Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 72 of 253
Found at i:21353672 original size:94 final size:94
Alignment explanation
Indices: 21353508--21353683 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 94
21353498 CCCTTCGGGA
* * * *
21353508 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTTGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTTGGCCCTATCACATATATACAC
*
21353573 TTTCACATTCATCACATCAGCCATTAGGC
66 TTTCACATCCATCACATCAGCCATTAGGC
* * * *
21353602 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCTCATATATGCA
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTT-GGCCCTATCACATATATACA
21353666 -TGTTCACATCCATCACAT
65 CT-TTCACATCCATCACAT
21353684 AGAATCCTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
93 3 0.04
94 68 0.96
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTTGGCCCTATCACATATATACAC
TTTCACATCCATCACATCAGCCATTAGGC
Found at i:21371049 original size:26 final size:26
Alignment explanation
Indices: 21371009--21371059 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
21370999 GAGTTGGACC
* *
21371009 ATGTGAGGTTGAAACATGTTTTATTA
1 ATGTCAGGTTCAAACATGTTTTATTA
21371035 ATGTCAGGTTCAAACATGTTTTATT
1 ATGTCAGGTTCAAACATGTTTTATT
21371060 GTTGTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (26 bp):
ATGTCAGGTTCAAACATGTTTTATTA
Found at i:21372592 original size:18 final size:18
Alignment explanation
Indices: 21372556--21372593 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21372546 CCAAAATCTT
*
21372556 ATTTTAATTCTTTTGTAC
1 ATTTTAATTCTTTTATAC
21372574 ATTTTAATT-TTATTATAC
1 ATTTTAATTCTT-TTATAC
21372592 AT
1 AT
21372594 ATTTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTAATTCTTTTATAC
Found at i:21373338 original size:21 final size:21
Alignment explanation
Indices: 21373313--21373352 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21373303 TATTGCCTTC
21373313 AAATT-TTTTATTAAAATAAAA
1 AAATTATTTT-TTAAAATAAAA
*
21373334 AAATTATTTTTTACAATAA
1 AAATTATTTTTTAAAATAA
21373353 TTTAATTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATTATTTTTTAAAATAAAA
Found at i:21373370 original size:29 final size:30
Alignment explanation
Indices: 21373332--21373389 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
21373322 ATTAAAATAA
*
21373332 AAAAATTATTTT-TTACAATAATTTAATTAG
1 AAAAATTATTTTATGA-AATAATTTAATTAG
*
21373362 AAAAA-TATTTTATGAATTAATTTAATTA
1 AAAAATTATTTTATGAAATAATTTAATTA
21373390 TTATTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (30 bp):
AAAAATTATTTTATGAAATAATTTAATTAG
Found at i:21373813 original size:31 final size:31
Alignment explanation
Indices: 21373778--21373840 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
21373768 ATCAATGATT
21373778 TCACAAAAGCCAATAAAAAAACAATTTAACA
1 TCACAAAAGCCAATAAAAAAACAATTTAACA
21373809 TCACAAAAGCCAATAAAAAAACAATTTAACA
1 TCACAAAAGCCAATAAAAAAACAATTTAACA
21373840 T
1 T
21373841 AGATTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.60, C:0.19, G:0.03, T:0.17
Consensus pattern (31 bp):
TCACAAAAGCCAATAAAAAAACAATTTAACA
Found at i:21395525 original size:46 final size:46
Alignment explanation
Indices: 21395475--21395637 Score: 181
Period size: 46 Copynumber: 3.5 Consensus size: 46
21395465 TCCAAACTTA
* *
21395475 TTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCG
* * *
21395521 TTGAGTTGAGTCCGAGTTCA-TGA--AATG-TAACTAGGCATCCGAACTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAACTCG
* * *
21395568 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCG
21395614 TTGAGTTGAGTCCGAGTTCACTTA
1 TTGAGTTGAGTCCGAGTTCACTTA
21395638 GGGGCGGGTT
Statistics
Matches: 97, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 51 0.53
47 29 0.30
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCG
Found at i:21403351 original size:18 final size:18
Alignment explanation
Indices: 21403314--21403352 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21403304 TTGGAAATCA
*
21403314 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
21403332 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
21403350 AAA
1 AAA
21403353 AATCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:21405168 original size:16 final size:17
Alignment explanation
Indices: 21405136--21405168 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21405126 GTTATACGAA
21405136 CTTACTTAGCATTTTATG
1 CTTACTTAG-ATTTTATG
21405154 CTTACTTAG-TTTTAT
1 CTTACTTAGATTTTAT
21405169 TTCCCTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.55
Consensus pattern (17 bp):
CTTACTTAGATTTTATG
Found at i:21407702 original size:20 final size:20
Alignment explanation
Indices: 21407656--21407711 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
21407646 ACTAAACTAA
* *
21407656 AAACTTGGGAAACATTCACG
1 AAACTTTGGAAACTTTCACG
21407676 AAACTTTGGAAACTTTCACG
1 AAACTTTGGAAACTTTCACG
*
21407696 AAACTTTGAAAACTTT
1 AAACTTTGGAAACTTT
21407712 TCTCAAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (20 bp):
AAACTTTGGAAACTTTCACG
Found at i:21412350 original size:44 final size:42
Alignment explanation
Indices: 21412288--21412446 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
21412278 GACATTGATC
* * *
21412288 TGAGATATCGTGTAAGACCATGTCTGGGACACAGGCCTCAATT
1 TGAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATC-ATA
* *
21412331 TGAGATTTACGTGTAAGACCATGTCTGGGACATAGGAATCATA
1 TGAGATTT-CGTGTAAGACCATGTCTGGGACACAGGCATCATA
* *
21412374 T-ATGATTTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATA
1 TGA-GATTTCGTGTAAGACCATGTCTGGGACACAGGCATC-ATA
* * **
21412417 CTGA-ATTACATGTAAGACCGCGTCTGGGAC
1 -TGAGATTTCGTGTAAGACCATGTCTGGGAC
21412447 GTCAGCATTG
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 29 0.29
43 40 0.40
44 29 0.29
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATCATA
Found at i:21412399 original size:42 final size:42
Alignment explanation
Indices: 21412290--21412404 Score: 142
Period size: 44 Copynumber: 2.7 Consensus size: 42
21412280 CATTGATCTG
* ** *
21412290 AGATATCGTGTAAGACCATGTCTGGGACACAGGCCTCAATTT
1 AGATTTCGTGTAAGACCATGTCTGGGACACAGGAATCAATAT
*
21412332 GAGATTTACGTGTAAGACCATGTCTGGGACATAGGAATC-ATAT
1 -AGATTT-CGTGTAAGACCATGTCTGGGACACAGGAATCAATAT
*
21412375 ATGATTTCGTGTAAGACCCTGTCTGGGACA
1 A-GATTTCGTGTAAGACCATGTCTGGGACA
21412405 GAGGCATCGA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 23 0.36
43 13 0.20
44 28 0.44
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
AGATTTCGTGTAAGACCATGTCTGGGACACAGGAATCAATAT
Found at i:21412718 original size:24 final size:24
Alignment explanation
Indices: 21412676--21412745 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
21412666 AGCATGGTTA
21412676 GGCTCATGAACTATTCTGTGAAAT
1 GGCTCATGAACTATTCTGTGAAAT
*
21412700 GGCT-ATGAATTATTGCTGT----T
1 GGCTCATGAACTATT-CTGTGAAAT
*
21412720 GACTCATGAACTATTCTGTGAAAT
1 GGCTCATGAACTATTCTGTGAAAT
21412744 GG
1 GG
21412746 ATATGAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
20 8 0.22
21 9 0.25
23 9 0.25
24 10 0.28
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (24 bp):
GGCTCATGAACTATTCTGTGAAAT
Found at i:21412728 original size:44 final size:44
Alignment explanation
Indices: 21412678--21412765 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
21412668 CATGGTTAGG
*
21412678 CTCATGAACTATTCTGTGAAATGGCTATGAATTATTGCTGTTGA
1 CTCATGAACTATTCTGTGAAATGGATATGAATTATTGCTGTTGA
*
21412722 CTCATGAACTATTCTGTGAAATGGATATGAATTCTTGCTGTTGA
1 CTCATGAACTATTCTGTGAAATGGATATGAATTATTGCTGTTGA
21412766 TTTGTACTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (44 bp):
CTCATGAACTATTCTGTGAAATGGATATGAATTATTGCTGTTGA
Found at i:21412751 original size:23 final size:23
Alignment explanation
Indices: 21412681--21412752 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
21412671 GGTTAGGCTC
*
21412681 ATGAACTATTCTGTGAAATGGCT
1 ATGAACTATTCTGTGAAATGGAT
*
21412704 ATGAATTATTGCTGT----T-GACT
1 ATGAACTATT-CTGTGAAATGGA-T
21412724 CATGAACTATTCTGTGAAATGGAT
1 -ATGAACTATTCTGTGAAATGGAT
21412748 ATGAA
1 ATGAA
21412753 TTCTTGCTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
19 1 0.03
20 6 0.16
21 9 0.24
23 14 0.37
24 6 0.16
25 2 0.05
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (23 bp):
ATGAACTATTCTGTGAAATGGAT
Found at i:21419347 original size:31 final size:32
Alignment explanation
Indices: 21419311--21419376 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
21419301 AATGATTTCA
21419311 TTCATAAC-TTCATTCATTTTCTGTTTTTTTT
1 TTCATAACTTTCATTCATTTTCTGTTTTTTTT
21419342 TTCATAACTTTCATTCATTTTCTGTTTTTTTT
1 TTCATAACTTTCATTCATTTTCTGTTTTTTTT
21419374 TTC
1 TTC
21419377 TTAGAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.24
32 26 0.76
ACGTcount: A:0.15, C:0.17, G:0.03, T:0.65
Consensus pattern (32 bp):
TTCATAACTTTCATTCATTTTCTGTTTTTTTT
Found at i:21422733 original size:26 final size:26
Alignment explanation
Indices: 21422696--21422745 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
21422686 AATTTAATTT
*
21422696 GTTTTGATTTTTTATATTAATTTTTG
1 GTTTTGATTTTTTAGATTAATTTTTG
*
21422722 GTTTT-ATATTTTTAGATTTATTTT
1 GTTTTGAT-TTTTTAGATTAATTTT
21422746 AATTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (26 bp):
GTTTTGATTTTTTAGATTAATTTTTG
Found at i:21430792 original size:2 final size:2
Alignment explanation
Indices: 21430785--21430818 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
21430775 TTATGAATGA
*
21430785 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21430819 TAAGCTGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:21432908 original size:28 final size:29
Alignment explanation
Indices: 21432877--21432936 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
21432867 AAAGTGATTT
*
21432877 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
* * *
