Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 100 of 126
Found at i:30487343 original size:29 final size:29
Alignment explanation
Indices: 30487287--30487361 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
30487277 ACCGATACAT
*
30487287 AGTACCT-AATAA-TATAACACTGGCACAA
1 AGTACCTGAA-AACTATAACACTAGCACAA
* *
30487315 AGTGCCTGAAAACTATAACACTAGTACAA
1 AGTACCTGAAAACTATAACACTAGCACAA
* *
30487344 AGTACCTGATAAGTATAA
1 AGTACCTGAAAACTATAA
30487362 TCATCGGCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 8 0.21
29 31 0.79
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (29 bp):
AGTACCTGAAAACTATAACACTAGCACAA
Found at i:30499610 original size:33 final size:33
Alignment explanation
Indices: 30499538--30499611 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
30499528 ACTCACCTCG
* * * *
30499538 TGTTTACTGTCCTGATAGATTACCTCTATTTTG
1 TGTTTACTATCCTGATAGACTACCTCTATTCTA
*
30499571 TATTTACTAT-CTCGATAGACTACCTCTATTCTA
1 TGTTTACTATCCT-GATAGACTACCTCTATTCTA
30499604 TGTTTACT
1 TGTTTACT
30499612 GCCCTAGTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (33 bp):
TGTTTACTATCCTGATAGACTACCTCTATTCTA
Found at i:30499668 original size:34 final size:33
Alignment explanation
Indices: 30499588--30499699 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 33
30499578 TATCTCGATA
* * *
30499588 GACTACCTCTATTCTATGTTTACTG-CCCTA-G
1 GACTATCTCTATTCCATGTTTACTGTCCCAACG
* * *
30499619 TGAACTATCTTTATTCCATGTTTA-TTTCCCTTGACG
1 -G-ACTATCTCTATTCCATGTTTACTGTCCC--AACG
*
30499655 GACTATCTCTATTCCGTGTTTACTGTCCCAACG
1 GACTATCTCTATTCCATGTTTACTGTCCCAACG
30499688 GACTATCTCTAT
1 GACTATCTCTAT
30499700 GGATGTCATG
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
32 2 0.03
33 36 0.55
34 19 0.29
35 7 0.11
36 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (33 bp):
GACTATCTCTATTCCATGTTTACTGTCCCAACG
Found at i:30499790 original size:63 final size:63
Alignment explanation
Indices: 30499709--30499860 Score: 234
Period size: 63 Copynumber: 2.4 Consensus size: 63
30499699 TGGATGTCAT
*
30499709 GGAGTCTTTCATCCATGGTTTTACA-TCGATTCACCATCTTGGCACACTATCTTTTAATGCCAC
1 GGAGTCTTTCATCCATGGTCTTACACT-GATTCACCATCTTGGCACACTATCTTTTAATGCCAC
* ** * *
30499772 GGAGTCTTTCATCCATGGTCTTACACTGATTCGCCATCTTGGTGCACTATCTTTTGATGCCAT
1 GGAGTCTTTCATCCATGGTCTTACACTGATTCACCATCTTGGCACACTATCTTTTAATGCCAC
30499835 GGAGTCTTTCATCCATGGTCTTACAC
1 GGAGTCTTTCATCCATGGTCTTACAC
30499861 CGTATACCTT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
63 81 0.99
64 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (63 bp):
GGAGTCTTTCATCCATGGTCTTACACTGATTCACCATCTTGGCACACTATCTTTTAATGCCAC
Found at i:30511188 original size:57 final size:55
Alignment explanation
Indices: 30511124--30511251 Score: 166
Period size: 57 Copynumber: 2.3 Consensus size: 55
30511114 GAAATTCACT
* *
30511124 TGAAATTGATATAAACTTATTGATTAATGATAGAATATGACACTTAAATGAATTATG
1 TGAAATTG-TATAAACTTATGGATTAACGATAGAATATGACA-TTAAATGAATTATG
* * * *
30511181 TGAAATTGGTTTAAACTTATGGATTGACGATAGAATATGACATTGAATGAGTTATG
1 TGAAATT-GTATAAACTTATGGATTAACGATAGAATATGACATTAAATGAATTATG
30511237 TGAAATTCGTATAAA
1 TGAAATT-GTATAAA
30511252 TTGGTAATGT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
56 25 0.40
57 36 0.58
58 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (55 bp):
TGAAATTGTATAAACTTATGGATTAACGATAGAATATGACATTAAATGAATTATG
Found at i:30526747 original size:47 final size:46
Alignment explanation
Indices: 30526582--30526853 Score: 269
Period size: 50 Copynumber: 5.7 Consensus size: 46
30526572 GTGAGTGTGC
* *
30526582 CAGTGTAAGACCATGTCTGGGACATGGCACCGGCACAGACTGAGGAGTG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA--GATGAGTG
* * * *
30526631 CTAGTGTAAGACGATGTCTGGGACATGGCATCAGCACGGACAGAGGAGAG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-G--AGATGAGTG
*
30526681 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTG
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAGTG
* * * *
30526728 ACAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGATATGTGATCC
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGATGAG-T-G
* * *
30526778 CA-TGTAAGACCATGTCTGGGACATAGTATCGGCTCGAGATGAGTG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAGTG
*
30526823 CTAGCT-TAAGACTATGTCTGGGACATGGCAT
1 C-AG-TGTAAGACCATGTCTGGGACATGGCAT
30526854 TGACACCGAT
Statistics
Matches: 187, Mismatches: 26, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 2 0.01
47 69 0.37
48 36 0.19
49 5 0.03
50 72 0.39
51 1 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAGTG
Found at i:30526816 original size:95 final size:94
Alignment explanation
Indices: 30526585--30526885 Score: 358
Period size: 95 Copynumber: 3.1 Consensus size: 94
30526575 AGTGTGCCAG
* * * *
30526585 TGTAAGACCATGTCTGGGACATGGCACCGGCACAGACTGAGGAGTGCTAGTGTAAGACGATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTC-GA--GATGAGTGCTAGTGTAAGACCATGTCT
* * * *
30526650 GGGACATGGCATC-AGCACGGACAGAGGAGAGT-CA
63 GGGACATGGCATCGA-CACCG--ATATGTGA-TCCA
30526684 GTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTGAC-AGTGTAAGACCATGTCTG
1 -TGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTG-CTAGTGTAAGACCATGTCTG
30526748 GGACATGGCATCGACACCGATATGTGATCCCA
64 GGACATGGCATCGACACCGATATGTGAT-CCA
* * *
30526780 TGTAAGACCATGTCTGGGACATAGTATCGGCTCGAGATGAGTGCTAGCT-TAAGACTATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTGCTAG-TGTAAGACCATGTCTGG
*
30526844 GACATGGCATTGACACCGATATGTGATTCCA
65 GACATGGCATCGACACCGATATGTGA-TCCA
30526875 TGTAAGACCAT
1 TGTAAGACCAT
30526886 ATTTAGGATA
Statistics
Matches: 182, Mismatches: 12, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
94 2 0.01
95 101 0.55
96 4 0.02
97 40 0.22
98 2 0.01
99 2 0.01
100 31 0.17
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTGCTAGTGTAAGACCATGTCTGGG
ACATGGCATCGACACCGATATGTGATCCA
Found at i:30532794 original size:27 final size:27
Alignment explanation
Indices: 30532730--30532794 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
30532720 GGACATTGTG
* *
30532730 CATCACATGAGCCGCATATTCAACATC
1 CATCACATGGGCCACATATTCAACATC
30532757 CATCACATGGGCCACATATTCAACATC
1 CATCACATGGGCCACATATTCAACATC
*
30532784 CATCACGTGGG
1 CATCACATGGG
30532795 TCCAATGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (27 bp):
CATCACATGGGCCACATATTCAACATC
Found at i:30537234 original size:21 final size:21
Alignment explanation
Indices: 30537210--30537274 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
30537200 CCTACCCCCA
30537210 TTAAAGTCATGACCCACTAAG
1 TTAAAGTCATGACCCACTAAG
* *
30537231 TTAAAATCCCT-ACACC-C--A-
1 TTAAAGT-CATGAC-CCACTAAG
30537249 TTAAAGTCATGACCCACTAAG
1 TTAAAGTCATGACCCACTAAG
30537270 TTAAA
1 TTAAA
30537275 AGCCCAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
17 4 0.12
18 9 0.27
19 1 0.03
20 1 0.03
21 14 0.42
22 4 0.12
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.25
Consensus pattern (21 bp):
TTAAAGTCATGACCCACTAAG
Found at i:30537252 original size:39 final size:39
Alignment explanation
Indices: 30537198--30537275 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
30537188 ACCCATATCT
*
30537198 TCCCTACCCCCATTAAAGTCATGACCCACTAAGTTAAAA
1 TCCCTACACCCATTAAAGTCATGACCCACTAAGTTAAAA
30537237 TCCCTACACCCATTAAAGTCATGACCCACTAAGTTAAAA
1 TCCCTACACCCATTAAAGTCATGACCCACTAAGTTAAAA
30537276 GCCCAAACCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.32, G:0.08, T:0.23
Consensus pattern (39 bp):
TCCCTACACCCATTAAAGTCATGACCCACTAAGTTAAAA
Found at i:30547417 original size:29 final size:30
Alignment explanation
Indices: 30547364--30547463 Score: 76
Period size: 31 Copynumber: 3.3 Consensus size: 30
30547354 TACATTATTT
* *
30547364 TTTAATTTAATGTACAATTCTATATAT-AAAC
1 TTTAATTTAGTGT--AATTATATATATAAAAC
* *
30547395 TTTAATTTAGTGTAATTATATATGTAAAAG
1 TTTAATTTAGTGTAATTATATATATAAAAC
* ** * * *
30547425 TTTAATTGTGGTACAAATATATATTTGAAAC
1 TTTAATT-TAGTGTAATTATATATATAAAAC
30547456 TTTAATTT
1 TTTAATTT
30547464 TGATTTAATT
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
29 10 0.18
30 11 0.20
31 35 0.62
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (30 bp):
TTTAATTTAGTGTAATTATATATATAAAAC
Found at i:30549635 original size:25 final size:25
Alignment explanation
Indices: 30549580--30549635 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 25
30549570 TACTTTACAT
30549580 AGTTATAAATAATATATATTTTTTAA
1 AGTTA-AAATAATATATATTTTTTAA
30549606 A-TTAAAAT-ATATA-ATTATTTTATA
1 AGTTAAAATAATATATATT-TTTTA-A
30549630 AGTTAA
1 AGTTAA
30549636 CTTATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.11
23 10 0.37
24 6 0.22
25 7 0.26
26 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (25 bp):
AGTTAAAATAATATATATTTTTTAA
Found at i:30552020 original size:20 final size:20
Alignment explanation
Indices: 30551995--30552032 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30551985 GTATTTGCAT
* *
30551995 AAAAAAATATTAAAAAAAAC
1 AAAAAAAAAATAAAAAAAAC
30552015 AAAAAAAAAATAAAAAAA
1 AAAAAAAAAATAAAAAAA
30552033 GAAGAAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.11
Consensus pattern (20 bp):
AAAAAAAAAATAAAAAAAAC
Found at i:30559847 original size:209 final size:208
Alignment explanation
Indices: 30559511--30559942 Score: 640
Period size: 209 Copynumber: 2.1 Consensus size: 208
30559501 GGCGGTTGTA
*
30559511 GAAAACGCCGCTATATCCTGCAATTAGCGGCGCTTAACTAAAAAACGCTGAAAATTTTTAAACCG
1 GAAAACGCCGCTATATCCTGCAATTAGCGGCGCTTAACTAAAAAACGCAGAAAATTTTTAAACCG
*
30559576 AAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAATGCCGCTATAT
66 AAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAACGCCGCTATAT
* *
30559641 ATTAGCTAGAAGC-GCCGTAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGA-GC
131 ATCAGCT-GAAGCTG-C--AAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGC
* *
30559704 GTTAGCGGCGCTTGCCT
192 ATTAGCGGCGCTTACCT
30559721 GAAAACGCCGCTATATCCCT-CAATTAGCGGCGCTTAACT-AAAAACGTCAGAAAA-TTTTAAAC
1 GAAAACGCCGCTATAT-CCTGCAATTAGCGGCGCTTAACTAAAAAACG-CAGAAAATTTTTAAAC
* * * *
30559783 CGAAATGCAACGTTTCGTCTTGAGCTATAGCGCCGTTAGCGGCGCTTACTCGAAAACGCCGCTAT
64 CGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAACGCCGCTAT
***
30559848 ATATCAGCTTTTGCTGCAAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGCAT
129 ATATCAGCTGAAGCTGCAAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGCAT
**
30559913 TAGCGGCGCTTATTT
194 TAGCGGCGCTTACCT
30559928 GAAAACGCCGCTATA
1 GAAAACGCCGCTATA
30559943 GAGCAACTTT
Statistics
Matches: 203, Mismatches: 15, Indels: 11
0.89 0.07 0.05
Matches are distributed among these distances:
206 42 0.21
207 30 0.15
208 3 0.01
209 84 0.41
210 41 0.20
