Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 101 of 284
Found at i:33150649 original size:39 final size:39
Alignment explanation
Indices: 33150590--33150690 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
33150580 ATCATGATCT
* *
33150590 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
33150629 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
33150668 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
33150691 TCATCAGAGC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.36, C:0.24, G:0.28, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:33150803 original size:26 final size:26
Alignment explanation
Indices: 33150767--33150817 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
33150757 AAGAGCTAAA
33150767 CAGAAAACAAACACGAGAATTCGCAG
1 CAGAAAACAAACACGAGAATTCGCAG
*
33150793 CAGAAAGCAAACACGAGAATTCGCA
1 CAGAAAACAAACACGAGAATTCGCA
33150818 ACAAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.49, C:0.24, G:0.20, T:0.08
Consensus pattern (26 bp):
CAGAAAACAAACACGAGAATTCGCAG
Found at i:33153711 original size:23 final size:23
Alignment explanation
Indices: 33153663--33153712 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
33153653 TTCTCCCTTC
**
33153663 TTTATTTCTTTTATATTTTTTCA
1 TTTATTTCTTTTATATTTTTAAA
*
33153686 TTTATTT-TTTTATGTTTTCTAAA
1 TTTATTTCTTTTATATTTT-TAAA
33153709 TTTA
1 TTTA
33153713 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTATTTCTTTTATATTTTTAAA
Found at i:33154755 original size:26 final size:26
Alignment explanation
Indices: 33154726--33154781 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
33154716 TGATACAAAT
*
33154726 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33154752 TGATAATGGGTTGGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33154778 TGAT
1 TGAT
33154782 GGGAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33160090 original size:55 final size:55
Alignment explanation
Indices: 33160024--33160134 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
33160014 CTTTTCAAGA
33160024 AGATTTTCTCTTTGTTTTTATCAAGAATAATTTTTTTAATATTATTTTTAATCCT
1 AGATTTTCTCTTTGTTTTTATCAAGAATAATTTTTTTAATATTATTTTTAATCCT
33160079 AGATTTTCTCTTTGTTTTTATCAAGAATAATTTTTTTAATATTATTTTTAATCCT
1 AGATTTTCTCTTTGTTTTTATCAAGAATAATTTTTTTAATATTATTTTTAATCCT
33160134 A
1 A
33160135 TAAAAATATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (55 bp):
AGATTTTCTCTTTGTTTTTATCAAGAATAATTTTTTTAATATTATTTTTAATCCT
Found at i:33162511 original size:177 final size:177
Alignment explanation
Indices: 33162215--33162601 Score: 758
Period size: 177 Copynumber: 2.2 Consensus size: 177
33162205 GAGAGTGAGA
33162215 AGTAAAAATT-TAGGGGGAAAATAAAAAGTTTTGGAGTATAAAAGTTTGAGGGAAAGTAAATAAG
1 AGTAAAAATTAT-GGGGGAAAATAAAAAGTTTTGGAGTATAAAAGTTTGAGGGAAAGTAAATAAG
33162279 GGGGAGTAAAATTTTGGAGGGAAAATATTAAAAAAAAATTGGGGGGGTGGATTTGGGGTAGATAG
65 GGGGAGTAAAATTTTGGAGGGAAAATATTAAAAAAAAATTGGGGGGGTGGATTTGGGGTAGATAG
33162344 GAGGTGGGATTGGAAGGAAGTAAAAATTTTAGGGGGAAAGTGGGAGGG
130 GAGGTGGGATTGGAAGGAAGTAAAAATTTTAGGGGGAAAGTGGGAGGG
33162392 AGTAAAAATTATGGGGGAAAATAAAAAGTTTTGGAGTATAAAAGTTTGAGGGAAAGTAAATAAGG
1 AGTAAAAATTATGGGGGAAAATAAAAAGTTTTGGAGTATAAAAGTTTGAGGGAAAGTAAATAAGG
33162457 GGGAGTAAAATTTTGGAGGGAAAATATTAAAAAAAAATTGGGGGGGTGGATTTGGGGTAGATAGG
66 GGGAGTAAAATTTTGGAGGGAAAATATTAAAAAAAAATTGGGGGGGTGGATTTGGGGTAGATAGG
33162522 AGGTGGGATTGGAAGGAAGTAAAAATTTTAGGGGGAAAGTGGGAGGG
131 AGGTGGGATTGGAAGGAAGTAAAAATTTTAGGGGGAAAGTGGGAGGG
33162569 AGTAAAAATTATGGGGGAAAATAAAAAGTTTTG
1 AGTAAAAATTATGGGGGAAAATAAAAAGTTTTG
33162602 AGGGTTTTTG
Statistics
Matches: 209, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
177 208 1.00
178 1 0.00
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.24
Consensus pattern (177 bp):
AGTAAAAATTATGGGGGAAAATAAAAAGTTTTGGAGTATAAAAGTTTGAGGGAAAGTAAATAAGG
GGGAGTAAAATTTTGGAGGGAAAATATTAAAAAAAAATTGGGGGGGTGGATTTGGGGTAGATAGG
AGGTGGGATTGGAAGGAAGTAAAAATTTTAGGGGGAAAGTGGGAGGG
Found at i:33164458 original size:37 final size:37
Alignment explanation
Indices: 33164416--33164491 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
33164406 TAATTATGAC
33164416 TTAAAATGGCTTAATTGCTAACATACTCTTAGATTAA
1 TTAAAATGGCTTAATTGCTAACATACTCTTAGATTAA
*
33164453 TTAAAATGGCTTAATTGCTAACGTACTCTTAGATTAA
1 TTAAAATGGCTTAATTGCTAACATACTCTTAGATTAA
33164490 TT
1 TT
33164492 GCTATTTAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (37 bp):
TTAAAATGGCTTAATTGCTAACATACTCTTAGATTAA
Found at i:33170551 original size:16 final size:15
Alignment explanation
Indices: 33170506--33170556 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
33170496 ATTACTTTTG
* *
33170506 AAAATTATTGTTAAA
1 AAAATGATTTTTAAA
*
33170521 AAAATGCTTTTTAAA
1 AAAATGATTTTTAAA
*
33170536 AAAGTGATTTTGTAAA
1 AAAATGATTTT-TAAA
33170552 AAAAT
1 AAAAT
33170557 ACATTTTTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
15 21 0.72
16 8 0.28
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (15 bp):
AAAATGATTTTTAAA
Found at i:33170555 original size:31 final size:31
Alignment explanation
Indices: 33170517--33170582 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
33170507 AAATTATTGT
*
33170517 TAAAAAAATGC-TTTTTAAAAAAGTGATTTTG
1 TAAAAAAATACATTTTT-AAAAAGTGATTTTG
*
33170548 TAAAAAAATACATTTTTCAAAAGTGATTTTG
1 TAAAAAAATACATTTTTAAAAAGTGATTTTG
33170579 -AAAA
1 TAAAA
33170583 TTTTGGTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 4 0.12
31 23 0.72
32 5 0.16
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (31 bp):
TAAAAAAATACATTTTTAAAAAGTGATTTTG
Found at i:33174364 original size:15 final size:17
Alignment explanation
Indices: 33174333--33174364 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33174323 CAATTTGGAA
33174333 TAAAATATATAAATAAT
1 TAAAATATATAAATAAT
33174350 TAAAATA-AT-AATAAT
1 TAAAATATATAAATAAT
33174365 AATATATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATATATAAATAAT
Found at i:33179272 original size:15 final size:15
Alignment explanation
Indices: 33179252--33179283 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
33179242 TTCAAAATTA
33179252 TTTCTAAAACCACAC
1 TTTCTAAAACCACAC
33179267 TTTCTAAAACCACAC
1 TTTCTAAAACCACAC
33179282 TT
1 TT
33179284 AACTTTTACT
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:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (15 bp):
TTTCTAAAACCACAC
Found at i:33181597 original size:32 final size:26
Alignment explanation
Indices: 33181526--33181582 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
33181516 AAATTGAGAG
33181526 AATTTTGAAATTAGGGTTTATGGCGA
1 AATTTTGAAATTAGGGTTTATGGCGA
*
33181552 AATTTTGAAATTAGGGTTTATGGTGA
1 AATTTTGAAATTAGGGTTTATGGCGA
33181578 AATTT
1 AATTT
33181583 GAAGGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.42
Consensus pattern (26 bp):
AATTTTGAAATTAGGGTTTATGGCGA
Found at i:33185636 original size:18 final size:20
Alignment explanation
Indices: 33185613--33185657 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
33185603 AATAAAAGAA
*
33185613 TATAAAAATAT-TAAAA-AT
1 TATAAAAAAATGTAAAATAT
*
33185631 TATAAAAAAATGTAAAATTT
1 TATAAAAAAATGTAAAATAT
33185651 TATAAAA
1 TATAAAA
33185658 TTTGTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 5 0.22
20 8 0.35
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TATAAAAAAATGTAAAATAT
Found at i:33185638 original size:29 final size:28
Alignment explanation
Indices: 33185587--33185677 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 28
33185577 AAAAGTTATA
** *
33185587 AAAAATATTAAATTTTAATAAAAGAATAT
1 AAAAATATTAAAAATT-ATAAAAAAATAT
*
33185616 AAAAATATTAAAAATTATAAAAAAATGT
1 AAAAATATTAAAAATTATAAAAAAATAT
* *
33185644 -AAAATTTTATAAAATTTGTAAAAAAATTAT
1 AAAAATATTA-AAAA-TTATAAAAAAA-TAT
33185674 AAAA
1 AAAA
33185678 TTTATAGAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 8 0.16
28 14 0.27
29 24 0.47
30 2 0.04
31 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAAATATTAAAAATTATAAAAAAATAT
Found at i:33185677 original size:30 final size:30
Alignment explanation
Indices: 33185624--33185735 Score: 117
Period size: 29 Copynumber: 3.8 Consensus size: 30
33185614 ATAAAAATAT
* * *
33185624 TAAAAATTATAAAAAAA-TGTAAAATTTTA
1 TAAAATTTGTAAAAAAATTATAAAATTTTA
33185653 TAAAATTTGTAAAAAAATTATAAAA-TTTA
1 TAAAATTTGTAAAAAAATTATAAAATTTTA
* *
33185682 TAGAAATATAGGAAAAAAATTAT--AATTTTA
1 TA-AAAT-TTGTAAAAAAATTATAAAATTTTA
*
33185712 TAAAA-TTGTAAGAAAATTATAAAA
1 TAAAATTTGTAAAAAAATTATAAAA
