Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 51 of 205
Found at i:15278662 original size:30 final size:30
Alignment explanation
Indices: 15278621--15278678 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
15278611 ACACTGGCTA
* *
15278621 TCACATTGGCATGTGTCCAGCCCGTGTGTC
1 TCACATGGGCATGTGCCCAGCCCGTGTGTC
15278651 TCACATGGGCATGTGCCCAGCCCGTGTG
1 TCACATGGGCATGTGCCCAGCCCGTGTG
15278679 GCTCTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (30 bp):
TCACATGGGCATGTGCCCAGCCCGTGTGTC
Found at i:15279516 original size:9 final size:9
Alignment explanation
Indices: 15279502--15279526 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15279492 AATAAATATT
15279502 TTTTTTTGA
1 TTTTTTTGA
15279511 TTTTTTTGA
1 TTTTTTTGA
15279520 TTTTTTT
1 TTTTTTT
15279527 TCTGAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:15285874 original size:30 final size:30
Alignment explanation
Indices: 15285838--15285898 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15285828 AAAGGGTTGG
*
15285838 CACATGGGCATGTGCTCAGCCCATGAGGCT
1 CACATGGGCATGTGCCCAGCCCATGAGGCT
** * *
15285868 CACATGGGTGTGTGCCCAGCCCGTGTGGCT
1 CACATGGGCATGTGCCCAGCCCATGAGGCT
15285898 C
1 C
15285899 CTAAAATCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (30 bp):
CACATGGGCATGTGCCCAGCCCATGAGGCT
Found at i:15287124 original size:59 final size:59
Alignment explanation
Indices: 15287032--15287152 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 59
15287022 GTCCACATCG
*
15287032 AAATAACTCATAATTTATTAAATAAAACAATATAAAAATAAATTGAACAAACATATTCA
1 AAATAACTCATAATTTATTAAATAAAACAATATAAAAATAAATTGAACAAAAATATTCA
* * ** *
15287091 AAATAACTTC-TATTTTATTAAATGAAACAATATAAAAATAGTTTGTACAAAAATATTCA
1 AAATAAC-TCATAATTTATTAAATAAAACAATATAAAAATAAATTGAACAAAAATATTCA
15287150 AAA
1 AAA
15287153 ATAAATCAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 53 0.96
60 2 0.04
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (59 bp):
AAATAACTCATAATTTATTAAATAAAACAATATAAAAATAAATTGAACAAAAATATTCA
Found at i:15289152 original size:11 final size:11
Alignment explanation
Indices: 15289136--15289167 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15289126 ATTAAATTAC
15289136 AAAAATAAAAT
1 AAAAATAAAAT
15289147 AAAAATAAAAT
1 AAAAATAAAAT
*
15289158 AAAATTAAAA
1 AAAAATAAAA
15289168 AATGAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:15289663 original size:22 final size:24
Alignment explanation
Indices: 15289637--15289680 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15289627 GAAAAATATT
*
15289637 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTCATTTTTA
15289659 AAATATAATAGTTTTTCATTTT
1 AAATATAATAGTTTTTCATTTT
15289681 AAGTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 3 0.16
24 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
AAATATAATAGTTTTTCATTTTTA
Found at i:15301099 original size:14 final size:15
Alignment explanation
Indices: 15301080--15301111 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15301070 TGAATGAGGA
15301080 CTATTAAT-TTTTTT
1 CTATTAATCTTTTTT
15301094 CTATTAATCTTTTTT
1 CTATTAATCTTTTTT
15301109 CTA
1 CTA
15301112 ATAGTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (15 bp):
CTATTAATCTTTTTT
Found at i:15303529 original size:11 final size:11
Alignment explanation
Indices: 15303513--15303556 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
15303503 AACACCGAAC
*
15303513 TTTTTGGGTAA
1 TTTTCGGGTAA
*
15303524 TTTTTGGGTAA
1 TTTTCGGGTAA
15303535 --TTCGGGTAA
1 TTTTCGGGTAA
15303544 TTTTCGGGTAA
1 TTTTCGGGTAA
15303555 TT
1 TT
15303557 CGGTTAATCG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 8 0.27
11 22 0.73
ACGTcount: A:0.18, C:0.05, G:0.27, T:0.50
Consensus pattern (11 bp):
TTTTCGGGTAA
Found at i:15303543 original size:20 final size:20
Alignment explanation
Indices: 15303518--15303564 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
15303508 CGAACTTTTT
*
15303518 GGGTAATTTTTGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
15303538 GGGTAATTTTCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
*
15303558 GGTTAAT
1 GGGTAAT
15303565 CGGGGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.06, G:0.30, T:0.43
Consensus pattern (20 bp):
GGGTAATTTTCGGGTAATTC
Found at i:15303752 original size:12 final size:12
Alignment explanation
Indices: 15303735--15303759 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15303725 AGCAATTTCG
15303735 AGTCGGTTAACC
1 AGTCGGTTAACC
15303747 AGTCGGTTAACC
1 AGTCGGTTAACC
15303759 A
1 A
15303760 AATGAACACC
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:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (12 bp):
AGTCGGTTAACC
Found at i:15305485 original size:29 final size:29
Alignment explanation
Indices: 15305446--15305505 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
15305436 ACTAATTAAA
*
15305446 TTAACTAACCTAA-AATAACCTAGTGGAAT
1 TTAACTAACCTAAGAA-AACCTAATGGAAT
*
15305475 TTAACTAACCTAAGAAATCCTAATGGAAT
1 TTAACTAACCTAAGAAAACCTAATGGAAT
15305504 TT
1 TT
15305506 CCTATTCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (29 bp):
TTAACTAACCTAAGAAAACCTAATGGAAT
Found at i:15311398 original size:15 final size:16
Alignment explanation
Indices: 15311378--15311421 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
15311368 TTAAGGAATT
15311378 AAAATAAACTAAAT-A
1 AAAATAAACTAAATAA
15311393 AAAATAAAC-AAATAA
1 AAAATAAACTAAATAA
*
15311408 AAAACAAACTAAAT
1 AAAATAAACTAAAT
15311422 TTAAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAAACTAAATAA
Found at i:15311875 original size:24 final size:24
Alignment explanation
Indices: 15311829--15311877 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15311819 AGTGGTCAAT
**
15311829 TCTACTTCTACATCTACTGCTATG
1 TCTACTTCTACATCTACCACTATG
* *
15311853 TCTACTTTTACATTTACCACTATG
1 TCTACTTCTACATCTACCACTATG
15311877 T
1 T
15311878 TTACAGCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.27, G:0.06, T:0.45
Consensus pattern (24 bp):
TCTACTTCTACATCTACCACTATG
Found at i:15312433 original size:21 final size:21
Alignment explanation
Indices: 15312382--15312427 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
15312372 CACTTTAATA
15312382 TTAAATTTAATTAGATTAAAT
1 TTAAATTTAATTAGATTAAAT
15312403 TTAAATTTAATTAGATTAAAT
1 TTAAATTTAATTAGATTAAAT
15312424 TTAA
1 TTAA
15312428 TATTAAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
TTAAATTTAATTAGATTAAAT
Found at i:15312501 original size:17 final size:18
Alignment explanation
Indices: 15312474--15312532 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 18
15312464 CAAGATAAAC
15312474 ATTAA-ATTAATTTTAAT
1 ATTAAGATTAATTTTAAT
15312491 ATTAAGA-TAATCACTTTAAT
1 ATTAAGATTAAT---TTTAAT
* *
15312511 ATT-AGATTAAATTTAGT
1 ATTAAGATTAATTTTAAT
15312528 ATTAA
1 ATTAA
15312533 ATCTTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
17 17 0.50
18 2 0.06
19 3 0.09
20 12 0.35
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTAAGATTAATTTTAAT
Found at i:15319829 original size:59 final size:61
Alignment explanation
Indices: 15319765--15319881 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
15319755 ATCACTTTAA
* * * *
15319765 TATTAAATTAATATAATATTTATCT-TA-ATAAATATTAAATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTAAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
15319824 TATTAAAATAATAGAATATTTATCTACAAGATAAACATTAAATTAATTTTAATATTAA
1 TATTAAAATAATAGAATATTTATCTA-AAGATAAACATTAAATTAAATTTAATATTAA
15319882 GATAATCATT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 23 0.46
61 1 0.02
62 26 0.52
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTATCTAAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:15319906 original size:11 final size:11
Alignment explanation
Indices: 15319892--15319966 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 11
15319882 GATAATCATT
15319892 TTAATATTAAA
1 TTAATATTAAA
15319903 TTAATA--AAA
1 TTAATATTAAA
*
15319912 -TACTATTAAGA
1 TTAATATTAA-A
15319923 -TAAGTATTAAA
1 TTAA-TATTAAA
*
15319934 TTAAAATTAATA
1 TTAATATTAA-A
15319946 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
15319959 ATAATATT
1 TTAATATT
15319967 TTTTTTTGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 19 0.37
12 14 0.27
13 4 0.08
14 5 0.10
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:15319941 original size:37 final size:36
Alignment explanation
Indices: 15319892--15319966 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 36
15319882 GATAATCATT
*
15319892 TTAATATTAAATTAATA-AAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATATAAA-ACTATTAAAATAA-TA
*
15319929 TTAA-ATTAAAATTAATATTAAACTATTAAAATAATA
1 TTAATATT-AAATTAATATAAAACTATTAAAATAATA
15319965 TT
1 TT
15319967 TTTTTTTGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 7 0.21
37 25 0.74
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (36 bp):
TTAATATTAAATTAATATAAAACTATTAAAATAATA
Found at i:15329077 original size:23 final size:24
Alignment explanation
Indices: 15329026--15329080 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
15329016 AATTACTTAT
15329026 TTATATTTAAAAAATTGGTCAACA
1 TTATATTTAAAAAATTGGTCAACA
*
15329050 ATATATTTAAAAAGATTGGTC-A-A
1 TTATATTTAAAAA-ATTGGTCAACA
15329073 TTATATTT
1 TTATATTT
15329081 GATGGCTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.29
24 13 0.46
25 7 0.25
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (24 bp):
TTATATTTAAAAAATTGGTCAACA
Found at i:15330546 original size:41 final size:40
Alignment explanation
Indices: 15330501--15330592 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 40
15330491 AATATAAAAA
* *
15330501 TTAATTAAAATCCCATTCATCCAAAAATTTTACTTTATAAT
1 TTAATTAAAAT-CCATTAATCCAAAAAATTTACTTTATAAT
**
15330542 TTAATTAAAAATTTATTAATCCAAAAAATTTACTTTATAAT
1 TTAATT-AAAATCCATTAATCCAAAAAATTTACTTTATAAT
15330583 TTAATTAAAA
1 TTAATTAAAA
15330593 ATTTATTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
40 4 0.09
41 37 0.80
42 5 0.11
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (40 bp):
TTAATTAAAATCCATTAATCCAAAAAATTTACTTTATAAT
Found at i:15330556 original size:24 final size:24
Alignment explanation
Indices: 15330523--15330597 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 24
15330513 CCATTCATCC
15330523 AAAAATTTTACTTTATAATTTAATT
1 AAAAA-TTTACTTTATAATTTAATT
**
15330548 AAAAATTTA---T-TAA-TCCA--
1 AAAAATTTACTTTATAATTTAATT
15330565 AAAAATTTACTTTATAATTTAATT
1 AAAAATTTACTTTATAATTTAATT
15330589 AAAAATTTA
1 AAAAATTTA
15330598 TTAATTCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 15
0.67 0.07 0.26
