Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 284 of 332
Found at i:94726052 original size:5 final size:5
Alignment explanation
Indices: 94726042--94726083 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
94726032 AAGAGTCAAT
*
94726042 TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TGGAA TT
1 TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA TT
94726084 ATGATTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (5 bp):
TTGAA
Found at i:94726556 original size:45 final size:45
Alignment explanation
Indices: 94726492--94726641 Score: 192
Period size: 45 Copynumber: 3.3 Consensus size: 45
94726482 TTGTTACCGC
* *
94726492 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTTT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
94726537 TACTGTTACTGTTACCGATTCGACACTGTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * * * *
94726582 TACTGTTACCGCTACTGATTCGGTACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
94726627 TACTATTACTATTAC
1 TACTGTTACTGTTAC
94726642 TATTCTGAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 89 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:94726871 original size:18 final size:18
Alignment explanation
Indices: 94726827--94727078 Score: 140
Period size: 18 Copynumber: 13.6 Consensus size: 18
94726817 TAACTGATTA
*
94726827 TTACTGAATAATTAACTG
1 TTACTGAATAATTGACTG
*
94726845 TTA-TCGGATAATTGACTG
1 TTACT-GAATAATTGACTG
* *
94726863 TTACTGGAT-ATAGACTG
1 TTACTGAATAATTGACTG
* * *
94726880 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
94726898 TTACTGAATAATTGATTG
1 TTACTGAATAATTGACTG
* *
94726916 TCACTAAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
94726934 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
94726953 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
94726970 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
94726988 TTACTGGATAACCGATCAATTGA-TCG
1 TTACT-G---A---AT-AATTGACT-G
* * ** *
94727014 ATACTGAATAACTGGTTA
1 TTACTGAATAATTGACTG
* *
94727032 TTATTGAATAATTGATTG
1 TTACTGAATAATTGACTG
*
94727050 TTACTGAATAACTGACTG
1 TTACTGAATAATTGACTG
94727068 TTACTGAATAA
1 TTACTGAATAA
94727079 ATAATTATTC
Statistics
Matches: 180, Mismatches: 33, Indels: 42
0.71 0.13 0.16
Matches are distributed among these distances:
17 31 0.17
18 114 0.63
19 18 0.10
22 2 0.01
25 4 0.02
26 11 0.06
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:94726902 original size:35 final size:36
Alignment explanation
Indices: 94726815--94726910 Score: 99
Period size: 35 Copynumber: 2.7 Consensus size: 36
94726805 AAAGGTACAA
*
94726815 AATAACTGATTATTACTGAATAATTAACTGTTATCG
1 AATAACTGAATATTACTGAATAATTAACTGTTATCG
* * * * *
94726851 GATAATTGACTGTTACTGGAT-A-TAGACTGTTA-CTG
1 AATAACTGAATATTACTGAATAATTA-ACTGTTATC-G
94726886 AATAACTGAATATTACTGAATAATT
1 AATAACTGAATATTACTGAATAATT
94726911 GATTGTCACT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
34 3 0.07
35 25 0.54
36 17 0.37
37 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTAACTGTTATCG
Found at i:94726986 original size:54 final size:54
Alignment explanation
Indices: 94726875--94726999 Score: 157
Period size: 54 Copynumber: 2.3 Consensus size: 54
94726865 ACTGGATATA
94726875 GACTGTTACTGAATAACTGAATATTACTGAATAATTGATTGTCACTAAATGAAT
1 GACTGTTACTGAATAACTGAATATTACTGAATAATTGATTGTCACTAAATGAAT
* * * *
94726929 GACTGCTACTGAATAACTTAATAGTTACTGAAT-ATCTGATT-TTACTGAAT-AATT
1 GACTGTTACTGAATAACTGAATA-TTACTGAATAAT-TGATTGTCACTAAATGAA-T
*
94726983 GACTGTTACTGGATAAC
1 GACTGTTACTGAATAAC
94727000 CGATCAATTG
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
53 2 0.03
54 46 0.74
55 14 0.23
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (54 bp):
GACTGTTACTGAATAACTGAATATTACTGAATAATTGATTGTCACTAAATGAAT
Found at i:94733112 original size:20 final size:19
Alignment explanation
Indices: 94733075--94733114 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94733065 TTATTATCTT
*
94733075 TGAATATTTTTTAGTGTTA
1 TGAATATTTTTAAGTGTTA
*
94733094 TGAATATTTTTGAATTGTTA
1 TGAATATTTTT-AAGTGTTA
94733114 T
1 T
94733115 ATCTAACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (19 bp):
TGAATATTTTTAAGTGTTA
Found at i:94733892 original size:39 final size:39
Alignment explanation
Indices: 94733801--94733891 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
94733791 AAAATTTATA
* * * *
94733801 TTTAATACAATAAAATATTTATTATATTTATTTCTGTTT
1 TTTAATATAATAAAACATTTATTATATTTATTGCTATTT
*
94733840 TTTAATATAATAAAACATTTATTATATTTATGATGGTATTTT
1 TTTAATATAATAAAACATTTATTATATTTAT--TGCTA-TTT
94733882 TTTAATATAA
1 TTTAATATAA
94733892 ATACTTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
39 29 0.66
41 2 0.05
42 13 0.30
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.54
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATTATATTTATTGCTATTT
Found at i:94736426 original size:110 final size:111
Alignment explanation
Indices: 94736249--94736457 Score: 278
Period size: 110 Copynumber: 1.9 Consensus size: 111
94736239 TTTTTTTGTT
* * * *
94736249 TTAATTTTCCTTTCCCATGAAGCTTATCATAATTAATTTTACGCTCTATAGGTTGCCCTGTAGCA
1 TTAATTTTCCTTTCCCATGAAGCTTATCATAATTAATTTTACACTCTATAGGATGCCCTGCAACA
94736314 CAATTAAAAGAGAAAGAAAGAATTAATTATTTTATGTTTCCTATAA
66 CAATTAAAAGAGAAAGAAAGAATTAATTATTTTATGTTTCCTATAA
** * * * *
94736360 TTAATTTT-CTTTTTCATGAAGCTTATCATAATTAATTTTACATTTTA-AGAGATGTCTTGCAAC
1 TTAATTTTCCTTTCCCATGAAGCTTATCATAATTAATTTTACACTCTATAG-GATGCCCTGCAAC
* * *
94736423 ACAATTAAAGGGGAGAGAAAGAATTAATTATTTTA
65 ACAATTAAAAGAGAAAGAAAGAATTAATTATTTTA
94736458 CATTTCTCAT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
109 2 0.02
110 74 0.88
111 8 0.10
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (111 bp):
TTAATTTTCCTTTCCCATGAAGCTTATCATAATTAATTTTACACTCTATAGGATGCCCTGCAACA
CAATTAAAAGAGAAAGAAAGAATTAATTATTTTATGTTTCCTATAA
Found at i:94739765 original size:12 final size:12
Alignment explanation
Indices: 94739748--94739772 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94739738 AATAGGAGGG
94739748 AAAAAAAAGAAA
1 AAAAAAAAGAAA
94739760 AAAAAAAAGAAA
1 AAAAAAAAGAAA
94739772 A
1 A
94739773 TATAAGGATA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:94741128 original size:39 final size:41
Alignment explanation
Indices: 94741054--94741143 Score: 148
Period size: 39 Copynumber: 2.2 Consensus size: 41
94741044 CTAAAAATAT
*
94741054 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
94741095 TTATATTAAAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
*
94741134 TTGTATTAAA
1 TTATATTAAA
94741144 TATAAATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 30 0.64
40 1 0.02
41 16 0.34
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:94742343 original size:41 final size:41
Alignment explanation
Indices: 94742256--94742516 Score: 310
Period size: 41 Copynumber: 6.4 Consensus size: 41
94742246 CCGTTTTTGG
** * **
94742256 TAAAACGCCGCTAAAAA-CATAGCAATAGTTGCGCTTTC-A
1 TAAAACGCCGCTAAAAACCGGAGCACTAGCGGCGCTTTCGA
* ** *
94742295 GTAAAACGCCACTAAAAATTGGAACACTAGCGGCGCTTTCGA
1 -TAAAACGCCGCTAAAAACCGGAGCACTAGCGGCGCTTTCGA
*
94742337 TAAAACGCCGCTAAAAACCGGAGCACTAGCGGCGCTTTCGG
1 TAAAACGCCGCTAAAAACCGGAGCACTAGCGGCGCTTTCGA
* *
94742378 TAAAACGCCGCTAAAAACCGGAGCACTTGCGGCGCTTTCGG
1 TAAAACGCCGCTAAAAACCGGAGCACTAGCGGCGCTTTCGA
* * *
94742419 TAAAACGCCGCTAAAAATCGAAGCATTAGCGGCGCTTTCGA
1 TAAAACGCCGCTAAAAACCGGAGCACTAGCGGCGCTTTCGA
* * * * * *
94742460 TAAAACACAGCTAAAAACCAGAGCATTAGCAGTGCTTTCGA
1 TAAAACGCCGCTAAAAACCGGAGCACTAGCGGCGCTTTCGA
94742501 TAAAACGCCGCTAAAA
1 TAAAACGCCGCTAAAA
94742517 GTCATATAAC
Statistics
Matches: 191, Mismatches: 28, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
40 16 0.08
41 174 0.91
42 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.18
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCGGAGCACTAGCGGCGCTTTCGA
Found at i:94742473 original size:123 final size:122
Alignment explanation
Indices: 94742254--94742516 Score: 348
Period size: 123 Copynumber: 2.1 Consensus size: 122
94742244 TACCGTTTTT
* ** *
94742254 GGTAAAACGCCGCTAAAAACATAGCAATAGTTGCGCTTTCAGTAAAACGCCACTAAAAATTGGAA
1 GGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTCAGTAAAACGCCACTAAAAATTCGAA
* * * *
94742319 CACTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCGGAGCACTAGCGGCGCTTTC
66 CACTAGCGGCGCTTTCGATAAAACACAGCTAAAAACCAGAGCACTAGCAGCGCTTTC
* * * * *
94742376 GGTAAAACGCCGCTAAAAACCGGAGCACTTGCGGCGCTTTCGGTAAAACGCCGCTAAAAA-TCGA
1 GGTAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTCAGTAAAACGCCACTAAAAATTCGA
* * *
94742440 AGCATTAGCGGCGCTTTCGATAAAACACAGCTAAAAACCAGAGCATTAGCAGTGCTTTC
65 A-CACTAGCGGCGCTTTCGATAAAACACAGCTAAAAACCAGAGCACTAGCAGCGCTTTC
*
94742499 GATAAAACGCCGCTAAAA
1 GGTAAAACGCCGCTAAAA
94742517 GTCATATAAC
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
122 23 0.19
123 99 0.81
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (122 bp):
GGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTCAGTAAAACGCCACTAAAAATTCGAA
CACTAGCGGCGCTTTCGATAAAACACAGCTAAAAACCAGAGCACTAGCAGCGCTTTC
Found at i:94742543 original size:35 final size:35
Alignment explanation
