Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 183 of 228
Found at i:54518758 original size:14 final size:14
Alignment explanation
Indices: 54518718--54518758 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
54518708 CCCTAAATCC
* *
54518718 CTAACTCTTAACAT
1 CTAACCCTTAACCT
*
54518732 CTAACCCCTAACCT
1 CTAACCCTTAACCT
54518746 CTAACCCTTAACC
1 CTAACCCTTAACC
54518759 CATAAACCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.32, C:0.41, G:0.00, T:0.27
Consensus pattern (14 bp):
CTAACCCTTAACCT
Found at i:54519564 original size:114 final size:114
Alignment explanation
Indices: 54519359--54519913 Score: 835
Period size: 114 Copynumber: 4.9 Consensus size: 114
54519349 TAAATTATTT
* * *
54519359 TAAATCCCTGAGCATTAGTGGCGCTTACTTAAAAACGCCACTAAATCCCTGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
*
54519424 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAATGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
* * *
54519473 GAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCATAAAAT
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
*
54519538 AGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
* *
54519587 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAGTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
* * * * *
54519652 GGCGTCGTTGAGCTTAGGTATTTTTGCGGTGCTTTCCCAAAACCGCCAC
66 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
* *
54519701 TAAAGACCTGAGCATTAGCGGCGCTTACCTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
* * * *
54519766 GACGTCGTTGGGCTTAGGTTTTTTTATGGCGCTTTCTCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
* * * * *
54519815 TAAAGCCTTGTGCACTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTC-GAAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAG-AAAA
* *
54519879 CGGCGTCATTGGGCTTAGGTA-TTTTGCGGCGCTTT
65 CGGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTT
54519914 TTGGAAAACG
Statistics
Matches: 396, Mismatches: 44, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
113 13 0.03
114 383 0.97
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (114 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
Found at i:54520866 original size:23 final size:21
Alignment explanation
Indices: 54520807--54520866 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
54520797 CTCAAATCTA
*
54520807 TTAAT-TTGATTTAAATTTAT
1 TTAATATTGATTTAAAATTAT
* *
54520827 TTAGTAGTGCATTTAAAATTAT
1 TTAATATTG-ATTTAAAATTAT
54520849 TATAATATTGATTCTAAA
1 T-TAATATTGATT-TAAA
54520867 TTGTAGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.13
21 2 0.06
22 15 0.48
23 10 0.32
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.50
Consensus pattern (21 bp):
TTAATATTGATTTAAAATTAT
Found at i:54521079 original size:31 final size:30
Alignment explanation
Indices: 54521020--54521080 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
54521010 TTGAAATGTT
*
54521020 ACATTTTAGTCACTTACGTTATCGTGTCGTA
1 ACATTTTAGTCACTAACGTTATC-TGTCGTA
54521051 ACATTTTAGTCACTAAGCGTTAAT-TGTCGT
1 ACATTTTAGTCACTAA-CGTT-ATCTGTCGT
54521081 TAACGGTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 21 0.78
32 4 0.15
33 2 0.07
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (30 bp):
ACATTTTAGTCACTAACGTTATCTGTCGTA
Found at i:54521213 original size:18 final size:17
Alignment explanation
Indices: 54521175--54521212 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
54521165 ATTTTTTTCA
54521175 TTTTGAACAATTTAATT
1 TTTTGAACAATTTAATT
54521192 TTTTGAACAATTTAATT
1 TTTTGAACAATTTAATT
54521209 TTTT
1 TTTT
54521213 TTCTTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTTGAACAATTTAATT
Found at i:54521283 original size:22 final size:22
Alignment explanation
Indices: 54521258--54521321 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 22
54521248 AATAGAGGGA
* * *
54521258 AAAGTAGAAGAGAATAGAAAAT
1 AAAGAAGAAGAAAAAAGAAAAT
*
54521280 AAAGAAGAAGAAAAAAGAAAGT
1 AAAGAAGAAGAAAAAAGAAAAT
* * *
54521302 TAA-AAGAACATAAAAGAAAA
1 AAAGAAGAAGAAAAAAGAAAA
54521322 AAATTAAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAGAAGAAGAAAAAAGAAAAT
Found at i:54526383 original size:42 final size:42
Alignment explanation
Indices: 54526337--54526575 Score: 259
Period size: 42 Copynumber: 5.7 Consensus size: 42
54526327 TCTAAAGCTG
* * * *
54526337 AACAGAAGCTCGTAAAAGCTAAACAGAAAC-CTATAAGGGTTG
1 AACAGAAGCTCATAAAAGCTGAACAGAAACTC-ATAAGAGTTA
* *
54526379 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGGGTTA
1 AACAGAAGCTCATAAAAGCTGAACAGAAACTCATAAGAGTTA
* *
54526421 AACAGAAGCTCA-AAAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAA-AGCTGAACAGAAACTCATAAGAGTTA
* * *
54526463 AATAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAAAGCTGAACAGAAACTCATAAGAGTTA
* * * *
54526505 AATAGAAGCTCGA-AAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTC-ATAAAAGCTGAACAGAAACTCATAAGAGTTA
* * * *
54526547 AATAGAAGATCATAAGAGCTAAACAGAAA
1 AACAGAAGCTCATAAAAGCTGAACAGAAA
54526576 GTAAAACACG
Statistics
Matches: 173, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.02
42 166 0.96
43 4 0.02
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAAAGCTGAACAGAAACTCATAAGAGTTA
Found at i:54526470 original size:84 final size:84
Alignment explanation
Indices: 54526382--54526575 Score: 334
Period size: 84 Copynumber: 2.3 Consensus size: 84
54526372 AGGGTTGAAC
*
54526382 AGAAGCTCATAAGAGCTGAACAGAAACTCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACGG
1 AGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCAAAAGAGCTGAACGG
54526447 AAACTCATATGAGTTAAAT
66 AAACTCATATGAGTTAAAT
* * *
54526466 AGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTGAATAGAAGCTCGAAAGAGCTGAACGG
1 AGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCAAAAGAGCTGAACGG
54526531 AAACTCATATGAGTTAAAT
66 AAACTCATATGAGTTAAAT
* *
54526550 AGAAGATCATAAGAGCTAAACAGAAA
1 AGAAGCTCATAAGAGCTGAACAGAAA
54526576 GTAAAACACG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 104 1.00
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (84 bp):
AGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCAAAAGAGCTGAACGG
AAACTCATATGAGTTAAAT
Found at i:54526569 original size:21 final size:21
Alignment explanation
Indices: 54526318--54526574 Score: 143
Period size: 21 Copynumber: 12.3 Consensus size: 21
54526308 GTACATCATT
*
54526318 AACAGAAGCTC-TAA-AGCTG
1 AACAGAAGATCATAAGAGCTG
* * * *
54526337 AACAGAAGCTCGTAAAAGCTA
1 AACAGAAGATCATAAGAGCTG
* * *
54526358 AACAGAA-ACCTATAAGGGTTG
1 AACAGAAGATC-ATAAGAGCTG
*
54526379 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGATCATAAGAGCTG
* * *
54526400 AACAGAA-ACTCATAAGGGTTA
1 AACAGAAGA-TCATAAGAGCTG
* *
54526421 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGATCATAAGAGCTG
* * * *
54526442 AACGGAA-ACTCATATGAGTTA
1 AACAGAAGA-TCATAAGAGCTG
* *
54526463 AATAGAAGCTCATAAGAGCTG
1 AACAGAAGATCATAAGAGCTG
*
54526484 AACAGAA-ACTCATAAGAGTTG
1 AACAGAAGA-TCATAAGAGCTG
* *
54526505 AATAGAAGCTCGA-AAGAGCTG
1 AACAGAAGATC-ATAAGAGCTG
* * * *
54526526 AACGGAA-ACTCATATGAGTTA
1 AACAGAAGA-TCATAAGAGCTG
* *
54526547 AATAGAAGATCATAAGAGCTA
1 AACAGAAGATCATAAGAGCTG
54526568 AACAGAA
1 AACAGAA
54526575 AGTAAAACAC
Statistics
Matches: 174, Mismatches: 50, Indels: 26
0.70 0.20 0.10
Matches are distributed among these distances:
19 11 0.06
20 5 0.03
21 155 0.89
22 3 0.02
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (21 bp):
AACAGAAGATCATAAGAGCTG
Found at i:54528611 original size:21 final size:21
Alignment explanation
Indices: 54528587--54528631 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
54528577 CTACCCGTAG
54528587 AACT-AGGAGTTCTACCGATAC
1 AACTCAGG-GTTCTACCGATAC
*
54528608 AACTCTGGGTTCTACCGATAC
1 AACTCAGGGTTCTACCGATAC
54528629 AAC
1 AAC
54528632 CCAGACTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (21 bp):
AACTCAGGGTTCTACCGATAC
Found at i:54528641 original size:21 final size:21
Alignment explanation
Indices: 54528596--54528642 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
54528586 GAACTAGGAG
* * **
54528596 TTCTACCGATACAACTCTGGG
1 TTCTACCGATACAACCCAGAC
54528617 TTCTACCGATACAACCCAGAC
1 TTCTACCGATACAACCCAGAC
54528638 TTCTA
1 TTCTA
54528643 TCAATAGAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAACCCAGAC
Found at i:54528852 original size:71 final size:71
Alignment explanation
Indices: 54528731--54528898 Score: 223
Period size: 71 Copynumber: 2.4 Consensus size: 71
54528721 AACCAAAGTG
* * *
54528731 CTACTGATACCTTGAAGACTTCTACCAAGACAAGTCAAGTCAATAGCCAAAGTTCAACAT-CTCC
1 CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAACATCCT-C
*
54528795 TGCACTT
65 TACACTT
* *
54528802 CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTTAGCATCCTCT
1 CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAACATCCTCT
54528867 ACACTT
66 ACACTT
* * *
54528873 TTATCGATACTTTGATGGA-TTCTACC
1 CTACCGATACCTTGA-GGACTTCTACC
54528899 GATACCAAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 81 0.94
72 5 0.06
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (71 bp):
CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAACATCCTCT
ACACTT
Found at i:54531334 original size:27 final size:27
Alignment explanation
Indices: 54531304--54531358 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
54531294 AAGCTCCACC
**
54531304 AGTAGAGTTCCCACACAAAATTTCTCA
1 AGTAGAGCCCCCACACAAAATTTCTCA
54531331 AGTAGAGCCCCCACACAAAATTTCTCA
1 AGTAGAGCCCCCACACAAAATTTCTCA
54531358 A
1 A
54531359 TCTCTTTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (27 bp):
AGTAGAGCCCCCACACAAAATTTCTCA
Found at i:54533823 original size:7 final size:6
Alignment explanation
Indices: 54533801--54533872 Score: 58
Period size: 6 Copynumber: 11.5 Consensus size: 6
54533791 GAAGTTTAAG
* *
54533801 AAAATA AAAATAA AAAACTA AAAACT- AAAATA AAAAGA AACATA AAAATA
1 AAAATA AAAAT-A AAAA-TA AAAA-TA AAAATA AAAATA AAAATA AAAATA
*
54533851 AAAA-A GAAAACTA AAAAGA AAA
1 AAAATA -AAAA-TA AAAATA AAA
54533873 CAAATAAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
5 2 0.04
6 35 0.64
7 16 0.29
8 2 0.04
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (6 bp):
AAAATA
Found at i:54535564 original size:21 final size:20
Alignment explanation
Indices: 54535533--54535589 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
54535523 AAAAAACCAG
*
54535533 AATAATAAAATAAATTAAAAT
1 AATAA-AAAATAAATGAAAAT
54535554 AATAAAGAAATTAAA-GAAAAT
1 AATAAA-AAA-TAAATGAAAAT
54535575 AATAAAATAATAAAT
1 AATAAAA-AATAAAT
54535590 AATTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 6 0.19
21 21 0.68
22 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (20 bp):
AATAAAAAATAAATGAAAAT
