Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 72 of 208
Found at i:21041308 original size:6 final size:6
Alignment explanation
Indices: 21041279--21041353 Score: 114
Period size: 6 Copynumber: 12.0 Consensus size: 6
21041269 CCATGCAATA
*
21041279 CCCATT CCAATTT CCCATTT CCCATT CCCATT CCCATT CCCATT CCCATT
1 CCCATT CCCA-TT CCCA-TT CCCATT CCCATT CCCATT CCCATT CCCATT
21041329 CCCATTT CCCATT CCCATT CCCATT
1 CCCA-TT CCCATT CCCATT CCCATT
21041354 ATCAACAATA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
6 47 0.72
7 18 0.28
ACGTcount: A:0.17, C:0.47, G:0.00, T:0.36
Consensus pattern (6 bp):
CCCATT
Found at i:21041347 original size:37 final size:38
Alignment explanation
Indices: 21041254--21041353 Score: 141
Period size: 37 Copynumber: 2.7 Consensus size: 38
21041244 CGTTCCCTCC
* * * *
21041254 TCCCATTTCCTATTCCCA-TGCAATACCCATTCCAATT
1 TCCCATTTCCCATTCCCATTCCCATTCCCATTCCAATT
*
21041291 TCCCATTTCCCATTCCCATTCCCATTCCCATTCCCA-T
1 TCCCATTTCCCATTCCCATTCCCATTCCCATTCCAATT
21041328 TCCCATTTCCCATTCCCATTCCCATT
1 TCCCATTTCCCATTCCCATTCCCATT
21041354 ATCAACAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
37 44 0.77
38 13 0.23
ACGTcount: A:0.19, C:0.44, G:0.01, T:0.36
Consensus pattern (38 bp):
TCCCATTTCCCATTCCCATTCCCATTCCCATTCCAATT
Found at i:21043884 original size:21 final size:20
Alignment explanation
Indices: 21043860--21043922 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
21043850 GAACAAAGTA
*
21043860 AAAAAGAGGGGAGAAACTAGC
1 AAAAAGA-GGGAGAAACCAGC
* *
21043881 AAAAACGAGGGACAAACCAGT
1 AAAAA-GAGGGAGAAACCAGC
*
21043902 AAACA-AGGGAGAAACCAGC
1 AAAAAGAGGGAGAAACCAGC
21043921 AA
1 AA
21043923 GAACGAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.54, C:0.16, G:0.27, T:0.03
Consensus pattern (20 bp):
AAAAAGAGGGAGAAACCAGC
Found at i:21043910 original size:19 final size:19
Alignment explanation
Indices: 21043883--21043919 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21043873 AAACTAGCAA
*
21043883 AAACGAGGGACAAACCAGT
1 AAACAAGGGACAAACCAGT
*
21043902 AAACAAGGGAGAAACCAG
1 AAACAAGGGACAAACCAG
21043920 CAAGAACGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.19, G:0.27, T:0.03
Consensus pattern (19 bp):
AAACAAGGGACAAACCAGT
Found at i:21047319 original size:12 final size:12
Alignment explanation
Indices: 21047304--21047333 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21047294 TTCCATTTGT
21047304 TGTTTAGACAAA
1 TGTTTAGACAAA
*
21047316 TGTTTAGACAAG
1 TGTTTAGACAAA
21047328 TGTTTA
1 TGTTTA
21047334 AACATCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (12 bp):
TGTTTAGACAAA
Found at i:21047657 original size:22 final size:23
Alignment explanation
Indices: 21047613--21047663 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
21047603 ACTTTCCAAT
*
21047613 AAAAA-ACCAAATATAAGAGTAC
1 AAAAATACCAAATAAAAGAGTAC
*
21047635 AAAAATACCAAGTAAAAGA-TAC
1 AAAAATACCAAATAAAAGAGTAC
*
21047657 ACAAATA
1 AAAAATA
21047664 ACCAGTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.65, C:0.14, G:0.08, T:0.14
Consensus pattern (23 bp):
AAAAATACCAAATAAAAGAGTAC
Found at i:21047667 original size:23 final size:24
Alignment explanation
Indices: 21047613--21047675 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
21047603 ACTTTCCAAT
* *
21047613 AAAA-AACCAAATATAAGAGTACA
1 AAAATAACCAAGTAAAAGAGTACA
21047636 AAAAT-ACCAAGTAAAAGA-TACA
1 AAAATAACCAAGTAAAAGAGTACA
*
21047658 CAAATAACC-AGTCAAAAG
1 AAAATAACCAAGT-AAAAG
21047676 CTCTCAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 11 0.32
23 23 0.68
ACGTcount: A:0.62, C:0.16, G:0.10, T:0.13
Consensus pattern (24 bp):
AAAATAACCAAGTAAAAGAGTACA
Found at i:21053264 original size:6 final size:7
Alignment explanation
Indices: 21053249--21053278 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
21053239 AATTGTTAGA
21053249 TTTTATT
1 TTTTATT
21053256 TTTTATT
1 TTTTATT
21053263 TTTTATT
1 TTTTATT
21053270 TTTATATT
1 TTT-TATT
21053278 T
1 T
21053279 CACTCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTATT
Found at i:21053892 original size:18 final size:19
Alignment explanation
Indices: 21053866--21053901 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21053856 GGATTTTAAT
*
21053866 TAAATATATTA-TAAAAAG
1 TAAAAATATTACTAAAAAG
21053884 TAAAAATATTACTAAAAA
1 TAAAAATATTACTAAAAA
21053902 TGGTAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
TAAAAATATTACTAAAAAG
Found at i:21055384 original size:23 final size:23
Alignment explanation
Indices: 21055353--21055428 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 23
21055343 CCTTAAATAA
*
21055353 TAATAATAAATATTATTTAAATT
1 TAATTATAAATATTATTTAAATT
*
21055376 TAATTATAAA-A-TATATAAAATAT
1 TAATTATAAATATTAT-TTAAAT-T
* * *
21055399 CAATTAAAAATATTTTTTAATATT
1 TAATTATAAATATTATTTAA-ATT
*
21055423 TTATTA
1 TAATTA
21055429 ATTTTTGCAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 3 0.08
22 6 0.15
23 18 0.45
24 9 0.22
25 4 0.10
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATTATAAATATTATTTAAATT
Found at i:21056303 original size:19 final size:19
Alignment explanation
Indices: 21056275--21056314 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
21056265 CTTAGAGAAT
*
21056275 TTTCAGGAGAATTCTTATC
1 TTTCAAGAGAATTCTTATC
21056294 TTTCAAGAGAATTCTTATC
1 TTTCAAGAGAATTCTTATC
21056313 TT
1 TT
21056315 AAGTTCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (19 bp):
TTTCAAGAGAATTCTTATC
Found at i:21058698 original size:16 final size:15
Alignment explanation
Indices: 21058673--21058702 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21058663 TTCTCAAAAT
21058673 ATTAATTAATTAATA
1 ATTAATTAATTAATA
21058688 ATTATATTAATTAAT
1 ATTA-ATTAATTAAT
21058703 TTTACACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAATTAATTAATA
Found at i:21059422 original size:35 final size:36
Alignment explanation
Indices: 21059341--21059431 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 36
21059331 CGGCATAAGT
* *
21059341 GTATATATATTATAAATATTTAAAGTTAAAAAATATA
1 GTATATATATTAT-AATATTAAAACTTAAAAAATATA
* **
21059378 TTATA-ATATTATAATATTAAAACTTAAAAGTTA-A
1 GTATATATATTATAATATTAAAACTTAAAAAATATA
*
21059412 GTATATATATTATTATATTA
1 GTATATATATTATAATATTA
21059432 TAATGATAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
34 5 0.11
35 30 0.65
36 7 0.15
37 4 0.09
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (36 bp):
GTATATATATTATAATATTAAAACTTAAAAAATATA
Found at i:21059453 original size:6 final size:6
Alignment explanation
Indices: 21059444--21059522 Score: 51
Period size: 6 Copynumber: 13.3 Consensus size: 6
21059434 ATGATAAGGT
** * *
21059444 AAAAGA AAAAGA AAAAGA AAAAGA AGGAGA GAAAG- AAACGA AACAGAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA-A-AGA
21059493 AGGAAAG- AAAA-A AAAAG- AAAA-A AAAAGA AA
1 A--AAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
21059523 GAAAGAAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
5 18 0.32
6 29 0.52
7 2 0.04
8 5 0.09
9 1 0.02
10 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:21059493 original size:17 final size:16
Alignment explanation
Indices: 21059471--21059529 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 16
21059461 AAAAAGAAGG
21059471 AGAGAAAGAAACGAAAC
1 AGAGAAAGAAA-GAAAC
*
21059488 AGAGAAGGAAAGAAA-
1 AGAGAAAGAAAGAAAC
*
21059503 A-AAAAAGAAA-AAA-
1 AGAGAAAGAAAGAAAC
*
21059516 AAAGAAAGAAAGAA
1 AGAGAAAGAAAGAA
21059530 GGAGAAAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 4 0.11
14 15 0.42
15 3 0.08
16 4 0.11
17 10 0.28
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAGAAAGAAAGAAAC
Found at i:21059511 original size:10 final size:10
Alignment explanation
Indices: 21059496--21059522 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
21059486 ACAGAGAAGG
21059496 AAAGAAAAAA
1 AAAGAAAAAA
21059506 AAAGAAAAAA
1 AAAGAAAAAA
21059516 AAAGAAA
1 AAAGAAA
21059523 GAAAGAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:21059523 original size:4 final size:4
Alignment explanation
Indices: 21059463--21059529 Score: 52
Period size: 4 Copynumber: 17.5 Consensus size: 4
21059453 AGAAAAAGAA
* * * * *
21059463 AAAG AAGG AGAG AAAG AAACG AAAC AGAG AAGG AAAG AAA- AAA- AAAG
1 AAAG AAAG AAAG AAAG AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AAAG
21059510 AAA- AAA- AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AA
21059530 GGAGAAAAGT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
3 12 0.24
4 34 0.68
5 4 0.08
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:21060213 original size:24 final size:24
Alignment explanation
Indices: 21060181--21060238 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
21060171 GTGTCTTACA
21060181 ATTGAAATTGATTG-ATTTAGTATGTG
1 ATTG-AATTGATTGAATTTA-TAT-TG
*
21060207 A-TGAATTTATTGAATTTATATTG
1 ATTGAATTGATTGAATTTATATTG
21060230 ATTGAATTG
1 ATTGAATTG
21060239 GTATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 3 0.11
24 17 0.61
25 7 0.25
26 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (24 bp):
ATTGAATTGATTGAATTTATATTG