Indices: 94742497--94742563 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
94742487 AGCAGTGCTT
94742497 TCGATAAAACGCCGCTAAAAGTCATATAACCCATA
1 TCGATAAAACGCCGCTAAAAGTCATATAACCCATA
94742532 TCGATAAAACGCCGCTAAAAGTCATATAACCC
1 TCGATAAAACGCCGCTAAAAGTCATATAACCC
94742564 CTAAAACCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.19
Consensus pattern (35 bp):
TCGATAAAACGCCGCTAAAAGTCATATAACCCATA
Found at i:94743226 original size:15 final size:15
Alignment explanation
Indices: 94743208--94743249 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
94743198 TGATTTATAT
*
94743208 TTTAAGATTTTAGGG
1 TTTAAGAGTTTAGGG
94743223 TTT-AGAGTTTAGGG
1 TTTAAGAGTTTAGGG
* *
94743237 ATTAAGGGTTTAG
1 TTTAAGAGTTTAG
94743250 ATTAATTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (15 bp):
TTTAAGAGTTTAGGG
Found at i:94743345 original size:287 final size:285
Alignment explanation
Indices: 94742694--94743349 Score: 765
Period size: 287 Copynumber: 2.3 Consensus size: 285
94742684 GATGTACATC
* * *
94742694 ATATGTTAAATATTTTCTTATATAATTGTAAAATAGATAGTATTAATTTTAAAATATTGAATTAA
1 ATATATTAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAAAATATTGAA-TAA
* *
94742759 TTATCATTATAGTTTAGGGTTTTACGATTTAGGGCATATGGTTAAGGGTTTAAGGTTTATGAGTT
65 TTATCATTATAGTTTAGGGTTTTACAATTTAGGGCATATGGTTAAGGGTTTAAGGTTTATGAATT
* * * * *
94742824 ACTATTTTAAGTTTTATGGATTATTGGGTTTAGGGATTATGGTTTAAGGGTTGGGGTTAGGGGTC
130 ACTATTTTAAGGTTTATGGA-TATTGAGTTTAGGGATTAGGGCTTAAGGGTTAGGGTTAGGGGTC
** * * * *
94742889 TAGGATTAAGAGTTTATATTTTAAGATTTAGGGTTTATGAGTTATGGTTAAGGGTTAGGAGTTTA
194 TAGGATTAAGAGTTTATAGGTTAAGATTTAGAGTTTAAGAGTTAGGGTTAAGGGTTAGGAGTTAA
94742954 GGGTTTAGTTAATTAGTGTTTTAATTT
259 GGGTTTAGTTAATTAGTGTTTTAATTT
*
94742981 ATATGA-TAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTAAAAATATTGAATCA
1 ATAT-ATTAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAAAATATTGAAT-A
* *
94743045 ATTAATCATTATAGTTTAGGG-TTTACAATTTAGGGTATATGGTTAAGGGTTTAATGTTTATGAA
64 ATT-ATCATTATAGTTTAGGGTTTTACAATTTAGGGCATATGGTTAAGGGTTTAAGGTTTATGAA
* * *
94743109 TTACTATTTTAAGGTTTAT-G-TATTGCAGTTTAAGGG-TTGGGGCTTAAGGTTTAAGGGTTATG
128 TTACTATTTTAAGGTTTATGGATATTG-AGTTT-AGGGATTAGGGCTTAAGGGTT-AGGGTTAGG
* * * * * * * *
94743171 GGT-TATGGGTTATGAGTTTA-GGGTTAATGATTTATATTTTAAGATTTTAGGGTTTAGAGTTTA
190 GGTCTA-GGATTAAGAGTTTATAGGTTAA-GATTTAGAGTTTAAGA-GTTAGGGTTAAG-GGTTA
94743234 GG-GATTAAGGGTTTAGATTAATTAGTGTTTTTTAATTT
251 GGAG-TTAAGGGTTTAG-TTAATTAGTG--TTTTAATTT
* * * * **
94743272 ATATATTAAATAATTTCTTATGTAATTGTAAAAGAGATAATTTTAATTTTAATATCCT-AA-AAT
1 ATATATTAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAAAATATTGAATAAT
*
94743335 TATGATTATAGTTTA
66 TATCATTATAGTTTA
94743350 AATTATTTAA
Statistics
Matches: 316, Mismatches: 38, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
284 5 0.02
285 22 0.07
286 40 0.13
287 140 0.44
288 38 0.12
289 10 0.03
290 3 0.01
291 58 0.18
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (285 bp):
ATATATTAAATATTTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAAAATATTGAATAAT
TATCATTATAGTTTAGGGTTTTACAATTTAGGGCATATGGTTAAGGGTTTAAGGTTTATGAATTA
CTATTTTAAGGTTTATGGATATTGAGTTTAGGGATTAGGGCTTAAGGGTTAGGGTTAGGGGTCTA
GGATTAAGAGTTTATAGGTTAAGATTTAGAGTTTAAGAGTTAGGGTTAAGGGTTAGGAGTTAAGG
GTTTAGTTAATTAGTGTTTTAATTT
Found at i:94743554 original size:19 final size:19
Alignment explanation
Indices: 94743519--94743581 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
94743509 TTAGATTTAA
94743519 AAAAACATTGATAAATAAAT
1 AAAAACATTGAT-AATAAAT
94743539 AAAAACATTGATAATAAAT
1 AAAAACATTGATAATAAAT
*
94743558 AAAAACATTGATAACAAAT
1 AAAAACATTGATAATAAAT
94743577 AAAAA
1 AAAAA
94743582 TGAAGTACAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 30 0.71
20 12 0.29
ACGTcount: A:0.67, C:0.06, G:0.05, T:0.22
Consensus pattern (19 bp):
AAAAACATTGATAATAAAT
Found at i:94743624 original size:15 final size:15
Alignment explanation
Indices: 94743600--94743630 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
94743590 AAAAATAAAA
94743600 ATGAAATATGGGTTT
1 ATGAAATATGGGTTT
*
94743615 ATGAATTATGGGTTT
1 ATGAAATATGGGTTT
94743630 A
1 A
94743631 GGGATTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
ATGAAATATGGGTTT
Found at i:94743637 original size:15 final size:15
Alignment explanation
Indices: 94743606--94743639 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
94743596 AAAAATGAAA
*
94743606 TATGGGTTTATGAAT
1 TATGGGTTTAGGAAT
*
94743621 TATGGGTTTAGGGAT
1 TATGGGTTTAGGAAT
94743636 TATG
1 TATG
94743640 ATTTATGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (15 bp):
TATGGGTTTAGGAAT
Found at i:94744802 original size:63 final size:62
Alignment explanation
Indices: 94744630--94744805 Score: 187
Period size: 63 Copynumber: 2.8 Consensus size: 62
94744620 GTATGTGAGG
* ** *
94744630 TTTTTGATTTTTTTTGTTTGGGTTTGTTGAAATTTACT-TCCT-TTAATTTTCAATCGTCTTAAA
1 TTTTTGATTTTTTTTGTTTGGGTTTCTT---ATTT-CTATTATATTAGTTTTCAATCGTCTTAAA
94744693 A
62 A
* ** ** *
94744694 TTTTAGA-AATTTTAATTTGGGTTTCTTATTTTCTATTATATTAGTTTTCAATCGTCTTAAATT
1 TTTTTGATTTTTTTTGTTTGGGTTTCTTA-TTTCTATTATATTAGTTTTCAATCGTCTTAAA-A
94744757 TTTTTGATTTTTTTTGTTTGGGTTTCTTATTTCTATTATATTAGTTTTC
1 TTTTTGATTTTTTTTGTTTGGGTTTCTTATTTCTATTATATTAGTTTTC
94744806 TAGTTTCCTG
Statistics
Matches: 92, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
60 3 0.03
61 5 0.05
62 20 0.22
63 41 0.45
64 23 0.25
ACGTcount: A:0.20, C:0.08, G:0.11, T:0.61
Consensus pattern (62 bp):
TTTTTGATTTTTTTTGTTTGGGTTTCTTATTTCTATTATATTAGTTTTCAATCGTCTTAAAA
Found at i:94747991 original size:23 final size:23
Alignment explanation
Indices: 94747961--94748062 Score: 168
Period size: 23 Copynumber: 4.4 Consensus size: 23
94747951 TGGTTGCTGC
94747961 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
94747984 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* *
94748007 TGTTTAAATGTTGTAAACTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
**
94748030 AATTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
94748053 TGTTTAAATG
1 TGTTTAAATG
94748063 TTCTTTGTGT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.39
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:94748599 original size:43 final size:43
Alignment explanation
Indices: 94748534--94748722 Score: 265
Period size: 43 Copynumber: 4.4 Consensus size: 43
94748524 ATATATATGG
* *
94748534 TCTTTAGCGGCGTTTTTAGGGAAAGCGTCGCTATAGGTCACGA
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTATAGGTCACGA
* *
94748577 TTTTTAGCGGTGTTTTTGGGGAAAGCGCCGCTATAGGTCACGA
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTATAGGTCACGA
* * * *
94748620 TCTTTAGTGGCGTTTTTGAGGAAAGCGTCGCTATAGGCCACGA
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTATAGGTCACGA
*
94748663 TCTTTAGC-G-GTATTTTGGGGAAAGCGCCGCTAAAGGTCACGA
1 TCTTTAGCGGCGT-TTTTGGGGAAAGCGCCGCTATAGGTCACGA
*
94748705 TCTTTAGTGGCGTTTTTG
1 TCTTTAGCGGCGTTTTTG
94748723 AGAAAAAAAG
Statistics
Matches: 127, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.02
42 34 0.27
43 89 0.70
44 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTATAGGTCACGA
Found at i:94748717 original size:85 final size:86
Alignment explanation
Indices: 94748534--94748724 Score: 314
Period size: 85 Copynumber: 2.2 Consensus size: 86
94748524 ATATATATGG
* * * *
94748534 TCTTTAGCGGCGTTTTT-AGGGAAAGCGTCGCTATAGGTCACGATTTTTAGCGGTGTTTTTGGGG
1 TCTTTAGTGGCGTTTTTGA-GGAAAGCGTCGCTATAGGCCACGATCTTTAGCGGTGATTTTGGGG
*
94748598 AAAGCGCCGCTATAGGTCACGA
65 AAAGCGCCGCTAAAGGTCACGA
94748620 TCTTTAGTGGCGTTTTTGAGGAAAGCGTCGCTATAGGCCACGATCTTTAGCGGT-ATTTTGGGGA
1 TCTTTAGTGGCGTTTTTGAGGAAAGCGTCGCTATAGGCCACGATCTTTAGCGGTGATTTTGGGGA
94748684 AAGCGCCGCTAAAGGTCACGA
66 AAGCGCCGCTAAAGGTCACGA
94748705 TCTTTAGTGGCGTTTTTGAG
1 TCTTTAGTGGCGTTTTTGAG
94748725 AAAAAAAGCG
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
85 49 0.49
86 49 0.49
87 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (86 bp):
TCTTTAGTGGCGTTTTTGAGGAAAGCGTCGCTATAGGCCACGATCTTTAGCGGTGATTTTGGGGA
AAGCGCCGCTAAAGGTCACGA
Found at i:94756101 original size:7 final size:6
Alignment explanation
Indices: 94756067--94756104 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
94756057 GTTTCTCAAA
*
94756067 AAAATG AAAATG AAAATG AAAATG GAAATG AGAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG A
94756105 TTTATTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:94765910 original size:25 final size:25
Alignment explanation
Indices: 94765845--94765920 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
94765835 TTTGGGAATG
*
94765845 CTCATATGAGCACATA-AACGAGAAG
1 CTCATATGAGC-CATATAACGAGAAA
* *
94765870 CTCTCTCTTGAGCCATATAACGAGAAA
1 CTC-AT-ATGAGCCATATAACGAGAAA
*
94765897 CTCATATGAGCCATGTAACG-GAAA
1 CTCATATGAGCCATATAACGAGAAA
94765921 GCTTATCCGG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 4 0.10
25 16 0.38
26 6 0.14
27 16 0.38
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (25 bp):
CTCATATGAGCCATATAACGAGAAA
Found at i:94766020 original size:74 final size:75
Alignment explanation
Indices: 94765942--94766121 Score: 175
Period size: 74 Copynumber: 2.4 Consensus size: 75
94765932 CTGTATAACA
* * * * *