Matches are distributed among these distances:
17 9 0.23
19 2 0.05
20 4 0.10
21 4 0.10
22 2 0.05
24 13 0.33
25 5 0.13
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAAATTTACTTTATAATTTAATT
Found at i:15330593 original size:41 final size:41
Alignment explanation
Indices: 15330519--15330602 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
15330509 AATCCCATTC
*
15330519 ATCCAAAAATTTTACTTTATAATTTAATTAAAAATTTATTA
1 ATCCAAAAAATTTACTTTATAATTTAATTAAAAATTTATTA
15330560 ATCCAAAAAATTTACTTTATAATTTAATTAAAAATTTATTA
1 ATCCAAAAAATTTACTTTATAATTTAATTAAAAATTTATTA
15330601 AT
1 AT
15330603 TCAATGCGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (41 bp):
ATCCAAAAAATTTACTTTATAATTTAATTAAAAATTTATTA
Found at i:15337658 original size:14 final size:14
Alignment explanation
Indices: 15337636--15337672 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
15337626 CAAAATATTA
15337636 AAAGAAAAATAAAAC
1 AAAG-AAAATAAAAC
*
15337651 AAAGAAAATAAAAG
1 AAAGAAAATAAAAC
15337665 AAAGAAAA
1 AAAGAAAA
15337673 AGATAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.05
Consensus pattern (14 bp):
AAAGAAAATAAAAC
Found at i:15337689 original size:15 final size:15
Alignment explanation
Indices: 15337636--15337691 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
15337626 CAAAATATTA
15337636 AAAGAAAA-ATAAAAC
1 AAAGAAAAGAT-AAAC
* *
15337651 AAAGAAAATA-AAAG
1 AAAGAAAAGATAAAC
*
15337665 AAAGAAAAAGATAAAT
1 AAAG-AAAAGATAAAC
15337681 AAAGAAAAGAT
1 AAAGAAAAGAT
15337692 TGAGCAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 7 0.20
15 20 0.57
16 8 0.23
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (15 bp):
AAAGAAAAGATAAAC
Found at i:15338823 original size:87 final size:87
Alignment explanation
Indices: 15338677--15338850 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
15338667 TCAACATAGG
15338677 AAGAGAAATTTAGTGAAGGGCCTTAAAGACAAAAATTGAAGGTGGGTCGAAAGGGAGGAGAAATT
1 AAGAGAAATTTAGTGAAGGGCCTTAAAGACAAAAATTGAAGGTGGGTCGAAAGGGAGGAGAAATT
15338742 AATTGGGCTTGCAACAAGGTAC
66 AATTGGGCTTGCAACAAGGTAC
*
15338764 AAGAGAAATTTAGTGAAGGGCCTTAAAGACAAAAATTGAATGTGGGTCGAAAGGGAGGAGAAATT
1 AAGAGAAATTTAGTGAAGGGCCTTAAAGACAAAAATTGAAGGTGGGTCGAAAGGGAGGAGAAATT
15338829 AATTGGGCTTGCAACAAGGTAC
66 AATTGGGCTTGCAACAAGGTAC
15338851 CTTATGGACC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.20
Consensus pattern (87 bp):
AAGAGAAATTTAGTGAAGGGCCTTAAAGACAAAAATTGAAGGTGGGTCGAAAGGGAGGAGAAATT
AATTGGGCTTGCAACAAGGTAC
Found at i:15341756 original size:21 final size:21
Alignment explanation
Indices: 15341708--15341761 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
15341698 AACAGCAATG
* *
15341708 GCAGTGAAATTAGTTACTGTA
1 GCAGTGAGATTAGATACTGTA
*
15341729 GCGGTGAGATTAGATACTGTA
1 GCAGTGAGATTAGATACTGTA
*
15341750 GTAGTGAGATTA
1 GCAGTGAGATTA
15341762 AAAACAATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.30, T:0.31
Consensus pattern (21 bp):
GCAGTGAGATTAGATACTGTA
Found at i:15345635 original size:25 final size:23
Alignment explanation
Indices: 15345602--15345665 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 23
15345592 ATTTATACAC
* *
15345602 ATATTTTTTTAATGTAGATATTAT
1 ATATATTTTTAATGTAGACA-TAT
* *
15345626 ATAATATTTTTAATCTATACATAT
1 AT-ATATTTTTAATGTAGACATAT
*
15345650 ATATATTTTTTATGTA
1 ATATATTTTTAATGTA
15345666 CATGTCTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 12 0.36
24 7 0.21
25 14 0.42
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (23 bp):
ATATATTTTTAATGTAGACATAT
Found at i:15350049 original size:944 final size:943
Alignment explanation
Indices: 15347059--15351119 Score: 7082
Period size: 944 Copynumber: 4.3 Consensus size: 943
15347049 CACCACGAAT
* * *
15347059 GGATGAAAGCAATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGTAAATAATAATGA
1 GGATGAAAGCCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGTAAACAATAACGA
15347124 GGATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACA
66 GGATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACA
*
15347189 TTAAACTACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAAACATTAAAATA
131 TTAAACTACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATA
*
15347254 AAAAAGGGGAAACATTAGGATAAATAAAGAAGAGACAAGAATCAGTAGCAGATTCAAAGAGCAAC
196 AAAAAGGGGAAACATTAGGATAAATAAAGAAGAGACAAGAATCAGTAGCAGATTCAAGGAGCAAC
* * *
15347319 CATCGTTCTGCTGCTTGAAGCGAAATCAAAAAGGGGGGAACATTAGGATAAATAAGCAATAAGCT
261 CATCATTCGGCTGCTTGAAGCGAAATCAAAAA-GGGGAAACATTAGGATAAATAAGCAATAAGCT
*
15347384 GCTTAGATTCAGTGTAAAATTGCACTTGATCTTGACAAACCCCTTCAGATTCTCTAGAATTTGGA
325 GCTTAGCTTCAGTGTAAAATTGCACTTGATCTTGACAAACCCCTTCAGATTCTCTAGAATTTGGA
* * *
15347449 TTCAAACAATAGTACGAATAGGTTTCTACTAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTT
390 TTAAAACAATAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTT
*
15347514 TTCTTAGCAACACTAGACATCAAATTTTTACTTTAGTCTAAAAAAATGCATTTAACCACTCAAGG
455 TTCTTAGCAACACTAGACATCAAATTTTTACTTTAGTCT-AAAAAATGCATTTAATCACTCAAGG
15347579 TTATGACATCAATCTCATAGTTTTTGAAGGCCGAGACTGTAAAACTACTCAAAATATCAAATCAT
519 TTATGACATCAATCTCATAGTTTTTGAAGGCCGAGACTGTAAAACTACTCAAAATATCAAATCAT
* *
15347644 CCTAACCCTTTTTTCTTTTAAAAAGGGTAAGCCTTTGCAACATTCTTATTAGAAAATCTGAAAAC
584 CCTAACCCCTTTTTCTTTTAAAAAGGGTAAGCCTTTGCAACATTCTTATTAGAAAATATGAAAAC
15347709 AAGACATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTATGTGGTCTAAAGCATTCCCTAT
649 AAGACATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTATGTGGTCTAAAGCATTCCCTAT
*
15347774 ACACCAGTAAATGTGCTTATTGGATATTCTATTATCTGTATAATTAATTATTTAAGATGGTAGTA
714 ACACCAGTAAATGTGCTTAATGGATATTCTATTATCTGTATAATTAATTATTTAAGATGGTAGTA
15347839 ATTTCAACTAATATACGATGACAGTGCAGGAATAAACAAGTGGAAGTTTACAAGTAGGCAATATT
779 ATTTCAACTAATATACGATGACAGTGCAGGAATAAACAAGTGG-AGTTTACAAGTAGGCAATATT
15347904 AGCCCATACTTTTGACACATTTCATAAATATAGGTTTAAACAGTAAATTGAAATGTAGACAAAGC
843 AGCCCATACTTTTGACACATTTCATAAATATAGGTTTAAACAGTAAATTGAAATGTAGACAAAGC
15347969 AAAAAAAATGCTATCAGATCAACAAAATCGAACAAA
908 AAAAAAAATGCTATCAGATCAACAAAATCGAACAAA
*
15348005 GGATGAAAGCCATAAGATGAACACTAAAGAAAAAATTCTAAAAGATCCATGGTAAACAATAACGA
1 GGATGAAAGCCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGTAAACAATAACGA
* *
15348070 GGATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAACGGTATTTTTAGAGACA
66 GGATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACA
*
15348135 TTAAACTACCTCTTGCTTTTGGATGGATTCAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATA
131 TTAAACTACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATA
* *
15348200 AAAAAGGGGAAACATTAGGATAAATAAAGAAGAGACAAGAATCGGTAGCAGATTCAGGGAGCAAC
196 AAAAAGGGGAAACATTAGGATAAATAAAGAAGAGACAAGAATCAGTAGCAGATTCAAGGAGCAAC
* * * *
15348265 CATCATT-GTGCTGCTTGAAGTGAAATAAAAAAGGGGAAACATTAGGATATATAAGCAATAAACT
261 CATCATTCG-GCTGCTTGAAGCGAAATCAAAAAGGGGAAACATTAGGATAAATAAGCAATAAGCT
* *
15348329 GCGTAGCTTCAGTGTAAAATTGCACTTGATCTTGACAAACCCCTTTAGATTCTCTAGAATTAT-G
325 GCTTAGCTTCAGTGTAAAATTGCACTTGATCTTGACAAACCCCTTCAGATTCTCTAGAATT-TGG
* * * *
15348393 ATTAAAACAATAATACGAACAGGTGTCTACTC-GAAAAATTTTAAGCAAACTTGAGTAGTTTGGT
389 ATTAAAACAATAGTACGAACAGGTTTCTAC-CAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGT
* *
15348457 TTTTCTTGGCAACACTAGACATCAAATTTTTACTTTAGTCTAAAAAATGCATTTAATCACTTAAG
453 TTTTCTTAGCAACACTAGACATCAAATTTTTACTTTAGTCTAAAAAATGCATTTAATCACTCAAG
* * *
15348522 GTTATGACATCAATCTCATAGTTTCTGAATGCC--GACTGTAAAACTATTCAAAATATCAAATCA
518 GTTATGACATCAATCTCATAGTTTTTGAAGGCCGAGACTGTAAAACTACTCAAAATATCAAATCA
15348585 TCCTAACCCCTTTTTCTTTTAAAAAGGGTAAGCCTTTGCAACATTCTTATTAGAAAATATGAAAA
583 TCCTAACCCCTTTTTCTTTTAAAAAGGGTAAGCCTTTGCAACATTCTTATTAGAAAATATGAAAA
15348650 CAAGACATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTATGTGGTCTAAAGCATTCCCTA
648 CAAGACATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTATGTGGTCTAAAGCATTCCCTA
* * * * *
15348715 TACACCAGTAAATGTGCTTAATGGATATTTTATTATCGGTTTAATTAATTATATAAGGTGGTAGT
713 TACACCAGTAAATGTGCTTAATGGATATTCTATTATCTGTATAATTAATTATTTAAGATGGTAGT
*
15348780 AATTTCAACTAATATACGATGACAGTGCAGGAATAAACAAGTGGAGGTTTACAAGTAGGAAATAT
778 AATTTCAACTAATATACGATGACAGTGCAGGAATAAACAAGTGGA-GTTTACAAGTAGGCAATAT
15348845 TAGCCCATACTTTTGACACATTTCATAAATATAGGTTTAAACAGTAAATTGAAATGTAGACAAAG
842 TAGCCCATACTTTTGACACATTTCATAAATATAGGTTTAAACAGTAAATTGAAATGTAGACAAAG
* *
15348910 CAAAAAAAAATGCTATCAGATCAACAAAATCAAAAAAA
907 C-AAAAAAAATGCTATCAGATCAACAAAATCGAACAAA
* *
15348948 GGATGAAAGCCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGGAAATAATAACGA
1 GGATGAAAGCCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGTAAACAATAACGA
*
15349013 GGATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGACTAAAGGCATTTTTAGAGACA
66 GGATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACA
*
15349078 TTAAACTACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGTAGACATTAAAATA
131 TTAAACTACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATA
* * * *
15349143 AAAAATGGGAAACATTGGGATAAATAAAGAAGAGACAAGAATTAGTAGCAGATTCAAGAAGCAAC
196 AAAAAGGGGAAACATTAGGATAAATAAAGAAGAGACAAGAATCAGTAGCAGATTCAAGGAGCAAC
*
15349208 CATCATTCGGTTGCTTGAAGCGAAATCAAAAAGGGGAAACATTAGGATAAATAAGCAATAAGCTG
261 CATCATTCGGCTGCTTGAAGCGAAATCAAAAAGGGGAAACATTAGGATAAATAAGCAATAAGCTG
*
15349273 CTTAGCTTCAGTGTAAAATTGCACTTGATCTTGACAAACCCCTTCAGATTCTCGAGAATTTGGAT
326 CTTAGCTTCAGTGTAAAATTGCACTTGATCTTGACAAACCCCTTCAGATTCTCTAGAATTTGGAT
*
15349338 TAAAACAATAGTACGAACAGGTTTGTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTT
391 TAAAACAATAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTT
*
15349403 TCTTAGCAACACTAAACATCAAATTTTTACTTTAGTCTAAAAAAATGCATTTAATCACTCAAGGT
456 TCTTAGCAACACTAGACATCAAATTTTTACTTTAGTCT-AAAAAATGCATTTAATCACTCAAGGT
*
15349468 TATGACATCAATCTCATAGTTTTTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATC
520 TATGACATCAATCTCATAGTTTTTGAAGGCCGAGACTGTAAAACTACTCAAAATATCAAATCATC
15349533 CTAACCCCTTTTTCTTTTAAAAAGGGTAAGCCTTTGCAACATTCTTATTAG-AAATAATGAAAAC
585 CTAACCCCTTTTTCTTTTAAAAAGGGTAAGCCTTTGCAACATTCTTATTAGAAAAT-ATGAAAAC
*
15349597 AAGACATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTATTATGTGGTCTAAAG-ATTCCCTAT
649 AAGACATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTATGTGGTCTAAAGCATTCCCTAT
*
15349661 ACACCAGTAAATGTGCTTATTGGATATTCTATTATCTGTATAATTAATTATTTAAGATGGTAGTA
714 ACACCAGTAAATGTGCTTAATGGATATTCTATTATCTGTATAATTAATTATTTAAGATGGTAGTA
15349726 ATTTCAACTAATATACGATGACAGTGCAGGAATAAACAAGTGGAGTTTACAAGTAGGCAATATTA
779 ATTTCAACTAATATACGATGACAGTGCAGGAATAAACAAGTGGAGTTTACAAGTAGGCAATATTA
* *
15349791 GCCCATATTTTTGACACATTTCATAAATATAGATTTAAACAGTAAATTGAAATGTAGACAAAGCA
844 GCCCATACTTTTGACACATTTCATAAATATAGGTTTAAACAGTAAATTGAAATGTAGACAAAGC-
