATATGCCCCTATACTTTGACATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTA
* * *
43562456 CTATGTATAATTTTGATTAAATTGAATGTTATTATATGATTTTAACTAAAAATGAATTGATATAT
586 CTATGTATAATTTTGATTAAATTGAATGTTATTATATGATTTT-ATTGAAAATGAA-T--CA-AT
* *
43562521 ATATATATGTT-ATTATACAATTTATCGAATAAAGAACTGATGAAAATTCAACGACGTACGACA
646 ACATATATGTTAATTATACAATTTATCGAATAAAGAACTGATGAAAATTCAACGACGTACGACG
*
43562584 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAGGATACAAATGACATGTCATTAGGGTTACT
1 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAAGATACAAATGACATGTCATTAGGGTTACT
*
43562649 GTATTTTAGGTGCTGGTCTTGAACATCCTACCGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTAC
66 GTATTTTAGGTGCTAGTCTTGAACATCCTACCGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTAC
* * * * *
43562714 CTTACAGCATGTGTGAGCAGCACCATGTAACTACGTTCTGACTGACAACTTGTGTGAGCAGACCC
131 CTGACAGCTTGTGTGAGCAGCACCGTGTAACTACGTTCTGACTGACAGCTTCTGTGAGCAGACCC
* *
43562779 ATTTCTGGCTCGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGAATATATT
196 ATTTATGGCTCGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGCATATATT
*
43562844 AGCATACAGTGTGTGAGTTTCCCGCGTATTCGATATTGTTTTAAGTTATTCAACGGGCATACAAA
261 AGCATACAGTGTGTGAGATTCCCGCGTATTCGATATTGTTTTAAGTTATTCAACGGGCATACAAA
* *
43562909 GGGAAGGAACGATAAGTGTTTTGATTGGCAATGTTATGATCTAAGGCATGTGCATATATGAAATT
326 GGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAATT
* *
43562974 CTTTGATATGTTGATACATTAAAATTTTGAAAGTTGATATAGGTGACAATTTCTAATGGTTCATG
391 CTTTGATATGTTGATACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAATGGTTCATG
43563039 TCGAGATCAATGGATATATATGTTATTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTG
456 TCGAGATCAATGGATATATATGTTATTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTG
*
43563104 GTGTGGATATGCCCCTATACTTTGACATTTCTGCAAGTTAGCTAGGGAATTTTGTATGAAATGTA
521 GTGTGGATATGCCCCTATACTTTGACATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTA
* *
43563169 CTATGTATAATTTTGATTAAATTGAATG-TATTATATGATTTTAGTGAAAATGAATGAATACATA
586 CTATGTATAATTTTGATTAAATTGAATGTTATTATATGATTTTATTGAAAATGAATCAATACATA
43563233 TATGTTAATTATACAATTTATCGAATAAAGAGA-TGATGAAAATTCAACGACGTACGACG
651 TATGTTAATTATACAATTTATCGAATAAAGA-ACTGATGAAAATTCAACGACGTACGACG
*
43563292 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAGGATACAAATGACATGTCATTAGGGTTACT
1 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAAGATACAAATGACATGTCATTAGGGTTACT
* * * *
43563357 GTATTTTAGGTCCTAGTCTTGAACGTCCTACCGGTGGCTCACTGTCCGTCATGTGTTGTGGTTAC
66 GTATTTTAGGTGCTAGTCTTGAACATCCTACCGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTAC
43563422 CTGACAGCTTGTGTGAGCAGCACCGTGTAACTACGTTCTGACTGACAGCTTCTGTGAGCAGACCC
131 CTGACAGCTTGTGTGAGCAGCACCGTGTAACTACGTTCTGACTGACAGCTTCTGTGAGCAGACCC
43563487 ATTTATGGCTCGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGCATATATT
196 ATTTATGGCTCGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGCATATATT
* *
43563552 AGCATAGAGTGTGTGAGATTCCCGCATATTCGATATTGTTTTAAGTTATTCAACGGGCATACAAA
261 AGCATACAGTGTGTGAGATTCCCGCGTATTCGATATTGTTTTAAGTTATTCAACGGGCATACAAA
43563617 GGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAATT
326 GGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAATT
*
43563682 CTTTGATATGTTGAAACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAATGGTTCATG
391 CTTTGATATGTTGATACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAATGGTTCATG
43563747 TCGAGATCAATGGATATATATGTTATTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTG
456 TCGAGATCAATGGATATATATGTTATTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTG
* * * *
43563812 GTGTGGATATGGCCCTATACTTTGAAATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGTAGTGTA
521 GTGTGGATATGCCCCTATACTTTGACATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTA
*
43563877 CCATGTATAATTTTGATTAAATTGAATGTTATTATATGATTTTATTGAAAATGAATCAATACATA
586 CTATGTATAATTTTGATTAAATTGAATGTTATTATATGATTTTATTGAAAATGAATCAATACATA
*
43563942 TATGTTAATTATACAATTTATCGAATAAAGAAATGATGAAAATTCAACGACGTACGACG
651 TATGTTAATTATACAATTTATCGAATAAAGAACTGATGAAAATTCAACGACGTACGACG
*
43564001 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAAGATACACATGACATGTCATTAGGGTTACT
1 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAAGATACAAATGACATGTCATTAGGGTTACT
43564066 GTATTTTAGGTGCTAGTCTTGAACATCCTACCGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTAC
66 GTATTTTAGGTGCTAGTCTTGAACATCCTACCGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTAC
* * * *
43564131 GTGACAGCTTGTGTGAGCATCACCGTGTAACTACGTTCTAACTGACAGCTTCTGTGAACAGACCC
131 CTGACAGCTTGTGTGAGCAGCACCGTGTAACTACGTTCTGACTGACAGCTTCTGTGAGCAGACCC
* *
43564196 ATTTATGGCTGGAGGGAGAGAATCTATGTAAATGAAAAGGAAATAAATGGTTTCGAGCATATATT
196 ATTTATGGCTCGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGCATATATT
*
43564261 AGCATACAGTGTGTGAGATTCCCACGTATTCGATATTGTTTTAAGTTATTCAACGGGCATACAAA
261 AGCATACAGTGTGTGAGATTCCCGCGTATTCGATATTGTTTTAAGTTATTCAACGGGCATACAAA
43564326 GGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAATT
326 GGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAATT
*
43564391 CTTTGATATGATGATACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAATGGTTCATG
391 CTTTGATATGTTGATACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAATGGTTCATG
*
43564456 TCGAGATCAATGGATATATATGTTATTTTTGCCTAGGAATTATACCATGTATACTAACATGTTTG
456 TCGAGATCAATGGATATATATGTTATTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTG
* * *
43564521 GTTGTGGATAT-TCCCTGTACGTTGACATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGT
521 G-TGTGGATATGCCCCTATACTTTGACATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGT
*
43564585 ACTATGTATAATTTTGATTAAATTTAATGTTATTATATGATTTTATTGAAAATGAATCAATACAT
585 ACTATGTATAATTTTGATTAAATTGAATGTTATTATATGATTTTATTGAAAATGAATCAATACAT
*
43564650 ATATGTTAATTATACAATTTATCGAATAAAGAACTGATGAAAATTCAACGACGTTCGACG
650 ATATGTTAATTATACAATTTATCGAATAAAGAACTGATGAAAATTCAACGACGTACGACG
*
43564710 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAAGATACAAATGACTTGTCATTAGGGTTACT
1 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAAGATACAAATGACATGTCATTAGGGTTACT
* *
43564775 GTATTTTAGGTGCTAGTGTTGAACATCCTACCGGTAGCTGAGTGTCCGTCATGTGTTGTGGTTAC
66 GTATTTTAGGTGCTAGTCTTGAACATCCTACCGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTAC
* * *
43564840 CTGACAGCTTGTGTGAGCAGCACCGTGTAACTACGTTCTAACTGAGAGCTTCTGTGAGTAGACCC
131 CTGACAGCTTGTGTGAGCAGCACCGTGTAACTACGTTCTGACTGACAGCTTCTGTGAGCAGACCC
*
43564905 ATTTATGGCTTGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGCATATATT
196 ATTTATGGCTCGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGCATATATT
* * * *
43564970 AGCATACAGTGTGTGAG-TTTCCGCGTATTCGACATTCTTTTAAATTATTCAACGGGCATACAAA
261 AGCATACAGTGTGTGAGATTCCCGCGTATTCGATATTGTTTTAAGTTATTCAACGGGCATACAAA