33185736 AATGTAAAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
27 12 0.17
29 28 0.41
30 16 0.23
31 13 0.19
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (30 bp):
TAAAATTTGTAAAAAAATTATAAAATTTTA
Found at i:33185987 original size:21 final size:21
Alignment explanation
Indices: 33185939--33185987 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
33185929 TGGTTAAATG
33185939 AAAATTTTGATGCATTTTATA
1 AAAATTTTGATGCATTTTATA
* * *
33185960 TATATTTTTATG-ATTTTTATA
1 AAAATTTTGATGCA-TTTTATA
33185981 AAAATTT
1 AAAATTT
33185988 ACAATTTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
AAAATTTTGATGCATTTTATA
Found at i:33186072 original size:10 final size:9
Alignment explanation
Indices: 33185952--33186071 Score: 62
Period size: 9 Copynumber: 12.7 Consensus size: 9
33185942 ATTTTGATGC
33185952 ATTTTATATA
1 ATTTT-TATA
*
33185962 TATTTTTATG
1 -ATTTTTATA
33185972 ATTTTTATAA
1 ATTTTTAT-A
** *
33185982 AAATTTACA
1 ATTTTTATA
33185991 ATTTTTAT-
1 ATTTTTATA
*
33185999 ATTTTTATG
1 ATTTTTATA
*
33186008 ATTTTGATA
1 ATTTTTATA
*
33186017 TTTTTTTATA
1 -ATTTTTATA
33186027 ATTTTTTATTAA
1 A-TTTTTA-T-A
* *
33186039 AATTTAATA
1 ATTTTTATA
* *
33186048 ACTTTTATT
1 ATTTTTATA
*
33186057 TTTTTTATA
1 ATTTTTATA
33186066 ATTTTT
1 ATTTTT
33186072 TGCCACATTC
Statistics
Matches: 81, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
8 8 0.10
9 39 0.48
10 22 0.27
11 10 0.12
12 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:33192550 original size:20 final size:20
Alignment explanation
Indices: 33192513--33192551 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33192503 GGATTAGAGT
* *
33192513 TTTTATTAGGGTTTTGGGTA
1 TTTTATAAGGGTTCTGGGTA
*
33192533 TTTTATAAGTGTTCTGGGT
1 TTTTATAAGGGTTCTGGGT
33192552 TTTCGACAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.28, T:0.54
Consensus pattern (20 bp):
TTTTATAAGGGTTCTGGGTA
Found at i:33195937 original size:19 final size:18
Alignment explanation
Indices: 33195893--33196047 Score: 63
Period size: 19 Copynumber: 8.5 Consensus size: 18
33195883 ATAATTTAAA
*
33195893 AAAAAAATTATAAAAGTT
1 AAAAAAATTATAAAAATT
**
33195911 ATTGAAAATTATAAATAATT
1 A-AAAAAATTATAAA-AATT
*
33195931 -AAAAAA--ATAATAATT
1 AAAAAAATTATAAAAATT
33195946 --AAAAATT-TAAGAAATT
1 AAAAAAATTATAA-AAATT
* **
33195962 ATAGATTATT-TAAAAATGAT
1 A-AAAAAATTATAAAAAT--T
* * *
33195982 AAGAAAATCATAAAAATAA
1 AAAAAAATTATAAAAAT-T
33196001 AAAAAAATATATAAAAATT
1 AAAAAAAT-TATAAAAATT
* *
33196020 ATAAAAATCATAAAAAATT
1 AAAAAAATTAT-AAAAATT
*
33196039 ATAAAAATT
1 AAAAAAATT
33196048 CGTGAAAGCC
Statistics
Matches: 104, Mismatches: 20, Indels: 25
0.70 0.13 0.17
Matches are distributed among these distances:
14 5 0.05
15 7 0.07
16 8 0.08
18 11 0.11
19 53 0.51
20 20 0.19
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
AAAAAAATTATAAAAATT
Found at i:33195977 original size:41 final size:42
Alignment explanation
Indices: 33195883--33195977 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 42
33195873 TAAAGAAATC
*
33195883 ATAATTTAAAAAAAAAATTATAAAAGTTATTGAAAATTATAA
1 ATAATTTAAAAAAAAAATTATAAAAGTTATAGAAAATTATAA
* * *
33195925 ATAATTAAAAAAATAATAATTA-AAAATTTA-AG-AAATTATAG
1 ATAATTTAAAAAA-AA-AATTATAAAAGTTATAGAAAATTATAA
*
33195966 ATTATTTAAAAA
1 ATAATTTAAAAA
33195978 TGATAAGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 18 0.40
42 13 0.29
43 9 0.20
44 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (42 bp):
ATAATTTAAAAAAAAAATTATAAAAGTTATAGAAAATTATAA
Found at i:33195997 original size:20 final size:18
Alignment explanation
Indices: 33195972--33196045 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 18
33195962 ATAGATTATT
33195972 TAAAAATGATAAGAAAATCA
1 TAAAAAT-ATAA-AAAATCA
* *
33195992 TAAAAATAAAAAAAAATATA
1 TAAAAAT-ATAAAAAAT-CA
33196012 TAAAAAT-TATAAAAATCA
1 TAAAAATATA-AAAAATCA
33196030 TAAAAAATTATAAAAA
1 T-AAAAA-TATAAAAA
33196046 TTCGTGAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.07
19 16 0.36
20 23 0.52
21 2 0.05
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
TAAAAATATAAAAAATCA
Found at i:33196006 original size:29 final size:28
Alignment explanation
Indices: 33195973--33196045 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
33195963 TAGATTATTT
33195973 AAAAATGATAAGAAAATCATAAAAATAAAA
1 AAAAAT-ATAA-AAAATCATAAAAATAAAA
* *
33196003 AAAAATATATAAAAATTATAAAAATCATAA
1 AAAAATATA-AAAAATCATAAAAAT-AAAA
*
33196033 AAAATTATAAAAA
1 AAAAATATAAAAA
33196046 TTCGTGAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 20 0.53
30 18 0.47
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (28 bp):
AAAAATATAAAAAATCATAAAAATAAAA
Found at i:33196016 original size:9 final size:9
Alignment explanation
Indices: 33196003--33196047 Score: 63
Period size: 9 Copynumber: 4.8 Consensus size: 9
33195993 AAAAATAAAA
33196003 AAAAATATAT
1 AAAAAT-TAT
33196013 AAAAATTAT
1 AAAAATTAT
*
33196022 AAAAATCAT
1 AAAAATTAT
33196031 AAAAAATTAT
1 -AAAAATTAT
33196041 AAAAATT
1 AAAAATT
33196048 CGTGAAAGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
9 18 0.56
10 14 0.44
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:33196016 original size:10 final size:10
Alignment explanation
Indices: 33195991--33196046 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
33195981 TAAGAAAATC
*
33195991 ATAAAAATAA
1 ATAAAAATAT
*
33196001 AAAAAAATAT
1 ATAAAAATAT
33196011 ATAAAAAT-T
1 ATAAAAATAT
33196020 ATAAAAATCAT
1 ATAAAAAT-AT
33196031 A-AAAAAT-T
1 ATAAAAATAT
33196039 ATAAAAAT
1 ATAAAAAT
33196047 TCGTGAAAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
8 2 0.05
9 15 0.38
10 21 0.52
11 2 0.05
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:33201483 original size:47 final size:47
Alignment explanation
Indices: 33201374--33201484 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
33201364 CCGGGATAAG
* *
33201374 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
33201421 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
33201468 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
33201485 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:33202257 original size:4 final size:4
Alignment explanation
Indices: 33202248--33202276 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
33202238 CCCTTTTCTA
33202248 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
33202277 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:33204528 original size:20 final size:20
Alignment explanation
Indices: 33204491--33204530 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33204481 TTAAAATAGA
* *
33204491 CATAATTATTCATCTAATAT
1 CATAACTATTCAACTAATAT
*
33204511 CATAACTATTCAAGTAATAT
1 CATAACTATTCAACTAATAT
33204531 TGTTTGAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (20 bp):
CATAACTATTCAACTAATAT
Found at i:33204918 original size:45 final size:45
Alignment explanation
Indices: 33204856--33204943 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
33204846 GCAATATGTA
33204856 TGTGTCCTCTTTTTATGAATGTTGTTAGAGCCAAGCCTTTAAGTG
1 TGTGTCCTCTTTTTATGAATGTTGTTAGAGCCAAGCCTTTAAGTG
33204901 TGTGTCCTCTTTTTATGAATGTTGTTAGAGCCAAGCCTTTAAG
1 TGTGTCCTCTTTTTATGAATGTTGTTAGAGCCAAGCCTTTAAG
33204944 CTCTTAGAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (45 bp):
TGTGTCCTCTTTTTATGAATGTTGTTAGAGCCAAGCCTTTAAGTG
Found at i:33212003 original size:25 final size:27
Alignment explanation
Indices: 33211975--33212027 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
33211965 TTATAATAAG
33211975 TAAAATTA-TG-ACATATTTTTAAAAA
1 TAAAATTAGTGAACATATTTTTAAAAA
*
33212000 TAAAATTAGGTGAACTTATTTTTAAAAA
1 TAAAATTA-GTGAACATATTTTTAAAAA
33212028 AAATATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 8 0.33
27 2 0.08
28 14 0.58
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (27 bp):
TAAAATTAGTGAACATATTTTTAAAAA
Found at i:33212467 original size:19 final size:19
Alignment explanation
Indices: 33212443--33212488 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
33212433 ATGTATCATT
33212443 TATAAAATT-TTATATGAAA
1 TATAAAATTATTATAT-AAA
*
33212462 TATAAATTTATTATATAAA
1 TATAAAATTATTATATAAA
*
33212481 AATAAAAT
1 TATAAAAT
33212489 GTGATATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TATAAAATTATTATATAAA
Found at i:33220978 original size:21 final size:20
Alignment explanation
Indices: 33220937--33221028 Score: 69
Period size: 21 Copynumber: 4.5 Consensus size: 20
33220927 TAGAAGCTCG
*
33220937 AAGGCTAAACA-AAAGCACAT
1 AAGGCTAAACAGAAA-CCCAT