Found at i:21063059 original size:22 final size:22
Alignment explanation
Indices: 21063000--21063082 Score: 112
Period size: 22 Copynumber: 3.8 Consensus size: 22
21062990 GATGTGTTTC
* **
21063000 GAGAGCTTAGTACGTGAAACAT
1 GAGAGCTTAGTACGTTAGCCAT
21063022 GAGAGCTTAGTACGTTAGCCAT
1 GAGAGCTTAGTACGTTAGCCAT
21063044 GAGAGCTTAGTACGTTAGCCAT
1 GAGAGCTTAGTACGTTAGCCAT
* * *
21063066 GAGGGTTTAGTTCGTTA
1 GAGAGCTTAGTACGTTA
21063083 AACCCTATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (22 bp):
GAGAGCTTAGTACGTTAGCCAT
Found at i:21066138 original size:35 final size:36
Alignment explanation
Indices: 21066071--21066162 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 36
21066061 CAGCATAAGT
* * *
21066071 GTATATATATTATAAATATTTAAAGTTAAAAATATATA
1 GTATACATATTAT-AATATTAAAACTTAAAAATATA-A
* *
21066109 TTATA-ATATTATAATATTAAAACTT-AAAATTTAA
1 GTATACATATTATAATATTAAAACTTAAAAATATAA
*
21066143 GTATACATATTATTATATTA
1 GTATACATATTATAATATTA
21066163 TAATGATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
34 5 0.11
35 20 0.43
36 11 0.23
37 7 0.15
38 4 0.09
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (36 bp):
GTATACATATTATAATATTAAAACTTAAAAATATAA
Found at i:21066243 original size:4 final size:4
Alignment explanation
Indices: 21066176--21066269 Score: 63
Period size: 4 Copynumber: 23.5 Consensus size: 4
21066166 TGATAAAGTA
* * * *
21066176 AAAG AAA- AAAG AAAT AGAA- AAAG AATG AGAG AAAG AAAC AAA- ACAGAG
1 AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG AAAG A-A-AG
*
21066224 AAGG AAAG AAATG AAAG AAAG AAAAG AAA- AAA- AAAG AAAG AAAG AA
1 AAAG AAAG AAA-G AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AA
21066270 GGAGAAAAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
3 12 0.16
4 48 0.66
5 12 0.16
6 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:21066275 original size:14 final size:14
Alignment explanation
Indices: 21066178--21066276 Score: 57
Period size: 13 Copynumber: 7.4 Consensus size: 14
21066168 ATAAAGTAAA
*
21066178 AGAAA-AAAGAAAT
1 AGAAAGAAAGAAAG
21066191 AG-AA-AAAGAATGAG
1 AGAAAGAAAGAA--AG
*
21066205 AGAAAGAAACAAA-
1 AGAAAGAAAGAAAG
* * *
21066218 ACAGAGAAGGAAAG
1 AGAAAGAAAGAAAG
*
21066232 A-AATGAAAGAAAG
1 AGAAAGAAAGAAAG
* *
21066245 A-AAAGAAAAAAAA
1 AGAAAGAAAGAAAG
*
21066258 AGAAAGAAAGAAGG
1 AGAAAGAAAGAAAG
21066272 AGAAA
1 AGAAA
21066277 AGTTGGGGTT
Statistics
Matches: 65, Mismatches: 15, Indels: 11
0.71 0.16 0.12
Matches are distributed among these distances:
12 8 0.12
13 31 0.48
14 19 0.29
15 2 0.03
16 5 0.08
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.03
Consensus pattern (14 bp):
AGAAAGAAAGAAAG
Found at i:21066278 original size:19 final size:19
Alignment explanation
Indices: 21066170--21066266 Score: 65
Period size: 19 Copynumber: 5.1 Consensus size: 19
21066160 TTATAATGAT
* *
21066170 AAAGTAAAAGAAA-AAAGA
1 AAAGAAAAAAAAAGAAAGA
* * *
21066188 AATAGAAAAAGAATGAGAG-
1 AA-AGAAAAAAAAAGAAAGA
* *
21066207 AAAGAAACAAAACAGAGAAGG
1 AAAGAAA-AAAAAAGA-AAGA
**
21066228 AAAG-AAATGAAAGAAAGA
1 AAAGAAAAAAAAAGAAAGA
21066246 AAAGAAAAAAAAAGAAAGA
1 AAAGAAAAAAAAAGAAAGA
21066265 AA
1 AA
21066267 GAAGGAGAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
18 14 0.23
19 35 0.58
20 7 0.12
21 4 0.07
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (19 bp):
AAAGAAAAAAAAAGAAAGA
Found at i:21066814 original size:24 final size:24
Alignment explanation
Indices: 21066786--21066832 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
21066776 ATTGAAATGA
21066786 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
21066810 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
21066833 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:21067032 original size:41 final size:41
Alignment explanation
Indices: 21066985--21067122 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 41
21066975 TTCGATTTCG
*
21066985 ATTCGATGAGACACTGGGTATCAATTTATTACTTCGGATTA
1 ATTCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTA
* * * * *
21067026 ATTCGATGAGGCACTAGGTGCCAA--T-TTACTTTGGTTTA
1 ATTCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTA
* *
21067064 A-CCGATGAGACACTGGGTGTCAATTTATTACTTCGAATT-
1 ATTCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTA
* *
21067103 ATTCGATGAGGCATTGGGTG
1 ATTCGATGAGACACTGGGTG
21067123 CCAAACTGAT
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
37 18 0.23
38 12 0.16
39 3 0.04
40 24 0.31
41 20 0.26
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (41 bp):
ATTCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTA
Found at i:21067088 original size:37 final size:38
Alignment explanation
Indices: 21066988--21067090 Score: 109
Period size: 37 Copynumber: 2.7 Consensus size: 38
21066978 GATTTCGATT
* *
21066988 CGATGAGACACTGGGTATCAATTTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAA--T-TTACTTCGGATTAATC
* * * * *
21067029 CGATGAGGCACTAGGTGCCAATTTACTTTGGTTTAA-C
1 CGATGAGACACTGGGTGTCAATTTACTTCGGATTAATC
21067066 CGATGAGACACTGGGTGTCAATTTA
1 CGATGAGACACTGGGTGTCAATTTA
21067091 TTACTTCGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 22 0.42
38 12 0.23
39 1 0.02
41 17 0.33
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATTTACTTCGGATTAATC
Found at i:21071094 original size:16 final size:19
Alignment explanation
Indices: 21071067--21071104 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
21071057 ATTAATTAGA
21071067 TAAATGAATTTT-TCAA-T
1 TAAATGAATTTTCTCAACT
21071084 TAAAT-AATTTTCTCAACT
1 TAAATGAATTTTCTCAACT
21071102 TAA
1 TAA
21071105 TTCTAATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 9 0.47
18 4 0.21
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (19 bp):
TAAATGAATTTTCTCAACT
Found at i:21078499 original size:161 final size:161
Alignment explanation
Indices: 21078234--21078555 Score: 617
Period size: 161 Copynumber: 2.0 Consensus size: 161
21078224 AAGTTAGCTG
21078234 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
1 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
*
21078299 GCAAGAAGAAAATTAAAGCCGAAGCTTTAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
66 GCAAGAAGAAAATTAAAGCCGAAGCTTCAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
*
21078364 AAGAATGAAAGAGATGAAGCTTATTTTCTTC
131 AAGAATGAAAGAGATAAAGCTTATTTTCTTC
*
21078395 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGGGTAGGAAAATCACTTACAT
1 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
21078460 GCAAGAAGAAAATTAAAGCCGAAGCTTCAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
66 GCAAGAAGAAAATTAAAGCCGAAGCTTCAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
21078525 AAGAATGAAAGAGATAAAGCTTATTTTCTTC
131 AAGAATGAAAGAGATAAAGCTTATTTTCTTC
21078556 TTTTGTTTTA
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 158 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (161 bp):
AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
GCAAGAAGAAAATTAAAGCCGAAGCTTCAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
AAGAATGAAAGAGATAAAGCTTATTTTCTTC
Found at i:21079759 original size:12 final size:12
Alignment explanation
Indices: 21079742--21079785 Score: 63
Period size: 11 Copynumber: 3.7 Consensus size: 12
21079732 GTTAAATAGA
21079742 AATTTTTTTAAT
1 AATTTTTTTAAT
21079754 AATTTTTTT-AT
1 AATTTTTTTAAT
*
21079765 AATTTTTTTATT
1 AATTTTTTTAAT
21079777 ATATTTTTT
1 A-ATTTTTT
21079786 CTTTTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.38
12 11 0.38
13 7 0.24
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
AATTTTTTTAAT
Found at i:21081699 original size:23 final size:23
Alignment explanation
Indices: 21081672--21081733 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
21081662 TTTAATTTAA
**
21081672 TATTTAATAATTTCATATATTTT
1 TATTTAATAATTTCATATATAAT
* *
21081695 TATTTACTAAAATTTTATATATAAT
1 TATTTA--ATAATTTCATATATAAT
21081720 TATCTTAATAATTT
1 TAT-TTAATAATTT
21081734 TTTATGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 6 0.19
24 6 0.19
25 16 0.52
26 3 0.10
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTAATAATTTCATATATAAT
Found at i:21082775 original size:19 final size:19
Alignment explanation
Indices: 21082751--21082804 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
21082741 AATCTTCAAG
21082751 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
21082770 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21082789 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
21082805 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21082781 original size:36 final size:36
Alignment explanation
Indices: 21082740--21082811 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
21082730 TATGAAAACA
21082740 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
21082776 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
21082812 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:21082795 original size:38 final size:40
Alignment explanation
Indices: 21082751--21082827 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
21082741 AATCTTCAAG