21432905 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
21432934 TTG
1 TTG
21432937 TGAAATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGGATTAAA
Found at i:21432936 original size:29 final size:28
Alignment explanation
Indices: 21432877--21432941 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
21432867 AAAGTGATTT
* *
21432877 TTGACAAAAATGTCAATTAGGGATTAAA
1 TTGAGAAAAATGTAAATTAGGGATTAAA
* *
21432905 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATT-AGGGATTAAA
*
21432934 TTGTGAAA
1 TTGAGAAA
21432942 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.29
Consensus pattern (28 bp):
TTGAGAAAAATGTAAATTAGGGATTAAA
Found at i:21433484 original size:43 final size:44
Alignment explanation
Indices: 21433419--21433580 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 44
21433409 TTTATCGAGA
* *
21433419 TTACATGTAAGACCGTGCCTGGGACATTGGCATTGTAT-TGTGT
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGTGT
*
21433462 TTACATGTAAGACCATGTCTGGGACATTGGCATCAT-TATATG-AT
1 TTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATATGTGT
* * * * * *
21433506 TT-CGTGTAAGACCATGTCTGGGACGTTGGAATCG-ATATATGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGTGT
* * *
21433548 TAACATGTAAGACCATATCTGGGATA-TGGCATT
1 TTACATGTAAGACCATGTCTGGGACATTGGCATT
21433581 ATATGAGCTC
Statistics
Matches: 96, Mismatches: 17, Indels: 13
0.76 0.13 0.10
Matches are distributed among these distances:
41 4 0.04
42 6 0.06
43 77 0.80
44 6 0.06
45 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (44 bp):
TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGTGT
Found at i:21436303 original size:40 final size:40
Alignment explanation
Indices: 21436266--21436491 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
21436256 GCTACTCGTT
* * *
21436266 CAAATGTCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
21436306 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
21436346 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** **
21436386 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCATA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
*** * * * *
21436426 CAAATGCCTTC-GGATCTTGGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
21436467 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
21436492 CATCATTCAA
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.92
41 11 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:21441826 original size:2 final size:2
Alignment explanation
Indices: 21441819--21441853 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
21441809 TTATGAATGA
21441819 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C- CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21441854 TAAGCGTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:21443935 original size:26 final size:27
Alignment explanation
Indices: 21443906--21443958 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21443896 GATTTTTGAC
*
21443906 AAAAATGTCAATT-AGGGATTAAATTG
1 AAAAATGTAAATTGAGGGATTAAATTG
* *
21443932 AAAAGTGTAAATTGAGGGGTTAAATTG
1 AAAAATGTAAATTGAGGGATTAAATTG
21443959 TGAAATAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (27 bp):
AAAAATGTAAATTGAGGGATTAAATTG
Found at i:21444535 original size:42 final size:43
Alignment explanation
Indices: 21444430--21444587 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
21444420 TATCGAGATT
* * * * * *
21444430 ACATGTAAGACCGTGCCTGGGACATTGGCATTG-TATTGTGTTT
1 ACATGTAAGACCATGTCTGGGACATTGGCATCGATA-TATGATA
*
21444473 ACATGTAAGACCATGTCTGGGACATTGGCATC-ATTATATGATT
1 ACATGTAAGACCATGTCTGGGACATTGGCATCGA-TATATGATA
* * * *
21444516 TCGTG-AAGACCATGTCTGGGACGTTGGAATCGATATATGATA
1 ACATGTAAGACCATGTCTGGGACATTGGCATCGATATATGATA
* *
21444558 ACATGTAAGACCATATCTGGGATA-TGGCAT
1 ACATGTAAGACCATGTCTGGGACATTGGCAT
21444588 TATATGAGCT
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 40 0.42
43 53 0.56
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
ACATGTAAGACCATGTCTGGGACATTGGCATCGATATATGATA
Found at i:21447458 original size:39 final size:39
Alignment explanation
Indices: 21447310--21447512 Score: 225
Period size: 40 Copynumber: 5.2 Consensus size: 39
21447300 AAATCATGTA
* * * **
21447310 CCTTCGGAATTTAACCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCGGATTTAG-TAACTCGCACAAATG
* * *
21447349 TCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTA-ACCGGATT-TAGTAACTCGCACAAATG
21447389 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAA-CCGGATTTAGTAACTCGCACAAATG
21447429 CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATG
* * **
21447468 CCTTC-GGTCTTAGTCCGGATTTAGTAACTCATAC-AATG
1 CCTTCGGGACTTA-ACCGGATTTAGTAACTCGCACAAATG
21447506 CCTTCGG
1 CCTTCGG
21447513 ATTCATTGTC
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 15 0.11
39 60 0.42
40 65 0.46
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (39 bp):
CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATG
Found at i:21447462 original size:79 final size:79
Alignment explanation
Indices: 21447343--21447512 Score: 229
Period size: 79 Copynumber: 2.2 Consensus size: 79
21447333 GCTACTCGTT
* *
21447343 CAAATGTCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGACCGGTTATAGTAACTCGCACAAATGCCTTC-GGACTTAACCCGG
*
21447408 ATTTAGTAACTCGCA
65 ATTTAGTAACTCACA
* * **
21447423 CAAATGCCTTCGGGACTTA-ACCGGATT-TAGTAACTCGCACAAATGCCTTCGGTCTTAGTCCGG
1 CAAATGCCTTCGGGACATAGACCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGG
*
21447486 ATTTAGTAACTCATA
65 ATTTAGTAACTCACA
21447501 C-AATGCCTTCGG
1 CAAATGCCTTCGG
21447513 ATTCATTGTC
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
77 11 0.14
78 24 0.30
79 27 0.33
80 19 0.23
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAGACCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
TTTAGTAACTCACA
Found at i:21454182 original size:37 final size:38
Alignment explanation
Indices: 21454113--21454216 Score: 140
Period size: 37 Copynumber: 2.7 Consensus size: 38
21454103 AGAACGAATG
*
21454113 CCTTCGGGACTTAACCCGGTTATAATAACCCGCAAGAATA
1 CCTTC-GGACTGAACCCGGTTATAATAACCCGCAAG-ATA
* *
21454153 CCTTCGG-CTGAACCCGGTTA-AATAACCCGCACGATG
1 CCTTCGGACTGAACCCGGTTATAATAACCCGCAAGATA
*
21454189 CCTTCGGACTTAACCCGGTTATAATAAC
1 CCTTCGGACTGAACCCGGTTATAATAAC
21454217 TAGCACAATT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
36 9 0.16
37 24 0.41
38 18 0.31
39 2 0.03
40 5 0.09
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (38 bp):
CCTTCGGACTGAACCCGGTTATAATAACCCGCAAGATA
Found at i:21454262 original size:40 final size:40
Alignment explanation
Indices: 21454186--21454290 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
21454176 AACCCGCACG
** *
21454186 ATGCCTTCGGA-CTTAACCCGGTTATAATAACTAGCACAA
1 ATGCCTTCGGATCTTAGTCCGGATATAATAACTAGCACAA
* *
21454225 TTGCCTTCGGATCTTAGTCCGGATATAGTAACTAGCACAA
1 ATGCCTTCGGATCTTAGTCCGGATATAATAACTAGCACAA
*
21454265 ATGCCTTCAGATCTTAGTCCGGATAT
1 ATGCCTTCGGATCTTAGTCCGGATAT
21454291 CATCCGAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 10 0.17
40 48 0.83
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (40 bp):
ATGCCTTCGGATCTTAGTCCGGATATAATAACTAGCACAA
Found at i:21461919 original size:39 final size:40
Alignment explanation
Indices: 21461874--21462041 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
21461864 CGGGGTTTAG
* * *
21461874 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
21461913 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
21461953 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
21461993 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
21462034 CCGGATAT
1 CCGGATAT
21462042 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:21462024 original size:41 final size:40
Alignment explanation
Indices: 21461897--21462041 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
21461887 CTCGCACAAG
* * * * *
21461897 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
21461937 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
21461977 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
21462018 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
21462042 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:21463270 original size:38 final size:38
Alignment explanation
Indices: 21463228--21463303 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
21463218 CAAGAACTCC
21463228 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
21463266 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
21463304 AAAGGATGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:21466460 original size:40 final size:40
Alignment explanation
Indices: 21466416--21466589 Score: 219
Period size: 40 Copynumber: 4.3 Consensus size: 40
21466406 AACAACTAGA
*
21466416 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGC
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGC
*
21466456 ACGAATACCTTCGGGACTTAACCCGGTTATAATAACCCA-C
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAA-CCAGC
*
21466496 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACTAGC
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGC
** * * *
21466536 AC-AATTGCCTTC-GGATCTTAGTCCGGATATAGTAACTAGC
1 ACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAATAACCAGC
*
21466576 ACAAATGCCTTCGG
1 ACGAATGCCTTCGG
21466590 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
39 7 0.06
40 108 0.90
41 5 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGC
Found at i:21466590 original size:40 final size:40
Alignment explanation
Indices: 21466399--21466605 Score: 161
Period size: 40 Copynumber: 5.2 Consensus size: 40
21466389 GAATTTGGCT
* * * * **
21466399 CGGATGTAACAACTAGAACGAATGCCTTCGGGA-CTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTC-GGATCTTAGTC
