Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 108 of 253
Found at i:33724859 original size:25 final size:25
Alignment explanation
Indices: 33724824--33724872 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
33724814 GAAACCTAAT
33724824 ATTGATCAATTAAAACCCCAATCAA
1 ATTGATCAATTAAAACCCCAATCAA
*
33724849 ATTGATTAATTAAAACCCCAATCA
1 ATTGATCAATTAAAACCCCAATCA
33724873 GTCACTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (25 bp):
ATTGATCAATTAAAACCCCAATCAA
Found at i:33724884 original size:25 final size:24
Alignment explanation
Indices: 33724831--33724881 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
33724821 AATATTGATC
* *
33724831 AATTAAAACCCCAATCAAATTGATT
1 AATTAAAACCCCAATC-AAGTCATT
33724856 AATTAAAACCCCAATC-AGTCACTT
1 AATTAAAACCCCAATCAAGTCA-TT
33724880 AA
1 AA
33724882 ATTGACACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 3 0.13
24 4 0.17
25 16 0.70
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.25
Consensus pattern (24 bp):
AATTAAAACCCCAATCAAGTCATT
Found at i:33725192 original size:15 final size:15
Alignment explanation
Indices: 33725169--33725198 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33725159 AGAAACAGAG
33725169 AAGGAGAAATTAGCA
1 AAGGAGAAATTAGCA
*
33725184 AAGGGGAAATTAGCA
1 AAGGAGAAATTAGCA
33725199 GAGAGGTTGG
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:0.50, C:0.07, G:0.30, T:0.13
Consensus pattern (15 bp):
AAGGAGAAATTAGCA
Found at i:33726658 original size:14 final size:14
Alignment explanation
Indices: 33726641--33726671 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33726631 AGTAAAATCT
33726641 TTTCCGGAAAATGA
1 TTTCCGGAAAATGA
*
33726655 TTTCTGGAAAATGA
1 TTTCCGGAAAATGA
33726669 TTT
1 TTT
33726672 ACTTTTCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (14 bp):
TTTCCGGAAAATGA
Found at i:33726690 original size:19 final size:19
Alignment explanation
Indices: 33726655--33726719 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
33726645 CGGAAAATGA
33726655 TTTCTGGAAAATGATTTACT
1 TTTCTGG-AAATGATTTACT
*
33726675 TTTCTGGAAATAATTTACT
1 TTTCTGGAAATGATTTACT
33726694 TTTCTGGAAATGATTTACT
1 TTTCTGGAAATGATTTACT
33726713 TTTCTGG
1 TTTCTGG
33726720 TATTTGGATG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
19 36 0.84
20 7 0.16
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (19 bp):
TTTCTGGAAATGATTTACT
Found at i:33726841 original size:30 final size:30
Alignment explanation
Indices: 33726805--33726863 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
33726795 TTTACATATA
* * *
33726805 TTAATAAATTTGTATTTTAAATTGTTTTTT
1 TTAATAAATTTATACTTTAAATTATTTTTT
33726835 TTAATAAATTTATACTTTAAATTATTTTT
1 TTAATAAATTTATACTTTAAATTATTTTT
33726864 ACATATATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (30 bp):
TTAATAAATTTATACTTTAAATTATTTTTT
Found at i:33728141 original size:21 final size:21
Alignment explanation
Indices: 33728079--33728141 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 21
33728069 CCAACCAAAC
*
33728079 AAATTCAATATCTAATATAAT
1 AAATTCAATATCTAACATAAT
* *
33728100 AAATTCAACAAGCTTAAAACATAAT
1 AAATTCAA-TATC-T--AACATAAT
33728125 AAATTCAATATCTAACA
1 AAATTCAATATCTAACA
33728142 AATTCAAGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 12 0.36
22 2 0.06
23 2 0.06
24 2 0.06
25 15 0.45
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATTCAATATCTAACATAAT
Found at i:33728142 original size:32 final size:32
Alignment explanation
Indices: 33728115--33728175 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
33728105 CAACAAGCTT
* *
33728115 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
33728147 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
33728176 CTAAATTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:33734120 original size:25 final size:27
Alignment explanation
Indices: 33734083--33734135 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
33734073 TCAAACATGC
33734083 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
33734109 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
33734135 A
1 A
33734136 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:33735654 original size:26 final size:26
Alignment explanation
Indices: 33735624--33735679 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
33735614 TGAAATGCCC
33735624 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33735650 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33735676 ATCA
1 ATCA
33735680 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33740850 original size:72 final size:72
Alignment explanation
Indices: 33740751--33740984 Score: 337
Period size: 72 Copynumber: 3.2 Consensus size: 72
33740741 AAATGCTAAA
* * * *
33740751 CTAGTTTTATCTATAGTTATTTGTGTTTGGTTTTTGGATATTGAACTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
33740816 GTGTAAT
66 GTGTAAT
* *
33740823 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
33740888 GTGTAAT
66 GTGTAAT
* * *
33740895 CTACTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGGATATTGAATTTATGTTCTACTTATTTA
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGT-TTTTGGATATTGAATTTATGTTCTACTTATTTA
* *
33740960 TACT-AAAT
65 T-GTGTAAT
33740968 -TAGTTTTATCAATAGTT
1 CTAGTTTTATCAATAGTT
33740985 ATTAATATAT
Statistics
Matches: 145, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
72 109 0.75
73 35 0.24
74 1 0.01
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:33743039 original size:13 final size:13
Alignment explanation
Indices: 33743018--33743094 Score: 100
Period size: 13 Copynumber: 5.9 Consensus size: 13
33743008 ACACCTAAAA
33743018 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
33743031 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
33743044 TTCTCAAAAACAC
1 TTTTCAAAAGCAC
* *
33743057 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
33743070 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
33743083 TTTTCAAAAGCA
1 TTTTCAAAAGCA
33743095 TTGCCAAACA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 54 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:33748716 original size:32 final size:33
Alignment explanation
Indices: 33748666--33748729 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
33748656 TAGGTTTTAT
* * * *
33748666 TTTAAATTTTAAGTTTTTAATTATATTTTTAGG
1 TTTAAATCTCAAGTTTTTAATTAAAATTTTAGG
33748699 TTTAAATCTCAAG-TTTTAATTAAAATTTTAG
1 TTTAAATCTCAAGTTTTTAATTAAAATTTTAG
33748730 ATCCTTTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (33 bp):
TTTAAATCTCAAGTTTTTAATTAAAATTTTAGG
Found at i:33750319 original size:80 final size:80
Alignment explanation
Indices: 33750186--33750348 Score: 317
Period size: 80 Copynumber: 2.0 Consensus size: 80
33750176 GGAAAACTCG
*
33750186 TTTTTGGAATAGGTCTAGAATAGCCCCCATTCAAGAATAACACTCATTTAAGAATAACTCTTCAT
1 TTTTTGGAATAGGTCTAGAATAGCCCCCATTCAAGAACAACACTCATTTAAGAATAACTCTTCAT
33750251 TGAGAACAACTTTTA
66 TGAGAACAACTTTTA
33750266 TTTTTGGAATAGGTCTAGAATAGCCCCCATTCAAGAACAACACTCATTTAAGAATAACTCTTCAT
1 TTTTTGGAATAGGTCTAGAATAGCCCCCATTCAAGAACAACACTCATTTAAGAATAACTCTTCAT
33750331 TGAGAACAACTTTTA
66 TGAGAACAACTTTTA
33750346 TTT
1 TTT
33750349 CAAGAGATAC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (80 bp):
TTTTTGGAATAGGTCTAGAATAGCCCCCATTCAAGAACAACACTCATTTAAGAATAACTCTTCAT
TGAGAACAACTTTTA
Found at i:33752383 original size:17 final size:18
Alignment explanation
Indices: 33752363--33752413 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
33752353 AAAAAAGATT
33752363 ATAAAA-AATAAAAATCA
1 ATAAAATAATAAAAATCA
*
33752380 ATAAAATTTATAAAAA-CA
1 ATAAAA-TAATAAAAATCA
*
33752398 ATAAAATTATAAAAAT
1 ATAAAATAATAAAAAT
33752414 AGTAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 15 0.50
18 8 0.27
19 7 0.23
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAAAATAATAAAAATCA
Found at i:33752392 original size:19 final size:18
Alignment explanation
Indices: 33752370--33752431 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 18
33752360 ATTATAAAAA
33752370 ATAAAAATCAATAAAATTT
1 ATAAAAATCAATAAAA-TT
33752389 ATAAAAA-CAATAAAATT
1 ATAAAAATCAATAAAATT
*
33752406 ATAAAAAT-AGTAAAAAATT
1 ATAAAAATCA--ATAAAATT
33752425 ATAAAAA
1 ATAAAAA
33752432 AATTGCAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
17 10 0.26
18 8 0.21
19 21 0.54
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (18 bp):
ATAAAAATCAATAAAATT
Found at i:33752412 original size:9 final size:9
Alignment explanation
Indices: 33752355--33752431 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
33752345 ACATGTGAAA
33752355 AAAAGATTAT
1 AAAA-ATTAT
33752365 AAAAA--AT
1 AAAAATTAT
*
33752372 AAAAATCAAT
1 AAAAAT-TAT
*
33752382 AAAATTTAT
1 AAAAATTAT
**
33752391 AAAAACAAT
1 AAAAATTAT
33752400 -AAAATTAT
1 AAAAATTAT
33752408 AAAAA-TAGT
1 AAAAATTA-T
33752417 AAAAAATTAT
1 -AAAAATTAT
33752427 AAAAA
1 AAAAA
33752432 AATTGCAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