94765942 GGAAGCTCATGCA-AGCCAATAACGGGTAGCTCCAAAGAACCATTAATTAGGAAGCTC-CGAATA
1 GGAAGCTCATG-AGAGCCAATAACGGGAAGCTCCAAAGAACCATTAATCAAGAAGCTCACAAAGA
94766005 GCCACAAATCG
65 GCCACAAATCG
* * * ** *
94766016 GGAAGTTCAAGAGAGCCAATATCGGGAAGCTCCGGAGATCCATTAATCAAGAAGCTCACAAAGAG
1 GGAAGCTCATGAGAGCCAATAACGGGAAGCTCCAAAGAACCATTAATCAAGAAGCTCACAAAGAG
***
94766081 CCTTTAATCG
66 CCACAAATCG
* *
94766091 GGAAGCTCATGAAAAGCCATATATCGGGAAG
1 GGAAGCTCATG-AGAGCCA-ATAACGGGAAG
94766122 TTTATAAGAG
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
73 1 0.01
74 46 0.54
75 21 0.25
76 6 0.07
77 11 0.13
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (75 bp):
GGAAGCTCATGAGAGCCAATAACGGGAAGCTCCAAAGAACCATTAATCAAGAAGCTCACAAAGAG
CCACAAATCG
Found at i:94766053 original size:24 final size:25
Alignment explanation
Indices: 94765991--94766053 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 25
94765981 CCATTAATTA
* *
94765991 GGAAGCTCCGAATAGCCACAAATCG
1 GGAAGCTCCGGAGAGCCACAAATCG
* ** *
94766016 GGAAGTTCAAGAGAGCCA-ATATCG
1 GGAAGCTCCGGAGAGCCACAAATCG
94766040 GGAAGCTCCGGAGA
1 GGAAGCTCCGGAGA
94766054 TCCATTAATC
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.35, C:0.22, G:0.30, T:0.13
Consensus pattern (25 bp):
GGAAGCTCCGGAGAGCCACAAATCG
Found at i:94766108 original size:26 final size:26
Alignment explanation
Indices: 94766012--94766121 Score: 70
Period size: 26 Copynumber: 4.3 Consensus size: 26
94766002 ATAGCCACAA
* *
94766012 ATCGGGAAGTTCA-AGAGAGCCA-AT
1 ATCGGGAAGCTCACAAAGAGCCATAT
** *
94766036 ATCGGGAAGCTC-CGGAGATCCAT-T
1 ATCGGGAAGCTCACAAAGAGCCATAT
** *
94766060 AATCAAGAAGCTCACAAAGAGCC-TTT
1 -ATCGGGAAGCTCACAAAGAGCCATAT
*
94766086 AATCGGGAAGCTCATGAAA-AGCCATAT
1 -ATCGGGAAGCTCA-CAAAGAGCCATAT
94766113 ATCGGGAAG
1 ATCGGGAAG
94766122 TTTATAAGAG
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
24 19 0.28
25 11 0.16
26 32 0.48
27 5 0.07
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (26 bp):
ATCGGGAAGCTCACAAAGAGCCATAT
Found at i:94774467 original size:22 final size:21
Alignment explanation
Indices: 94774410--94774468 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
94774400 CTTATAAAGT
94774410 AGTTCCAGATTCAGA-T-ATTC
1 AGTT-CAGATTCAGATTAATTC
* *
94774430 GGTTC-GATACATGATTAATTTC
1 AGTTCAGATTCA-GATTAA-TTC
94774452 AGTTCAGATTCAGATTA
1 AGTTCAGATTCAGATTA
94774469 GGTCAGTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.17
19 3 0.10
20 4 0.13
21 1 0.03
22 12 0.40
23 5 0.17
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (21 bp):
AGTTCAGATTCAGATTAATTC
Found at i:94779386 original size:21 final size:22
Alignment explanation
Indices: 94779348--94779388 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
94779338 ACTTCCAACT
**
94779348 CCCTCAAATCTCTCCTACTAAC
1 CCCTCAAATCTCAACTACTAAC
94779370 CCCTC-AATCTCAACTACTA
1 CCCTCAAATCTCAACTACTA
94779389 CAGAATTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (22 bp):
CCCTCAAATCTCAACTACTAAC
Found at i:94795604 original size:67 final size:67
Alignment explanation
Indices: 94795459--94795794 Score: 373
Period size: 67 Copynumber: 5.1 Consensus size: 67
94795449 ATGGACTATA
* * *
94795459 ATGGGGTATAATTTGTAAAACCATAGCTCGGCTATGGAAACATAGAGAGTCTG-CAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGTCAGGACATTAA
94795523 AC
66 AC
* * * * *
94795525 ATGGGGTATAATGTATAAGACTATAACTCGACTATGGCAACATAGAGAGTCTGTCAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGTCAGGACATTAA
94795590 AC
66 AC
* * * *
94795592 ATGTGGTATAATGTGTAAGACCATAGCTTGGCTATGACAACATAGAGAGTCCGTCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGTCAGGACATTAA
94795657 AC
66 AC
* * *
94795659 ATGGGGTATAACGTGTAAGACCATAGCTCGGCTATGGTAAC-TAGGAGAGTCCT-CCAGGGA-A-
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATA-GAGAGT-CTGTCA-GGACAT
94795720 T--AC
63 TAAAC
** * * * * * *
94795723 ATATGGTAT-GTGTGTAAGACCTTGGCTCGGCTATGACAACATAGAGAGCCTTTCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGTCAGGACATTAA
94795787 AC
66 AC
94795789 ACTGGG
1 A-TGGG
94795795 TAGTTTGCCG
Statistics
Matches: 223, Mismatches: 36, Indels: 21
0.80 0.13 0.08
Matches are distributed among these distances:
62 5 0.02
63 33 0.15
64 12 0.05
66 52 0.23
67 117 0.52
68 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGTCAGGACATTAA
AC
Found at i:94795893 original size:27 final size:27
Alignment explanation
Indices: 94795838--94795896 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
94795828 GTTGGGACGT
* * * *
94795838 TAAATGCGGGGTAGCCCATTGGGATAA
1 TAAAAGCGGGGTAGCCCACTGAGACAA
*
94795865 TAAAAGCGGGGTAGTCCACTGAGACAA
1 TAAAAGCGGGGTAGCCCACTGAGACAA
94795892 TAAAA
1 TAAAA
94795897 ATAAGGTAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.19
Consensus pattern (27 bp):
TAAAAGCGGGGTAGCCCACTGAGACAA
Found at i:94798896 original size:30 final size:30
Alignment explanation
Indices: 94798861--94798920 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
94798851 GGATGGGAGG
*
94798861 GGAGTAAAAGTTTTAG-GGGAAAAGTGAAAA
1 GGAGTAAAAG-TTTAGAGGGAAAAGTAAAAA
*
94798891 GGAGTAAAAGTTTGGAGGGAAAAGTAAAAA
1 GGAGTAAAAGTTTAGAGGGAAAAGTAAAAA
94798921 CGGTTTGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.18
Consensus pattern (30 bp):
GGAGTAAAAGTTTAGAGGGAAAAGTAAAAA
Found at i:94803734 original size:30 final size:31
Alignment explanation
Indices: 94803693--94803759 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
94803683 TAGTTTATAT
*
94803693 TTTTATAATTTTTAAAAG-ATTAAATTAAAA
1 TTTTATAATTTTTAAAAGAATTAAAATAAAA
* *
94803723 TTTTATTATTTTTAAAAGAATTAAAATACAA
1 TTTTATAATTTTTAAAAGAATTAAAATAAAA
94803754 TTTTAT
1 TTTTAT
94803760 CTTTATTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (31 bp):
TTTTATAATTTTTAAAAGAATTAAAATAAAA
Found at i:94804668 original size:3 final size:3
Alignment explanation
Indices: 94804660--94804684 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
94804650 CGATTTTTTG
94804660 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
94804685 AGATAAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:94805664 original size:36 final size:38
Alignment explanation
Indices: 94805600--94805674 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
94805590 TGATAGGAAC
94805600 ATATAATGAAATTATTAATGTTTAAAATATATATATAT
1 ATATAATGAAATTATTAATGTTTAAAATATATATATAT
*
94805638 ATATAATGAGATTATTAATG-TT-AAATATATATATAT
1 ATATAATGAAATTATTAATGTTTAAAATATATATATAT
94805674 A
1 A
94805675 CATATCTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 15 0.42
37 2 0.06
38 19 0.53
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (38 bp):
ATATAATGAAATTATTAATGTTTAAAATATATATATAT
Found at i:94807334 original size:63 final size:63
Alignment explanation
Indices: 94807267--94807391 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 63
94807257 AACCTACTAT
* * *
94807267 TCATGAATTAGAGACACGCAGGCTAGGGACACGGACGTGTGTCCAGGCCGTGTAACTCACTGA
1 TCATGAATTAGAGACACACAGGCCAGAGACACGGACGTGTGTCCAGGCCGTGTAACTCACTGA
* * * * *
94807330 TCATGACTTATAGATACACAGGCCAGAGACATGGGCGTGTGTCCAGGCCGTGTAACTCACTG
1 TCATGAATTAGAGACACACAGGCCAGAGACACGGACGTGTGTCCAGGCCGTGTAACTCACTG
94807392 TTTTCGTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (63 bp):
TCATGAATTAGAGACACACAGGCCAGAGACACGGACGTGTGTCCAGGCCGTGTAACTCACTGA
Found at i:94809944 original size:21 final size:21
Alignment explanation
Indices: 94809920--94809991 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
94809910 CTATAAGGGT
*
94809920 TGAATGGAAGCTTGTAAGAGC
1 TGAATAGAAGCTTGTAAGAGC
* * * * * *
94809941 TGAACAGAAACCTATAAGGGT
1 TGAATAGAAGCTTGTAAGAGC
*
94809962 TGAATAGAAGCTCGTAAGAGC
1 TGAATAGAAGCTTGTAAGAGC
94809983 TGAATAGAA
1 TGAATAGAA
94809992 ACCCATAAGG
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (21 bp):
TGAATAGAAGCTTGTAAGAGC
Found at i:94809952 original size:42 final size:42
Alignment explanation
Indices: 94809885--94810035 Score: 185
Period size: 42 Copynumber: 3.6 Consensus size: 42
94809875 GGCTGAACAA
* * * * *
94809885 AAGCTCATGAGAGCTAAACAAAAACCTATAAGGGTTGAATGG
1 AAGCTCGTAAGAGCTGAACAGAAACCTATAAGGGTTGAATAG
*
94809927 AAGCTTGTAAGAGCTGAACAGAAACCTATAAGGGTTGAATAG
1 AAGCTCGTAAGAGCTGAACAGAAACCTATAAGGGTTGAATAG
* * * *
94809969 AAGCTCGTAAGAGCTGAATAGAAACCCATAAGGGTTAAACAG
1 AAGCTCGTAAGAGCTGAACAGAAACCTATAAGGGTTGAATAG
** *
94810011 AAGCTCAAAAAAGCTGAACAGAAAC
1 AAGCTCGTAAGAGCTGAACAGAAAC
94810036 TCATATGAGT
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.17
Consensus pattern (42 bp):
AAGCTCGTAAGAGCTGAACAGAAACCTATAAGGGTTGAATAG
Found at i:94810000 original size:21 final size:21
Alignment explanation
Indices: 94809934--94810000 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
94809924 TGGAAGCTTG
* *
94809934 TAAGAGCTGAACAGAAACCTA
1 TAAGAGCTGAATAGAAACCCA
* * * * *
94809955 TAAGGGTTGAATAGAAGCTCG
1 TAAGAGCTGAATAGAAACCCA
94809976 TAAGAGCTGAATAGAAACCCA
1 TAAGAGCTGAATAGAAACCCA
94809997 TAAG
1 TAAG
94810001 GGTTAAACAG
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.18
Consensus pattern (21 bp):
TAAGAGCTGAATAGAAACCCA
Found at i:94810012 original size:21 final size:21
Alignment explanation
Indices: 94809941--94810012 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