21082751 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
21082789 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
21082828 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:21082837 original size:22 final size:22
Alignment explanation
Indices: 21082796--21082841 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
21082786 TATGATATGC
*
21082796 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
21082819 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
21082840 AA
1 AA
21082842 ATACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:21082840 original size:21 final size:23
Alignment explanation
Indices: 21082764--21082841 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 23
21082754 ATGCAATCTT
*
21082764 AGATATG-ATATGTAATCTT---
1 AGATATGAATTTGTAATCTTAGA
* *
21082783 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
21082805 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
21082827 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
21082842 ATACCTTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 18 0.37
21 9 0.18
22 11 0.22
23 11 0.22
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:21083055 original size:23 final size:23
Alignment explanation
Indices: 21083011--21083055 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
21083001 TCTTATTTTG
* *
21083011 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
21083034 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
21083056 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:21083284 original size:3 final size:3
Alignment explanation
Indices: 21083276--21083314 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
21083266 ATCTTGTATC
*
21083276 ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT AT
21083315 ATTCATGCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:21083298 original size:16 final size:16
Alignment explanation
Indices: 21083277--21083314 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
21083267 TCTTGTATCA
21083277 TTATTATTATTATTAT
1 TTATTATTATTATTAT
21083293 TTATTATTATTATTAT
1 TTATTATTATTATTAT
21083309 TT-TTAT
1 TTATTAT
21083315 ATTCATGCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:21083614 original size:2 final size:2
Alignment explanation
Indices: 21083603--21083644 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
21083593 ACACATATGT
* *
21083603 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TG TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21083644 T
1 T
21083645 TTTTCTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21084897 original size:17 final size:16
Alignment explanation
Indices: 21084875--21084910 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
21084865 AATCGATGAA
21084875 TTATTTTTAAATATTTT
1 TTATTTTTAAAT-TTTT
*
21084892 TTATTTTTATATTTTT
1 TTATTTTTAAATTTTT
21084908 TTA
1 TTA
21084911 ATAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTTTAAATTTTT
Found at i:21084905 original size:15 final size:16
Alignment explanation
Indices: 21084875--21084908 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
21084865 AATCGATGAA
21084875 TTATTTTTAAATATTTT
1 TTATTTTT-AATATTTT
21084892 TTATTTTT-ATATTTT
1 TTATTTTTAATATTTT
21084907 TT
1 TT
21084909 TAATAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTTAATATTTT
Found at i:21086392 original size:14 final size:15
Alignment explanation
Indices: 21086361--21086393 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21086351 AAGTTACATG
21086361 ATGTCATAAGCTTAT
1 ATGTCATAAGCTTAT
*
21086376 ATGTCATAATC-TAT
1 ATGTCATAAGCTTAT
21086390 ATGT
1 ATGT
21086394 TAAATTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (15 bp):
ATGTCATAAGCTTAT
Found at i:21089219 original size:12 final size:12
Alignment explanation
Indices: 21089202--21089233 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
21089192 TATTAAAATG
21089202 AATTAAAAACAA
1 AATTAAAAACAA
21089214 AATTAAAAACAA
1 AATTAAAAACAA
21089226 AATTAAAA
1 AATTAAAA
21089234 GCCAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (12 bp):
AATTAAAAACAA
Found at i:21090121 original size:51 final size:49
Alignment explanation
Indices: 21089953--21090139 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 49
21089943 AGTGAAAGTG
* * *
21089953 ATGGTCACGTGTGTATTACTATGTGCAGGCTACTACGTGTACAGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC--GAATGGT
* * * * *
21090004 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAATGGT
* * * ** * *
21090053 TTCGATCACGTAAGTAGTACTATGTGCAGGCTGCTCCGTGTATCGAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAATGGT
21090104 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
21090140 TGTGAACCGA
Statistics
Matches: 104, Mismatches: 28, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
49 4 0.04
50 34 0.33
51 65 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGAATGGT
Found at i:21090201 original size:45 final size:45
Alignment explanation
Indices: 21090145--21090239 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
21090135 TACTATGTGA
* * *
21090145 ACCGAACATCATTGATTAGTAAAGTGGTTGTTATGTGCTGATTTC
1 ACCGAACATCATTGATTAATAAAGTGATTGATATGTGCTGATTTC
* * * *
21090190 ACCGGACATCATTGATTAATAAGGTGATTGATATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGATTGATATGTGCTGATTTC
21090235 ACCGA
1 ACCGA
21090240 TTATCTGTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGATTGATATGTGCTGATTTC
Found at i:21092884 original size:47 final size:47
Alignment explanation
Indices: 21092770--21092889 Score: 116
Period size: 47 Copynumber: 2.6 Consensus size: 47
21092760 ATTGACGAAA
* * * * * * *
21092770 AAGACCATAGTTGGACCATGACAACATGTGATATGTGATTTCTGTAT
1 AAGACCATAGCTGGGCTATGGCATCATGTGATATGTGACTACTGTAT
* * * *
21092817 AAGACCATATCCGGGATATGGCATCAGTGTGATATGTG-CTACTGTGT
1 AAGACCATAGCTGGGCTATGGCATCA-TGTGATATGTGACTACTGTAT
*
21092864 AAGACCATAGCTGGGCTATGGAATCA
1 AAGACCATAGCTGGGCTATGGCATCA
21092890 ATATATAAAT
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
47 46 0.81
48 11 0.19
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (47 bp):
AAGACCATAGCTGGGCTATGGCATCATGTGATATGTGACTACTGTAT
Found at i:21095827 original size:51 final size:51
Alignment explanation
Indices: 21095761--21095896 Score: 139
Period size: 51 Copynumber: 2.7 Consensus size: 51
21095751 GGTCGCATGT
* * * *
21095761 GTAGTACTATATGCAGGCTACTATGCGTACCGGATAGT-TTCGATCACGTAA
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAAT-GATCACATAA
* * * * * **
21095812 GTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACATGT
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGATCACATAA
* *
21095863 GTAGTACTATGTGCAGGCTACTATGTGAACCGAA
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGAA
21095897 CATAATTGAT
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
51 69 0.99
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (51 bp):
GTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGATCACATAA
Found at i:21096395 original size:9 final size:10
Alignment explanation
Indices: 21096373--21096397 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21096363 CTGACTTTGG
21096373 AAAATTGTTA
1 AAAATTGTTA
21096383 AAAATTGTTA
1 AAAATTGTTA
21096393 AAAAT
1 AAAAT
21096398 ATGGGATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAAATTGTTA
Found at i:21100870 original size:14 final size:14
Alignment explanation
Indices: 21100851--21100880 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21100841 TAGAAATGCA
21100851 AATTACAGCCAAAC
1 AATTACAGCCAAAC
*
21100865 AATTACAGGCAAAC
1 AATTACAGCCAAAC
21100879 AA
1 AA
21100881 CCAAACCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.23, G:0.10, T:0.13
Consensus pattern (14 bp):
AATTACAGCCAAAC
Found at i:21112108 original size:30 final size:32
Alignment explanation
Indices: 21112054--21112127 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 32
21112044 TATATATTGC
* *
21112054 CGAATTGATTTATATGTAGATATATACATTACT
1 CGAATTGATTTGTATATAGATATATACATT-CT
* *
21112087 -GAATTGATTTGTATAT-G-TATATATATTGT
1 CGAATTGATTTGTATATAGATATATACATTCT
21112116 CGAATTGATTTG
1 CGAATTGATTTG
21112128 AGATCCCGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 1 0.03
30 20 0.56
31 1 0.03
32 14 0.39
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.46
Consensus pattern (32 bp):
CGAATTGATTTGTATATAGATATATACATTCT
Found at i:21112193 original size:48 final size:48
Alignment explanation
Indices: 21112122--21112340 Score: 321
Period size: 48 Copynumber: 4.6 Consensus size: 48
21112112 TTGTCGAATT
*
21112122 GATTTGAGATCCCGTATAAGACCATATCTAGGATATGGCATCGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
* *
21112170 GATTTGAGATCCCGTATAAGACCATATCTGGGGTATGGCATTGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
** * *
21112218 GATTTGAGATATCGTATAAGACCATATCTGGGATATGGCATCGACATT
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
* * * *
21112266 GATTTGAGATCCCATATAAGACCATATCTGGGATATGACATTGGCATT
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