43565034 GGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAATT
326 GGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAATT
** *
43565099 CTTTGATATGTTGATACATGAAGCTTATGAAAGATGATATAGGTGACAATTTCTAATGGTTCATG
391 CTTTGATATGTTGATACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAATGGTTCATG
* *
43565164 TCGAGATAAATGGATATATATGTTTTTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTG
456 TCGAGATCAATGGATATATATGTTATTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTG
* *
43565229 GTGTGGATATGCCCCTGTACGTTGACATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTA
521 GTGTGGATATGCCCCTATACTTTGACATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTA
*
43565294 CTATGTATAATTTTGATTAAATTTAATGTTATTATATGATTTTATTGAAAATGAATCAATACATA
586 CTATGTATAATTTTGATTAAATTGAATGTTATTATATGATTTTATTGAAAATGAATCAATACATA
*
43565359 TATGTTAATTATACAATTTATCGAATAAAGAACTGATGAAAATTCAACGACGTAGGACG
651 TATGTTAATTATACAATTTATCGAATAAAGAACTGATGAAAATTCAACGACGTACGACG
*
43565418 ACTATCTAGCCCCATTTGAATCTTAAGAATATATAAGATACAAA-GACATGTCATTAGGGTTACT
1 ACTATCTAGCCCCATTTGAACCTTAAGAATATATAAGATACAAATGACATGTCATTAGGGTTACT
* *
43565482 GTATTTTAGGTGCTGGTCTTGAACGTCCTACCGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTAC
66 GTATTTTAGGTGCTAGTCTTGAACATCCTACCGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTAC
* * *
43565547 CTGACAGCTTGTGTGAGCAACACCGTGTAACTACGTTCTGACTGATAGCTTGTGTGAGCAGACCC
131 CTGACAGCTTGTGTGAGCAGCACCGTGTAACTACGTTCTGACTGACAGCTTCTGTGAGCAGACCC
43565612 ATTTATGGCTCGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGCATATATT
196 ATTTATGGCTCGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGCATATATT
* *
43565677 AGCATACAGTGTGTGAGTTTCCCGCGTACT-GAATATTGTTTTAAGTTATTCAACGGGCATACAA
261 AGCATACAGTGTGTGAGATTCCCGCGTATTCG-ATATTGTTTTAAGTTATTCAACGGGCATACAA
* *
43565741 AGGGAAAGAACGATAAGTGTTTTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAAT
325 AGGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAAT
43565806 TCTTTGATATGTTGATACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAATGGTTCAT
390 TCTTTGATATGTTGATACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAATGGTTCAT
* *
43565871 GTCGAGATGAATGGATATATATGTTATTTTTGCCTAAGATTTATACCATGTATACTAACATGTTT
455 GTCGAGATCAATGGATATATATGTTATTTTTGCCTAGGATTTATACCATGTATACTAACATGTTT
43565936 GGTGTGGAT
520 GGTGTGGAT
43565945 GCTTAGGCTT
Statistics
Matches: 3215, Mismatches: 138, Indels: 21
0.95 0.04 0.01
Matches are distributed among these distances:
707 243 0.08
708 1322 0.41
709 1029 0.32
710 10 0.00
711 10 0.00
712 14 0.00
713 587 0.18
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (709 bp):
ACTATCTAGCCCCATTTGAACCTTAAGAATATATAAGATACAAATGACATGTCATTAGGGTTACT
GTATTTTAGGTGCTAGTCTTGAACATCCTACCGGTGGCTGAGTGTCCGTCATGTGTTGTGGTTAC
CTGACAGCTTGTGTGAGCAGCACCGTGTAACTACGTTCTGACTGACAGCTTCTGTGAGCAGACCC
ATTTATGGCTCGAGGGAGAGAATCTATGTAAAGGAAAAGGAAATAAATGGTTTCGAGCATATATT
AGCATACAGTGTGTGAGATTCCCGCGTATTCGATATTGTTTTAAGTTATTCAACGGGCATACAAA
GGGAAGGAACGATAAGTGTTCTGATTGGCAATGTTATGAACTAAGGCATGTGCATATATGAAATT
CTTTGATATGTTGATACATGAAAATTATGAAAGTTGATATAGGTGACAATTTCTAATGGTTCATG
TCGAGATCAATGGATATATATGTTATTTTTGCCTAGGATTTATACCATGTATACTAACATGTTTG
GTGTGGATATGCCCCTATACTTTGACATTTCTGCAAGTTAGCTAGGGAAGTTTGTATGAAATGTA
CTATGTATAATTTTGATTAAATTGAATGTTATTATATGATTTTATTGAAAATGAATCAATACATA
TATGTTAATTATACAATTTATCGAATAAAGAACTGATGAAAATTCAACGACGTACGACG
Found at i:43567588 original size:12 final size:12