94809931 TTGTAAGAGC
*
94809941 TGAACAGAAACCTATAAGGGT
1 TGAACAGAAACCCATAAGGGT
* * * * * *
94809962 TGAATAGAAGCTCGTAAGAGC
1 TGAACAGAAACCCATAAGGGT
*
94809983 TGAATAGAAACCCATAAGGGT
1 TGAACAGAAACCCATAAGGGT
*
94810004 TAAACAGAA
1 TGAACAGAA
94810013 GCTCAAAAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (21 bp):
TGAACAGAAACCCATAAGGGT
Found at i:94810048 original size:42 final size:41
Alignment explanation
Indices: 94809938--94810057 Score: 141
Period size: 42 Copynumber: 2.9 Consensus size: 41
94809928 AGCTTGTAAG
* * ** *
94809938 AGCTGAACAGAAACCTATAAGGGTTGAATAGAAGCTCGTAAG
1 AGCTGAACAGAAACC-ATAAGGGTTAAACAGAAGCTCAAAAA
*
94809980 AGCTGAATAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAA
1 AGCTGAACAGAAA-CCATAAGGGTTAAACAGAAGCTCAAAAA
* *
94810022 AGCTGAACAGAAACTCATATGAGTTAAACAGAAGCT
1 AGCTGAACAGAAAC-CATAAGGGTTAAACAGAAGCT
94810058 TGTGAGAGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 64 0.96
43 2 0.03
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (41 bp):
AGCTGAACAGAAACCATAAGGGTTAAACAGAAGCTCAAAAA
Found at i:94812657 original size:19 final size:19
Alignment explanation
Indices: 94812633--94812671 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94812623 TCACTTGCTG
*
94812633 ACAAA-TCAAACATTTTCCT
1 ACAAATTCAAA-AATTTCCT
94812652 ACAAATTCAAAAATTTCCT
1 ACAAATTCAAAAATTTCCT
94812671 A
1 A
94812672 TTTCATACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (19 bp):
ACAAATTCAAAAATTTCCT
Found at i:94817700 original size:2 final size:2
Alignment explanation
Indices: 94817693--94817717 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94817683 TTTCAACCCA
94817693 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
94817718 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:94818181 original size:21 final size:21
Alignment explanation
Indices: 94818155--94818303 Score: 111
Period size: 21 Copynumber: 7.1 Consensus size: 21
94818145 TAGAAGCCCG
*
94818155 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * *
94818176 AACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
*
94818197 ATC-GAAAGCTCATAAGAGCTA
1 AACAG-AAGCTCATAAGAGCTA
* * * * *
94818218 AACAAAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTA
* *
94818239 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
* * *
94818260 AACAGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* *
94818281 AACAGAAGCTCGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
94818302 AA
1 AA
94818304 AACGAAAAGT
Statistics
Matches: 91, Mismatches: 35, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
20 1 0.01
21 90 0.99
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:94818219 original size:42 final size:42
Alignment explanation
Indices: 94818155--94818303 Score: 183
Period size: 42 Copynumber: 3.5 Consensus size: 42
94818145 TAGAAGCCCG
* *
94818155 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTA
* *
94818197 ATC-GAAAGCTCATAAGAGCTAAACAAAAACCCATAAGGGTTA
1 AACAG-AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTA
* * * * *
94818239 AACAGAAGCTCAAAAGAGCTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTA
* *
94818281 AACAGAAGCTCGTGAGAGCTAAA
1 AACAGAAGCTCATAAGAGCTAAA
94818304 AACGAAAAGT
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 88 0.98
43 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:94829118 original size:26 final size:26
Alignment explanation
Indices: 94829064--94829138 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
94829054 TGGTCCCTGT
* *
94829064 ATTTCTTTTTCATTTTGAGTAATTT--A
1 ATTTCTTTTTC-TTTT-ATTTATTTGAA
94829090 ATTT-TTTTTCTTTTATGTTATTTGAA
1 ATTTCTTTTTCTTTTAT-TTATTTGAA
* *
94829116 ATTTCTTTTTTTTTTCTTTATTT
1 ATTTCTTTTTCTTTTATTTATTT
94829139 TCCATTCTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 1 0.02
24 9 0.22
25 6 0.15
26 15 0.37
27 10 0.24
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (26 bp):
ATTTCTTTTTCTTTTATTTATTTGAA
Found at i:94830082 original size:27 final size:26
Alignment explanation
Indices: 94830052--94830109 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
94830042 CATATCAACG
*
94830052 TTTTTGAGTTGGAATGTTGAAAACTAC
1 TTTTT-AGTTCGAATGTTGAAAACTAC
**
94830079 TTTTTCTTTCGAATGTTGAAAACTAC
1 TTTTTAGTTCGAATGTTGAAAACTAC
94830105 TTTTT
1 TTTTT
94830110 CTTTCAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (26 bp):
TTTTTAGTTCGAATGTTGAAAACTAC
Found at i:94830109 original size:26 final size:26
Alignment explanation
Indices: 94830063--94830114 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
94830053 TTTTGAGTTG
94830063 GAATGTTGAAAACTACTTTTTCTTTC
1 GAATGTTGAAAACTACTTTTTCTTTC
94830089 GAATGTTGAAAACTACTTTTTCTTTC
1 GAATGTTGAAAACTACTTTTTCTTTC
94830115 AATATTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (26 bp):
GAATGTTGAAAACTACTTTTTCTTTC
Found at i:94832216 original size:20 final size:20
Alignment explanation
Indices: 94832188--94832230 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
94832178 GTGATAACAG
94832188 TTTTCGAAAAATAAATATTT
1 TTTTCGAAAAATAAATATTT
* **
94832208 TTTTGGAAAAATTGATATTT
1 TTTTCGAAAAATAAATATTT
94832228 TTT
1 TTT
94832231 AATATTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (20 bp):
TTTTCGAAAAATAAATATTT
Found at i:94832726 original size:17 final size:19
Alignment explanation
Indices: 94832695--94832738 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
94832685 ATTGAAATTG
*
94832695 TAAAATTAAATAATT-TAT
1 TAAAATTAAAAAATTGTAT
94832713 TAAAA-TAAAAAATTGTAT
1 TAAAATTAAAAAATTGTAT
94832731 TAATAATT
1 TAA-AATT
94832739 TTTTATAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 8 0.36
18 11 0.50
19 2 0.09
20 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TAAAATTAAAAAATTGTAT
Found at i:94834464 original size:129 final size:130
Alignment explanation
Indices: 94834298--94834533 Score: 393
Period size: 130 Copynumber: 1.8 Consensus size: 130
94834288 GCCTTATTTT
* * *
94834298 AGAATTTAGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTA-TTTGAACAAACGGGAAATT
1 AGAATTTAGAAAACATGAGTGAAATTCTAAAAGAATATTCGATCATTTTGAACAAACGAGAAATT
*
94834362 GCAACCCAGCACGATAGGGCATGATTCCCCGAATTTCTAAACTTCGAACGTTGCCTTCGTTTTAA
66 GCAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACTTCGAACGTTGCCTTCGTTTTAA
**
94834427 AGAATTTTTAAAACATGAGTGAAATTCTAAAAGAATATTCGATCATTTTGAACAAACGAGAAATT
1 AGAATTTAGAAAACATGAGTGAAATTCTAAAAGAATATTCGATCATTTTGAACAAACGAGAAATT
* *
94834492 GCAACCTAGCACGATAGGGCACGATTCCTCGAATTTCTAAAC
66 GCAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAAC
94834534 ATCAAACATC
Statistics
Matches: 98, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
129 41 0.42
130 57 0.58
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (130 bp):
AGAATTTAGAAAACATGAGTGAAATTCTAAAAGAATATTCGATCATTTTGAACAAACGAGAAATT
GCAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACTTCGAACGTTGCCTTCGTTTTAA
Found at i:94834554 original size:130 final size:129
Alignment explanation
Indices: 94834298--94834612 Score: 384
Period size: 130 Copynumber: 2.4 Consensus size: 129
94834288 GCCTTATTTT
* * *
94834298 AGAATTTAGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTGAACAAACGGGAAATTG
1 AGAATTTAGAAAACATGAGTGAAATTCTAAAAGAATATTCGATCATTTGAACAAACGAGAAATTG
* * * * *
94834363 CAACCCAGCACGATAGGGCATGATTCCCCGAATTTCTAAACTTCGAACGTTGCCTTCGTTTTAA
66 CAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCAAACATCGCCTTCGTTTTAA
**
94834427 AGAATTTTTAAAACATGAGTGAAATTCTAAAAGAATATTCGATCATTTTGAACAAACGAGAAATT
1 AGAATTTAGAAAACATGAGTGAAATTCTAAAAGAATATTCGATCA-TTTGAACAAACGAGAAATT
* * * *
94834492 GCAACCTAGCACGATAGGGCACGATTCCTCGAATTTCTAAACATCAAACATCGCTTTTGTTTT-A
65 GCAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCAAACATCGCCTTCGTTTTAA
* ** * * * * * *
94834556 AG-GTTTAGAAAACGCG-GATGAAGTTTTAAAGGAAAATTCGATTATTTAAACAAACGA
1 AGAATTTAGAAAACATGAG-TGAAATTCTAAAAGAATATTCGATCATTTGAACAAACGA
94834613 AAGATCGAAA
Statistics
Matches: 159, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
127 13 0.08
128 30 0.19
129 44 0.28
130 72 0.45
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (129 bp):
AGAATTTAGAAAACATGAGTGAAATTCTAAAAGAATATTCGATCATTTGAACAAACGAGAAATTG
CAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCAAACATCGCCTTCGTTTTAA
Found at i:94835197 original size:26 final size:23
Alignment explanation
Indices: 94835168--94835220 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
94835158 ATGCTAAGAT
94835168 TTAAAATAATTTATATAAAATAAAAA
1 TTAAAATAA--TATAT-AAATAAAAA
*
94835194 TT--AATAATATATGAATAAAAA
1 TTAAAATAATATATAAATAAAAA
94835215 TTAAAA
1 TTAAAA
94835221 ATGAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
21 10 0.42
22 5 0.21
23 2 0.08
24 5 0.21
26 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
TTAAAATAATATATAAATAAAAA
Found at i:94835387 original size:16 final size:16
Alignment explanation
Indices: 94835362--94835392 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94835352 CAGTTTTTTT
*
94835362 TAAATGAATAAACAAA
1 TAAATAAATAAACAAA
94835378 TAAATAAATAAACAA
1 TAAATAAATAAACAA
94835393 GATAGATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.19
Consensus pattern (16 bp):