33220957 AAGTGCTAAACAGAAACCCAT
1 AAG-GCTAAACAGAAACCCAT
* * * *
33220978 AAAGGTTGAACAGAAGCTCAT
1 -AAGGCTAAACAGAAACCCAT
* *
33220999 AAGAGCTGAACGGAAACCCAT
1 AAG-GCTAAACAGAAACCCAT
*
33221020 AAGGGTAAA
1 AAGGCTAAA
33221029 ATAGAAGCTC
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
20 10 0.18
21 41 0.72
22 6 0.11
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.13
Consensus pattern (20 bp):
AAGGCTAAACAGAAACCCAT
Found at i:33221001 original size:42 final size:42
Alignment explanation
Indices: 33220944--33221080 Score: 150
Period size: 42 Copynumber: 3.3 Consensus size: 42
33220934 TCGAAGGCTA
* * * * *
33220944 AACAAAAGCACATAAGTGCTAAACAGAAACCCATAAAGGTTG
1 AACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAAGGTTG
* **
33220986 AACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTAA
1 AACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAAGGTTG
* * * *
33221028 AATAGAAGCTCAAAAGAGCTGAACGGAAACTCAT-ATGAGTTG
1 AACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAAG-GTTG
33221070 AACAGAAGCTC
1 AACAGAAGCTC
33221081 TTGAAAGCTA
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 2 0.03
42 77 0.97
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAAGGTTG
Found at i:33221529 original size:20 final size:20
Alignment explanation
Indices: 33221501--33221540 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33221491 CCCTAGCCCC
33221501 TCCTACGCCGCTGCCCACGT
1 TCCTACGCCGCTGCCCACGT
*
33221521 TCCTGCGCCGCTGCCCACGT
1 TCCTACGCCGCTGCCCACGT
33221541 GCCTTCACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.50, G:0.23, T:0.20
Consensus pattern (20 bp):
TCCTACGCCGCTGCCCACGT
Found at i:33222555 original size:3 final size:3
Alignment explanation
Indices: 33222541--33222736 Score: 143
Period size: 3 Copynumber: 65.7 Consensus size: 3
33222531 GGTTATTTTG
* * **
33222541 ATT ATT -TT ATT ATT A-A ATT AATT AATT -TT AAT ATT ATT ATT GCT
1 ATT ATT ATT ATT ATT ATT ATT -ATT -ATT ATT ATT ATT ATT ATT ATT
* * * * *
33222585 ATT ATT ATT TTT ATC ATT ATT ATT ATT ACT ATT -TT TTT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
33222632 ATT CATT ATC ATT ATT ATT ATT ACT ATT ATT -TT TTT ACT ATT ATT
1 ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
33222677 ATTT ATT ATC ATT ATT ATT ATT ACT ATT ATT -TT TTT ACT ATT ATTT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
*
33222723 ATT ATT ATC ATT AT
1 ATT ATT ATT ATT AT
33222737 CTTTTTAATT
Statistics
Matches: 150, Mismatches: 33, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
2 11 0.07
3 123 0.82
4 16 0.11
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:33222664 original size:45 final size:44
Alignment explanation
Indices: 33222583--33222736 Score: 251
Period size: 45 Copynumber: 3.5 Consensus size: 44
33222573 ATTATTATTG
*
33222583 CTATTATTATTTTTATCATTATTATTATTAC---TATTTTTTTA
1 CTATTATTATTATTATCATTATTATTATTACTATTATTTTTTTA
33222624 CTATTATTATTCATTATCATTATTATTATTACTATTATTTTTTTA
1 CTATTATTATT-ATTATCATTATTATTATTACTATTATTTTTTTA
33222669 CTATTATTATTTATTATCATTATTATTATTACTATTATTTTTTTA
1 CTATTATTA-TTATTATCATTATTATTATTACTATTATTTTTTTA
33222714 CTATTATTTATTATTATCATTAT
1 CTATTA-TTATTATTATCATTAT
33222737 CTTTTTAATT
Statistics
Matches: 106, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
41 11 0.10
42 19 0.18
45 71 0.67
46 5 0.05
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.64
Consensus pattern (44 bp):
CTATTATTATTATTATCATTATTATTATTACTATTATTTTTTTA
Found at i:33223161 original size:29 final size:29
Alignment explanation
Indices: 33223129--33223187 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
33223119 TTGAAAATTA
*
33223129 AGAAAAAATCGTATTCTAACTTATGGAAT
1 AGAAAAAATCATATTCTAACTTATGGAAT
33223158 AGAAAAAATCATATTCTAACTTATGGAAT
1 AGAAAAAATCATATTCTAACTTATGGAAT
33223187 A
1 A
33223188 TGATTTCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (29 bp):
AGAAAAAATCATATTCTAACTTATGGAAT
Found at i:33241693 original size:44 final size:44
Alignment explanation
Indices: 33241640--33242160 Score: 229
Period size: 44 Copynumber: 11.4 Consensus size: 44
33241630 CTGGAGTAGA
*
33241640 AGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGTTTC
1 AGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGTTGC
* * * * * * * *
33241684 AGCGGAGCAGACTAAAGACAGCAAATCTTATTTCCCTGAAGTTAC
1 AGTGGAGCAGATTGAAGCCA-CCAGTCTTATCTCCCTGAAGTTGC
* * * * *
33241729 AGTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGT
1 AGTGGAGCAGATTGAAGC--C-----A--CCAG-TCTTATCTCCCTGAAGTTGC
* * *
33241783 AGTGGAGTAGATT---G--A-CA-TCTTATCTTCCTGAAGTTGT
1 AGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGTTGC
* * *
33241820 AGTGGAGTAGATTGAAGCCACCAGCCGTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGTTGC
* * * * * * * * *
33241864 AGCGGAGCAGACTGAAGACAGCGAATCCTATTTCCTTGAAGTTGT
1 AGTGGAGCAGATTGAAGCCA-CCAGTCTTATCTCCCTGAAGTTGC
* * ** * *
33241909 AATGGAACAGATTGAAGCTACAAATTATGGTGAATCTTATCTTCCTAAAGTTGC
1 AGTGGAGCAGATTGAAGC--C--ACCA----G--TCTTATCTCCCTGAAGTTGC
* * * *
33241963 AGTGGAGTAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTAC
1 AGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGTTGC
** * *
33242007 AGCAGAGCAGACTGAAG--A--A-TCTTATTTCCCTGAAGTTGC
1 AGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGTTGC
* * * *
33242046 AGTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGC
1 AGTGGAGCAGATTGAAGC--C-----A--CCAG-TCTTATCTCCCTGAAGTTGC
*
33242100 AGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGTTGC
*
33242144 AGTGGAGCAGACTGAAG
1 AGTGGAGCAGATTGAAG
33242161 ATAACAAATC
Statistics
Matches: 353, Mismatches: 81, Indels: 86
0.68 0.16 0.17
Matches are distributed among these distances:
37 33 0.09
39 31 0.09
40 2 0.01
42 3 0.01
43 2 0.01
44 111 0.31
45 65 0.18
46 1 0.00
47 3 0.01
48 2 0.01
49 1 0.00
50 3 0.01
51 1 0.00
52 3 0.01
53 1 0.00
54 91 0.26
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
AGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGTTGC
Found at i:33241803 original size:37 final size:37
Alignment explanation
Indices: 33241762--33241834 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
33241752 ATTATGGCGG
33241762 ATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTGAC
1 ATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTGAC
33241799 ATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTGA
1 ATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTGA
33241835 AGCCACCAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (37 bp):
ATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTGAC
Found at i:33241948 original size:180 final size:180
Alignment explanation
Indices: 33241640--33241977 Score: 541
Period size: 180 Copynumber: 1.9 Consensus size: 180
33241630 CTGGAGTAGA
* * *
33241640 AGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGTTTCAGCGGAGCAGACTAAAGACAG
1 AGTGGAGCAGATTGAAGCCACCAGCCGTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGACAG
* * *
33241705 CAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAAGCTACAAATTATGGCGGATCTTATC
66 CAAATCCTATTTCCCTGAAGTTACAATGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATC
* *
33241770 TTCCTGAAGTTGTAGTGGAGTAGATTGACATCTTATCTTCCTGAAGTTGT
131 TTCCTAAAGTTGCAGTGGAGTAGATTGACATCTTATCTTCCTGAAGTTGT
* *
33241820 AGTGGAGTAGATTGAAGCCACCAGCCGTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAG
1 AGTGGAGCAGATTGAAGCCACCAGCCGTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGACAG
* * ** *
33241885 CGAATCCTATTTCCTTGAAGTTGTAATGGAACAGATTGAAGCTACAAATTATGGTGAATCTTATC
66 CAAATCCTATTTCCCTGAAGTTACAATGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATC
33241950 TTCCTAAAGTTGCAGTGGAGTAGATTGA
131 TTCCTAAAGTTGCAGTGGAGTAGATTGA
33241978 AGCCACTAGC
Statistics
Matches: 143, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
180 143 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (180 bp):
AGTGGAGCAGATTGAAGCCACCAGCCGTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGACAG
CAAATCCTATTTCCCTGAAGTTACAATGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATC
TTCCTAAAGTTGCAGTGGAGTAGATTGACATCTTATCTTCCTGAAGTTGT
Found at i:33242062 original size:39 final size:39
Alignment explanation
Indices: 33241988--33242062 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
33241978 AGCCACTAGC
*
33241988 CTTATCTCCCTGAAGTTACAGCAGAGCAGACTGAAGAAT
1 CTTATCTCCCTGAAGTTACAGCAGAACAGACTGAAGAAT
* * ** *
33242027 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 CTTATCTCCCTGAAGTTACAGCAGAACAGACTGAAG