* *
15349856 AAAAAAAATGCTATCATATCAACAAAATGGAACAAA
908 AAAAAAAATGCTATCAGATCAACAAAATCGAACAAA
* *
15349892 GGATGAAAGCTATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCTATGGTAAACAATAACGA
1 GGATGAAAGCCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGTAAACAATAACGA
15349957 GGATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACA
66 GGATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACA
* * * *
15350022 TTAAACTACCTTTTGCTTTTGGATGGATTTAGATAGCGGCTCTTGTCACTACAGACATTAAAATA
131 TTAAACTACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATA
* *
15350087 AAAAAGGGGAAACATTAGGATAAATAAAGAAGAGATAAGAATCGGTAGCAGATTCAAGGAGCAAC
196 AAAAAGGGGAAACATTAGGATAAATAAAGAAGAGACAAGAATCAGTAGCAGATTCAAGGAGCAAC
* * * *
15350152 CATCGTTCTGCTACTTGAAGCGAAATCAAAAAGGGGAAACATTAGGATAAATAAGAAATAAGCTG
261 CATCATTCGGCTGCTTGAAGCGAAATCAAAAAGGGGAAACATTAGGATAAATAAGCAATAAGCTG
*
15350217 CTTAGCTTCAGTGTAAAATTGCACTTGATCTTGACAAACCCCTTTAGATTCTCTAGAATTTGGAT
326 CTTAGCTTCAGTGTAAAATTGCACTTGATCTTGACAAACCCCTTCAGATTCTCTAGAATTTGGAT
* *
15350282 TAAAACAATAGTACGAACAGGTTTGTACCAGAAAAAAGTTTAAGCAAACTTGAGTAGTTTGGTTT
391 TAAAACAATAGTACGAACAGGTTTCTACCAG-AAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTT
*
15350347 TTCATAGCAACACTAGACATCAAATTTTTACTTTAGTCTAAAAAATGCATTTAATCACTCAAGGT
455 TTCTTAGCAACACTAGACATCAAATTTTTACTTTAGTCTAAAAAATGCATTTAATCACTCAAGGT
*
15350412 TATGACATCAATCTCATAGTTTTTGAAGGCCGAGACTGTAAAACTACTCATAATATCAAATCATC
520 TATGACATCAATCTCATAGTTTTTGAAGGCCGAGACTGTAAAACTACTCAAAATATCAAATCATC
*
15350477 CTAACCCCTTTTTCTTTTAAAAAGGGTAAGCCTTTGCAACATTCTTATTAGAAAATCTGAAAACA
585 CTAACCCCTTTTTCTTTTAAAAAGGGTAAGCCTTTGCAACATTCTTATTAGAAAATATGAAAACA
15350542 AGACATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTATGTGGTCTAAAGCATTCCCTATA
650 AGACATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTATGTGGTCTAAAGCATTCCCTATA
* * *
15350607 AACCAGTAAATGTGCTTAATGGATATTTTATTATCTGTTTAATTAATTATTTAAGATGGTAGTAA
715 CACCAGTAAATGTGCTTAATGGATATTCTATTATCTGTATAATTAATTATTTAAGATGGTAGTAA
15350672 TTTCAACTAATATACGATGACAGTGCAGGAATAAACAAGTGGAGTTTACAAGTAGGCAATATTAG
780 TTTCAACTAATATACGATGACAGTGCAGGAATAAACAAGTGGAGTTTACAAGTAGGCAATATTAG
15350737 CCCATACTTTTG-CACATTTCATAAATATAGGTTTAAACAGTAAATTGAAATGTAGACAAAGCAA
845 CCCATACTTTTGACACATTTCATAAATATAGGTTTAAACAGTAAATTGAAATGTAGACAAAGCAA
15350801 AAAAAATGCTATCAGATCAACAAAATCGAACAAA
910 AAAAAATGCTATCAGATCAACAAAATCGAACAAA
*
15350835 GGATGAAAGCCATAAGATGAACACTAAAG-AAAAATTCTCAAAGTTCCATGGTAAACAATAACGA
1 GGATGAAAGCCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGTAAACAATAACGA
* *
15350899 GAATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGACATTTTTAGAGACA
66 GGATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACA
* * *
15350964 TTAAACTACCTCTTGGTTTTGGACGGATTTAGATAGCTGCTCTTGTCGCTGTAGACATTAAAATA
131 TTAAACTACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATA
* *
15351029 AAAAA-GGGATAACATTAGGATAAATAAAGAAGAGACAAGAATCACTAGTAGATTCAAGGAGCAA
196 AAAAAGGGGA-AACATTAGGATAAATAAAGAAGAGACAAGAATCAGTAGCAGATTCAAGGAGCAA
15351093 CCATCATT-GTGCTGCTTGAAGCGAAAT
260 CCATCATTCG-GCTGCTTGAAGCGAAAT
15351120 TAAATGAGAG
Statistics
Matches: 2950, Mismatches: 148, Indels: 38
0.94 0.05 0.01
Matches are distributed among these distances:
941 5 0.00
942 578 0.20
943 554 0.19
944 873 0.30
945 520 0.18
946 420 0.14
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (943 bp):
GGATGAAAGCCATAAGATGAACACTAAAGAAAAAATTCTCAAAGATCCATGGTAAACAATAACGA
GGATATAGAAAGGATAATTGATTATGACTATCTTTTCAAAATGAATAAAGGCATTTTTAGAGACA
TTAAACTACCTCTTGCTTTTGGATGGATTTAGATAGCTGCTCTTGTCGCTGCAGACATTAAAATA
AAAAAGGGGAAACATTAGGATAAATAAAGAAGAGACAAGAATCAGTAGCAGATTCAAGGAGCAAC
CATCATTCGGCTGCTTGAAGCGAAATCAAAAAGGGGAAACATTAGGATAAATAAGCAATAAGCTG
CTTAGCTTCAGTGTAAAATTGCACTTGATCTTGACAAACCCCTTCAGATTCTCTAGAATTTGGAT
TAAAACAATAGTACGAACAGGTTTCTACCAGAAAAAGTGTAAGCAAACTTGAGTAGTTTGGTTTT
TCTTAGCAACACTAGACATCAAATTTTTACTTTAGTCTAAAAAATGCATTTAATCACTCAAGGTT
ATGACATCAATCTCATAGTTTTTGAAGGCCGAGACTGTAAAACTACTCAAAATATCAAATCATCC
TAACCCCTTTTTCTTTTAAAAAGGGTAAGCCTTTGCAACATTCTTATTAGAAAATATGAAAACAA
GACATAGCCAAACCAGCAGCTTGTTCCACATTAGCTTGTTATGTGGTCTAAAGCATTCCCTATAC
ACCAGTAAATGTGCTTAATGGATATTCTATTATCTGTATAATTAATTATTTAAGATGGTAGTAAT
TTCAACTAATATACGATGACAGTGCAGGAATAAACAAGTGGAGTTTACAAGTAGGCAATATTAGC
CCATACTTTTGACACATTTCATAAATATAGGTTTAAACAGTAAATTGAAATGTAGACAAAGCAAA
AAAAATGCTATCAGATCAACAAAATCGAACAAA
Found at i:15351762 original size:16 final size:16
Alignment explanation
Indices: 15351743--15351889 Score: 99
Period size: 16 Copynumber: 9.1 Consensus size: 16
15351733 AAGTAAAAAG
15351743 AGTTATAATAATTAAA
1 AGTTATAATAATTAAA
**
15351759 AG-T-TAATAAGCAAA
1 AGTTATAATAATTAAA
* *
15351773 AGTTCTAATATTCTTAAA
1 AGTTATAATA--ATTAAA
15351791 AGTTATAATAATTAAAA
1 AGTTATAATAATT-AAA
*
15351808 AATTAATAAGTAA--AAA
1 AGTT-ATAA-TAATTAAA
15351824 GAGTTATAATAATTAAA
1 -AGTTATAATAATTAAA
**
15351841 AG-T-TAATAAGCAAA
1 AGTTATAATAATTAAA
* *
15351855 AGTTCTAATATTCTTAAA
1 AGTTATAATA--ATTAAA
15351873 AGTTATAATAATTAAA
1 AGTTATAATAATTAAA
15351889 A
1 A
15351890 AATGAGGGAA
Statistics
Matches: 101, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
14 22 0.22
15 7 0.07
16 29 0.29
17 12 0.12
18 28 0.28
19 3 0.03
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (16 bp):
AGTTATAATAATTAAA
Found at i:15351835 original size:19 final size:18
Alignment explanation
Indices: 15351788--15351841 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 18
15351778 TAATATTCTT
15351788 AAAAGTTATAATAATTAA
1 AAAAGTTATAATAATTAA
*
15351806 AAAA--T-TAATAAGTAA
1 AAAAGTTATAATAATTAA
15351821 AAAGAGTTATAATAATTAA
1 AAA-AGTTATAATAATTAA
15351840 AA
1 AA
15351842 GTTAATAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 12 0.40
16 2 0.07
18 5 0.17
19 11 0.37
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
AAAAGTTATAATAATTAA
Found at i:15351847 original size:33 final size:34
Alignment explanation
Indices: 15351791--15351855 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
15351781 TATTCTTAAA
*
15351791 AGTTATAATAATTAAAAAATTAATAAGTAAAAAG
1 AGTTATAATAATTAAAAAATTAATAAGCAAAAAG
*
15351825 AGTTATAATAATT-AAAAGTTAATAAGCAAAA
1 AGTTATAATAATTAAAAAATTAATAAGCAAAA
15351856 GTTCTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 16 0.55
34 13 0.45
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (34 bp):
AGTTATAATAATTAAAAAATTAATAAGCAAAAAG
Found at i:15351865 original size:82 final size:82
Alignment explanation
Indices: 15351728--15351892 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
15351718 GAAGCCAAAG
15351728 TTAATAAGTAAAAAGAGTTATAATAATTAAAAGTTAATAAGCAAAAGTTCTAATATTCTTAAAAG
1 TTAATAAGTAAAAAGAGTTATAATAATTAAAAGTTAATAAGCAAAAGTTCTAATATTCTTAAAAG
15351793 TTATAATAATTAAAAAA
66 TTATAATAATTAAAAAA
15351810 TTAATAAGTAAAAAGAGTTATAATAATTAAAAGTTAATAAGCAAAAGTTCTAATATTCTTAAAAG
1 TTAATAAGTAAAAAGAGTTATAATAATTAAAAGTTAATAAGCAAAAGTTCTAATATTCTTAAAAG
15351875 TTATAATAATTAAAAAA
66 TTATAATAATTAAAAAA
15351892 T
1 T
15351893 GAGGGAAAAC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (82 bp):
TTAATAAGTAAAAAGAGTTATAATAATTAAAAGTTAATAAGCAAAAGTTCTAATATTCTTAAAAG
TTATAATAATTAAAAAA
Found at i:15352552 original size:23 final size:23
Alignment explanation
Indices: 15352506--15352552 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15352496 ATAAAATTTT
* *
15352506 AAAATATTATTAAAATTGATAAA
1 AAAATATTAATAAAATTCATAAA
15352529 AAAATATTAAATAAAATTCA-AAA
1 AAAATATT-AATAAAATTCATAAA
15352552 A
1 A
15352553 GTTCAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAATATTAATAAAATTCATAAA
Found at i:15357780 original size:55 final size:58
Alignment explanation
Indices: 15357673--15357781 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 58
15357663 GAAATTATTA
* * *
15357673 TGGTTTTCTCCTAAATTAAAATGAAAATAGAGAAAATGGAATCATTTGGAAATGAATG
1 TGGTTTTCTCCAAAATGAAAATGAAAATAGAGAAAATGGAATCATTTAGAAATGAATG
*
15357731 TGGTTTTCT-CAAAATGGAAATGAAAAT-GAG-AAAT-GAATTCATTTAGAAATG
1 TGGTTTTCTCCAAAATGAAAATGAAAATAGAGAAAATGGAA-TCATTTAGAAATG
15357782 TACACGGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
54 3 0.07
55 16 0.35
56 3 0.07
57 15 0.33
58 9 0.20
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.31
Consensus pattern (58 bp):
TGGTTTTCTCCAAAATGAAAATGAAAATAGAGAAAATGGAATCATTTAGAAATGAATG
Found at i:15360292 original size:40 final size:40
Alignment explanation
Indices: 15360248--15360332 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
15360238 CTCAAGTATA
*
15360248 AATATTTTGAAATTTACATGAATTTTCTGTAATTATAGAT
1 AATATTTTGAAATTTACATGAATTTTCTATAATTATAGAT
15360288 AATATTTTGAAATTTACATGAATTTTCTATAATTATAGAT
1 AATATTTTGAAATTTACATGAATTTTCTATAATTATAGAT
15360328 AATAT
1 AATAT
15360333 AAGGTTGTAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (40 bp):
AATATTTTGAAATTTACATGAATTTTCTATAATTATAGAT
Found at i:15361298 original size:25 final size:25
Alignment explanation
Indices: 15361270--15361334 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
15361260 ATTCTCTTAA
*
15361270 CTAGTGTTAGCAACATCGAA-CTAAG
1 CTAGTGTTAGCAACAT-GAATCGAAG
* *
15361295 CTAGTGTTAGCAACCTTAATTCGAAG
1 CTAGTGTTAGCAACATGAA-TCGAAG
15361321 CTAGTGTTAGCAAC
1 CTAGTGTTAGCAAC
15361335 CCAATAATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.06
25 15 0.43
26 18 0.51
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (25 bp):
CTAGTGTTAGCAACATGAATCGAAG
Found at i:15362572 original size:33 final size:35
Alignment explanation
Indices: 15362512--15362578 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 35
15362502 TTTTCATTTC
15362512 CATTTCCATTTTTTGAGAAACCCACATTAATTTTT
1 CATTTCCATTTTTTGAGAAACCCACATTAATTTTT
* *
15362547 CATTTCCA-TTTTTG-GAAACCTACATTCATTTT
1 CATTTCCATTTTTTGAGAAACCCACATTAATTTT
15362579 CAAATGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 16 0.53
34 6 0.20
35 8 0.27
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (35 bp):
CATTTCCATTTTTTGAGAAACCCACATTAATTTTT
Found at i:15371415 original size:25 final size:24
Alignment explanation
Indices: 15371387--15371433 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
15371377 ATTCAGGTAA
15371387 TATAACGGGAAGCTCACAAAGAGCC
1 TATAACGGGAAGCTC-CAAAGAGCC
*
15371412 TATAACGGGTAGCTCCAAAGAG
1 TATAACGGGAAGCTCCAAAGAG
15371434 TAATTAACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (24 bp):
TATAACGGGAAGCTCCAAAGAGCC
Found at i:15371441 original size:24 final size:24
Alignment explanation
Indices: 15371383--15371466 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 24
15371373 GCTTATTCAG
*
15371383 GTAATATAACGGGAAGCTCACAAAGA