7 7 0.13
8 8 0.15
9 19 0.36
10 17 0.32
11 2 0.04
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (9 bp):
AAAAATTAT
Found at i:33752806 original size:19 final size:18
Alignment explanation
Indices: 33752742--33752807 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
33752732 TTTTGATGCA
33752742 TTTTATA-ATTTTTTATGAT
1 TTTTATATA-TTTTTA-GAT
* *
33752761 TTTTATAAAATTTTA-ATT
1 TTTTATATATTTTTAGA-T
*
33752779 TTTTTTATATTTTTACGAT
1 TTTTATATATTTTTA-GAT
33752798 TTTTATATAT
1 TTTTATATAT
33752808 ATATATTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
17 1 0.03
18 13 0.34
19 22 0.58
20 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTATATATTTTTAGAT
Found at i:33752882 original size:28 final size:27
Alignment explanation
Indices: 33752813--33752882 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
33752803 TATATATATA
* * *
33752813 TTTT-AATGTTTAATAAAATTTACTTAT
1 TTTTAAAT-TTTATTAAAATTTAATAAT
*
33752840 TTTTATATTTGTATTAAAATTTAATAAT
1 TTTTAAATTT-TATTAAAATTTAATAAT
33752868 TTTATAAATTTTATT
1 TTT-TAAATTTTATT
33752883 TATTTTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 6 0.17
28 23 0.66
29 6 0.17
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (27 bp):
TTTTAAATTTTATTAAAATTTAATAAT
Found at i:33754602 original size:36 final size:36
Alignment explanation
Indices: 33754555--33754632 Score: 156
Period size: 36 Copynumber: 2.2 Consensus size: 36
33754545 CAATTGAACC
33754555 CAATATTTGTTTTTCTATTTCCCAAAATAAACATCT
1 CAATATTTGTTTTTCTATTTCCCAAAATAAACATCT
33754591 CAATATTTGTTTTTCTATTTCCCAAAATAAACATCT
1 CAATATTTGTTTTTCTATTTCCCAAAATAAACATCT
33754627 CAATAT
1 CAATAT
33754633 ATTTACAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.44
Consensus pattern (36 bp):
CAATATTTGTTTTTCTATTTCCCAAAATAAACATCT
Found at i:33754894 original size:58 final size:57
Alignment explanation
Indices: 33754821--33754936 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 57
33754811 TTCCAAGTCA
* * *
33754821 TTTTCATTTCCATTTTCATTTTGGAGAAAATCACATTCATTTCCAAATGATTC-CATT
1 TTTTCATTTCCATTTTCATTTTGGAAAAAACCACAATCATTTCCAAAT-ATTCTCATT
* *
33754878 TTTTCCATTTTCATTTTCATTTTGGAAAAAACCATAATCATTTCCAAATATTCTCATT
1 TTTT-CATTTCCATTTTCATTTTGGAAAAAACCACAATCATTTCCAAATATTCTCATT
33754936 T
1 T
33754937 CACCATTTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
57 8 0.15
58 44 0.85
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.47
Consensus pattern (57 bp):
TTTTCATTTCCATTTTCATTTTGGAAAAAACCACAATCATTTCCAAATATTCTCATT
Found at i:33765123 original size:25 final size:26
Alignment explanation
Indices: 33765095--33765148 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
33765085 TAATTTGCAT
*
33765095 AAAATATT-AATAATTCAATAAA-TTG
1 AAAA-ATTAAATAATCCAATAAATTTG
33765120 AAAAATTAAATAATCCAATAAATTTG
1 AAAAATTAAATAATCCAATAAATTTG
33765146 AAA
1 AAA
33765149 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 17 0.65
26 6 0.23
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATCCAATAAATTTG
Found at i:33767723 original size:31 final size:31
Alignment explanation
Indices: 33767688--33767750 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
33767678 GGAATAGAAG
* *
33767688 TACCCATCAGATCAACCTTGATTTAGCGTCT
1 TACCCATCAGATCAACCTCGATTCAGCGTCT
*
33767719 TACCCATCGGATCAACCTCGATTCAGCGTCT
1 TACCCATCAGATCAACCTCGATTCAGCGTCT
33767750 T
1 T
33767751 TCTTGGAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (31 bp):
TACCCATCAGATCAACCTCGATTCAGCGTCT
Found at i:33769767 original size:79 final size:82
Alignment explanation
Indices: 33769656--33769840 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
33769646 GCTACTCGTT
* *
33769656 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
33769719 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* *
33769736 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAATCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
33769799 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
33769816 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33769841 CATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:33769840 original size:40 final size:40
Alignment explanation
Indices: 33769637--33769840 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
33769627 CGGAATTTAA
** *
33769637 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33769677 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33769717 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* **
33769756 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAAT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33769796 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33769836 CCGGA
1 CCGGA
33769841 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33773506 original size:17 final size:17
Alignment explanation
Indices: 33773484--33773518 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33773474 CGAGAACCTT
33773484 TGACAAATCGTCGGTAA
1 TGACAAATCGTCGGTAA
33773501 TGACAAATCGTCGGTAA
1 TGACAAATCGTCGGTAA
33773518 T
1 T
33773519 AACCGGCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (17 bp):
TGACAAATCGTCGGTAA
Found at i:33777744 original size:79 final size:82
Alignment explanation
Indices: 33777633--33777817 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
33777623 GCTACTCGTT
* *
33777633 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
33777696 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
33777713 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
33777776 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
33777793 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33777818 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:33777817 original size:40 final size:40
Alignment explanation
Indices: 33777614--33777817 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
33777604 CGGAATTTAA
** *
33777614 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33777654 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33777694 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33777733 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33777773 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33777813 CCGGA
1 CCGGA
33777818 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33783556 original size:27 final size:27
Alignment explanation
Indices: 33783526--33783580 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
33783516 TCGCATAGAC
33783526 TTAAAAACATTAAATGTTACCTAATTG
1 TTAAAAACATTAAATGTTACCTAATTG
33783553 TTAAAAACATTAAATGTTACCTAATTG
1 TTAAAAACATTAAATGTTACCTAATTG
33783580 T
1 T
33783581 CCTGAACACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (27 bp):
TTAAAAACATTAAATGTTACCTAATTG
Found at i:33792680 original size:25 final size:25
Alignment explanation
Indices: 33792652--33792700 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
33792642 TAAGGACACG
*
33792652 TTTAGGTTCGTCTACTAATATAATA
1 TTTAGGTTCATCTACTAATATAATA
33792677 TTTAGGTTCATCTACTAATATAAT
1 TTTAGGTTCATCTACTAATATAAT
33792701 GTCTGATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (25 bp):
TTTAGGTTCATCTACTAATATAATA
Found at i:33795146 original size:15 final size:15
Alignment explanation
Indices: 33795126--33795164 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
33795116 TTGGGTTGAT
*
33795126 AAAATTATTTAATTA
1 AAAATTAATTAATTA
33795141 AAAATTAATTAATT-
1 AAAATTAATTAATTA
*
33795155 TAAATTAATT
1 AAAATTAATT
33795165 TAGTAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAAATTAATTAATTA
Found at i:33801974 original size:53 final size:53
Alignment explanation
Indices: 33801911--33802016 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
33801901 CGAGTCGTTT
33801911 TTCTTTGTCATTAATAACTTAATTACTATTTGATAGTAATTGTCTTTTCATGA
1 TTCTTTGTCATTAATAACTTAATTACTATTTGATAGTAATTGTCTTTTCATGA
33801964 TTCTTTGTCATTAATAACTTAATTACTATTTGATAGTAATTGTCTTTTCATGA
1 TTCTTTGTCATTAATAACTTAATTACTATTTGATAGTAATTGTCTTTTCATGA
33802017 AAAAAGATGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.51
Consensus pattern (53 bp):
TTCTTTGTCATTAATAACTTAATTACTATTTGATAGTAATTGTCTTTTCATGA
Found at i:33802003 original size:25 final size:25
Alignment explanation
Indices: 33801922--33802003 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
33801912 TCTTTGTCAT
33801922 TAATAACTTAATTACTATTTGATAG
1 TAATAACTTAATTACTATTTGATAG
** * * * * *
33801947 TAATTGTCTTTTCATGATTCTTTG-TCAT
1 TAA-TAAC--TTAATTACTATTTGAT-AG
33801975 TAATAACTTAATTACTATTTGATAG
1 TAATAACTTAATTACTATTTGATAG
33802000 TAAT
1 TAAT
33802004 TGTCTTTTCA
Statistics
Matches: 38, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 18 0.47
26 3 0.08
27 3 0.08
28 14 0.37
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.49
Consensus pattern (25 bp):
TAATAACTTAATTACTATTTGATAG
Found at i:33802529 original size:30 final size:30
Alignment explanation