Alignment explanation
Indices: 43567571--43567600 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43567561 TTAGGCAATT
43567571 ACACGGCCTAAC
1 ACACGGCCTAAC
*
43567583 ACACGGCCTAGC
1 ACACGGCCTAAC
43567595 ACACGG
1 ACACGG
43567601 GCGTGTGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAAC
Found at i:43573478 original size:25 final size:25
Alignment explanation
Indices: 43573450--43573569 Score: 122
Period size: 25 Copynumber: 4.8 Consensus size: 25
43573440 GTTGTGAATT
* *
43573450 GATATGCTCACTCGAGCTATAGATC
1 GATATGCTCTCTCGAGCTATAAATC
* *
43573475 GATATGCTCCCACGAGCTATAAATC
1 GATATGCTCTCTCGAGCTATAAATC
43573500 -AGTATGCTCTCAT-GAGCTATAAATC
1 GA-TATGCTCTC-TCGAGCTATAAATC
*
43573525 GGTATGCTCTCAT-GAGCTATAAATC
1 GATATGCTCTC-TCGAGCTATAAATC
*
43573550 -AGTATGCTCTCACGAGCTAT
1 GA-TATGCTCTCTCGAGCTAT
43573570 GAAGTATCCG
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.01
25 81 0.99
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (25 bp):
GATATGCTCTCTCGAGCTATAAATC
Found at i:43573508 original size:50 final size:50
Alignment explanation
Indices: 43573452--43573569 Score: 166
Period size: 50 Copynumber: 2.4 Consensus size: 50
43573442 TGTGAATTGA
* *
43573452 TATGCTCACTCGAGCTATAGATCGATATGCTCCCACGAGCTATAAATCAG
1 TATGCTCTCTCGAGCTATAAATCGATATGCTCCCACGAGCTATAAATCAG
* * *
43573502 TATGCTCTCAT-GAGCTATAAATCGGTATGCTCTCATGAGCTATAAATCAG
1 TATGCTCTC-TCGAGCTATAAATCGATATGCTCCCACGAGCTATAAATCAG
*
43573552 TATGCTCTCACGAGCTAT
1 TATGCTCTCTCGAGCTAT
43573570 GAAGTATCCG
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 59 0.98
51 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (50 bp):
TATGCTCTCTCGAGCTATAAATCGATATGCTCCCACGAGCTATAAATCAG
Found at i:43589784 original size:31 final size:31
Alignment explanation
Indices: 43589746--43589806 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
43589736 GGCAAATTAA
43589746 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTC
43589777 AAGAGTAATTGAATCCTAATAAAACTCTTT
1 AAGAGTAATTGAATCCTAATAAAACTCTTT
43589807 AAAATTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTC
Found at i:43599813 original size:40 final size:38
Alignment explanation
Indices: 43599767--43599868 Score: 123
Period size: 40 Copynumber: 2.6 Consensus size: 38
43599757 AATATAATAG
* *
43599767 TTATAATTACCATAATTATAATAATGTTTGAGCAAAAAA
1 TTATAATTACAATAATTATAATAATATTTGAGC-AAAAA
* * * **
43599806 TTTATAATTATAGTAATTATAATAATATTTGATCCTAAA
1 -TTATAATTACAATAATTATAATAATATTTGAGCAAAAA
43599845 TTATAATTACAATAATTATAATAA
1 TTATAATTACAATAATTATAATAA
43599869 GGATTTCGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 22 0.42
39 3 0.06
40 28 0.53
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (38 bp):
TTATAATTACAATAATTATAATAATATTTGAGCAAAAA
Found at i:43602860 original size:50 final size:50
Alignment explanation
Indices: 43602735--43603031 Score: 292
Period size: 50 Copynumber: 5.8 Consensus size: 50
43602725 GATAATAACA
* ** * * *
43602735 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** *
43602784 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
43602834 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
43602884 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
43602934 TGCCAACGCTATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* *
43602990 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
43603032 TTACCCAAAT