Found at i:54535566 original size:17 final size:18
Alignment explanation
Indices: 54535533--54535568 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
54535523 AAAAAACCAG
*
54535533 AATAATAAAATAAATTAA
1 AATAATAAAAGAAATTAA
54535551 AATAAT-AAAGAAATTAA
1 AATAATAAAAGAAATTAA
54535568 A
1 A
54535569 GAAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
AATAATAAAAGAAATTAA
Found at i:54535584 original size:29 final size:30
Alignment explanation
Indices: 54535539--54535596 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
54535529 CCAGAATAAT
54535539 AAAATAAATTAAAATAATAAAGAAATTAAAG
1 AAAATAAATTAAAATAATAAA-AAATTAAAG
*
54535570 AAAAT-AA-TAAAATAATAAATAATTAAA
1 AAAATAAATTAAAATAATAAAAAATTAAA
54535597 AATAGGGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 12 0.46
30 2 0.08
31 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (30 bp):
AAAATAAATTAAAATAATAAAAAATTAAAG
Found at i:54547686 original size:20 final size:21
Alignment explanation
Indices: 54547651--54547692 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
54547641 TTGTACTTTT
54547651 TGAGTTAGTAAAAAAAATTCA
1 TGAGTTAGTAAAAAAAATTCA
54547672 TGAGTTAGT-AAAAAAATTCA
1 TGAGTTAGTAAAAAAAATTCA
54547692 T
1 T
54547693 TTATTCAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (21 bp):
TGAGTTAGTAAAAAAAATTCA
Found at i:54554878 original size:37 final size:37
Alignment explanation
Indices: 54554826--54554912 Score: 149
Period size: 37 Copynumber: 2.4 Consensus size: 37
54554816 ACAAAAGTAG
*
54554826 TCCAACCGA-AACATGCCAAATGCTCATGAGAGCTAA
1 TCCAACCGATAACATGCCAAATGCTCATAAGAGCTAA
*
54554862 TCTAACCGATAACATGCCAAATGCTCATAAGAGCTAA
1 TCCAACCGATAACATGCCAAATGCTCATAAGAGCTAA
54554899 TCCAACCGATAACA
1 TCCAACCGATAACA
54554913 CCCCTCGACA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 8 0.17
37 39 0.83
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.18
Consensus pattern (37 bp):
TCCAACCGATAACATGCCAAATGCTCATAAGAGCTAA
Found at i:54558511 original size:47 final size:46
Alignment explanation
Indices: 54558444--54558545 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 46
54558434 GTGGTTTAAC
*
54558444 CACATATCTGTTCTGGCAGCTTGACT-GCAATTATAATGGTTCGACCA
1 CACATATCTGTTCTGACAGCTTG-CTCGCAA-TATAATGGTTCGACCA
* * * * *
54558491 CACATATTTGTTTTGACAGCTTGGTCGCAATATAGTGGTTTGACCA
1 CACATATCTGTTCTGACAGCTTGCTCGCAATATAATGGTTCGACCA
*
54558537 CATATATCT
1 CACATATCT
54558546 AATCTGGCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
46 22 0.48
47 24 0.52
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (46 bp):
CACATATCTGTTCTGACAGCTTGCTCGCAATATAATGGTTCGACCA
Found at i:54563093 original size:91 final size:91
Alignment explanation
Indices: 54562938--54563119 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
54562928 CTTAATCTCG
54562938 TTTAAGTTATTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAA
1 TTTAAGTTATTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAA
54563003 ATAAAGAAATACATGTGTTAGGGCAC
66 ATAAAGAAATACATGTGTTAGGGCAC
54563029 TTTAAGTTATTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAA
1 TTTAAGTTATTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAA
54563094 ATAAAGAAATACATGTGTTAGGGCAC
66 ATAAAGAAATACATGTGTTAGGGCAC
54563120 AACAAAGAGC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (91 bp):
TTTAAGTTATTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAA
ATAAAGAAATACATGTGTTAGGGCAC
Found at i:54563819 original size:25 final size:26
Alignment explanation
Indices: 54563791--54563870 Score: 100
Period size: 25 Copynumber: 3.3 Consensus size: 26
54563781 ATTCTATTTG
54563791 GCCTTTGTGGTGTATCT-TGTATGTT
1 GCCTTTGTGGTGTATCTCTGTATGTT
* *
54563816 GCCTTTGTGGCGTA-CTCTG-A--TA
1 GCCTTTGTGGTGTATCTCTGTATGTT
54563838 GCCTTTGTGGTGTAT-TCTGTATGTT
1 GCCTTTGTGGTGTATCTCTGTATGTT
54563863 GCCTTTGT
1 GCCTTTGT
54563871 AGCGTAATCT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
22 18 0.39
23 1 0.02
24 3 0.07
25 24 0.52
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (26 bp):
GCCTTTGTGGTGTATCTCTGTATGTT
Found at i:54563844 original size:22 final size:22
Alignment explanation
Indices: 54563816--54563884 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
54563806 CTTGTATGTT
*
54563816 GCCTTTGTGGCGTACTCTGATA
1 GCCTTTGTGGCGTAATCTGATA
* * *
54563838 GCCTTTGTGGTGTATTCTGTATGTT
1 GCCTTTGTGGCGTAATCTG-A--TA
*
54563863 GCCTTTGTAGCGTAATCTGATA
1 GCCTTTGTGGCGTAATCTGATA
54563885 ATATTTGGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
22 18 0.49
23 1 0.03
24 1 0.03
25 17 0.46
ACGTcount: A:0.14, C:0.17, G:0.26, T:0.42
Consensus pattern (22 bp):
GCCTTTGTGGCGTAATCTGATA
Found at i:54563845 original size:47 final size:46
Alignment explanation
Indices: 54563791--54563941 Score: 185
Period size: 47 Copynumber: 3.2 Consensus size: 46
54563781 ATTCTATTTG
54563791 GCCTTTGTGGTGTATCTTGTATGTTGCCTTTGTGGCGTACTCTGATA
1 GCCTTTGTGGTGTAT-TTGTATGTTGCCTTTGTGGCGTACTCTGATA
* *
54563838 GCCTTTGTGGTGTATTCTGTATGTTGCCTTTGTAGCGTAATCTGATA
1 GCCTTTGTGGTGTATT-TGTATGTTGCCTTTGTGGCGTACTCTGATA
*** * * * *
54563885 ATATTTGGGGTGTATTTTGTATGTTGTCTTTGTGGTGTACTCTGGTA
1 GCCTTTGTGGTGTA-TTTGTATGTTGCCTTTGTGGCGTACTCTGATA
*
54563932 GCTTTTGTGG
1 GCCTTTGTGG
54563942 CTTATTCCGT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
46 1 0.01
47 84 0.97
48 2 0.02
ACGTcount: A:0.12, C:0.13, G:0.28, T:0.47
Consensus pattern (46 bp):
GCCTTTGTGGTGTATTTGTATGTTGCCTTTGTGGCGTACTCTGATA
Found at i:54563881 original size:25 final size:25
Alignment explanation
Indices: 54563791--54563881 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
54563781 ATTCTATTTG
*
54563791 GCCTTTGTGGTGT-ATCTTGTATGTT
1 GCCTTTGTGGCGTAATC-TGTATGTT
* *
54563816 GCCTTTGTGGCGTACTCTG-A--TA
1 GCCTTTGTGGCGTAATCTGTATGTT
* *
54563838 GCCTTTGTGGTGTATTCTGTATGTT
1 GCCTTTGTGGCGTAATCTGTATGTT
*
54563863 GCCTTTGTAGCGTAATCTG
1 GCCTTTGTGGCGTAATCTG
54563882 ATAATATTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
22 18 0.34
23 1 0.02
24 1 0.02
25 31 0.58
26 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.45
Consensus pattern (25 bp):
GCCTTTGTGGCGTAATCTGTATGTT
Found at i:54566848 original size:24 final size:24
Alignment explanation
Indices: 54566794--54566848 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
54566784 AAAAAAAATT
* *
54566794 CTATTTTTTACTATTTTGTTGCTA
1 CTATTTTTCACTATTATGTTGCTA
* *
54566818 ATTTTTTTCACTATTATGTTGCTA
1 CTATTTTTCACTATTATGTTGCTA
54566842 CTATTTT
1 CTATTTT
54566849 GTTATTATTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.13, G:0.07, T:0.62
Consensus pattern (24 bp):
CTATTTTTCACTATTATGTTGCTA
Found at i:54566889 original size:19 final size:17
Alignment explanation
Indices: 54566865--54566899 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
54566855 ATTGTTTGAA
54566865 TATTATATAATTCTTGTTT
1 TATTAT-TAATT-TTGTTT
54566884 TATTATTAATTTTGTT
1 TATTATTAATTTTGTT
54566900 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (17 bp):
TATTATTAATTTTGTTT
Found at i:54566905 original size:18 final size:19
Alignment explanation
Indices: 54566865--54566905 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
54566855 ATTGTTTGAA
*
54566865 TATTATATAATTCTTGTTT
1 TATTATATAATTCTTGTTC
54566884 TATTAT-TAATT-TTGTTAC
1 TATTATATAATTCTTGTT-C
54566902 TATT
1 TATT
54566906 TTAGAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTATATAATTCTTGTTC
Found at i:54578299 original size:25 final size:25
Alignment explanation
Indices: 54578214--54578302 Score: 67
Period size: 25 Copynumber: 3.6 Consensus size: 25
54578204 TTACCTTACA
* * * *
54578214 GGCTTTCCAGATAACTCGCAACAAG
1 GGCTTCCCAGATAATTCACCACAAG
*
54578239 GGCTTCCCA-A-ACTTTACACCACATAG
1 GGCTTCCCAGATA-ATT-CACCACA-AG
* *
54578265 GCCTT-TCAGATAATTCACCACAAG
1 GGCTTCCCAGATAATTCACCACAAG
54578289 GGCTTCCCAGATAA
1 GGCTTCCCAGATAA
54578303 CCTCGCCACA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
23 1 0.02
24 8 0.17
25 29 0.60
26 9 0.19
27 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (25 bp):
GGCTTCCCAGATAATTCACCACAAG
Found at i:54582793 original size:27 final size:27
Alignment explanation
Indices: 54582761--54583132 Score: 333
Period size: 27 Copynumber: 13.8 Consensus size: 27
54582751 TCATCTCTTA
**
54582761 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* ** * * *
54582788 GAGGTATTTTGGTCATTCTACCGTCTG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
54582815 GGGGTATTTC-GATCATTCTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
** *
54582842 GGGGTATTTTGGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
54582869 GGGCTATTTCAGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
54582896 GGGGTATTTCGGTTATTTTATCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
54582923 GGGGTATTTCAGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
54582950 AGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
54582977 AGGGTATTTC-GATTATTCTACCTTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
** *
54583004 GGGGTATTTTGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
54583031 GAGGTTTTTGA-TTATTTTATCCC-ATG
1 GGGGTATTTCAGTCATTTTA-CCCTATG
54583057 GGGGTATTTC-GATCATTTTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* *
54583084 AGGGTACTTT-GGTCATTTTACCCTATG
1 GGGGTA-TTTCAGTCATTTTACCCTATG
* *
54583111 AGGGTATTTTAGTCATTTTACC
1 GGGGTATTTCAGTCATTTTACC
54583133 TATTTTGGGG
Statistics
Matches: 285, Mismatches: 49, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
26 24 0.08
27 255 0.89
28 6 0.02
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:54582819 original size:54 final size:54
Alignment explanation
Indices: 54582761--54583133 Score: 378
Period size: 54 Copynumber: 6.9 Consensus size: 54
54582751 TCATCTCTTA
** * * * *
54582761 GGGGTATAACAGTCATTTTACCCTATGGAGGTATTTTGGTCATTCTACCGTCTG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTATG
*
54582815 GGGGTATTTC-GATCATTCTACCCTATGGGGGTATTTTGGTCATTTTACCTTATG
1 GGGGTATTTCAG-TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTATG
* * * * *
54582869 GGGCTATTTCAGTCATTTTACCTTATGGGGGTATTTCGGTTATTTTATCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTATG
* * * *
54582923 GGGGTATTTCAGTTATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTATG
* * * * * *
54582977 AGGGTATTTC-GATTATTCTACCTTATGGGGGTATTTTGGTCATTTTACCCTATA
1 GGGGTATTTCAG-TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTATG
* * * * * * *
54583031 GAGGTTTTTGA-TTATTTTATCCC-ATGGGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTA-CCCTATGGGGGTATTTTGGTCATTTTACCTTATG
* * * *
54583084 AGGGTACTTT-GGTCATTTTACCCTATGAGGGTATTTTAGTCATTTTACCT
1 GGGGTA-TTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCT
54583134 ATTTTGGGGT