211 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (208 bp):
GAAAACGCCGCTATATCCTGCAATTAGCGGCGCTTAACTAAAAAACGCAGAAAATTTTTAAACCG
AAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAACGCCGCTATAT
ATCAGCTGAAGCTGCAAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGCATTA
GCGGCGCTTACCT
Found at i:30560551 original size:7 final size:7
Alignment explanation
Indices: 30560539--30560601 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
30560529 GTTAATTGAT
30560539 GGGTTTA
1 GGGTTTA
30560546 GGGTTTA
1 GGGTTTA
*
30560553 AGGTTTA
1 GGGTTTA
** *
30560560 CTGTTTG
1 GGGTTTA
*
30560567 GGGTTTG
1 GGGTTTA
30560574 GGGTTTA
1 GGGTTTA
*
30560581 AGGTTTA
1 GGGTTTA
**
30560588 TAGTTTA
1 GGGTTTA
30560595 GGGTTTA
1 GGGTTTA
30560602 AGATTTATGG
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.46
Consensus pattern (7 bp):
GGGTTTA
Found at i:30560593 original size:21 final size:21
Alignment explanation
Indices: 30560569--30560609 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30560559 ACTGTTTGGG
* *
30560569 GTTTGGGGTTTAAGGTTTATA
1 GTTTAGGGTTTAAGATTTATA
30560590 GTTTAGGGTTTAAGATTTAT
1 GTTTAGGGTTTAAGATTTAT
30560610 GGTTAAGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATTTATA
Found at i:30560608 original size:28 final size:28
Alignment explanation
Indices: 30560539--30560601 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
30560529 GTTAATTGAT
*
30560539 GGGTTTAGGGTTTAAGGTTTACTGTTTG
1 GGGTTTAGGGTTTAAGGTTTACTGTTTA
*
30560567 GGGTTTGGGGTTTAAGGTTTA-TAGTTTA
1 GGGTTTAGGGTTTAAGGTTTACT-GTTTA
30560595 GGGTTTA
1 GGGTTTA
30560602 AGATTTATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.46
Consensus pattern (28 bp):
GGGTTTAGGGTTTAAGGTTTACTGTTTA
Found at i:30560757 original size:15 final size:15
Alignment explanation
Indices: 30560737--30560766 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30560727 GCTTTTTTAG
*
30560737 AATATAAATGTAAAT
1 AATATAAATATAAAT
30560752 AATATAAATATAAAT
1 AATATAAATATAAAT
30560767 TATTATTTAA
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:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATAAATATAAAT
Found at i:30561569 original size:19 final size:20
Alignment explanation
Indices: 30561528--30561571 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
30561518 AACTGTCATC
*
30561528 TCCCCTAAATCCCTAAAATT
1 TCCCCTAAATCCCTAAAAGT
*
30561548 TCCCCT-AATCCCTAACAGT
1 TCCCCTAAATCCCTAAAAGT
30561567 TCCCC
1 TCCCC
30561572 AAACCCAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.27, C:0.43, G:0.02, T:0.27
Consensus pattern (20 bp):
TCCCCTAAATCCCTAAAAGT
Found at i:30561938 original size:6 final size:6
Alignment explanation
Indices: 30561927--30561953 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30561917 GAAATTTATA
30561927 TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TAT
30561954 TAAAACTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:30568636 original size:21 final size:21
Alignment explanation
Indices: 30568612--30568651 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30568602 ACATAAAGCT
30568612 GAGGCAGAAGCGAGAGAAGTG
1 GAGGCAGAAGCGAGAGAAGTG
* * *
30568633 GAGGCTGCAGCGAGGGAAG
1 GAGGCAGAAGCGAGAGAAG
30568652 CAGAGCAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.50, T:0.05
Consensus pattern (21 bp):
GAGGCAGAAGCGAGAGAAGTG
Found at i:30569145 original size:86 final size:86
Alignment explanation
Indices: 30569055--30569443 Score: 645
Period size: 86 Copynumber: 4.5 Consensus size: 86
30569045 ATAGCGGCGA
* *
30569055 TTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAA
1 TTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAA
30569120 GAACATGAGCTTTAACGGCAT
66 GAACATGAGCTTTAACGGCAT
30569141 TTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAA
1 TTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAA
30569206 GAACATGAGCTTTAACGGCAT
66 GAACATGAGCTTTAACGGCAT
30569227 TTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAA
1 TTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAA
30569292 GAACATGAGCTTTAACGGCAT
66 GAACATGAGCTTTAACGGCAT
* *
30569313 TTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATCAGCGCCGCTAAA
1 TTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAA
* ** *
30569378 GAACATAAGCTTTTGCGGCGT
66 GAACATGAGCTTTAACGGCAT
* ** * *
30569399 TTGTGGGATAAGCACCGCTAAAG-GTCATGACCTTTAACGGTGTTT
1 TTGTGGAATAAGTGCCGCTAAAGAG-CATGACCTTTAGCGGCGTTT
30569444 ATTTCTATAA
Statistics
Matches: 289, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
85 1 0.00
86 288 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (86 bp):
TTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAA
GAACATGAGCTTTAACGGCAT
Found at i:30569378 original size:43 final size:43
Alignment explanation
Indices: 30569006--30569443 Score: 520
Period size: 43 Copynumber: 10.2 Consensus size: 43
30568996 CCATCTATTA
* * * * * *
30569006 CGGCGTTTTTGGAAAAAGCGCCGCTAAA-AGTCAGGATCTATAG
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAG-CATGACCTTTAG
*
30569049 CGGCGATTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* * * *
30569092 CGGCGTTTGTGGGATAAGCGTCGCTAAAGAACATGAGCTTTAA
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* * *
30569135 CGGCATTTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAG
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* * * *
30569178 CGGCGTTTGTGGGATAAGCGTCGCTAAAGAACATGAGCTTTAA
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* * *
30569221 CGGCATTTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAG
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* * * *
30569264 CGGCGTTTGTGGGATAAGCGTCGCTAAAGAACATGAGCTTTAA
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* * *
30569307 CGGCATTTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAG
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* * * * *
30569350 CGGCGTTTGTGGGATCAGCGCCGCTAAAGAACATAAGCTTTTG
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* *
30569393 CGGCGTTTGTGGGATAAGCACCGCTAAAG-GTCATGACCTTTAA
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAG-CATGACCTTTAG
*
30569436 CGGTGTTT
1 CGGCGTTT
30569444 ATTTCTATAA
Statistics
Matches: 330, Mismatches: 63, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
43 328 0.99
44 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (43 bp):
CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
Found at i:30579048 original size:20 final size:20
Alignment explanation
Indices: 30579015--30579061 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
30579005 ACTAAATATT
* * *
30579015 GATACGTGCCATTTTGTGTC
1 GATACCTGCAATTTTGTATC
30579035 GATACCTGCAATTTTGTATC
1 GATACCTGCAATTTTGTATC
30579055 GATACCT
1 GATACCT
30579062 ACTTTGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (20 bp):
GATACCTGCAATTTTGTATC
Found at i:30581414 original size:51 final size:51
Alignment explanation
Indices: 30581354--30581461 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
30581344 TTCTTTTTAG
30581354 ATATTGATATATTAACTCTTCTAGAGCTTTCAACTAATTTTGTACGACCAA
1 ATATTGATATATTAACTCTTCTAGAGCTTTCAACTAATTTTGTACGACCAA
* * ** *
30581405 ATATTGATATATTAACTTTTCTGGAGCTTTTGACTAATTTTGTACTACCAA
1 ATATTGATATATTAACTCTTCTAGAGCTTTCAACTAATTTTGTACGACCAA
30581456 ATATTG
1 ATATTG
30581462 GAATAATATT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (51 bp):
ATATTGATATATTAACTCTTCTAGAGCTTTCAACTAATTTTGTACGACCAA
Found at i:30589254 original size:150 final size:150
Alignment explanation
Indices: 30588983--30589270 Score: 576
Period size: 150 Copynumber: 1.9 Consensus size: 150
30588973 GAACCAATAT
30588983 TTTCTTGTAGCTTTTGATACTTGCAATTGATGCTTGGATTTTGTGTTAGAAAGATGCAGGCATAA
1 TTTCTTGTAGCTTTTGATACTTGCAATTGATGCTTGGATTTTGTGTTAGAAAGATGCAGGCATAA
30589048 ATCTATCTTATTTTATTTTAATTTTACAATATTGAAATTTACTGACTTGAAAAATGCTGTGGTTG
66 ATCTATCTTATTTTATTTTAATTTTACAATATTGAAATTTACTGACTTGAAAAATGCTGTGGTTG
30589113 TAAAATTTATATGATGAACA
131 TAAAATTTATATGATGAACA
30589133 TTTCTTGTAGCTTTTGATACTTGCAATTGATGCTTGGATTTTGTGTTAGAAAGATGCAGGCATAA
1 TTTCTTGTAGCTTTTGATACTTGCAATTGATGCTTGGATTTTGTGTTAGAAAGATGCAGGCATAA
30589198 ATCTATCTTATTTTATTTTAATTTTACAATATTGAAATTTACTGACTTGAAAAATGCTGTGGTTG
66 ATCTATCTTATTTTATTTTAATTTTACAATATTGAAATTTACTGACTTGAAAAATGCTGTGGTTG
30589263 TAAAATTT
131 TAAAATTT
30589271 GGAATCTATC
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 138 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (150 bp):
TTTCTTGTAGCTTTTGATACTTGCAATTGATGCTTGGATTTTGTGTTAGAAAGATGCAGGCATAA
ATCTATCTTATTTTATTTTAATTTTACAATATTGAAATTTACTGACTTGAAAAATGCTGTGGTTG
TAAAATTTATATGATGAACA
Found at i:30592766 original size:3 final size:3
Alignment explanation
Indices: 30592760--30592789 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
30592750 TTCTATGATT
30592760 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30592790 AACATACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:30594702 original size:13 final size:13
Alignment explanation
Indices: 30594684--30594708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30594674 AAAGAGATTT
30594684 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
30594697 GTTTTCTAGTAA
1 GTTTTCTAGTAA
30594709 GAAATTGAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:30600282 original size:44 final size:43
Alignment explanation
Indices: 30600219--30600807 Score: 295
Period size: 44 Copynumber: 13.1 Consensus size: 43
30600209 GCAGGTTGAA
*
30600219 AAGAAAATAGATCTTGTCTTCATATATTGGCATGAAGTAGATCG
1 AAGAAAATAGATCTTGTCTTCATATAGTGGC-TGAAGTAGATCG
* * * *
30600263 AAGAAAGTAGATATTGTCTTCCCATACTGGTGGC-GAAGTAGATCA
1 AAGAAAATAGATCTTGTCTT--CATA-TAGTGGCTGAAGTAGATCG
* * *
30600308 AAGAAAATAGATCTTGTATTCATGTATTGGCGTGAAGTAGATCG
1 AAGAAAATAGATCTTGTCTTCATATAGTGGC-TGAAGTAGATCG
* *
30600352 AAGAAAACAGATCTTGTCTTCCCATACTGGTGGC-GAAGTAGATCG
1 AAGAAAATAGATCTTGTCTT--CATA-TAGTGGCTGAAGTAGATCG
* * * * *
30600397 AAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 AAGAAAATAGATCTTGTCTTCATATAGTGGC-TGAAGTAGATCG
* * *
30600441 AAGATAACAGATAACAGATTTTGTCTTCCCATACTGGTGGC-GAAGCAGATCG
1 AAG--AA-A-AT---AGATCTTGTCTT--CATA-TAGTGGCTGAAGTAGATCG
** * * *
30600493 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGAGAAGTAGATC-
1 AAGAAAATAGATCTTGTCTTCATATAGTGGC-TGAAGTAGATCG
* ** * * * * **
30600536 AGAGATACCAAATCTTGCCTTCCCATACTGGTGGC-GAAGCAGATTA
1 A-AGAAAATAGATCTTGTCTT--CATA-TAGTGGCTGAAGTAGATCG
** * *
30600582 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-
1 AAGAAAATAGATCTTGTCTTCATATAGTGGC-TGAAGTAGATCG
* * * *
30600625 AA-AAATACCAGATCTTGCCTTC-TCATACCGGTGGC-AAAGTAGATCA
1 AAGAAA-A-TAGATCTTGTCTTCAT-ATA---GTGGCTGAAGTAGATCG
* *