Indices: 33802495--33802557 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
33802485 ATTTATTTTA
33802495 TTGTTAATTTTCTTATTATTTT-AAAGACAT
1 TTGTTAATTTTCTTATTATTTTAAAAG-CAT
*
33802525 TTGTTAATTTTTTTATTATTTTAAAAGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
33802555 TTG
1 TTG
33802558 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAAGCAT
Found at i:33808670 original size:32 final size:32
Alignment explanation
Indices: 33808629--33808692 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
33808619 CATCAGTTAG
33808629 AGCATTTCCAACCTGCATATTATGTACACATC
1 AGCATTTCCAACCTGCATATTATGTACACATC
33808661 AGCATTTCCAACCTGCATATTATGTACACATC
1 AGCATTTCCAACCTGCATATTATGTACACATC
33808693 CATGTTTCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.31
Consensus pattern (32 bp):
AGCATTTCCAACCTGCATATTATGTACACATC
Found at i:33811351 original size:31 final size:31
Alignment explanation
Indices: 33811316--33811376 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
33811306 TTGCCTGCTT
*
33811316 GCTTGCTTTGTTGGTTTCTGTCATGCTGTTG
1 GCTTGCTTTGTTAGTTTCTGTCATGCTGTTG
33811347 GCTTGCTTTGTTAGTTTCTGTCATGCTGTT
1 GCTTGCTTTGTTAGTTTCTGTCATGCTGTT
33811377 TGTGCGAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.05, C:0.16, G:0.26, T:0.52
Consensus pattern (31 bp):
GCTTGCTTTGTTAGTTTCTGTCATGCTGTTG
Found at i:33811646 original size:11 final size:11
Alignment explanation
Indices: 33811632--33811683 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
33811622 CAACTGTTTC
*
33811632 GTTATTGTTTT
1 GTTATTATTTT
33811643 GTTATTATTTT
1 GTTATTATTTT
* *
33811654 ATTATTATATT
1 GTTATTATTTT
*
33811665 ATTATTATTTT
1 GTTATTATTTT
*
33811676 GTTGTTAT
1 GTTATTAT
33811684 AGTTTATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (11 bp):
GTTATTATTTT
Found at i:33812172 original size:19 final size:19
Alignment explanation
Indices: 33812144--33812181 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
33812134 ATTTTATAGC
33812144 TTTTTATTATAAATTTTTTA
1 TTTTTATTAT-AATTTTTTA
*
33812164 TTTTT-TTATGATTTTTTA
1 TTTTTATTATAATTTTTTA
33812182 ATAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTTATTATAATTTTTTA
Found at i:33812719 original size:21 final size:21
Alignment explanation
Indices: 33812694--33812737 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
33812684 TAAAATATAT
* *
33812694 AAATATATAAATATAATTAAA
1 AAATAAATAAATATAAATAAA
*
33812715 AAATAAATAAATTTAAATAAA
1 AAATAAATAAATATAAATAAA
33812736 AA
1 AA
33812738 CTTTGTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAAATAAATATAAATAAA
Found at i:33817434 original size:28 final size:28
Alignment explanation
Indices: 33817382--33817436 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
33817372 TATTCACTAC
**
33817382 TCCCAAATTGGTACTCAAGGTTTTTTTG
1 TCCCAAATTGGTACTCAAGCATTTTTTG
33817410 TCCCAAATTGGTACTCGAA-CATTTTTT
1 TCCCAAATTGGTACTC-AAGCATTTTTT
33817437 CAGTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.42
Consensus pattern (28 bp):
TCCCAAATTGGTACTCAAGCATTTTTTG
Found at i:33825653 original size:29 final size:29
Alignment explanation
Indices: 33825595--33825694 Score: 168
Period size: 28 Copynumber: 3.5 Consensus size: 29
33825585 ATAGTAAGTC
33825595 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
*
33825623 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
33825652 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
*
33825680 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33825695 ATGCAATTTA
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
28 39 0.58
29 28 0.42
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAAACT
Found at i:33825693 original size:28 final size:28
Alignment explanation
Indices: 33825595--33825722 Score: 168
Period size: 29 Copynumber: 4.5 Consensus size: 28
33825585 ATAGTAAGTC
*
33825595 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
33825623 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
33825652 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** *
33825680 TGCACACTTAGTGCTATGCAATTTAAAC-
1 CGCACACTTAGTGCTATATAA-TCAAACT
33825708 CTGCACACTTAGTGC
1 C-GCACACTTAGTGC
33825723 CAATCTCATG
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33829386 original size:86 final size:86
Alignment explanation
Indices: 33829241--33829398 Score: 228
Period size: 86 Copynumber: 1.8 Consensus size: 86
33829231 ATATCGTACA
** * * *
33829241 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCGATGCCACTGTCCTAGACATGGT
1 ATGCCAACGTCCCAGACACGGTCTTACATGAAATCACATATCGATGCCAATGTCCTAGACATGGT
33829306 CTTACACAAATCACAATTATG
66 CTTACACAAATCACAATTATG
* * *
33829327 ATGCCAATGTCCCATACACGGTCTTAC-TCGAAATCACATATCGATGCCAATGTCCTAGACGTGG
1 ATGCCAACGTCCCAGACACGGTCTTACAT-GAAATCACATATCGATGCCAATGTCCTAGACATGG
33829391 TCTTACAC
65 TCTTACAC
33829399 GAGAACACGT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
85 1 0.02
86 62 0.98
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACACGGTCTTACATGAAATCACATATCGATGCCAATGTCCTAGACATGGT
CTTACACAAATCACAATTATG
Found at i:33829412 original size:43 final size:43
Alignment explanation
Indices: 33829241--33829413 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
33829231 ATATCGTACA
* * * * *
33829241 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATCG
* *
33829284 ATGCCACTGTCCTAGACATGGTCTTACAC-AAATCACAATTAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAC-A-TATCG
* * *
33829327 ATGCCAATGTCCCATACACGGTCTTACTCGAAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATCG
* * *
33829370 ATGCCAATGTCCTAGACGTGGTCTTACACGAGAA-CACGTATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCACATATCG
33829413 A
1 A
33829414 AAATCTTATG
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
42 9 0.08
43 87 0.81
44 11 0.10
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:33831289 original size:17 final size:16
Alignment explanation
Indices: 33831255--33831293 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
33831245 TTTTGATTGA
* *
33831255 TTATTTTTTTAATGTT
1 TTATTTTTTGAATATT
33831271 TTATATTTTTGAATATT
1 TTAT-TTTTTGAATATT
33831288 TTATTT
1 TTATTT
33831294 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (16 bp):
TTATTTTTTGAATATT
Found at i:33833470 original size:15 final size:15
Alignment explanation
Indices: 33833447--33833478 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33833437 AACACAATTA
33833447 TCTAAAAAAATTAAC
1 TCTAAAAAAATTAAC
*
33833462 TCTATAAAAATTAAC
1 TCTAAAAAAATTAAC
33833477 TC
1 TC
33833479 AGTAGAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (15 bp):
TCTAAAAAAATTAAC
Found at i:33834926 original size:18 final size:20
Alignment explanation
Indices: 33834880--33834926 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
33834870 AAATTAAATG
33834880 AAATTTTAATTTAATATTAA
1 AAATTTTAATTTAATATTAA
33834900 ATATTATTTTAATTT-A-ATTAA
1 A-A--ATTTTAATTTAATATTAA
33834921 AAATTT
1 AAATTT
33834927 CATATGTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
18 4 0.17
20 2 0.08
21 7 0.29
22 1 0.04
23 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTTTAATTTAATATTAA
Found at i:33838557 original size:39 final size:39
Alignment explanation
Indices: 33838514--33838591 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
33838504 GATAGTTAGA
* *
33838514 TGAGAGTCTTAAGGGATTTAAACTCTATACATATTTGTT
1 TGAGAGTCCTAAGAGATTTAAACTCTATACATATTTGTT
33838553 TGAGAGTCCTAAGAGATTTAAACTCTATACATATTTGTT
1 TGAGAGTCCTAAGAGATTTAAACTCTATACATATTTGTT
33838592 CCTTAAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.40
Consensus pattern (39 bp):
TGAGAGTCCTAAGAGATTTAAACTCTATACATATTTGTT
Found at i:33839433 original size:23 final size:23
Alignment explanation
Indices: 33839403--33839449 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
33839393 TTCATAAGTG
33839403 TTAGATTGGTATGGTGATGATAT
1 TTAGATTGGTATGGTGATGATAT
33839426 TTAGATTGGTATGGTGATGATAT
1 TTAGATTGGTATGGTGATGATAT
33839449 T
1 T
33839450 GGTTTTTGTT
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:0.26, C:0.00, G:0.30, T:0.45
Consensus pattern (23 bp):
TTAGATTGGTATGGTGATGATAT
Found at i:33843442 original size:40 final size:40
Alignment explanation
Indices: 33843315--33843439 Score: 160
Period size: 40 Copynumber: 3.1 Consensus size: 40
33843305 TTATACGTTA
** *
33843315 TGTATCAGCGAATTTCCCTTGTAAGCTTATGGATAAGTTG
1 TGTATCAGCGAAACTCCCTTGTGAGCTTATGGATAAGTTG
* *
33843355 TGTATCAACGAAACTCCCATGTGAGCTTATGGATAAGTTG
1 TGTATCAGCGAAACTCCCTTGTGAGCTTATGGATAAGTTG
* * ** *
33843395 TGTATTAGCGAAGCTCCCTTGTGAGCTTACAGATAAGCTG
1 TGTATCAGCGAAACTCCCTTGTGAGCTTATGGATAAGTTG
33843435 TGTAT
1 TGTAT
33843440 TAGTGAAAGT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (40 bp):
TGTATCAGCGAAACTCCCTTGTGAGCTTATGGATAAGTTG
Found at i:33845215 original size:40 final size:40
Alignment explanation
Indices: 33845131--33845314 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
33845121 TTGAATGCTG