1 GTAAT-TAACGGGTAGCTC-CAAAGA
15371409 GCCT-A-TAACGGGTAGCTCCAAAGA
1 G--TAATTAACGGGTAGCTCCAAAGA
* *
15371433 GTAATTAACGGGTAGCTCCGAAGG
1 GTAATTAACGGGTAGCTCCAAAGA
*
15371457 GCAATTAACG
1 GTAATTAACG
15371467 AAAAGCACCG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 33 0.66
25 12 0.24
26 1 0.02
27 1 0.02
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (24 bp):
GTAATTAACGGGTAGCTCCAAAGA
Found at i:15374678 original size:24 final size:24
Alignment explanation
Indices: 15374618--15374704 Score: 122
Period size: 24 Copynumber: 3.7 Consensus size: 24
15374608 AATAATTTGT
*
15374618 CGTCAATTCATCCTTTACA-TTAC
1 CGTCAATTCATCCTTTACATTTTC
15374641 CGTCAATTCATCCTTTACATTTTC
1 CGTCAATTCATCCTTTACATTTTC
* * *
15374665 TGTCAGTTCCTCCTTTACATTTTC
1 CGTCAATTCATCCTTTACATTTTC
*
15374689 CATCAATTCATCCTTT
1 CGTCAATTCATCCTTT
15374705 CCCAATAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 19 0.35
24 36 0.65
ACGTcount: A:0.21, C:0.30, G:0.05, T:0.45
Consensus pattern (24 bp):
CGTCAATTCATCCTTTACATTTTC
Found at i:15386042 original size:50 final size:50
Alignment explanation
Indices: 15385914--15386210 Score: 272
Period size: 50 Copynumber: 5.8 Consensus size: 50
15385904 GATAATAACA
* * * ** * * * *
15385914 TGCCAAAGCCATATACCAGACATGGTCTTACATGGGATGTTTCTTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * **
15385963 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * ** * *
15386013 TGCCCATGCCATGTCACAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * * *
15386063 TGCCAACGCCATGTCCCAAACATGATCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
*
15386113 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC-A-G
* * *
15386168 ATGCCAATGCCATGTCCCAGACATTGTCCTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15386211 TTACCCAAAT
Statistics
Matches: 205, Mismatches: 36, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
49 38 0.19
50 126 0.61
53 2 0.01
55 1 0.00
56 38 0.19
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
Found at i:15391596 original size:67 final size:67
Alignment explanation
Indices: 15391468--15391900 Score: 369
Period size: 67 Copynumber: 6.6 Consensus size: 67
15391458 ATGGTCTATA
* * * * * *
15391468 ATGGGGTAAAGTGTGTAAGACCATGGCTCAACTATGGAAACATAAAAAGCCCGTCAAGACATTAA
1 ATGGGGTAAAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAAAGTCCGTCAGGACATTAA
15391533 AC
66 AC
* * * *
15391535 ATTGGGTAAAATGTGTAAGATCATAGCTCAACTATGGCAACATAGAGAGTCCGTTAGGACATTAA
1 ATGGGGTAAAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAAAGTCCGTCAGGACATTAA
*
15391600 GC
66 AC
* * * * **
15391602 ATGGGGTAAAATGTGTAAGACCATAGCTCAACTATAGAAACATAGAGAGT-CTTCCAAAACATTA
1 ATGGGGTAAAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAAAGTCCGT-CAGGACATTA
*
15391666 AGC
65 AAC
* * * * *
15391669 ATGGGGCAAAATGTGTAAGACCATAACTCGAA-TATGACAACATAGAGAGTCTGTCAGG-----A
1 ATGGGGTAAAATGTGTAAGACCATAGCTC-AACTATGGCAACATAGAAAGTCCGTCAGGACATTA
15391728 AAC
65 AAC
* * * * ** * *
15391731 ATGGGGTATATTATGTAAGACGATAGCTTGACCATTGCAACATAGAAAGTCCGTCAGGACATTAA
1 ATGGGGTAAAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAAAGTCCGTCAGGACATTAA
15391796 AC
66 AC
* * * * ** * * *
15391798 ATAGGGTATATTGTGTAAGACTATAGCTCGGCTATGGCAACATAAAAAGT-TGCCAGGACATTAA
1 ATGGGGTAAAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAAAGTCCGTCAGGACATTAA
*
15391862 GC
66 AC
* **** *
15391864 ATTGGGTGTGGTGTGTAAGACCATAGCTCGACTATGG
1 ATGGGGTAAAATGTGTAAGACCATAGCTCAACTATGG
15391901 GGGAGCCCGC
Statistics
Matches: 298, Mismatches: 59, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
61 1 0.00
62 46 0.15
66 46 0.15
67 202 0.68
68 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (67 bp):
ATGGGGTAAAATGTGTAAGACCATAGCTCAACTATGGCAACATAGAAAGTCCGTCAGGACATTAA
AC
Found at i:15396081 original size:23 final size:23
Alignment explanation
Indices: 15396055--15396099 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15396045 TAGGAATGTG
15396055 TTAAAAAT-ATAAAGTTAAATAAT
1 TTAAAAATAATAAA-TTAAATAAT
* *
15396078 TTAATAATAATAAATTGAATAA
1 TTAAAAATAATAAATTAAATAA
15396100 ATGTATAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
TTAAAAATAATAAATTAAATAAT
Found at i:15397448 original size:28 final size:28
Alignment explanation
Indices: 15397408--15397547 Score: 124
Period size: 28 Copynumber: 5.0 Consensus size: 28
15397398 CGATTGTATG
* *
15397408 TCCCATATTTTTTAGATTTTACAGTTTT
1 TCCCATATTTTTTAAATTTTACAATTTT
15397436 TCCCATATTTTTTAAATTTTACAAATTTT
1 TCCCATATTTTTTAAATTTTAC-AATTTT
* * * *
15397465 ACCCTTAGTTTTTTTAGATTTTAAAATTTT
1 TCCCATA--TTTTTTAAATTTTACAATTTT
* * * *
15397495 ACCCCTATTTTTCAAATTTTTC-A-TTT
1 TCCCATATTTTTTAAATTTTACAATTTT
* *
15397521 TCCCCTA-TTTTCAAATTTTACAATTTT
1 TCCCATATTTTTTAAATTTTACAATTTT
15397548 GTCTACAACT
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
25 13 0.14
26 10 0.11
27 4 0.04
28 32 0.34
29 10 0.11
30 12 0.13
31 13 0.14
ACGTcount: A:0.26, C:0.16, G:0.03, T:0.55
Consensus pattern (28 bp):
TCCCATATTTTTTAAATTTTACAATTTT
Found at i:15397537 original size:25 final size:27
Alignment explanation
Indices: 15397490--15397539 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
15397480 AGATTTTAAA
15397490 ATTTTACCCCTATTTTTCAAATTTTTC
1 ATTTTACCCCTATTTTTCAAATTTTTC
15397517 ATTTT-CCCCTA-TTTTCAAATTTT
1 ATTTTACCCCTATTTTTCAAATTTT
15397540 ACAATTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 12 0.52
26 6 0.26
27 5 0.22
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTTACCCCTATTTTTCAAATTTTTC
Found at i:15397874 original size:34 final size:34
Alignment explanation
Indices: 15397831--15397907 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
15397821 AAACATGACA
15397831 ATTTGCTACTA-AGTTGA-TATGCTATAAGCATATT
1 ATTTGCTACTATA-TTGAGT-TGCTATAAGCATATT
*
15397865 ATTTGCTACTATATTGAGTTGTTATAAGCATATT
1 ATTTGCTACTATATTGAGTTGCTATAAGCATATT
**
15397899 GGTTGCTAC
1 ATTTGCTAC
15397908 CGTATTGTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 36 0.95
35 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (34 bp):
ATTTGCTACTATATTGAGTTGCTATAAGCATATT
Found at i:15406495 original size:7 final size:7
Alignment explanation
Indices: 15406483--15406510 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
15406473 CTATCACCTT
15406483 ATAGCAA
1 ATAGCAA
15406490 ATAGCAA
1 ATAGCAA
15406497 ATAGCAA
1 ATAGCAA
15406504 ATAGCAA
1 ATAGCAA
15406511 CTTTTAAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (7 bp):
ATAGCAA
Found at i:15411156 original size:25 final size:25
Alignment explanation
Indices: 15411128--15411177 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
15411118 TCTTAGTTTC
15411128 GTGTAATAAGCCTATATCATTAACG
1 GTGTAATAAGCCTATATCATTAACG
15411153 GTGTAATAAGCCTATATCATTAACG
1 GTGTAATAAGCCTATATCATTAACG
15411178 ATAAGCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (25 bp):
GTGTAATAAGCCTATATCATTAACG
Found at i:15416768 original size:3 final size:3
Alignment explanation
Indices: 15416760--15416807 Score: 78
Period size: 3 Copynumber: 15.3 Consensus size: 3
15416750 ATACAGATTT
15416760 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA
15416807 A
1 A
15416808 AAATGTAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 38 0.88
4 4 0.09
5 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:15417036 original size:19 final size:18
Alignment explanation
Indices: 15416995--15417038 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
15416985 AGCATTGACA
15416995 ATAAT-AATAAAAATAAT
1 ATAATAAATAAAAATAAT
15417012 ATTAATAAATAAAAATAAT
1 A-TAATAAATAAAAATAAT
15417031 GATAATAA
1 -ATAATAA
15417039 CAAGGACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.04
18 4 0.17
19 18 0.75
20 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAATAAATAAAAATAAT
Found at i:15418327 original size:12 final size:12
Alignment explanation
Indices: 15418300--15418346 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
15418290 TAAACTATGG
*
15418300 TTTTTGTTTTGTT
1 TTTTTG-TTTGAT
15418313 TTTTTGTATT-AT
1 TTTTTGT-TTGAT
15418325 TTTTTGTTTGAT
1 TTTTTGTTTGAT
*
15418337 TTTTGGTTTG
1 TTTTTGTTTG
15418347 TGGGCCTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 2 0.07
12 20 0.67
13 8 0.27
ACGTcount: A:0.06, C:0.00, G:0.17, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTGAT
Found at i:15419605 original size:20 final size:19
Alignment explanation
Indices: 15419569--15419607 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15419559 AATATTTTTT
*
15419569 TATTTTTTTATTTTTAAAA
1 TATTTTTGTATTTTTAAAA
*
15419588 TATTTTTGTGTTTATTAAAA
1 TATTTTTGTATTT-TTAAAA
15419608 ATCGGGCCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTTGTATTTTTAAAA
Found at i:15420624 original size:10 final size:10
Alignment explanation
Indices: 15420609--15420680 Score: 63
Period size: 10 Copynumber: 6.9 Consensus size: 10
15420599 ATTTTTAAAT
15420609 AAATTTTTTA
1 AAATTTTTTA
15420619 AAATTTTTTA
1 AAATTTTTTA
**
15420629 ATAATTACTTA
1 A-AATTTTTTA
*
15420640 CAATTTTTTA
1 AAATTTTTTA
*
15420650 ATAATTATTTGA
1 A-AATT-TTTTA
*
15420662 AAGTTTTTTA
1 AAATTTTTTA
*
15420672 ATATTTTTT
1 AAATTTTTT
15420681 TTCTAATTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
10 29 0.60
11 14 0.29
12 5 0.10
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (10 bp):
AAATTTTTTA
Found at i:15420634 original size:21 final size:21
Alignment explanation
Indices: 15420598--15420733 Score: 105
Period size: 21 Copynumber: 6.4 Consensus size: 21
15420588 ACCGATTCAC
*
15420598 AATTTTTAAATAAATTTTTTAA
1 AATTTTTTAAT-AATTTTTTAA
** *
15420620 AATTTTTTAATAATTACTTAC
1 AATTTTTTAATAATTTTTTAA
*
15420641 AATTTTTTAATAATTATTTGAA
1 AATTTTTTAATAATT-TTTTAA
* * **
15420663 AGTTTTTTAATATTTTTTTTCT
1 AATTTTTTAATA-ATTTTTTAA
15420685 AA-TTTTTAATAA-TTTTTAA
1 AATTTTTTAATAATTTTTTAA
* * * * *
15420704 AAATTATAAATAATGTTTTAT
1 AATTTTTTAATAATTTTTTAA
15420725 AATTTTTTA
1 AATTTTTTA
15420734 CAACTTTAAA
Statistics
Matches: 86, Mismatches: 24, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
19 7 0.08
20 8 0.09
21 42 0.49
22 27 0.31
23 2 0.02
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTTTTTAATAATTTTTTAA
Found at i:15420644 original size:43 final size:41
Alignment explanation
Indices: 15420596--15420708 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 41
15420586 CCACCGATTC
*
15420596 ACAATTTTTAAATAAATTTTTTAAAATTTTTTAATAATTACTT
1 ACAATTTTT-AAT-AATTTTTAAAAATTTTTTAATAATTACTT
* * * **
15420639 ACAATTTTTTAATAATTATTTGAAAGTTTTTTAATATTTTTTT
1 ACAA-TTTTTAATAATT-TTTAAAAATTTTTTAATAATTACTT
*
15420682 TCTAATTTTTAATAATTTTTAAAAATT