TAAATAAATAAACAAA
Found at i:94835585 original size:3 final size:3
Alignment explanation
Indices: 94835569--94835615 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
94835559 AATGACGACG
*
94835569 ATA ATGA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
94835615 A
1 A
94835616 CATAAATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:94835885 original size:30 final size:31
Alignment explanation
Indices: 94835832--94835890 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
94835822 TATATACAAA
94835832 AAAAACAATTATAATAAAGAAAACGAAATATT
1 AAAAACAATTATAATAAAGAAAAC-AAATATT
*
94835864 AAAAA-AATTA-AATAAATAAAACAAATA
1 AAAAACAATTATAATAAAGAAAACAAATA
94835891 GCTAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 5 0.19
30 11 0.42
31 5 0.19
32 5 0.19
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.20
Consensus pattern (31 bp):
AAAAACAATTATAATAAAGAAAACAAATATT
Found at i:94836759 original size:16 final size:16
Alignment explanation
Indices: 94836738--94836770 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
94836728 TATTCTCCAA
94836738 AAAGAACCCCCCTTTT
1 AAAGAACCCCCCTTTT
94836754 AAAGAACCCCCCTTTT
1 AAAGAACCCCCCTTTT
94836770 A
1 A
94836771 CATGGTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.36, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAGAACCCCCCTTTT
Found at i:94837482 original size:44 final size:44
Alignment explanation
Indices: 94837432--94837519 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
94837422 TCTTAACAGT
*
94837432 AACATCTAGGCGACACTTAGGATAATAAACACTCTAACTATCAA
1 AACATCTAGACGACACTTAGGATAATAAACACTCTAACTATCAA
94837476 AACATCTAGACGACACTTAGGATAATAAACACTCTAACTATCAA
1 AACATCTAGACGACACTTAGGATAATAAACACTCTAACTATCAA
94837520 GCTAACATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (44 bp):
AACATCTAGACGACACTTAGGATAATAAACACTCTAACTATCAA
Found at i:94840871 original size:13 final size:13
Alignment explanation
Indices: 94840839--94840864 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94840829 TAAATCAAGA
94840839 ATAAAATTAAAAT
1 ATAAAATTAAAAT
94840852 ATAAAATTAAAAT
1 ATAAAATTAAAAT
94840865 TGTAAATCAG
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAAATTAAAAT
Found at i:94840900 original size:72 final size:72
Alignment explanation
Indices: 94840777--94840921 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 72
94840767 AATAATATTT
* * * * *
94840777 AATATAAAATTAGAACTATAAATTAGGATGTATCATATCAAATCATTAAGAATAAATCAAGAATA
1 AATATAAAATTAAAACTATAAATCAGGATGTATCATATCAAATAATCAAGAATAAATCAAGAACA
94840842 AAATTAA
66 AAATTAA
* * * *
94840849 AATATAAAATTAAAATTGTAAATCAGGATGTATCATGTCAAATAATCAAGAATAAATTAAGAACA
1 AATATAAAATTAAAACTATAAATCAGGATGTATCATATCAAATAATCAAGAATAAATCAAGAACA
94840914 AAATTAA
66 AAATTAA
94840921 A
1 A
94840922 TGCGGAAACA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.28
Consensus pattern (72 bp):
AATATAAAATTAAAACTATAAATCAGGATGTATCATATCAAATAATCAAGAATAAATCAAGAACA
AAATTAA
Found at i:94846022 original size:157 final size:157
Alignment explanation
Indices: 94845736--94846207 Score: 890
Period size: 157 Copynumber: 3.0 Consensus size: 157
94845726 TGTTTTAAAG
94845736 TTATTGCTTCGGCAACTACTCTCACAATTTATCTCGTTTCTATCTGTTTATTACACTGACATTCA
1 TTATTGCTTCGGCAACTACTCTCACAATTTATCTCGTTTCTATCTGTTTATTACACTGACATTCA
*
94845801 TAGATAAAAGACAACCATCCTTGTGGGATCGATATCGGATAGACTCATATCTATCTACTATACTT
66 TAGATAAAAGACAACCATCCTTGTGGGATCGATATCCGATAGACTCATATCTATCTACTATACTT
*
94845866 GCATCGATAGTGTATGCTTGCACATTA
131 GCATCGATAGTGTACGCTTGCACATTA
94845893 TTATTGCTTCGGCAACTACTCTCACAATTTATCTCGTTTCTATCTGTTTATTACACTGACATTCA
1 TTATTGCTTCGGCAACTACTCTCACAATTTATCTCGTTTCTATCTGTTTATTACACTGACATTCA
94845958 TAGATAAAAGACAACCATCCTTGTGGGATCGATATCCGATAGACTCATATCTATCTACTATACTT
66 TAGATAAAAGACAACCATCCTTGTGGGATCGATATCCGATAGACTCATATCTATCTACTATACTT
94846023 GCATCGATAGTGTACGCTTGCACATTA
131 GCATCGATAGTGTACGCTTGCACATTA
*
94846050 TTATTGCTTCGGCAACTACTCTCACAATTTATCTTGTTTCTATCTGTTTATTACACTGACATTCA
1 TTATTGCTTCGGCAACTACTCTCACAATTTATCTCGTTTCTATCTGTTTATTACACTGACATTCA
* * *
94846115 TAGATAAAAGACAACCATCCTTGTGGGATCGATATTCAATAGACTCATATCTGTCTACTATACTT
66 TAGATAAAAGACAACCATCCTTGTGGGATCGATATCCGATAGACTCATATCTATCTACTATACTT
94846180 GCATCGATAGTGTACGCTTGCACATTA
131 GCATCGATAGTGTACGCTTGCACATTA
94846207 T
1 T
94846208 GCTGTGACGT
Statistics
Matches: 309, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 309 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (157 bp):
TTATTGCTTCGGCAACTACTCTCACAATTTATCTCGTTTCTATCTGTTTATTACACTGACATTCA
TAGATAAAAGACAACCATCCTTGTGGGATCGATATCCGATAGACTCATATCTATCTACTATACTT
GCATCGATAGTGTACGCTTGCACATTA
Found at i:94848293 original size:30 final size:31
Alignment explanation
Indices: 94848259--94848355 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
94848249 AGCTCACTCC
94848259 TAGCTC-ACTTTCAGCTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
94848289 TAGCTCAAC-TTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * *
94848319 CAGCTCAACTTT-AGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
94848349 TAGCTCA
1 TAGCTCA
94848356 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
30 48 0.92
31 4 0.08
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:94863201 original size:10 final size:9
Alignment explanation
Indices: 94863179--94863208 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
94863169 AAAATTGTTA
94863179 AATAAAAAT
1 AATAAAAAT
94863188 AATAAAACAT
1 AATAAAA-AT
94863198 AATAAAAAT
1 AATAAAAAT
94863207 AA
1 AA
94863209 ACTTAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (9 bp):
AATAAAAAT
Found at i:94865388 original size:55 final size:55
Alignment explanation
Indices: 94865254--94865392 Score: 143
Period size: 55 Copynumber: 2.5 Consensus size: 55
94865244 TTGCTTCTCC
* * * ** **
94865254 CACGCCCGTGTTGTTTTGGCAGTTTCACCCATGGTTGCTTGGCACGGGTGTGTCG
1 CACGCCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTGCAAGGCACGGGCATGTCG
* * ** ** * *
94865309 CACACTCGTGTTAATTTGATAGGTTCGGCCACGGTTTCAAGGCACGGGCATGTCG
1 CACGCCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTGCAAGGCACGGGCATGTCG
94865364 CACGCCCGTGTTGTTTTGGCAGGTTCGCC
1 CACGCCCGTGTTGTTTTGGCAGGTTCGCC
94865393 AAAGGCTATG
Statistics
Matches: 62, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.13, C:0.26, G:0.31, T:0.30
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTGCAAGGCACGGGCATGTCG
Found at i:94868067 original size:8 final size:8
Alignment explanation
Indices: 94868054--94868086 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
94868044 ATAGGTAACT
94868054 TCACGAAA
1 TCACGAAA
94868062 TCACGAAA
1 TCACGAAA
94868070 TCACGAAA
1 TCACGAAA
*
94868078 TCACAAAA
1 TCACGAAA
94868086 T
1 T
94868087 ATTTAAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.52, C:0.24, G:0.09, T:0.15
Consensus pattern (8 bp):
TCACGAAA
Found at i:94883517 original size:22 final size:22
Alignment explanation
Indices: 94883469--94883518 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
94883459 AAATCTATAA
*
94883469 AATTAAAAAAGAAAAACGAATC
1 AATTCAAAAAGAAAAACGAATC
*
94883491 AATTCAAAAATAATAAA-GAATC
1 AATTCAAAAAGAA-AAACGAATC
94883513 AATTCA
1 AATTCA
94883519 TTCCCAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.64, C:0.10, G:0.06, T:0.20
Consensus pattern (22 bp):
AATTCAAAAAGAAAAACGAATC
Found at i:94887036 original size:27 final size:29
Alignment explanation
Indices: 94887006--94887060 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
94886996 AACTAATTTT
94887006 TTTAAAATTTAAAAAT-ATTTTT-TAATC
1 TTTAAAATTTAAAAATAATTTTTCTAATC
* *
94887033 TTTAAACTTTTAAAATAATTTTTCTAAT
1 TTTAAAATTTAAAAATAATTTTTCTAAT
94887061 TTTTTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 14 0.58
28 6 0.25
29 4 0.17
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTAAAATTTAAAAATAATTTTTCTAATC
Found at i:94887949 original size:30 final size:30
Alignment explanation
Indices: 94887883--94887949 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
94887873 ATAGGGCAGA
* * *
94887883 CCGTGCGTCACATACGGTCTAAATACACGT
1 CCGTGTGTCACATACGGTCTAAACACACGC
* *
94887913 CTGTGTGTCACATACGGTCTAGACACACGC
1 CCGTGTGTCACATACGGTCTAAACACACGC
94887943 CCGTGTG
1 CCGTGTG
94887950 CCTACCCGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (30 bp):
CCGTGTGTCACATACGGTCTAAACACACGC
Found at i:94889018 original size:48 final size:48
Alignment explanation
Indices: 94888943--94889123 Score: 155
Period size: 48 Copynumber: 3.9 Consensus size: 48
94888933 CACATAGTAA
* * * * *
94888943 GATGCCAATGCCATATCTCGGATATGGTCTTACATAGGATCATATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATC
* *
94888991 GATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATC
* * *
94889039 -AGTGCCGAT---A-G-CCCAG-CTATGGTCTT--ATACGAAATTACATATC
1 GA-TGCCAATGCCATGTCCCAGAC-ATGGTCTTACATA-G-GATCACATATC
* *
94889082 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCA
94889124 TACATAACCC
Statistics
Matches: 103, Mismatches: 17, Indels: 26
0.71 0.12 0.18
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 26 0.25
44 2 0.02
45 1 0.01
46 1 0.01
47 2 0.02
48 63 0.61
49 2 0.02