Statistics
Matches: 206, Mismatches: 34, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
48 1 0.00
49 38 0.18
50 124 0.60
53 5 0.02
56 38 0.18
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:43606741 original size:19 final size:19
Alignment explanation
Indices: 43606717--43606759 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
43606707 CACACTATCA
43606717 CACTATCCAGTAGACAATT
1 CACTATCCAGTAGACAATT
43606736 CACTATCCAGTAGACAATT
1 CACTATCCAGTAGACAATT
43606755 CACTA
1 CACTA
43606760 GTTTTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.37, C:0.28, G:0.09, T:0.26
Consensus pattern (19 bp):
CACTATCCAGTAGACAATT
Found at i:43608944 original size:16 final size:16
Alignment explanation
Indices: 43608923--43608972 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
43608913 ACCATGAACA
43608923 TCACAAGTGAATTAAT
1 TCACAAGTGAATTAAT
**
43608939 TCACAA---AA-GGAT
1 TCACAAGTGAATTAAT
43608951 TCACAAGTGAATTAAT
1 TCACAAGTGAATTAAT
43608967 TCACAA
1 TCACAA
43608973 AAGGATTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 8 0.31
13 2 0.08
15 2 0.08
16 14 0.54
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (16 bp):
TCACAAGTGAATTAAT
Found at i:43608955 original size:28 final size:28
Alignment explanation
Indices: 43608923--43608981 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
43608913 ACCATGAACA
43608923 TCACAAGTGAATTAATTCACAAAAGGAT
1 TCACAAGTGAATTAATTCACAAAAGGAT
43608951 TCACAAGTGAATTAATTCACAAAAGGAT
1 TCACAAGTGAATTAATTCACAAAAGGAT
43608979 TCA
1 TCA
43608982 TAATTAATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (28 bp):
TCACAAGTGAATTAATTCACAAAAGGAT
Found at i:43609243 original size:18 final size:20
Alignment explanation
Indices: 43609194--43609244 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
43609184 ATCTACTAAA
*
43609194 GTAAGTTATCTTCTCACAAT
1 GTAACTTATCTTCTCACAAT
*
43609214 GTAAACAT-TCTT-T-ACAAT
1 GT-AACTTATCTTCTCACAAT
43609232 GTAACTTATCTTC
1 GTAACTTATCTTC
43609245 AATTTGAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 1 0.04
20 6 0.24
21 3 0.12
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (20 bp):
GTAACTTATCTTCTCACAAT
Found at i:43617786 original size:27 final size:27
Alignment explanation
Indices: 43617749--43617998 Score: 286
Period size: 27 Copynumber: 9.3 Consensus size: 27
43617739 AAAGGTCAAT
* * * *
43617749 AAATGACCGAATTACCCCTACAGGATT
1 AAATGACCGAATTACCCCCATAGGGTA
* *
43617776 AAATGACCGAATTACCCCTATAGGATA
1 AAATGACCGAATTACCCCCATAGGGTA
*
43617803 AAATAACCGAATTACCCCCACT-GGGTA
1 AAATGACCGAATTACCCCCA-TAGGGTA
* *
43617830 AAATGATCGAATTGCCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* *
43617857 AAATGACCAAATTACCCCCAGAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * * *
43617884 AAAGGATCGAATTGCCCCTATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
*
43617911 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* *
43617938 AAATGACCAAATTACCCTCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * * *
43617965 AAATGATCGAAATACCCTCATAGTGTA
1 AAATGACCGAATTACCCCCATAGGGTA
43617992 AAATGAC
1 AAATGAC
43617999 TGTTATACCC
Statistics
Matches: 190, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 188 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCATAGGGTA
Found at i:43618006 original size:27 final size:27
Alignment explanation
Indices: 43617950--43618031 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