1 AC-AATTTTTAATAATTTTTAAAAATT
15420709 ATAAATAATG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 12 0.20
43 40 0.68
44 7 0.12
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (41 bp):
ACAATTTTTAATAATTTTTAAAAATTTTTTAATAATTACTT
Found at i:15420690 original size:10 final size:10
Alignment explanation
Indices: 15420684--15420771 Score: 56
Period size: 10 Copynumber: 8.9 Consensus size: 10
15420674 ATTTTTTTTC
15420684 TAATTTTTAA
1 TAATTTTTAA
15420694 TAATTTTTAA
1 TAATTTTTAA
* * *
15420704 AAATTATAAA
1 TAATTTTTAA
15420714 TAATGTTTT-A
1 TAAT-TTTTAA
*
15420724 TAATTTTTTA
1 TAATTTTTAA
* *
15420734 CAA-CTTTAA
1 TAATTTTTAA
*
15420743 AATATTTTTAA
1 TA-ATTTTTAA
* *
15420754 CAATATTTAA
1 TAATTTTTAA
15420764 T-ATTTTTA
1 TAATTTTTA
15420772 CAATTTTTTG
Statistics
Matches: 59, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
9 15 0.25
10 36 0.61
11 8 0.14
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:15420752 original size:19 final size:18
Alignment explanation
Indices: 15420728--15420775 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
15420718 GTTTTATAAT
15420728 TTTTTACAACT-TTAAAATA
1 TTTTTACAA-TATT-AAATA
*
15420747 TTTTTAACAATATTTAATA
1 TTTTT-ACAATATTAAATA
15420766 TTTTTACAAT
1 TTTTTACAAT
15420776 TTTTTGATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 15 0.58
20 6 0.23
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTTTACAATATTAAATA
Found at i:15425045 original size:44 final size:44
Alignment explanation
Indices: 15424964--15425050 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
15424954 CTCTGTTGCG
* *
15424964 ATTGACCTCTACAAGGGTGCACACAAGGGAGTTTATGAAAACAA
1 ATTGACCTCCACAAGGGTGCACACAAGGGAGTCTATGAAAACAA
* * *
15425008 ATTGGCCTCCACAATGGTGCACTCAAGGGAGTCTATGAAAACA
1 ATTGACCTCCACAAGGGTGCACACAAGGGAGTCTATGAAAACA
15425051 GACATGCCCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (44 bp):
ATTGACCTCCACAAGGGTGCACACAAGGGAGTCTATGAAAACAA
Found at i:15438204 original size:30 final size:30
Alignment explanation
Indices: 15438168--15438225 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
15438158 ATTCGATTCA
15438168 TTATATTTGGAAAATAAAACATTTTTATCC
1 TTATATTTGGAAAATAAAACATTTTTATCC
15438198 TTATATTTGGAAAATAAAACATTTTTAT
1 TTATATTTGGAAAATAAAACATTTTTAT
15438226 TCTTTTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (30 bp):
TTATATTTGGAAAATAAAACATTTTTATCC
Found at i:15440997 original size:19 final size:17
Alignment explanation
Indices: 15440952--15440992 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
15440942 AAAGAAGTAT
15440952 GAGAAGAAATATAGAGA
1 GAGAAGAAATATAGAGA
*
15440969 GAGAAGAAATATGGAGA
1 GAGAAGAAATATAGAGA
15440986 GAGAAGA
1 GAGAAGA
15440993 GAAATTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.34, T:0.10
Consensus pattern (17 bp):
GAGAAGAAATATAGAGA
Found at i:15441528 original size:15 final size:16
Alignment explanation
Indices: 15441508--15441576 Score: 56
Period size: 15 Copynumber: 4.3 Consensus size: 16
15441498 ATTTTTGTAT
15441508 TATTTTAATA-TTAAA
1 TATTTTAATAGTTAAA
15441523 TATTTTAA-AGTTAAA
1 TATTTTAATAGTTAAA
* *
15441538 TAATATTAATA--TAAC
1 T-ATTTTAATAGTTAAA
15441553 TGATTTTAAATTAGTTAAA
1 T-ATTTT-AA-TAGTTAAA
15441572 TATTT
1 TATTT
15441577 CTAAAAGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
14 1 0.02
15 22 0.52
16 8 0.19
17 3 0.07
18 4 0.10
19 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (16 bp):
TATTTTAATAGTTAAA
Found at i:15441638 original size:23 final size:22
Alignment explanation
Indices: 15441624--15441670 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 22
15441614 ATTAACGAGT
15441624 TTTTAAAAAATTTATTAAAAAA
1 TTTTAAAAAATTTATTAAAAAA
15441646 TTTTAAAAAATATTATTATAAAAA
1 TTTTAAAAAAT-TTATTA-AAAAA
15441670 T
1 T
15441671 ATTATGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.48
23 6 0.26
24 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAAAATTTATTAAAAAA
Found at i:15441643 original size:12 final size:13
Alignment explanation
Indices: 15441626--15441675 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 13
15441616 TAACGAGTTT
15441626 TTAAAAAAT-TTA
1 TTAAAAAATATTA
15441638 TT-AAAAA-ATT-
1 TTAAAAAATATTA
15441648 TTAAAAAATATTA
1 TTAAAAAATATTA
15441661 TTATAAAAATATTA
1 TTA-AAAAATATTA
15441675 T
1 T
15441676 GAATTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.06
11 12 0.36
12 5 0.15
13 3 0.09
14 11 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TTAAAAAATATTA
Found at i:15441670 original size:14 final size:14
Alignment explanation
Indices: 15441639--15441675 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
15441629 AAAAATTTAT
15441639 TAAAAA-ATT-TTA
1 TAAAAATATTATTA
15441651 -AAAAATATTATTA
1 TAAAAATATTATTA
15441664 TAAAAATATTAT
1 TAAAAATATTAT
15441676 GAATTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.23
12 3 0.14
13 3 0.14
14 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAAATATTATTA
Found at i:15443194 original size:67 final size:69
Alignment explanation
Indices: 15443110--15443249 Score: 248
Period size: 67 Copynumber: 2.1 Consensus size: 69
15443100 TGTCTGAATT
*
15443110 TTTTCTTTATAACTTTTTATATGTTAAATATTAATTCGATTTTAAATAAATTAT-TTTTTATTTT
1 TTTTCTTTATAACTTTTTATATGTTAAATATTAACTCGATTTTAAATAAATTATGTTTTTATTTT
15443174 AATA
66 AATA
*
15443178 TTTT-TTTATAATTTTTTATATGTTAAATATTAACTCGATTTTAAATAAATTATGTTTTTATTTT
1 TTTTCTTTATAACTTTTTATATGTTAAATATTAACTCGATTTTAAATAAATTATGTTTTTATTTT
15443242 AATA
66 AATA
15443246 TTTT
1 TTTT
15443250 ACTTACTTGA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
67 47 0.68
68 22 0.32
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (69 bp):
TTTTCTTTATAACTTTTTATATGTTAAATATTAACTCGATTTTAAATAAATTATGTTTTTATTTT
AATA
Found at i:15443318 original size:15 final size:16
Alignment explanation
Indices: 15443277--15443324 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
15443267 TTTAATTTTA
15443277 TAATATTAAAATTAAT
1 TAATATTAAAATTAAT
*
15443293 AAATATT-AAATT-AT
1 TAATATTAAAATTAAT
*
15443307 TAATCTTAAAATATAAT
1 TAATATTAAAAT-TAAT
15443324 T
1 T
15443325 TAAGAAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.27
15 9 0.35
16 7 0.27
17 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATATTAAAATTAAT
Found at i:15445308 original size:63 final size:63
Alignment explanation
Indices: 15445195--15445351 Score: 154
Period size: 63 Copynumber: 2.5 Consensus size: 63
15445185 GACCGTATGA
* * * * * *
15445195 CAGGTCGTGTAACACACTTTTTATGATTTAGGGTAACACAGGCCAGGGACAC-GAGCATGTGTC
1 CAGGTCGTGTAACTCACTGTTTATGATTTAGGCTAACACAGGACAAGGACACAGA-CATGTCTC
* * ** *
15445258 CAGGTCGTGTAACTCAGTGTTTATGATTTAGGCTCACATGGGATAAGGACACAGACATGTCTC
1 CAGGTCGTGTAACTCACTGTTTATGATTTAGGCTAACACAGGACAAGGACACAGACATGTCTC
* * * * *
15445321 TAAGCCGTGTAACTCACTGTTTGTGAATTAG
1 CAGGTCGTGTAACTCACTGTTTATGATTTAG
15445352 TGTCACACGA
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
63 74 0.97
64 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (63 bp):
CAGGTCGTGTAACTCACTGTTTATGATTTAGGCTAACACAGGACAAGGACACAGACATGTCTC
Found at i:15451383 original size:21 final size:22
Alignment explanation
Indices: 15451342--15451384 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15451332 TAATCTATTT
**
15451342 TGCATCTATATCTGATTTGTTA
1 TGCATCTATATCTGAGCTGTTA
15451364 TGCATCT-TATCTGAGCTGTTA
1 TGCATCTATATCTGAGCTGTTA
15451385 CGATAATACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (22 bp):
TGCATCTATATCTGAGCTGTTA
Found at i:15453082 original size:48 final size:48
Alignment explanation
Indices: 15453011--15453108 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
15453001 ATAAGGTCAT
15453011 TTCCAAGCCTTATTTCTCACCCAATCTTGTCTTCCAACTACATTAACA
1 TTCCAAGCCTTATTTCTCACCCAATCTTGTCTTCCAACTACATTAACA
*
15453059 TTCCAAGCCTTATTTCTCACCCAATCTTGTCTTCCACCTACATTAACA
1 TTCCAAGCCTTATTTCTCACCCAATCTTGTCTTCCAACTACATTAACA
15453107 TT
1 TT
15453109 TAAACAAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.26, C:0.34, G:0.04, T:0.37
Consensus pattern (48 bp):
TTCCAAGCCTTATTTCTCACCCAATCTTGTCTTCCAACTACATTAACA
Found at i:15454135 original size:23 final size:25
Alignment explanation
Indices: 15454074--15454178 Score: 81
Period size: 25 Copynumber: 4.2 Consensus size: 25
15454064 ATTAATCAAT
*
15454074 AAGCTCCGGATAGCCATATATCGGG
1 AAGCTCCGGAGAGCCATATATCGGG
* ** *
15454099 AAGTTCAAGTGAGCCATAT-T-GGG
1 AAGCTCCGGAGAGCCATATATCGGG
*
15454122 AAGCTCCGGAGAGCCAT-TAATCAGG
1 AAGCTCCGGAGAGCCATAT-ATCGGG
** *
15454147 AAGCTCACAAAGAGCCATATATCTGG
1 AAGCTC-CGGAGAGCCATATATCGGG
*
15454173 ACGCTC
1 AAGCTC
15454179 ATAAGAGCTA
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
22 1 0.02
23 16 0.26
24 2 0.03
25 22 0.36
26 19 0.31
27 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (25 bp):
AAGCTCCGGAGAGCCATATATCGGG
Found at i:15454151 original size:25 final size:24
Alignment explanation
Indices: 15454052--15454152 Score: 69
Period size: 25 Copynumber: 4.1 Consensus size: 24
15454042 TAACAGGTAT
* **
15454052 CTCCGAAGAGCCATTAATCAATAAG
1 CTCCGGAGAGCCA-TAATCAGGAAG
* *
15454077 CTCCGGATAGCCATATATCGGGAAG
1 CTCCGGAGAGCCATA-ATCAGGAAG
* ** * **
15454102 TTCAAGTGAGCCAT-ATTGGGAAG
1 CTCCGGAGAGCCATAATCAGGAAG
15454125 CTCCGGAGAGCCATTAATCAGGAAG
1 CTCCGGAGAGCCA-TAATCAGGAAG
15454150 CTC
1 CTC
15454153 ACAAAGAGCC
Statistics
Matches: 56, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
23 17 0.30
24 3 0.05
25 36 0.64
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (24 bp):
CTCCGGAGAGCCATAATCAGGAAG
Found at i:15458890 original size:22 final size:23
Alignment explanation
Indices: 15458859--15458914 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 23
15458849 ATTGTAATTA
15458859 TTTTTAAAAT-TTTATTAACTATG
1 TTTTTAAAATGTTT-TTAACTATG
*
15458882 TTTTT-AAATGTTTTTAATTATG
1 TTTTTAAAATGTTTTTAACTATG
15458904 TTTTTGAAAAT
1 TTTTT-AAAAT
15458915 TCATAATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 17 0.59
23 8 0.28
24 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
TTTTTAAAATGTTTTTAACTATG
Found at i:15458894 original size:10 final size:11
Alignment explanation
Indices: 15458859--15458908 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
15458849 ATTGTAATTA
*
15458859 TTTTTAAAAT-
1 TTTTTAATATG
15458869 TTTATTAACTATG
1 TTT-TTAA-TATG
15458882 TTTTTAA-ATG
1 TTTTTAATATG
15458892 TTTTTAATTATG
1 TTTTTAA-TATG
15458904 TTTTT
1 TTTTT
15458909 GAAAATTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 13 0.38
11 4 0.12
12 14 0.41
13 3 0.09
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (11 bp):
TTTTTAATATG