50 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATC
Found at i:94894777 original size:13 final size:13
Alignment explanation
Indices: 94894759--94894785 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94894749 CGCATAAAAC
94894759 AAACAATTTTATA
1 AAACAATTTTATA
94894772 AAACAATTTTATA
1 AAACAATTTTATA
94894785 A
1 A
94894786 GTGCGGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
AAACAATTTTATA
Found at i:94898339 original size:42 final size:43
Alignment explanation
Indices: 94898255--94898362 Score: 105
Period size: 42 Copynumber: 2.5 Consensus size: 43
94898245 GTCCCGAACG
* **
94898255 TGGTCTTACATGTAATTCAATATCGATGCCTCTATCCCAGACA
1 TGGTCTTACATGAAATTCAATATCGATGCCGATATCCCAGACA
* *
94898298 -GGATCTTACATGAAATT-AGATA-CGATGCCGATGTCCTAGACA
1 TGG-TCTTACATGAAATTCA-ATATCGATGCCGATATCCCAGACA
*
94898340 TGGTCTTATATGTAAATCTCAAT
1 TGGTCTTACATG-AAAT-TCAAT
94898363 CGAGGCTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
42 27 0.51
43 22 0.42
44 3 0.06
45 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (43 bp):
TGGTCTTACATGAAATTCAATATCGATGCCGATATCCCAGACA
Found at i:94902831 original size:39 final size:39
Alignment explanation
Indices: 94902788--94902927 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
94902778 ATCGTGATCT
** *
94902788 GAAGCCCGAAATCTAACTGAAGCACATAAGTACTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
** *
94902827 GAAGCTTGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
94902866 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
94902905 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
94902928 TCATCAAAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:94905467 original size:37 final size:37
Alignment explanation
Indices: 94905369--94905486 Score: 143
Period size: 36 Copynumber: 3.2 Consensus size: 37
94905359 ATTCCAACTG
*
94905369 AAACACACTAGATGCTCATAAGAGCTAATCCATCC-A
1 AAACACACTAGATGCTCATAAGAGCTAGTCCATCCGA
* *
94905405 AAACACACCAGATGCTCATACGAGCTAGTCCATCCGA
1 AAACACACTAGATGCTCATAAGAGCTAGTCCATCCGA
* * *
94905442 TAACACACTA-ATGGCTCCA-AAGAGCTAGTCTAACCGA
1 AAACACACTAGAT-GCT-CATAAGAGCTAGTCCATCCGA
94905479 AAACACAC
1 AAACACAC
94905487 CAAAACAAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
36 34 0.49
37 34 0.49
38 2 0.03
ACGTcount: A:0.40, C:0.30, G:0.14, T:0.17
Consensus pattern (37 bp):
AAACACACTAGATGCTCATAAGAGCTAGTCCATCCGA
Found at i:94908183 original size:6 final size:6
Alignment explanation
Indices: 94908173--94908239 Score: 80
Period size: 6 Copynumber: 11.0 Consensus size: 6
94908163 CATATCGTAA
* * * *
94908173 ATCTGA ATCTGTT ATCTGA ATCTGG ATATGT ATCTGT ATCTGT ATCTGT
1 ATCTGT ATCTG-T ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT ATCTGT
*
94908222 ATTTGT ATCTGT ATCTGT
1 ATCTGT ATCTGT ATCTGT
94908240 CTGTGTACAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
6 47 0.90
7 5 0.10
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (6 bp):
ATCTGT
Found at i:94910567 original size:27 final size:28
Alignment explanation
Indices: 94910536--94910599 Score: 112
Period size: 27 Copynumber: 2.3 Consensus size: 28
94910526 AGTTGTAGTG
94910536 TAATTGCATTACACTATATTGAGTTTC-
1 TAATTGCATTACACTATATTGAGTTTCT
94910563 TAATTGCATTACACTATATTGAGTTTCT
1 TAATTGCATTACACTATATTGAGTTTCT
*
94910591 TACTTGCAT
1 TAATTGCAT
94910600 AATGAATGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 27 0.77
28 8 0.23
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (28 bp):
TAATTGCATTACACTATATTGAGTTTCT
Found at i:94916091 original size:34 final size:34
Alignment explanation
Indices: 94916039--94916149 Score: 150
Period size: 34 Copynumber: 3.3 Consensus size: 34
94916029 GAAGTAAATA
* *
94916039 AATATATAAGTATGGCTTGGCATAATCGAAGGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGGTG
* * *
94916073 ATTATATATGTATAGCTTGGTATAATCGAAAGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGGTG
* * *
94916107 AATATATATGTATGGTTTGATATAACCGAAGGTG
1 AATATATATGTATGGCTTGGTATAATCGAAGGTG
94916141 AATATATAT
1 AATATATAT
94916150 ATATTTTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (34 bp):
AATATATATGTATGGCTTGGTATAATCGAAGGTG
Found at i:94916347 original size:59 final size:61
Alignment explanation
Indices: 94916220--94916355 Score: 170
Period size: 59 Copynumber: 2.3 Consensus size: 61
94916210 TAAGCTTAAG
** * *
94916220 ATGAGCACTAAGTGTGCAAAATGAAATTACTACTGAGTACTAAGTGTACGAAATTGGTCAT
1 ATGAGCACTAAGTGTGCAAAATGAAATTACTACCAAGTACTAAATGTACGAAATCGGTCAT
* * * * *
94916281 TTG-GCACTAAGTGTGCAAATTGAATTTA-TACCAAGTACTAAATGTACGAGATCGGTTA-
1 ATGAGCACTAAGTGTGCAAAATGAAATTACTACCAAGTACTAAATGTACGAAATCGGTCAT
94916339 ATGAGCACTAAGTGTGC
1 ATGAGCACTAAGTGTGC
94916356 TAGTTTATCT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 2 0.03
59 37 0.58
60 23 0.36
61 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (61 bp):
ATGAGCACTAAGTGTGCAAAATGAAATTACTACCAAGTACTAAATGTACGAAATCGGTCAT
Found at i:94923247 original size:34 final size:34
Alignment explanation
Indices: 94923207--94923317 Score: 143
Period size: 34 Copynumber: 3.3 Consensus size: 34
94923197 GAAGTACATA
*
94923207 AATATATATGTATGGCTTGGCATAATCAAAGGTG
1 AATATATATGTATGGCTTGGTATAATCAAAGGTG
* *
94923241 ATTATATATGTATAGCTTGGTATAATCGAAA-GTG
1 AATATATATGTATGGCTTGGTATAATC-AAAGGTG
* * * *
94923275 AATATATATGTATGGTTTGATATAACCGAAGGTG
1 AATATATATGTATGGCTTGGTATAATCAAAGGTG
94923309 AATATATAT
1 AATATATAT
94923318 ATACATTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
33 2 0.03
34 61 0.92
35 3 0.05
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (34 bp):
AATATATATGTATGGCTTGGTATAATCAAAGGTG
Found at i:94925462 original size:22 final size:22
Alignment explanation
Indices: 94925437--94925488 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
94925427 TGAGTAAATC
* *
94925437 ATTTAGTTTTCTTTCTTTTTTT
1 ATTTAGTTTACTTTCTATTTTT
94925459 ATTTTA-TTTACTTTCTATTTTT
1 A-TTTAGTTTACTTTCTATTTTT
*
94925481 ACTTAGTT
1 ATTTAGTT
94925489 AAATGTTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 18 0.72
23 4 0.16
ACGTcount: A:0.15, C:0.10, G:0.04, T:0.71
Consensus pattern (22 bp):
ATTTAGTTTACTTTCTATTTTT
Found at i:94926213 original size:63 final size:63
Alignment explanation
Indices: 94926133--94926259 Score: 191
Period size: 63 Copynumber: 2.0 Consensus size: 63
94926123 TATTTATGAA
* * * *
94926133 TTGGGGTCACATAGGCTAGGGACATGAGCGTGTGTCCAAGTCGTGTAACTCATTATTTGTATT
1 TTGGGGTCACACAGGCTAGGGACATGAGCGTGTGTCCAAGCCGTGTAACTCACTATTTGGATT
* * *
94926196 TTGGGGTCACACGGGCTAGGGATATGAGCGTGTGTCCAGGCCGTGTAACTCACTATTTGGATT
1 TTGGGGTCACACAGGCTAGGGACATGAGCGTGTGTCCAAGCCGTGTAACTCACTATTTGGATT
94926259 T
1 T
94926260 AAGGTCACAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (63 bp):
TTGGGGTCACACAGGCTAGGGACATGAGCGTGTGTCCAAGCCGTGTAACTCACTATTTGGATT
Found at i:94928093 original size:27 final size:27
Alignment explanation
Indices: 94928062--94928114 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
94928052 GACCCTATTT
* *
94928062 TGTAAAATCACTGAAATACCCTTGTAG
1 TGTAAAATCACCGAAATACCCCTGTAG
* *
94928089 TGTAAAATGACCGTAATACCCCTGTA
1 TGTAAAATCACCGAAATACCCCTGTA
94928115 TGGTAGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (27 bp):
TGTAAAATCACCGAAATACCCCTGTAG
Found at i:94930335 original size:15 final size:15
Alignment explanation
Indices: 94930315--94930344 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
94930305 TTCTTGGTTC
94930315 ACTAACACAATTTTT
1 ACTAACACAATTTTT
*
94930330 ACTAACCCAATTTTT
1 ACTAACACAATTTTT
94930345 GGGATGTGAC
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:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (15 bp):
ACTAACACAATTTTT
Found at i:94930635 original size:22 final size:22
Alignment explanation
Indices: 94930594--94930635 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
94930584 TCAAGAACAT
* *
94930594 GAAATTAAAAGCATTCAACAAA
1 GAAATTAAAAGCAATAAACAAA
*
94930616 GAAATTTAAAGCAATAAACA
1 GAAATTAAAAGCAATAAACA
94930636 TAAAAGAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.19
Consensus pattern (22 bp):
GAAATTAAAAGCAATAAACAAA
Found at i:94930720 original size:32 final size:32
Alignment explanation
Indices: 94930674--94930737 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
94930664 AGTCGAAGAA
*
94930674 ATTGAAATACATTAAACTAAAACTAAAATGTC
1 ATTGAAATAAATTAAACTAAAACTAAAATGTC
*
94930706 ATTGAAATAAATTAAGCTAAAACTAAAATGTC
1 ATTGAAATAAATTAAACTAAAACTAAAATGTC
94930738 TTTCAACCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (32 bp):
ATTGAAATAAATTAAACTAAAACTAAAATGTC
Found at i:94932129 original size:21 final size:20
Alignment explanation
Indices: 94932103--94932141 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
94932093 GATTATTTTG
94932103 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
94932124 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
94932142 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:94932885 original size:101 final size:101
Alignment explanation
Indices: 94932692--94932908 Score: 321
Period size: 101 Copynumber: 2.1 Consensus size: 101
94932682 AGGTGAATTG
94932692 AACGTAAGACCATGGTTGAACCATGGCAGTATTTATATGTAAGACCATAGCTGGGCTATGGCATT