33242063 CTACAAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (39 bp):
CTTATCTCCCTGAAGTTACAGCAGAACAGACTGAAGAAT
Found at i:33242097 original size:137 final size:137
Alignment explanation
Indices: 33241799--33242161 Score: 546
Period size: 137 Copynumber: 2.6 Consensus size: 137
33241789 GTAGATTGAC
* *
33241799 ATCTTATCTTCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACCAGCCGTATCTCCCTGAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* *
33241864 AGCGGAGCAGACTGAAGACAGCGAATCCTATTTCCTTGAAGTTGTAATGGAACAGATTGAAGCTA
66 AGCGGAGCAGACT---GA-A--GAATCCTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTA
*
33241929 CAAATTATGGTGA
125 CAAATTATGGCGA
* * *
33241942 ATCTTATCTTCCTAAAGTTGCAGTGGAGTAGATTGAAGCCACTAGCCTTATCTCCCTGAAGTTAC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* * *
33242007 AGCAGAGCAGACTGAAGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATT
66 AGCGGAGCAGACTGAAGAATCCTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTACAAATT
*
33242072 ATGGCGG
131 ATGGCGA
*
33242079 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
*
33242144 AGTGGAGCAGACTGAAGA
66 AGCGGAGCAGACTGAAGA
33242162 TAACAAATCT
Statistics
Matches: 202, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
137 127 0.63
139 1 0.00
140 2 0.01
143 72 0.36
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (137 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
AGCGGAGCAGACTGAAGAATCCTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTACAAATT
ATGGCGA
Found at i:33242892 original size:13 final size:13
Alignment explanation
Indices: 33242859--33242892 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
33242849 AAGGTTATCA
33242859 TCTTTTTTATTTT
1 TCTTTTTTATTTT
33242872 T-TTCTTTTATTTT
1 TCTT-TTTTATTTT
33242885 TCTTTTTT
1 TCTTTTTT
33242893 GAAACTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.11
13 15 0.79
14 2 0.11
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (13 bp):
TCTTTTTTATTTT
Found at i:33243557 original size:3 final size:3
Alignment explanation
Indices: 33243543--33243736 Score: 184
Period size: 3 Copynumber: 64.7 Consensus size: 3
33243533 GGTTCTTTCG
* *
33243543 ATT ATT -TT ATT ATT A-A ATT AATT AAT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
33243587 ATT ACT ACT ATT ATT ACTT -TT -TT ACT ATT ATT ATT ATT ATTT ACT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
* * * *
33243632 ATT ATT ATTT ATT ATC ATT ATT ATT ATT ACT ATT -TT TTT ACT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
33243677 ATTT ATTT ATT -TT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT
1 A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
33243723 ATT ATT ATC ATT AT
1 ATT ATT ATT ATT AT
33243737 CTTTTTAATT
Statistics
Matches: 160, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
2 11 0.07
3 131 0.82
4 18 0.11
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:33245197 original size:32 final size:33
Alignment explanation
Indices: 33245161--33245228 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
33245151 CCATCAATGG
*
33245161 TAACTTTCAAAATTCTCAATAAAAT-CAAAAAC
1 TAACTTTCAAAATTCTCAATAAAATAAAAAAAC
33245193 TAACTTTCAAAATTCTCAATAAAATAAAAAAAC
1 TAACTTTCAAAATTCTCAATAAAATAAAAAAAC
33245226 TAA
1 TAA
33245229 GGTACTAGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 25 0.74
33 9 0.26
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (33 bp):
TAACTTTCAAAATTCTCAATAAAATAAAAAAAC
Found at i:33247863 original size:31 final size:31
Alignment explanation
Indices: 33247825--33247909 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
33247815 AAATGACAAG
*
33247825 TGAAAAGTGGTAGCTTCAGCTACCTGATCAA
1 TGAAAAGTGGTAGCTTCAGCTACCTAATCAA
* *
33247856 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTAATCAA
*
33247887 TGAAAAGTGGTAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTTCAGCTAC
33247910 AAGTGACAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTAATCAA
Found at i:33248008 original size:47 final size:47
Alignment explanation
Indices: 33247939--33248151 Score: 347
Period size: 47 Copynumber: 4.6 Consensus size: 47
33247929 ATTTCCGTAG
33247939 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAT
1 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAT
33247986 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAT
1 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAT
33248033 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAT
1 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAT
* * * * * *
33248080 AAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTC-GTGT
1 AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAT
* *
33248126 AAGACCATAGCTGGGCTATGGCATCG
1 AAGACCATATCTGGGATATGGCATCG
33248152 ATATNNNNNN
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 26 0.17
47 131 0.83
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (47 bp):
AAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAT
Found at i:33252484 original size:42 final size:43
Alignment explanation
Indices: 33252425--33252542 Score: 168
Period size: 42 Copynumber: 2.8 Consensus size: 43
33252415 CGGCTACACT
33252425 TATGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAA
1 TATGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAA
* *
33252467 TATGTGTAAGACCATAGCTGGGCTATGACATC-ATTATGTGAA
1 TATGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAA
* * **
33252509 GATGTGTAAGACCATAGTTGAACTATGGCATCGA
1 TATGTGTAAGACCATAGCTGGGCTATGGCATCGA
33252543 GAAAACAAAG
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.01
42 65 0.97
43 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (43 bp):
TATGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAA
Found at i:33253615 original size:12 final size:12
Alignment explanation
Indices: 33253598--33253627 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33253588 ACTATCTAGA
33253598 TAATTATTAAAT
1 TAATTATTAAAT
33253610 TAATTATTAAAT
1 TAATTATTAAAT
*
33253622 TCATTA
1 TAATTA
33253628 AAACAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATTATTAAAT
Found at i:33256921 original size:3 final size:3
Alignment explanation
Indices: 33256913--33256963 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
33256903 TTTATGCAGT
* * * * *
33256913 AGA AGA AGA AGA AGA AGA AGA AGA GGA TG- AGG AGG AGA AGA AGA AGG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
33256960 AGA A
1 AGA A
33256964 AGAGGAGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:33257557 original size:5 final size:5
Alignment explanation
Indices: 33257547--33257579 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
33257537 CACCTGTCAC
33257547 TTTCT TTTCT TTTCT TTTCT TTT-T TTTACT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT-CT TTT
33257580 TTACTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:33257718 original size:22 final size:23
Alignment explanation
Indices: 33257683--33257730 Score: 89
Period size: 22 Copynumber: 2.1 Consensus size: 23
33257673 TATTTGAAAT
33257683 ATTTTATAATATATATATTTTAA
1 ATTTTATAATATATATATTTTAA
33257706 ATTTTA-AATATATATATTTTAA
1 ATTTTATAATATATATATTTTAA
33257728 ATT
1 ATT
33257731 ATTTTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTTATAATATATATATTTTAA
Found at i:33257748 original size:35 final size:35
Alignment explanation
Indices: 33257681--33257796 Score: 123
Period size: 35 Copynumber: 3.3 Consensus size: 35
33257671 TATATTTGAA
33257681 ATATTTTATAATATATATATTTTAAATTTTAAATATAT
1 ATATTTTA-AAT-TATAT-TTTTAAATTTTAAATATAT
33257719 ATATTTTAAATTAT-TTTTTAAAATTTTAAATAT-T
1 ATATTTTAAATTATATTTTT-AAATTTTAAATATAT
* * *
33257753 ACTTTTTTAAA-TACTACTTTTAAATATTAAATATAT
1 A-TATTTTAAATTA-TATTTTTAAATTTTAAATATAT
33257789 AT-TTTTAA
1 ATATTTTAA
33257797 TAATATAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
34 14 0.20
35 36 0.51
36 9 0.13
37 3 0.04
38 8 0.11
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (35 bp):
ATATTTTAAATTATATTTTTAAATTTTAAATATAT
Found at i:33257758 original size:13 final size:14
Alignment explanation
Indices: 33257742--33257781 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
33257732 TTTTTTAAAA
33257742 TTTTAAATATTACTT
1 TTTTAAATATTAC-T
*
33257757 TTTTAAATACTAC-
1 TTTTAAATATTACT
33257770 TTTTAAATATTA
1 TTTTAAATATTA
33257782 AATATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAAATATTACT
Found at i:33257758 original size:22 final size:20