Statistics
Matches: 266, Mismatches: 45, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
53 42 0.16
54 223 0.84
55 1 0.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (54 bp):
GGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTATG
Found at i:54582884 original size:81 final size:79
Alignment explanation
Indices: 54582772--54583135 Score: 406
Period size: 81 Copynumber: 4.5 Consensus size: 79
54582762 GGGTATAACA
** * *
54582772 GTCATTTTACCCTATGGAGGTATTTTGGTCATTCTACCGTCTGGGGGTATTTCGATCATTCTACC
1 GTCATTTTACCCTATGG-GGTATTTCAGTCATTTTACC-TATGGGGGTATTTCGATCATTCTACC
54582837 CTATGGGGGTATTTTG
64 CTATGGGGGTATTTTG
* * * * *
54582853 GTCATTTTACCTTATGGGGCTATTTCAGTCATTTTACCTTATGGGGGTATTTCGGTTATTTTATC
1 GTCATTTTACCCTATGGGG-TATTTCAGTCATTTTACC-TATGGGGGTATTTCGATCATTCTACC
* **
54582918 TTATGGGGGTATTTCA
64 CTATGGGGGTATTTTG
* * * *
54582934 GTTATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGATTATTCTACC
1 GTCATTTTACCCTATG-GGGTATTTCAGTCATTTTA-CCTATGGGGGTATTTCGATCATTCTACC
*
54582999 TTATGGGGGTATTTTG
64 CTATGGGGGTATTTTG
* * * * * *
54583015 GTCATTTTACCCTATAGAGGTTTTTGA-TTATTTTATCCCATGGGGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTAT-GGGGTATTTCAGTCATTTTA-CCTATGGGGGTATTTCGATCATTCTACC
* *
54583079 CTATGAGGGTACTTTG
64 CTATGGGGGTATTTTG
*
54583095 GTCATTTTACCCTATGAGGGTATTTTAGTCATTTTACCTAT
1 GTCATTTTACCCTATG-GGGTATTTCAGTCATTTTACCTAT
54583136 TTTGGGGTCT
Statistics
Matches: 236, Mismatches: 41, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
79 1 0.00
80 72 0.31
81 157 0.67
82 6 0.03
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.44
Consensus pattern (79 bp):
GTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCTATGGGGGTATTTCGATCATTCTACCCT
ATGGGGGTATTTTG
Found at i:54586945 original size:16 final size:16
Alignment explanation
Indices: 54586895--54586949 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
54586885 TTTCTAAAAA
54586895 TAATATTATT-TTAATT
1 TAATATT-TTATTAATT
* *
54586911 TATTATTTATATTGA--
1 TAATATTT-TATTAATT
54586926 TAATATTTTATTAATT
1 TAATATTTTATTAATT
54586942 TAATATTT
1 TAATATTT
54586950 ATGTGAGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 5 0.16
15 8 0.26
16 15 0.48
17 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TAATATTTTATTAATT
Found at i:54586998 original size:30 final size:29
Alignment explanation
Indices: 54586894--54587004 Score: 116
Period size: 30 Copynumber: 3.7 Consensus size: 29
54586884 TTTTCTAAAA
*
54586894 ATAATATTATTTTAATTTATTATTTATATTG
1 ATAATATTA-TTTAATTTAATATTTAT-TTG
* *
54586925 ATAATATTTTATTAATTTAATATTTATGTG
1 ATAATATTAT-TTAATTTAATATTTATTTG
*
54586955 A-GATATTAAATTTAATTTAATATTTATCTTG
1 ATAATATT--ATTTAATTTAATATTTAT-TTG
*
54586986 ATAAGATTATTTAATTTAA
1 ATAATATTATTTAATTTAA
54587005 CATTAATGTG
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
29 5 0.07
30 31 0.46
31 27 0.40
32 4 0.06
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (29 bp):
ATAATATTATTTAATTTAATATTTATTTG
Found at i:54597188 original size:13 final size:13
Alignment explanation
Indices: 54597170--54597194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54597160 TGGTTAGCAA
54597170 CAGTTAGTCATAG
1 CAGTTAGTCATAG
54597183 CAGTTAGTCATA
1 CAGTTAGTCATA
54597195 CAAGTATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
CAGTTAGTCATAG
Found at i:54603605 original size:9 final size:9
Alignment explanation
Indices: 54603591--54603624 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
54603581 AGTTTGATAA
54603591 TCGAATTAT
1 TCGAATTAT
54603600 TCGAATTAT
1 TCGAATTAT
*
54603609 TCGAGTTAT
1 TCGAATTAT
*
54603618 TTGAATT
1 TCGAATT
54603625 CAAAAACTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (9 bp):
TCGAATTAT
Found at i:54614794 original size:22 final size:22
Alignment explanation
Indices: 54614769--54614823 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
54614759 AAAATTAAAC
* *
54614769 TAAATATTAAAACTAATAAATT
1 TAAATATTAAAACTAAAAAAAT
*
54614791 TAAAT-TTAGAAATTAAAAAAAT
1 TAAATATTA-AAACTAAAAAAAT
54614813 TAAA-ATTAAAA
1 TAAATATTAAAA
54614824 TTGTGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAATATTAAAACTAAAAAAAT
Found at i:54616580 original size:70 final size:70
Alignment explanation
Indices: 54616491--54616630 Score: 237
Period size: 70 Copynumber: 2.0 Consensus size: 70
54616481 TGTGGATAGC
* *
54616491 GTTTGTTGCCTTTTTATATG-CTATCCATGGTTGTTTAAATGGATTAGATCGAGAATCGATTGAT
1 GTTTGTTACATTTTTATATGTC-ATCCATGGTTGTTTAAATGGATTAGATCGAGAATCGATTGAT
54616555 ATATCA
65 ATATCA
*
54616561 GTTTGTTACATTTTTATATGTCATCTATGGTTGTTTAAATGGATTAGATCGAGAATCGATTGATA
1 GTTTGTTACATTTTTATATGTCATCCATGGTTGTTTAAATGGATTAGATCGAGAATCGATTGATA
54616626 TATCA
66 TATCA
54616631 ATTCGATGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 65 0.98
71 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (70 bp):
GTTTGTTACATTTTTATATGTCATCCATGGTTGTTTAAATGGATTAGATCGAGAATCGATTGATA
TATCA
Found at i:54617076 original size:12 final size:12
Alignment explanation
Indices: 54617059--54617084 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
54617049 TATTTTTAAA
54617059 AAAGAAAAATTT
1 AAAGAAAAATTT
54617071 AAAGAAAAATTT
1 AAAGAAAAATTT
54617083 AA
1 AA
54617085 TTTAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
AAAGAAAAATTT
Found at i:54626549 original size:7 final size:7
Alignment explanation
Indices: 54626537--54626603 Score: 61
Period size: 7 Copynumber: 9.7 Consensus size: 7
54626527 CAGAAGAGTA
54626537 TTATTAT
1 TTATTAT
54626544 TTATTAT
1 TTATTAT
54626551 TTATTA-
1 TTATTAT
54626557 TT-TT-T
1 TTATTAT
*
54626562 TTATTTT
1 TTATTAT
*
54626569 TTACTATT
1 TTATTA-T
54626577 TTATTATT
1 TTATTA-T
54626585 TTATTAT
1 TTATTAT
54626592 TT-TATAT
1 TTAT-TAT
54626599 TTATT
1 TTATT
54626604 TTTTTGCATT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
5 4 0.08
6 5 0.10
7 27 0.53
8 15 0.29
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (7 bp):
TTATTAT
Found at i:54626566 original size:18 final size:17
Alignment explanation
Indices: 54626543--54626594 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
54626533 AGTATTATTA
54626543 TTTATTATTTATTATTTT
1 TTTATT-TTTATTATTTT
*
54626561 TTTATTTTTTACTATTTT
1 TTTA-TTTTTATTATTTT
*
54626579 ATTA-TTTTATTATTTT
1 TTTATTTTTATTATTTT
54626595 ATATTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 11 0.37
18 17 0.57
19 2 0.07
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATTATTTT
Found at i:54626567 original size:8 final size:8
Alignment explanation
Indices: 54626543--54626608 Score: 51
Period size: 8 Copynumber: 7.4 Consensus size: 8
54626533 AGTATTATTA
54626543 TTTATTATT
1 TTTATT-TT
54626552 TATTATTTT
1 T-TTATTTT
54626561 TTTATTTT
1 TTTATTTT
54626569 TTACTATTTT
1 TT--TATTTT
*
54626579 ATTATTTT
1 TTTATTTT
*
54626587 ATTATTTTAT
1 TTTA-TTT-T
54626597 ATTTATTTT
1 -TTTATTTT
54626606 TTT
1 TTT
54626609 GCATTCAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
8 22 0.45
9 8 0.16
10 16 0.33
11 3 0.06
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTATTTT
Found at i:54626586 original size:16 final size:16
Alignment explanation
Indices: 54626560--54626600 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
54626550 TTTATTATTT
54626560 TTTTATT-TTTTACTA
1 TTTTATTATTTTACTA
*
54626575 TTTTATTATTTTATTA
1 TTTTATTATTTTACTA
54626591 TTTTA-TATTT
1 TTTTATTATTT
54626601 ATTTTTTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTATTTTACTA
Found at i:54626599 original size:18 final size:17
Alignment explanation
Indices: 54626535--54626605 Score: 76
Period size: 17 Copynumber: 4.1 Consensus size: 17
54626525 ATCAGAAGAG
54626535 TATTATTATTTATTA-TT
1 TATTATT-TTTATTATTT
54626552 TATTATTTTT-TTATTT
1 TATTATTTTTATTATTT
54626568 T-TTACTATTTTATTATTT
1 TATTA-T-TTTTATTATTT
54626586 TATTATTTTATATTTATTT
1 TATTATTTT-TA-TTATTT
54626605 T
1 T
54626606 TTTGCATTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.13
16 7 0.15
17 14 0.30
18 10 0.21
19 10 0.21
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (17 bp):
TATTATTTTTATTATTT
Found at i:54628825 original size:21 final size:22
Alignment explanation
Indices: 54628796--54628847 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
54628786 TGTAGTTTTC
*
54628796 TAGGAGAAAAATT-GGATGTGA
1 TAGGTGAAAAATTAGGATGTGA
* *
54628817 TAGGTGAAATATTAGGATTTGA
1 TAGGTGAAAAATTAGGATGTGA
54628839 TAGGTGAAA
1 TAGGTGAAA
54628848 GGTTGATGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (22 bp):
TAGGTGAAAAATTAGGATGTGA
Found at i:54628975 original size:15 final size:15
Alignment explanation
Indices: 54628955--54628984 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
54628945 GGGTGGTTTC
54628955 CTTATTTTTTTTGGG
1 CTTATTTTTTTTGGG
54628970 CTTATTTTTTTTGGG
1 CTTATTTTTTTTGGG
54628985 TTTGAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.20, T:0.67
Consensus pattern (15 bp):
CTTATTTTTTTTGGG
Found at i:54640052 original size:54 final size:54
Alignment explanation
Indices: 54639989--54640221 Score: 234
Period size: 54 Copynumber: 4.1 Consensus size: 54
54639979 AGTATCATAT
*
54639989 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
*
54640043 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * * *
54640097 ATTATATATTTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
1 ATTAT-GA-TTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTT-TA-T-T-A-
54640161 A
54 A
*
54640162 TATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
54640217 ATTAT
1 ATTAT
54640222 ATATTTTAAT
Statistics
Matches: 143, Mismatches: 22, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
54 62 0.43
55 2 0.01
56 7 0.05
57 12 0.08
58 5 0.03
59 4 0.03
60 16 0.11
61 4 0.03
62 5 0.03
63 12 0.08
64 7 0.05
65 2 0.01
66 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.48
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:54640089 original size:28 final size:27
Alignment explanation
Indices: 54640004--54640089 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
54639994 GATTTGAGTA
*
54640004 AATTCATATAAAAATATTAATTATTAAG
1 AATTCATAT-AAAATATTGATTATTAAG
* * *
54640032 AATT-TTATTAAAT-TATGA-T-TTGAG
1 AATTCATATAAAATAT-TGATTATTAAG
54640056 TAAATTCATATAAGAATATTGATTATTAAG
1 --AATTCATATAA-AATATTGATTATTAAG
54640086 AATT
1 AATT
54640090 TTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
24 4 0.09
25 2 0.05
26 10 0.23
27 7 0.16
28 14 0.33
29 2 0.05
30 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
AATTCATATAAAATATTGATTATTAAG
Found at i:54640126 original size:15 final size:15
Alignment explanation
Indices: 54640091--54640142 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
54640081 TTAAGAATTT
*