Found at i:15460159 original size:10 final size:9
Alignment explanation
Indices: 15460090--15460157 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
15460080 TTAATTTTTT
15460090 AAATATAAA
1 AAATATAAA
*
15460099 AAATTTGAAA
1 AAATAT-AAA
*
15460109 AAAGCATAAA
1 AAA-TATAAA
* * *
15460119 AATTATTAC
1 AAATATAAA
*
15460128 AAATTTAAA
1 AAATATAAA
*
15460137 AAGTATAAA
1 AAATATAAA
15460146 AAATATAAA
1 AAATATAAA
15460155 AAA
1 AAA
15460158 ATTAATAGTT
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
9 31 0.72
10 11 0.26
11 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (9 bp):
AAATATAAA
Found at i:15460505 original size:31 final size:32
Alignment explanation
Indices: 15460440--15460513 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
15460430 AAAAACCACC
*
15460440 ATTTTATCTTATCATCCCCTAAAATTTTACAA
1 ATTTTATTTTATCATCCCCTAAAATTTTACAA
* *
15460472 ATTTTATTTTATC-TCCCTTAAAAGTTTT-TAA
1 ATTTTATTTTATCATCCCCTAAAA-TTTTACAA
*
15460503 ATTTAATTTTA
1 ATTTTATTTTA
15460514 GCTCATTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 21 0.57
32 16 0.43
ACGTcount: A:0.32, C:0.15, G:0.01, T:0.51
Consensus pattern (32 bp):
ATTTTATTTTATCATCCCCTAAAATTTTACAA
Found at i:15461773 original size:23 final size:22
Alignment explanation
Indices: 15461747--15461802 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
15461737 TCAATATTAT
* * *
15461747 TTTATAGTTTTCAAATCTTAAAA
1 TTTATATTTTTCAAACCAT-AAA
*
15461770 TTTACATTTTTCAAACCATAAA
1 TTTATATTTTTCAAACCATAAA
15461792 TTTATATTTTT
1 TTTATATTTTT
15461803 TCATAGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTATATTTTTCAAACCATAAA
Found at i:15464658 original size:17 final size:17
Alignment explanation
Indices: 15464636--15464671 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15464626 CATACCTCAA
15464636 TCTACCAAACCATCTTT
1 TCTACCAAACCATCTTT
15464653 TCTACCAAACCATCTTT
1 TCTACCAAACCATCTTT
15464670 TC
1 TC
15464672 CCATTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (17 bp):
TCTACCAAACCATCTTT
Found at i:15470950 original size:20 final size:20
Alignment explanation
Indices: 15470925--15470967 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
15470915 TACATAGGCT
15470925 ACTCTGTAGATTGTTGTTGA
1 ACTCTGTAGATTGTTGTTGA
15470945 ACTCTGTAGATTGTTGTTGA
1 ACTCTGTAGATTGTTGTTGA
15470965 ACT
1 ACT
15470968 TAATAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (20 bp):
ACTCTGTAGATTGTTGTTGA
Found at i:15470989 original size:24 final size:23
Alignment explanation
Indices: 15470962--15471006 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
15470952 AGATTGTTGT
15470962 TGAA-CTTAATAAATCATTTGTGAA
1 TGAATCTTAA-AAA-CATTTGTGAA
*
15470986 TGAATGTTAAAAACATTTGTG
1 TGAATCTTAAAAACATTTGTG
15471007 TCAGATTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 7 0.37
25 4 0.21
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (23 bp):
TGAATCTTAAAAACATTTGTGAA
Found at i:15473631 original size:21 final size:21
Alignment explanation
Indices: 15473607--15473649 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15473597 AAAACTCAAT
* *
15473607 ATTCTTTAAAAATATAAAAAA
1 ATTCATTAAAAATACAAAAAA
15473628 ATTCATTAAAAATACAAAAAA
1 ATTCATTAAAAATACAAAAAA
15473649 A
1 A
15473650 CCCTAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
ATTCATTAAAAATACAAAAAA
Found at i:15476863 original size:24 final size:24
Alignment explanation
Indices: 15476818--15476863 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
15476808 TATATGAAAT
* * *
15476818 ATAAATTTTAAATGTTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
15476842 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
15476864 TTTTAATTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:15477447 original size:20 final size:21
Alignment explanation
Indices: 15477407--15477446 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15477397 CTTAAATTTA
15477407 TTTACGATTTATCTCTAAAAT
1 TTTACGATTTATCTCTAAAAT
* *
15477428 TTTAGGATTTATTTCTAAA
1 TTTACGATTTATCTCTAAA
15477447 TCTACTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTACGATTTATCTCTAAAAT
Found at i:15480043 original size:31 final size:31
Alignment explanation
Indices: 15480005--15480079 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
15479995 TGATTATTGA
15480005 GTAAGTTTTACTGTTACTTTCCTCTCATTTT
1 GTAAGTTTTACTGTTACTTTCCTCTCATTTT
*
15480036 GTAAGTTTTACTATTACTTTCCTCTCATTTT
1 GTAAGTTTTACTGTTACTTTCCTCTCATTTT
* *
15480067 GTGAGTTTCACTG
1 GTAAGTTTTACTG
15480080 AGTTAACGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.17, C:0.19, G:0.12, T:0.52
Consensus pattern (31 bp):
GTAAGTTTTACTGTTACTTTCCTCTCATTTT
Found at i:15480714 original size:42 final size:42
Alignment explanation
Indices: 15480667--15480750 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
15480657 AGCATACGAA
* * * * *
15480667 CGTGTGCCCAAGCTGTGTGAGTCACACGAGTAAGGATATGGT
1 CGTGTGCCCAAGCCGTGTGAGCCACACAAGCAAGGACATGGT
*
15480709 CGTGTGCCCAGGCCGTGTGAGCCACACAAGCAAGGACATGGT
1 CGTGTGCCCAAGCCGTGTGAGCCACACAAGCAAGGACATGGT
15480751 TGTATGTCCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.19
Consensus pattern (42 bp):
CGTGTGCCCAAGCCGTGTGAGCCACACAAGCAAGGACATGGT
Found at i:15483295 original size:10 final size:10
Alignment explanation
Indices: 15483280--15483328 Score: 98
Period size: 10 Copynumber: 4.9 Consensus size: 10
15483270 ATTAAAAAAT
15483280 AGGCCGGGCG
1 AGGCCGGGCG
15483290 AGGCCGGGCG
1 AGGCCGGGCG
15483300 AGGCCGGGCG
1 AGGCCGGGCG
15483310 AGGCCGGGCG
1 AGGCCGGGCG
15483320 AGGCCGGGC
1 AGGCCGGGC
15483329 TCGGGCTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 39 1.00
ACGTcount: A:0.10, C:0.31, G:0.59, T:0.00
Consensus pattern (10 bp):
AGGCCGGGCG
Found at i:15488961 original size:11 final size:11
Alignment explanation
Indices: 15488945--15488983 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
15488935 GATAAATATA
15488945 TATAAATTAAT
1 TATAAATTAAT
*
15488956 TATAAAGTATAT
1 TATAAATTA-AT
15488968 TATTAAATTAAT
1 TA-TAAATTAAT
15488980 TATA
1 TATA
15488984 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:15488974 original size:24 final size:21
Alignment explanation
Indices: 15488936--15488983 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 21
15488926 ATTTATTTAG
15488936 ATAAATATATATAAATTAATT
1 ATAAATATATATAAATTAATT
15488957 ATAAAGTATATTATTAAATTAATT
1 ATAAA-TATA-TA-TAAATTAATT
15488981 ATA
1 ATA
15488984 TTATAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 2 0.08
24 13 0.54
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAAATATATATAAATTAATT
Found at i:15489163 original size:14 final size:14
Alignment explanation
Indices: 15489144--15489187 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
15489134 TTAAATTAGT
15489144 AAACAAATA-AAAGA
1 AAACAAA-AGAAAGA
15489158 AAACAAAAGAAAG-
1 AAACAAAAGAAAGA
15489171 AAACAAAAAGAAAGA
1 AAAC-AAAAGAAAGA
15489186 AA
1 AA
15489188 GAACAGAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.19
14 20 0.74
15 2 0.07
ACGTcount: A:0.80, C:0.07, G:0.11, T:0.02
Consensus pattern (14 bp):
AAACAAAAGAAAGA
Found at i:15490202 original size:24 final size:25
Alignment explanation
Indices: 15490149--15490201 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
15490139 TTTAATGCCT
15490149 TATTGGTGTGTTGGGAGGATATGATA
1 TATTGGTGTGTTGGGAGGATAT-ATA
* *
15490175 TATTGGTGTGTTATGGAGGATTTATA
1 TATTGGTGTGTT-GGGAGGATATATA
15490201 T
1 T
15490202 TTATTTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (25 bp):
TATTGGTGTGTTGGGAGGATATATA
Found at i:15493865 original size:10 final size:10
Alignment explanation
Indices: 15493850--15493901 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
15493840 ATTTGAATTT
*
15493850 TTTTTTACAA
1 TTTTTTATAA
15493860 TTTTTTAGT-A
1 TTTTTTA-TAA
15493870 TTTTTTATAA
1 TTTTTTATAA
*
15493880 -TTTCTA-AA
1 TTTTTTATAA
15493888 TTTTTTATAA
1 TTTTTTATAA
15493898 TTTT
1 TTTT
15493902 GAACTCATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
8 2 0.06
9 11 0.31
10 22 0.63
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:15494376 original size:25 final size:24
Alignment explanation
Indices: 15494331--15494380 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
15494321 TTAAAATCAG
15494331 GAAATAAATAATTTTCAAAATTTA
1 GAAATAAATAATTTTCAAAATTTA
* *
15494355 GAAATAACATAACTTTTTAAATTTTA
1 GAAATAA-ATAA-TTTTCAAAATTTA
15494381 TTTAATTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 4 0.18
26 11 0.50
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
GAAATAAATAATTTTCAAAATTTA
Found at i:15495456 original size:99 final size:100
Alignment explanation
Indices: 15495299--15495499 Score: 316
Period size: 99 Copynumber: 2.0 Consensus size: 100
15495289 AGTTAAAAAT
*
15495299 AAAATATATTTAACATAATGGTAAATATAAATATATATAATTTCATTATATAATTACATATTTAT
1 AAAATATATTTAACATAATGATAAATATAAATATATATAATTTCATTATATAATTACATATTTAT
15495364 TATTTTATTTATATAAATAAAAGA-ATTATTAATTA
66 TATTTTATTTATATAAATAAAAGATATT-TTAATTA
* * * * *
15495399 AAAATATTTTTAACATAATGATATATATAAA-ATATATATTTTTATTATATAGTTACATATTTAT
1 AAAATATATTTAACATAATGATAAATATAAATATATATAATTTCATTATATAATTACATATTTAT
*
15495463 TATTTTATTTATATAAATAAAAGATATTTTGATTA
66 TATTTTATTTATATAAATAAAAGATATTTTAATTA
15495498 AA
1 AA
15495500 CATTTGAAGA
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
99 62 0.67
100 31 0.33
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (100 bp):
AAAATATATTTAACATAATGATAAATATAAATATATATAATTTCATTATATAATTACATATTTAT
TATTTTATTTATATAAATAAAAGATATTTTAATTA
Found at i:15499945 original size:21 final size:21
Alignment explanation
Indices: 15499919--15499959 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15499909 ATCTGCTCAA
* *
15499919 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
15499940 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
15499960 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:15506075 original size:23 final size:24
Alignment explanation
Indices: 15506041--15506092 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
15506031 GTTAGTGTAT
*
15506041 TTAGT-TAGTTGGTTATT-TTTTA
1 TTAGTATAATTGGTTATTATTTTA
15506063 TTAGTATAATTGGTTATTATTTTA
1 TTAGTATAATTGGTTATTATTTTA
*
15506087 GTAGTA
1 TTAGTA
15506093 ATTTATTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 11 0.42
24 10 0.38
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (24 bp):
TTAGTATAATTGGTTATTATTTTA
Found at i:15507983 original size:50 final size:50
Alignment explanation
Indices: 15507925--15508213 Score: 303
Period size: 50 Copynumber: 5.8 Consensus size: 50
15507915 ATTTGGGTAA