* ** * * **
21466439 CGGTTATAATAACCCGCACGAATACCTTCGGGA-CTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTC-GGATCTTAGTC
* * * **
21466479 CGGTTATAATAACCCA-CACGAATGCCTTCGGGA-CTTAACC
1 CGGATATAATAA-CTAGCACAAATGCCTTC-GGATCTTAGTC
* *
21466519 CGGTTATAATAACTAGCACAATTGCCTTCGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
*
21466559 CGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
21466599 CGGATAT
1 CGGATAT
21466606 CATCCGAATA
Statistics
Matches: 147, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 5 0.03
40 140 0.95
41 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (40 bp):
CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
Found at i:21471172 original size:28 final size:28
Alignment explanation
Indices: 21471128--21471198 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
21471118 TATGAAGTTT
* *
21471128 ATGTCTAATGCAATGCAGTCATAAAAAA
1 ATGTCTAATGCATTGCAGCCATAAAAAA
21471156 ATGTCTAATGCATTGCAGCCATAAAAAA
1 ATGTCTAATGCATTGCAGCCATAAAAAA
* *
21471184 AAGTCTAATACATTG
1 ATGTCTAATGCATTG
21471199 TATAATGGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (28 bp):
ATGTCTAATGCATTGCAGCCATAAAAAA
Found at i:21472509 original size:3 final size:3
Alignment explanation
Indices: 21472501--21472546 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
21472491 AACTTTTACC
21472501 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
21472547 AGGAATTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:21473091 original size:56 final size:56
Alignment explanation
Indices: 21473024--21473136 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
21473014 TTTCCATGAA
* * *
21473024 TTAATTTTGTTTTTCAATAAAACCTCATAATTGATGAACGTGTTATGGAAAGGGAT
1 TTAAATTTGTTTTTCAATAAAACCACATAATTGATGAACGTGTTATGCAAAGGGAT
*
21473080 TTAAATTTGTTTTTCAATAAAACGACATAATTGATGAACGTGTTATGCAAAGGGAT
1 TTAAATTTGTTTTTCAATAAAACCACATAATTGATGAACGTGTTATGCAAAGGGAT
21473136 T
1 T
21473137 GCTACCCATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (56 bp):
TTAAATTTGTTTTTCAATAAAACCACATAATTGATGAACGTGTTATGCAAAGGGAT
Found at i:21473206 original size:43 final size:42
Alignment explanation
Indices: 21473146--21473233 Score: 149
Period size: 43 Copynumber: 2.1 Consensus size: 42
21473136 TGCTACCCAT
*
21473146 ATTAAAGCATTACTTATTTTCGTTAAAAATATACTAAACATC
1 ATTAAAGCATTACTTATTTTCGTTAAAAATACACTAAACATC
*
21473188 ATTAAAGGCATTACTTATTTTCGTTAAAGATACACTAAACATC
1 ATTAAA-GCATTACTTATTTTCGTTAAAAATACACTAAACATC
21473231 ATT
1 ATT
21473234 TAAGAAAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 6 0.14
43 37 0.86
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.38
Consensus pattern (42 bp):
ATTAAAGCATTACTTATTTTCGTTAAAAATACACTAAACATC
Found at i:21473214 original size:22 final size:21
Alignment explanation
Indices: 21473147--21473216 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
21473137 GCTACCCATA
21473147 TTAAAGCATTACTTATTTTCG
1 TTAAAGCATTACTTATTTTCG
* * *** *
21473168 TTAAA-AATATACTAAACATCA
1 TTAAAGCAT-TACTTATTTTCG
21473189 TTAAAGGCATTACTTATTTTCG
1 TTAAA-GCATTACTTATTTTCG
21473211 TTAAAG
1 TTAAAG
21473217 ATACACTAAA
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
20 2 0.06
21 18 0.53
22 12 0.35
23 2 0.06
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (21 bp):
TTAAAGCATTACTTATTTTCG
Found at i:21480373 original size:31 final size:31
Alignment explanation
Indices: 21480310--21480376 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
21480300 TTAAATGGGC
* * * * *
21480310 CCACACACCCATGTGGCCTGTCTGTGTGGGT
1 CCACACACCCATGTAGCCTGCCCGTATAGGT
*
21480341 CCACACACCCATGTATCCTGCCCGTATAGGT
1 CCACACACCCATGTAGCCTGCCCGTATAGGT
21480372 CCACA
1 CCACA
21480377 TGCCCGTGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.37, G:0.21, T:0.22
Consensus pattern (31 bp):
CCACACACCCATGTAGCCTGCCCGTATAGGT
Found at i:21485256 original size:56 final size:56
Alignment explanation
Indices: 21485189--21485307 Score: 211
Period size: 56 Copynumber: 2.1 Consensus size: 56
21485179 TAAAGGATAT
*
21485189 AAAAATTAGTAGAATGAAGAAAGGTTTATATAAGGAAAACTAGGGCAACATGTAGC
1 AAAAATTAGTAGAATGAAGAAAGGTTTATATAAGGAAAACTAAGGCAACATGTAGC
* *
21485245 AAAAATTAGTAGAATGAAGAAGGGTTTATATAGGGAAAACTAAGGCAACATGTAGC
1 AAAAATTAGTAGAATGAAGAAAGGTTTATATAAGGAAAACTAAGGCAACATGTAGC
21485301 AAAAATT
1 AAAAATT
21485308 TAAGGTTTCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.49, C:0.07, G:0.23, T:0.22
Consensus pattern (56 bp):
AAAAATTAGTAGAATGAAGAAAGGTTTATATAAGGAAAACTAAGGCAACATGTAGC
Found at i:21490259 original size:45 final size:47
Alignment explanation
Indices: 21490100--21490364 Score: 169
Period size: 46 Copynumber: 5.6 Consensus size: 47
21490090 GGTATAATGT
* * * *
21490100 CGATGCCATGTCCCAGACATGGTCTTACATTGGCTCCACGT-TA--A-GT
1 CGATG-CATGTCCCAGACATGGTCTTACACT-G-ACCACATATATCATGC
*
21490146 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCCCATATATCCATGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGAC-CACATATAT-CATGC
* *
21490196 CGATGCAATGTCCCAGACATGGTCTTATACTGA-CACATCATGT-A-GC
1 CGATGC-ATGTCCCAGACATGGTCTTACACTGACCACAT-ATATCATGC
*** * *
21490242 CGATGCATGTCCCAGACAT-GTCTTACACT-AGTGC-TAGTCTCAATGT
1 CGATGCATGTCCCAGACATGGTCTTACACTGACCACATA-TATC-ATGC
* * * *
21490288 CAATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGAC-CACATATATCAT-GC
*
21490336 CGATGCATGTCCCAAACAT-GTCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
21490365 AGCACACAAA
Statistics
Matches: 177, Mismatches: 23, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 11 0.06
45 18 0.10
46 55 0.31
47 29 0.16
48 19 0.11
49 6 0.03
50 32 0.18
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGACCACATATATCATGC
Found at i:21496123 original size:50 final size:50
Alignment explanation
Indices: 21495939--21496127 Score: 211
Period size: 50 Copynumber: 3.8 Consensus size: 50
21495929 TGAGTACACA
* * * * * *
21495939 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACT-GTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGA-TGGTTAGGTCACG
* * * *
21495989 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-TCAGATG-GTTAGGTCACG
* *
21496040 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGTCACG
* *
21496090 TGTGTAGTACTACGTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGAT
21496128 AGCTTCGGCT
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
49 1 0.01
50 76 0.65
51 40 0.34
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTTAGGTCACG
Found at i:21496134 original size:101 final size:101
Alignment explanation
Indices: 21495939--21496121 Score: 287
Period size: 101 Copynumber: 1.8 Consensus size: 101
21495929 TGAGTACACA
* * *
21495939 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACTAAGT
21496004 GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
66 GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
* * * *
21496040 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACGTGTGTAGTACTACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTGAAGTCACATGTGTAGTACTAAG
21496104 TGCAGGCTACTATGCGTA
65 TGCAGGCTACTATGCGTA
21496122 TCAGATAGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 1 0.01
101 73 0.99
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACTAAGT
GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
Found at i:21497767 original size:13 final size:13
Alignment explanation
Indices: 21497749--21497776 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21497739 TGACTCAGGG
21497749 TCCAATGGGAAAT
1 TCCAATGGGAAAT
21497762 TCCAATGGGAAAT
1 TCCAATGGGAAAT
21497775 TC
1 TC
21497777 TCGAAATAAT
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:0.18, G:0.21, T:0.25
Consensus pattern (13 bp):
TCCAATGGGAAAT
Found at i:21499419 original size:49 final size:48
Alignment explanation
Indices: 21499289--21499432 Score: 180
Period size: 49 Copynumber: 2.9 Consensus size: 48
21499279 TCTATTGTGA
*
21499289 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCCGAAAACTAT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTAT
* * * * * *
21499340 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACT-AT
*
21499389 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
21499433 TAGCTTCGGC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.05
49 39 0.49
50 2 0.03
51 34 0.43
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTAT
Found at i:21502785 original size:24 final size:24
Alignment explanation
Indices: 21502758--21502816 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
21502748 TAATGGTTTC
21502758 ATAATTATAATAA-AGGTTAAATAT
1 ATAATTATAATAATAGGTT-AATAT
*
21502782 ATAAGTTA-AATAATATGTTAATAT
1 ATAA-TTATAATAATAGGTTAATAT
*
21502806 AT-GTTATAATA
1 ATAATTATAATA
21502817 TAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 3 0.10
23 4 0.13
24 16 0.53
25 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (24 bp):
ATAATTATAATAATAGGTTAATAT
Found at i:21503825 original size:43 final size:44
Alignment explanation
Indices: 21503778--21503873 Score: 101
Period size: 43 Copynumber: 2.2 Consensus size: 44
21503768 CTAGGACATC
*
21503778 GGCATTGTA-ATTGTGATT-CGTGTAAGACC-CTATCTGGGACAGT
1 GGCATTGTACA-TGTGATTACATGTAAGACCAC-ATCTGGGACAGT
* * *
21503821 GGCATCG-ACATGTGATTACATGTAAGACCACGTCTGGGACATT
1 GGCATTGTACATGTGATTACATGTAAGACCACATCTGGGACAGT
*
21503864 AGCATTGTAC
1 GGCATTGTAC
21503874 GGTATGTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
42 8 0.19
43 32 0.74
44 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (44 bp):
GGCATTGTACATGTGATTACATGTAAGACCACATCTGGGACAGT
Found at i:21504476 original size:87 final size:87
Alignment explanation
Indices: 21504329--21504500 Score: 326
Period size: 87 Copynumber: 2.0 Consensus size: 87
21504319 TAGAAATGTT
* *