**
21112314 GATTTGAGATTTCGTATAAGACCATAT
1 GATTTGAGATCCCGTATAAGACCATAT
21112341 AAGGATATGA
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 153 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (48 bp):
GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
Found at i:21112286 original size:96 final size:96
Alignment explanation
Indices: 21112122--21112356 Score: 355
Period size: 96 Copynumber: 2.5 Consensus size: 96
21112112 TTGTCGAATT
** * *
21112122 GATTTGAGATCCCGTATAAGACCATATCTAGGATATGGCATCGGCATCGATTTGAGATCCCGTAT
1 GATTTGAGATATCGTATAAGACCATATCTAGGATATGGCATCGACATCGATTTGAGATCCCATAT
* *
21112187 AAGACCATATCTGGGGTATGGCATTGGCATC
66 AAGACCATATCTGGGATATGACATTGGCATC
* *
21112218 GATTTGAGATATCGTATAAGACCATATCTGGGATATGGCATCGACATTGATTTGAGATCCCATAT
1 GATTTGAGATATCGTATAAGACCATATCTAGGATATGGCATCGACATCGATTTGAGATCCCATAT
*
21112283 AAGACCATATCTGGGATATGACATTGGCATT
66 AAGACCATATCTGGGATATGACATTGGCATC
* * *
21112314 GATTTGAGATTTCGTATAAGACCATAT-AAGGATATGACATCGA
1 GATTTGAGATATCGTATAAGACCATATCTAGGATATGGCATCGA
21112357 TATGAGACTT
Statistics
Matches: 126, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 13 0.10
96 113 0.90
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (96 bp):
GATTTGAGATATCGTATAAGACCATATCTAGGATATGGCATCGACATCGATTTGAGATCCCATAT
AAGACCATATCTGGGATATGACATTGGCATC
Found at i:21112375 original size:41 final size:42
Alignment explanation
Indices: 21112318--21112425 Score: 119
Period size: 41 Copynumber: 2.5 Consensus size: 42
21112308 GGCATTGATT
*
21112318 TGAGATTTCGTATAAGACCATATAAGGATA-TGACATCGATA
1 TGAGATTTCGTGTAAGACCATATAAGGATATTGACATCGATA
* ** * *
21112359 TGAGACTTCGTGTAAGACCATAGTTGGGCTATTGGCATCGATA
1 TGAGATTTCGTGTAAGACCATA-TAAGGATATTGACATCGATA
**
21112402 TGAGATTTTTATGTAAGACCATAT
1 TGAGA-TTTCGTGTAAGACCATAT
21112426 TTGGGACATA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 20 0.36
42 5 0.09
43 16 0.29
44 14 0.25
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.32
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATAAGGATATTGACATCGATA
Found at i:21132510 original size:24 final size:24
Alignment explanation
Indices: 21132482--21132544 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
21132472 GAAACCCAAC
21132482 TTACCACCAACGATAACCCTCCGT
1 TTACCACCAACGATAACCCTCCGT
21132506 TTACCACCAACGATAACCCTCCGT
1 TTACCACCAACGATAACCCTCCGT
*
21132530 TTACCACCAATGATA
1 TTACCACCAACGATA
21132545 CGCCCAAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.22
Consensus pattern (24 bp):
TTACCACCAACGATAACCCTCCGT
Found at i:21139529 original size:44 final size:44
Alignment explanation
Indices: 21139466--21139568 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
21139456 TCTGACCTAT
* * * * *
21139466 TGCAACTTCAGAGG-TATAGGATTCATCGTTTTAATCCGCTCCAC
1 TGCAACTTCAG-GGAGATAGGATTAATAGCTTCAATCCGCTCCAC
* * *
21139510 TTCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCTAC
1 TGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCCGCTCCAC
*
21139554 TGCAACTTTAGGGAG
1 TGCAACTTCAGGGAG
21139569 CTAAAGTTGG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 2 0.04
44 46 0.96
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCCGCTCCAC
Found at i:21139842 original size:72 final size:72
Alignment explanation
Indices: 21139725--21139870 Score: 166
Period size: 72 Copynumber: 2.0 Consensus size: 72
21139715 GATTCGCTGC
* * * * *
21139725 CTTCAGCTTTAATCTTTTCCACTGCAACGCCAAGGAGATAGGATTCGCCGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCCACCTTCAGCTTTAATC
21139790 CGCTCCA
66 CGCTCCA
* * * ** * *
21139797 CTTCAGTTTTAATCTATTCCACTGTAATGCCTGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCCACCTTCAGCTTTAATC
* *
21139862 TGTTCCA
66 CGCTCCA
21139869 CT
1 CT
21139871 GCAACGCCAG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (72 bp):
CTTCAGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCCACCTTCAGCTTTAATC
CGCTCCA
Found at i:21140207 original size:130 final size:128
Alignment explanation
Indices: 21139885--21140213 Score: 480
Period size: 129 Copynumber: 2.5 Consensus size: 128
21139875 CGCCAGGGAA
*
21139885 ATAAGATTCGATGTATTCGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAAC
1 ATAAGATTC-ATCT-TT-GATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAAC
** ** * * *
21139950 CTACTCCCTTGCTGCTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGCA
63 CTACTCCAATGCTGCTCAAAGAGATA-GACTGGTGGCTTAAATCTACTTCCCTACTACATTGGCA
21140015 AG
127 AG
*
21140017 ATAAGATTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
1 ATAAGATTCATCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTA
* *
21140082 CTCCAATGTTGCTCAAAGAGATA-ACTGGTGGCTTAAATCTACTTCCCTACTACATTGGGAAG
66 CTCCAATGCTGCTCAAAGAGATAGACTGGTGGCTTAAATCTACTTCCCTACTACATTGGCAAG
*
21140144 ATAAGATTCACCGTCTTTGATCTGCTTCACTACTACTTAGGGAGACAGGATCTACAATCTTCAAC
1 ATAAGATTCA---TCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAAC
21140209 CTACT
63 CTACT
21140214 TCACTACAAA
Statistics
Matches: 181, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
127 45 0.25
129 67 0.37
130 57 0.31
131 3 0.02
132 9 0.05
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (128 bp):
ATAAGATTCATCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTA
CTCCAATGCTGCTCAAAGAGATAGACTGGTGGCTTAAATCTACTTCCCTACTACATTGGCAAG
Found at i:21140407 original size:89 final size:88
Alignment explanation
Indices: 21140200--21140410 Score: 212
Period size: 89 Copynumber: 2.4 Consensus size: 88
21140190 AGGATCTACA
* * * *
21140200 ATCTTCAAC-CTACTTCACTACAAACTTAGAGAGGCAGGGCTGGTGTTTTCGATCTATTTCACTG
1 ATCTTC-ACTCTACTCCACTAC-AACTTAGGGAGGCAGGGCTGGTGTCTTCGATCTACTTCACTG
* * *
21140264 CCAGTACAGGAAGACAAGATCTGCT
64 CCAATACAAGAAGACAAGATATGCT
* * * * *
21140289 ATTTTCAGTCTACTCCGCTGTA-AACTTAGGGAGGC-GAGGCTGGTGTCTTCGATCTGCTTCGCT
1 ATCTTCACTCTACTCCAC--TACAACTTAGGGAGGCAG-GGCTGGTGTCTTCGATCTACTTCACT
*
21140352 GCCAATACAAGAAGACAAGATATGTT
63 GCCAATACAAGAAGACAAGATATGCT
* *
21140378 ATCTTCACTTTGCTCCACTACAACTTTAGGGAG
1 ATCTTCACTCTACTCCACTACAAC-TTAGGGAG
21140411 ATAAGACTTG
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
87 2 0.02
88 5 0.05
89 89 0.91
91 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (88 bp):
ATCTTCACTCTACTCCACTACAACTTAGGGAGGCAGGGCTGGTGTCTTCGATCTACTTCACTGCC
AATACAAGAAGACAAGATATGCT
Found at i:21141777 original size:11 final size:11
Alignment explanation
Indices: 21141763--21141805 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
21141753 GGGCTCTCCT
*
21141763 TTTTCTTTTCC
1 TTTTCTTTTTC
21141774 TTTTCTTTTTC
1 TTTTCTTTTTC
*
21141785 TTCTCTTTTTC
1 TTTTCTTTTTC
21141796 TTTTCTTTTT
1 TTTTCTTTTT
21141806 TCATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:21141783 original size:17 final size:17
Alignment explanation
Indices: 21141761--21141804 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
21141751 TTGGGCTCTC
21141761 CTTTTTCTTTTCCTTTT
1 CTTTTTCTTTTCCTTTT
* *
21141778 CTTTTTCTTCTCTTTTT
1 CTTTTTCTTTTCCTTTT
21141795 C-TTTTCTTTT
1 CTTTTTCTTTT
21141805 TTCATTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
CTTTTTCTTTTCCTTTT
Found at i:21141805 original size:6 final size:6
Alignment explanation
Indices: 21141761--21141805 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
21141751 TTGGGCTCTC
* *
21141761 CTTTTT C-TTTT CCTTTT CTTTTT C-TTCT CTTTTT C-TTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
21141806 TCATTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
5 14 0.42
6 19 0.58
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
CTTTTT
Found at i:21141815 original size:22 final size:22
Alignment explanation
Indices: 21141768--21141816 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
21141758 CTCCTTTTTC
* *
21141768 TTTTCCTTTTCTTTTTCTTCTC
1 TTTTCCTTTTCTTTTTCATCTA
*
21141790 TTTTTCTTTTCTTTTTTCAT-TA
1 TTTTCCTTTTC-TTTTTCATCTA
21141812 TTTTC
1 TTTTC
21141817 ATTATTTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCCTTTTCTTTTTCATCTA
Found at i:21141833 original size:9 final size:9
Alignment explanation
Indices: 21141803--21141832 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21141793 TTCTTTTCTT
21141803 TTTTCATTA
1 TTTTCATTA
21141812 TTTTCATTA
1 TTTTCATTA
21141821 TTTTCATT-
1 TTTTCATTA
21141829 TTTT
1 TTTT
21141833 TGAAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTCATTA
Found at i:21148728 original size:117 final size:117
Alignment explanation
Indices: 21148522--21148875 Score: 474
Period size: 117 Copynumber: 3.0 Consensus size: 117
21148512 TGGGTGCATT
* * * * *
21148522 TTACTTCGGACGTTCCGATGAGGTACTAGGTGTCAAATGATTACTTCGACTACGTGCCCATGAGT
1 TTACTTCGGACGTTCCAATGAGGCACTGGGTGTCAAATGATTACTTCGACTACGTGTCAATGAGT
* * *
21148587 GCTGGACATAATTTTCACTTCAGTCAACCGATGAGCGTTGGGTGCAAACTAA
66 GCTGGACACAATTTTTACTTCAGTCAACCGATGAGCGTTGGGCGCAAACTAA
*
21148639 TTACTTCGGAGGTTCCAATGAGGCACTGGGTGTCAAATGATTACTTCGACTACGTGTCAATGAGT
1 TTACTTCGGACGTTCCAATGAGGCACTGGGTGTCAAATGATTACTTCGACTACGTGTCAATGAGT
* * *
21148704 GCTAGACACAATTTTTACTTCAGTCAACCGATGAGTGTTGGGCGCAAATTAA
66 GCTGGACACAATTTTTACTTCAGTCAACCGATGAGCGTTGGGCGCAAACTAA