43617940 ATGACCAAAT
* **
43617950 TACCCTCATAGGGTAAAATGA-TCGAAA
1 TACCCTCATAGAGTAAAATGACT-GTTA
*
43617977 TACCCTCATAGTGTAAAATGACTGTTA
1 TACCCTCATAGAGTAAAATGACTGTTA
43618004 TACCC-C-TAGGAGATAAAATGACTGTTA
1 TACCCTCATA-GAG-TAAAATGACTGTTA
43618031 T
1 T
43618032 GGCCTTATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 42 0.88
28 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (27 bp):
TACCCTCATAGAGTAAAATGACTGTTA
Found at i:43618403 original size:28 final size:28
Alignment explanation
Indices: 43618363--43619282 Score: 1475
Period size: 28 Copynumber: 32.9 Consensus size: 28
43618353 ACTATACCGA
43618363 TATTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618391 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618419 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618447 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618475 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618503 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618531 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618559 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618587 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618615 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618643 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618671 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618699 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618727 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618755 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618783 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618811 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618839 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618867 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618895 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618923 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618951 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43618979 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43619007 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43619035 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43619063 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43619091 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43619119 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43619147 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43619175 TGA-TGTTTTGGGCTAAGGCCCACATTGT
1 T-ATTGTATTGGGCTAAGGCCCACATTGT
* *
43619203 TACTGTATTGGGCTAAGACCCATC-TTGT
1 TATTGTATTGGGCTAAGGCCCA-CATTGT
* * * *
43619231 TACTGTATTAGGCTAGGGCCCACATTAT
1 TATTGTATTGGGCTAAGGCCCACATTGT
**
43619259 TGCTGTATTGGGCTAAGGCCCACA
1 TATTGTATTGGGCTAAGGCCCACA
43619283 CAATACTGTT
Statistics
Matches: 822, Mismatches: 66, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
27 2 0.00
28 819 1.00
29 1 0.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (28 bp):
TATTGTATTGGGCTAAGGCCCACATTGT
Found at i:43618451 original size:56 final size:56
Alignment explanation
Indices: 43618365--43619282 Score: 1709
Period size: 56 Copynumber: 16.4 Consensus size: 56
43618355 TATACCGATA