30600671 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-
1 AAGAAAATAGATCTTGTCTTCATATAGTGGC-TGAAGTAGATCG
* * * *
30600714 AA-AAATACCAGATCTTGCCTTC-TCATACCGGTGGC-AAAGTAGATCA
1 AAGAAA-A-TAGATCTTGTCTTCAT-ATA---GTGGCTGAAGTAGATCG
* * *
30600760 AAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 AAGAAAATAGATCTTGTCTTCATATAGTGGC-TGAAGTAGATCG
30600804 AAGA
1 AAGA
30600808 TAACAGGTCC
Statistics
Matches: 419, Mismatches: 75, Indels: 102
0.70 0.13 0.17
Matches are distributed among these distances:
42 34 0.08
43 20 0.05
44 143 0.34
45 137 0.33
46 21 0.05
47 30 0.07
48 1 0.00
49 1 0.00
50 2 0.00
51 10 0.02
52 12 0.03
53 3 0.01
54 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (43 bp):
AAGAAAATAGATCTTGTCTTCATATAGTGGCTGAAGTAGATCG
Found at i:30600369 original size:89 final size:88
Alignment explanation
Indices: 30600218--30600825 Score: 734
Period size: 89 Copynumber: 6.8 Consensus size: 88
30600208 AGCAGGTTGA
* * * ** *
30600218 AAAGAAAATAGATCTTGTCTTCATATATTGGCATGAAGTAGATCGAAGAAAGTAGATATTGTCTT
1 AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-AAGAAAACAGATCTTGTCTT
30600283 CCCATACTGGTGGCGAAGTAGATC
65 CCCATACTGGTGGCGAAGTAGATC
* *
30600307 AAAGAAAATAGATCTTGTATTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTT
1 AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-AAGAAAACAGATCTTGTCTT
30600372 CCCATACTGGTGGCGAAGTAGATC
65 CCCATACTGGTGGCGAAGTAGATC
* * * *
30600396 GAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATAACAGATT
1 AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-AAG-----A-A-AACAGATC
*
30600461 TTGTCTTCCCATACTGGTGGCGAAGCAGATC
58 TTGTCTTCCCATACTGGTGGCGAAGTAGATC
* ** * * * * *
30600492 GAAGAAAGCAGATCTTGTCTTCATGTACTGGCGAGAAGTAGATCAGAGATACCAAATCTTGCCTT
1 AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA-AGAAAACAGATCTTGTCTT
* *
30600557 CCCATACTGGTGGCGAAGCAGATT
65 CCCATACTGGTGGCGAAGTAGATC
** *
30600581 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA-AAATACCAGATCTTGCCT
1 AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGAAA-A-CAGATCTTGTCT
* * *
30600645 TCTCATACCGGTGGCAAAGTAGATC
64 TCCCATACTGGTGGCGAAGTAGATC
*
30600670 AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA-AAATACCAGATCTTGCCT
1 AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGAAA-A-CAGATCTTGTCT
* * *
30600734 TCTCATACCGGTGGCAAAGTAGATC
64 TCCCATACTGGTGGCGAAGTAGATC
* * *
30600759 AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGGTCCTGTCTT
1 AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-AAGAAAACAGATCTTGTCTT
30600824 CC
65 CC
30600826 TATTTCGGTA
Statistics
Matches: 467, Mismatches: 40, Indels: 24
0.88 0.08 0.05
Matches are distributed among these distances:
87 2 0.00
88 1 0.00
89 375 0.80
90 3 0.01
91 3 0.01
94 1 0.00
95 2 0.00
96 80 0.17
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (88 bp):
AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAGAAAACAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATC
Found at i:30600716 original size:274 final size:267
Alignment explanation
Indices: 30600218--30600809 Score: 751
Period size: 274 Copynumber: 2.2 Consensus size: 267
30600208 AGCAGGTTGA
* * * * ** * *
30600218 AAAGAAAATAGATCTTGTCTTCATATATTGGC-ATGAAGTAGATC-GAAGAAAGTAGATATTGTC
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCGA-GAAGTAGATCAG-AGATACCAAATATTGCC
* * *
30600281 TTCCCATACTGGTGGCGAAGTAGATCAAAGAAAATAGATCTTGTATTCATGTATTGGCGTGAAGT
64 TTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTATTCATGTACTGGCGTGAAGT
* * * *
30600346 AGATCGAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATCT
129 AGATCGAAGAAAACAGATCTTGCCTTCCCATACCGGTGGCAAAGTAGATCAAAGAAAACAAATCT
* * *
30600411 TGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATAACAGATTTTGTCTTCCCATACT
194 TGTCTTCATGTACTGGCGTGAAGTAGATC----A-AA-A-ATAACAGATCTTGCCTTCCCATACC
*
30600476 GGTGGCGAAGCAGATC
252 GGTGGCAAAGCAGATC
* * *
30600492 GAAGAAAGCAGATCTTGTCTTCATGTACTGGCGAGAAGTAGATCAGAGATACCAAATCTTGCCTT
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCGAGAAGTAGATCAGAGATACCAAATATTGCCTT
* * *
30600557 CCCATACTGGTGGCGAAGCAGATTAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
66 CCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTATTCATGTACTGGCGTGAAGTAG
* * *
30600622 ATC-AA-AAATACCAGATCTTGCCTTCTCATACCGGTGGCAAAGTAGATCAAAGAAAATAGATCT
131 ATCGAAGAAA-A-CAGATCTTGCCTTCCCATACCGGTGGCAAAGTAGATCAAAGAAAACAAATCT
* *
30600685 TGTCTTCATGTACTGGCGTGAAGTAGATCAAAAATACCAGATCTTGCCTTCTCATACCGGTGGCA
194 TGTCTTCATGTACTGGCGTGAAGTAGATCAAAAATAACAGATCTTGCCTTCCCATACCGGTGGCA
*
30600750 AAGTAGATC
259 AAGCAGATC
* * *
30600759 AAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCGAGAAGTAGATCAGAGATA
30600810 ACAGGTCCTG
Statistics
Matches: 278, Mismatches: 36, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
267 80 0.29
268 1 0.00
269 2 0.01
270 1 0.00
272 3 0.01
273 3 0.01
274 186 0.67
275 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (267 bp):
AAAGAAAACAGATCTTGTCTTCATGTACTGGCGAGAAGTAGATCAGAGATACCAAATATTGCCTT
CCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTATTCATGTACTGGCGTGAAGTAG
ATCGAAGAAAACAGATCTTGCCTTCCCATACCGGTGGCAAAGTAGATCAAAGAAAACAAATCTTG
TCTTCATGTACTGGCGTGAAGTAGATCAAAAATAACAGATCTTGCCTTCCCATACCGGTGGCAAA
GCAGATC
Found at i:30601221 original size:11 final size:11
Alignment explanation
Indices: 30601205--30601284 Score: 69
Period size: 11 Copynumber: 7.4 Consensus size: 11
30601195 ATTTTTTTAA
30601205 TTTTAAAATAT
1 TTTTAAAATAT
30601216 TTTTAAAATACTT
1 TTTTAAAATA--T
**
30601229 TTTTTTAAT-T
1 TTTTAAAATAT
* *
30601239 TTTT---TTAA
1 TTTTAAAATAT
30601247 TTTTAAAATAT
1 TTTTAAAATAT
30601258 TTTTAAAATAT
1 TTTTAAAATAT
30601269 TTTTAAAATACT
1 TTTTAAAATA-T
30601281 TTTT
1 TTTT
30601285 TTTTAAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
7 1 0.02
8 4 0.07
10 5 0.09
11 33 0.59
12 5 0.09
13 8 0.14
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:30601255 original size:42 final size:41
Alignment explanation
Indices: 30601157--30601272 Score: 168
Period size: 42 Copynumber: 2.9 Consensus size: 41
30601147 ATAAATATTT
* * *
30601157 ATTTTTTAAATTTTAAAATATTTTTTACATAC---TTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
30601195 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
30601236 ATTTTTTTTAATTTTAAAATATTTTTAAAATA-TTTTT
1 A-TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
30601273 AAAATACTTT
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
38 29 0.41
41 12 0.17
42 30 0.42
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (41 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
Found at i:30601284 original size:42 final size:40
Alignment explanation
Indices: 30601156--30601303 Score: 166
Period size: 38 Copynumber: 3.8 Consensus size: 40
30601146 AATAAATATT
* * *
30601156 TATTTTTTAAATTTTAAAATATTTTTTACATACTTTTT-A
1 TATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAA
30601195 -ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTAA
1 TATTTTTTTAATTTTAAAATATTTTTAAAATAC---TTTTTAA
30601237 T-TTTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTAA
1 TATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAA
* *
30601275 AATACTTTTT--TTTTAAAAT-TTTTTAAAAT
1 TAT-TTTTTTAATTTTAAAATATTTTTAAAAT
30601304 TTTAAAAATA
Statistics
Matches: 97, Mismatches: 5, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
37 10 0.10
38 45 0.46
39 1 0.01
40 5 0.05
41 5 0.05
42 31 0.32
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (40 bp):
TATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAA
Found at i:30601296 original size:11 final size:11
Alignment explanation
Indices: 30601205--30601306 Score: 52
Period size: 11 Copynumber: 9.1 Consensus size: 11
30601195 ATTTTTTTAA
*
30601205 TTTTAAAATAT
1 TTTTAAAATTT
30601216 TTTTAAAATACTT
1 TTTTAAAAT--TT
**
30601229 TTTTTTAATTT
1 TTTTAAAATTT
*
30601240 TTTT-TAA---
1 TTTTAAAATTT
*
30601247 TTTTAAAATAT
1 TTTTAAAATTT
30601258 TTTTAAAATATT
1 TTTTAAAAT-TT
*
30601270 TTTAAAATACTTTTT
1 TTTTAAA-A---TTT
30601285 TTTTAAAA-TT
1 TTTTAAAATTT
30601295 TTTTAAAATTT
1 TTTTAAAATTT
30601306 T
1 T
30601307 AAAAATAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
7 4 0.06
8 2 0.03
10 13 0.18
11 27 0.38
12 7 0.10
13 9 0.12
14 1 0.01
15 8 0.11
16 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:30607595 original size:18 final size:18
Alignment explanation
Indices: 30607572--30607614 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
30607562 TCTTTATATT
30607572 TATGGGTTG-GGAAGAGGC
1 TATGGGTTGAGG-AGAGGC
30607590 TATGGGTTGAGGAGAGGC
1 TATGGGTTGAGGAGAGGC
30607608 TATGGGT
1 TATGGGT
30607615 AGTTTTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.21, C:0.05, G:0.49, T:0.26
Consensus pattern (18 bp):
TATGGGTTGAGGAGAGGC
Found at i:30608291 original size:24 final size:23
Alignment explanation
Indices: 30608258--30608345 Score: 79
Period size: 24 Copynumber: 3.7 Consensus size: 23
30608248 TCATTAATAT
*
30608258 TGTTCGTGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTA-A
*
30608282 TGTTCATGAACATGTTCATTTAAA
1 TGTTCATGAACATGTTCAATT-AA
** * *
30608306 TGTTTGTGAACATATTCGATTAA
1 TGTTCATGAACATGTTCAATTAA
*
30608329 -GTTAAATGAACATGTTC
1 TGTT-CATGAACATGTTC
30608346 GTGGATATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
22 3 0.06
23 12 0.23
24 36 0.69
25 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTTCATGAACATGTTCAATTAA
Found at i:30623469 original size:34 final size:34
Alignment explanation
Indices: 30623408--30623475 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
30623398 GCACAGTTGA
* *
30623408 ATAGTCTTGGGCCTAAACCCTTTTCAGTATCAGTG
1 ATAGTCTTGGGCCTAAACCCATCTCAGTA-CAGTG
* *
30623443 ATAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ATAGTCTTGGGCCTAAACCCATCTCAGTACAGTG
30623476 TCAAAAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (34 bp):
ATAGTCTTGGGCCTAAACCCATCTCAGTACAGTG
Found at i:30635610 original size:14 final size:14
Alignment explanation
Indices: 30635591--30635636 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
30635581 GACTCGTTAA
30635591 TTTTATATAATTAT
1 TTTTATATAATTAT
30635605 TTTTATA-AATATAT
1 TTTTATATAAT-TAT
* *
30635619 TTTTACATAATTCT
1 TTTTATATAATTAT
30635633 TTTT
1 TTTT
30635637 TCAATCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 22 0.79
15 3 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTATATAATTAT
Found at i:30640178 original size:22 final size:22
Alignment explanation
Indices: 30640152--30640197 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30640142 TTATTCTATG
30640152 AATTG-ATATATGTTTATAAATT
1 AATTGAATAT-TGTTTATAAATT