54640091 TATTAAATTAT-ATA
1 TATTTAATTATAATA
54640105 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
54640119 TATTTAATAATAAT-
1 TATTTAATTATAATA
54640133 TATGTTAATT
1 TAT-TTAATT
54640143 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:54640241 original size:16 final size:16
Alignment explanation
Indices: 54640220--54640264 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
54640210 TTATTAAATT
*
54640220 ATATATTTTAATTATA
1 ATATATTTTAATAATA
54640236 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
*
54640251 ATTATATTTAAATA
1 A-TATATTTTAATA
54640265 TGATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 10 0.40
16 9 0.36
17 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:54640270 original size:16 final size:16
Alignment explanation
Indices: 54640221--54640261 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
54640211 TATTAAATTA
*
54640221 TATATTTTAATTATAA-
1 TATA-TTTAATAATAAT
54640237 TATATTTAATAATAAT
1 TATATTTAATAATAAT
54640253 TATATTTAA
1 TATATTTAA
54640262 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTTAATAATAAT
Found at i:54640471 original size:45 final size:43
Alignment explanation
Indices: 54640372--54640481 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
54640362 TTTTCCATTA
54640372 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* ***
54640411 TACTATTACACCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
54640456 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
54640482 CCTCTATTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 17 0.29
40 1 0.02
44 16 0.27
45 24 0.41
46 1 0.02
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:54640483 original size:16 final size:16
Alignment explanation
Indices: 54640462--54640512 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
54640452 GATTTGCTAT
54640462 TACACCTCTATTCCAA
1 TACACCTCTATTCCAA
54640478 TACACCTCTATTCCAA
1 TACACCTCTATTCCAA
* *
54640494 TACACCCCTAATCCAA
1 TACACCTCTATTCCAA
54640510 TAC
1 TAC
54640513 TGCGAACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.39, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTATTCCAA
Found at i:54645234 original size:6 final size:6
Alignment explanation
Indices: 54645223--54645253 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
54645213 CATTATCAAC
54645223 ATATAA ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA ATATAA A
54645254 AGGGAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:54647759 original size:185 final size:183
Alignment explanation
Indices: 54647419--54647779 Score: 546
Period size: 185 Copynumber: 2.0 Consensus size: 183
54647409 ATCCAATACT
*
54647419 CAAATCAATTCGACAATTAATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAAA
1 CAAATCAATTCGACAATTAATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAA
* * * *
54647484 TCAATTCGGCAATGAATATCTATATACAAATCAAATTTGGTAATGTATAACCATATATAAATCAA
66 TCAATTCGGCAATGAATATCTATAAACAAATCAAATTTGATAATGTATAACCATAAACAAATCAA
**
54647549 ATTCGGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATAACCATATC
131 ATTCGGCAATGTATATCTATATACAAATC-AATTCGAAAATGTATAACCATATC
* *
54647603 CAAATCAAATTCGGCAATGT-ATAACCATATACAAATCAAATTTGGCAATGTATATCTATATACA
1 CAAATC-AATTCGACAAT-TAATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACA
* * * *
54647667 AATCACTTCGGCAATGTATATCTATAAACAAATC-AATTTCGATAATGTATATCTATAAACAAAT
64 AATCAATTCGGCAATGAATATCTATAAACAAATCAAATTT-GATAATGTATAACCATAAACAAAT
*
54647731 CAAATTCGGCAATGTATATCTTTATACAAATCAATTCGAAAATGTATAA
128 CAAATTCGGCAATGTATATCTATATACAAATCAATTCGAAAATGTATAA
54647780 AACATATACA
Statistics
Matches: 160, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
184 26 0.16
185 133 0.83
186 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.31
Consensus pattern (183 bp):
CAAATCAATTCGACAATTAATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAA
TCAATTCGGCAATGAATATCTATAAACAAATCAAATTTGATAATGTATAACCATAAACAAATCAA
ATTCGGCAATGTATATCTATATACAAATCAATTCGAAAATGTATAACCATATC
Found at i:54647775 original size:92 final size:92
Alignment explanation
Indices: 54647419--54647778 Score: 492
Period size: 92 Copynumber: 3.9 Consensus size: 92
54647409 ATCCAATACT
*
54647419 CAAATCAA-TTCGACAAT-TAATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACA
1 CAAATCAATTTCGACAATGT-ATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACA
*
54647482 AATCAATTCGGCAATGAATATCTATATA
65 AATCAATTCGGCAATGTATATCTATATA
** *
54647510 CAAATCAAATTT-GGTAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACA
1 CAAATC-AATTTCGACAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACA
* * *
54647574 AATCAAATTCGGCAATGTATAACCATATC
65 AATC-AATTCGGCAATGTATATCTATATA
* * *
54647603 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTTGGCAATGTATATCTATATACAA
1 CAAATCAATTTCGACAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* *
54647668 ATCACTTCGGCAATGTATATCTATAAA
66 ATCAATTCGGCAATGTATATCTATATA
* * * * *
54647695 CAAATCAATTTCGATAATGTATATCTATAAACAAATCAAATTCGGCAATGTATATCTTTATACAA
1 CAAATCAATTTCGACAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
**
54647760 ATCAATTCGAAAATGTATA
66 ATCAATTCGGCAATGTATA
54647779 AAACATATAC
Statistics
Matches: 236, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
91 6 0.03
92 148 0.63
93 82 0.35
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.31
Consensus pattern (92 bp):
CAAATCAATTTCGACAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
ATCAATTCGGCAATGTATATCTATATA
Found at i:54647789 original size:31 final size:31
Alignment explanation
Indices: 54647419--54647778 Score: 469
Period size: 31 Copynumber: 11.7 Consensus size: 31
54647409 ATCCAATACT
* *
54647419 CAAATC-AATTCGACAAT-TAATATCCATATA
1 CAAATCAAATTCGGCAATGT-ATATCTATATA
54647449 CAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
54647480 CAAATC-AATTCGGCAATGAATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * *
54647510 CAAATCAAATTTGGTAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
54647541 TAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
54647572 CAAATCAAATTCGGCAATGTATAACCATATC
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
54647603 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
54647634 CAAATCAAATTTGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
54647665 CAAATC-ACTTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* ** *
54647695 CAAATCAATTTCGATAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
54647726 CAAATCAAATTCGGCAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
**
54647757 CAAATC-AATTCGAAAATGTATA
1 CAAATCAAATTCGGCAATGTATA
54647779 AAACATATAC
Statistics
Matches: 292, Mismatches: 34, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
30 76 0.26
31 215 0.74
32 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCTATATA
Found at i:54653976 original size:31 final size:31
Alignment explanation
Indices: 54653848--54654188 Score: 332
Period size: 31 Copynumber: 11.1 Consensus size: 31
54653838 ATCCAATACT
*
54653848 CAAATCAAA-TCGGCAATATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATA-A-CCATATA
** * *
54653880 TGAATCAAATTCGGCAA--TATATCTATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* * * * *
54653909 CAAATC-AATTTGGCAATGAATATCTAAATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* *
54653939 CAAATCAAATTCAGTAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* * *
54653970 TAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* *
54654001 CAAATCAAATTCTGCAATGTATAACCGTATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* *
54654032 CAGATCAAATTCAGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* * *
54654063 CAAATCAAATTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATAACCATATA
* * * * *
54654094 CAAATCAATTTCGGTAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATAACCATATA
** **
54654125 CAAATCAAATTCGGCAATGTATGTCTTTATA
1 CAAATCAAATTCGGCAATGTATAACCATATA
*
54654156 CAAATC-AATTCGGCAATGTATAAAACATATA
1 CAAATCAAATTCGGCAATGTAT-AACCATATA
54654187 CA
1 CA
54654189 TTTAATTTCA
Statistics
Matches: 258, Mismatches: 46, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
28 9 0.03
29 10 0.04
30 31 0.12
31 194 0.75
32 7 0.03
33 7 0.03
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.30
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATAACCATATA
Found at i:54654051 original size:93 final size:93
Alignment explanation
Indices: 54653848--54654177 Score: 393
Period size: 93 Copynumber: 3.6 Consensus size: 93
54653838 ATCCAATACT
* * **
54653848 CAAATCAAA-TCGGCAATATATATATCCATATATGAATCAAATTCGGCAA--TATATCTATATAC
1 CAAATCAAATTCAGCAATGTATA-A-CCATATACAAATCAAATTCGGCAATGTATATCTATATAC
* *
54653910 AAATC-AATT-TGGCAATGAATATCTAAATA
64 AAATCAAATTCT-GCAATGTATATCTATATA
* *
54653939 CAAATCAAATTCAGTAATGTATAACCATATATAAATCAAATTCGGCAATGTATATCTATATACAA
1 CAAATCAAATTCAGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* **
54654004 ATCAAATTCTGCAATGTATAACCGTATA
66 ATCAAATTCTGCAATGTATATCTATATA
* *
54654032 CAGATCAAATTCAGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATAAACAA
1 CAAATCAAATTCAGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* * * *
54654097 ATCAATTTCGGTAATGTATATCTATAAA
66 ATCAAATTCTGCAATGTATATCTATATA
* ** **
54654125 CAAATCAAATTCGGCAATGTATGTCTTTATACAAATC-AATTCGGCAATGTATA
1 CAAATCAAATTCAGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATA
54654178 AAACATATAC
Statistics
Matches: 208, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
90 23 0.11
91 10 0.05
92 44 0.21
93 130 0.62
94 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (93 bp):
CAAATCAAATTCAGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
ATCAAATTCTGCAATGTATATCTATATA
Found at i:54663015 original size:19 final size:19
Alignment explanation
Indices: 54662974--54663038 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
54662964 AATAAAAAGA
* *
54662974 AAAAATTA-GAAATAATAAC
1 AAAAATTATAAAATAA-AAT
54662993 AAAAATTATAAAATAAAAT
1 AAAAATTATAAAATAAAAT
54663012 -AAAATTATAATAA-AAAAT
1 AAAAATTATAA-AATAAAAT
*
54663030 CAAAATTAT
1 AAAAATTAT
54663039 TCAGAAAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 15 0.37
19 20 0.49
20 6 0.15
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAATTATAAAATAAAAT
Found at i:54664181 original size:23 final size:23
Alignment explanation
Indices: 54664137--54664183 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
54664127 TTATAAAATC
* *
54664137 AAATTAAATTATAAACAGATAAA
1 AAATTAAAATATAAACAAATAAA
**
54664160 AAATTAAAATATAATTAAATAAA
1 AAATTAAAATATAAACAAATAAA
54664183 A
1 A
54664184 CTCACACATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATTAAAATATAAACAAATAAA
Found at i:54667331 original size:21 final size:21
Alignment explanation
Indices: 54667305--54667348 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
54667295 CGAAAATGTA
54667305 CAATTTTGATTAAGTGTTTAT
1 CAATTTTGATTAAGTGTTTAT
54667326 CAATTTTGATTAAGTGTTTAT
1 CAATTTTGATTAAGTGTTTAT
54667347 CA
1 CA
54667349 CTTTAGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.50
Consensus pattern (21 bp):
CAATTTTGATTAAGTGTTTAT
Found at i:54674186 original size:23 final size:23
Alignment explanation
Indices: 54674160--54674214 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
54674150 GTCACCAACT
* * *
54674160 TTAAAATTCCCATTTAATTTTTA
1 TTAAAATTCCCATCTAATTCTCA
* *
54674183 TTAAAATTCTCATCTGATTCTCA
1 TTAAAATTCCCATCTAATTCTCA
54674206 TTAAAATTC
1 TTAAAATTC
54674215 ACATAACTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAAAATTCCCATCTAATTCTCA
Found at i:54675339 original size:11 final size:11
Alignment explanation
Indices: 54675325--54675365 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
54675315 TTTTTATTTA
54675325 TTTTCTTTCTT
1 TTTTCTTTCTT
*
54675336 TTTTCTGTCTT
1 TTTTCTTTCTT
*
54675347 TTTT-TTT-GT
1 TTTTCTTTCTT
54675356 TTTTCTTTCT
1 TTTTCTTTCT
54675366 CTTCTTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 5 0.21
10 5 0.21
11 14 0.58
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:54675348 original size:20 final size:21
Alignment explanation
Indices: 54675325--54675372 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
54675315 TTTTTATTTA
54675325 TTTTCTTTCT-TTTTTCTGTC
1 TTTTCTTTCTGTTTTTCTGTC
* *
54675345 TTTT-TTTTTGTTTTTCTTTC
1 TTTTCTTTCTGTTTTTCTGTC
*
54675365 TCTTCTTT
1 TTTTCTTT
54675373 TCAATTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 16 0.70
21 3 0.13
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCTGTTTTTCTGTC
Found at i:54683154 original size:36 final size:36
Alignment explanation
Indices: 54683107--54683179 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
54683097 CACACTTAAA
54683107 CTTTTTTACATTTTTTAATTTAGTAGTCTCTATTGC
1 CTTTTTTACATTTTTTAATTTAGTAGTCTCTATTGC
54683143 CTTTTTTACATTTTTTAATTTAGTAGTCTCTATTGC
1 CTTTTTTACATTTTTTAATTTAGTAGTCTCTATTGC
54683179 C
1 C
54683180 ATGTAATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (36 bp):
CTTTTTTACATTTTTTAATTTAGTAGTCTCTATTGC
Found at i:54688074 original size:51 final size:50
Alignment explanation
Indices: 54687944--54688132 Score: 238
Period size: 51 Copynumber: 3.7 Consensus size: 50
54687934 ACTATTATCA
* * *
54687944 TTCGATACACGTAGTAGCCTTCACATGGTACTACACACGTGATC-AAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGTT
*
54687993 TTACGATCCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAG-TT
* * * * *
54688045 TTTGGTACACGTAGTAGCCTTCACTTAGTACTACACATGTGACTATTA-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AAGTT
*
54688095 TATCGATACACGTTGTAGCCTTCACATAGTACTACACA
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACA
54688133 CGTGTTCATC
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
49 2 0.02
50 41 0.34
51 73 0.60
52 5 0.04
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGTT
Found at i:54696557 original size:41 final size:41
Alignment explanation
Indices: 54696427--54696549 Score: 156
Period size: 41 Copynumber: 3.0 Consensus size: 41
54696417 TTGCCTGATT
* *
54696427 TGATACACCGGCACAAAGCCTAATAGGCTCAAGGCCTGATA
1 TGATACACCGGCACAAAGCCTGATAGGCTCAAGGCCCGATA
* * * * *
54696468 TGATACACTGACACAAAGACTGCTAGGCTCAAGTCCCGATA
1 TGATACACCGGCACAAAGCCTGATAGGCTCAAGGCCCGATA
** *
54696509 TGATACACCGGCATGAAGCCTGTTAGGCTCAAGGCCCGATA
1 TGATACACCGGCACAAAGCCTGATAGGCTCAAGGCCCGATA
54696550 CAATACACTC
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.19
Consensus pattern (41 bp):
TGATACACCGGCACAAAGCCTGATAGGCTCAAGGCCCGATA
Found at i:54702377 original size:24 final size:27
Alignment explanation
Indices: 54702332--54702389 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 27
54702322 AGAACAACGG
* *
54702332 GGAGTAAA-AAAAATGAAGAAGAAA-A
1 GGAGAAAACAAAAATGAAAAAGAAAGA
54702357 -GAGAAAACAAAAAT-AAAAAGAAAGA
1 GGAGAAAACAAAAATGAAAAAGAAAGA
54702382 GGAGAAAA
1 GGAGAAAA
54702390 AGAATGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 14 0.50
25 7 0.25
26 7 0.25
ACGTcount: A:0.71, C:0.02, G:0.22, T:0.05
Consensus pattern (27 bp):
GGAGAAAACAAAAATGAAAAAGAAAGA
Found at i:54711366 original size:12 final size:12
Alignment explanation
Indices: 54711349--54711379 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
54711339 CCACTATGCC
54711349 TCACATGGTCTG
1 TCACATGGTCTG
54711361 TCACATGGTCTG
1 TCACATGGTCTG
*
54711373 GCACATG
1 TCACATG
54711380 ATCGTGTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (12 bp):
TCACATGGTCTG
Found at i:54714096 original size:41 final size:41
Alignment explanation
Indices: 54714051--54714138 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
54714041 GCTAGACACG
* * * *
54714051 ATACACAAGTACGAAGACTTCTAGGCTCAAGGCACGATACA
1 ATACACAAGCACGAAGACTACTAGACTCAAAGCACGATACA
** * * *
54714092 ATACACCGGCACGAAGCCTACTAGACTCAAAGCCCGATATA
1 ATACACAAGCACGAAGACTACTAGACTCAAAGCACGATACA
54714133 ATACAC
1 ATACAC
54714139 CCAACACATT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.16
Consensus pattern (41 bp):
ATACACAAGCACGAAGACTACTAGACTCAAAGCACGATACA
Found at i:54714139 original size:41 final size:41
Alignment explanation
Indices: 54714061--54714139 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
54714051 ATACACAAGT
* * *
54714061 ACGAAGACTTCTAGGCTCAAGGCACGATACAATACACCGGC
1 ACGAAGACTACTAGACTCAAAGCACGATACAATACACCGGC
* * *
54714102 ACGAAGCCTACTAGACTCAAAGCCCGATATAATACACC
1 ACGAAGACTACTAGACTCAAAGCACGATACAATACACC
54714140 CAACACATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.15
Consensus pattern (41 bp):
ACGAAGACTACTAGACTCAAAGCACGATACAATACACCGGC
Found at i:54716738 original size:10 final size:8
Alignment explanation
Indices: 54716715--54716743 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
54716705 ATATTATCAT
54716715 TTCACACA
1 TTCACACA
54716723 TTCACACA
1 TTCACACA
54716731 TTCACACA
1 TTCACACA
54716739 TTCAC
1 TTCAC
54716744 TTTCATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (8 bp):
TTCACACA
Found at i:54717629 original size:26 final size:26
Alignment explanation
Indices: 54717574--54717646 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
54717564 GGAAAATTTT
* * *
54717574 CCTTTCTTTTCTTTTCTTTCTTCCTT
1 CCTTTTTTTTATTTTCTTTCTTCCTC
54717600 CCTTTTTTTTATTTTCCTTTCTTCC-C
1 CCTTTTTTTTATTTT-CTTTCTTCCTC
* *
54717626 CC-TTTATTTA-TTTGTTTCTTC
1 CCTTTTTTTTATTTTCTTTCTTC
54717647 AGCTCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 7 0.17
24 3 0.07
25 7 0.17
26 15 0.37
27 9 0.22
ACGTcount: A:0.04, C:0.27, G:0.01, T:0.67
Consensus pattern (26 bp):
CCTTTTTTTTATTTTCTTTCTTCCTC
Found at i:54727156 original size:18 final size:18
Alignment explanation
Indices: 54727135--54727178 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
54727125 TAATTGGATA
* *
54727135 TAGATACATATTTAGATT
1 TAGATACATAATCAGATT
*
54727153 TAGACACATAATCAGATT
1 TAGATACATAATCAGATT
54727171 TAGATACA
1 TAGATACA
54727179 ATTGCAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (18 bp):
TAGATACATAATCAGATT
Found at i:54727406 original size:74 final size:74
Alignment explanation
Indices: 54727285--54727433 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
54727275 ATGAGTCCAT
*
54727285 TCATCCAATCACACCAGTTTATGGTGGTATGCCACTTATAATAGTGCAGCTGATCTGCTAGACAA
1 TCATCCAATCACACCAGTTCATGGTGGTATGCCACTTATAATAGTGCAGCTGATCTGCTAGACAA
54727350 ATATTGCGG
66 ATATTGCGG
54727359 TCATCCAATCACACCAGTTCATGGTGGTATGCCACTTATAATAGTGCAGCTGATCTGCTAGACAA
1 TCATCCAATCACACCAGTTCATGGTGGTATGCCACTTATAATAGTGCAGCTGATCTGCTAGACAA
54727424 ATATTGCGG
66 ATATTGCGG
54727433 T
1 T
54727434 TTAATTGCCA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (74 bp):
TCATCCAATCACACCAGTTCATGGTGGTATGCCACTTATAATAGTGCAGCTGATCTGCTAGACAA
ATATTGCGG
Found at i:54728651 original size:9 final size:9
Alignment explanation
Indices: 54728615--54728647 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
54728605 TAAAAATAAT
54728615 AATAAGAAA
1 AATAAGAAA
54728624 AATAAGAAA
1 AATAAGAAA
54728633 AATAA-ATAA
1 AATAAGA-AA
54728642 AATAAG
1 AATAAG
54728648 TAAATGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.05
9 21 0.95
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (9 bp):
AATAAGAAA
Found at i:54736462 original size:21 final size:22
Alignment explanation
Indices: 54736412--54736462 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
54736402 ACTGTGTGAC
* *
54736412 AAGGTACACAGCCATGTGGCTG
1 AAGGTACACACCCATGCGGCTG
*
54736434 AAGG-ACACACCCTTGCGGCTG
1 AAGGTACACACCCATGCGGCTG
54736455 -AGGTACAC
1 AAGGTACAC
54736463 GGTCGTACGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 18 0.72
22 4 0.16
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.16
Consensus pattern (22 bp):
AAGGTACACACCCATGCGGCTG
Found at i:54739960 original size:15 final size:15
Alignment explanation
Indices: 54739940--54739971 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
54739930 CTACATCTCG
54739940 TCGCATATTTTACTC
1 TCGCATATTTTACTC
54739955 TCGCATATTTTACTC
1 TCGCATATTTTACTC
54739970 TC
1 TC
54739972 ACTGTTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.28, G:0.06, T:0.47
Consensus pattern (15 bp):
TCGCATATTTTACTC
Found at i:54745418 original size:17 final size:17
Alignment explanation
Indices: 54745396--54745429 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
54745386 GATATTACTT
54745396 AAAATAAAAATAAATTA
1 AAAATAAAAATAAATTA
54745413 AAAATAAAAATAAATTA
1 AAAATAAAAATAAATTA
54745430 TAATTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAAAAATAAATTA
Found at i:54745434 original size:6 final size:6
Alignment explanation
Indices: 54745425--54745451 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
54745415 AATAAAAATA
54745425 AATTAT AATTAT AATTAT AATTAT AAT
1 AATTAT AATTAT AATTAT AATTAT AAT
54745452 GATTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:54746480 original size:15 final size:16
Alignment explanation
Indices: 54746460--54746494 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
54746450 TTAAACAAGG
54746460 TTAAAGATTAATT-AA
1 TTAAAGATTAATTAAA
*
54746475 TTAAAGTTTAATTAAA
1 TTAAAGATTAATTAAA
54746491 TTAA
1 TTAA
54746495 TTAAGGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (16 bp):
TTAAAGATTAATTAAA
Found at i:54746494 original size:20 final size:19
Alignment explanation
Indices: 54746469--54746522 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
54746459 GTTAAAGATT
*
54746469 AATTAATTAAAGTTTAATTA
1 AATTAATT-AAGGTTAATTA