* * * *
33845131 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
33845170 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
33845211 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
33845251 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
33845291 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33845315 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:33845268 original size:80 final size:81
Alignment explanation
Indices: 33845131--33845311 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
33845121 TTGAATGCTG
* * *
33845131 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
33845195 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
33845211 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
33845272 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
33845291 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
33845312 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:33845335 original size:39 final size:38
Alignment explanation
Indices: 33845212--33845361 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
33845202 GTTATTAATT
* ** * *
33845212 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
33845252 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
33845291 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
33845331 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
33845362 GAGCTATATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:33845369 original size:40 final size:39
Alignment explanation
Indices: 33845252--33845374 Score: 97
Period size: 40 Copynumber: 3.1 Consensus size: 39
33845242 GATACTAATT
* ** ** *
33845252 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 CCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACTATAA
* * *
33845291 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
* *
33845331 CCGGGCTATGTCCCGAAGGCACTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATAA
33845371 CCGG
1 CCGG
33845375 TTAAATTCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 25 0.36
40 44 0.64
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
Found at i:33853173 original size:40 final size:40
Alignment explanation
Indices: 33853142--33853272 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
33853132 GGACTAAGAT
*
33853142 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
33853182 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
33853222 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
*
33853262 CTGAAGGCATT
1 CCGAAGGCATT
33853273 GAATGAGTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 79 0.99
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:33853226 original size:80 final size:81
Alignment explanation
Indices: 33853096--33853269 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 81
33853086 TGTCCGGCGC
* * *
33853096 TAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATTTGTGCGA
1 TAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGA
*
33853160 GTTATT-AATTCCGGGT
66 GTT-TTAAAATCCGGGT
**
33853176 TAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGCATTCGTG
1 TAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGCATTCGTG
33853237 CGAGTTTTAAAATCCGGGT
63 CGAGTTTTAAAATCCGGGT
*
33853256 TAAGTCCTGAAGGC
1 TAAGTCCCGAAGGC
33853270 ATTGAATGAG
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
79 4 0.05
80 69 0.84
81 9 0.11
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (81 bp):
TAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGA
GTTTTAAAATCCGGGT
Found at i:33853293 original size:39 final size:39
Alignment explanation
Indices: 33853169--33853319 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
33853159 AGTTATTAAT
* ** * *
33853169 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACT-AAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
33853209 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* * *
33853249 TCCGGGTTAAGTCCTGAAGGCATTGAATGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
33853289 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
33853320 GAGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 29 0.31
40 64 0.69
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:33858362 original size:26 final size:27
Alignment explanation
Indices: 33858333--33858414 Score: 130
Period size: 27 Copynumber: 3.1 Consensus size: 27
33858323 ATGCATTCCC
*
33858333 TTCATAGATTGCCAC-GAGGCTTTCTT
1 TTCATAGATTGCCACAAAGGCTTTCTT
*
33858359 TTCATAGATAGCCACAAAGGCTTTCTT
1 TTCATAGATTGCCACAAAGGCTTTCTT
*
33858386 TTGATAGATTGCCACAAAGGCTTTCTT
1 TTCATAGATTGCCACAAAGGCTTTCTT
33858413 TT
1 TT
33858415 TTTTGGGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 14 0.27
27 37 0.73
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (27 bp):
TTCATAGATTGCCACAAAGGCTTTCTT
Found at i:33863564 original size:44 final size:45
Alignment explanation
Indices: 33863509--33863614 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 45
33863499 CATGTCCTAG
*
33863509 ACATGGTCTTACACTGAC-ACATCTCGTA-GCCGATGCATATCCCAA
1 ACAT-GTCTTACACTAACTACATCTCG-AGGCCGATGCATATCCCAA
* * *
33863554 ACATGTCTTACACTAACTTACGTCTCGAGGCCGATGCATGTCCCAG
1 ACATGTCTTACACTAAC-TACATCTCGAGGCCGATGCATATCCCAA
33863600 ACATGTCTTACACTA
1 ACATGTCTTACACTA
33863615 GCTCACAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 12 0.22
45 5 0.09
46 37 0.69
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (45 bp):
ACATGTCTTACACTAACTACATCTCGAGGCCGATGCATATCCCAA
Found at i:33866037 original size:45 final size:45
Alignment explanation
Indices: 33865987--33866074 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
33865977 AAACATGTGT
*
33865987 CACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGATGA
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGA
*
33866032 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
33866075 CACATAGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGA
Found at i:33866072 original size:21 final size:21
Alignment explanation
Indices: 33866003--33866078 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
33865993 CATCATGAAC
*
33866003 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * **
33866024 TCAGATGACACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
33866048 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
33866069 TCAGATCACA
1 TCAGACCACA
33866079 TAGTTCCTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.47
22 4 0.10
23 3 0.08
24 10 0.25
25 2 0.05
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:33869667 original size:28 final size:27
Alignment explanation
Indices: 33869585--33869676 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 27
33869575 TTTCGTCTTC
*
33869585 AAGATAGTCCTTGGA-TA-TTCCACAT
1 AAGATAGTCCTTGGAGGACTTCCACAT
*
33869610 AAGATAG-CTCTTGGAGGACTTCACGCAT
1 AAGATAGTC-CTTGGAGGACTTC-CACAT
* *
33869638 AAGATAGTCCTTGGTGGACTTTCCAAAT
1 AAGATAGTCCTTGGAGGAC-TTCCACAT
*
33869666 AAGGTAGTCCT
1 AAGATAGTCCT
33869677 AACTGACATC
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
24 1 0.02
25 13 0.24
26 1 0.02
27 3 0.05
28 33 0.60
29 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (27 bp):
AAGATAGTCCTTGGAGGACTTCCACAT
Found at i:33870212 original size:11 final size:10
Alignment explanation
Indices: 33870190--33870219 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
33870180 GAAACATTTG
33870190 GAAAATTTAA
1 GAAAATTTAA
33870200 GAAAATGTTAA
1 GAAAAT-TTAA
33870211 GAAAATTTA
1 GAAAATTTA
33870220 GACTATAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (10 bp):
GAAAATTTAA
Found at i:33875632 original size:36 final size:35
Alignment explanation
Indices: 33875545--33875634 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 35
33875535 CACAATGCCG
* * *
33875545 CTCCTTAGAGCCAATGGATCATTTCCATGACGCCA
1 CTCCATAGAGCCAGTAGATCATTTCCATGACGCCA
* ** *
33875580 CTCCGTAGAGCCAGTAGATCATTTCCCATGATTCCG
1 CTCCATAGAGCCAGTAGATCATTT-CCATGACGCCA
33875616 CTCCATAGA-CCTAGTAGAT
1 CTCCATAGAGCC-AGTAGAT
33875635 TGCTTCCAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
35 23 0.50
36 23 0.50
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (35 bp):
CTCCATAGAGCCAGTAGATCATTTCCATGACGCCA
Found at i:33876314 original size:18 final size:18
Alignment explanation
Indices: 33876291--33876326 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33876281 TACGTTTGGT
33876291 TCACTGTAATGGAATAGA
1 TCACTGTAATGGAATAGA
*
33876309 TCACTGTAATTGAATAGA
1 TCACTGTAATGGAATAGA
33876327 GCTGTAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (18 bp):
TCACTGTAATGGAATAGA
Found at i:33876651 original size:23 final size:21
Alignment explanation
Indices: 33876620--33876663 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
33876610 TATTATATGA
33876620 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
33876643 ATTATAAAAATAATATATAAT
1 ATTAAAAAAATAATATATAAT