43618365 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618421 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618477 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618533 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618589 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618645 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618701 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618757 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618813 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618869 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618925 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43618981 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43619037 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
43619093 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
1 TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
*
43619149 TTGTATTGGGCTAAGGCCCACATTGTTGA-TGTTTTGGGCTAAGGCCCACATTGTTAC
1 TTGTATTGGGCTAAGGCCCACATTGTT-ATTGTGTTGGGCTAAGGCCCACATTGTT-C
* * * * * *
43619206 -TGTATTGGGCTAAGACCCATC-TTGTTACTGTATTAGGCTAGGGCCCACATTATTGC
1 TTGTATTGGGCTAAGGCCCA-CATTGTTATTGTGTTGGGCTAAGGCCCACATTGTT-C
43619262 -TGTATTGGGCTAAGGCCCACA
1 TTGTATTGGGCTAAGGCCCACA
43619283 CAATACTGTT
Statistics
Matches: 849, Mismatches: 8, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
55 2 0.00
56 844 0.99
57 3 0.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (56 bp):
TTGTATTGGGCTAAGGCCCACATTGTTATTGTGTTGGGCTAAGGCCCACATTGTTC
Found at i:43623920 original size:27 final size:27
Alignment explanation
Indices: 43623882--43623954 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
43623872 GAAAGGTCAA
43623882 TAAATGACCGAATTACCCCTACAGGAT
1 TAAATGACCGAATTACCCCTACAGGAT
*
43623909 TAAATGACCGAATTACCCCTATAGGAT
1 TAAATGACCGAATTACCCCTACAGGAT
* *
43623936 AAAATAACCGAATTACCCC
1 TAAATGACCGAATTACCCC
43623955 CACGCTTTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (27 bp):
TAAATGACCGAATTACCCCTACAGGAT
Found at i:43623946 original size:54 final size:54
Alignment explanation
Indices: 43623883--43624224 Score: 285
Period size: 54 Copynumber: 6.1 Consensus size: 54
43623873 AAAGGTCAAT
* * * *
43623883 AAATGACCGAATTACCCCTACAGGATTAAATGACCGAATTACCCCTATAGGATA
1 AAATGACCGAATTACCCCTATAGGATAAAATGACCGAATTACCCCCATAGGGTA
* * * * *
43623937 AAATAACCGAATTACCCCCACGCTTTCGAAAGG-TCAATAAATGACCGAATTACCCCTACAGGAT
1 AAATGACCGAATTA---CC-C-C--T--ATAGGAT--A-AAATGACCGAATTACCCCCATAGGGT
*
43624001 T
54 A
*
43624002 AAATGACCGAATTACCCCTATAGGATAAAATAACCGAATTACCCCCACT-GGGTA
1 AAATGACCGAATTACCCCTATAGGATAAAATGACCGAATTACCCCCA-TAGGGTA
* * * * * *
43624056 AAATGATCGAATTGCCCCCATAGGGTAAAATGACCAAATTACCCCCAGAGGGTA
1 AAATGACCGAATTACCCCTATAGGATAAAATGACCGAATTACCCCCATAGGGTA
* * * * *
43624110 AAAGGATCGAATTGCCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAATTACCCCTATAGGATAAAATGACCGAATTACCCCCATAGGGTA
* * * * * *
43624164 AAATGACCAAATTA-CCCTCATAGGGTAAAATGATCGAAATACCCTCATAGTGTA
1 AAATGACCGAATTACCCCT-ATAGGATAAAATGACCGAATTACCCCCATAGGGTA
43624218 AAATGAC
1 AAATGAC
43624225 TGTTATACCC
Statistics
Matches: 241, Mismatches: 31, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
53 4 0.02
54 178 0.74
55 1 0.00
56 4 0.02
57 3 0.01
58 2 0.01
59 1 0.00
60 1 0.00
61 2 0.01
62 3 0.01
63 4 0.02
65 38 0.16
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.21
Consensus pattern (54 bp):
AAATGACCGAATTACCCCTATAGGATAAAATGACCGAATTACCCCCATAGGGTA
Found at i:43624012 original size:27 final size:27
Alignment explanation