* * * * * *
21148756 TTACTTTGAACATTCCAATGAGGCACTGGGTGCCAAATGATTACTTCGACTACGTATCGATGAGT
1 TTACTTCGGACGTTCCAATGAGGCACTGGGTGTCAAATGATTACTTCGACTACGTGTCAATGAGT
* * * * * * *
21148821 GTTGGGCACAATTTGTACTTCGGTCATACTGATGAGCGTTGGGGGCAATCTAA
66 GCTGGACACAATTTTTACTTCAGTCA-ACCGATGAGCGTTGGGCGCAAACTAA
21148874 TT
1 TT
21148876 TTCTTCGAAA
Statistics
Matches: 207, Mismatches: 29, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
117 184 0.89
118 23 0.11
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (117 bp):
TTACTTCGGACGTTCCAATGAGGCACTGGGTGTCAAATGATTACTTCGACTACGTGTCAATGAGT
GCTGGACACAATTTTTACTTCAGTCAACCGATGAGCGTTGGGCGCAAACTAA
Found at i:21149548 original size:2 final size:2
Alignment explanation
Indices: 21149543--21149569 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21149533 TGTGCATATA
21149543 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
21149570 ATTATGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:21156877 original size:86 final size:86
Alignment explanation
Indices: 21156757--21157048 Score: 308
Period size: 86 Copynumber: 3.4 Consensus size: 86
21156747 ACGCCGCTAA
* * *
21156757 CTTTAGCGGCG-TTTATGTGAAAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTA-TA
1 CTTTAGCGGCGCTTTA-GT-CAAAAACGCCGCTAAAGATCGTGACCTTTAGCGGCGC-TTTAGCA
21156820 ACAAACGCCGCTAAAGAACATGAC
63 ACAAACGCCGCTAAAGAACATGAC
* * *
21156844 CTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGATCGTGACCTTTAGCGGCACTTTAGCCAA-
1 CTTTAGCGGCGCTTTAGTCAAAAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAG-CAAC
* * * *
21156908 AAACGTCGCTAAAGATCGTGAT
65 AAACGCCGCTAAAGAACATGAC
* * * * *
21156930 CTTTAGCGGCGCTTTAGAT-ACAAACGTCGCTAAAGATCGTGAGCTTTAGCGACGCTTTAGCCAC
1 CTTTAGCGGCGCTTTAG-TCAAAAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAGCAAC
* * *
21156994 AAACGCCACTAAAGAATA-AAC
65 AAACGCCGCTAAAGAACATGAC
* *
21157015 CTTTAGTGACGCTTCTAG-CAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTT-TAGTCAAAAACGCCGCTAAA
21157049 AACATAAGCT
Statistics
Matches: 171, Mismatches: 27, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
85 32 0.19
86 120 0.70
87 16 0.09
88 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTAGTCAAAAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAGCAACA
AACGCCGCTAAAGAACATGAC
Found at i:21156988 original size:43 final size:43
Alignment explanation
Indices: 21156779--21157008 Score: 275
Period size: 43 Copynumber: 5.3 Consensus size: 43
21156769 TTATGTGAAA
* *
21156779 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTT-TATAAC
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAGAT-AC
* * *
21156822 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTG-TCAC
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAGAT-AC
* ** *
21156865 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCACTTTAGCCAA
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAGATAC
* *
21156908 AAACGTCGCTAAAGATCGTGATCTTTAGCGGCGCTTTAGATAC
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAGATAC
* * * **
21156951 AAACGTCGCTAAAGATCGTGAGCTTTAGCGACGCTTTAGCCAC
1 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAGATAC
*
21156994 AAACGCCACTAAAGA
1 AAACGCCGCTAAAGA
21157009 ATAAACCTTT
Statistics
Matches: 164, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
43 164 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAGATAC
Found at i:21157061 original size:42 final size:42
Alignment explanation
Indices: 21156971--21157061 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
21156961 AAAGATCGTG
* *
21156971 AGCTTTAGCGACGCTTTAGCCACAAACGCCACTAAAGAATAA
1 AGCTTTAGCGACGCTTTAGCCAAAAACGCCACTAAAAAATAA
* * *
21157013 ACCTTTAGTGACGCTTCTAG-CAAAAACGCCGCTAAAAACAT-A
1 AGCTTTAGCGACGCTT-TAGCCAAAAACGCCACTAAAAA-ATAA
21157055 AGCTTTA
1 AGCTTTA
21157062 AAAAAATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
42 36 0.88
43 5 0.12
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.22
Consensus pattern (42 bp):
AGCTTTAGCGACGCTTTAGCCAAAAACGCCACTAAAAAATAA
Found at i:21158881 original size:10 final size:9
Alignment explanation
Indices: 21158856--21158898 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
21158846 TAAAAAATAA
21158856 AATAAAAGC
1 AATAAAAGC
21158865 AATAAAAGC
1 AATAAAAGC
21158874 AATAAAAAGC
1 AAT-AAAAGC
* *
21158884 -GTGAAAGC
1 AATAAAAGC
21158892 AATAAAA
1 AATAAAA
21158899 AAGACAGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 5 0.18
9 17 0.61
10 6 0.21
ACGTcount: A:0.65, C:0.09, G:0.14, T:0.12
Consensus pattern (9 bp):
AATAAAAGC
Found at i:21161740 original size:14 final size:14
Alignment explanation
Indices: 21161717--21161778 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
21161707 TCCAAGCAAT
* *
21161717 TAACCTTTAACCTC
1 TAACCCTTAACCCC
**
21161731 TAACCCTTAATTCC
1 TAACCCTTAACCCC
21161745 TAA-CCTCTAACCCC
1 TAACCCT-TAACCCC
*
21161759 TAACCCCTAACCCC
1 TAACCCTTAACCCC
21161773 TAACCC
1 TAACCC
21161779 CTCTTTTACA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 3 0.08
14 34 0.87
15 2 0.05
ACGTcount: A:0.29, C:0.45, G:0.00, T:0.26
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:21161748 original size:21 final size:21
Alignment explanation
Indices: 21161724--21161780 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
21161714 AATTAACCTT
* **
21161724 TAACCTCTAACCCTTAATTCC
1 TAACCTCTAACCCCTAACCCC
21161745 TAACCTCTAACCCCTAACCCC
1 TAACCTCTAACCCCTAACCCC
*
21161766 TAACCCCTAACCCCT
1 TAACCTCTAACCCCT
21161781 CTTTTACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.25
Consensus pattern (21 bp):
TAACCTCTAACCCCTAACCCC
Found at i:21161778 original size:7 final size:7
Alignment explanation
Indices: 21161724--21161780 Score: 69
Period size: 7 Copynumber: 8.1 Consensus size: 7
21161714 AATTAACCTT
*
21161724 TAACCTC
1 TAACCCC
*
21161731 TAACCCT
1 TAACCCC
**
21161738 TAATTCC
1 TAACCCC
*
21161745 TAACCTC
1 TAACCCC
21161752 TAACCCC
1 TAACCCC
21161759 TAACCCC
1 TAACCCC
21161766 TAACCCC
1 TAACCCC
21161773 TAACCCC
1 TAACCCC
21161780 T
1 T
21161781 CTTTTACAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.25
Consensus pattern (7 bp):
TAACCCC
Found at i:21162068 original size:69 final size:70
Alignment explanation
Indices: 21161906--21162070 Score: 181
Period size: 69 Copynumber: 2.4 Consensus size: 70
21161896 CTTTTAACCC
* * * * *
21161906 TTAACCTAAACCCCTAACCCCTAACTACTAACCCCTGAACCTTATCTAATATACAAATTCAAAAA
1 TTAATCTAAA-CCCTAAACCCTAACCACTAACCCCTAAACCTTATCTAATATAAAAATTCAAAAA
*
21161971 CATTAA
65 CACTAA
* * * * * *
21161977 TTAATCTAAACTCGAATCCCTAACCCCTAACCCCTAAACCTTATTTCATA-AAAAATT-AAAACA
1 TTAATCTAAACCCTAAACCCTAACCACTAACCCCTAAACCTTATCTAATATAAAAATTCAAAA-A
21162040 CACTAA
65 CACTAA
*
21162046 TTAATCTAAACCCTAAAGCCTAACC
1 TTAATCTAAACCCTAAACCCTAACC
21162071 TGACATCGAA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
68 4 0.05
69 33 0.42
70 32 0.41
71 9 0.12
ACGTcount: A:0.42, C:0.30, G:0.02, T:0.25
Consensus pattern (70 bp):
TTAATCTAAACCCTAAACCCTAACCACTAACCCCTAAACCTTATCTAATATAAAAATTCAAAAAC
ACTAA
Found at i:21162552 original size:19 final size:19
Alignment explanation
Indices: 21162512--21162554 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
21162502 AATTTTAATT
*
21162512 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
21162531 AATAGTAAAT-AACAGATAA
1 AATA-TAAATAAACAAATAA
21162550 AATAT
1 AATAT
21162555 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:21162617 original size:41 final size:41
Alignment explanation
Indices: 21162559--21162670 Score: 170
Period size: 41 Copynumber: 2.7 Consensus size: 41
21162549 AAATATTTTT
* * * * *
21162559 GCGGCGCTTTCTCAAAAATGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGATCTAAGCATTA
21162600 GCGGCGCTTTTTAAAAAACGCCGCTAAAGATCTAAGCATTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGATCTAAGCATTA
*
21162641 GCGGCGCTTTTTTAAAAACGCCGCTAAAGA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGA
21162671 CCTGATAGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTTAAAAAACGCCGCTAAAGATCTAAGCATTA
Found at i:21162811 original size:40 final size:39
Alignment explanation
Indices: 21162707--21162842 Score: 157
Period size: 40 Copynumber: 3.4 Consensus size: 39
21162697 GGGCTTAGGT
* * *
21162707 TTTTTTGCGGCGTTTTTCCAAAAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCG-TTTT-CTAAAAGCGCCGCTAATGCTTGA
* *
21162747 TTTTTAGAGGCGCTTTCCTAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCG-TTTTCTAAAAGCGCCGCTAATGCTTGA
* * *
21162787 TCTTTAGCGGCGTTTTGTGTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCT-AAAAGCGCCGCTAATGCTTGA
21162827 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
21162843 TTGTCCAAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 23 0.28
40 59 0.72
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCTAAAAGCGCCGCTAATGCTTGA
Found at i:21168988 original size:17 final size:18
Alignment explanation
Indices: 21168968--21169001 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21168958 TCCTTTTTGT
*
21168968 ATTTTATTTCC-TTTTAA