Alignment explanation
Indices: 33257721--33257764 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
33257711 AAATATATAT
*
33257721 ATTTTAAATTATTTTTTAAA
1 ATTTTAAATTACTTTTTAAA
*
33257741 ATTTTAAATATTACTTTTTTAA
1 ATTTT-AA-ATTACTTTTTAAA
33257763 AT
1 AT
33257765 ACTACTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTAAATTACTTTTTAAA
Found at i:33257918 original size:21 final size:21
Alignment explanation
Indices: 33257894--33257951 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
33257884 TTTTATATTA
* *
33257894 TTAAAAATATATATTTAATA-T
1 TTAAAAATA-ATATTCAAAATT
33257915 TTAAAAATAATATTCAAAATT
1 TTAAAAATAATATTCAAAATT
33257936 TTAAAAA-AA-ATTCAAA
1 TTAAAAATAATATTCAAA
33257952 TATACATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.21
20 10 0.29
21 17 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAAATAATATTCAAAATT
Found at i:33257927 original size:20 final size:21
Alignment explanation
Indices: 33257880--33257942 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
33257870 AAAATATTTA
*
33257880 AATATTTTATATTATTAAAAAT
1 AATATTTAATATT-TTAAAAAT
33257902 ATATATTTAATA-TTTAAAAAT
1 A-ATATTTAATATTTTAAAAAT
* *
33257923 AATATTCAAAATTTTAAAAA
1 AATATTTAATATTTTAAAAA
33257943 AAATTCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.22
21 17 0.47
22 2 0.06
23 9 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AATATTTAATATTTTAAAAAT
Found at i:33258000 original size:9 final size:9
Alignment explanation
Indices: 33257980--33258028 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
33257970 AAAAATTAAT
33257980 AATAAA-AA
1 AATAAATAA
*
33257988 AATAAGTAA
1 AATAAATAA
*
33257997 AATAAATTA
1 AATAAATAA
33258006 AATAAAT-A
1 AATAAATAA
33258014 AATAAATAA
1 AATAAATAA
33258023 AATAAA
1 AATAAA
33258029 GATAAAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
8 13 0.36
9 23 0.64
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (9 bp):
AATAAATAA
Found at i:33258002 original size:17 final size:17
Alignment explanation
Indices: 33257971--33258028 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
33257961 CATTTTTTTA
*
33257971 AAAATTAAT-AATAAA-
1 AAAATAAATAAATAAAT
*
33257986 AAAATAAGTAAAATAAAT
1 AAAATAAAT-AAATAAAT
*
33258004 TAAATAAATAAATAAAT
1 AAAATAAATAAATAAAT
33258021 AAAATAAA
1 AAAATAAA
33258029 GATAAAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 7 0.20
17 21 0.60
18 7 0.20
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAATAAATAAATAAAT
Found at i:33258003 original size:13 final size:13
Alignment explanation
Indices: 33257971--33258028 Score: 68
Period size: 13 Copynumber: 4.6 Consensus size: 13
33257961 CATTTTTTTA
*
33257971 AAAATTAAT-AAT
1 AAAATAAATAAAT
*
33257983 AAAA-AAATAAGT
1 AAAATAAATAAAT
33257995 AAAATAAATTAAAT
1 AAAATAAA-TAAAT
33258009 -AAATAAATAAAT
1 AAAATAAATAAAT
33258021 AAAATAAA
1 AAAATAAA
33258029 GATAAAAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 3 0.08
12 15 0.38
13 17 0.44
14 4 0.10
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:33258011 original size:4 final size:4
Alignment explanation
Indices: 33257980--33258028 Score: 53
Period size: 4 Copynumber: 11.5 Consensus size: 4
33257970 AAAAATTAAT
* *
33257980 AATA AAAA AATA AGTAA AATA AATTA AATA AATA AATA AATAA AATA AA
1 AATA AATA AATA AAT-A AATA AA-TA AATA AATA AATA AAT-A AATA AA
33258029 GATAAAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 27 0.71
5 11 0.29
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:33259056 original size:13 final size:13
Alignment explanation
Indices: 33259038--33259062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33259028 AAGCACCAGG
33259038 TTATTCAAAGGAC
1 TTATTCAAAGGAC
33259051 TTATTCAAAGGA
1 TTATTCAAAGGA
33259063 ACTTGGATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
TTATTCAAAGGAC
Found at i:33265365 original size:27 final size:28
Alignment explanation
Indices: 33265310--33265365 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
33265300 AAATACAGGC
*
33265310 TGGGCCTAAGCCCATTACAGATTCAGTT
1 TGGGCCTAAGCCCATTACAGATACAGTT
**
33265338 TGGGCCTTGGCCCATT-CAGATACAGTT
1 TGGGCCTAAGCCCATTACAGATACAGTT
33265365 T
1 T
33265366 CAGATATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.30
Consensus pattern (28 bp):
TGGGCCTAAGCCCATTACAGATACAGTT
Found at i:33267461 original size:40 final size:40
Alignment explanation
Indices: 33267394--33267570 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
33267384 ACCCAAGTAT
*
33267394 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
33267433 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
33267473 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
33267513 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
33267553 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
33267571 TTATCATCCG
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 104 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:33271071 original size:19 final size:21
Alignment explanation
Indices: 33271047--33271096 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
33271037 AAAATCATAT
*
33271047 GTATCGATACCC-TA-GTAAA
1 GTATCGATACCCTTATATAAA
*
33271066 GTATCGGTACCCTTATATAAA
1 GTATCGATACCCTTATATAAA
33271087 GTATCGATAC
1 GTATCGATAC
33271097 TTTAGTCCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 11 0.42
20 2 0.08
21 13 0.50
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (21 bp):
GTATCGATACCCTTATATAAA
Found at i:33273219 original size:19 final size:20
Alignment explanation
Indices: 33273195--33273232 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33273185 GTCATCATAG
*
33273195 AAAATTTTAAA-AAAAAATT
1 AAAATTATAAATAAAAAATT
33273214 AAAATTATAAATAAAAAAT
1 AAAATTATAAATAAAAAAT
33273233 GCAATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATTATAAATAAAAAATT
Found at i:33273670 original size:8 final size:8
Alignment explanation
Indices: 33273657--33273685 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
33273647 TTATGTTTAG
33273657 TATATTAT
1 TATATTAT
33273665 TATATTAT
1 TATATTAT
33273673 TATATTAT
1 TATATTAT
33273681 TATAT
1 TATAT
33273686 AATAAAGATA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:33273718 original size:5 final size:5
Alignment explanation
Indices: 33273708--33273739 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
33273698 TTATGTTTTA
33273708 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
33273740 AAACTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:33275027 original size:15 final size:15
Alignment explanation
Indices: 33275007--33275082 Score: 95
Period size: 15 Copynumber: 5.1 Consensus size: 15
33274997 TATGCGATGA
*
33275007 ATTTATTGAATTTAT
1 ATTTATTGAAATTAT
33275022 ATTTATTGAAATTAT
1 ATTTATTGAAATTAT
33275037 -TTTGATTGAAATTAT
1 ATTT-ATTGAAATTAT
33275052 -TTTGATTGAAATTAT
1 ATTT-ATTGAAATTAT
*
33275067 ATTGATTG-AATTAT
1 ATTTATTGAAATTAT
33275081 AT
1 AT
33275083 AATATATATG
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
14 11 0.19
15 44 0.77
16 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.54
Consensus pattern (15 bp):
ATTTATTGAAATTAT
Found at i:33275045 original size:30 final size:31
Alignment explanation
Indices: 33275011--33275083 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
33275001 CGATGAATTT
*
33275011 ATTGAATTTATATTT-ATTGAAATTATTTTG
1 ATTGAATTTATATTTGATTGAAATTATATTG
*
33275041 ATTGAAATTAT-TTTGATTGAAATTATATTG
1 ATTGAATTTATATTTGATTGAAATTATATTG
33275071 ATTGAATTATATA
1 ATTGAATT-TATA
33275084 ATATATATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 31 0.84
31 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (31 bp):
ATTGAATTTATATTTGATTGAAATTATATTG
Found at i:33275493 original size:23 final size:21
Alignment explanation
Indices: 33275467--33275516 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
33275457 AGGCACTTTA
33275467 TGTGTCATATTTCAGGCACCTCG
1 TGTGTCATA--TCAGGCACCTCG
*
33275490 TGTGTCGTATCAGGCACCTCG
1 TGTGTCATATCAGGCACCTCG
33275511 TGTGTC
1 TGTGTC
33275517 GTTTTAGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.69
23 8 0.31
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.34
Consensus pattern (21 bp):
TGTGTCATATCAGGCACCTCG
Found at i:33275502 original size:21 final size:21
Alignment explanation
Indices: 33275478--33275518 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
33275468 GTGTCATATT
33275478 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
33275499 TCAGGCACCTCGTGTGTCGT