* *
30640174 AATTGAATATTTTTTCTAAATT
1 AATTGAATATTGTTTATAAATT
30640196 AA
1 AA
30640198 GATAAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
AATTGAATATTGTTTATAAATT
Found at i:30642281 original size:85 final size:85
Alignment explanation
Indices: 30642136--30642456 Score: 511
Period size: 85 Copynumber: 3.8 Consensus size: 85
30642126 ATATTATCCT
* * * *
30642136 CGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATATGGGGAATCAACACATAGCAAC
* *
30642200 CCCTTTCACAATCAAAGATA
66 CCATTTCACAATCAAATATA
30642220 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATATGGGGAATCAACACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATATGGGGAATCAACACATAGCAAC
30642285 CCATTTCACAATCAAATATA
66 CCATTTCACAATCAAATATA
30642305 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATATGGGGAATCAACACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATATGGGGAATCAACACATAGCAAC
30642370 CCATTTCACAATCAAATATA
66 CCATTTCACAATCAAATATA
* * * * * *
30642390 CGGTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAAT-TCGGGGAATCAGCACTTAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATAT-GGGGAATCAACACATAGCAA
30642454 CCC
65 CCC
30642457 CTCGGGGAAT
Statistics
Matches: 223, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
84 27 0.12
85 196 0.88
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATATGGGGAATCAACACATAGCAAC
CCATTTCACAATCAAATATA
Found at i:30642282 original size:42 final size:42
Alignment explanation
Indices: 30642144--30642455 Score: 276
Period size: 42 Copynumber: 7.4 Consensus size: 42
30642134 CTCGGTGGAT
* *
30642144 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACATAGCAACCACCTTTACATTCAGTGATACGGGGAA
* **
30642185 TCAGCACATAGCAACC-CCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACATAGCAACCACCTTT-ACATTCAGTGATACGG-GGAA
* * *
30642228 TCAGCACTTAGCAACCACCTTTATATTCAGTGATATGGGGAA
1 TCAGCACATAGCAACCACCTTTACATTCAGTGATACGGGGAA
* * * *
30642270 TCAACACATAGCAACC-CATTTCACAATCAAAT-ATACGGTGGAA
1 TCAGCACATAGCAACCACCTTT-ACATTC-AGTGATACGG-GGAA
* * *
30642313 TCAGCACTTAGCAACCACCTTTATATTCAGTGATATGGGGAA
1 TCAGCACATAGCAACCACCTTTACATTCAGTGATACGGGGAA
* * * *
30642355 TCAACACATAGCAACC-CATTTCACAATCAAAT-ATACGGTGGAA
1 TCAGCACATAGCAACCACCTTT-ACATTC-AGTGATACGG-GGAA
* * * * * *
30642398 TCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAA
1 TCAGCACATAGCAACCACCTTTACATTCAGTGATACGGGGAA
*
30642440 TCAGCACTTAGCAACC
1 TCAGCACATAGCAACC
30642456 CCTCGGGGAA
Statistics
Matches: 220, Mismatches: 37, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.01
41 25 0.11
42 91 0.41
43 89 0.40
44 13 0.06
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (42 bp):
TCAGCACATAGCAACCACCTTTACATTCAGTGATACGGGGAA
Found at i:30642461 original size:26 final size:26
Alignment explanation
Indices: 30642432--30642484 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
30642422 AATCAATAAT
30642432 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
* *
30642458 TCGGGGAATCTGCACTTAGCGACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
30642484 T
1 T
30642485 TTTTATCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAGCACTTAGCAACCCC
Found at i:30644479 original size:44 final size:42
Alignment explanation
Indices: 30644405--30644555 Score: 110
Period size: 42 Copynumber: 3.5 Consensus size: 42
30644395 ATATATGTTA
* * * * *
30644405 TCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT-TTGAGATT
1 TCGTATAAGACCATGTCTGGGACATCGGCATC-ATATT-AGATT
* *
30644448 TATGTATAAGACCATGTCTGGGACATCGGCATCATATTTGATT
1 T-CGTATAAGACCATGTCTGGGACATCGGCATCATATTAGATT
* * *
30644491 TCGTGTAAGACCCTGTCTGGGACAGT-GCCATCGATATT-GATT
1 TCGTATAAGACCATGTCTGGGACA-TCGGCATC-ATATTAGATT
* * * *
30644533 ACATGTAAGACCACGTCTGGGAC
1 TCGTATAAGACCATGTCTGGGAC
30644556 GTTGGCATTG
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 48 0.54
43 14 0.16
44 27 0.30
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACATCGGCATCATATTAGATT
Found at i:30644508 original size:42 final size:42
Alignment explanation
Indices: 30644454--30644555 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 42
30644444 GATTTATGTA
* * * *
30644454 TAAGACCATGTCTGGGACA-TCGGCATC-ATATTTGATTTCGTG
1 TAAGACCCTGTCTGGGACAGT-GCCATCGATA-TTGATTACATG
30644496 TAAGACCCTGTCTGGGACAGTGCCATCGATATTGATTACATG
1 TAAGACCCTGTCTGGGACAGTGCCATCGATATTGATTACATG
30644538 TAAGACCAC-GTCTGGGAC
1 TAAGACC-CTGTCTGGGAC
30644556 GTTGGCATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
42 48 0.91
43 5 0.09
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (42 bp):
TAAGACCCTGTCTGGGACAGTGCCATCGATATTGATTACATG
Found at i:30646827 original size:30 final size:29
Alignment explanation
Indices: 30646788--30646854 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
30646778 TTTTTTATTT
* *
30646788 AAATAACCCAAATAATTTAATTAAGTACCA
1 AAATGACCCAAAT-ATTTAATTAAATACCA
** *
30646818 AAATGACCCACCTTTTTAATTAAATACCA
1 AAATGACCCAAATATTTAATTAAATACCA
30646847 AAATGACC
1 AAATGACC
30646855 TAAAATCTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.48, C:0.21, G:0.04, T:0.27
Consensus pattern (29 bp):
AAATGACCCAAATATTTAATTAAATACCA
Found at i:30647487 original size:13 final size:13
Alignment explanation
Indices: 30647465--30647511 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
30647455 TATATTTTTC
*
30647465 TTATTCTATTTTGT
1 TTATT-TATTTTAT
30647479 TTATTTATTTTAT
1 TTATTTATTTTAT
30647492 TTATTTATTGTTAT
1 TTATTTATT-TTAT
*
30647506 TAATTT
1 TTATTT
30647512 TAAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.53
14 14 0.47
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:30647676 original size:9 final size:9
Alignment explanation
Indices: 30647662--30647724 Score: 53
Period size: 9 Copynumber: 7.3 Consensus size: 9
30647652 TCCTATTAAA
30647662 AAATATATT
1 AAATATATT
30647671 AAATATATT
1 AAATATATT
*
30647680 AAA-ATTTT
1 AAATATATT
30647688 AAAATATATT
1 -AAATATATT
* **
30647698 ---TTTAAA
1 AAATATATT
30647704 AAATATATT
1 AAATATATT
30647713 AAATATATT
1 AAATATATT
30647722 AAA
1 AAA
30647725 ATTTTAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
6 3 0.07
8 4 0.10
9 30 0.73
10 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAATATATT
Found at i:30647771 original size:71 final size:72
Alignment explanation
Indices: 30647696--30647845 Score: 241
Period size: 70 Copynumber: 2.1 Consensus size: 72
30647686 TTAAAATATA
* *
30647696 TTTTTAAAAAATATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAA-TTTTTTTAATAT
1 TTTTTAAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACTTAACATTTTTTAATAT
30647760 ATTTAAT
66 ATTTAAT
* *
30647767 TTTTT-AAAAATATATTAAATATATTAAAATTTTGAAATTTGCTATACTTAACATTTTTTAATAT
1 TTTTTAAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACTTAACATTTTTTAATAT
30647831 ATTTAAT
66 ATTTAAT
30647838 TTCTTTAA
1 TT-TTTAA
30647846 GTTTTTAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
70 43 0.60
71 25 0.35
72 3 0.04
73 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (72 bp):
TTTTTAAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACTTAACATTTTTTAATAT
ATTTAAT
Found at i:30647779 original size:18 final size:19
Alignment explanation
Indices: 30647739--30647784 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
30647729 TAAAATTGGT
* *
30647739 TATACTTAATTTTTTTAATA
1 TATA-TTAATTTTTTAAAAA
30647759 TAT-TTAATTTTTTAAAAA
1 TATATTAATTTTTTAAAAA
30647777 TATATTAA
1 TATATTAA
30647785 ATATATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 16 0.70
19 4 0.17
20 3 0.13
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATTAATTTTTTAAAAA
Found at i:30647793 original size:20 final size:20
Alignment explanation
Indices: 30647755--30647795 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30647745 TAATTTTTTT
* * *
30647755 AATATATTTAATTTTTTAAA
1 AATATATTAAATATATTAAA
30647775 AATATATTAAATATATTAAA
1 AATATATTAAATATATTAAA
30647795 A
1 A
30647796 TTTTGAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATATTAAATATATTAAA
Found at i:30647921 original size:20 final size:20
Alignment explanation
Indices: 30647898--30647969 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
30647888 TTAAGTACAT
*
30647898 AAATTTATGAATGTGTACTA
1 AAATTTATAAATGTGTACTA
* * ** *
30647918 AAATTAAAAAAT-TAAAATA
1 AAATTTATAAATGTGTACTA
30647937 TAAATTTATAAATGTGTACTA
1 -AAATTTATAAATGTGTACTA
*
30647958 AAATTTAAAAAT
1 AAATTTATAAAT
30647970 TATAACCAAC
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
19 4 0.11
20 30 0.79
21 4 0.11
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (20 bp):
AAATTTATAAATGTGTACTA
Found at i:30647940 original size:40 final size:40
Alignment explanation
Indices: 30647896--30647971 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
30647886 TATTAAGTAC
*
30647896 ATAAATTTATGAATGTGTACTAAAATTAAAAAATTAAAAT
1 ATAAATTTATAAATGTGTACTAAAATTAAAAAATTAAAAT
*
30647936 ATAAATTTATAAATGTGTACTAAAATTTAAAAATTA
1 ATAAATTTATAAATGTGTACTAAAATTAAAAAATTA
30647972 TAACCAACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.37
Consensus pattern (40 bp):
ATAAATTTATAAATGTGTACTAAAATTAAAAAATTAAAAT
Found at i:30650930 original size:16 final size:16
Alignment explanation
Indices: 30650908--30650976 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
30650898 TTTGGTTCGC
30650908 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
30650924 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
30650940 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
30650957 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
30650973 TGTA
1 TGTA
30650977 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:30650954 original size:33 final size:32
Alignment explanation
Indices: 30650908--30650976 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
30650898 TTTGGTTCGC
30650908 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
30650940 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
30650973 TGTA
1 TGTA
30650977 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:30651233 original size:18 final size:17
Alignment explanation
Indices: 30651212--30651246 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30651202 TTATTATTAA
*
30651212 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30651230 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30651247 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30654653 original size:8 final size:9
Alignment explanation
Indices: 30654633--30654662 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
30654623 ATTTTGCAAC
30654633 AAAAATTTA
1 AAAAATTTA
30654642 AAAAATTTA
1 AAAAATTTA
30654651 AAAAATTTA