21504329 ATAATTTATTTATAGATAAATGTTTGGTAATTAAATTTCATAAGTATGGCTTGGCTATGACTTAA
1 ATAATTTATGTATAGATAAATGTTTGGTAATTAAATTTCATAAGTATGGCTTGGCAATGACTTAA
21504394 TAAATTATCAATGCCATTGATA
66 TAAATTATCAATGCCATTGATA
21504416 ATAATTTATGTATAGATAAATGTTTGGTAATTAAATTTCATAAGTATGGCTTGGCAATGACTTAA
1 ATAATTTATGTATAGATAAATGTTTGGTAATTAAATTTCATAAGTATGGCTTGGCAATGACTTAA
21504481 TAAATTATCAATGCCATTGA
66 TAAATTATCAATGCCATTGA
21504501 GATAATATTT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (87 bp):
ATAATTTATGTATAGATAAATGTTTGGTAATTAAATTTCATAAGTATGGCTTGGCAATGACTTAA
TAAATTATCAATGCCATTGATA
Found at i:21510328 original size:21 final size:21
Alignment explanation
Indices: 21510302--21510346 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
21510292 GCTTGCTATG
21510302 TGTAAATATTGTAAGTTTTTT
1 TGTAAATATTGTAAGTTTTTT
*
21510323 TGTAAATTTTGTAAGTTTTTT
1 TGTAAATATTGTAAGTTTTTT
21510344 TGT
1 TGT
21510347 TGCAAATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (21 bp):
TGTAAATATTGTAAGTTTTTT
Found at i:21510939 original size:43 final size:40
Alignment explanation
Indices: 21510787--21510940 Score: 109
Period size: 43 Copynumber: 3.7 Consensus size: 40
21510777 TGTGTTCTCG
* *
21510787 TGTAAGATCACGTTTTGGACGTTGGCATCGATATGTGATTTCA
1 TGTAAGACCACG-TCTGGACGTTGGCATCGA-ATGTGA-TTCA
* * * * *
21510830 AGTAAGACCA--TGTGGACATCGGCATCGTAATTGTGATTCG
1 TGTAAGACCACGTCTGGACGTTGGCATCG-AA-TGTGATTCA
*
21510870 TGTAAGACC-CTGTCTGGGTCAG-TGGCATCGACATGTGATTACA
1 TGTAAGACCAC-GTCT-GGAC-GTTGGCATCGA-ATGTGATT-CA
21510913 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCT-GGACGTTGGCAT
21510941 TGTATGATAT
Statistics
Matches: 86, Mismatches: 14, Indels: 22
0.70 0.11 0.18
Matches are distributed among these distances:
40 26 0.30
41 6 0.07
42 11 0.13
43 42 0.49
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (40 bp):
TGTAAGACCACGTCTGGACGTTGGCATCGAATGTGATTCA
Found at i:21522587 original size:79 final size:82
Alignment explanation
Indices: 21522476--21522660 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
21522466 GCTACTCGTT
* *
21522476 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21522539 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21522556 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21522619 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21522636 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21522661 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21522660 original size:40 final size:40
Alignment explanation
Indices: 21522457--21522660 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
21522447 CGGAATTTAA
** *
21522457 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21522497 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21522537 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21522576 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21522616 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21522656 CCGGA
1 CCGGA
21522661 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21531476 original size:40 final size:39
Alignment explanation
Indices: 21531407--21531629 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 39
21531397 CTACTCGTTC
* *
21531407 AATGTCTTCGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGACTTAGCCCGGATT-TAGTAACTCGCACA
*
21531446 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCACA
*
21531486 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCACA
* *
21531526 AATGCCTTCGAATCTTAGTCCGGATTTAGTAACCTCGCA-A
1 AATGCCTTCGGA-CTTAGCCCGGATTTAGTAA-CTCGCACA
* * * * *
21531566 CAATGCCTTCGGATCTT-GTCCGGATATGGTCACTTAGCACA
1 -AATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACA
21531607 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTC-GGACTTAGCCCGGA
21531630 CATCATTCAA
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 20 0.12
40 119 0.73
41 24 0.15
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:21545386 original size:40 final size:40
Alignment explanation
Indices: 21545323--21545544 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
21545313 GCTACTCGTT
*
21545323 CAAATG-CTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
21545362 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
21545402 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
21545442 CAAATGCCTTC--G-CTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
21545479 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
21545520 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21545545 CATCATTCAA
Statistics
Matches: 167, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
37 34 0.20
38 2 0.01
39 6 0.04
40 112 0.67
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:21545504 original size:77 final size:79
Alignment explanation
Indices: 21545323--21545544 Score: 258
Period size: 77 Copynumber: 2.8 Consensus size: 79
21545313 GCTACTCGTT
* *
21545323 CAAATG-CTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGACTTAACCCG
21545386 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
**
21545402 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTC-G-CTTAGTCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
21545465 TTTAGTAACTCGCA
66 TTTAGTAACTCGCA
** * * * * *
21545479 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTC-GGACTTAACCC
21545542 GGA
63 GGA
21545545 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
76 3 0.02
77 55 0.44
78 9 0.07
79 7 0.06
80 49 0.39
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:21551603 original size:42 final size:42
Alignment explanation
Indices: 21551440--21551606 Score: 138
Period size: 42 Copynumber: 4.0 Consensus size: 42
21551430 AAGCATACCA
* * ** *
21551440 ATGCCATATCCCAGATATGGTCTTGCATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTTATCTCATAACG
* * * * * **
21551482 ATACCAATAGCCCAGCTATGGTTTTACACGAT-TCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTTATCTCATAACG
* * * ***
21551524 ATGCCATGTCCCAGACATGATCTTACACAAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACACGTTATCTCATAACG
* *
21551566 ATGCCATATCTCAGATATGGTCTTACACGTTAGCTCATAAC
1 ATGCCATATCCCAGATATGGTCTTACACGTTATCTCATAAC
21551607 CCTAATGTCA
Statistics
Matches: 95, Mismatches: 28, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
41 18 0.19
42 58 0.61
43 19 0.20
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTTATCTCATAACG
Found at i:21559750 original size:21 final size:22
Alignment explanation
Indices: 21559726--21559783 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
21559716 AATGAGTATA
21559726 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
*
21559747 TCATAACATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
21559769 -CAT-GCCATATCATGT
1 TCATAG-CATATCATGT
21559784 ATAACAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:21569598 original size:19 final size:20
Alignment explanation
Indices: 21569574--21569611 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21569564 CACAACCAAA
*
21569574 TACCAAATT-TTAAAAATTT
1 TACCAAATTCTCAAAAATTT
21569593 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
21569612 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:21571341 original size:17 final size:19
Alignment explanation
Indices: 21571315--21571351 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
21571305 TGTAAAACCC
21571315 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
21571333 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
21571351 A
1 A
21571352 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:21574546 original size:6 final size:6
Alignment explanation
Indices: 21574535--21574612 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
21574525 AACCAAAATT
* * *
21574535 AGAATC AGAATC AAAATC AAAATC AGAATC A-ATATT AGTAA-C AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC
* *
21574583 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
21574613 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.07
6 48 0.84
7 3 0.05
8 2 0.04
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:21574549 original size:18 final size:18
Alignment explanation
Indices: 21574528--21574589 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
21574518 GAATTGGAAC
21574528 CAAAATTAGAATCAGAAT
1 CAAAATTAGAATCAGAAT
* *
21574546 CAAAATCAAAATCAGAAT
1 CAAAATTAGAATCAGAAT
*
21574564 CAATATTAGTAA-CAGAAT
1 CAAAATTAG-AATCAGAAT
*
21574582 CAGAATTA
1 CAAAATTA
21574590 CGTGACAGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 34 0.94
19 2 0.06
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.23
Consensus pattern (18 bp):
CAAAATTAGAATCAGAAT
Found at i:21574552 original size:12 final size:12
Alignment explanation
Indices: 21574528--21574566 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21574518 GAATTGGAAC
*
21574528 CAAAATTAGAAT
1 CAAAATCAGAAT
* *
21574540 CAGAATCAAAAT
1 CAAAATCAGAAT
21574552 CAAAATCAGAAT
1 CAAAATCAGAAT
21574564 CAA
1 CAA
21574567 TATTAGTAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.59, C:0.15, G:0.08, T:0.18
Consensus pattern (12 bp):
CAAAATCAGAAT
Found at i:21574599 original size:19 final size:18
Alignment explanation
Indices: 21574558--21574606 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
21574548 AAATCAAAAT
21574558 CAGAATCA-ATATTAGTAA
1 CAGAATCAGA-ATTAGTAA
*
21574576 CAGAATCAGAATTACGTGA
1 CAGAATCAGAATTA-GTAA
21574595 CAGAATCAGAAT
1 CAGAATCAGAAT
21574607 CAGAATGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.22
Consensus pattern (18 bp):
CAGAATCAGAATTAGTAA
Found at i:21574767 original size:27 final size:26
Alignment explanation
Indices: 21574730--21574795 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
21574720 AGCATGCCTG
*