1 TCAGGCACCTCGTGTGTCGT
33275519 TTTAGACACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.29, G:0.29, T:0.29
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:33278899 original size:6 final size:6
Alignment explanation
Indices: 33278888--33278912 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
33278878 GAAGTAATCT
33278888 CATTTC CATTTC CATTTC CATTTC C
1 CATTTC CATTTC CATTTC CATTTC C
33278913 TGATGTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CATTTC
Found at i:33280660 original size:13 final size:13
Alignment explanation
Indices: 33280642--33280684 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
33280632 AAGAGATTAC
33280642 AAATATACAATTG
1 AAATATACAATTG
*
33280655 AAATATA-AA--C
1 AAATATACAATTG
33280665 AAATATACAATTG
1 AAATATACAATTG
33280678 AAATATA
1 AAATATA
33280685 AATACATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (13 bp):
AAATATACAATTG
Found at i:33280699 original size:29 final size:23
Alignment explanation
Indices: 33280640--33280686 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
33280630 ATAAGAGATT
33280640 ACAAATATACAATTGAAATATAA
1 ACAAATATACAATTGAAATATAA
33280663 ACAAATATACAATTGAAATATAA
1 ACAAATATACAATTGAAATATAA
33280686 A
1 A
33280687 TACATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.26
Consensus pattern (23 bp):
ACAAATATACAATTGAAATATAA
Found at i:33282179 original size:20 final size:19
Alignment explanation
Indices: 33282154--33282201 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
33282144 AAGTATTACA
*
33282154 TATATTATTATATACATATG
1 TATATTATT-TATACACATG
*
33282174 TATATTATTTTTACACATG
1 TATATTATTTATACACATG
33282193 TA-ATTATTT
1 TATATTATTT
33282202 TTACCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 10 0.38
20 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTATACACATG
Found at i:33282212 original size:21 final size:19
Alignment explanation
Indices: 33282154--33282205 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
33282144 AAGTATTACA
* *
33282154 TATATTATTATATACATATG
1 TATATTATT-TTTACACATG
33282174 TATATTATTTTTACACATG
1 TATATTATTTTTACACATG
33282193 TA-ATTATTTTTAC
1 TATATTATTTTTAC
33282206 CATACATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 10 0.33
20 9 0.30
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTTTACACATG
Found at i:33283383 original size:21 final size:21
Alignment explanation
Indices: 33283357--33283412 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
33283347 AACAGTGGTG
*
33283357 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
33283378 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
33283399 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
33283413 AACAATGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:33286000 original size:16 final size:16
Alignment explanation
Indices: 33285979--33286010 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33285969 ATTTATGAAT
33285979 GTCCGTTCTTGAAAAC
1 GTCCGTTCTTGAAAAC
33285995 GTCCGTTCTTGAAAAC
1 GTCCGTTCTTGAAAAC
33286011 TAACTAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (16 bp):
GTCCGTTCTTGAAAAC
Found at i:33299129 original size:63 final size:63
Alignment explanation
Indices: 33299027--33299149 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 63
33299017 TGAGTGCTCA
* * * *
33299027 TTTTATTGGACCGTATAAGATCACGGAAAGAGAGGGACCAGTTGTGTATCGTTTATCTTTTTG
1 TTTTATTAGACCGTATAAGATCACGGAAAGAGAGAGACCAGTTGCGTATCGTTTAGCTTTTTG
* * * *
33299090 TTTTATTAGACTGTATGAGATCATGGAAAGAGTGAGACCAGTTGCGTATCGTTTAGCTTT
1 TTTTATTAGACCGTATAAGATCACGGAAAGAGAGAGACCAGTTGCGTATCGTTTAGCTTT
33299150 ACCTGCAGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (63 bp):
TTTTATTAGACCGTATAAGATCACGGAAAGAGAGAGACCAGTTGCGTATCGTTTAGCTTTTTG
Found at i:33308638 original size:19 final size:19
Alignment explanation
Indices: 33308598--33308652 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
33308588 ATTATAAAAT
33308598 AAATTCAAAATAAATTT-T-A
1 AAATTCAAAAT--ATTTATAA
33308617 AAATTCAAAATATTTATAA
1 AAATTCAAAATATTTATAA
*
33308636 AAATTC-TAATATTTATA
1 AAATTCAAAATATTTATA
33308653 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 4 0.12
18 11 0.33
19 18 0.55
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTCAAAATATTTATAA
Found at i:33308676 original size:19 final size:21
Alignment explanation
Indices: 33308652--33308707 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 21
33308642 TAATATTTAT
33308652 ATTTTTAAA-AA-A-TTATAAA
1 ATTTTTAAAGAATATTTA-AAA
33308671 ATTTTTAAAGAATATTTAAAA
1 ATTTTTAAAGAATATTTAAAA
33308692 ATTTTCTAAAGCAATA
1 ATTTT-TAAAG-AATA
33308708 CTTTTAGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.28
20 2 0.06
21 9 0.28
22 8 0.25
23 4 0.12
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
ATTTTTAAAGAATATTTAAAA
Found at i:33308694 original size:21 final size:21
Alignment explanation
Indices: 33308652--33308707 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
33308642 TAATATTTAT
33308652 ATTTTTAAA-AA-ATTATAAA
1 ATTTTTAAAGAATATTATAAA
33308671 ATTTTTAAAGAATATT-TAAAA
1 ATTTTTAAAGAATATTAT-AAA
33308692 ATTTTCTAAAGCAATA
1 ATTTT-TAAAG-AATA
33308708 CTTTTAGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.28
20 3 0.09
21 11 0.34
22 5 0.16
23 4 0.12
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
ATTTTTAAAGAATATTATAAA
Found at i:33311112 original size:28 final size:30
Alignment explanation
Indices: 33311068--33311134 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
33311058 GCAATCAAGC
*
33311068 AAGAAAGG-GACAAAAAAGAAAAG-AAAGT
1 AAGAAAGGAGACAAAAAAGAAAAGTAAAGG
* *
33311096 AAGAAAGGAGAC-GAAAAGAATAGTAAAGG
1 AAGAAAGGAGACAAAAAAGAAAAGTAAAGG
33311125 AAGAAGAGGA
1 AAGAA-AGGA
33311135 TGAAAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 17 0.52
29 12 0.36
30 4 0.12
ACGTcount: A:0.63, C:0.03, G:0.30, T:0.04
Consensus pattern (30 bp):
AAGAAAGGAGACAAAAAAGAAAAGTAAAGG
Found at i:33315107 original size:23 final size:22
Alignment explanation
Indices: 33315050--33315119 Score: 81
Period size: 21 Copynumber: 3.2 Consensus size: 22
33315040 GTCCTTGGTC
33315050 CACACGGGCGTGTGCCT-TAGT
1 CACACGGGCGTGTGCCTCTAGT
* * **
33315071 CATACGGGCTTGTGCCTCTCTT
1 CACACGGGCGTGTGCCTCTAGT
33315093 CACACGGGGCGTGTGCCTC-AGT
1 CACAC-GGGCGTGTGCCTCTAGT
33315115 CACAC
1 CACAC
33315120 AGTTGTGTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 15 0.38
22 12 0.31
23 12 0.31
ACGTcount: A:0.14, C:0.33, G:0.29, T:0.24
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTCTAGT
Found at i:33323443 original size:16 final size:15
Alignment explanation
Indices: 33323437--33323466 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33323427 AAAATTTTTA
33323437 AAATTTAAAATTAAT
1 AAATTTAAAATTAAT
33323452 AAATTTAAAA-TAAT
1 AAATTTAAAATTAAT
33323466 A
1 A
33323467 TTTTACCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATTTAAAATTAAT
Found at i:33330185 original size:29 final size:29
Alignment explanation
Indices: 33330137--33330225 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
33330127 TTTATTTTAG
* * * *
33330137 ATTACATTTTAGTTACTTATGTTTGAAAT
1 ATTATATTTTAGTAATTTATGTTTAAAAT
33330166 ATTATATTTTAGTAATTTATGTTTAAAAT
1 ATTATATTTTAGTAATTTATGTTTAAAAT
* *
33330195 ATTATATTTTAGTCATTTATG-TTATAAT
1 ATTATATTTTAGTAATTTATGTTTAAAAT
33330223 ATT
1 ATT
33330226 GTAACATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 9 0.17
29 45 0.83
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (29 bp):
ATTATATTTTAGTAATTTATGTTTAAAAT
Found at i:33330449 original size:21 final size:20
Alignment explanation
Indices: 33330421--33330460 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
33330411 CCATTCTCTT
*
33330421 CTCCTTCTCCCTCTATTTTC
1 CTCCTTCTCCATCTATTTTC
*
33330441 CTCCATTCTCCATTTATTTT
1 CTCC-TTCTCCATCTATTTT
33330461 AATGTAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.53
Consensus pattern (20 bp):
CTCCTTCTCCATCTATTTTC
Found at i:33330690 original size:13 final size:13
Alignment explanation
Indices: 33330672--33330697 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33330662 AAATTGAATT
33330672 TCACTCAAAACTG
1 TCACTCAAAACTG
33330685 TCACTCAAAACTG
1 TCACTCAAAACTG
33330698 AATATCAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
TCACTCAAAACTG
Found at i:33333758 original size:16 final size:16
Alignment explanation
Indices: 33333725--33333758 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33333715 GGCTGCTGTT