1 ATTTTATCTCCATTTTAA
21168985 ATTTTATCTCCATTTTA
1 ATTTTATCTCCATTTTA
21169002 TTTCTGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTATCTCCATTTTAA
Found at i:21169358 original size:24 final size:23
Alignment explanation
Indices: 21169304--21169455 Score: 87
Period size: 24 Copynumber: 6.4 Consensus size: 23
21169294 AAAATCGTTT
*
21169304 AATTTATTATATATATTATTATCTTA
1 AATTTA-T-TATACATTATTAT-TTA
* *
21169330 GATTTATTATGCATTATTATTTA
1 AATTTATTATACATTATTATTTA
*
21169353 TAATTTATCA-ACATTATTATTTTA
1 -AATTTATTATACATTATTA-TTTA
* * * *
21169377 AATGTATCACATATTATTATTTTA
1 AATTTATTATACATTATTA-TTTA
**
21169401 GAA-TTATTAT-CAAAATT-TTTA
1 -AATTTATTATACATTATTATTTA
* **
21169422 AATTTATTGTGTATTATTATTTCA
1 AATTTATTATACATTATTATTT-A
21169446 AATTTATTAT
1 AATTTATTAT
21169456 TTGTTTTTTA
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
20 2 0.02
21 10 0.10
22 4 0.04
23 26 0.26
24 49 0.49
25 3 0.03
26 5 0.05
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (23 bp):
AATTTATTATACATTATTATTTA
Found at i:21184266 original size:24 final size:24
Alignment explanation
Indices: 21184234--21184289 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
21184224 TACTAAAAGC
21184234 ACAGTGGATTGAACCTTGAAGATT
1 ACAGTGGATTGAACCTTGAAGATT
21184258 ACAGTGGATTGAACCTTGAAGATT
1 ACAGTGGATTGAACCTTGAAGATT
21184282 ACAGTGGA
1 ACAGTGGA
21184290 GGCAATCCGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (24 bp):
ACAGTGGATTGAACCTTGAAGATT
Found at i:21188821 original size:14 final size:14
Alignment explanation
Indices: 21188802--21188831 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
21188792 TACACTATAT
21188802 AAACCTAAAATTAA
1 AAACCTAAAATTAA
21188816 AAACCTAAAATTAA
1 AAACCTAAAATTAA
21188830 AA
1 AA
21188832 GCCATCAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCTAAAATTAA
Found at i:21188943 original size:3 final size:3
Alignment explanation
Indices: 21188935--21188981 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
21188925 TTTAGTCCTC
21188935 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21188982 GTTGTTGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21188986 original size:3 final size:3
Alignment explanation
Indices: 21188980--21189029 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
21188970 ATTATTATTA
21188980 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
21189028 TT
1 TT
21189030 ATTATTATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:21194863 original size:22 final size:19
Alignment explanation
Indices: 21194836--21194881 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
21194826 TGGCGGCTAT
*
21194836 GAAGAAAAGAGAGGAAGAGGAA
1 GAAGAAAA-A-AGGAAGAAG-A
21194858 GAAGAAAAAAGGAAGAAGA
1 GAAGAAAAAAGGAAGAAGA
21194877 GAAGA
1 GAAGA
21194882 TAGGAGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 8 0.35
21 1 0.04
22 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (19 bp):
GAAGAAAAAAGGAAGAAGA
Found at i:21194974 original size:6 final size:6
Alignment explanation
Indices: 21194965--21194997 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
21194955 GAAAAACTGA
21194965 GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGG
1 GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGG
21194998 TGTTCAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.85, T:0.00
Consensus pattern (6 bp):
GGGGAG
Found at i:21195122 original size:21 final size:21
Alignment explanation
Indices: 21195077--21195125 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
21195067 GAAAGTGTTG
* *
21195077 ATACTTTTTAGAAAGATATCA
1 ATACTTGTTAGAAAGATAACA
* *
21195098 ATACTTGTTAGAAAGGTAACC
1 ATACTTGTTAGAAAGATAACA
21195119 ATACTTG
1 ATACTTG
21195126 CATAAGTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (21 bp):
ATACTTGTTAGAAAGATAACA
Found at i:21199017 original size:33 final size:33
Alignment explanation
Indices: 21198980--21199046 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
21198970 TTTTTTGGTG
21198980 TGAATTTTTTTACATAATTAAATATTTTTATTT
1 TGAATTTTTTTACATAATTAAATATTTTTATTT
**
21199013 TGAATTTTTTTAGTTAATTAAATATTTTTATTT
1 TGAATTTTTTTACATAATTAAATATTTTTATTT
21199046 T
1 T
21199047 TATTTATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (33 bp):
TGAATTTTTTTACATAATTAAATATTTTTATTT
Found at i:21202648 original size:26 final size:26
Alignment explanation
Indices: 21202616--21202698 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
21202606 AGCTTTTCGG
21202616 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* *
21202642 TACACAT-GT-GACCATCATTTA-T-C
1 TACACATAGTAG-CCTTCACTTAGTAC
* **
21202665 GATTCACATAGTAGCCTTCACACAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
21202693 TACACA
1 TACACA
21202699 CGTGACCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 16 0.38
26 20 0.48
27 2 0.05
28 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.29
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:21202653 original size:51 final size:50
Alignment explanation
Indices: 21202460--21202906 Score: 445
Period size: 51 Copynumber: 8.8 Consensus size: 50
21202450 ACTTTTATCA
* *
21202460 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
21202509 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * *
21202559 TTACGGTTCATGTAATAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * *
21202611 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * * *
21202661 TATCGATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * * *
21202713 CTCGGTACACATTGTAACCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * * * *
21202763 TATCGATTCACGTAGTAACCTTCACACAGTACTACACATGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * ***
21202815 CTT-GGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATT
1 -TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
*
21202865 TATCGGTACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
21202907 TTCATCGATA
Statistics
Matches: 334, Mismatches: 50, Indels: 26
0.81 0.12 0.06
Matches are distributed among these distances:
49 7 0.02
50 96 0.29
51 217 0.65
52 9 0.03
53 5 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:21202701 original size:102 final size:102
Alignment explanation
Indices: 21202461--21202906 Score: 621
Period size: 102 Copynumber: 4.4 Consensus size: 102
21202451 CTTTTATCAT
* * * * *
21202461 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACGTAG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * * ***
21202524 TAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
21202562 -CGGTTCATGTAATAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
21202626 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * *
21202663 TCGATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
*
21202728 AACCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * *
21202765 TCGATTCACGTAGTAACCTTCACACAGTACTACACATGTGACCAAAGCTTCTT-GGTACACATTG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT-TTCGGTACACATAG
*
21202829 TAGCCTTCACTTAGTACTACACATGTGACCATTATTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* *
21202867 TCGGTACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
21202907 TTCATCGATA
Statistics
Matches: 310, Mismatches: 31, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
100 37 0.12
101 45 0.15
102 227 0.73
103 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:21211850 original size:49 final size:50
Alignment explanation
Indices: 21211758--21211855 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 50
21211748 ATCTATTTAT
* * * * * *
21211758 AGGTTGAAAAAACTTTATTCTGATCAATGTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
21211808 AGGTTG-AAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
21211856 TCTATATGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (50 bp):
AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:21217490 original size:19 final size:19
Alignment explanation
Indices: 21217468--21217506 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
21217458 AATTGCATGG
21217468 TTAAAGTGATGGAAATGAA
1 TTAAAGTGATGGAAATGAA
21217487 TTAAAGTGATGGAAATGAA
1 TTAAAGTGATGGAAATGAA
21217506 T
1 T
21217507 GATTGTACAA
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:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (19 bp):
TTAAAGTGATGGAAATGAA
Found at i:21219560 original size:37 final size:37
Alignment explanation
Indices: 21219492--21219583 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
21219482 ATTAATGAAT
* * * *
21219492 GCATGATTAAGCATGCCACTGAGATTCTTAAACCGGAA
1 GCATGA-TAAGCATGCCACTAAAATTATTAAACCGAAA
* * *
21219530 GCATGATAAGCCTGCTACTAAAATTATTAAACTGAAA
1 GCATGATAAGCATGCCACTAAAATTATTAAACCGAAA
21219567 GCATGATAAGCATGCCA
1 GCATGATAAGCATGCCA
21219584 TTGATATTGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
37 39 0.87
38 6 0.13
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (37 bp):
GCATGATAAGCATGCCACTAAAATTATTAAACCGAAA
Found at i:21223365 original size:18 final size:17
Alignment explanation