33876664 CTACTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:33878269 original size:20 final size:20
Alignment explanation
Indices: 33878244--33878281 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33878234 GACTAAACCG
33878244 AAAACTTTAG-AAATTTTTAC
1 AAAAC-TTAGAAAATTTTTAC
33878264 AAAACTTAGAAAATTTTT
1 AAAACTTAGAAAATTTTT
33878282 GCACTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
AAAACTTAGAAAATTTTTAC
Found at i:33878620 original size:13 final size:13
Alignment explanation
Indices: 33878596--33878631 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
33878586 CCCATGGGAT
*
33878596 ACACACGGCCTAG
1 ACACACGCCCTAG
*
33878609 ACACATGCCCTAG
1 ACACACGCCCTAG
33878622 ACACACGCCC
1 ACACACGCCC
33878632 GTGTGTTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.44, G:0.17, T:0.08
Consensus pattern (13 bp):
ACACACGCCCTAG
Found at i:33899480 original size:17 final size:17
Alignment explanation
Indices: 33899460--33899494 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33899450 CCATTTGTAC
33899460 TTAGTATTCATTTATTG
1 TTAGTATTCATTTATTG
33899477 TTAGTATTCATTTATTG
1 TTAGTATTCATTTATTG
33899494 T
1 T
33899495 CGATAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (17 bp):
TTAGTATTCATTTATTG
Found at i:33901787 original size:38 final size:38
Alignment explanation
Indices: 33901744--33901900 Score: 181
Period size: 38 Copynumber: 4.1 Consensus size: 38
33901734 AAAGGCCCGA
* *
33901744 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
* * *
33901782 ATATAATACCAGCACGAAGCTTGCAGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
* * *
33901820 ATATATTACCAGCACGAAGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
* * *
33901858 ATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCAG
1 ATATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCAG
33901898 ATA
1 ATA
33901901 CACATCAAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
37 1 0.01
38 89 0.88
39 4 0.04
40 7 0.07
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:33907878 original size:85 final size:85
Alignment explanation
Indices: 33907735--33907913 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
33907725 GGCCGGCCAT
33907735 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33907800 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
33907820 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33907885 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
33907905 GAGCATGGG
1 GAGCATGGG
33907914 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:33909181 original size:39 final size:40
Alignment explanation
Indices: 33909079--33909263 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
33909069 TCGAATGATG
* * *
33909079 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
33909118 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
33909159 TCCGGGCTAAG-CTCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
33909198 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAGT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
33909237 AACCGAGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
33909264 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:33909294 original size:79 final size:79
Alignment explanation
Indices: 33909118--33909296 Score: 177
Period size: 79 Copynumber: 2.3 Consensus size: 79
33909108 AAGTGACCAT
* * * *
33909118 ATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCTCGAAGGCATT
1 ATCCGGGCTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCATT
**
33909182 GGTGCGAGTTACTAA
65 GGAACGAGTTACTAA
* * * *
33909197 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAGT-ATAACCGAGCTATGTCCCGAAGGCAT
1 ATCCGGGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGAGCTAAG-CCCGAAGGCAT
* *
33909261 TTGAACGAG-TAGCTAT
64 TGGAACGAGTTA-CTAA
*
33909277 ATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAATTCCGAAGG
33909297 TACGTGATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
78 2 0.02
79 56 0.69
80 23 0.28
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCATTG
GAACGAGTTACTAA
Found at i:33918188 original size:47 final size:47
Alignment explanation
Indices: 33918128--33918578 Score: 715
Period size: 47 Copynumber: 9.6 Consensus size: 47
33918118 GATAATTGTG
* * * *
33918128 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33918175 ATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
33918222 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
33918269 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
33918318 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCTGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
33918365 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33918412 ATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
33918459 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
33918506 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33918553 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
33918579 TCCCAAAGGG
Statistics
Matches: 378, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 332 0.88
49 45 0.12
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:33918478 original size:25 final size:25
Alignment explanation
Indices: 33918450--33918528 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
33918440 CTAATGGCCG
33918450 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
33918475 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
33918497 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
33918522 ATGTGAT
1 ATGTGAT
33918529 AGGGCCGAGT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:33921786 original size:19 final size:19
Alignment explanation
Indices: 33921762--33921801 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
33921752 GATGCCTCCT
*
33921762 TTGCATT-CATGCATTTGCA
1 TTGCATTACAT-CATATGCA
33921781 TTGCATTACATCATATGCA
1 TTGCATTACATCATATGCA
33921800 TT
1 TT
33921802 AAAGATCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (19 bp):
TTGCATTACATCATATGCA
Found at i:33925445 original size:27 final size:27
Alignment explanation
Indices: 33925415--33925468 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
33925405 TATTTCAATG
33925415 AAGTACATTTTTGTTATCATTTTGAGC
1 AAGTACATTTTTGTTATCATTTTGAGC
33925442 AAGTACATTTTTGTTATCATTTTGAGC
1 AAGTACATTTTTGTTATCATTTTGAGC
33925469 TAACATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (27 bp):
AAGTACATTTTTGTTATCATTTTGAGC
Found at i:33930035 original size:180 final size:175
Alignment explanation
Indices: 33929721--33930237 Score: 670
Period size: 180 Copynumber: 2.9 Consensus size: 175
33929711 TGGTGAAAAC
* *
33929721 TGAAGATTTTATCTCCCTGAAGTTGCAGCAAAGC-AGACCGAAGATGGCAAATCTTATCTCCATG
1 TGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCTAGATCGAAGATGGCAAATCTTATCTCCATG
33929785 TATCTGCAATGGAGCAGATTTA---AAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG
66 TATCTGCAATGGAGCAGATTTACCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG
*
33929847 AGTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACT-AAGAAT
131 AATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAAAG-AT
* *
33929892 TGAAGATTTTATCTCCCTGAAGTTGCAGTAGAGCATATTATCGAAGATGGCAAATCTTATCTCCA
1 TGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGC-TA-GATCGAAGATGGCAAATCTTATCTCCA
* * * * * * *
33929957 TGTATATACAATGGAACAGATTGAAGCCCCAAACCTTATCTCTCTTAGGTAGTAAGAGAGCAGGT
64 TGTATCTGCAATGGAGCAGATT-TA--CCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
* * * *
33930022 TGAAGAATGAGTCTTATATTTCTAAGGTAGCAAGAAAGCAAACTAAAGAT
126 TGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAAAGAT
* * * * **
33930072 TGAAGATCTTATCTCCCT-AAGGTTGCAGCGGAG-TGGATCGAAAATGGTGAATCTTATCTCCAT
1 TGAAGATTTTATCTCCCTGAA-GTTGCAGCAGAGCTAGATCGAAGATGGCAAATCTTATCTCCAT
* * *
33930135 GTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTG
65 GTATCTGCAATGGAGCAGA-TTTACC-CAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
*
33930200 AAGAATGAGTCTTATCATCCTGAGGTAGCAAGGAAGCA
128 AAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCA
33930238 TACTGAAAAT
Statistics
Matches: 294, Mismatches: 39, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
171 32 0.11
173 1 0.00
174 44 0.15
175 3 0.01
176 66 0.22
177 40 0.14
178 3 0.01
179 2 0.01
180 100 0.34
181 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (175 bp):
TGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGCTAGATCGAAGATGGCAAATCTTATCTCCATG
TATCTGCAATGGAGCAGATTTACCCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG
AATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAAAGAT
Found at i:33937757 original size:40 final size:42
Alignment explanation
Indices: 33937661--33937759 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 42
33937651 TAAAATGATC
33937661 TCGCACACTTAGTGCCATCTCAAATAGCCAAAGCTTCCTCAGTA
1 TCGCACACTTAGTG-CA-CTCAAATAGCCAAAGCTTCCTCAGTA