1 AACGTAAGACCATGGTTGAACCATGGCAGTATTTATATGTAAGACCATAGCTGGGCTATGGCATT
*
94932757 TTAATGAAAAGACCATAACTAGGTTATGGCACCTTA
66 CTAATGAAAAGACCATAACTAGGTTATGGCACCTTA
* * *
94932793 AACGTAAGATCATGGTTGGACCATGGCGGTATTTATATGTAAGACCATAGCT-GGCTATGGCATT
1 AACGTAAGACCATGGTTGAACCATGGCAGTATTTATATGTAAGACCATAGCTGGGCTATGGCATT
* * * *
94932857 CTGATGATAAGACCATAACTGGGTTTATGGCA-CTATG
66 CTAATGAAAAGACCATAACTAGG-TTATGGCACCT-TA
*
94932894 AATGTAAGACCATGG
1 AACGTAAGACCATGG
94932909 CAGGGCCCTA
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
100 33 0.32
101 71 0.68
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (101 bp):
AACGTAAGACCATGGTTGAACCATGGCAGTATTTATATGTAAGACCATAGCTGGGCTATGGCATT
CTAATGAAAAGACCATAACTAGGTTATGGCACCTTA
Found at i:94932886 original size:34 final size:32
Alignment explanation
Indices: 94932829--94932906 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 32
94932819 CGGTATTTAT
* * *
94932829 ATGTAAGACCATAGCTGGCTATGGCATTCTG-
1 ATGTAAGACCATAACTGGCTATGGCACTATGA
*
94932860 ATGATAAGACCATAACTGGGTTTATGGCACTATGA
1 ATG-TAAGACCATAACT-GG-CTATGGCACTATGA
94932895 ATGTAAGACCAT
1 ATGTAAGACCAT
94932907 GGCAGGGCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 3 0.08
32 12 0.31
33 2 0.05
34 19 0.49
35 3 0.08
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGCTATGGCACTATGA
Found at i:94935685 original size:17 final size:17
Alignment explanation
Indices: 94935663--94935695 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
94935653 TCAAAAAAAT
94935663 ATATTTTGTTAT-TTAAA
1 ATATTTT-TTATGTTAAA
94935680 ATATTTTTTATGTTAA
1 ATATTTTTTATGTTAA
94935696 TATCGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
ATATTTTTTATGTTAAA
Found at i:94936156 original size:11 final size:12
Alignment explanation
Indices: 94936125--94936157 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
94936115 CCATTGATTC
94936125 ATTTAAATCAAAT
1 ATTTAAAT-AAAT
94936138 ATTTAAATAAAT
1 ATTTAAATAAAT
94936150 A-TTAAATA
1 ATTTAAATA
94936158 TAGCGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.35
12 5 0.25
13 8 0.40
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTTAAATAAAT
Found at i:94940439 original size:20 final size:20
Alignment explanation
Indices: 94940416--94940456 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
94940406 AAATTAATAT
94940416 TAATTTTTAAAAAGATAAAA
1 TAATTTTTAAAAAGATAAAA
94940436 TAATTTTTAAAAAGATAAAA
1 TAATTTTTAAAAAGATAAAA
94940456 T
1 T
94940457 GAATGATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
TAATTTTTAAAAAGATAAAA
Found at i:94940468 original size:21 final size:20
Alignment explanation
Indices: 94940424--94940468 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
94940414 ATTAATTTTT
** *
94940424 AAAAAGATAAAATAATTTTT
1 AAAAAGATAAAATAATGATC
94940444 AAAAAGATAAAATGAATGATC
1 AAAAAGATAAAAT-AATGATC
94940465 AAAA
1 AAAA
94940469 TAAAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.24
Consensus pattern (20 bp):
AAAAAGATAAAATAATGATC
Found at i:94942285 original size:3 final size:3
Alignment explanation
Indices: 94942277--94942327 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
94942267 CGATCCAAAG
*
94942277 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94942325 TTA
1 TTA
94942328 CTCATCCAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:94951177 original size:28 final size:28
Alignment explanation
Indices: 94951145--94951200 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
94951135 AAAATAAATT
94951145 TAAATTTAATGCCGAAACCTCCTCAACA
1 TAAATTTAATGCCGAAACCTCCTCAACA
94951173 TAAATTTAATGCCGAAACCTCCTCAACA
1 TAAATTTAATGCCGAAACCTCCTCAACA
94951201 ACAACGCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.29, G:0.07, T:0.25
Consensus pattern (28 bp):
TAAATTTAATGCCGAAACCTCCTCAACA
Found at i:94954534 original size:51 final size:51
Alignment explanation
Indices: 94954479--94954576 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
94954469 ACCTTATAAC
* *
94954479 ATGTAACACATCCATAATGAACTCGGACCTCTCAATGAGCTCGGATGTTAT
1 ATGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGTTAT
**** *
94954530 ATGTATTGTATCCATGATGAACTCGGACCACTCAACGAGCTCGGATG
1 ATGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATG
94954577 CTACATATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (51 bp):
ATGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGTTAT
Found at i:94954607 original size:42 final size:43
Alignment explanation
Indices: 94954548--94954660 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
94954538 TATCCATGAT
94954548 GAACTCGGACCACTCAACGAGCTCGGATGCT-ACATATATCAC
1 GAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCAC
* * * *
94954590 GAACTTGGACCACTCAACAAGTTCGGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCAC
* *
94954633 AAACTCAGACCACTCAACGAGCTCGGAT
1 GAACTCGGACCACTCAACGAGCTCGGAT
94954661 TTTTTAATTC
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (43 bp):
GAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCAC
Found at i:94962306 original size:35 final size:35
Alignment explanation
Indices: 94962267--94962337 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
94962257 TTTTTTCCTT
94962267 TGTTGGTATGTCATTTCTCAATGAATTATTCCACA
1 TGTTGGTATGTCATTTCTCAATGAATTATTCCACA
94962302 TGTTGGTATGTCATTTCTCAATGAATTATTCCACA
1 TGTTGGTATGTCATTTCTCAATGAATTATTCCACA
94962337 T
1 T
94962338 ACAAGATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (35 bp):
TGTTGGTATGTCATTTCTCAATGAATTATTCCACA
Found at i:94969610 original size:11 final size:11
Alignment explanation
Indices: 94969594--94969618 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
94969584 GAAGTTTTCC
94969594 TTAGTAATAAT
1 TTAGTAATAAT
94969605 TTAGTAATAAT
1 TTAGTAATAAT
94969616 TTA
1 TTA
94969619 ATCATGCAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
TTAGTAATAAT
Found at i:94970569 original size:44 final size:44
Alignment explanation
Indices: 94970520--94970604 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
94970510 TACATCACAC
* ** *
94970520 CAAAGAGCACCGTAGTGTTAAACAGATAGCACAAAAGTGCTGAT
1 CAAAGAGCACCGAAGTACTAAACAGAAAGCACAAAAGTGCTGAT
* * *
94970564 CAAAGAGTACCGAAGTACTAAATAGAAAGCACAGAAGTGCT
1 CAAAGAGCACCGAAGTACTAAACAGAAAGCACAAAAGTGCT
94970605 AAACCCATAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (44 bp):
CAAAGAGCACCGAAGTACTAAACAGAAAGCACAAAAGTGCTGAT
Found at i:94977330 original size:23 final size:23
Alignment explanation
Indices: 94977282--94977350 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
94977272 GATAGCTATA
* **
94977282 TATCGGGAAGTTCA-AGCGAGCAC
1 TATCGGGAAGCTCACAAAGAGC-C
94977305 TATCGGGAAGCTCACAAAGAGCC
1 TATCGGGAAGCTCACAAAGAGCC
* *
94977328 TATCAGGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACAAAGAGCC
94977351 ATATATCGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 35 0.88
24 5 0.12
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.14
Consensus pattern (23 bp):
TATCGGGAAGCTCACAAAGAGCC
Found at i:94979460 original size:18 final size:20
Alignment explanation
Indices: 94979433--94979481 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
94979423 TAATTAATAA
* *
94979433 TAAAATAATAAAATATCTTAT
1 TAAAATAAT-ATATATCTAAT
94979454 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
94979474 T-AAATAAT
1 TAAAATAAT
94979482 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:94979470 original size:20 final size:21
Alignment explanation
Indices: 94979433--94979492 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
94979423 TAATTAATAA
*
94979433 TAAAATAATAAAATATCTTAT
1 TAAAATAATAAAATATCTAAT
*
94979454 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
94979474 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
94979493 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:94983677 original size:27 final size:27
Alignment explanation
Indices: 94983635--94983708 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
94983625 TAAGCTGAAA
* *
94983635 CCCTAGTAGGAGAAAATGACCGTAATGC
1 CCCT-GTAGGATAAAATGACCGTAATAC
94983663 CCCTGTAGGATAAAATGACCGTAATAC
1 CCCTGTAGGATAAAATGACCGTAATAC
94983690 CCCTGTATGG-TAAAATGAC
1 CCCTGTA-GGATAAAATGAC
94983709 GATTATGCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 37 0.86
28 6 0.14
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (27 bp):
CCCTGTAGGATAAAATGACCGTAATAC
Found at i:94984133 original size:33 final size:33
Alignment explanation
Indices: 94984085--94984171 Score: 131
Period size: 33 Copynumber: 2.7 Consensus size: 33
94984075 GCTTGGACCC
*
94984085 ACTCTGCTACT-TATAGGGCTAAAGCCTAGACT
1 ACTCTGTTACTGTATAGGGCTAAAGCCTAGACT
*
94984117 GCTCTGTTACTGTATAGGGCTAAAGCCTAGACT
1 ACTCTGTTACTGTATAGGGCTAAAGCCTAGACT
* *
94984150 ACTCTGTTACTGAATAAGGCTA
1 ACTCTGTTACTGTATAGGGCTA
94984172 CGGCCTAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 9 0.18
33 40 0.82
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (33 bp):
ACTCTGTTACTGTATAGGGCTAAAGCCTAGACT
Found at i:95010981 original size:17 final size:17
Alignment explanation
Indices: 95010959--95010992 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
95010949 TAATTTATTT
95010959 AATAATAAAAAATTATC