Indices: 21223315--21223366 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
21223305 CAGCAACTTT
*
21223315 TTCTTCTTTAGCAAAAAC
1 TTCTTCTTT-GCAACAAC
*
21223333 TTCTGCTTTGACAACAAC
1 TTCTTCTTTG-CAACAAC
21223351 TTCTTCTTCTGCAACA
1 TTCTTCTT-TGCAACA
21223367 TCAATTTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 1 0.03
18 26 0.90
19 2 0.07
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (17 bp):
TTCTTCTTTGCAACAAC
Found at i:21236846 original size:17 final size:17
Alignment explanation
Indices: 21236824--21236865 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
21236814 TATAGCTCCG
21236824 ACAAGCTTCCAACCCGA
1 ACAAGCTTCCAACCCGA
21236841 ACAAGCTTCCAACCCGA
1 ACAAGCTTCCAACCCGA
21236858 ACAAGCTT
1 ACAAGCTT
21236866 TCGAATCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.36, C:0.38, G:0.12, T:0.14
Consensus pattern (17 bp):
ACAAGCTTCCAACCCGA
Found at i:21237333 original size:25 final size:25
Alignment explanation
Indices: 21237304--21237371 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
21237294 TATTCTCTTA
*
21237304 CGAGCTGAATATCGGTAAGCTCATGT
1 CGAGCTGAATATCGGTAAGCTC-TCT
* *
21237330 -GAGCTGAATAACGATAAGCTCTCT
1 CGAGCTGAATATCGGTAAGCTCTCT
21237354 CGAGCTGAGA-ATCGGTAA
1 CGAGCTGA-ATATCGGTAA
21237372 CCCTAATGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 2 0.06
25 32 0.91
26 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (25 bp):
CGAGCTGAATATCGGTAAGCTCTCT
Found at i:21247236 original size:9 final size:9
Alignment explanation
Indices: 21247222--21247256 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
21247212 GATACTCTCA
21247222 TTCTTCTTG
1 TTCTTCTTG
21247231 TTCTTCTTG
1 TTCTTCTTG
*
21247240 TTCTTCTTC
1 TTCTTCTTG
21247249 TTCTTCTT
1 TTCTTCTT
21247257 CATATTTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.00, C:0.26, G:0.06, T:0.69
Consensus pattern (9 bp):
TTCTTCTTG
Found at i:21247237 original size:3 final size:3
Alignment explanation
Indices: 21247222--21247257 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
21247212 GATACTCTCA
* *
21247222 TTC TTC TTG TTC TTC TTG TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
21247258 ATATTTTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.28, G:0.06, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:21248300 original size:66 final size:66
Alignment explanation
Indices: 21248172--21248305 Score: 189
Period size: 66 Copynumber: 2.0 Consensus size: 66
21248162 GTGTCCTAGT
* * * * *
21248172 CCGTGTCCTTACTTATGTAACTCACTGAGTTGCCACACACGCCCGTGTGTCAAATCGCGTGTTAG
1 CCGTGTCCTCACTGATGTAACTCACTGAGTTGCCACACACGCCCATGTGCCAAATCACGTGTTAG
21248237 G
66 G
* *
21248238 CCGTGTCCTCACTGATGTAACTCACTGAGTTGTCACACACGCCCATGTGCCAGAA-CATGTGTTA
1 CCGTGTCCTCACTGATGTAACTCACTGAGTTGCCACACACGCCCATGTGCCA-AATCACGTGTTA
21248302 GG
65 GG
21248304 CC
1 CC
21248306 ATGTGCTAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 58 0.97
67 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (66 bp):
CCGTGTCCTCACTGATGTAACTCACTGAGTTGCCACACACGCCCATGTGCCAAATCACGTGTTAG
G
Found at i:21248322 original size:66 final size:66
Alignment explanation
Indices: 21248175--21248342 Score: 173
Period size: 66 Copynumber: 2.6 Consensus size: 66
21248165 TCCTAGTCCG
* * * * *
21248175 TGTCCTTACTTATGTAACTCACTGAGTTGCCACACACGCCCGTGTGTCAAATCGCGTGTTAGGCC
1 TGTCCTCACTCATGTAACTCACTGAGTTGCCACACACGCCCATGTGCCAAATCACGTGTTAGGCC
*
21248240 G
66 A
* * *
21248241 TGTCCTCACTGATGTAACTCACTGAGTTGTCACACACGCCCATGTGCCAGAA-CATGTGTTAGGC
1 TGTCCTCACTCATGTAACTCACTGAGTTGCCACACACGCCCATGTGCCA-AATCACGTGTTAGGC
21248305 CA
65 CA
* * *
21248307 TGTGCT-AGGTCATGTAAATCTA-TGAGTT-CCACACAC
1 TGTCCTCA-CTCATGTAACTC-ACTGAGTTGCCACACAC
21248343 TCTTGTGTGC
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
65 8 0.09
66 75 0.87
67 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (66 bp):
TGTCCTCACTCATGTAACTCACTGAGTTGCCACACACGCCCATGTGCCAAATCACGTGTTAGGCC
A
Found at i:21248685 original size:13 final size:13
Alignment explanation
Indices: 21248669--21248696 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21248659 AGTTTAATTA
21248669 ACTACCACACATG
1 ACTACCACACATG
21248682 ACTACCACACATG
1 ACTACCACACATG
21248695 AC
1 AC
21248697 CATTTGCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.39, G:0.07, T:0.14
Consensus pattern (13 bp):
ACTACCACACATG
Found at i:21254872 original size:20 final size:20
Alignment explanation
Indices: 21254847--21254886 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21254837 TTTAGTATAG
21254847 TTAAATCTGTTTGCCACTAA
1 TTAAATCTGTTTGCCACTAA
21254867 TTAAATCTGTTTGCCACTAA
1 TTAAATCTGTTTGCCACTAA
21254887 ACGTAACTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
TTAAATCTGTTTGCCACTAA
Found at i:21259410 original size:32 final size:31
Alignment explanation
Indices: 21259365--21259460 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
21259355 CTTAGATAAT
21259365 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
21259396 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
21259428 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
21259459 TT
1 TT
21259461 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:21259813 original size:29 final size:27
Alignment explanation
Indices: 21259764--21259822 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
21259754 AATCTATCCT
*
21259764 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
21259793 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
21259820 TTT
1 TTT
21259823 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:21264638 original size:88 final size:88
Alignment explanation
Indices: 21264489--21264991 Score: 443
Period size: 88 Copynumber: 5.7 Consensus size: 88
21264479 TTGAGTTGTT
* * *
21264489 ATTTAAGATCACAACCTTCAAACTTCAA-AGATTTTGAGAATCATAGAGTTAGTGATTTAAGATC
1 ATTTAAGATCACAACCTTCAAACTTCAAGA-ATTTTCAGAATCTTAGAGTTAGAGATTTAAGATC
21264553 ACGACTCCTCTTTAAGGTTTGCTG
65 ACGACTCCTCTTTAAGGTTTGCTG
** * * * *
21264577 ATTTAAGATTGCAACCTTCAAAATCCAAGAATATTT-AGAATATTAGAGTTAGAGGTTTAAGATC
1 ATTTAAGATCACAACCTTCAAACTTCAAGAAT-TTTCAGAATCTTAGAGTTAGAGATTTAAGATC
* * **
21264641 ACGAGTCCCCTTTAAGGTTTGCCA
65 ACGACTCCTCTTTAAGGTTTGCTG
* * * *
21264665 ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTTAGAATCTTAGACTTA-ACGATTTAAAATC
1 ATTTAAGATCACAACCTTCAAACTTCAAGAATTTTCAGAATCTTAGAGTTAGA-GATTTAAGATC
* * **
21264729 GCAACT-CTCCTTTAAGGTTCACTG
65 ACGACTCCT-CTTTAAGGTTTGCTG
* * * * *
21264753 ATTTAATATCGCAACCTTCAAACTTTAAGGATTTTCAGAATCTTAGCGTTAGCA-ATTTAAGAT-
1 ATTTAAGATCACAACCTTCAAACTTCAAGAATTTTCAGAATCTTAGAGTTAG-AGATTTAAGATC
* *
21264816 ATGGACT-TTCATTTAAGG-TT-CATCG
65 A-CGACTCCTC-TTTAAGGTTTGC-T-G
* * * * * * * *
21264841 ATTTAAAATCGCAACCTTCAAAATTCAAGGATTTTCAGAATCGTAGAGTTAGCGATTTAACATCG
1 ATTTAAGATCACAACCTTCAAACTTCAAGAATTTTCAGAATCTTAGAGTTAGAGATTTAAGATCA
* *
21264906 TGACTCC-CTTTTAAGGTTTGCCG
66 CGACTCCTC-TTTAAGGTTTGCTG
* * * *
21264929 ATTTAAGATCACAACCTTTCAAACTTCAA-AGATTTTTAGAATTTTAGTGTTAGCGATTTAAGA
1 ATTTAAGATCACAACC-TTCAAACTTCAAGA-ATTTTCAGAATCTTAGAGTTAGAGATTTAAGA
21264992 ATATCATTTC
Statistics
Matches: 335, Mismatches: 62, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
86 1 0.00
87 8 0.02
88 280 0.84
89 44 0.13
90 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (88 bp):
ATTTAAGATCACAACCTTCAAACTTCAAGAATTTTCAGAATCTTAGAGTTAGAGATTTAAGATCA
CGACTCCTCTTTAAGGTTTGCTG
Found at i:21264814 original size:176 final size:174
Alignment explanation
Indices: 21264489--21264996 Score: 534
Period size: 176 Copynumber: 2.9 Consensus size: 174
21264479 TTGAGTTGTT
* * * * *
21264489 ATTTAAGATCACAACCTTCAAACTTCAAAGATTTTGAGAATCATAGAGTTAGTGATTTAAGATCA
1 ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTCAGAATCATAGAGTTAGCGATTTAAAATCG
* * * *
21264554 CGACTCCTCTTTAAGGTTTGCTGATTTAAGATTGCAACCTTCAAAATCCAAGAATATTTAGAATA
66 CGACTCC-CTTTAAGGTTTGCTGATTTAAGATCGCAACCTTCAAACTTCAAGGAT-TTTAGAATA
* * * **
21264619 TTAGAGTTAG-AGGTTTAAGATCA-CGAGTCCCCTTTAAGGTTTGCCA
129 TTAGAGTTAGCA-ATTTAAGAT-ATCGACTCCCATTTAAGGTTCACCA
* * * *
21264665 ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTTAGAATCTTAGACTTAACGATTTAAAATCG
1 ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTCAGAATCATAGAGTTAGCGATTTAAAATCG
* ** * * *
21264730 CAACTCTCCTTTAAGGTTCACTGATTTAATATCGCAACCTTCAAACTTTAAGGATTTTCAGAATC
66 CGACTC-CCTTTAAGGTTTGCTGATTTAAGATCGCAACCTTCAAACTTCAAGGATTTT-AGAATA
* * ** * *
21264795 TTAGCGTTAGCAATTTAAGATATGGACTTTCATTTAAGGTTCATCG
129 TTAGAGTTAGCAATTTAAGATATCGACTCCCATTTAAGGTTCACCA
* * * * *
21264841 ATTTAAAATCGCAACCTTCAAAATTCAAGGATTTTCAGAATCGTAGAGTTAGCGATTTAACATCG
1 ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTCAGAATCATAGAGTTAGCGATTTAAAATCG
* * * *
21264906 TGACTCCCTTTTAAGGTTTGCCGATTTAAGATCACAACCTTTCAAACTTCAAAGATTTTTAGAAT
66 CGACTCCC-TTTAAGGTTTGCTGATTTAAGATCGCAACC-TTCAAACTTCAAGGA-TTTTAGAAT
* * *
21264971 TTTAGTGTTAGCGATTTAAGAATATC
128 ATTAGAGTTAGCAATTTAAG-ATATC
21264997 ATTTCCCATA
Statistics
Matches: 274, Mismatches: 50, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
175 6 0.02
176 223 0.81