21574730 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
21574756 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
21574783 CCAGAATCAGATA
1 CCAGAA-CAGATA
21574796 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:21574800 original size:27 final size:27
Alignment explanation
Indices: 21574730--21574803 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
21574720 AGCATGCCTG
* *
21574730 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
21574756 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
21574783 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
21574804 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:21574810 original size:27 final size:27
Alignment explanation
Indices: 21574754--21574811 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
21574744 GTGACAGAGT
* * *
21574754 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
21574781 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
21574808 CACC
1 CACC
21574812 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:21575016 original size:22 final size:22
Alignment explanation
Indices: 21574968--21575026 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
21574958 GTAAATACGT
*
21574968 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
21574990 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
21575012 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
21575027 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:21575193 original size:27 final size:26
Alignment explanation
Indices: 21575117--21575195 Score: 104
Period size: 27 Copynumber: 3.0 Consensus size: 26
21575107 ATCGGTCAAC
* * *
21575117 AGATATTGTGACAGAGTCACCAAATAT
1 AGATATTGTGGCAGAGCCACCAGA-AT
21575144 AGATATTGTGGCAGAGCCACCAGAAT
1 AGATATTGTGGCAGAGCCACCAGAAT
*
21575170 AGATATTTGTGGCATAGCCACCAGAA
1 AGATA-TTGTGGCAGAGCCACCAGAA
21575196 CGCTTCCTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 7 0.15
27 40 0.85
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAT
Found at i:21575414 original size:27 final size:28
Alignment explanation
Indices: 21575352--21575415 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
21575342 CAGTCACTTG
*
21575352 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
21575380 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
21575406 CCCACAAGGG
1 CCCACAAGGG
21575416 TATCTCGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:21575584 original size:27 final size:27
Alignment explanation
Indices: 21575396--21575590 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
21575386 GGGCAAAATG
* * * *
21575396 GTAATTTTACCCCACAAGGGTATCTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
21575422 GATAATTCTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
21575450 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
21575476 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
21575504 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
21575531 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
21575558 GAAATTCTACCCTGCAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
21575585 GTAATT
1 GTAATT
21575591 TCACAATCAA
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 141 0.97
28 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:21575584 original size:54 final size:54
Alignment explanation
Indices: 21575395--21575590 Score: 252
Period size: 54 Copynumber: 3.6 Consensus size: 54
21575385 AGGGCAAAAT
* * *
21575395 GGTAATTTTACCCCACAAGGGTATCTC-GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* *
21575449 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * *
21575503 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
21575557 AGAAATTCTACCCTGCAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
21575591 TCACAATCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
54 124 0.99
55 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:21575625 original size:27 final size:27
Alignment explanation
Indices: 21575595--21575788 Score: 228
Period size: 27 Copynumber: 7.2 Consensus size: 27
21575585 GTAATTTCAC
*
21575595 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
21575622 AATCGAGGGTAAAAAGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
21575649 AA-CTGAGGGTAAACCAGTAATTCGGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
21575676 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
21575703 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
21575730 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
21575757 AATCGAGAGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
21575784 AATCG
1 AATCG
21575789 GGAGTACTTT
Statistics
Matches: 137, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 1 0.01
27 135 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:21575671 original size:54 final size:54
Alignment explanation
Indices: 21575585--21575819 Score: 278
Period size: 54 Copynumber: 4.4 Consensus size: 54
21575575 GGGTATTTCA
* * *
21575585 GTAATTTCAC-AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAAG
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* ** * * * *
21575638 ATAATTTTGTAAA-CTGAGGGTAAACCAGTAATTCGGTAAATCAAGGGTAAAACG
1 GTAATTTTACAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
21575692 GTAATTTTACAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* ****
21575746 GTAATTTTACAAATCGAGAGTAAAACGGTAATTCTGTAAATCG-GGAGTACTTTG
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAACG
*
21575800 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAAATCGAGGG
21575820 CATTTTAGTA
Statistics
Matches: 152, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
53 9 0.06
54 142 0.93
55 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:21577844 original size:21 final size:21
Alignment explanation
Indices: 21577820--21577863 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
21577810 CTACAAGACA
21577820 TAGCCTAATAAAAACAATAGG
1 TAGCCTAATAAAAACAATAGG
21577841 TAGCCTAATAAAAACAATAGG
1 TAGCCTAATAAAAACAATAGG
21577862 TA
1 TA
21577864 ACATATCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (21 bp):
TAGCCTAATAAAAACAATAGG
Found at i:21579124 original size:56 final size:56
Alignment explanation
Indices: 21578784--21579110 Score: 458
Period size: 56 Copynumber: 5.8 Consensus size: 56
21578774 TCCCAGATAG
* * * * * *
21578784 GGTCTTAGTCGCAAACACATATCGGAATCACCTATCGATGTCAATGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGAAATCACATATCGATGCCAACGTATTAAACGT
*
21578840 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGAAATCACATATCGATGCCAACGTATTAAACGT
* *
21578896 GGTCTTACTCGCAGACACATATCGAAATCACATATCGATGCTAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGAAATCACATATCGATGCCAACGTATTAAACGT
* * *
21578952 GGTTTTACTCGCACACACATATCGAAGTCACATATCGATGCCAA-GTTATTAAACAT
1 GGTCTTACTCGCACACACATATCGAAATCACATATCGATGCCAACG-TATTAAACGT
* * * *
21579008 GGTCTTACTCGCTCACAGATATCGAAATTACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATCGAAATCACATATCGATGCCAACGTATTAAACGT
* * **
21579064 GGTCTTACTCGTACACACATATCAAAATCACATATCGACACCAACGT
1 GGTCTTACTCGCACACACATATCGAAATCACATATCGATGCCAACGT
21579111 CCCAGACATG
Statistics
Matches: 242, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
55 1 0.00
56 240 0.99
57 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCGAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:21579156 original size:43 final size:43
Alignment explanation
Indices: 21579089--21579356 Score: 329
Period size: 43 Copynumber: 6.2 Consensus size: 43
21579079 CACATATCAA
** * *
21579089 AATCACATATCGACACCAACGTCCCAGACATGGTCTGACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* * *
21579132 AATCACATATCGATGCCAATGTCCCAAACGTGGTCTTATACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* * * *
21579175 AATCACATATCGATGCCAACATCCCAGATGTTGTCCTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* * * * *
21579218 AATCAAATATCAATGCCAACATCCTAGACGTGGTCTTACATGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* * * * *
21579261 AACCACGTATCGATGCCAATGTCCCAGATGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* *
21579304 AATCACATATCGATGCCAACGTCCTAGACATGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
21579347 AATCACATAT
1 AATCACATAT
21579357 TGAAAATCCT
Statistics
Matches: 187, Mismatches: 38, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 187 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
Found at i:21580628 original size:27 final size:26
Alignment explanation
Indices: 21580572--21580628 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
21580562 CAACCTTAAC
* * *
21580572 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
21580598 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
21580625 CCTA
1 CCTA
21580629 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:21581889 original size:13 final size:13
Alignment explanation
Indices: 21581851--21581908 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
21581841 GCTATGGGGG
21581851 AAAAGAAGAAGAGA
1 AAAAGAAGAAGA-A
* *
21581865 AAGTAGATGAAGAA
1 AA-AAGAAGAAGAA
21581879 AAAAGAAGAAGAA
1 AAAAGAAGAAGAA
21581892 AAGAA-AAGAAGAA
1 AA-AAGAAGAAGAA
21581905 AAAA
1 AAAA
21581909 CTAAATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
12 2 0.05
13 21 0.55
14 7 0.18
15 8 0.21
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.03
Consensus pattern (13 bp):
AAAAGAAGAAGAA
Found at i:21581898 original size:16 final size:16
Alignment explanation
Indices: 21581853--21581908 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
21581843 TATGGGGGAA
*
21581853 AAGAAGAAGAG-AAAG
1 AAGAAGAAAAGAAAAG
* *
21581868 TAGATGAAGAA-AAAAG
1 AAGAAGAA-AAGAAAAG
21581884 AAGAAGAAAAGAAAAG
1 AAGAAGAAAAGAAAAG