1 AAAAATTTA
30654660 AAA
1 AAA
30654663 TTTTAGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATTTA
Found at i:30667169 original size:23 final size:23
Alignment explanation
Indices: 30667122--30667169 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30667112 CAAGTTGGAT
*
30667122 AAAACAATTAAAATAATTAACTA
1 AAAACAATTAAAATAAATAACTA
*
30667145 AAAATAATTAAAATAGAATAA-TA
1 AAAACAATTAAAATA-AATAACTA
30667168 AA
1 AA
30667170 TTTACGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (23 bp):
AAAACAATTAAAATAAATAACTA
Found at i:30672548 original size:17 final size:17
Alignment explanation
Indices: 30672526--30672559 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30672516 ATAAAAATAA
30672526 ACTTATGAAAAATTGGT
1 ACTTATGAAAAATTGGT
30672543 ACTTATGAAAAATTGGT
1 ACTTATGAAAAATTGGT
30672560 GAAGGTTTCA
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:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
ACTTATGAAAAATTGGT
Found at i:30675136 original size:18 final size:18
Alignment explanation
Indices: 30675113--30675150 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
30675103 GCCCTAAGTC
30675113 AAATCCGCGACTTTGACA
1 AAATCCGCGACTTTGACA
30675131 AAATCCGCGACTTTGACA
1 AAATCCGCGACTTTGACA
30675149 AA
1 AA
30675151 CTTTACGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (18 bp):
AAATCCGCGACTTTGACA
Found at i:30675336 original size:17 final size:17
Alignment explanation
Indices: 30675314--30675356 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
30675304 TTCAATTGAC
30675314 AAAACTTTTGGTTACTT
1 AAAACTTTTGGTTACTT
30675331 AAAACTTTTGGTTACTT
1 AAAACTTTTGGTTACTT
*
30675348 ATAACTTTT
1 AAAACTTTT
30675357 ATAGGTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (17 bp):
AAAACTTTTGGTTACTT
Found at i:30676272 original size:3 final size:3
Alignment explanation
Indices: 30676264--30676298 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
30676254 ATCACATGTT
30676264 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30676299 TGGATGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30684394 original size:171 final size:171
Alignment explanation
Indices: 30684109--30684443 Score: 607
Period size: 171 Copynumber: 2.0 Consensus size: 171
30684099 AGGAGCTTCA
* *
30684109 ACATCGTCCATGTGGACAAGACCGACAATTGCAAATGCAAAATTGGCTGTGGAGATCTTTGATGG
1 ACATCGTCCATGTGGACAAGACCGACAATTGCAAATGCAAAATTGGCCGTAGAGATCTTTGATGG
*
30684174 CACGGGTCATTTTGGTATGTGGCAAAGTGAGGTTCTAGATGCCCTTTTTCAGCAGGGTCTAGACA
66 CACAGGTCATTTTGGTATGTGGCAAAGTGAGGTTCTAGATGCCCTTTTTCAGCAGGGTCTAGACA
* *
30684239 TTGCCATTGATTAAGAGAAACCAGATGATGTACATGATACC
131 TTGCCATTAATGAAGAGAAACCAGATGATGTACATGATACC
* *
30684280 ACATCGTCCATGTGGACAAGACTGACAATTGCAAATGCAAGATTGGCCGTAGAGATCTTTGATGG
1 ACATCGTCCATGTGGACAAGACCGACAATTGCAAATGCAAAATTGGCCGTAGAGATCTTTGATGG
30684345 CACAGGTCATTTTGGTATGTGGCAAAGTGAGGTTCTAGATGCCCTTTTTCAGCAGGGTCTAGACA
66 CACAGGTCATTTTGGTATGTGGCAAAGTGAGGTTCTAGATGCCCTTTTTCAGCAGGGTCTAGACA
30684410 TTGCCATTAATGAAGAGAAACCAGATGATGTACA
131 TTGCCATTAATGAAGAGAAACCAGATGATGTACA
30684444 AGAGAAAGAT
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
171 157 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (171 bp):
ACATCGTCCATGTGGACAAGACCGACAATTGCAAATGCAAAATTGGCCGTAGAGATCTTTGATGG
CACAGGTCATTTTGGTATGTGGCAAAGTGAGGTTCTAGATGCCCTTTTTCAGCAGGGTCTAGACA
TTGCCATTAATGAAGAGAAACCAGATGATGTACATGATACC
Found at i:30690272 original size:13 final size:13
Alignment explanation
Indices: 30690254--30690281 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30690244 ATCTTGGCCT
30690254 TGTCAACGATGAA
1 TGTCAACGATGAA
30690267 TGTCAACGATGAA
1 TGTCAACGATGAA
30690280 TG
1 TG
30690282 CAATCTTTTC
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:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (13 bp):
TGTCAACGATGAA
Found at i:30690926 original size:21 final size:21
Alignment explanation
Indices: 30690900--30690953 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
30690890 CCATTGTTTT
* * *
30690900 TAATCTCACTGTTACATTATC
1 TAATCTCACCGTTACAATAAC
30690921 TAATCTCACCGTTACAATAAC
1 TAATCTCACCGTTACAATAAC
30690942 TAATCTCACCGT
1 TAATCTCACCGT
30690954 CACCGCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (21 bp):
TAATCTCACCGTTACAATAAC
Found at i:30691335 original size:8 final size:8
Alignment explanation
Indices: 30691324--30691351 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
30691314 CAAAAAAAAA
30691324 AAAAGAAT
1 AAAAGAAT
30691332 AAAAGAAT
1 AAAAGAAT
30691340 AAAAGAAT
1 AAAAGAAT
30691348 AAAA
1 AAAA
30691352 AAAGTAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAGAAT
Found at i:30694851 original size:17 final size:18
Alignment explanation
Indices: 30694824--30694857 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30694814 AAAAAAAATT
30694824 ATAACTTTATTAGGTATA
1 ATAACTTTATTAGGTATA
*
30694842 ATAA-TTTATTTGGTAT
1 ATAACTTTATTAGGTAT
30694858 TCTAGTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (18 bp):
ATAACTTTATTAGGTATA
Found at i:30695718 original size:7 final size:7
Alignment explanation
Indices: 30695694--30695721 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
30695684 AAAACATTTA
30695694 AAATATT
1 AAATATT
30695701 AAATATT
1 AAATATT
30695708 AAATATT
1 AAATATT
30695715 AAATATT
1 AAATATT
30695722 TTCATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:30697504 original size:9 final size:9
Alignment explanation
Indices: 30697492--30697542 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
30697482 TTTAAAAAAT
30697492 TAAAAATTA
1 TAAAAATTA
**
30697501 TAAAAAAAA
1 TAAAAATTA
*
30697510 TAAAAACTA
1 TAAAAATTA
30697519 TTAAAAA-TA
1 -TAAAAATTA
30697528 TAAAAATTA
1 TAAAAATTA
30697537 GTAAAA
1 -TAAAA
30697543 GATTTTCTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 6 0.17
9 18 0.51
10 11 0.31
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (9 bp):
TAAAAATTA
Found at i:30697508 original size:18 final size:18
Alignment explanation
Indices: 30697485--30697542 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
30697475 GCATATATTT
30697485 AAAAAATTAAAAATTATA
1 AAAAAATTAAAAATTATA
* *
30697503 AAAAAAATAAAAACTAT-
1 AAAAAATTAAAAATTATA
*
30697520 TAAAAATATAAAAATTAGTA
1 AAAAAAT-TAAAAATTA-TA
30697540 AAA
1 AAA
30697543 GATTTTCTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 5 0.16
18 23 0.74
19 1 0.03
20 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAAATTAAAAATTATA
Found at i:30698212 original size:9 final size:9
Alignment explanation
Indices: 30698198--30698226 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
30698188 TAAGTGCATG
30698198 AATGGCCCT
1 AATGGCCCT
30698207 AATGGCCCT
1 AATGGCCCT
30698216 AATGGCCCT
1 AATGGCCCT
30698225 AA
1 AA
30698227 ATTCCATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (9 bp):
AATGGCCCT
Found at i:30706222 original size:7 final size:7
Alignment explanation
Indices: 30706195--30706224 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
30706185 TAAGCATAAA
*
30706195 TTCAAAA
1 TTCAAAC
30706202 TTCAAAC
1 TTCAAAC
30706209 TTCAAAC
1 TTCAAAC
30706216 TTCAAAC
1 TTCAAAC
30706223 TT
1 TT
30706225 GCCCATCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (7 bp):
TTCAAAC
Found at i:30726435 original size:21 final size:21
Alignment explanation
Indices: 30726362--30726436 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
30726352 TAACTTAATT
*
30726362 ATTTTAAATATTTTATTAACA
1 ATTTTATATATTTTATTAACA
* *
30726383 ATTTTATGCT-TTTTA-TAA-T
1 ATTTTAT-ATATTTTATTAACA
*
30726402 ATTTTGTATATTTTATTAACA
1 ATTTTATATATTTTATTAACA
30726423 ATTTTA-ATAATTTT
1 ATTTTATAT-ATTTT
30726437 CTATATACAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.02
19 11 0.26
20 8 0.19
21 21 0.50
22 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (21 bp):
ATTTTATATATTTTATTAACA
Found at i:30739600 original size:31 final size:31
Alignment explanation
Indices: 30739565--30739626 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
30739555 TGAACTTCAT
30739565 ATATTCATCTGCATAATACATACATAGGCAA
1 ATATTCATCTGCATAATACATACATAGGCAA
30739596 ATATTCATCTGCATAATACATACATAGGCAA
1 ATATTCATCTGCATAATACATACATAGGCAA
30739627 GTATCATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (31 bp):
ATATTCATCTGCATAATACATACATAGGCAA
Found at i:30744291 original size:35 final size:35
Alignment explanation
Indices: 30744252--30744320 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
30744242 ATCCCAACCA
30744252 ATCTTTCTCTATTAGTTTTCTCTCTTCTCCCATTC
1 ATCTTTCTCTATTAGTTTTCTCTCTTCTCCCATTC
* *
30744287 ATCTTTTTCTCTTAGTTTTCTCTCTTCTCCCATT
1 ATCTTTCTCTATTAGTTTTCTCTCTTCTCCCATT
30744321 TGAGAATTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.10, C:0.30, G:0.03, T:0.57
Consensus pattern (35 bp):
ATCTTTCTCTATTAGTTTTCTCTCTTCTCCCATTC
Found at i:30758474 original size:24 final size:24
Alignment explanation
Indices: 30758447--30758507 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
30758437 TTTTAGTATA
*
30758447 ATTTTTAGTTTTAAACTTTTGCAG
1 ATTTTTAGTTTTAAACTTGTGCAG
* * * **
30758471 ATTTTAAAGTTTCAATCTTGTGGTG
1 ATTTT-TAGTTTTAAACTTGTGCAG
30758496 ATTTTTAGTTTT
1 ATTTTTAGTTTT
30758508 TGTAATTTTC
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.56
Consensus pattern (24 bp):
ATTTTTAGTTTTAAACTTGTGCAG
Found at i:30763068 original size:19 final size:20
Alignment explanation
Indices: 30763044--30763081 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
30763034 GGTACCACTA
30763044 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
30763063 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
30763082 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:30763377 original size:46 final size:46
Alignment explanation
Indices: 30763310--30764221 Score: 612
Period size: 46 Copynumber: 19.7 Consensus size: 46
30763300 TGCCCCTAAG
* * * *
30763310 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * * *
30763356 TGAACTCAGACTCAACTCAACGAGTTCGGATGCCTATTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA--CAT-TTGCATCCATAAA
* *
30763402 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
*** *
30763448 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAACCATCC-TAGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA--CAT-TTGCATCCATAAA
** * * *
30763495 CAAACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * * *
30763541 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-TCACA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC-ATTTGCATCCAT-AAA
* * *
30763590 --AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * * *
30763634 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-TCACA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC-ATTTGCATCCAT-AAA
* * *
30763683 --AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * * *
30763727 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-TCACA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC-ATTTGCATCCAT-AAA
* * *
30763776 --AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * * *
30763820 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-TCACA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC-ATTTGCATCCAT-AAA
* * *
30763869 --AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * * *
30763913 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-TCACA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC-ATTTGCATCCAT-AAA
* * *
30763962 --AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * * *
30764006 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-TCACA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC-ATTTGCATCCAT-AAA
* * *
30764055 --AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * * *
30764099 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-TCACA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC-ATTTGCATCCAT-AAA
* * *
30764148 --AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
30764192 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
30764222 TGCTCAACCA
Statistics
Matches: 662, Mismatches: 130, Indels: 148
0.70 0.14 0.16
Matches are distributed among these distances:
43 47 0.07
44 24 0.04
45 14 0.02
46 289 0.44
47 205 0.31
48 16 0.02
49 25 0.04
50 42 0.06
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
Found at i:30763538 original size:93 final size:91
Alignment explanation
Indices: 30763312--30764224 Score: 1506
Period size: 93 Copynumber: 9.8 Consensus size: 91
30763302 CCCCTAAGTG
** ** * * * *
30763312 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
30763377 GAGTTCGGATGCCTATTACATCTCACG
66 GAGTTCAGATGCCTA-TACATCTCACA
* *
30763404 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
30763469 GAGTTCGGATG-CTCA-ACCATCCTAGACA
66 GAGTTCAGATGCCT-ATA-CAT-CT-CACA
30763497 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
30763562 GAGTTCAGATGCCTAGTTACATCTCACA
66 GAGTTCAGATGCCTA--TACATCTCACA
30763590 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
30763655 GAGTTCAGATGCCTAGTTACATCTCACA
66 GAGTTCAGATGCCTA--TACATCTCACA
30763683 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
30763748 GAGTTCAGATGCCTAGTTACATCTCACA
66 GAGTTCAGATGCCTA--TACATCTCACA
30763776 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
30763841 GAGTTCAGATGCCTAGTTACATCTCACA
66 GAGTTCAGATGCCTA--TACATCTCACA
30763869 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
30763934 GAGTTCAGATGCCTAGTTACATCTCACA
66 GAGTTCAGATGCCTA--TACATCTCACA
30763962 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
30764027 GAGTTCAGATGCCTAGTTACATCTCACA
66 GAGTTCAGATGCCTA--TACATCTCACA
30764055 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
30764120 GAGTTCAGATGCCTAGTTACATCTCACA
66 GAGTTCAGATGCCTA--TACATCTCACA
30764148 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
30764213 GAGTTCGGATGC
66 GAGTTCAGATGC
30764225 TCAACCATCC
Statistics
Matches: 800, Mismatches: 13, Indels: 15
0.97 0.02 0.02
Matches are distributed among these distances:
90 1 0.00
91 5 0.01
92 73 0.09
93 713 0.89
94 4 0.00
95 3 0.00
96 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (91 bp):
AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCAGATGCCTATACATCTCACA
Found at i:30764678 original size:30 final size:30
Alignment explanation
Indices: 30764644--30764703 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
30764634 ATTTAATACG
30764644 AACTTTAAG-AAAATTACACTTTTGCCCCTA
1 AACTTT-AGCAAAATTACACTTTTGCCCCTA
* *
30764674 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGCAAAATTACACTTTTGCCCCTA
30764704 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGCAAAATTACACTTTTGCCCCTA
Found at i:30771402 original size:19 final size:20
Alignment explanation
Indices: 30771378--30771415 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
30771368 GGTACCACCA
30771378 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
30771397 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
30771416 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:30771756 original size:93 final size:93
Alignment explanation
Indices: 30771646--30771815 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
30771636 CCCCTAAGTG
* * *
30771646 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
30771711 GAGTTCAGATGCCTAGTTACATCTCACA
66 GAGTTCAGATGCCTAGTTACATCTCACA
* * * *
30771739 AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
*
30771804 GAGTTCGGATGC
66 GAGTTCAGATGC
30771816 TCAACCAACC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCAGATGCCTAGTTACATCTCACA
Found at i:30771805 original size:46 final size:46
Alignment explanation
Indices: 30771640--30771810 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
30771630 AACCCGCCCC
* ** * *
30771640 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGTACATTTGCATCCA
* * * *
30771686 TAAATGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G-T-AC-ATTTGCATC-CA
* *
30771737 -CA---AACTCGGACTCAACTCAACGAATTCGTACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGTACATTTGCATCCA
30771779 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
30771811 GATGCTCAAC
Statistics
Matches: 101, Mismatches: 15, Indels: 18
0.75 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 8 0.08
44 1 0.01
45 1 0.01
46 55 0.54
47 25 0.25
49 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGTACATTTGCATCCA
Found at i:30777883 original size:28 final size:30
Alignment explanation
Indices: 30777825--30777888 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 30
30777815 ACTACAAAAC
*
30777825 ATTTATTATTAATATATATAATTGTAATGAAT
1 ATTTATTATTAAAATATATAA-T-TAATGAAT
*
30777857 ATTTATTATTAAAATAT-TAA-TATTGAAT
1 ATTTATTATTAAAATATATAATTAATGAAT
30777885 ATTT
1 ATTT
30777889 TTAATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 11 0.37
31 3 0.10
32 16 0.53
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (30 bp):
ATTTATTATTAAAATATATAATTAATGAAT
Found at i:30778056 original size:33 final size:30
Alignment explanation
Indices: 30778019--30778098 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 30
30778009 ATTATATTAC
30778019 TAAAAATAAATA-ATTAAATATGTTTAATAATA
1 TAAAAATAAATATATTAAATAT-TTTAA-AA-A
* *
30778051 TTAAAATATAATATTTTAAATATTTTAAAAA
1 TAAAAATA-AATATATTAAATATTTTAAAAA
*
30778082 TAAAAATAAAAATATTA
1 TAAAAATAAATATATTA
30778099 TCAATATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
30 7 0.17
31 8 0.20
32 9 0.22
33 9 0.22
34 8 0.20
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (30 bp):
TAAAAATAAATATATTAAATATTTTAAAAA
Found at i:30778072 original size:25 final size:23
Alignment explanation
Indices: 30778035--30778084 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
30778025 TAAATAATTA
30778035 AATATGTTTAATAATATTAAAATAT
1 AATATGTTTAAT-ATATTAAAA-AT
*
30778060 AATAT-TTTAAATATTTTAAAAAT
1 AATATGTTT-AATATATTAAAAAT
30778083 AA
1 AA
30778085 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 11 0.48
25 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AATATGTTTAATATATTAAAAAT
Found at i:30781791 original size:43 final size:39
Alignment explanation
Indices: 30781744--30781847 Score: 113
Period size: 38 Copynumber: 2.6 Consensus size: 39
30781734 GTTGGGCGTG
30781744 TAGGCCCACACTGGCATGACACGCGGGCGTGTGGTTTTTAGGC
1 TAGGCCCACA-TGG-A--ACACGCGGGCGTGTGGTTTTTAGGC
* *
30781787 TAGG-CCGCATGGACCACGCGGGCGTGTGGTTTTTAGGC
1 TAGGCCCACATGGAACACGCGGGCGTGTGGTTTTTAGGC
* * *
30781825 TAGG-CCGCATGGACCACACGGGC
1 TAGGCCCACATGGAACACGCGGGC
30781848 AAGGCTAATC
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
38 46 0.79
40 1 0.02
41 3 0.05
42 4 0.07
43 4 0.07
ACGTcount: A:0.16, C:0.27, G:0.37, T:0.20
Consensus pattern (39 bp):
TAGGCCCACATGGAACACGCGGGCGTGTGGTTTTTAGGC
Found at i:30781805 original size:38 final size:38
Alignment explanation
Indices: 30781763--30781847 Score: 161
Period size: 38 Copynumber: 2.2 Consensus size: 38
30781753 ACTGGCATGA
30781763 CACGCGGGCGTGTGGTTTTTAGGCTAGGCCGCATGGAC
1 CACGCGGGCGTGTGGTTTTTAGGCTAGGCCGCATGGAC
30781801 CACGCGGGCGTGTGGTTTTTAGGCTAGGCCGCATGGAC
1 CACGCGGGCGTGTGGTTTTTAGGCTAGGCCGCATGGAC
*
30781839 CACACGGGC
1 CACGCGGGC
30781848 AAGGCTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.14, C:0.26, G:0.39, T:0.21
Consensus pattern (38 bp):
CACGCGGGCGTGTGGTTTTTAGGCTAGGCCGCATGGAC
Found at i:30794207 original size:5 final size:5
Alignment explanation
Indices: 30794197--30794237 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
30794187 AATCTATTTG
30794197 TTTTA TTTTA TTTTA CTTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA --TTTTA TTTTA TTTTA TTTTA TTTT
30794238 TACAAATTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 29 0.85
7 5 0.15
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:30794225 original size:22 final size:21
Alignment explanation
Indices: 30794197--30794239 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
30794187 AATCTATTTG
30794197 TTTTATTTTATTTTACTTTTTA
1 TTTTATTTTATTTTA-TTTTTA
30794219 TTTTATTTTATTTTATTTTTA
1 TTTTATTTTATTTTATTTTTA
30794240 CAAATTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTATTTTATTTTATTTTTA
Found at i:30799535 original size:25 final size:26
Alignment explanation
Indices: 30799484--30799535 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
30799474 TTATTTTTAT
*
30799484 TTTTATTAAAATATATTTAACAATAA
1 TTTTATTAAAATATATATAACAATAA
*
30799510 TTTTATTAAAATTTA-ATAACAATAA
1 TTTTATTAAAATATATATAACAATAA
30799535 T
1 T
30799536 AATAATCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTTATTAAAATATATATAACAATAA
Found at i:30799709 original size:16 final size:16
Alignment explanation
Indices: 30799688--30799758 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
30799678 TGAATTACTT
*
30799688 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
30799704 ATTACAGCTCTATTAC
1 ATTACAGCTCTATTCC
*
30799720 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
30799736 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
30799752 ATTACAG
1 ATTACAG
30799759 TGAACCAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:30803809 original size:5 final size:5
Alignment explanation
Indices: 30803799--30803832 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
30803789 TCTATGTGTT
30803799 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