1 AATAATAAAAAATTATC
95010976 AATAATAAAAAATTATC
1 AATAATAAAAAATTATC
95010993 TTATATTATT
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:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAATAAAAAATTATC
Found at i:95015997 original size:4 final size:4
Alignment explanation
Indices: 95015988--95016013 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
95015978 AAAAAAACCA
95015988 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
95016014 TAATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:95021998 original size:3 final size:3
Alignment explanation
Indices: 95021990--95022034 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
95021980 AGCCTTATAG
95021990 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95022035 GGAAATCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:95024469 original size:17 final size:18
Alignment explanation
Indices: 95024438--95024473 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
95024428 GATAAAAGTA
95024438 ATTATTGATTTTTAAAAT
1 ATTATTGATTTTTAAAAT
*
95024456 ATTATTGATTTTAAAAAT
1 ATTATTGATTTTTAAAAT
95024474 TTTAATCTTA
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:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
ATTATTGATTTTTAAAAT
Found at i:95026468 original size:9 final size:9
Alignment explanation
Indices: 95026370--95026496 Score: 130
Period size: 9 Copynumber: 14.1 Consensus size: 9
95026360 CCTGGCATTA
95026370 GTGGGATTT
1 GTGGGATTT
* *
95026379 TTGGGACTT
1 GTGGGATTT
*
95026388 GTGGGATCT
1 GTGGGATTT
*
95026397 GTGGGACTT
1 GTGGGATTT
*
95026406 GTGGGATCT
1 GTGGGATTT
*
95026415 GTGGGATTA
1 GTGGGATTT
*
95026424 GTGGAATTT
1 GTGGGATTT
95026433 GTGGGATTT
1 GTGGGATTT
*
95026442 GTGGGATCT
1 GTGGGATTT
95026451 GTGGGATTT
1 GTGGGATTT
95026460 GTGGGATTT
1 GTGGGATTT
* *
95026469 CTGGAATTCT
1 GTGGGATT-T
95026479 -TGGGATTT
1 GTGGGATTT
* *
95026487 CTGGAATTT
1 GTGGGATTT
95026496 G
1 G
95026497 AGGAAATGGT
Statistics
Matches: 95, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
8 1 0.01
9 93 0.98
10 1 0.01
ACGTcount: A:0.14, C:0.06, G:0.39, T:0.40
Consensus pattern (9 bp):
GTGGGATTT
Found at i:95028305 original size:7 final size:7
Alignment explanation
Indices: 95028295--95028423 Score: 59
Period size: 7 Copynumber: 17.4 Consensus size: 7
95028285 ATTTTTATAC
95028295 TAATAAA
1 TAATAAA
95028302 TAATAAA
1 TAATAAA
95028309 TAATGAAA
1 TAAT-AAA
95028317 TAATATATA
1 TAATA-A-A
95028326 TAATAAA
1 TAATAAA
**
95028333 -AGGAAGA
1 TAATAA-A
*
95028340 TAATATAGG
1 TAATA-A-A
*
95028349 GAAT-AA
1 TAATAAA
95028355 T-ATATAA
1 TAATA-AA
*
95028362 TAATATA
1 TAATAAA
* *
95028369 TGATAAG
1 TAATAAA
95028376 TAATAAAA
1 TAAT-AAA
95028384 TATATAAA
1 TA-ATAAA
*
95028392 TAATATA
1 TAATAAA
95028399 TAATGAAA
1 TAAT-AAA
95028407 T-ATAAA
1 TAATAAA
95028413 TAATACAA
1 TAATA-AA
95028421 TAA
1 TAA
95028424 ATATAAAAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
5 2 0.02
6 7 0.08
7 39 0.42
8 31 0.34
9 13 0.14
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (7 bp):
TAATAAA
Found at i:95028365 original size:10 final size:10
Alignment explanation
Indices: 95028350--95028417 Score: 70
Period size: 10 Copynumber: 6.7 Consensus size: 10
95028340 TAATATAGGG
95028350 AATAATATAT
1 AATAATATAT
95028360 AATAATATAT
1 AATAATATAT
*
95028370 GATAAGTA-AT
1 AATAA-TATAT
95028380 AA-AATATAT
1 AATAATATAT
95028389 AAATAATATAT
1 -AATAATATAT
95028400 AATGAA-ATAT
1 AAT-AATATAT
95028410 AAATAATA
1 -AATAATA
95028418 CAATAAATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
8 2 0.04
9 4 0.08
10 28 0.57
11 15 0.31
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (10 bp):
AATAATATAT
Found at i:95028409 original size:21 final size:20
Alignment explanation
Indices: 95028350--95028438 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
95028340 TAATATAGGG
95028350 AATAATATATAAT-AATATA
1 AATAATATATAATAAATATA
*
95028369 TGATAAGTA-ATAA-AATATATA
1 -AATAA-TATATAATAA-ATATA
95028390 AATAATATATAATGAAATATA
1 AATAATATATAAT-AAATATA
*
95028411 AAT-A-ATACAATAAATATA
1 AATAATATATAATAAATATA
*
95028429 AAAAATATAT
1 AATAATATAT
95028439 CCATGGTATT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
18 9 0.16
19 9 0.16
20 21 0.38
21 15 0.27
22 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
AATAATATATAATAAATATA
Found at i:95028412 original size:30 final size:29
Alignment explanation
Indices: 95028353--95028437 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
95028343 TATAGGGAAT
* *
95028353 AATATAT-AATAATATATGATAAGTAATAA
1 AATATATAAATAATATATAATAAAT-ATAA
95028382 AATATATAAATAATATATAATGAAATAT-A
1 AATATATAAATAATATATAAT-AAATATAA
*
95028411 AATA-ATACAATAA-ATATAAAAAATATA
1 AATATATA-AATAATATATAATAAATATA
95028438 TCCATGGTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 6 0.12
28 9 0.18
29 17 0.35
30 14 0.29
31 3 0.06
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (29 bp):
AATATATAAATAATATATAATAAATATAA
Found at i:95028417 original size:37 final size:42
Alignment explanation
Indices: 95028350--95028438 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 42
95028340 TAATATAGGG
*
95028350 AATAATATATAATAATATATGATAAGTAATA-AA-ATATATA
1 AATAATATATAATAATATATGATAAGTAATACAATAAATATA
95028390 AATAATATATAATGAA-ATAT-A-AA-TAATACAATAAATATA
1 AATAATATATAAT-AATATATGATAAGTAATACAATAAATATA
*
95028429 AAAAATATAT
1 AATAATATAT
95028439 CCATGGTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
37 5 0.11
38 4 0.09
39 16 0.36
40 17 0.39
41 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (42 bp):
AATAATATATAATAATATATGATAAGTAATACAATAAATATA
Found at i:95028425 original size:18 final size:19
Alignment explanation
Indices: 95028385--95028435 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
95028375 GTAATAAAAT
*
95028385 ATATAAATAATATATAATGAA
1 ATATAAAT-A-ATACAATGAA
95028406 ATATAAATAATACAAT-AA
1 ATATAAATAATACAATGAA
*
95028424 ATATAAAAAATA
1 ATATAAATAATA
95028436 TATCCATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 13 0.46
19 6 0.21
20 1 0.04
21 8 0.29
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
ATATAAATAATACAATGAA
Found at i:95028429 original size:14 final size:13
Alignment explanation
Indices: 95028350--95028435 Score: 54
Period size: 14 Copynumber: 6.3 Consensus size: 13
95028340 TAATATAGGG
95028350 AATAATATATAAT-
1 AATAA-ATATAATA
*
95028363 AATATATGATAAGT-
1 AATAAAT-ATAA-TA
95028377 AATAAA-ATATATA
1 AATAAATATA-ATA
95028390 AATAATATATAATGA
1 AATAA-ATATAAT-A
95028405 AATATAA-ATAATA
1 AATA-AATATAATA
*
95028418 CAATAAATATAAAA
1 -AATAAATATAATA
95028432 AATA
1 AATA
95028436 TATCCATGGT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
12 6 0.10
13 21 0.35
14 23 0.38
15 9 0.15
16 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (13 bp):
AATAAATATAATA
Found at i:95030215 original size:15 final size:16
Alignment explanation
Indices: 95030186--95030219 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
95030176 AACAGAGAAG
95030186 CCAAGAATAAAGAAAT
1 CCAAGAATAAAGAAAT
95030202 CCAA-AATAAAGAAAT
1 CCAAGAATAAAGAAAT
95030217 CCA
1 CCA
95030220 TGATACGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
CCAAGAATAAAGAAAT
Found at i:95030333 original size:19 final size:19
Alignment explanation
Indices: 95030309--95030347 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
95030299 TTTTCAAAGA
95030309 AAAAAAAATCCAGAATAAC
1 AAAAAAAATCCAGAATAAC
95030328 AAAAAAAATCCAGAATAAC
1 AAAAAAAATCCAGAATAAC
95030347 A
1 A
95030348 TCATTCCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.05, T:0.10
Consensus pattern (19 bp):
AAAAAAAATCCAGAATAAC
Found at i:95030580 original size:12 final size:12
Alignment explanation
Indices: 95030563--95030591 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
95030553 GTCTATTTCC
95030563 TTATTTCAAACA
1 TTATTTCAAACA
95030575 TTATTTCAAACA
1 TTATTTCAAACA
95030587 TTATT
1 TTATT
95030592 CCTTTAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (12 bp):
TTATTTCAAACA
Found at i:95035913 original size:15 final size:16
Alignment explanation
Indices: 95035890--95035923 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
95035880 AACAGAGAAG
95035890 CCAAGAATAAAGAAAT
1 CCAAGAATAAAGAAAT
95035906 CCAA-AATAAAGAAAT
1 CCAAGAATAAAGAAAT
95035921 CCA
1 CCA
95035924 TGATACGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
CCAAGAATAAAGAAAT
Found at i:95038093 original size:49 final size:49
Alignment explanation
Indices: 95038037--95038232 Score: 205
Period size: 50 Copynumber: 3.9 Consensus size: 49
95038027 TAGCCAAAGC
* *
95038037 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
95038086 TATCTGGTACACGTAGTAGGCTGCACTTAGTACTACACACT-TGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA-TGTGACC-AAT
* * * * * *
95038136 CATCTGATACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* ** * *
95038187 TATCGGGTACGTATAGTAGCCTGCGCTTAGTACTACACATGCGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
95038233 TCACAATATA
Statistics
Matches: 119, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
49 40 0.34
50 44 0.37
51 35 0.29
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Done.