Indices: 43623975--43624224 Score: 286
Period size: 27 Copynumber: 9.3 Consensus size: 27
43623965 AAAGGTCAAT
* * * *
43623975 AAATGACCGAATTACCCCTACAGGATT
1 AAATGACCGAATTACCCCCATAGGGTA
* *
43624002 AAATGACCGAATTACCCCTATAGGATA
1 AAATGACCGAATTACCCCCATAGGGTA
*
43624029 AAATAACCGAATTACCCCCACT-GGGTA
1 AAATGACCGAATTACCCCCA-TAGGGTA
* *
43624056 AAATGATCGAATTGCCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* *
43624083 AAATGACCAAATTACCCCCAGAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * * *
43624110 AAAGGATCGAATTGCCCCTATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
*
43624137 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* *
43624164 AAATGACCAAATTACCCTCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * * *
43624191 AAATGATCGAAATACCCTCATAGTGTA
1 AAATGACCGAATTACCCCCATAGGGTA
43624218 AAATGAC
1 AAATGAC
43624225 TGTTATACCC
Statistics
Matches: 190, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 188 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCATAGGGTA
Found at i:43624023 original size:92 final size:92
Alignment explanation
Indices: 43623866--43624049 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
43623856 CGACTGCGGA
43623866 GCTTTCGAAAGGTCAATAAATGACCGAATTACCCCTACAGGATTAAATGACCGAATTACCCCTAT
1 GCTTTCGAAAGGTCAATAAATGACCGAATTACCCCTACAGGATTAAATGACCGAATTACCCCTAT
43623931 AGGATAAAATAACCGAATTACCCCCAC
66 AGGATAAAATAACCGAATTACCCCCAC
43623958 GCTTTCGAAAGGTCAATAAATGACCGAATTACCCCTACAGGATTAAATGACCGAATTACCCCTAT
1 GCTTTCGAAAGGTCAATAAATGACCGAATTACCCCTACAGGATTAAATGACCGAATTACCCCTAT
43624023 AGGATAAAATAACCGAATTACCCCCAC
66 AGGATAAAATAACCGAATTACCCCCAC
43624050 TGGGTAAAAT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (92 bp):
GCTTTCGAAAGGTCAATAAATGACCGAATTACCCCTACAGGATTAAATGACCGAATTACCCCTAT
AGGATAAAATAACCGAATTACCCCCAC
Found at i:43624232 original size:27 final size:27
Alignment explanation
Indices: 43624176--43624257 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
43624166 ATGACCAAAT
* **
43624176 TACCCTCATAGGGTAAAATGA-TCGAAA
1 TACCCTCATAGAGTAAAATGACT-GTTA
*
43624203 TACCCTCATAGTGTAAAATGACTGTTA
1 TACCCTCATAGAGTAAAATGACTGTTA
43624230 TACCC-C-TAGGAGATAAAATGACTGTTA
1 TACCCTCATA-GAG-TAAAATGACTGTTA
43624257 T
1 T
43624258 GGCCTTATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 42 0.88
28 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (27 bp):
TACCCTCATAGAGTAAAATGACTGTTA
Found at i:43624628 original size:28 final size:28
Alignment explanation
Indices: 43624589--43624808 Score: 300
Period size: 28 Copynumber: 7.9 Consensus size: 28
43624579 ACTATACCGA
43624589 TATTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43624617 TGTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43624645 TATTGTGTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43624673 TCTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
43624701 TGA-TGTTTTGGGCTAAGGCCCACATTGT
1 T-ATTGTATTGGGCTAAGGCCCACATTGT
* *
43624729 TACTGTATTGGGCTAAGACCCATC-TTGT
1 TATTGTATTGGGCTAAGGCCCA-CATTGT
* * * *
43624757 TACTGTATTAGGCTAGGGCCCACATTAT
1 TATTGTATTGGGCTAAGGCCCACATTGT
**
43624785 TGCTGTATTGGGCTAAGGCCCACA
1 TATTGTATTGGGCTAAGGCCCACA
43624809 CAATACTGTT
Statistics
Matches: 172, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
27 2 0.01
28 169 0.98
29 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (28 bp):
TATTGTATTGGGCTAAGGCCCACATTGT
Done.