30803833 CACACGATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:30805126 original size:24 final size:24
Alignment explanation
Indices: 30805083--30805147 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
30805073 TTATTTTTAA
* * *
30805083 AAAAAGGCTCCAATTATTAA-TTCC
1 AAAAAGGTTCCAACTGTTAAGTT-C
30805107 AAAAAGGTTCCAACTGTTAAGTTC
1 AAAAAGGTTCCAACTGTTAAGTTC
*
30805131 AAAGAA-GTCCCAACTGT
1 AAA-AAGGTTCCAACTGT
30805148 GGAAGTAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 31 0.89
25 4 0.11
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (24 bp):
AAAAAGGTTCCAACTGTTAAGTTC
Found at i:30806575 original size:21 final size:21
Alignment explanation
Indices: 30806551--30806599 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
30806541 ATATCACCAA
30806551 TGGCTTCAGCAAGATCAATGG
1 TGGCTTCAGCAAGATCAATGG
** *
30806572 TGGCTTCAGCAATTTCTATGG
1 TGGCTTCAGCAAGATCAATGG
30806593 TGGCTTC
1 TGGCTTC
30806600 CAAAACGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (21 bp):
TGGCTTCAGCAAGATCAATGG
Found at i:30807419 original size:9 final size:9
Alignment explanation
Indices: 30807405--30807478 Score: 61
Period size: 9 Copynumber: 8.7 Consensus size: 9
30807395 CTTTATAATT
30807405 TTTTAATAA
1 TTTTAATAA
*
30807414 TTTTAATGA
1 TTTTAATAA
30807423 TTTT--TAA
1 TTTTAATAA
30807430 TTTT--TAA
1 TTTTAATAA
30807437 TTTTTAA-AA
1 -TTTTAATAA
*
30807446 TTTTTTATAA
1 -TTTTAATAA
30807456 TTTTAA-AA
1 TTTTAATAA
*
30807464 TTTTTATAA
1 TTTTAATAA
30807473 TTTTAA
1 TTTTAA
30807479 AAAATAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
7 9 0.17
8 11 0.20
9 32 0.59
10 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTAATAA
Found at i:30807459 original size:18 final size:17
Alignment explanation
Indices: 30807405--30807480 Score: 84
Period size: 17 Copynumber: 4.5 Consensus size: 17
30807395 CTTTATAATT
* *
30807405 TTTTAATAATTTTAATGA
1 TTTTAA-AATTTTTATAA
* *
30807423 TTTT-TAATTTTTA-AT
1 TTTTAAAATTTTTATAA
30807438 TTTTAAAATTTTTTATAA
1 TTTTAAAA-TTTTTATAA
30807456 TTTTAAAATTTTTATAA
1 TTTTAAAATTTTTATAA
30807473 TTTTAAAA
1 TTTTAAAA
30807481 AATAAATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
15 4 0.08
16 9 0.18
17 23 0.47
18 13 0.27
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (17 bp):
TTTTAAAATTTTTATAA
Found at i:30819497 original size:42 final size:42
Alignment explanation
Indices: 30819450--30819529 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
30819440 AGTCCATATG
30819450 CTTTTAAAATTTTAGTTCCACTAAATTTTGCTATTTTCTGGA
1 CTTTTAAAATTTTAGTTCCACTAAATTTTGCTATTTTCTGGA
*
30819492 CTTTTAAAATTTTAGTTCCATTAAATTTTGCTATTTTC
1 CTTTTAAAATTTTAGTTCCACTAAATTTTGCTATTTTC
30819530 AAAAATTGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (42 bp):
CTTTTAAAATTTTAGTTCCACTAAATTTTGCTATTTTCTGGA
Found at i:30827560 original size:15 final size:15
Alignment explanation
Indices: 30827540--30827569 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30827530 AAAAGTGCAT
*
30827540 TTTAACGTATTTAAA
1 TTTAACGCATTTAAA
30827555 TTTAACGCATTTAAA
1 TTTAACGCATTTAAA
30827570 CTTACATTTT
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:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (15 bp):
TTTAACGCATTTAAA
Found at i:30831384 original size:130 final size:130
Alignment explanation
Indices: 30831241--30831500 Score: 511
Period size: 130 Copynumber: 2.0 Consensus size: 130
30831231 GTGGCACTAT
30831241 TTATTTTATATATCACGTCAATAAATAATTTAAATTTTATAAATATATTTAAAAAATAAAAAATA
1 TTATTTTATATATCACGTCAATAAATAATTTAAATTTTATAAATATATTTAAAAAATAAAAAATA
30831306 AAAAATTTCAAAACAATCTATAAAAAATTAATGTGTATTGTCATACGAGTTGTCATGCACGTTTA
66 AAAAATTTCAAAACAATCTATAAAAAATTAATGTGTATTGTCATACGAGTTGTCATGCACGTTTA
30831371 TTATTTTATATATCACGTCAATAAATAATTTAAATTTTATAAATATATTTAAAAAATAAAAAATA
1 TTATTTTATATATCACGTCAATAAATAATTTAAATTTTATAAATATATTTAAAAAATAAAAAATA
*
30831436 AAAAATTTCAAAACAATCTATAAAAAATTAATGTGTATTGTCATACGAGTTGTCATGCATGTTTA
66 AAAAATTTCAAAACAATCTATAAAAAATTAATGTGTATTGTCATACGAGTTGTCATGCACGTTTA
30831501 AAATTTTAAG
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (130 bp):
TTATTTTATATATCACGTCAATAAATAATTTAAATTTTATAAATATATTTAAAAAATAAAAAATA
AAAAATTTCAAAACAATCTATAAAAAATTAATGTGTATTGTCATACGAGTTGTCATGCACGTTTA
Found at i:30831579 original size:31 final size:31
Alignment explanation
Indices: 30831541--30831599 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
30831531 TAGCAATTCA
*
30831541 ACTCATTTTAAAAGGTTGATAATCAAATTTG
1 ACTCATTTTAAAAGATTGATAATCAAATTTG
30831572 ACTCATTTTAAAAGATTGATAATCAAAT
1 ACTCATTTTAAAAGATTGATAATCAAAT
30831600 ATATGCACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (31 bp):
ACTCATTTTAAAAGATTGATAATCAAATTTG
Found at i:30832070 original size:226 final size:226
Alignment explanation
Indices: 30831627--30832303 Score: 1140
Period size: 226 Copynumber: 3.0 Consensus size: 226
30831617 ACTAACTTCA
*
30831627 TAGTTTTAACAAAGCACCAGTAAACTAAACAAGGCAATATTCTTCTCAAATTCTATCCATAATTA
1 TAGTTTTAATAAAGCACCAGTAAACTAAACAAGGCAATATTCTTCTCAAATTCTATCCATAATTA
* *
30831692 GCAAATTACATATATTTCATGCATAAAGTGATAAGAAGATCACTGGCGAGAAAATAAATACATGT
66 GCAAATTACATATATTTCATGCATAAAGTGAAAAGAAGATCTCT-G-GAGAAAATAAATACATGT
* *
30831757 GCCTTTCTTCTGAATTTTTTGTATTATTGAGTTGATTACGCTGTGATCTTCTCTAATTAATATAA
129 GCCTTTCTTCTCAATTTTTTGTATTATTGAGTTGATTACACTGTGATCTTCTCTAATTAATATAA
* *
30831822 TCATGCCAAATATAACCAACCTTACACTCTTAG
194 TCATGCCAAATATAAGCAACCTTACAATCTTAG
*
30831855 TAGTTTTAATAAAGCCCCAGTAAACTAAACAAGGCAATATTCTTCTCAAATTCTATCCATAATTA
1 TAGTTTTAATAAAGCACCAGTAAACTAAACAAGGCAATATTCTTCTCAAATTCTATCCATAATTA
30831920 GCAAATTACATATATTTCATGCATAAAGTGAAAAGAAGATCTCTGGAGAAAATAAATACATGTGC
66 GCAAATTACATATATTTCATGCATAAAGTGAAAAGAAGATCTCTGGAGAAAATAAATACATGTGC
*
30831985 CTTTCTTCTCAATTTTTTGTATTATTGAATTGATTACACTGTGATCTTCTCTAATTAATATAATC
131 CTTTCTTCTCAATTTTTTGTATTATTGAGTTGATTACACTGTGATCTTCTCTAATTAATATAATC
30832050 ATGCCAAATATAAGCAACCTTACAATCTTAG
196 ATGCCAAATATAAGCAACCTTACAATCTTAG
* *
30832081 TAGTTTTAATATAGCACCAGTAAACTAAAGAAGGCAATATTCTTCTC-AATTCTATCCATAATTA
1 TAGTTTTAATAAAGCACCAGTAAACTAAACAAGGCAATATTCTTCTCAAATTCTATCCATAATTA
*
30832145 GCAAATTACATATATTTCATGCATAAAGTGATAATTAAGAAGATATCTGGAGAAAATAAATACAT
66 GCAAATTACATATATTTCATGCATAAAGTG--AA--AAGAAGATCTCTGGAGAAAATAAATACAT
* * *
30832210 GTGCCTTTCTTCTCAATGTTTTTGTATTATTGTGTTGATTAGACTGTGATCTTCTCTAATTAATT
127 GTGCCTTTCTTCTCAAT-TTTTTGTATTATTGAGTTGATTACACTGTGATCTTCTCTAATTAATA
*
30832275 TAATCATGCCTAATATAAGCAACCTTACA
191 TAATCATGCCAAATATAAGCAACCTTACA
30832304 TTAATTCTAT
Statistics
Matches: 426, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
225 47 0.11
226 155 0.36
227 3 0.01
228 105 0.25
229 45 0.11
230 71 0.17
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (226 bp):
TAGTTTTAATAAAGCACCAGTAAACTAAACAAGGCAATATTCTTCTCAAATTCTATCCATAATTA
GCAAATTACATATATTTCATGCATAAAGTGAAAAGAAGATCTCTGGAGAAAATAAATACATGTGC
CTTTCTTCTCAATTTTTTGTATTATTGAGTTGATTACACTGTGATCTTCTCTAATTAATATAATC
ATGCCAAATATAAGCAACCTTACAATCTTAG
Found at i:30838711 original size:53 final size:53
Alignment explanation
Indices: 30838626--30838731 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
30838616 TTACGACCTG
*
30838626 GTTGTCTTTTTATATGTTTGGTGTCTGCATTATCTATCTTGAGCTCAGATGAT
1 GTTGCCTTTTTATATGTTTGGTGTCTGCATTATCTATCTTGAGCTCAGATGAT
30838679 GTTGCCTTTTTATATGTTTGGTGTCTGCATTATCTATCTTGAGCTCAGATGAT
1 GTTGCCTTTTTATATGTTTGGTGTCTGCATTATCTATCTTGAGCTCAGATGAT
30838732 TTTTGTCGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (53 bp):
GTTGCCTTTTTATATGTTTGGTGTCTGCATTATCTATCTTGAGCTCAGATGAT
Found at i:30842872 original size:44 final size:44
Alignment explanation
Indices: 30842808--30843183 Score: 274
Period size: 44 Copynumber: 8.8 Consensus size: 44
30842798 NNNNNNTATG
* *
30842808 GGAAGACAAGATCTG-TATCTTGGATCCACTTCCTATCAATATA
1 GGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACCAATATA
* * * * * * *
30842851 GGAAGATAGGACCTGCTATCTTCGATCTACTTCATGCCAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACCAATATA
* * * * *
30842895 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
1 GGAAGACAAGATCTGCTATCTTCGATCCACTTC-CTACCAATATA
30842940 GGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATA
1 GGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACCAATATA
* * * * * * * **
30842983 GGAAGATAGGATCAGCTATCTCCGATCTACTTCTTGCC----CC
1 GGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACCAATATA
* * * * * * *
30843023 GGGAGA-TAGA---ACTATCTTTGATCTACTTCAC-GCCAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCCACTTC-CTACCAATATA
* * * * *
30843063 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
1 GGAAGACAAGATCTGCTATCTTCGATCCACTTC-CTACCAATATA
30843108 GGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATA
1 GGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACCAATATA
* * * *
30843151 GGAAGATAGGACCTGCTA-CTTTCGATCTACTTC
1 GGAAGACAAGATCTGCTATC-TTCGATCCACTTC
30843184 ACGCCAATAC
Statistics
Matches: 258, Mismatches: 60, Indels: 29
0.74 0.17 0.08
Matches are distributed among these distances:
36 19 0.07
39 2 0.01
40 10 0.04
41 3 0.01
43 57 0.22
44 125 0.48
45 42 0.16
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
GGAAGACAAGATCTGCTATCTTCGATCCACTTCCTACCAATATA
Found at i:30842964 original size:88 final size:88
Alignment explanation
Indices: 30842808--30843183 Score: 337
Period size: 88 Copynumber: 4.4 Consensus size: 88
30842798 NNNNNNTATG
* * * * * * * * *
30842808 GGAAGACAAGATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAAGATAGGACCTGCTATC
1 GGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATC
* *
30842871 TTCGATCTACTTCATGCCAATACA
65 TTCGATCCACTTCATACCAATACA
*
30842895 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
1 GGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
* *
30842960 TCGATCCACTTCCTACCAATATA
66 TCGATCCACTTCATACCAATACA
* * * * * * *
30842983 GGAAGATAGGATCAGCTATCTCCGATCTACTTCTTGCC-CC-----GGG-AGA-TAGAACT--AT
1 GGAAGACAAGATCTGCTTTCTTCGATCTACTTC--GCCACCAATATGGGAAGACAAGATCTGCAT
* * **
30843038 CTTTGATCTACTTCACGCCAATACA
64 CTTCGATCCACTTCATACCAATACA
*
30843063 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
1 GGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
* *
30843128 TCGATCCACTTCCTACCAATATA
66 TCGATCCACTTCATACCAATACA
* * * *
30843151 GGAAGATAGGACCTGC-TACTTTCGATCTACTTC
1 GGAAGACAAGATCTGCTTTC-TTCGATCTACTTC
30843184 ACGCCAATAC
Statistics
Matches: 227, Mismatches: 47, Indels: 29
0.75 0.16 0.10
Matches are distributed among these distances:
78 3 0.01
79 2 0.01
80 48 0.21
82 5 0.02
83 3 0.01
84 6 0.03
85 3 0.01
86 5 0.02
87 16 0.07
88 110 0.48
89 23 0.10
