Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold82
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: 2626005
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.31
Warning! 196346 characters in sequence are not A, C, G, or T
File 16 of 17
Found at i:2329745 original size:32 final size:32
Alignment explanation
Indices: 2329644--2329753 Score: 89
Period size: 32 Copynumber: 3.4 Consensus size: 32
2329634 TCCGAACCCG
* * *
2329644 AAAATGATCCGAAC-CTGAAATAACCTAAA-CT
1 AAAATGACCCGAACTC-AAAATAACCCAAACCT
*
2329675 CAAAATGACCCGAACTCAAAATAACCCAAACTT
1 -AAAATGACCCGAACTCAAAATAACCCAAACCT
* * * * * *
2329708 GAAATGACCTGAACTCGAAATGATCCGAACCT
1 AAAATGACCCGAACTCAAAATAACCCAAACCT
*
2329740 AAAATGATCCGAAC
1 AAAATGACCCGAAC
2329754 CCCAAATGAC
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
32 60 0.97
33 2 0.03
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.17
Consensus pattern (32 bp):
AAAATGACCCGAACTCAAAATAACCCAAACCT
Found at i:2329761 original size:48 final size:48
Alignment explanation
Indices: 2329633--2329769 Score: 150
Period size: 48 Copynumber: 2.8 Consensus size: 48
2329623 AAATCGATCA
* * *
2329633 ATCCGAACCCGAAAATGATCCGAACCTGAAATAACCTAAACTCAAAATG
1 ATCCGAA-CCTAAAATGATCCGAACCTGAAATGACCTGAACTCAAAATG
* * * * * *
2329682 ACCCGAA-CTCAAAATAACCCAAACTTGAAATGACCTGAACTCGAAATG
1 ATCCGAACCT-AAAATGATCCGAACCTGAAATGACCTGAACTCAAAATG
**
2329730 ATCCGAACCTAAAATGATCCGAACCCCAAATGACCTGAAC
1 ATCCGAACCTAAAATGATCCGAACCTGAAATGACCTGAAC
2329770 AATAAACTCA
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
47 1 0.01
48 61 0.87
49 8 0.11
ACGTcount: A:0.43, C:0.28, G:0.12, T:0.16
Consensus pattern (48 bp):
ATCCGAACCTAAAATGATCCGAACCTGAAATGACCTGAACTCAAAATG
Found at i:2330875 original size:12 final size:11
Alignment explanation
Indices: 2330850--2330884 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2330840 ATTTTAATTT
2330850 TTAAAATTAAA
1 TTAAAATTAAA
*
2330861 TTAAATATTATA
1 TTAAA-ATTAAA
2330873 TTAAAATTAAA
1 TTAAAATTAAA
2330884 T
1 T
2330885 AAATTTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TTAAAATTAAA
Found at i:2331587 original size:23 final size:24
Alignment explanation
Indices: 2331556--2331601 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
2331546 ATATTAATAT
* *
2331556 ATTATATTATTTTTATTTAAAAAA
1 ATTATATTACTATTATTTAAAAAA
*
2331580 ATTA-ATTACTATTATTTTAAAA
1 ATTATATTACTATTATTTAAAAA
2331602 GTTTAAACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTATATTACTATTATTTAAAAAA
Found at i:2334507 original size:30 final size:30
Alignment explanation
Indices: 2334435--2334538 Score: 154
Period size: 30 Copynumber: 3.4 Consensus size: 30
2334425 TTTTCTATGA
2334435 TTATCAAATTTATGAGTAATTATATCTAAT
1 TTATCAAATTTATGAGTAATTATATCTAAT
* * *
2334465 ATTCAACAAATTTATAAGTAATTATATTTAAT
1 -TT-ATCAAATTTATGAGTAATTATATCTAAT
*
2334497 TTATCAAATTTACGAGTAATTATATCTAAT
1 TTATCAAATTTATGAGTAATTATATCTAAT
2334527 TTATCAAATTTA
1 TTATCAAATTTA
2334539 CTATCAATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
30 36 0.55
31 4 0.06
32 25 0.38
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (30 bp):
TTATCAAATTTATGAGTAATTATATCTAAT
Found at i:2334886 original size:16 final size:17
Alignment explanation
Indices: 2334865--2334901 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
2334855 ATATGTAAAG
2334865 TATAAATATAAA-A-GAA
1 TATAAATA-AAATATGAA
2334881 TATAAATAAAATATGAA
1 TATAAATAAAATATGAA
2334898 TATA
1 TATA
2334902 TAAATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 9 0.47
17 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
TATAAATAAAATATGAA
Found at i:2335107 original size:10 final size:12
Alignment explanation