177 37 0.14
178 8 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (174 bp):
ATTTAAGATCACAACCTTCAAACTTCAAGGATTTTCAGAATCATAGAGTTAGCGATTTAAAATCG
CGACTCCCTTTAAGGTTTGCTGATTTAAGATCGCAACCTTCAAACTTCAAGGATTTTAGAATATT
AGAGTTAGCAATTTAAGATATCGACTCCCATTTAAGGTTCACCA
Found at i:21270437 original size:23 final size:24
Alignment explanation
Indices: 21270376--21270437 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
21270366 TTGAAAGTAA
*
21270376 AACTATAATTCT-AAAATATAAAAG
1 AACTA-AATTCTAAAAATAAAAAAG
*
21270400 AACTAAATTTTTAAAAATAAAAAAG
1 AACTAAA-TTCTAAAAATAAAAAAG
*
21270425 -ATTAAATTCTAAA
1 AACTAAATTCTAAA
21270438 TATATGAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 8 0.25
24 13 0.41
25 11 0.34
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (24 bp):
AACTAAATTCTAAAAATAAAAAAG
Found at i:21273448 original size:25 final size:25
Alignment explanation
Indices: 21273419--21273482 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
21273409 CACACCACAG
* **
21273419 CTCGCATGAACTTCCTGTTATTCAA
1 CTCGCATGAGCTTCCCATTATTCAA
*
21273444 CTCGCACGAGCTTCCCATTATTCAA
1 CTCGCATGAGCTTCCCATTATTCAA
*
21273469 CTCACATGAGCTTC
1 CTCGCATGAGCTTC
21273483 TCTTTTACAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.31
Consensus pattern (25 bp):
CTCGCATGAGCTTCCCATTATTCAA
Found at i:21276519 original size:18 final size:18
Alignment explanation
Indices: 21276496--21276530 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21276486 CTTGAACTAA
*
21276496 ATAAATCATTTATAAAAC
1 ATAAATCATTAATAAAAC
*
21276514 ATAAATTATTAATAAAA
1 ATAAATCATTAATAAAA
21276531 AATCTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAATCATTAATAAAAC
Found at i:21278091 original size:25 final size:26
Alignment explanation
Indices: 21278062--21278130 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
21278052 AGCTGTAAAT
21278062 GGGAAGCTTC-T-TCGAGCTGAATAAC
1 GGGAAGCTTCATGT-GAGCTGAATAAC
*
21278087 GGGAAGC-TCATGTGAGTTGAATAAC
1 GGGAAGCTTCATGTGAGCTGAATAAC
*
21278112 GGGAAGC-TCATGCGAGCTG
1 GGGAAGCTTCATGTGAGCTG
21278131 TGGTGTGTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 2 0.05
25 36 0.92
26 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (26 bp):
GGGAAGCTTCATGTGAGCTGAATAAC
Found at i:21286882 original size:17 final size:18
Alignment explanation
Indices: 21286855--21286889 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21286845 GTAGGTTTGT
*
21286855 AAAAATAGAAATGGAAAC
1 AAAAATAGAAATGAAAAC
21286873 AAAAAT-GAAATGAAAAC
1 AAAAATAGAAATGAAAAC
21286890 TTGCAATCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.69, C:0.06, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAAATAGAAATGAAAAC
Found at i:21288460 original size:28 final size:28
Alignment explanation
Indices: 21288420--21288554 Score: 107
Period size: 28 Copynumber: 4.9 Consensus size: 28
21288410 AAACACGATA
*
21288420 GAAAAGAATAGTCTTTGTGGCAAAATTT
1 GAAAAGAATAGTCTTTGTGGCAAAATCT
* *
21288448 GAAAAGAATAGTCTTTGTGG-AGAACTTT
1 GAAAAGAATAGTCTTTGTGGCA-AAATCT
* * * *
21288476 GAAAAAAATA-TCCTTTGAGGCGAACTCT
1 GAAAAGAATAGT-CTTTGTGGCAAAATCT
* * *
21288504 AAAAAGAATAGT-TGTTGTGACGAAATCT
1 GAAAAGAATAGTCT-TTGTGGCAAAATCT
* *
21288532 GAAAGGGAT-GTCTTTGTGGCAAA
1 GAAAAGAATAGTCTTTGTGGCAAA
21288555 CTCTAAATTG
Statistics
Matches: 86, Mismatches: 15, Indels: 13
0.75 0.13 0.11
Matches are distributed among these distances:
27 13 0.15
28 72 0.84
29 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
GAAAAGAATAGTCTTTGTGGCAAAATCT
Found at i:21289600 original size:13 final size:13
Alignment explanation
Indices: 21289565--21289621 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
21289555 CTGACTCATT
*
21289565 TTTTGATTTAATTCA
1 TTTT-ATTT-ATTTA
21289580 TTTT-TTTATTT-
1 TTTTATTTATTTA
21289591 TTCTTATTTATTTA
1 TT-TTATTTATTTA
*
21289605 TTTTAGTTATTTA
1 TTTTATTTATTTA
21289618 TTTT
1 TTTT
21289622 TATCTCATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 2 0.05
12 5 0.14
13 24 0.65
14 2 0.05
15 4 0.11
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:21289614 original size:17 final size:17
Alignment explanation
Indices: 21289579--21289620 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
21289569 GATTTAATTC
* *
21289579 ATTTTTTTATTTTTCTT
1 ATTTATTTATTTTACTT
*
21289596 ATTTATTTATTTTAGTT
1 ATTTATTTATTTTACTT
21289613 ATTTATTT
1 ATTTATTT
21289621 TTATCTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (17 bp):
ATTTATTTATTTTACTT
Found at i:21292037 original size:21 final size:22
Alignment explanation
Indices: 21292002--21292055 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
21291992 AAACATGGCC
*
21292002 GTGTGGCTA-TCCCACATG-CTA
1 GTGTGGCTACT-CCACACGCCTA
21292023 GTGTGGCTACTCCACACGCCTA
1 GTGTGGCTACTCCACACGCCTA
*
21292045 -TGTGTCTACTC
1 GTGTGGCTACTC
21292056 GTGTAGCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.30
Consensus pattern (22 bp):
GTGTGGCTACTCCACACGCCTA
Found at i:21295418 original size:35 final size:35
Alignment explanation
Indices: 21295367--21295438 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
21295357 GGTGTTACAT
* * * *
21295367 ACCAAATGCTCATAAGAGCTAGTATCATCCAGCAC
1 ACCAAATGCTCATAAGAGCCAATACCATCCAACAC
*
21295402 ACCAGATGCTCATAAGAGCCAATACCATCCAACAC
1 ACCAAATGCTCATAAGAGCCAATACCATCCAACAC
21295437 AC
1 AC
21295439 TAGAAACACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.32, G:0.12, T:0.17
Consensus pattern (35 bp):
ACCAAATGCTCATAAGAGCCAATACCATCCAACAC
Found at i:21296771 original size:20 final size:20
Alignment explanation
Indices: 21296746--21296784 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
21296736 AGCCCAAAAG
21296746 TTAGTGGATTTAATTATGTA
1 TTAGTGGATTTAATTATGTA
21296766 TTAGTGGATTTAATTATGT
1 TTAGTGGATTTAATTATGT
21296785 CACCACCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (20 bp):
TTAGTGGATTTAATTATGTA
Found at i:21299769 original size:23 final size:23
Alignment explanation
Indices: 21299738--21299788 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
21299728 ACCTACTTTC
* *
21299738 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
21299761 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
21299784 TTACA
1 TTACA
21299789 AAGGCATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:21301117 original size:18 final size:19
Alignment explanation
Indices: 21301078--21301117 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
21301068 ATGATAAAAT
*
21301078 ATTATATGAAATAACAATA
1 ATTATATGAAATAACAAGA
*
21301097 ATTATAT-AAATAATAAGA
1 ATTATATGAAATAACAAGA
21301115 ATT
1 ATT
21301118 TCAATTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
ATTATATGAAATAACAAGA
Found at i:21301614 original size:102 final size:98
Alignment explanation
Indices: 21301501--21301783 Score: 363
Period size: 102 Copynumber: 2.8 Consensus size: 98
21301491 TTTTTTTTAC
* *
21301501 TTTGGGACACTGATGGTCAGCATCAGTGTATTTTAAAATAAAA-TTGGGTG-TAGGCCATGTAAT
1 TTTGGAACACTGATGG-CAGCACCAGTGTA-TTTAAAA-AAAATTTGGGTGCT-GGCCATGTAAT
*
21301564 GGTCGGCACCAAGTACAATTTTGGCTCCCAATGCATTTT
62 GG-CGGCACCAAGTACAATTTCGGCTCCCAATGC-TTTT
*
21301603 TTTGGAACACTGATAGGCGGCACCAGTGTATTTAAAAAACAATTTGGGTGCTGGCCATGTAATGG
1 TTTGGAACACTGAT-GGCAGCACCAGTGTATTTAAAAAA-AATTTGGGTGCTGGCCATGTAATGG
*
21301668 CCTGCACCAAGTACAATTTCGGCTCCCAATGCTTTT
64 -CGGCACCAAGTACAATTTCGGCTCCCAATGCTTTT
** * *
21301704 TTTTTAACATTGATGGCAGGCACCAGTGTATTTAAAAAAAAATTTTGGTGCTGGCCATGTAATGG
1 TTTGGAACACTGATGGCA-GCACCAGTGTATTT-AAAAAAAATTTGGGTGCTGGCCATGTAATGG
21301769 CTGGCACCAAGTACA
64 C-GGCACCAAGTACA
21301784 TTTAATAAAA
Statistics
Matches: 162, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
100 6 0.04
101 74 0.46
102 79 0.49
103 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (98 bp):
TTTGGAACACTGATGGCAGCACCAGTGTATTTAAAAAAAATTTGGGTGCTGGCCATGTAATGGCG
GCACCAAGTACAATTTCGGCTCCCAATGCTTTT
Found at i:21301769 original size:101 final size:101
Alignment explanation
Indices: 21301501--21301783 Score: 378
Period size: 101 Copynumber: 2.8 Consensus size: 101
21301491 TTTTTTTTAC
* * *
21301501 TTTGGGACACTGATGGTCA-GCATCAGTGTATTTTAAAATAAAA-TTGGGTG-TAGGCCATGTAA
1 TTTGGAACACTGATGG-CAGGCACCAGTGTA-TTTAAAAAAAAATTTGGGTGCT-GGCCATGTAA
* *
21301563 TGGTCGGCACCAAGTACAATTTTGGCTCCCAATGCATTTT
63 TGG-CTGCACCAAGTACAATTTCGGCTCCCAATGCATTTT
*
21301603 TTTGGAACACTGATAGGC-GGCACCAGTGTATTTAAAAAACAATTTGGGTGCTGGCCATGTAATG
1 TTTGGAACACTGAT-GGCAGGCACCAGTGTATTTAAAAAAAAATTTGGGTGCTGGCCATGTAATG
21301667 GCCTGCACCAAGTACAATTTCGGCTCCCAATGC-TTTT
65 G-CTGCACCAAGTACAATTTCGGCTCCCAATGCATTTT
** * *
21301704 TTTTTAACATTGATGGCAGGCACCAGTGTATTTAAAAAAAAATTTTGGTGCTGGCCATGTAATGG
1 TTTGGAACACTGATGGCAGGCACCAGTGTATTTAAAAAAAAATTTGGGTGCTGGCCATGTAATGG
21301769 CTGGCACCAAGTACA
66 CT-GCACCAAGTACA
21301784 TTTAATAAAA
Statistics
Matches: 163, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
100 5 0.03
101 82 0.50
102 73 0.45
103 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (101 bp):
TTTGGAACACTGATGGCAGGCACCAGTGTATTTAAAAAAAAATTTGGGTGCTGGCCATGTAATGG
CTGCACCAAGTACAATTTCGGCTCCCAATGCATTTT
Done.