* *
33333725 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
33333741 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
33333757 AA
1 AA
33333759 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:33336586 original size:21 final size:21
Alignment explanation
Indices: 33336560--33336600 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33336550 AGACGAGCAA
* *
33336560 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
33336581 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
33336601 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:33338538 original size:16 final size:16
Alignment explanation
Indices: 33338505--33338538 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33338495 GGAGATTGTT
* *
33338505 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
33338521 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
33338537 AA
1 AA
33338539 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:33342443 original size:15 final size:16
Alignment explanation
Indices: 33342415--33342462 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
33342405 AAGATTGAAT
33342415 TATA-AAATTAAAAAA
1 TATATAAATTAAAAAA
*
33342430 TATATGAATT-AAAAA
1 TATATAAATTAAAAAA
* *
33342445 TATTTAAATTGAAAAA
1 TATATAAATTAAAAAA
33342461 TA
1 TA
33342463 AAGACTAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
TATATAAATTAAAAAA
Found at i:33349876 original size:31 final size:31
Alignment explanation
Indices: 33349838--33349899 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33349828 ACAATGAGAC
33349838 AAAATTGGATGATTACAAATAAAGGGGAAGA
1 AAAATTGGATGATTACAAATAAAGGGGAAGA
33349869 AAAATTGGATGATTACAAATAAAGGGGAAGA
1 AAAATTGGATGATTACAAATAAAGGGGAAGA
33349900 CCTTTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.26, T:0.19
Consensus pattern (31 bp):
AAAATTGGATGATTACAAATAAAGGGGAAGA
Found at i:33351764 original size:24 final size:24
Alignment explanation
Indices: 33351716--33351762 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
33351706 TCAAATTATG
33351716 TTTTTTAAATATTCAATTGTAAAT
1 TTTTTTAAATATTCAATTGTAAAT
33351740 TTTTTTATAATAATT-AATTGTAA
1 TTTTTTA-AAT-ATTCAATTGTAA
33351763 TTGTAGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.33
25 11 0.52
26 3 0.14
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTTTTAAATATTCAATTGTAAAT
Found at i:33354836 original size:21 final size:21
Alignment explanation
Indices: 33354812--33354862 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
33354802 AATAAAAGTT
33354812 ATAAAAAATTATTTAATTTTA
1 ATAAAAAATTATTTAATTTTA
* * *
33354833 ATAAGAAA-TATTTATTTTTT
1 ATAAAAAATTATTTAATTTTA
*
33354853 ATTAAAAATT
1 ATAAAAAATT
33354863 GGAAAAAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATAAAAAATTATTTAATTTTA
Found at i:33354881 original size:19 final size:19
Alignment explanation
Indices: 33354853--33354900 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
33354843 TTTATTTTTT
* *
33354853 ATTA-AAAATTGGAAAAAG
1 ATTATAAAATTAGAAAAAA
*
33354871 ATTATAAAATTATAAAAAA
1 ATTATAAAATTAGAAAAAA
33354890 ATTTATAAAAT
1 A-TTATAAAAT
33354901 ATATAGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.16
19 12 0.48
20 9 0.36
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
ATTATAAAATTAGAAAAAA
Found at i:33354950 original size:31 final size:30
Alignment explanation
Indices: 33354876--33354951 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 30
33354866 AAAAGATTAT
*
33354876 AAAATTATAAAAAAATTTATAAAATATATAG
1 AAAA-TATAAAAATATTTATAAAATATATAG
* * *
33354907 AAATATAGAAAAATTTTTATAAAGTCATA-AG
1 AAA-ATATAAAAATATTTATAAAAT-ATATAG
33354938 AAAATGATAAAAAT
1 AAAAT-ATAAAAAT
33354952 GTAAAGAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
30 2 0.05
31 31 0.84
32 4 0.11
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (30 bp):
AAAATATAAAAATATTTATAAAATATATAG
Found at i:33355230 original size:28 final size:28
Alignment explanation
Indices: 33355199--33355252 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
33355189 TTTTCTATTT
* *
33355199 TTTAGTAAATTTTGAAT-TTTTTTATATG
1 TTTAGTAAACTTT-AATAATTTTTATATG
*
33355227 TTTATTAAACTTTAATAATTTTTATA
1 TTTAGTAAACTTTAATAATTTTTATA
33355253 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.14
28 19 0.86
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (28 bp):
TTTAGTAAACTTTAATAATTTTTATATG
Found at i:33355272 original size:10 final size:9
Alignment explanation
Indices: 33355241--33355272 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
33355231 TTAAACTTTA
33355241 ATAATTTTT
1 ATAATTTTT
33355250 ATAATTTTT
1 ATAATTTTT
33355259 AT--TTTTT
1 ATAATTTTT
33355266 ATAATTT
1 ATAATTT
33355273 ATTTGTCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATAATTTTT
Found at i:33356781 original size:126 final size:126
Alignment explanation
Indices: 33356631--33357007 Score: 582
Period size: 126 Copynumber: 3.0 Consensus size: 126
33356621 AGAAGACGTA
* * * *
33356631 TCTG-AAAAA-AATTTTGAAAAGATGTTTCTAAACAAATAGTGCCAAAAATGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
33356694 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGACGTTCTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGACGTTCTTTTTCTACAGTAGTT
33356755 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * *
33356820 GCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGAC-TCTGTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGACGT-TCTTTTTCTACAGTAGTT
* *
33356881 TCTGAAAAAATAACTTTGCGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * * *
33356946 ACACTATCAGCAAAAGTACTGAAAAAAGCT-CTCACGTGGACGCTCTTTTTTCTATAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCT-ACGTGGACGTTC-TTTTTCTACAGTAGTT
33357008 CCTATTTGGC
Statistics
Matches: 231, Mismatches: 16, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
124 4 0.02
125 7 0.03
126 205 0.89
127 15 0.06
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (126 bp):
TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGACGTTCTTTTTCTACAGTAGTT
Found at i:33359191 original size:12 final size:12
Alignment explanation
Indices: 33359174--33359198 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33359164 GAGATAAGTA
33359174 AGGATCATTTTC
1 AGGATCATTTTC
33359186 AGGATCATTTTC
1 AGGATCATTTTC
33359198 A
1 A
33359199 TGAGATGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
AGGATCATTTTC
Found at i:33360586 original size:18 final size:18
Alignment explanation
Indices: 33360559--33360603 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
33360549 GGATTGGAAA
* *
33360559 TAGGAAACATATAAA-GGT
1 TAGGATACATA-AAAGGGC
33360577 TAGGATACATAAAAGGGC
1 TAGGATACATAAAAGGGC
33360595 TAGGATACA
1 TAGGATACA
33360604 CACCTAGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.47, C:0.09, G:0.24, T:0.20
Consensus pattern (18 bp):
TAGGATACATAAAAGGGC
Found at i:33371231 original size:11 final size:11
Alignment explanation
Indices: 33371215--33371239 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33371205 TTATATATAC
33371215 TAATAAAATAA
1 TAATAAAATAA
33371226 TAATAAAATAA
1 TAATAAAATAA
33371237 TAA
1 TAA
33371240 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:33371545 original size:31 final size:30
Alignment explanation
Indices: 33371510--33371568 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
33371500 CACCTTTAAA
* *
33371510 ATATTTGCACTATTAA-CCCTTCAACTTTTTC
1 ATATTTACACT-TTAATCCC-TCAAATTTTTC
33371541 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAATCCCTCAAATTTT
33371569 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.46
Consensus pattern (30 bp):
ATATTTACACTTTAATCCCTCAAATTTTTC
Found at i:33376114 original size:40 final size:40
Alignment explanation
Indices: 33376053--33376278 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
33376043 CTAACGGGGT
* * * *
33376053 TAAGTCCCGAAGACATGTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* * *
33376093 TAAGTCCCAAAGGCATTTGTGCGAGTTACAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
33376133 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
33376173 TAAGTCCCGAAGGCATTTGTGCGAGTTG-CT-ATATCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TCCGGGC
* * * *
33376213 TAAGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
33376253 TAAGACCCGAAGGC-CTTGTGCGAGTG
1 TAAGTCCCGAAGGCATTTGTGCGAGTG
33376279 GTTATATCCG
Statistics
Matches: 162, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 13 0.08