54746489 AATTAATTAAGGTTAATTA
1 AATTAATTAAGGTTAATTA
*
54746508 ACTTATAATTAAGGT
1 A-AT-TAATTAAGGT
54746523 ATAAAAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 11 0.37
20 9 0.30
21 10 0.33
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (19 bp):
AATTAATTAAGGTTAATTA
Found at i:54747646 original size:30 final size:30
Alignment explanation
Indices: 54747610--54747816 Score: 220
Period size: 30 Copynumber: 6.9 Consensus size: 30
54747600 TGAGTAACCA
*
54747610 CAATTATAATGTTAGCTTGTGTGAGCAATT
1 CAATTATAATGTCAGCTTGTGTGAGCAATT
* *
54747640 CAATTATAATGTCAGCTTGTTTGAGCAATC
1 CAATTATAATGTCAGCTTGTGTGAGCAATT
*
54747670 CGATTATAATGTCAGCTTGTGTGAG-AATT
1 CAATTATAATGTCAGCTTGTGTGAGCAATT
** *
54747699 CAATTATAATGTCAATTTGTGTGAGAAATT
1 CAATTATAATGTCAGCTTGTGTGAGCAATT
** * * * *
54747729 TGATTATAATGTCAGGTTATATGAGAAATT
1 CAATTATAATGTCAGCTTGTGTGAGCAATT
* * *
54747759 CGATTATAATGTGAGCTTGTGTGAG-AAAT
1 CAATTATAATGTCAGCTTGTGTGAGCAATT
* * *
54747788 CTAATTATAACGTCAACTTTTGTGAGCAA
1 C-AATTATAATGTCAGCTTGTGTGAGCAA
54747817 CCATAAAAAT
Statistics
Matches: 148, Mismatches: 26, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
29 29 0.20
30 117 0.79
31 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (30 bp):
CAATTATAATGTCAGCTTGTGTGAGCAATT
Found at i:54747763 original size:89 final size:89
Alignment explanation
Indices: 54747610--54747813 Score: 257
Period size: 89 Copynumber: 2.3 Consensus size: 89
54747600 TGAGTAACCA
* ** * * * *
54747610 CAATTATAATGTTAGCTTGTGTGAGCAATTCAATTATAATGTCAGCTTGTTTGAGCAATCCGATT
1 CAATTATAATGTCAATTTGTGTGAGAAATTCAATTATAATGTCAGCTTATATGAGAAATCCGATT
*
54747675 ATAATGTCAGCTTGTGTGAGAATT
66 ATAATGTCAGCTTGTGTGAGAAAT
** * *
54747699 CAATTATAATGTCAATTTGTGTGAGAAATTTGATTATAATGTCAGGTTATATGAGAAATTCGATT
1 CAATTATAATGTCAATTTGTGTGAGAAATTCAATTATAATGTCAGCTTATATGAGAAATCCGATT
*
54747764 ATAATGTGAGCTTGTGTGAGAAAT
66 ATAATGTCAGCTTGTGTGAGAAAT
*
54747788 CTAATTATAACGTCAACTTT-TGTGAG
1 C-AATTATAATGTCAA-TTTGTGTGAG
54747814 CAACCATAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
89 77 0.78
90 19 0.19
91 3 0.03
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (89 bp):
CAATTATAATGTCAATTTGTGTGAGAAATTCAATTATAATGTCAGCTTATATGAGAAATCCGATT
ATAATGTCAGCTTGTGTGAGAAAT
Found at i:54760668 original size:29 final size:29
Alignment explanation
Indices: 54760621--54760677 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
54760611 ATTTAGCGCG
*
54760621 CTCTTTGTTTGATTGAAGCACTTTGGTGC
1 CTCTTTGTTTGATTAAAGCACTTTGGTGC
54760650 CTCTTTGTTTTGA-TAAAGCACTTTGGTG
1 CTCTTTG-TTTGATTAAAGCACTTTGGTG
54760678 TTGGTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.46
Consensus pattern (29 bp):
CTCTTTGTTTGATTAAAGCACTTTGGTGC
Found at i:54763206 original size:18 final size:18
Alignment explanation
Indices: 54763179--54763221 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
54763169 CATATATTGA
54763179 TATATATT-AATTAATTTT
1 TATATATTAAATT-ATTTT
*
54763197 TATATTTTAAATTATTTT
1 TATATATTAAATTATTTT
*
54763215 TACATAT
1 TATATAT
54763222 ATTGCAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATATTAAATTATTTT
Found at i:54763811 original size:23 final size:23
Alignment explanation
Indices: 54763765--54763830 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
54763755 TTCAACTATG
*
54763765 ATTAAATTTAATC-ACT-TTAAT
1 ATTAAATTTAATCTAATATTAAT
54763786 ATTAAATTTAATCTAATATTAAT
1 ATTAAATTTAATCTAATATTAAT
* * *
54763809 ATTAGATTAAATTTAATATTAA
1 ATTAAATTTAATCTAATATTAA
54763831 ATCTTATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.33
22 2 0.05
23 24 0.62
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTAAATTTAATCTAATATTAAT
Found at i:54763890 original size:17 final size:16
Alignment explanation
Indices: 54763868--54763960 Score: 61
Period size: 17 Copynumber: 5.6 Consensus size: 16
54763858 CTACAAGGTA
54763868 AATATTAAATTAAATTT
1 AATATTAAATTAAA-TT
54763885 AATATTAAGA-TAATCACTCT
1 AATATTAA-ATTAA--A-T-T
*
54763905 AATATTAAATTAAA-A
1 AATATTAAATTAAATT
54763920 AATATT--ATTAAGA-T
1 AATATTAAATTAA-ATT
54763934 AAGTATTAAATTAAATTT
1 AA-TATTAAATTAAA-TT
54763952 AATATTAAA
1 AATATTAAA
54763961 CTATTAAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 22
0.71 0.03 0.25
Matches are distributed among these distances:
13 5 0.08
14 3 0.05
15 10 0.16
16 1 0.02
17 23 0.37
18 5 0.08
19 3 0.05
20 12 0.19
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
AATATTAAATTAAATT
Found at i:54776422 original size:43 final size:43
Alignment explanation
Indices: 54776369--54776450 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
54776359 GAAAAAAAAT
*
54776369 AGAACCAAAAGTTATTATATATGGTGCCTTCATTTTAAACTAC
1 AGAAACAAAAGTTATTATATATGGTGCCTTCATTTTAAACTAC
*
54776412 AGAAACAAAAGTTATTATATATGGTGCTTTCATTTTAAA
1 AGAAACAAAAGTTATTATATATGGTGCCTTCATTTTAAA
54776451 AGAGAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (43 bp):
AGAAACAAAAGTTATTATATATGGTGCCTTCATTTTAAACTAC
Found at i:54776457 original size:41 final size:41
Alignment explanation
Indices: 54776364--54776457 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 41
54776354 TAAAAGAAAA
* *
54776364 AAAATAGAACCAAAAGTTATTATATATGGTGCCTTCATTTT
1 AAAACAGAAACAAAAGTTATTATATATGGTGCCTTCATTTT
*
54776405 AAACTACAGAAACAAAAGTTATTATATATGGTGCTTTCATTTT
1 AAA--ACAGAAACAAAAGTTATTATATATGGTGCCTTCATTTT
*
54776448 AAAAGAGAAA
1 AAAACAGAAA
54776458 TAAACCAGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.19
43 38 0.81
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (41 bp):
AAAACAGAAACAAAAGTTATTATATATGGTGCCTTCATTTT
Found at i:54777850 original size:148 final size:149
Alignment explanation
Indices: 54777562--54778065 Score: 874
Period size: 148 Copynumber: 3.4 Consensus size: 149
54777552 TTTTGCGCCG
* * *
54777562 TTTTTCATAAAAGCGC-G-ACAAAAAAAGTCATTTTGAACAAAACTATGCCGTTTTGCTATGATA
1 TTTTTCATAAAAGCGCTGCA-AAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTA
54777625 TGCTAAAA-GGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTTATAAAAACGCCGC
65 TGCTAAAAGGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCG-TTTTTTATAAAAACGCCGC
54777689 TATTGCTTACCTTTAGCGGCA
129 TATTGCTTACCTTTAGCGGCA
*
54777710 TTTTTCATAAAAGCGCTGCAAAAAAAATTCATTTTGAACAAAACTATGCCGTTTTGCTATGCTAT
1 TTTTTCATAAAAGCGCTGCAAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTAT
*
54777775 GCTAAAAGGGGGCT-TTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTA
66 GCTAAAAGGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTA
*
54777839 TTGCTTACCTTTAGCGGTA
131 TTGCTTACCTTTAGCGGCA
*
54777858 TTTTTCATAAAAGCGCTGCAAAAAAAATTCATTTTGAACAAAACTACACCGTTTTGCTATGCTAT
1 TTTTTCATAAAAGCGCTGCAAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTAT
54777923 GCTAAAAGGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTA
66 GCTAAAAGGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTA
*
54777988 TTGCTTACCTTTAGCGGCG
131 TTGCTTACCTTTAGCGGCA
*
54778007 TTTTTCATAAAAGCGCCGC-AAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTAT
1 TTTTTCATAAAAGCGCTGCAAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTAT
54778066 TCTAAAAATT
Statistics
Matches: 341, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
148 170 0.50
149 164 0.48
150 7 0.02
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (149 bp):
TTTTTCATAAAAGCGCTGCAAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTAT
GCTAAAAGGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTA
TTGCTTACCTTTAGCGGCA
Found at i:54778540 original size:14 final size:13
Alignment explanation
Indices: 54778521--54778569 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
54778511 AACCTTAATT
54778521 CCCTAACTCTTAAC
1 CCCTAACTC-TAAC
54778535 CCCTAACATCTAAC
1 CCCTAAC-TCTAAC
*
54778549 CCATAAACTCCTAAC
1 CCCT-AACT-CTAAC
54778564 CCCTAA
1 CCCTAA
54778570 ACCTTAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (13 bp):
CCCTAACTCTAAC
Found at i:54778855 original size:15 final size:15
Alignment explanation
Indices: 54778835--54778889 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
54778825 CCTAGCACGT
54778835 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
54778850 CTAACCCTCT-AACCC
1 CTAACCC-CTAAACCC
* * *
54778865 CTAAACCTTAAATCC
1 CTAACCCCTAAACCC
54778880 C-AACCCCTAA
1 CTAACCCCTAA
54778890 TCCATAATCC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 8 0.24
15 23 0.70
16 2 0.06
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.18
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:54778871 original size:8 final size:7
Alignment explanation
Indices: 54778835--54778868 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
54778825 CCTAGCACGT
54778835 CTAACCC
1 CTAACCC
54778842 CTAAACCC
1 CT-AACCC
54778850 CTAACCC
1 CTAACCC
54778857 TCTAACCC
1 -CTAACCC
54778865 CTAA
1 CTAA
54778869 ACCTTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAACCC
Found at i:54778903 original size:14 final size:14
Alignment explanation
Indices: 54778884--54778912 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
54778874 AAATCCCAAC
54778884 CCCTAATCCATAAT
1 CCCTAATCCATAAT
54778898 CCCTAATCCATAAT
1 CCCTAATCCATAAT
54778912 C
1 C
54778913 TATAAACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (14 bp):
CCCTAATCCATAAT
Found at i:54779348 original size:73 final size:74
Alignment explanation
Indices: 54779178--54779352 Score: 271
Period size: 73 Copynumber: 2.4 Consensus size: 74
54779168 CTAAGCATTA
* *
54779178 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGGCGTTGTTTTGGCTT
1 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGACGTTGTTTTGGCTT
*
54779243 AGGTTTTTT
66 AGGTTCTTT
* * *
54779252 GCGGCGCTTGCTCAAAAATGCCGCTAAATCCCCCAAAGCTCACAAAAC-GACGTTGTTTTGGCTT
1 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGACGTTGTTTTGGCTT
54779316 AGGTTCTTT
66 AGGTTCTTT
* *
54779325 GCGGCGCTTTCTTGAAAACGCCGCTAAA
1 GCGGCGCTTCCTTAAAAACGCCGCTAAA
54779353 GCCCTGAGCA
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 47 0.52
74 44 0.48
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (74 bp):
GCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGACGTTGTTTTGGCTT
AGGTTCTTT
Found at i:54779365 original size:188 final size:185
Alignment explanation
Indices: 54779084--54779466 Score: 577
Period size: 188 Copynumber: 2.1 Consensus size: 185
54779074 TTATTTTTTT
* * *** *
54779084 CGCCGCTAAATCCCCGAAAGCTCACAAAATGACATCGTTTGGTTTTTTTTTTTGCGGCGCTTTCC
1 CGCCGCTAAATCCCCCAAAGCTCACAAAACGACATCGTTTGGTTAGGTTCTTTGCGGCGCTTTCC
*
54779149 TAAAAATGCCGCTAAAGACCTAAGCATTAGCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCGAA
66 TAAAAACGCCGCTAAAGACCTAAGCATTAGCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCGAA
* *
54779214 AGCTCACAAAACGGGCGTTGTTTTGGCTTAGGTTTTTTGCGGCGCTTGCTCAAAAA
131 AGCTCACAAAAC-GGCGTTGTTTTGGCTTAGGTTTTTTGCGACACTTGCTCAAAAA
* * *
54779270 TGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTTGTTTTGGCTTAGGTTCTTTGCGGCGCTTT
1 CGCCGCTAAATCCCCCAAAGCTCACAAAACGACATCG-TTTGG-TTAGGTTCTTTGCGGCGCTTT
* * * * *
54779335 CTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCG
64 CCTAAAAACGCCGCTAAAGACCTAAGCATTAGCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCG
*
54779400 AAAGCTCACAAAACGGCGTTGTTTTGGCTTAGGTTTTTTGCGACACTTTCTCAAAAA
129 AAAGCTCACAAAACGGCGTTGTTTTGGCTTAGGTTTTTTGCGACACTTGCTCAAAAA
54779457 CGCCGCTAAA
1 CGCCGCTAAA
54779467 GCCCTGAGCA
Statistics
Matches: 176, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
186 32 0.18
187 54 0.31
188 90 0.51
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (185 bp):
CGCCGCTAAATCCCCCAAAGCTCACAAAACGACATCGTTTGGTTAGGTTCTTTGCGGCGCTTTCC
TAAAAACGCCGCTAAAGACCTAAGCATTAGCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCGAA
AGCTCACAAAACGGCGTTGTTTTGGCTTAGGTTTTTTGCGACACTTGCTCAAAAA
Found at i:54779457 original size:114 final size:114
Alignment explanation
Indices: 54779252--54779580 Score: 480
Period size: 114 Copynumber: 2.9 Consensus size: 114
54779242 TAGGTTTTTT
* * * *
54779252 GCGGCGCTTGCTCAAAAATGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTTGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
* **
54779317 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTA
66 GGTTTTTTGCGGCGCTTTCTAAAAAACGCCGCTAAAGCCCTGAGCATTA
*
54779366 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
* * *
54779431 GGTTTTTTGCGACACTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GGTTTTTTGCGGCGCTTTCTAAAAAACGCCGCTAAAGCCCTGAGCATTA
* * ** *
54779480 GCGGCGCTTTCCTT-AAAGCGCCACTAAATCCCCGAAAGCTCACAAAACGACGTCATTTTTGCTT
1 GCGGCGCTTT-CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTTGTTTTGGCTT
* *
54779544 AGGTTTTTTGCGGCGCTTTTTAAAAAATGCCGCTAAA
65 AGGTTTTTTGCGGCGCTTTCTAAAAAACGCCGCTAAA
54779581 TCCCCCAAAG
Statistics
Matches: 193, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
114 190 0.98
115 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACGTTGTTTTGGCTTA
GGTTTTTTGCGGCGCTTTCTAAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:54779580 original size:73 final size:73
Alignment explanation
Indices: 54779483--54779653 Score: 229
Period size: 73 Copynumber: 2.3 Consensus size: 73
54779473 AGCATTAGCG
* * * *
54779483 GCGCTTTCCTT-AAAGCGCCACTAAATCCCCGAAAGCTCACAAAACGACGTCATTTTTGCTTAGG
1 GCGCTTT-CTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCATTTTGGCTTAGG
* *
54779547 TTTTTTGCG
65 TTCTTTGCA
* * *
54779556 GCGCTTT-TTAAAAAATGCCGCTAAATCCCCCAAAGCTCACAAAACGATGTCGTTTTGGCTTAGG
1 GCGCTTTCTT-AAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCATTTTGGCTTAGG
54779620 TTCTTTGCA
65 TTCTTTGCA
54779629 GCGCTTTCTTAAAAACGCCGCTAAA
1 GCGCTTTCTTAAAAACGCCGCTAAA
54779654 GCTATTGTTC
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
71 2 0.02
73 81 0.95
74 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (73 bp):
GCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCATTTTGGCTTAGGT
TCTTTGCA
Found at i:54779997 original size:18 final size:18
Alignment explanation
Indices: 54779974--54780009 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
54779964 CTTTCTATTT
54779974 TTCTAATAAAAGAAGTTG
1 TTCTAATAAAAGAAGTTG
54779992 TTCTAATAAAAGAAGTTG
1 TTCTAATAAAAGAAGTTG
54780010 AGGTGTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (18 bp):
TTCTAATAAAAGAAGTTG
Found at i:54780083 original size:18 final size:18
Alignment explanation
Indices: 54780060--54780095 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
54780050 GTGAATGTGG
54780060 TTTTTTAATTATATTTTA
1 TTTTTTAATTATATTTTA
* *
54780078 TTTTTTTATTATCTTTTA
1 TTTTTTAATTATATTTTA
54780096 ATTGTGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTAATTATATTTTA
Found at i:54784113 original size:22 final size:22
Alignment explanation
Indices: 54784088--54784179 Score: 141
Period size: 22 Copynumber: 4.2 Consensus size: 22
54784078 AAATTCAATA
54784088 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
54784110 TCAA-TTCCTTTCAAAAATTCTC
1 TCAATTTCC-TTCAAAAATTCTC
* *
54784132 TCAATTCCCTTCAAAACTTCTC
1 TCAATTTCCTTCAAAAATTCTC
*
54784154 TCAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
54784176 TCAA
1 TCAA
54784180 ACTCTCAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
21 4 0.06
22 56 0.89
23 3 0.05
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.39
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:54784185 original size:30 final size:30
Alignment explanation
Indices: 54784151--54784209 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
54784141 TTCAAAACTT
* *
54784151 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
54784181 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
54784210 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:54784185 original size:52 final size:51
Alignment explanation
Indices: 54784129--54784231 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
54784119 TTCAAAAATT
* * *
54784129 CTCTC-AATTCCCTT-CAAAACTTCTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATT-CCTTCCAAAA-TCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
54784181 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
54784232 TCCATATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (51 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:54784220 original size:21 final size:22
Alignment explanation
Indices: 54784181--54784222 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
54784171 TTCTCTCAAA
54784181 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
54784203 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
54784223 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:54784315 original size:28 final size:30
Alignment explanation
Indices: 54784265--54784321 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 30
54784255 TTAAATTTCA
54784265 TTTTTTTAAGAAAATTTTAAAATTTTTTAT
1 TTTTTTTAAGAAAATTTTAAAATTTTTTAT
*
54784295 TTTTTTTAA-ATAATTTT-AAATTTTTTA
1 TTTTTTTAAGAAAATTTTAAAATTTTTTA
54784322 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 10 0.38
29 7 0.27
30 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (30 bp):
TTTTTTTAAGAAAATTTTAAAATTTTTTAT
Found at i:54784328 original size:28 final size:30
Alignment explanation
Indices: 54784267--54784328 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 30
54784257 AAATTTCATT
* *
54784267 TTTTTAAGAAAATTTTAAAATTTTTTATTT
1 TTTTTAAGAAAATTTTAAAATTTTTTAATA
*
54784297 TTTTTAA-ATAATTTT-AAATTTTTTAATA
1 TTTTTAAGAAAATTTTAAAATTTTTTAATA
54784325 TTTT
1 TTTT
54784329 CAACAATGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 15 0.52
29 7 0.24
30 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (30 bp):
TTTTTAAGAAAATTTTAAAATTTTTTAATA
Found at i:54784328 original size:29 final size:30
Alignment explanation
Indices: 54784266--54784328 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
54784256 TAAATTTCAT
*
54784266 TTTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTTAAGAAAATTTTAAAATTTTTTATA
*
54784296 TTTTTTAA-ATAATTTT-AAATTTTTTAATA
1 TTTTTTAAGAAAATTTTAAAATTTTTT-ATA
54784325 TTTT
1 TTTT
54784329 CAACAATGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 9 0.30
29 13 0.43
30 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (30 bp):
TTTTTTAAGAAAATTTTAAAATTTTTTATA
Found at i:54786842 original size:149 final size:149
Alignment explanation
Indices: 54786576--54787217 Score: 1051
Period size: 149 Copynumber: 4.3 Consensus size: 149
54786566 ATTATTTGAC
54786576 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAC
1 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAC
54786641 ATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAA
66 ATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAA
* *
54786706 AACCATAATCCTACTTTAT
131 AACCATAACCCTACTTAAT
54786725 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAC
1 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAC
* *
54786790 CTAACTTAATTAAAAACCCTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAA
66 ATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAA
*
54786855 AACCCTAACCCTACTTAAT
131 AACCATAACCCTACTTAAT
54786874 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAC
1 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAC
*
54786939 ATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAACATAATTTAATTAAA
66 ATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAA
*
54787004 AACCCTAACCCTACTTAAT
131 AACCATAACCCTACTTAAT
54787023 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAC
1 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAC
* * * *
54787088 CTAATTTAATTAAAAACCCTAACATAAC----TT-AATTAAAAACCCTAACATAACTTAATTAAA
66 ATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAA
* ** *
54787148 AACCCTAAGCTAATTTAATTTAAT
131 AACCATAA-C---CCT-ACTTAAT
* *
54787172 TAAAAACCCTAACCCTAACCTAATTTAATTGAAATCCCTAACCTAA
1 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAA
54787218 CCTAATTTAA
Statistics
Matches: 470, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
144 37 0.08
145 3 0.01
148 1 0.00
149 429 0.91
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (149 bp):
TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAC
ATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAA
AACCATAACCCTACTTAAT
Found at i:54787183 original size:23 final size:23
Alignment explanation
Indices: 54786586--54787167 Score: 630
Period size: 23 Copynumber: 23.9 Consensus size: 23
54786576 TAAAAACCCT
54786586 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
54786609 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
54786632 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
54786655 AAACCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
* *
54786683 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
54786706 AACCATAATCCTACTTT-ATTAAAAA
1 AACCCTAA-CCTAATTTAATT--AAA
54786731 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
54786758 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
54786781 AACCCTAACCTAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
54786804 AACCCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
* *
54786832 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
54786855 AACCCTAACCCT-ACTTAATTAAAAA
1 AACCCTAA-CCTAATTTAATT--AAA
54786880 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
54786907 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