* * * *
33937705 TCGCATACTTAGTGC-CTCATATAGCCAAAGCTATTC-CA-TT
1 TCGCACACTTAGTGCACTCAAATAGCCAAAGCT-TCCTCAGTA
33937745 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
33937760 TATTTATAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 15 0.31
41 18 0.37
42 2 0.04
43 1 0.02
44 13 0.27
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.28
Consensus pattern (42 bp):
TCGCACACTTAGTGCACTCAAATAGCCAAAGCTTCCTCAGTA
Found at i:33944291 original size:39 final size:39
Alignment explanation
Indices: 33944234--33944418 Score: 280
Period size: 39 Copynumber: 4.7 Consensus size: 39
33944224 TTTCAACCCA
* * * * *
33944234 AATGCCTTCAGAATTTAGCCCGAATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* * *
33944273 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
33944312 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
33944351 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
33944390 AATGCCTTCGGGACTTAGCCCAGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
33944419 ATCTCACACA
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 136 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:33953164 original size:25 final size:24
Alignment explanation
Indices: 33953136--33953198 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
33953126 CTTTAAATCT
*
33953136 TTTTAATTAATATTTGTATGTAAAA
1 TTTTAATTAATATTTATAT-TAAAA
*
33953161 TTTTAAATTAATTTATTATATTAAAA
1 TTTT-AATTAATAT-TTATATTAAAA
33953187 -TTTAA-TAATATT
1 TTTTAATTAATATT
33953199 ACTAAAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 1 0.03
23 5 0.15
24 2 0.06
25 7 0.21
26 13 0.39
27 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (24 bp):
TTTTAATTAATATTTATATTAAAA
Found at i:33954669 original size:18 final size:18
Alignment explanation
Indices: 33954646--33954680 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33954636 TGAAAATGAC
33954646 AATGATGGCAATGGAAAG
1 AATGATGGCAATGGAAAG
*
33954664 AATGATGGTAATGGAAA
1 AATGATGGCAATGGAAA
33954681 ACCACCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.31, T:0.20
Consensus pattern (18 bp):
AATGATGGCAATGGAAAG
Found at i:33959720 original size:23 final size:24
Alignment explanation
Indices: 33959689--33959737 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
33959679 CTTGAAACCA
*
33959689 AATTGAATTCTATTTT-TATTATAT
1 AATTGAATT-TATTTTGTATAATAT
*
33959713 AATT-AATTTTTTTTGTATAATAT
1 AATTGAATTTATTTTGTATAATAT
33959736 AA
1 AA
33959738 AAATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
AATTGAATTTATTTTGTATAATAT
Found at i:33964046 original size:119 final size:120
Alignment explanation
Indices: 33963870--33964092 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
33963860 TCCTCGTTCA
*
33963870 AATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
33963935 TTTGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATGGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
33963990 AATGCCTTCGGG-CTTAGCCCAGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAATCCGG
1 AATGCCTTCGGGACATAGCCCAGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
33964052 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATGGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
33964093 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 4 0.04
119 67 0.74
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATGGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:33964092 original size:40 final size:40
Alignment explanation
Indices: 33963868--33964092 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
33963858 GCTCCTCGTT
* * * *
33963868 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
* *
33963908 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
*
33963948 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
* * * *
33963988 CCAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATA-TAGTAACTCGCA
* * * *
33964027 CAAATGCCTTC-GGATCTTAATCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCA
*
33964068 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33964093 CATCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 113 0.72
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
Found at i:33966081 original size:42 final size:43
Alignment explanation
Indices: 33966034--33966139 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
33966024 GCATTTTGCT
** * *
33966034 TGCTAGGCTTGAAGCCCGATATCATTTCACCAGTATTATAG-C
1 TGCTAGGCCCGAAGCCCGATATCATCTCACCAGCATTATAGCC
* **
33966076 TGCTAGGCCCGAAGCCCGATATTATCTCACTGGCATTATAGCC
1 TGCTAGGCCCGAAGCCCGATATCATCTCACCAGCATTATAGCC
33966119 TGCTAGGCCCGAAGCCCGATA
1 TGCTAGGCCCGAAGCCCGATA
33966140 ATATTATTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 34 0.61
43 22 0.39
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (43 bp):
TGCTAGGCCCGAAGCCCGATATCATCTCACCAGCATTATAGCC
Found at i:33971783 original size:21 final size:20
Alignment explanation
Indices: 33971727--33971772 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 20
33971717 TTTGCCTCAC
33971727 TTTTCTCACTTTTTCCTCTTTT
1 TTTTCTC-CTTTTT-CTCTTTT
33971749 TTTTCT-CTTTTT-TCTTTT
1 TTTTCTCCTTTTTCTCTTTT
33971767 TTTTCT
1 TTTTCT
33971773 TTTCCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.50
20 6 0.25
22 6 0.25
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCTCCTTTTTCTCTTTT
Found at i:33974138 original size:30 final size:29
Alignment explanation
Indices: 33974100--33974156 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
33974090 TAAAATAATA
33974100 AAATAATAATAAATATCTAATTAAATATT
1 AAATAATAATAAATATCTAATTAAATATT
*
33974129 AAATAAATAATAATTATCTAATTAAATA
1 AAAT-AATAATAAATATCTAATTAAATA
33974157 ACTATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (29 bp):
AAATAATAATAAATATCTAATTAAATATT
Found at i:33977425 original size:19 final size:18
Alignment explanation
Indices: 33977399--33977435 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
33977389 TAGTTGTATA
33977399 AACTAAGACAAATTAAAT
1 AACTAAGACAAATTAAAT
33977417 AACTCAAGACAAATTAAAT
1 AACT-AAGACAAATTAAAT
33977436 GGCCGTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (18 bp):
AACTAAGACAAATTAAAT
Found at i:33978129 original size:18 final size:19
Alignment explanation
Indices: 33978085--33978132 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
33978075 CATGTGCACC
33978085 AATTTTTTTTTAATTTATG
1 AATTTTTTTTTAATTTATG
33978104 AATCTTTTTTTCTTAATTT-TG
1 AA--TTTTTTT-TTAATTTATG
33978125 -ATTTTTTT
1 AATTTTTTT
33978133 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 7 0.27
19 2 0.08
20 1 0.04
21 9 0.35
22 7 0.27
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (19 bp):
AATTTTTTTTTAATTTATG
Found at i:33982271 original size:40 final size:39
Alignment explanation
Indices: 33982194--33982412 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 39
33982184 AAACCAAGTA
* * *
33982194 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGG-TATAG-TAACTAGCACAAATG
* *
33982233 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATG
33982273 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATG
* * *
33982313 CCTTCGGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTAGCACAAATG
* * *
33982353 CCTTCGGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTAGCACAAATG
33982393 CCTTCGGGACTTAGCCCGGT
1 CCTTCGGGACTTAGCCCGGT
33982413 TATCATCCGA
Statistics
Matches: 165, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 150 0.91
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGTATAGTAACTAGCACAAATG
Found at i:33982326 original size:80 final size:79
Alignment explanation
Indices: 33982192--33982415 Score: 301
Period size: 80 Copynumber: 2.8 Consensus size: 79
33982182 CCAAACCAAG
* * *
33982192 TACCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTAT
1 TACCTTCGGGACTTAGCCCGGATATAG-TACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
*
33982256 AGTAACTCGCACAAA
65 AGTAACTAGCACAAA
* *
33982271 TACCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGGCTTAGCCCGG-AAT
1 TACCTTCGGGACTTAGCCCGGATATAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTA-
*
33982335 TAGTCACTAGCACAAA
64 TAGTAACTAGCACAAA
* *
33982351 TGCCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTA
1 TACCTTCGGGACTTAGCCCGGATA-TAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTA
33982415 T
64 T
33982416 CATCCGAATA
Statistics
Matches: 128, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
79 18 0.14
80 109 0.85
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
TACCTTCGGGACTTAGCCCGGATATAGTACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
GTAACTAGCACAAA
Found at i:33984222 original size:49 final size:50
Alignment explanation
Indices: 33984134--33984373 Score: 250
Period size: 49 Copynumber: 4.8 Consensus size: 50
33984124 ATCTATTGTG
* * *
33984134 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTATAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* *