90 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (88 bp):
GGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
TCGATCCACTTCATACCAATACA
Found at i:30843144 original size:168 final size:168
Alignment explanation
Indices: 30842866--30843183 Score: 575
Period size: 168 Copynumber: 1.9 Consensus size: 168
30842856 ATAGGACCTG
*
30842866 CTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
*
30842931 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATC
66 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACC
30842996 AGCTA-TCTCCGATCTACTTCTTGCCCCGGGAGATAGAA
131 AGCTACT-TCCGATCTACTTCTTGCCCCGGGAGATAGAA
*
30843034 CTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
30843099 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACC
66 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACC
* *
30843164 TGCTACTTTCGATCTACTTC
131 AGCTACTTCCGATCTACTTC
30843184 ACGCCAATAC
Statistics
Matches: 144, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
168 143 0.99
169 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (168 bp):
CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACC
AGCTACTTCCGATCTACTTCTTGCCCCGGGAGATAGAA
Found at i:30843191 original size:44 final size:45
Alignment explanation
Indices: 30843037--30843208 Score: 156
Period size: 44 Copynumber: 3.9 Consensus size: 45
30843027 GATAGAACTA
* * * * *
30843037 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT-T
1 TCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTAC
* *
30843081 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-A-
1 TCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCTAC
* * * *
30843125 TCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTAC
1 TCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTAC
* * * *
30843170 T-TTCGATCTACTTCACGCCAATACATGAAGACAGGATCT
1 TCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCT
30843209 ACTTTAATGA
Statistics
Matches: 105, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.01
43 21 0.20
44 59 0.56
45 24 0.23
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (45 bp):
TCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTAC
Found at i:30866344 original size:46 final size:47
Alignment explanation
Indices: 30866149--30866422 Score: 177
Period size: 46 Copynumber: 5.8 Consensus size: 47
30866139 GGGTAAGTGT
* * * *
30866149 GCCGATGCCATGTCCCATG-CAAGGTCTTACACTAGTTATCATCAACGAG
1 GCCGATGCCATGTCCCA-GACATGGTCTTACACTGGCT-TCATC-CCGAG
* * * * *
30866198 GCCAATGCCATGTCCCAGACATAGTCTTACACTAGCTTTCCCATATCCG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TT--CAT-CCCGAG
* * * *
30866248 GCCGATGCCATGTCCCAGACATGGTCTTACGCTGGC-GCATCTC-ATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATCCCGA-G
*
30866294 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCCCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATCCCGAG
* * * * * * * * *
30866340 GCCGATG-CATGTCCCAAACAT-ATTTTACACTGACACTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCATCCCGAG
* *
30866386 GCCGATGCCATGTCCCAGGCATGGTCTTACGCTGGCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
30866423 CTCAAAATAT
Statistics
Matches: 177, Mismatches: 35, Indels: 28
0.74 0.15 0.12
Matches are distributed among these distances:
44 12 0.07
45 15 0.08
46 57 0.32
47 14 0.08
48 10 0.06
49 31 0.18
50 33 0.19
51 5 0.03
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATCCCGAG
Found at i:30876974 original size:22 final size:22
Alignment explanation
Indices: 30876949--30876995 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
30876939 CATTAATTTG
30876949 CATGTCGTATAAATTATTGGTT
1 CATGTCGTATAAATTATTGGTT
30876971 CATGTCGTATAAATTATTGGTT
1 CATGTCGTATAAATTATTGGTT
30876993 CAT
1 CAT
30876996 TAGATCATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (22 bp):
CATGTCGTATAAATTATTGGTT
Found at i:30878396 original size:88 final size:88
Alignment explanation
Indices: 30878241--30878507 Score: 509
Period size: 88 Copynumber: 3.0 Consensus size: 88
30878231 GGTTTCGACA
* *
30878241 GCATGT-ACTTAGGAATTGTAAGAGTTCGAAAAGGGACTAGGCCAGAGTTCATTATGCAATGAAA
1 GCATGTAACTTAGGAATTGTAAGAGTTCGAGAAGGGACTAGGCCGGAGTTCATTATGCAATGAAA
30878305 ACTTTGTTTCTTAGTCGTAACTT
66 ACTTTGTTTCTTAGTCGTAACTT
30878328 GCATGTAACTTAGGAATTGTAAGAGTTCGAGAAGGGACTAGGCCGGAGTTCATTATGCAATGAAA
1 GCATGTAACTTAGGAATTGTAAGAGTTCGAGAAGGGACTAGGCCGGAGTTCATTATGCAATGAAA
30878393 ACTTTGTTTCTTAGTCGTAACTT
66 ACTTTGTTTCTTAGTCGTAACTT
30878416 GCATGTAACTTAGGAATTGTAAGAGTTCGAGAAGGGACTAGGCCGGAGTTCATTATGCAATGAAA
1 GCATGTAACTTAGGAATTGTAAGAGTTCGAGAAGGGACTAGGCCGGAGTTCATTATGCAATGAAA
30878481 ACTTTGTTTCTTAGTCGTAACTT
66 ACTTTGTTTCTTAGTCGTAACTT
30878504 GCAT
1 GCAT
30878508 ACAGCGGAGA
Statistics
Matches: 177, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
87 6 0.03
88 171 0.97
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (88 bp):
GCATGTAACTTAGGAATTGTAAGAGTTCGAGAAGGGACTAGGCCGGAGTTCATTATGCAATGAAA
ACTTTGTTTCTTAGTCGTAACTT
Found at i:30879626 original size:26 final size:25
Alignment explanation
Indices: 30879584--30879634 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
30879574 AAATATTATC
*
30879584 AATAAAATAAATATTATCATATTTAA
1 AATAAAATAAATATTAT-AGATTTAA
*
30879610 AATAAAAT-CATATTTATAGATTTAA
1 AATAAAATAAATA-TTATAGATTTAA
30879635 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
AATAAAATAAATATTATAGATTTAA
Found at i:30888311 original size:30 final size:30
Alignment explanation
Indices: 30888275--30888333 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30888265 TTAGTAAAAA
*
30888275 TAAAATTATACTTTAA-CTTCTTAAAAATGT
1 TAAAATTATAATTTAATCTT-TTAAAAATGT
30888305 TAAAATTATAATTTAATCTTTTAAAAATG
1 TAAAATTATAATTTAATCTTTTAAAAATG
30888334 ATATTTTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (30 bp):
TAAAATTATAATTTAATCTTTTAAAAATGT
Found at i:30888331 original size:22 final size:24
Alignment explanation
Indices: 30888306--30888366 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 24
30888296 TAAAAATGTT
30888306 AAAATTATAATTTAATCT-TT-TA
1 AAAATTATAATTTAATCTATTATA
* * *
30888328 AAAATGATATTTTTA-CTATTATA
1 AAAATTATAATTTAATCTATTATA
30888351 AAAATTATAATTTAAT
1 AAAATTATAATTTAAT
30888367 TTTAACTCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 2 0.07
22 14 0.47
23 14 0.47
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
AAAATTATAATTTAATCTATTATA
Found at i:30889182 original size:11 final size:11
Alignment explanation
Indices: 30889166--30889190 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30889156 GGTCTGCATG
30889166 TTGGTTTGCTA
1 TTGGTTTGCTA
30889177 TTGGTTTGCTA
1 TTGGTTTGCTA
30889188 TTG
1 TTG
30889191 CATTGCAGGC
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:0.08, C:0.08, G:0.28, T:0.56
Consensus pattern (11 bp):
TTGGTTTGCTA
Found at i:30891061 original size:29 final size:29
Alignment explanation
Indices: 30891019--30891076 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
30891009 CATGAAAGAC
30891019 AGACAACTTTTTTAAAGGCTAAAATTAAA
1 AGACAACTTTTTTAAAGGCTAAAATTAAA
30891048 AGACAACTTTTTTAAAGGCTAAAATTAAA
1 AGACAACTTTTTTAAAGGCTAAAATTAAA
30891077 CACTTCAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (29 bp):
AGACAACTTTTTTAAAGGCTAAAATTAAA
Found at i:30891332 original size:25 final size:26
Alignment explanation
Indices: 30891284--30891348 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
30891274 ACTTTTACCT
* *
30891284 GGAAGAGAAGATGAAGAACAGAAGAA
1 GGAAAAGAAGATGAAAAACAGAAGAA
*
30891310 GGAAAAGAA-ATGAAAAACGGAAGAA
1 GGAAAAGAAGATGAAAAACAGAAGAA
* *
30891335 GGAGAAGGAGATGA
1 GGAAAAGAAGATGA
30891349 CGAAGAACCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 21 0.64
26 12 0.36
ACGTcount: A:0.57, C:0.03, G:0.35, T:0.05
Consensus pattern (26 bp):
GGAAAAGAAGATGAAAAACAGAAGAA
Found at i:30891403 original size:6 final size:6
Alignment explanation
Indices: 30891392--30891435 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
30891382 TTTGCAACCC
*
30891392 AAGGGG AAGGGG AAGGGG AAGGGG AAGGTG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
30891436 GAAGAAGGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.61, T:0.02
Consensus pattern (6 bp):
AAGGGG
Found at i:30891442 original size:18 final size:18
Alignment explanation
Indices: 30891392--30891443 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
30891382 TTTGCAACCC
**
30891392 AAGGGGAAGGGGAAGGGG
1 AAGGGGAAGAAGAAGGGG
**
30891410 AAGGGGAAGGTGAAGGGG
1 AAGGGGAAGAAGAAGGGG
30891428 AAAGGGG-AGAAGAAGG
1 -AAGGGGAAGAAGAAGG
30891444 TGTCATTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 24 0.80
19 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.02
Consensus pattern (18 bp):
AAGGGGAAGAAGAAGGGG
Found at i:30893156 original size:34 final size:34
Alignment explanation
Indices: 30893088--30893294 Score: 279
Period size: 35 Copynumber: 6.0 Consensus size: 34
30893078 ATGGCAAAGT
*
30893088 TATGACACGTAGGTATGGTATTATCCATACTGAGC
1 TATGATACGTAGGTATGGTATT-TCCATACTGAGC
*
30893123 TATGATACGTAGGTATGGTATTTTCATACTGAGC
1 TATGATACGTAGGTATGGTATTTCCATACTGAGC
*
30893157 TATGATACGTAGGTATGGTATTATCCATATTGAGC
1 TATGATACGTAGGTATGGTATT-TCCATACTGAGC
*
30893192 TATGATACGTAGGTATGGTATTTCCATATTGAGC
1 TATGATACGTAGGTATGGTATTTCCATACTGAGC
* ** *
30893226 TATAATACGTAGGTATGGTATTTCTCATACCAAGT
1 TATGATACGTAGGTATGGTATTTC-CATACTGAGC
* * *
30893261 TGTGAAACGTAGGTATGGTATTAACCATACTGAG
1 TATGATACGTAGGTATGGTATT-TCCATACTGAG
30893295 TTGTGAATCG
Statistics
Matches: 154, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
34 68 0.44
35 85 0.55
36 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (34 bp):
TATGATACGTAGGTATGGTATTTCCATACTGAGC
Found at i:30893199 original size:69 final size:69
Alignment explanation
Indices: 30893088--30893294 Score: 290
Period size: 69 Copynumber: 3.0 Consensus size: 69
30893078 ATGGCAAAGT
* *
30893088 TATGACACGTAGGTATGGTATTATCCATACTGAGCTATGATACGTAGGTATGGTATTTTCATACT
1 TATGATACGTAGGTATGGTATTATCCATACTGAGCTATGATACGTAGGTATGGTATTTCCATACT
30893153 GAGC
66 GAGC
* *
30893157 TATGATACGTAGGTATGGTATTATCCATATTGAGCTATGATACGTAGGTATGGTATTTCCATATT
1 TATGATACGTAGGTATGGTATTATCCATACTGAGCTATGATACGTAGGTATGGTATTTCCATACT
30893222 GAGC
66 GAGC
* ** * * * *
30893226 TATAATACGTAGGTATGGTATT-TCTCATACCAAGTTGTGAAACGTAGGTATGGTATTAACCATA
1 TATGATACGTAGGTATGGTATTATC-CATACTGAGCTATGATACGTAGGTATGGTATT-TCCATA
30893290 CTGAG
64 CTGAG
30893295 TTGTGAATCG
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
68 2 0.02
69 112 0.91
70 9 0.07
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (69 bp):
TATGATACGTAGGTATGGTATTATCCATACTGAGCTATGATACGTAGGTATGGTATTTCCATACT
GAGC
Done.