* *
15507925 AGAGGTCCCATGTAAGACCATGTATGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
15507975 AGAGGTCCCATGTAAGACCATGTTTGGGACATGACGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
15508025 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * ** * * * * *
15508075 ATTGATCCCCCGTAAGACCATGTTTGGGATATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * * *
15508125 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGTA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG
* ** * *
15508174 AAACATCCCATGTAAGACTATGTCTGGGACATGGCTTTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
15508214 TATGTTATTA
Statistics
Matches: 201, Mismatches: 37, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
48 1 0.00
49 36 0.18
50 164 0.82
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:15518040 original size:21 final size:19
Alignment explanation
Indices: 15518010--15518049 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
15518000 GTAACGAGGT
15518010 AAATTTTATATCACATTTTG
1 AAATTTTATAT-ACATTTTG
*
15518030 AAATTGTTATATAGATTTTG
1 AAATT-TTATATACATTTTG
15518050 TAAGAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (19 bp):
AAATTTTATATACATTTTG
Found at i:15519777 original size:29 final size:29
Alignment explanation
Indices: 15519722--15519776 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
15519712 CGCGGAAAAT
15519722 GGCCCATTCCGGTAAATAATTAAAAAACC
1 GGCCCATTCCGGTAAATAATTAAAAAACC
*
15519751 GGCCCATATCC-GT-AATTATTAAAAAA
1 GGCCCAT-TCCGGTAAATAATTAAAAAA
15519777 AGGGGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 12 0.50
29 9 0.38
30 3 0.12
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.24
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATAATTAAAAAACC
Found at i:15528768 original size:156 final size:157
Alignment explanation
Indices: 15528562--15528876 Score: 535
Period size: 157 Copynumber: 2.0 Consensus size: 157
15528552 AAAGTGAAAA
* * *
15528562 TCTTAAAAATCTAAAACATTTAAAAACTTTAGAAAATTATTTATAT-AAAAAACCTGTAAACTAA
1 TCTTAAAAATCTAAAAAATTTAAAAACTGTAGAAAATTATATATATAAAAAAACCTGTAAACTAA
*
15528626 AATAAAAACCTATTCCCTTTTGCCCCCAATAAAAACCCAGATTTTTCTTGGCACAAAAAGCTCTT
66 AATAAAAACCAATTCCCTTTTGCCCCCAATAAAAACCCAGATTTTTCTTGGCACAAAAAGCTCTT
*
15528691 GAAGCAACTTGGTTTGTGAGATTTTGT
131 GAAGCAACTTGGTTTGTAAGATTTTGT
*
15528718 TCTTAAAAATCTAAAAAATTT-AAAACTGTAGAAAATTATATATATAAAAAAAACTTGTAAACTA
1 TCTTAAAAATCTAAAAAATTTAAAAACTGTAGAAAATTATATATAT-AAAAAAACCTGTAAACTA
* *
15528782 AAATAAAAACCAATTCCTTTTTGCCCCCAATAAAAATCCAGATTTTTCTTGGCACAAAAAGCTCT
65 AAATAAAAACCAATTCCCTTTTGCCCCCAATAAAAACCCAGATTTTTCTTGGCACAAAAAGCTCT
15528847 TGAAGCAACTTGGTTTGTAAGATTTTGT
130 TGAAGCAACTTGGTTTGTAAGATTTTGT
15528875 TC
1 TC
15528877 ATTTGTAATT
Statistics
Matches: 149, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
155 22 0.15
156 20 0.13
157 107 0.72
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.33
Consensus pattern (157 bp):
TCTTAAAAATCTAAAAAATTTAAAAACTGTAGAAAATTATATATATAAAAAAACCTGTAAACTAA
AATAAAAACCAATTCCCTTTTGCCCCCAATAAAAACCCAGATTTTTCTTGGCACAAAAAGCTCTT
GAAGCAACTTGGTTTGTAAGATTTTGT
Found at i:15529969 original size:17 final size:17
Alignment explanation
Indices: 15529947--15529979 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15529937 TATTTAATTC
15529947 TTTTAATAT-ATTATATA
1 TTTTAA-ATCATTATATA
15529964 TTTTAAATCATTATAT
1 TTTTAAATCATTATAT
15529980 GTATAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATCATTATATA
Found at i:15530004 original size:26 final size:25
Alignment explanation
Indices: 15529975--15530035 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
15529965 TTTAAATCAT
*
15529975 TATATGTATAAAC-TCTTTTAGATTCC
1 TATATGTATAAACAT-TTTTAGAAT-C
* * *
15530001 TATATATATATACATTTTTATAATC
1 TATATGTATAAACATTTTTAGAATC
15530026 TATATGTATA
1 TATATGTATA
15530036 CACGCATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 10 0.34
26 18 0.62
27 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (25 bp):
TATATGTATAAACATTTTTAGAATC
Found at i:15530131 original size:16 final size:16
Alignment explanation
Indices: 15530112--15530182 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
15530102 TATACATATC
15530112 TATACATATATATCTA
1 TATACATATATATCTA
* * *
15530128 TATACATTTTTTTCTA
1 TATACATATATATCTA
* * *
15530144 TATACATTTTTTTCTA
1 TATACATATATATCTA
*
15530160 TATAGATATATATCTA
1 TATACATATATATCTA
15530176 TATACAT
1 TATACAT
15530183 TTTTTTCTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.35, C:0.11, G:0.01, T:0.52
Consensus pattern (16 bp):
TATACATATATATCTA
Found at i:15530155 original size:18 final size:16
Alignment explanation
Indices: 15530124--15530190 Score: 98
Period size: 16 Copynumber: 4.2 Consensus size: 16
15530114 TACATATATA
15530124 TCTATATACATTTTTT
1 TCTATATACATTTTTT
15530140 TCTATATACATTTTTT
1 TCTATATACATTTTTT
* * * *
15530156 TCTATATAGATATATA
1 TCTATATACATTTTTT
15530172 TCTATATACATTTTTT
1 TCTATATACATTTTTT
15530188 TCT
1 TCT
15530191 TCCTGTTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.28, C:0.12, G:0.01, T:0.58
Consensus pattern (16 bp):
TCTATATACATTTTTT
Found at i:15531933 original size:27 final size:27
Alignment explanation
Indices: 15531914--15531969 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
15531904 ATAGGTGTCT
15531914 TTATGAATAAATAAAAAATAATAATAA
1 TTATGAATAAATAAAAAATAATAATAA
*
15531941 TTATGAATAAATAAAAAATAATAACAA
1 TTATGAATAAATAAAAAATAATAATAA
15531968 TT
1 TT
15531970 CATTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (27 bp):
TTATGAATAAATAAAAAATAATAATAA
Found at i:15535886 original size:26 final size:24
Alignment explanation
Indices: 15535838--15535888 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
15535828 TTTAAAATAC
* *
15535838 TTTTAAAATATTTTTATTTTTTAT
1 TTTTAAAATATTTTTAATGTTTAT
15535862 TTTTAAAATAATTTTTTAATGTTTAT
1 TTTTAAAAT-A-TTTTTAATGTTTAT
15535888 T
1 T
15535889 AAAAAATGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTAAAATATTTTTAATGTTTAT
Found at i:15544314 original size:20 final size:20
Alignment explanation
Indices: 15544286--15544347 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
15544276 TTTTAAAAGA
* *
15544286 TATAAAAAATGTATGTATAT
1 TATAGAAAATGTATATATAT
*
15544306 TATAGAAAATGTATAAATAT
1 TATAGAAAATGTATATATAT
*
15544326 TAT-G-AAATGTATATATAC
1 TATAGAAAATGTATATATAT
15544344 TATA
1 TATA
15544348 AAATACATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.42
19 1 0.03
20 20 0.56
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TATAGAAAATGTATATATAT
Found at i:15544351 original size:18 final size:18
Alignment explanation
Indices: 15544291--15544351 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
15544281 AAAGATATAA
*
15544291 AAAATGTATGTATATTAT
1 AAAATGTATATATATTAT
*
15544309 AGAAAATGTATAAATATTAT
1 --AAAATGTATATATATTAT
* *
15544329 GAAATGTATATATACTAT
1 AAAATGTATATATATTAT
15544347 AAAAT
1 AAAAT
15544352 ACATATGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 19 0.54
20 16 0.46
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.38
Consensus pattern (18 bp):
AAAATGTATATATATTAT
Found at i:15546359 original size:107 final size:107
Alignment explanation
Indices: 15546173--15546388 Score: 362
Period size: 107 Copynumber: 2.0 Consensus size: 107
15546163 GTCTAGAGAG
*
15546173 ATAGAGTTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGATAAAATCCGCCATCCTTAAT
1 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGATAAAATCCGCCATCCTTAAT
* *
15546238 CTGCTCCACTACTGCTGAGGGAGATAATATCTGTAATCTTCA
66 CTGCTCCACTACTGCTGAGGGAGATAAGATCCGTAATCTTCA
* *
15546280 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT-CTTCGA
1 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGATAAAATCCGCCATCCTT-AA
*
15546344 TCTGCTCCACTACTGCTTAGGGAGATAAGATCCGTAATCTTCA
65 TCTGCTCCACTACTGCTGAGGGAGATAAGATCCGTAATCTTCA
15546387 AT
1 AT
15546389 CTATTCCACT
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
106 3 0.03
107 99 0.97
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (107 bp):
ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGATAAAATCCGCCATCCTTAAT
CTGCTCCACTACTGCTGAGGGAGATAAGATCCGTAATCTTCA
Found at i:15546377 original size:44 final size:44
Alignment explanation
Indices: 15546317--15546546 Score: 122
Period size: 44 Copynumber: 5.2 Consensus size: 44
15546307 ACTGTAACCT
* * * * *
15546317 CAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT
1 CAGGGAGATAAAATCCGCAATCTTCAATCTACTCCACTACTGCC
* * * * *
15546361 TAGGGAGATAAGATCCGTAATCTTCAATCTATTCCACTGCTGCC
1 CAGGGAGATAAAATCCGCAATCTTCAATCTACTCCACTACTGCC
* ** *** * * *
15546405 CAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACT-GTAACC
1 CAGGGAGATAAAATCCGCAATCTTCAATCTACTCCACTACT-GCC
* * * * * * *
15546448 TCAGGGAGGTAAAATCTGCCATCCTCGATCTACTCTACTACTACC
1 -CAGGGAGATAAAATCCGCAATCTTCAATCTACTCCACTACTGCC
* * * * * * *
15546493 TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCGCTGCTGCC
1 CAGGGAGATAAAATCCGCAATCTTCAATCTACTCCACTACTGCC
*
15546537 TAGGGAGATA
1 CAGGGAGATA
15546547 GAATTACTGG
Statistics
Matches: 136, Mismatches: 46, Indels: 8
0.72 0.24 0.04
Matches are distributed among these distances:
42 1 0.01
43 17 0.12
44 99 0.73
45 18 0.13
46 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (44 bp):
CAGGGAGATAAAATCCGCAATCTTCAATCTACTCCACTACTGCC
Found at i:15546442 original size:43 final size:43
Alignment explanation
Indices: 15546382--15546587 Score: 127
Period size: 44 Copynumber: 4.7 Consensus size: 43
15546372 GATCCGTAAT
* *
15546382 CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGG
1 CTTCAATCTACTCCACTGCTACCCAGGGAGATAGAATTACTGG
* * * *
15546425 CTTCAATGTACTCCACTG-TAACCTCAGGGAGGTA-AAAT-CTGC
1 CTTCAATCTACTCCACTGCT-ACC-CAGGGAGATAGAATTACTGG
* * * * * *
15546467 CATCCTCGATCTACTCTACTACTACCTAGGGAGATAAGATCTGTAAT--
1 C-T--TCAATCTACTCCACTGCTACCCAGGGAGAT-AGA-AT-TACTGG
* * * *
15546514 CTTCAATCTATTCCGCTGCTGCCTAGGGAGATAGAATTACTGG
1 CTTCAATCTACTCCACTGCTACCCAGGGAGATAGAATTACTGG
*
15546557 CTTCAATGTACTCCACTG-TAACCCCAGGGAG
1 CTTCAATCTACTCCACTGCT-A-CCCAGGGAG
15546588 GTAAAATTTG
Statistics
Matches: 120, Mismatches: 28, Indels: 29
0.68 0.16 0.16
Matches are distributed among these distances:
41 3 0.03
42 7 0.06
43 40 0.33
44 48 0.40
45 16 0.13
46 3 0.03
47 1 0.01
48 1 0.01
49 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCTACCCAGGGAGATAGAATTACTGG
Found at i:15546517 original size:132 final size:132
Alignment explanation
Indices: 15546280--15546734 Score: 732
Period size: 132 Copynumber: 3.4 Consensus size: 132
15546270 GTAATCTTCA
*