33984184 -GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTT
1 AGGTCACATGTATAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TT
* * * * * * * ** **
33984234 CGATTACGTGTATAGTATTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 AGGTCACATGTATAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * * *
33984284 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACTGGATAATT
1 AGGTCACATGTATAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * *
33984334 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 AGGTCACATGTATAGTACTAAGTGCAGGCTACTATGTGTAC
33984374 TAGATAGCCT
Statistics
Matches: 155, Mismatches: 33, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
49 78 0.50
50 41 0.26
51 36 0.23
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTATAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:33984331 original size:101 final size:98
Alignment explanation
Indices: 33984137--33984366 Score: 280
Period size: 100 Copynumber: 2.3 Consensus size: 98
33984127 TATTGTGAGG
** *
33984137 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTATAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACATGTATAGTACT
*
33984202 AAGTGCAGGCTACTATGTGTACCCGATAACTTCGA
66 AAGTGCAAGCTACTATGTGTACCCGATAA-TT-GA
* * * * ** * *
33984237 TTACGTGTATAGTATTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT-GGTCACATGTATAGTAC
** *
33984302 TAAGTGCAAGCTACTATGTGTACTGGATAATTGG
65 TAAGTGCAAGCTACTATGTGTACCCGATAATTGA
* *
33984336 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
33984367 TGCGTACTAG
Statistics
Matches: 109, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
99 27 0.25
100 41 0.38
101 41 0.38
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACATGTATAGTACT
AAGTGCAAGCTACTATGTGTACCCGATAATTGA
Found at i:33986715 original size:42 final size:42
Alignment explanation
Indices: 33986653--33986737 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
33986643 ACTATCGACA
* *
33986653 CTACATGGCCAAGGATATGGGCATGTGCCTAGACCGTGTGAG
1 CTACATGGCCAAGGACATGGGCATGTGCCTAGACCATGTGAG
* * *
33986695 CTACATGGGCAAGGACATGGGCGTGTGCCTAGCCCATGTGAG
1 CTACATGGCCAAGGACATGGGCATGTGCCTAGACCATGTGAG
33986737 C
1 C
33986738 CATACGGGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.22, C:0.24, G:0.34, T:0.20
Consensus pattern (42 bp):
CTACATGGCCAAGGACATGGGCATGTGCCTAGACCATGTGAG
Found at i:33987800 original size:37 final size:37
Alignment explanation
Indices: 33987741--33987886 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
33987731 AGCTCAGACG
* * *
33987741 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
33987778 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
33987815 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
33987852 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
33987887 ATATATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:33988157 original size:47 final size:47
Alignment explanation
Indices: 33988095--33988411 Score: 427
Period size: 47 Copynumber: 6.6 Consensus size: 47
33988085 ACACGTTTCG
* * *
33988095 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
**
33988142 CATTGGCCATTCGGCCTTATCTTATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * *
33988189 TATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
33988236 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
33988283 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ATATATGCATGTTCACATTCATCA
* *
33988336 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
33988383 CATTGGCCATTCAGCCTTATCACACATAT
1 CATTGGCCATTCGGCCTTATCACATATAT
33988412 ATATACGGGT
Statistics
Matches: 241, Mismatches: 23, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
47 197 0.82
49 1 0.00
51 1 0.00
53 42 0.17
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:33988368 original size:147 final size:141
Alignment explanation
Indices: 33988095--33988410 Score: 488
Period size: 147 Copynumber: 2.2 Consensus size: 141
33988085 ACACGTTTCG
* * * **
33988095 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
33988160 ATCTTATATATGCATGTTCACATTCATCATATTGGCCATCCGGCCTTATCACACATACGCATGTT
66 ATCTTATATATACAGGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTT
33988225 CACATTCATCA
131 CACATTCATCA
33988236 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
33988301 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 AT----C-T-TATATATACAGGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACG
33988366 CATGTTCACATTCATCA
125 CATGTTCACATTCATCA
*
33988383 CATTGGCCATTCAGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
33988411 TATATACGGG
Statistics
Matches: 159, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
141 62 0.39
145 1 0.01
146 1 0.01
147 95 0.60
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (141 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCTTATATATACAGGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTT
CACATTCATCA
Found at i:33988474 original size:147 final size:144
Alignment explanation
Indices: 33988176--33988460 Score: 335
Period size: 147 Copynumber: 2.0 Consensus size: 144
33988166 TATATGCATG
*
33988176 TTCACATTCATCATATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
1 TTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
* * ** * *
33988241 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
66 GCCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATT-GAAAAT--GCCTAATCAC
** * *
33988306 GCATATATATATACAGG
128 AAATATAAATATACAGA
*
33988323 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
1 TTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
* * *
33988388 GCCATTCAGCCTTATCACACATATATATACGGGTTCCCATTCATCACA-T-AAAAT-CCTAAATC
66 GCCATTCAGCCTTATCACACATACACAT----GTTCACATTCATCACATTGAAAATGCCT-AATC
33988450 A-AAATATAAAT
126 ACAAATATAAAT
33988461 TTTCATGTAT
Statistics
Matches: 119, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
145 10 0.08
146 4 0.03
147 87 0.73
148 2 0.02
150 1 0.01
151 15 0.13
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.31
Consensus pattern (144 bp):
TTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
GCCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGAAAATGCCTAATCACAAA
TATAAATATACAGA
Found at i:33990750 original size:85 final size:85
Alignment explanation
Indices: 33990621--33990799 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
33990611 TATTTTATTG
*
33990621 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
33990686 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
33990706 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
33990771 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
33990791 CCCATGCTC
1 CCCATGCTC
33990800 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:33991973 original size:15 final size:15
Alignment explanation
Indices: 33991953--33991997 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
33991943 TAAACATACA
33991953 TGCTCTATTCTGTTT
1 TGCTCTATTCTGTTT
** *
33991968 TGCTCTGCTCTGTTC
1 TGCTCTATTCTGTTT
*
33991983 TGTTCTATTCTGTTT
1 TGCTCTATTCTGTTT
33991998 AGTATTGCTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.04, C:0.22, G:0.16, T:0.58
Consensus pattern (15 bp):
TGCTCTATTCTGTTT
Found at i:33999370 original size:19 final size:21
Alignment explanation
Indices: 33999344--33999396 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 21
33999334 ATATAGGAAA
*
33999344 TATCGATACTTGATATGA-GG
1 TATCGATACTTGAAATGAGGG
*
33999364 T-TCGATACCT-AAATGAGGG
1 TATCGATACTTGAAATGAGGG
33999383 TATCGATACTTGAA
1 TATCGATACTTGAA
33999397 CAGTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 9 0.33
21 2 0.07
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (21 bp):
TATCGATACTTGAAATGAGGG
Found at i:34001712 original size:20 final size:21
Alignment explanation
Indices: 34001687--34001733 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
34001677 ATATAAGATG
34001687 GAAAAGAAATA-AA-AAAAAAA
1 GAAAAGAAA-AGAAGAAAAAAA
34001707 GAAAAGAAAAGAAGAAAAAAA
1 GAAAAGAAAAGAAGAAAAAAA
*
34001728 CAAAAG
1 GAAAAG
34001734 GAACAGAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 11 0.46
21 12 0.50
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (21 bp):
GAAAAGAAAAGAAGAAAAAAA
Found at i:34005990 original size:51 final size:52
Alignment explanation
Indices: 34005914--34006014 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 52
34005904 ATCTTGCTCC
34005914 CTCAAAATAAAGAAAAACATGGTGCTTGTAAG-TTTTTTATTTTTTATATCT
1 CTCAAAATAAAGAAAAACATGGTGCTTGTAAGTTTTTTTATTTTTTATATCT
34005965 CTCAAAATAAAGAAAAACATGGTGCTTGTAAGTTTTTTTATTTTTTATAT
1 CTCAAAATAAAGAAAAACATGGTGCTTGTAAGTTTTTTTATTTTTTATAT
34006015 ATTAATATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 32 0.65
52 17 0.35
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.44
Consensus pattern (52 bp):
CTCAAAATAAAGAAAAACATGGTGCTTGTAAGTTTTTTTATTTTTTATATCT