21581900 AAGAA-AAAA
1 AAGAAGAAAA
21581909 CTAAATCCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (16 bp):
AAGAAGAAAAGAAAAG
Found at i:21581902 original size:26 final size:28
Alignment explanation
Indices: 21581851--21581908 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 28
21581841 GCTATGGGGG
* *
21581851 AAAAGAAGAAGAGAAAGTAGATGAAGAA
1 AAAAGAAGAAGAGAAAGTAAAAGAAGAA
21581879 AAAAGAAGAAGA-AAAG-AAAAGAAGAA
1 AAAAGAAGAAGAGAAAGTAAAAGAAGAA
21581905 AAAA
1 AAAA
21581909 CTAAATCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.43
27 4 0.14
28 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.03
Consensus pattern (28 bp):
AAAAGAAGAAGAGAAAGTAAAAGAAGAA
Found at i:21592959 original size:34 final size:35
Alignment explanation
Indices: 21592913--21592999 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 35
21592903 AGGTAAGTAT
21592913 ATGT-AAGCTTATATTGAACTTGAT-TATTTGATTAC
1 ATGTGAAG-TTATATTGAACTT-ATATATTTGATTAC
* * **
21592948 ATGTGAA-TTATAATGAACTTATATATTTGGTTTT
1 ATGTGAAGTTATATTGAACTTATATATTTGATTAC
*
21592982 ATGTGAAGTTATTTTGAA
1 ATGTGAAGTTATATTGAA
21593000 TGTGCATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
33 2 0.05
34 27 0.63
35 12 0.28
36 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (35 bp):
ATGTGAAGTTATATTGAACTTATATATTTGATTAC
Found at i:21598660 original size:53 final size:54
Alignment explanation
Indices: 21598580--21598786 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
21598570 TTCCTTTTTA
* * * *
21598580 AACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
21598633 AACTCACCATTGCCATGCCTTGGCATGGTCTTCCATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
21598687 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
21598742 AACTTACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
21598787 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 44 0.36
54 37 0.31
55 40 0.33
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:21598735 original size:55 final size:53
Alignment explanation
Indices: 21598593--21598786 Score: 181
Period size: 55 Copynumber: 3.6 Consensus size: 53
21598583 TTACCATTGT
* *
21598593 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGC
* * * * * ** * *
21598646 CATGCCTTGGCATGGTCTTCCATGGGATCTTTGCCTTATAGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATGC
* * * * * *
21598701 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGT
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGC
* * *
21598755 CATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGTATCCTT
21598787 AAACCCTAAT
Statistics
Matches: 110, Mismatches: 29, Indels: 3
0.77 0.20 0.02
Matches are distributed among these distances:
53 33 0.30
54 37 0.34
55 40 0.36
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGC
Found at i:21600309 original size:47 final size:47
Alignment explanation
Indices: 21600193--21600321 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 47
21600183 GTGCGAATAA
* * *
21600193 TACCTTGATTTGGATATGGGCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
* * * *
21600240 TA-CTTGATTTGGCTACT-GGCCATGTTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTA-TGGGCCATGGTATAGGTACTCAGAGAGAAGT
* *
21600286 TACCTTGATTTTGCTATGGGCCATGGTATAAGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
21600322 TATCGATTGT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 38 0.55
47 31 0.45
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:21607255 original size:45 final size:42
Alignment explanation
Indices: 21607107--21607275 Score: 135
Period size: 45 Copynumber: 3.9 Consensus size: 42
21607097 TACCATACCA
* * * **
21607107 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCTCAAATATGGTCTTACACGAAATCTCATATCG
* * ** ** *
21607149 ATGCTAATAGC-CTAGCTATTATCTTACACGAAATCTCATATTG
1 ATGC-CATATCTC-AAATATGGTCTTACACGAAATCTCATATCG
*
21607192 ATGCCATATCTCAAATATGGTCTTCTTACACAAAATCTCATATCG
1 ATGCCATATCTCAAATATGG---TCTTACACGAAATCTCATATCG
**
21607237 ATGCCATATC-CTGGATATGGTCTTACACGAAATCTCATA
1 ATGCCATATCTC-AAATATGGTCTTACACGAAATCTCATA
21607276 ACCCTAATGT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
42 31 0.31
43 32 0.32
44 1 0.01
45 36 0.36
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (42 bp):
ATGCCATATCTCAAATATGGTCTTACACGAAATCTCATATCG
Found at i:21612641 original size:939 final size:944
Alignment explanation
Indices: 21610817--21612708 Score: 3681
Period size: 939 Copynumber: 2.0 Consensus size: 944
21610807 AAGTTTGGCC
21610817 ATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCATGTATATTTTAAGTTG
1 ATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCATGTATATTTTAAGTTG
21610882 TAAGTTTGAAATCTACCTAGCCATGGTTCAAATTTTGTTAATTGATGGAGATGATATTCGGCCAT
66 TAAGTTTGAAATCTACCTAGCCATGGTTCAAATTTTGTTAATTGATGGAGATGATATTCGGCCAT
21610947 GAATGTTTACATTCTTGGTTGGTATTTTGATGTCTTTGGTGATGAGGTATGAAGATGGTTGATTT
131 GAATGTTTACATTCTTGGTTGGTATTTTGATGTCTTTGGTGATGAGGTATGAAGATGGTTGATTT
21611012 TGAGTGTTTAATAAAAAGGATACATGAATTATTGTTAAATAATGGATCGAATGTAGCATGATTAA
196 TGAGTGTTTAATAAAAAGGATACATGAATTATTGTTAAATAATGGATCGAATGTAGCATGATTAA
21611077 AGATGTGAATAAATTGAAGTTAAGGAGGTTGTCAATGAAAAATATGAGTTGGATGAGTTTTAAAG
261 AGATGTGAATAAATTGAAGTTAAGGAGGTTGTCAATGAAAAATATGAGTTGGATGAGTTTTAAAG
*
21611142 AATAAAAATTTAGGTGACTAGAGGTCAAGGACATTCGGTCAAAGGCTTGTGTGCTAGCAAAATCG
326 AATAAAAATTTAGGTGACTAGAGGTCAACGACATTCGGTCAAAGGCTTGTGTGCTAGCAAAATCG
21611207 GCCTAAATGTCGTTTTTGATGTGTTTGAATTAAGTAAGCTAGATGTTGGAACACATAAGGATTTC
391 GCCTAAATGTCGTTTTTGATGTGTTTGAATTAAGTAAGCTAGATGTTGGAACACATAAGGATTTC
21611272 GGCCTTCTAAAACAATAGAGATAAGTGTATGAAAGGCTAAGTTTAAGTAGTAAGGCCGAATAGGT
456 GGCCTTCTAAAACAATAGAGATAAGTGTATGAAAGGCTAAGTTTAAGTAGTAAGGCCGAATAGGT
21611337 TGTAGATAAGGCACTTCTGAGTCGTTTGGCCAAGCAATTGACAAATTAAATTAGAGTTCTTGTTG
521 TGTAGATAAGGCACTTCTGAGTCG-TTGGCCAAGCAATTGACAAATTAAATTAGAGTTCTTGTTG
21611402 ACGTATAATGTCAAGTCTAACTTGGTATATTTGGCCACCTAACTAAGTACATCGGTGGTGTTGAA
585 ACGTATAATGTCAAGTCTAACTTGGTATATTTGGCCACCTAACTAAGTACATCGGTGGTGTTGAA
21611467 TGTAATCATACACATTCAGCCATATGGGGTAAAAATGGGTCGAGTGTTCATGAGATGAAATTAGG
650 TGTAATCATACACATTCAGCCATATGGGGTAAAAATGGGTCGAGTGTTCATGAGATGAAATTAGG
21611532 TGTTTAAATGATGTTATAGTTGACATTGTGCATATATACATGCATTCGGCCATCTAATTGAGTAT
715 TGTTTAAATGATGTTATAGTTGACATTGTGCATATATACATGCATTCGGCCATCTAATTGAGTAT
21611597 GAAGGTGGTGTTAAATCTAATTGTGATACCCATTCCAAAGTATATATATACATATATATGTATAT
780 GAAGGTGGTGTTAAATCTAATTGTGATACCCATTCCAAAGTATATATATACATATATATGTATAT
21611662 ATACATAAGTATGCCCATTCGTGATGTTACCTTTAATTATGTGTATAATCGACTAAATGGGTAAT
845 ATACATAAGTATGCCCATTCGTGATGTTACCTTTAATTATGTGTATAATCGACTAAATGGGTAAT
21611727 TAGTGAGGATGGTTGCCGAATATACAAACATACAT
910 TAGTGAGGATGGTTGCCGAATATACAAACATACAT
21611762 ATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCATGTATATTTTAAGTTG
1 ATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCATGTATATTTTAAGTTG
*
21611827 TAAGTTTGAAATCTACCTAGCCATGGTTCAAATTTTGTTAATTGATGTAGATGATATTCGGCCAT
66 TAAGTTTGAAATCTACCTAGCCATGGTTCAAATTTTGTTAATTGATGGAGATGATATTCGGCCAT
21611892 GAATG-TTACATTCTTGGTTGGTATTTTGATGTCTTTGGTGATGAGGTATGAAGATGGTTGATTT
131 GAATGTTTACATTCTTGGTTGGTATTTTGATGTCTTTGGTGATGAGGTATGAAGATGGTTGATTT
21611956 TGAGTGTTTAATAAAAAGGATACATGAATTATTGTTAAATAATGG-TCGAATGTAGCATGATTAA
196 TGAGTGTTTAATAAAAAGGATACATGAATTATTGTTAAATAATGGATCGAATGTAGCATGATTAA
21612020 AGATGTGAATAAATTGAAGTTAAGGAGGTTGTCAATGAAAAATATGAGTTGGATGAGTTTTAAAG
261 AGATGTGAATAAATTGAAGTTAAGGAGGTTGTCAATGAAAAATATGAGTTGGATGAGTTTTAAAG
21612085 AATAAAAATTTAGGTGACTAGAGGTCAACGACATTCGGTCAAAGGCTTGTGTGCTAGCAAAATCG
326 AATAAAAATTTAGGTGACTAGAGGTCAACGACATTCGGTCAAAGGCTTGTGTGCTAGCAAAATCG
21612150 GCCTAAATGTCG-TTTTGATGTG-TTGAATTAAGTAAGCTAGATGTTGGAACACATAAGGA-TTC
391 GCCTAAATGTCGTTTTTGATGTGTTTGAATTAAGTAAGCTAGATGTTGGAACACATAAGGATTTC
21612212 GGCCTTCTAAAACAATAGAGATAAGTGTATGAAAGGCTAAGTTTAAGTAGTAAGGCCGAATAGGT
456 GGCCTTCTAAAACAATAGAGATAAGTGTATGAAAGGCTAAGTTTAAGTAGTAAGGCCGAATAGGT
21612277 TGTAGATAAGGCACTTCTGAGTTC-TTGGCCAAGCAATTGACAAATTAAATTAGAGTTCTTG-TG
521 TGTAGATAAGGCACTTCTGAG-TCGTTGGCCAAGCAATTGACAAATTAAATTAGAGTTCTTGTTG
21612340 ACGTATAATGTCAAGTCTAACTTGGTATATTTGGCCACCTAACTAAGTACATCGGTGGTGTTGAA
585 ACGTATAATGTCAAGTCTAACTTGGTATATTTGGCCACCTAACTAAGTACATCGGTGGTGTTGAA
*
21612405 TGTAATCATTACACATTCGGCCATATGGGGTAAAAATGGGTCGAGTGTTCATGAGATGAAATTAG
650 TGTAATCA-TACACATTCAGCCATATGGGGTAAAAATGGGTCGAGTGTTCATGAGATGAAATTAG
21612470 GTGTTTAAATGATGTTATAGTTGACATTGTGCATATATACATGCATTCGGCCATCTAATTGAGTA
714 GTGTTTAAATGATGTTATAGTTGACATTGTGCATATATACATGCATTCGGCCATCTAATTGAGTA
21612535 TGAAGGTGGTGTTAAATCTAATTGTGATACCCATTCCAAAGTATATATATACATATATATGTATA
779 TGAAGGTGGTGTTAAATCTAATTGTGATACCCATTCCAAAGTATATATATACATATATATGTATA
21612600 TATACATAAGTATGCCCATTCGTGATGTTACCTTTAATTATGTGTATAATCGACTAAATGGGTAA
844 TATACATAAGTATGCCCATTCGTGATGTTACCTTTAATTATGTGTATAATCGACTAAATGGGTAA
21612665 TTAGTGAGGATGGTTGCCGAATATACAAACATACAT
909 TTAGTGAGGATGGTTGCCGAATATACAAACATACAT
21612701 ATGCATGT
1 ATGCATGT
21612709 GTAATTGAAT
Statistics
Matches: 942, Mismatches: 3, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
938 75 0.08
939 331 0.35
940 89 0.09
941 39 0.04
942 10 0.01
943 160 0.17
944 104 0.11
945 134 0.14
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.34
Consensus pattern (944 bp):
ATGCATGTAACTAGATTGAGGTATGTTTGATATTATTCTTTGAGATTCATGTATATTTTAAGTTG
TAAGTTTGAAATCTACCTAGCCATGGTTCAAATTTTGTTAATTGATGGAGATGATATTCGGCCAT
GAATGTTTACATTCTTGGTTGGTATTTTGATGTCTTTGGTGATGAGGTATGAAGATGGTTGATTT
TGAGTGTTTAATAAAAAGGATACATGAATTATTGTTAAATAATGGATCGAATGTAGCATGATTAA
AGATGTGAATAAATTGAAGTTAAGGAGGTTGTCAATGAAAAATATGAGTTGGATGAGTTTTAAAG
AATAAAAATTTAGGTGACTAGAGGTCAACGACATTCGGTCAAAGGCTTGTGTGCTAGCAAAATCG
GCCTAAATGTCGTTTTTGATGTGTTTGAATTAAGTAAGCTAGATGTTGGAACACATAAGGATTTC
GGCCTTCTAAAACAATAGAGATAAGTGTATGAAAGGCTAAGTTTAAGTAGTAAGGCCGAATAGGT