54786930 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
54786953 AAACCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
*
54786981 AACCCTAACATAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
54787004 AACCCTAACCCT-ACTTAATTAAAAA
1 AACCCTAA-CCTAATTTAATT--AAA
54787029 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
54787056 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
54787079 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
54787102 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
54787125 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
54787148 AACCCTAAGCTAATTTAATT
1 AACCCTAACCTAATTTAATT
54787168 TAATTAAAAA
Statistics
Matches: 485, Mismatches: 35, Indels: 78
0.81 0.06 0.13
Matches are distributed among these distances:
23 337 0.69
24 15 0.03
25 9 0.02
26 1 0.00
27 15 0.03
28 68 0.14
29 40 0.08
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:54787185 original size:172 final size:167
Alignment explanation
Indices: 54786586--54787242 Score: 758
Period size: 172 Copynumber: 3.8 Consensus size: 167
54786576 TAAAAACCCT
* * * *
54786586 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAAT
1 AACCCTAACATAACTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACATAATTTAAT
* * * * *
54786651 TAAAAAACCTAACCTAACTTAATTAAATTAA---AAACCCTAACATAACTTAATTAAAAACCATA
66 TAAAAACCCTAACCTAACTTAATTAAA--AACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
*
54786713 ATCCTACTTT-ATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
129 A-CCTAATTTAATT--AAA----AACCCTAACCTAATTTAATTAAA
* *
54786758 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAACTTAAT
1 AACCCTAACATAACTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAA-C--A--TAAT
* * *
54786823 TAAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCCT-ACTTAA-TTAA--AAACCCT
61 TTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA----
54786884 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
122 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
*
54786930 AACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAAAAACCCTAACATAAT
1 AACCCTAACATAACTTAATTAAAAACCCTAACCTAAC----TT-AATTAAAAACCCTAACATAAT
54786995 TTAATTAAAAACCCTAACCCT-ACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
61 TTAATTAAAAACCCTAA-CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
54787059 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
125 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
*
54787102 AACCCTAACATAACTTAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAAGCTAATTTAAT
1 AACCCTAACATAACTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAA-C--A--TAAT
*
54787167 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTGAAATCCCTAA-CCTAACCTAATTTAATTA
61 TTAATTAAAAACCCTAA-CCTAACTTAA-TTAA---AAA-CCCTAACCCTAACCTAATTTAATTA
*
54787231 AAAACCCCAACC
120 AAAACCCTAACC
54787243 CTAACCTATT
Statistics
Matches: 432, Mismatches: 19, Indels: 63
0.84 0.04 0.12
Matches are distributed among these distances:
167 15 0.03
168 3 0.01
170 1 0.00
172 259 0.60
173 13 0.03
174 12 0.03
175 3 0.01
176 13 0.03
177 91 0.21
178 22 0.05
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (167 bp):
AACCCTAACATAACTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACATAATTTAAT
TAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
Found at i:54787302 original size:29 final size:29
Alignment explanation
Indices: 54786576--54787292 Score: 404
Period size: 23 Copynumber: 28.2 Consensus size: 29
54786566 ATTATTTGAC
54786576 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54786605 T--AAA----AACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
*
54786628 TAAAAACCCTAA--C--A--TAACTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
* * *
54786651 TAAAAAACCTAA-CCTAACTTAATTAAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
*
54786679 TAAAAACCCTAA--C--A--TAACTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
* * * *
54786702 TAAAAACCATAATCCT-ACTTTA-TTAA-
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54786728 -AAACCCTAACCCT-A-----ACCTAATTTAAT
1 TAAA----AACCCTAACCCTAACCTAATTTAAT
54786754 TAAAAA-CC---C--TAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54786777 TAAAAACCCTAA-CCTAA-C----TTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
* *
54786800 TAAAAACCCTAA-CCTAACTTAATTAAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
*
54786828 TAAAAACCCTAA--C--A--TAACTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54786851 TAAAAACCCTAACCCT-A-C----TTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54786874 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54786903 T--AAA----AACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
*
54786926 TAAAAACCCTAA--C--A--TAACTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
* * *
54786949 TAAAAAACCTAA-CCTAACTTAATTAAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54786977 TAAAAACCCTAA--C--A--TAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54787000 TAAAAACCCTAACCCT-A-C----TTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54787023 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54787052 T--AAA----AACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54787075 TAAAAA-CC---C--TAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
*
54787098 TAAAAACCCTAA--C--A--TAACTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
*
54787121 TAAAAACCCTAA--C--A--TAACTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
* **
54787144 TAAAAACCCTAA-GCTAATTTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54787172 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
* *
54787201 TGAAATCCCTAA-CCTAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
* *
54787229 TAAAAACCCCAACCCTAACCTATTTTACA-
1 TAAAAACCCTAACCCTAACCTAATTTA-AT
* *
54787258 TGAAAACCCTAACCCTAACCTATTTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTAAT
54787287 TAAAAA
1 TAAAAA
54787293 TTCTTACCCT
Statistics
Matches: 566, Mismatches: 36, Indels: 172
0.73 0.05 0.22
Matches are distributed among these distances:
22 2 0.00
23 302 0.53
24 13 0.02
25 28 0.05
26 6 0.01
27 22 0.04
28 104 0.18
29 88 0.16
30 1 0.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (29 bp):
TAAAAACCCTAACCCTAACCTAATTTAAT
Found at i:54790788 original size:124 final size:123
Alignment explanation
Indices: 54790569--54790811 Score: 317
Period size: 124 Copynumber: 2.0 Consensus size: 123
54790559 CACGAGGGCG
* ** * *
54790569 CGATTTGACACTATTTGCTCAGAAACGTCAAAAATTTTTTTTCCTACATGACGAACTGTAGTGAA
1 CGATTTGACACTATTTACTCAGAAACGTCAAAAAAATTATTTCCTACATGACGAACTGTAGCGAA
* * *
54790634 ATCGCGTCCACGAGGGCGCGATTTCACAATTTCCTCTCATATAGCATCCTGGTATCAA
66 ATCGCGTCCACGAGGCCACGATTTCACAATTTCCTCTCAAATAGCATCCTGGTATCAA
* * * *
54790692 CGATTTTATACTATTTACTCAGAAAACGTCAAAAAAAATTATTTCTTACATGAC-CACTGTAGCG
1 CGATTTGACACTATTTACTCAG-AAACGTC-AAAAAAATTATTTCCTACATGACGAACTGTAGCG
* * * *
54790756 AAATCTCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTGGTA
64 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCCTCTCAAATAGCATCCTGGTA
54790812 GAAGAGATTT
Statistics
Matches: 102, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
123 19 0.19
124 64 0.63
125 19 0.19
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (123 bp):
CGATTTGACACTATTTACTCAGAAACGTCAAAAAAATTATTTCCTACATGACGAACTGTAGCGAA
ATCGCGTCCACGAGGCCACGATTTCACAATTTCCTCTCAAATAGCATCCTGGTATCAA
Found at i:54790829 original size:124 final size:123
Alignment explanation
Indices: 54790570--54790846 Score: 308
Period size: 124 Copynumber: 2.2 Consensus size: 123
54790560 ACGAGGGCGC
* * ** * *
54790570 GATTTGACACTATTTGCTCAGAAACGTCAAAAATTTTTTTTCCTACATGACGAACTGTAGTGAAA
1 GATTTCACACTATTTACTCAGAAACGTCAAAAAAATTATTTCCTACATGACGAACTGTAGCGAAA
* * * *
54790635 TCGCGTCCACGAGGGCGCGATTTCACAATTTCCTCTCATATAGCATCCTGGTATCAAC
66 TCGCGTCCACGAGGCCACGATTTCACAATTTCCTCTCAAATAGCATCCTGGTATCAAA
* * * *
54790693 GATTTTATACTATTTACTCAGAAAACGTCAAAAAAAATTATTTCTTACATGAC-CACTGTAGCGA
1 GATTTCACACTATTTACTCAG-AAACGTC-AAAAAAATTATTTCCTACATGACGAACTGTAGCGA
* * * * *
54790757 AATCTCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTGGTA-GAAGA
64 AATCGCGTCCACGAGGCCACGATTTCACAATTTCCTCTCAAATAGCATCCTGGTATCAA-A
* *
54790817 GATTTCCCACTATTTAAC-CAGATACGTCAA
1 GATTTCACACTATTT-ACTCAGAAACGTCAA
54790847 CTCGAAAAAA
Statistics
Matches: 128, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
122 2 0.02
123 26 0.20
124 79 0.62
125 21 0.16
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (123 bp):
GATTTCACACTATTTACTCAGAAACGTCAAAAAAATTATTTCCTACATGACGAACTGTAGCGAAA
TCGCGTCCACGAGGCCACGATTTCACAATTTCCTCTCAAATAGCATCCTGGTATCAAA
Found at i:54792312 original size:17 final size:17
Alignment explanation
Indices: 54792290--54792322 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
54792280 TTACAAAATC
54792290 AAATCTTATAAGATTAT
1 AAATCTTATAAGATTAT
*
54792307 AAATCTTCTAAGATTA
1 AAATCTTATAAGATTA
54792323 GTTTCTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATCTTATAAGATTAT
Found at i:54799852 original size:16 final size:16
Alignment explanation
Indices: 54799831--54799882 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
54799821 TTTGGTTCGC
54799831 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
54799847 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
54799863 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
54799879 TGTA
1 TGTA
54799883 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:54799929 original size:45 final size:44
Alignment explanation
Indices: 54799863--54799957 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
54799853 GGATTAGAGG
*
54799863 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
54799908 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
54799952 TGTAAT
1 TGTAAT
54799958 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:54800138 original size:18 final size:17
Alignment explanation
Indices: 54800117--54800151 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
54800107 TTATTATTAA
*
54800117 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
54800135 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
54800152 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:54805481 original size:22 final size:23
Alignment explanation
Indices: 54805455--54805499 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
54805445 TATTATTCTA
*
54805455 AATTTAATATATTTA-AAAAATT
1 AATTTAACATATTTATAAAAATT
* *
54805477 AATTTCACATTTTTATAAAAATT
1 AATTTAACATATTTATAAAAATT
54805500 TAAAAACCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTTAACATATTTATAAAAATT
Done.