Found at i:34008980 original size:33 final size:33
Alignment explanation
Indices: 34008942--34009073 Score: 201
Period size: 33 Copynumber: 4.0 Consensus size: 33
34008932 GACTGAGTGG
* * *
34008942 GAGTGTTTGGTTGTTGGACAGGAGGTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
34008975 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
34009008 GGGTGTTTTGTTGCTGGACAGGAGCTAGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
34009041 GGGTGTTTTGTTGCTAGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
34009074 CAAAAAGAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 92 1.00
ACGTcount: A:0.18, C:0.08, G:0.41, T:0.33
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:34009103 original size:28 final size:28
Alignment explanation
Indices: 34009063--34009118 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
34009053 GCTAGACAGG
34009063 AGCTGGAATGTCAAAAAGAAAAAATTCT
1 AGCTGGAATGTCAAAAAGAAAAAATTCT
*
34009091 AGCTGGAATGTCAAAAAGAAAGAATTCT
1 AGCTGGAATGTCAAAAAGAAAAAATTCT
34009119 TTGTCCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (28 bp):
AGCTGGAATGTCAAAAAGAAAAAATTCT
Found at i:34014551 original size:31 final size:31
Alignment explanation
Indices: 34014515--34014578 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
34014505 GTTAAAGGAA
34014515 TTATTTGCTTTAGCTCCCACTGTTTTTAACT
1 TTATTTGCTTTAGCTCCCACTGTTTTTAACT
*
34014546 TTATTTGCTTTAGCTCCCATTGTTTTTAACT
1 TTATTTGCTTTAGCTCCCACTGTTTTTAACT
34014577 TT
1 TT
34014579 GAGATTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.20, G:0.09, T:0.55
Consensus pattern (31 bp):
TTATTTGCTTTAGCTCCCACTGTTTTTAACT
Found at i:34014942 original size:17 final size:17
Alignment explanation
Indices: 34014920--34014953 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34014910 TTGTCCATTA
34014920 TCAGCTATAATCTGATC
1 TCAGCTATAATCTGATC
34014937 TCAGCTATAATCTGATC
1 TCAGCTATAATCTGATC
34014954 AAACTAGTCA
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:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (17 bp):
TCAGCTATAATCTGATC
Found at i:34022886 original size:26 final size:26
Alignment explanation
Indices: 34022857--34022908 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
34022847 AACAAGTGAG
34022857 GAAAAAGAAAAAGAGAATGAAAAAGA
1 GAAAAAGAAAAAGAGAATGAAAAAGA
* ** *
34022883 GAAAAAGAGATTGAGAGTGAAAAAGA
1 GAAAAAGAAAAAGAGAATGAAAAAGA
34022909 AATTGAAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.27, T:0.08
Consensus pattern (26 bp):
GAAAAAGAAAAAGAGAATGAAAAAGA
Found at i:34025669 original size:40 final size:40
Alignment explanation
Indices: 34025614--34025862 Score: 381
Period size: 40 Copynumber: 6.2 Consensus size: 40
34025604 TCACAAGCAC
* * *
34025614 ATTAATAGAAAACTGTATAATTTATCCGGATGAAGTATAT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* *
34025654 ATTAATAAAAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
34025694 ATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* * *
34025734 ATTAACAGAAAACTATATAATTTATCCGGATAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* *
34025774 ATTAATAGAAAACTATATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* *
34025814 ATTAACAGAAAATTGTATAATTTACCCGGATAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
34025854 ATTAATAGA
1 ATTAATAGA
34025863 TATACTTAAG
Statistics
Matches: 191, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 191 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (40 bp):
ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
Found at i:34025889 original size:18 final size:18
Alignment explanation
Indices: 34025866--34025900 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34025856 TAATAGATAT
*
34025866 ACTTAAGATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
34025884 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
34025901 ACTACCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:34026425 original size:17 final size:17
Alignment explanation
Indices: 34026403--34026435 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34026393 ATAATGAATG
34026403 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
34026420 TTATTAAATTATATTT
1 TTATTAAATTATATTT
34026436 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:34026699 original size:46 final size:44
Alignment explanation
Indices: 34026607--34026700 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
34026597 ATTACAACAT
34026607 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
***
34026651 CATTCCATTCAACCAAACAGTTGAATTACTTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGTTCTATTC
34026697 CATT
1 CATT
34026701 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 22 0.49
45 3 0.07
46 20 0.44
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:34026703 original size:16 final size:16
Alignment explanation
Indices: 34026682--34026752 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
34026672 TGAATTACTT
*
34026682 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
34026698 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
34026714 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
34026730 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
34026746 ATTACAG
1 ATTACAG
34026753 TGAACCAAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:34028651 original size:21 final size:21
Alignment explanation
Indices: 34028625--34028675 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
34028615 TACTTACGAG
34028625 GTTTTAATTTGAAAATAGTGT
1 GTTTTAATTTGAAAATAGTGT
34028646 GTTTTAATTTGAAAATAGTGT
1 GTTTTAATTTGAAAATAGTGT
34028667 GTTTTAATT
1 GTTTTAATT
34028676 GAGTTAGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (21 bp):
GTTTTAATTTGAAAATAGTGT
Found at i:34029877 original size:19 final size:19
Alignment explanation
Indices: 34029831--34029878 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
34029821 GTATATATTT
34029831 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
34029849 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
34029868 TAAGTTTTATT
1 TAAATTTTATT
34029879 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:34033793 original size:19 final size:19
Alignment explanation
Indices: 34033747--34033794 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
34033737 GTATATATTT
34033747 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
34033765 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
34033784 TAAGTTTTATT
1 TAAATTTTATT
34033795 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:34040539 original size:46 final size:46
Alignment explanation
Indices: 34040387--34040643 Score: 243
Period size: 45 Copynumber: 5.6 Consensus size: 46
34040377 GATCGAAGTG
* * * * *
34040387 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCTT-GTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCATCGTGA
* * * * * *
34040432 TGTCATAGTGTCTATCAACCATGGTCTTATTTA-TTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCATCGTGA
*
34040477 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCATCGTGA
* *
34040523 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTTCCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTT-CATCGTGA
* * ** * * *
34040570 TGCCGTAGCGTCTTTCAAATATGGTCTTATT--TCTTTGATTCATGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCA-TCGTGA
** * *
34040615 TGCCATAACGTTTTTCAACTATGGTCTTA
1 TGCCATAGTGTCTTTCAACCATGGTCTTA
34040644 CTCGATAGAA
Statistics
Matches: 184, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
44 3 0.02
45 100 0.54
46 45 0.24
47 36 0.20
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCATCGTGA
Found at i:34048415 original size:46 final size:45
Alignment explanation
Indices: 34048252--34048419 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
34048242 TGATTTGTGC
* *
34048252 GCCAGTGTAAGACATGTCTGGGACATGTTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTC-GCCATATTATGAGA
* * * * *
34048298 GCCAGTGTAAGACTATGTCTGGGACATGGCATT-GGCATCTAGACGAGG
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GC-TTCGCCATAT-TATGAGA
* *
34048346 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTC-GCCATATTATGAGA
* *
34048392 GCCAGAGTAAGACATGTCCGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
34048420 GTTGGCCTCG
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
45 2 0.02
46 44 0.44
47 35 0.35
48 17 0.17
49 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTCGCCATATTATGAGA
Found at i:34050281 original size:29 final size:29
Alignment explanation
Indices: 34050242--34050320 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
34050232 CTTAATAATC
*
34050242 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
34050272 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
34050301 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34050321 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Done.