TGTAGATAAGGCACTTCTGAGTCGTTGGCCAAGCAATTGACAAATTAAATTAGAGTTCTTGTTGA
CGTATAATGTCAAGTCTAACTTGGTATATTTGGCCACCTAACTAAGTACATCGGTGGTGTTGAAT
GTAATCATACACATTCAGCCATATGGGGTAAAAATGGGTCGAGTGTTCATGAGATGAAATTAGGT
GTTTAAATGATGTTATAGTTGACATTGTGCATATATACATGCATTCGGCCATCTAATTGAGTATG
AAGGTGGTGTTAAATCTAATTGTGATACCCATTCCAAAGTATATATATACATATATATGTATATA
TACATAAGTATGCCCATTCGTGATGTTACCTTTAATTATGTGTATAATCGACTAAATGGGTAATT
AGTGAGGATGGTTGCCGAATATACAAACATACAT
Found at i:21613094 original size:27 final size:28
Alignment explanation
Indices: 21613010--21613107 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
21613000 GTTGATCTCG
* * *
21613010 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
21613039 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
21613067 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21613094 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21613108 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:21613121 original size:29 final size:27
Alignment explanation
Indices: 21613038--21613121 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
21613028 TAAATTGTTC
* *
21613038 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
21613066 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
21613093 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
21613122 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:21620866 original size:18 final size:18
Alignment explanation
Indices: 21620824--21620866 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
21620814 GCCCATTCCA
*
21620824 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
21620842 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
21620860 AAGTATG
1 AAGTATG
21620867 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:21621331 original size:28 final size:28
Alignment explanation
Indices: 21621263--21621360 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
21621253 GTTGATCTCG
* * *
21621263 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
21621292 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21621320 GCACTAAGTGTGCAAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21621347 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21621361 GACTTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 23 0.37
28 20 0.32
29 19 0.31
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:21621374 original size:29 final size:27
Alignment explanation
Indices: 21621291--21621374 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
21621281 TAAATTGTTC
** *
21621291 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTAATTATAT
* *
21621319 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTAATTATAT
* *
21621346 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-AACTTAAT-TATAT
21621375 TTTTGAATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.50
28 19 0.40
29 5 0.10
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTAATTATAT
Found at i:21626527 original size:13 final size:13
Alignment explanation
Indices: 21626509--21626533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21626499 ATACTCAGAA
21626509 ATCTTACACACAT
1 ATCTTACACACAT
21626522 ATCTTACACACA
1 ATCTTACACACA
21626534 CAGGACCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (13 bp):
ATCTTACACACAT
Found at i:21626615 original size:43 final size:43
Alignment explanation
Indices: 21626583--21626755 Score: 174
Period size: 42 Copynumber: 4.1 Consensus size: 43
21626573 ATGGGATCTT
21626583 ATATCGATACCAATAGCCCAGCTATCGTCTTACACGAAATTTC
1 ATATCGATACCAATAGCCCAGCTATCGTCTTACACGAAATTTC
* * *
21626626 ATATCGATGCCAATAGCCCAACTATCGTCTTACACAAAATTTC
1 ATATCGATACCAATAGCCCAGCTATCGTCTTACACGAAATTTC
* * * *
21626669 ATATCGATGA-C-ATATCCTAGGTA-CGGTCTTACACGAAATCTC
1 ATATCGAT-ACCAATAGCCCAGCTATC-GTCTTACACGAAATTTC
** * ** * *
21626711 ATATCGATGTC-ATATCCCATATATGGTCTTACACGAAATCTC
1 ATATCGATACCAATAGCCCAGCTATCGTCTTACACGAAATTTC
21626753 ATA
1 ATA
21626756 AACCTAATGT
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 61 0.55
43 49 0.44
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (43 bp):
ATATCGATACCAATAGCCCAGCTATCGTCTTACACGAAATTTC
Found at i:21630999 original size:27 final size:27
Alignment explanation
Indices: 21630951--21631003 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
21630941 CATTCTACCA
** *
21630951 TACAAGGGTATTACGGTCATTTTACAC
1 TACAAGGGTATTACAATAATTTTACAC
*
21630978 TACAAGGGTATTTCAATAATTTTACA
1 TACAAGGGTATTACAATAATTTTACA
21631004 AACCGGGGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACAATAATTTTACAC
Found at i:21633175 original size:27 final size:26
Alignment explanation
Indices: 21633145--21633238 Score: 71
Period size: 33 Copynumber: 3.3 Consensus size: 26
21633135 CCCCCATCAG
*
21633145 AATCAGTTGGGCCTAGCCCATTCTCAA
1 AATCAGTTGGGCCTAGCCCATT-ACAA
*
21633172 AATCAATAATAGTTGGGCCTAGCCCATTAACAG
1 AATC------AGTTGGGCCTAGCCCATT-ACAA
* *
21633205 AATCAGGTGGGCCTAAGCCCAGTACAA
1 AATCAGTTGGGCCT-AGCCCATTACAA
21633232 AATCAGT
1 AATCAGT
21633239 ATCAGATGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
27 22 0.42
28 7 0.13
33 24 0.45
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (26 bp):
AATCAGTTGGGCCTAGCCCATTACAA
Found at i:21641365 original size:17 final size:18
Alignment explanation
Indices: 21641340--21641373 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21641330 AAAGTCATTC
21641340 TCTTGTAAAACATTATTA
1 TCTTGTAAAACATTATTA
*
21641358 TCTT-TAAAACTTTATT
1 TCTTGTAAAACATTATT
21641374 TGCTGCAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (18 bp):
TCTTGTAAAACATTATTA
Found at i:21643765 original size:27 final size:27
Alignment explanation
Indices: 21643729--21643781 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
21643719 TCATCTACCA
*
21643729 TACAGGGGTATTACGGTCATTTTACAC
1 TACAAGGGTATTACGGTCATTTTACAC
* *
21643756 TACAAGGGTATTTCGGTGATTTTACA
1 TACAAGGGTATTACGGTCATTTTACA
21643782 AATCAGGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACGGTCATTTTACAC
Found at i:21657284 original size:18 final size:18
Alignment explanation
Indices: 21657263--21657316 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
21657253 AGCGAAAATT
21657263 GTGTTTTCATTGAAAACC
1 GTGTTTTCATTGAAAACC
*
21657281 GTGTTTTCATTGAAAATC
1 GTGTTTTCATTGAAAACC
21657299 GTGTTTTCATTGAAAACC
1 GTGTTTTCATTGAAAACC
21657317 CTTCTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (18 bp):
GTGTTTTCATTGAAAACC
Found at i:21658436 original size:29 final size:28
Alignment explanation
Indices: 21658379--21658463 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
21658369 TACCTGTATC
* *
21658379 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
21658407 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
21658436 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
21658464 ATCATGCTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 25 0.50
29 25 0.50
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:21658700 original size:16 final size:16
Alignment explanation
Indices: 21658675--21658717 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
21658665 GTAGCCAAAC
21658675 TTTCGGCTTTTTGACA
1 TTTCGGCTTTTTGACA
* *
21658691 TTTCGACTTTTTGGCA
1 TTTCGGCTTTTTGACA
21658707 TTTCGGCTTTT
1 TTTCGGCTTTT
21658718 GCGATACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (16 bp):
TTTCGGCTTTTTGACA
Found at i:21664597 original size:12 final size:12
Alignment explanation
Indices: 21664580--21664606 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21664570 ATTCCGAAGT
21664580 ATATATATATAC
1 ATATATATATAC
21664592 ATATATATATAC
1 ATATATATATAC
21664604 ATA
1 ATA
21664607 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:21665137 original size:27 final size:28
Alignment explanation
Indices: 21665053--21665150 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
21665043 CATGACATTG
* * * *
21665053 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
21665082 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
21665110 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21665137 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21665151 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:21665161 original size:27 final size:27
Alignment explanation
Indices: 21665081--21665163 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
21665071 TAAATTGTAC
* *
21665081 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
21665109 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
21665136 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
21665163 A
1 A
21665164 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:21673292 original size:40 final size:40
Alignment explanation
Indices: 21673240--21673395 Score: 294
Period size: 40 Copynumber: 3.9 Consensus size: 40
21673230 GGACATAGCT
21673240 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
21673280 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
21673320 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
21673360 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
21673396 CATCCGAATA
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:21682569 original size:37 final size:37
Alignment explanation
Indices: 21682510--21682611 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
21682500 AGCTCAGACG
* * *
21682510 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
21682547 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
21682584 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
21682612 TAGAGCTCGG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:21682847 original size:47 final size:47
Alignment explanation
Indices: 21682730--21683182 Score: 719