40 148 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:33387746 original size:15 final size:15
Alignment explanation
Indices: 33387723--33387752 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33387713 TAAATTGAAC
*
33387723 TAAATAATCTAAAAT
1 TAAACAATCTAAAAT
33387738 TAAACAATCTAAAAT
1 TAAACAATCTAAAAT
33387753 AAATTATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAACAATCTAAAAT
Found at i:33389196 original size:15 final size:15
Alignment explanation
Indices: 33389176--33389211 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
33389166 ATCACCCATG
33389176 CCTAGATTTGATTAA
1 CCTAGATTTGATTAA
33389191 CCTAGATTTGATTAA
1 CCTAGATTTGATTAA
*
33389206 CTTAGA
1 CCTAGA
33389212 ATTCATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (15 bp):
CCTAGATTTGATTAA
Found at i:33393645 original size:20 final size:20
Alignment explanation
Indices: 33393612--33393649 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33393602 ACTAATTGTG
*
33393612 CATGTTATGCTTAAATGTTT
1 CATGTGATGCTTAAATGTTT
*
33393632 CATGTGATGGTTAAATGT
1 CATGTGATGCTTAAATGT
33393650 GGTATATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
CATGTGATGCTTAAATGTTT
Found at i:33402591 original size:20 final size:20
Alignment explanation
Indices: 33402535--33402593 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
33402525 TAATGCTATA
33402535 CAGAGGCACCATAGTGCAAG
1 CAGAGGCACCATAGTGCAAG
* ** * *
33402555 CAGAAGCATGATTGTGCAAT
1 CAGAGGCACCATAGTGCAAG
*
33402575 CAGAGGCACCAAAGTGCAA
1 CAGAGGCACCATAGTGCAA
33402594 ACCTGTACAA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (20 bp):
CAGAGGCACCATAGTGCAAG
Found at i:33409083 original size:15 final size:15
Alignment explanation
Indices: 33409058--33409106 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
33409048 TTGATAAACT
*
33409058 AAAAAATTAAGTACTG
1 AAAAAA-TAAGTATTG
33409074 AAAAAATAAGTATTG
1 AAAAAATAAGTATTG
*
33409089 -AAAAATAAATATTG
1 AAAAAATAAGTATTG
33409103 AAAA
1 AAAA
33409107 TTTAAATACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 13 0.43
15 11 0.37
16 6 0.20
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.24
Consensus pattern (15 bp):
AAAAAATAAGTATTG
Found at i:33414130 original size:17 final size:16
Alignment explanation
Indices: 33414108--33414139 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
33414098 TAAGATTACA
33414108 TAGCTATTAGACACATT
1 TAGCTATTAGA-ACATT
33414125 TAGCTATTAGAACAT
1 TAGCTATTAGAACAT
33414140 AACTTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (16 bp):
TAGCTATTAGAACATT
Found at i:33416174 original size:25 final size:24
Alignment explanation
Indices: 33416138--33416185 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
33416128 TATAGCTATC
*
33416138 CGGAGCTTCCCGATTAATGGCTCTT
1 CGGAGCTACCCG-TTAATGGCTCTT
*
33416163 CGGAGCTACCCGTTATTGGCTCT
1 CGGAGCTACCCGTTAATGGCTCT
33416186 CATGAGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (24 bp):
CGGAGCTACCCGTTAATGGCTCTT
Found at i:33431263 original size:11 final size:10
Alignment explanation
Indices: 33431221--33431275 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
33431211 CTATTTATTC
33431221 AAAATTATAA
1 AAAATTATAA
**
33431231 AAAA-TATTG
1 AAAATTATAA
* *
33431240 AAATTTCTAA
1 AAAATTATAA
33431250 AAATATTAT-A
1 AAA-ATTATAA
33431260 AAAATTATAA
1 AAAATTATAA
33431270 AAAATT
1 AAAATT
33431276 CCAAAATAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
9 11 0.32
10 20 0.59
11 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATTATAA
Found at i:33438244 original size:14 final size:15
Alignment explanation
Indices: 33438216--33438244 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33438206 TAATTTTATG
33438216 AATTTCATGATGTAT
1 AATTTCATGATGTAT
33438231 AATTTCAT-ATGTAT
1 AATTTCATGATGTAT
33438245 TGACGATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (15 bp):
AATTTCATGATGTAT
Found at i:33438356 original size:11 final size:11
Alignment explanation
Indices: 33438340--33438370 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
33438330 TGAAGGAAAA
*
33438340 GACCATGGTTG
1 GACCATGGCTG
33438351 GACCATGGCTG
1 GACCATGGCTG
33438362 GACCATGGC
1 GACCATGGC
33438371 AACAAGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.19
Consensus pattern (11 bp):
GACCATGGCTG
Found at i:33438449 original size:50 final size:50
Alignment explanation
Indices: 33438374--33438550 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
33438364 CCATGGCAAC
33438374 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
33438424 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
33438474 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
33438524 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
33438551 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 93 0.80
51 23 0.20
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:33440040 original size:39 final size:40
Alignment explanation
Indices: 33439912--33440142 Score: 240
Period size: 40 Copynumber: 5.8 Consensus size: 40
33439902 GGATATAGCT
* * * *
33439912 ACTCGCTCAAACGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * * *
33439952 ACTCGCACAATTGCTTTCGGGACTTAACCTGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
33439992 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
33440031 TCTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * * *
33440070 TCTCGCACAAATGCCTTC-AGATCTTAGTCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTA
*
33440110 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
33440143 CATCATTCAA
Statistics
Matches: 163, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 73 0.45
40 77 0.47
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:33440096 original size:79 final size:78
Alignment explanation
Indices: 33439912--33440142 Score: 234
Period size: 79 Copynumber: 2.9 Consensus size: 78
33439902 GGATATAGCT
* * * * * * *
33439912 ACTCGCTCAAACGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCTTTCGGGACTT
1 ACTCGCACAAATGCCTTCGAG-CTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTT
* * *
33439977 AACCTGGATTTAGTA
64 AGCCCGGAATTAGTA
*
33439992 ACTCGCACAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTT
1 ACTCGCACAAATGCCTTCGAGCTTAGCCCGGATA-TAGTA-CTCGCACAAATGCCTTCGGGACTT
33440055 AGCCCGGAATTAGTA
64 AGCCCGGAATTAGTA
* * * * *
33440070 TCTCGCACAAATGCCTTCAGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACT
1 ACTCGCACAAATGCCTTC-GAGCTTAGCCCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACT
33440134 TAGCCCGGA
63 TAGCCCGGA
33440143 CATCATTCAA
Statistics
Matches: 129, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 34 0.26
79 55 0.43
80 40 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
ACTCGCACAAATGCCTTCGAGCTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAG
CCCGGAATTAGTA
Found at i:33447868 original size:39 final size:40
Alignment explanation
Indices: 33447751--33447974 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
33447741 GCTACTCGTT
* * *
33447751 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * * *
33447791 CAATTGCCTTGGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
33447831 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
33447870 CAAATGCCTTCGTG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
33447909 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
33447950 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33447975 CATCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 70 0.44
40 72 0.45
41 16 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:33447928 original size:79 final size:79
Alignment explanation
Indices: 33447751--33447967 Score: 226
Period size: 79 Copynumber: 2.7 Consensus size: 79
33447741 GCTACTCGTT
* * * * * *
33447751 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTGGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
*
33447815 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
* * *
33447831 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGTG-CTTAGCCCAGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
*
33447895 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* * * *
33447909 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTAAC-TCGCACAAATGCCTTCGGGACTTA
33447968 GCCCGGACAT
Statistics
Matches: 115, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 34 0.30
79 52 0.45
80 29 0.25
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
ATTAGTAACTCGCA
Done.