15546280 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGAT
1 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGAT
*
15546345 CTGCTCCACTACTGCTTAGGGAGATAAGATCCGTAATCTTCAATCTATTCCACTGCTGCCCAGGG
66 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG
15546410 AG
131 AG
*
15546412 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCCTCGAT
1 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGAT
* * * * * *
15546477 CTACTCTACTACTACCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCGCTGCTGCCTAGGG
66 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG
15546542 AG
131 AG
* * *
15546544 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCCCAGGGAGGTAAAATTTGCCATCTTTGAT
1 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGAT
* * * *
15546609 CTGCTCCATTATTGCTTAGAGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAAGG
66 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG
15546674 AG
131 AG
* *
15546676 ATAGAATTATTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAAT-TCGCCATC
1 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCCATC
15546735 AACCTGCTCC
Statistics
Matches: 296, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 1 0.00
132 295 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGAT
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG
AG
Found at i:15548053 original size:7 final size:7
Alignment explanation
Indices: 15548034--15548077 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
15548024 TTAGCCTCTC
15548034 CATTTTT
1 CATTTTT
15548041 -ACTTTTT
1 CA-TTTTT
15548048 CATTTTT
1 CATTTTT
15548055 CA-TTTT
1 CATTTTT
15548061 CATCTTTT
1 CAT-TTTT
15548069 CATTTTT
1 CATTTTT
15548076 CA
1 CA
15548078 CATCACTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 7 0.21
7 18 0.55
8 8 0.24
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (7 bp):
CATTTTT
Found at i:15549052 original size:20 final size:20
Alignment explanation
Indices: 15549027--15549067 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
15549017 GGTTTGGCAG
15549027 AAAAAATC-TGAAAGAATGAA
1 AAAAAATCGT-AAAGAATGAA
15549047 AAAAAATCGTAAAGAATGAA
1 AAAAAATCGTAAAGAATGAA
15549067 A
1 A
15549068 GAACATTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.66, C:0.05, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAAAATCGTAAAGAATGAA
Found at i:15551020 original size:13 final size:13
Alignment explanation
Indices: 15551002--15551027 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15550992 ATGTTTAATT
15551002 TTTACTAGAAAAC
1 TTTACTAGAAAAC
15551015 TTTACTAGAAAAC
1 TTTACTAGAAAAC
15551028 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:15555084 original size:44 final size:44
Alignment explanation
Indices: 15555034--15555631 Score: 391
Period size: 44 Copynumber: 13.4 Consensus size: 44
15555024 ACCAATATAG
* * *
15555034 GAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * * * ***
15555078 GAAGACACGATCTGTTTTCTTCGACCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACAT
* *
15555123 GGAGACAAGATCTGCT-TCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * ***
15555166 GAAGACAAGATTTGCTTTCTTTGATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACAT
* *
15555211 GGAGACAAGATCTGTTGA-CTTTGATCTACTTCACGCC-GATACAT
1 GAAGACAAGATCTGCT-ATCTTTGATCTACTTCACGCCAG-TACAT
* * * * * ***
15555255 GAAGGCAAGATCTACTTTCTTTGATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACAT
* * * *
15555300 GGAGATAAGATCTGTTGA-CTTTGATCTACTTCACG-CTGATACAT
1 GAAGACAAGATCTGCT-ATCTTTGATCTACTTCACGCCAG-TACAT
* * * * * * * ***
15555344 GAAGACAATATCTACTTTCTTTCGATCTGCTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTT-GATCTACTTC-ACGCCAGTACAT
* * *
15555390 GAAGGCGAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * ***
15555434 GAAGACAAGATCTGCTTTTTCTTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGC--TATCTTT-GATCTACTTC-ACGCCAGTACAT
* *
15555482 GAAGGCGAGATCTG-TATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * * *
15555525 GAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAGTATAG
1 GAAGACAAGATCTGC--TAT-CTTTGATCTACTTC-ACGCCAGTACAT
* *
15555573 GAAGGCGAGATCTG-TATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
15555616 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
15555632 TTTTCCTTCG
Statistics
Matches: 402, Mismatches: 128, Indels: 48
0.70 0.22 0.08
Matches are distributed among these distances:
43 62 0.15
44 142 0.35
45 109 0.27
46 28 0.07
47 22 0.05
48 39 0.10
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:15555540 original size:91 final size:90
Alignment explanation
Indices: 15555049--15555694 Score: 812
Period size: 91 Copynumber: 7.2 Consensus size: 90
15555039 CAGGACCTAC
* * * * *
15555049 TATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTG-TTTTC-TTCGACCTACTCCAC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTTCGATCTGCTTCGC
* * *
15555112 CACCAGTATGGGGAGACAAGATCTG
66 CACCAGTATGGGAAGGCGAGATCTG
* * * * *
15555137 CT-TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGC-TTTCTTT-GATCTACTCCA
1 -TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTTCGATCTGCTTCG
* * *
15555199 CCACCAGTATGGGGAGACAAGATCTG
65 CCACCAGTATGGGAAGGCGAGATCTG
* * * *
15555225 T-TGACTTTGATCTACTTCACGCC-GATACATGAAGGCAAGATCTAC-TTTCTTT-GATCTACTC
1 TAT--CTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTTCTTTCGATCTGCTT
* * ***
15555286 CACCACCAGTATGGGGAGATAAGATCTG
63 CGCCACCAGTATGGGAAGGCGAGATCTG
* * *
15555314 T-TGACTTTGATCTACTTCACG-CTGATACATGAAGACAATATCTAC-TTTCTTTCGATCTGCTT
1 TAT--CTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTTCTTTCGATCTGCTT
*
15555376 CGCCACCAATATGGGAAGGCGAGATCTG
63 CGCCACCAGTATGGGAAGGCGAGATCTG
15555404 TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCTTTCGATCTGCTTC
1 -TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTTCTTTCGATCTGCTTC
15555469 GCCACCAGTATGGGAAGGCGAGATCTG
64 GCCACCAGTATGGGAAGGCGAGATCTG
*
15555496 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCG
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTTCTTTCGATCTGCTTCG
*
15555561 CCACCAGTATAGGAAGGCGAGATCTG
65 CCACCAGTATGGGAAGGCGAGATCTG
*
15555587 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCG
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTTCTTTCGATCTGCTTCG
15555652 CCACCAGTATGGGAAGGCGAGATCTG
65 CCACCAGTATGGGAAGGCGAGATCTG
*
15555678 TATATTTGATCTACTTC
1 TATCTTTGATCTACTTC
15555695 GCTACCAATA
Statistics
Matches: 518, Mismatches: 27, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
87 2 0.00
88 79 0.15
89 130 0.25
90 64 0.12
91 198 0.38
92 45 0.09
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (90 bp):
TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCTTTCGATCTGCTTCGC
CACCAGTATGGGAAGGCGAGATCTG
Found at i:15555933 original size:138 final size:138
Alignment explanation
Indices: 15555675--15555950 Score: 498
Period size: 138 Copynumber: 2.0 Consensus size: 138
15555665 AAGGCGAGAT
*
15555675 CTGTATATTTGATCTACTTCGCTACCAATATAGGAAGACAAGACCTGCTGCTTCTCAACCTGCTC
1 CTGTATATTTGATCTACTTCGCTACCAATATAGGAAGACAAGACCTGCTGCTTCTCAACCTACTC
*
15555740 AACTGTTGTTCAGGGAGATAAGGCTTTATGATTTCACCGATCTAAACTCTAGGGAACATGACCTG
66 AACTGTTGTCCAGGGAGATAAGGCTTTATGATTTCACCGATCTAAACTCTAGGGAACATGACCTG
15555805 TATAATTC
131 TATAATTC
15555813 CTGTATATTTGATCTACTTCGCTACCAATATAGGAAGACAAGACCTGCTGCTTCTCAACCTACTC
1 CTGTATATTTGATCTACTTCGCTACCAATATAGGAAGACAAGACCTGCTGCTTCTCAACCTACTC
*** *
15555878 AACTGTTGTCCAGGGAGATAAGGCTTTATGATTTCACCGATCTGTTCTCTGGGGAACATGACCTG
66 AACTGTTGTCCAGGGAGATAAGGCTTTATGATTTCACCGATCTAAACTCTAGGGAACATGACCTG
15555943 TATAATTC
131 TATAATTC
15555951 ACTTTATGAA
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 132 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (138 bp):
CTGTATATTTGATCTACTTCGCTACCAATATAGGAAGACAAGACCTGCTGCTTCTCAACCTACTC
AACTGTTGTCCAGGGAGATAAGGCTTTATGATTTCACCGATCTAAACTCTAGGGAACATGACCTG
TATAATTC
Found at i:15557186 original size:49 final size:47
Alignment explanation
Indices: 15557133--15557238 Score: 124
Period size: 47 Copynumber: 2.2 Consensus size: 47
15557123 CTTTGCGAGT
* * *
15557133 TTTCACCTTAGCCTCTCTATTTTTTTT-ACTCAAGGCTCCCTTTGTAGGG
1 TTTCACCTT-G-CTCTCT-TTTTTTTTGACTCAAAGCGCCCTTTGTAGGC
* * *
15557182 TTTCACCCTGGTGTCTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGC
1 TTTCACCTTGCTCTCTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGC
15557229 TTTCACCTTG
1 TTTCACCTTG
15557239 GTCCCACCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
46 8 0.16
47 32 0.65
48 1 0.02
49 8 0.16
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.44
Consensus pattern (47 bp):
TTTCACCTTGCTCTCTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGC
Found at i:15557221 original size:47 final size:46
Alignment explanation
Indices: 15557152--15557240 Score: 133
Period size: 47 Copynumber: 1.9 Consensus size: 46
15557142 AGCCTCTCTA
* * *
15557152 TTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTGTCT
1 TTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTGTCT
*
15557198 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGT
1 TTTTTTTT-ACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGT
15557241 CCCACCTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
46 8 0.21
47 30 0.79
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (46 bp):
TTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTGTCT
Found at i:15557251 original size:47 final size:47
Alignment explanation
Indices: 15557153--15557252 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 47
15557143 GCCTCTCTAT
* * * * ** ***
15557153 TTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTGTCTTT
1 TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
*
15557200 TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
15557247 TTTTTT
1 TTTTTT
15557253 AAGCAGAGTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.12, C:0.26, G:0.17, T:0.45
Consensus pattern (47 bp):
TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
Found at i:15563219 original size:20 final size:20
Alignment explanation
Indices: 15563190--15563250 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
15563180 TTTTAAAAGA
*
15563190 TATA-AAAATGTATGTATAT
1 TATAGAAAATGTATATATAT
*
15563209 TATAGAAAATGTATAAATAT
1 TATAGAAAATGTATATATAT
*
15563229 TAT-G-AAATGTATATATAC
1 TATAGAAAATGTATATATAT
15563247 TATA
1 TATA
15563251 AAATACATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 15 0.42
19 5 0.14
20 16 0.44
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TATAGAAAATGTATATATAT
Done.