Period size: 47 Copynumber: 9.6 Consensus size: 47
21682720 CCCTTCGGGA
* * * * * *
21682730 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21682777 C-TGTCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21682823 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21682870 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21682917 CTTATCACATATATACAATTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21682964 CTTATCACATATATATACACTTTCACATTCACCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21683013 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21683060 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21683107 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21683154 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
21683183 TATTCAAATA
Statistics
Matches: 375, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
46 38 0.10
47 276 0.74
49 61 0.16
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21683050 original size:190 final size:190
Alignment explanation
Indices: 21682730--21683182 Score: 732
Period size: 190 Copynumber: 2.4 Consensus size: 190
21682720 CCCTTCGGGA
* * * * * * * * *
21682730 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC-TGTCGC--ATATATAC
1 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
21682792 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
21682857 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21682917 CTTATCACATATATACAATTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
21682982 ACTTTCACATTCACCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
21683047 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21683107 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
21683172 ACTTTCACATT
66 ACTTTCACATT
21683183 TATTCAAATA
Statistics
Matches: 245, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
187 40 0.16
188 4 0.02
190 201 0.82
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21692618 original size:14 final size:14
Alignment explanation
Indices: 21692599--21692644 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
21692589 CATAAAGGTT
21692599 TACATGGGTTCGCA
1 TACATGGGTTCGCA
*
21692613 TACATGGGTTAGCA
1 TACATGGGTTCGCA
* *
21692627 TACAAGCGTTCGCA
1 TACATGGGTTCGCA
21692641 TACA
1 TACA
21692645 GATTACTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (14 bp):
TACATGGGTTCGCA
Found at i:21699641 original size:24 final size:24
Alignment explanation
Indices: 21699612--21699660 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
21699602 AAATATTAAT
*
21699612 TTTACTAAATTATCAACTCTATAA
1 TTTACTAAATTAACAACTCTATAA
*
21699636 TTTACTAGATTAACAACTCTATAA
1 TTTACTAAATTAACAACTCTATAA
21699660 T
1 T
21699661 GTGATGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTACTAAATTAACAACTCTATAA
Found at i:21700676 original size:12 final size:12
Alignment explanation
Indices: 21700659--21700683 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21700649 TAAATTTTGG
21700659 ATTTTAAAATTT
1 ATTTTAAAATTT
21700671 ATTTTAAAATTT
1 ATTTTAAAATTT
21700683 A
1 A
21700684 GAATTTTTAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTTAAAATTT
Found at i:21702913 original size:23 final size:24
Alignment explanation
Indices: 21702887--21702936 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
21702877 AATCAAAGTC
* *
21702887 AAATATA-TATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
21702910 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
21702934 AAA
1 AAA
21702937 CCTTCTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:21711960 original size:10 final size:10
Alignment explanation
Indices: 21711945--21711971 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
21711935 AATACACATT
21711945 ACTCATATCG
1 ACTCATATCG
21711955 ACTCATATCG
1 ACTCATATCG
21711965 ACTCATA
1 ACTCATA
21711972 ACATATACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (10 bp):
ACTCATATCG
Found at i:21715046 original size:14 final size:15
Alignment explanation
Indices: 21715010--21715048 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
21715000 AATGATTTTC
21715010 TAAAAATAATCAATTAA
1 TAAAAAT-ATCAATT-A
21715027 TAAAAATATCAATT-
1 TAAAAATATCAATTA
21715041 TAAAAATA
1 TAAAAATA
21715049 GTAGCCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
16 7 0.32
17 7 0.32
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAATATCAATTA
Found at i:21728235 original size:40 final size:40
Alignment explanation
Indices: 21728176--21728565 Score: 509
Period size: 40 Copynumber: 9.8 Consensus size: 40
21728166 CATTTGAATG
* * *
21728176 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
21728216 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
21728256 ATATCCGGGCTAAGACCCGAAGGCGTTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * * *
21728296 AGACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* *
21728336 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
21728376 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
21728416 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* *
21728456 TTATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
21728496 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
21728536 ATA-CCTGGGTTAAGACCCGAAGGCAATTGT
1 ATATCC-GGGCTAAGACCCGAAGGCATTTGT
21728566 ACTTGTGGTT
Statistics
Matches: 306, Mismatches: 38, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
39 6 0.02
40 291 0.95
41 9 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:21728393 original size:120 final size:120
Alignment explanation
Indices: 21728180--21728587 Score: 692
Period size: 120 Copynumber: 3.4 Consensus size: 120
21728170 TGAATGATAT
* * * *
21728180 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
* *
21728245 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCGTTTGTGCGAGTTGCTAGAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
21728300 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
21728365 TGCTAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
*
21728420 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCAGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
21728485 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
* * * * *
21728540 CTGGGTTAAGACCCGAAGGCAATTGTACTTGTGGTTATATCC-GGCTAA
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
21728588 ATTCCGAAGA
Statistics
Matches: 274, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
119 6 0.02
120 268 0.98
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (120 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
Found at i:21731131 original size:29 final size:29
Alignment explanation
Indices: 21731068--21731135 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
21731058 TAATCAACCA
21731068 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* * **
21731097 CACACACTTAGTGTCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
21731126 CGCACACTTA
1 CGCACACTTA
21731136 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:21731276 original size:29 final size:30
Alignment explanation
Indices: 21731237--21731315 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
21731227 CTTAATAATC
21731237 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
21731267 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
21731296 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
21731316 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:21739948 original size:40 final size:41
Alignment explanation
Indices: 21739887--21740277 Score: 514
Period size: 40 Copynumber: 9.8 Consensus size: 41
21739877 CATTTGAATG
* * * *
21739887 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
21739927 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
21739967 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
21740007 ATA-CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
21740046 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
21740086 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
21740126 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
21740166 TTATCCGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
21740206 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
21740246 ATACCCGGGTTAAGACCCGAAGGAAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
21740278 TTGTGGTTAT
Statistics
Matches: 310, Mismatches: 32, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.11
40 266 0.86
41 9 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:21740223 original size:120 final size:120
Alignment explanation
Indices: 21739897--21740292 Score: 713
Period size: 120 Copynumber: 3.3 Consensus size: 120
21739887 ATATCTGGGC
* * *
21739897 TAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
21739962 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-CCGGGT
66 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGT
21740016 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
21740081 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGT
66 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGT
*
21740136 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAGGACCCGAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
21740201 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGT
66 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGT
* * * *
21740256 TAAGACCCGAAGGAAATTGTGCTTGTGGTTATATCCG
1 TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCG
21740293 ACTAAATTCC
Statistics
Matches: 268, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
119 110 0.41
120 158 0.59
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (120 bp):
TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGT
Done.