Indices: 2335082--2335113 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
2335072 TTTTGAACAC
2335082 AAAAATAATATA
1 AAAAATAATATA
2335094 AAAAATAAT-T-
1 AAAAATAATATA
2335104 AAAAATAATA
1 AAAAATAATA
2335114 CAACAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.47
11 1 0.05
12 9 0.47
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAAATAATATA
Found at i:2335943 original size:20 final size:20
Alignment explanation
Indices: 2335918--2335958 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2335908 TTAAATTTCG
*
2335918 ATTAATTTAATTTAAATTAA
1 ATTAATTTAATTTAAAATAA
*
2335938 ATTAATTTATTTTAAAATAA
1 ATTAATTTAATTTAAAATAA
2335958 A
1 A
2335959 ACTCTCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAATTTAATTTAAAATAA
Found at i:2337696 original size:32 final size:33
Alignment explanation
Indices: 2337625--2337698 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
2337615 GGGTCAATAA
*
2337625 TATTATTAATTAATAATTTATGAAGTTGAGAAT
1 TATTATTAATTAATAATTTATGAAGTTGAAAAT
2337658 TATTATTAATTAATAATTTATG-AGTTGAAAAT
1 TATTATTAATTAATAATTTATGAAGTTGAAAAT
*
2337690 TGTTATTAA
1 TATTATTAA
2337699 ATATCAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 17 0.44
33 22 0.56
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (33 bp):
TATTATTAATTAATAATTTATGAAGTTGAAAAT
Found at i:2346668 original size:20 final size:20
Alignment explanation
Indices: 2346621--2346695 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2346611 AAAAAGACAT
*
2346621 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2346640 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2346661 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
2346681 AATGTATCGATACAT
1 AATGTATCGATACAT
2346696 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2346689 original size:40 final size:39
Alignment explanation
Indices: 2346618--2346695 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2346608 GGTAAAAAGA
* *
2346618 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
2346657 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2346696 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2347387 original size:86 final size:86
Alignment explanation
Indices: 2347221--2348366 Score: 1580
Period size: 86 Copynumber: 13.3 Consensus size: 86
2347211 TGAAAAGGGT
* * * *
2347221 TGCCATTGACTTGCATGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTTG-AAAGAATGCC
1 TGCCACTGACTTG--TGGGCTTTGAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCC
* *
2347285 ACTAACTCGTGGGCTTTGAAAGGA-
62 ACTGACTTGTGGGCTTTGAAAGGAG
* * *
2347309 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTAGGCTTTGAAAAG-GTACCACTG
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
* *
2347373 ACTTGCGTGAGCTTTAAAAGGAG
66 ACTT--GTGGGCTTTGAAAGGAG
*
2347396 TGCCACTGACTTGTGTGGGCTTT-AAAAAGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCA
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
* * * *
2347459 CTGAATTGTGGGCTTCGCAATG-G
63 CTGACTTGTGGGCTTTGAAAGGAG
* * * * * *
2347482 TGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTAACTTGTGGGCTCTG-AAAGGGTGCCACTA
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
*
2347546 ACTTGTGGGCTTTGAAATG-G
66 ACTTGTGGGCTTTGAAAGGAG
*
2347566 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACT
1 TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
2347631 GACTTGTGGGCTTTGAAAGGAG
65 GACTTGTGGGCTTTGAAAGGAG
* * * *
2347653 TGCCATTGACTTGTGAGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
* *
2347718 ATTTGTGGGCTTTGAAAAGAG
66 ACTTGTGGGCTTTGAAAGGAG
* *
2347739 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTG
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
*
2347803 ACTTGTGGGCTTTGAAAAGAG
66 ACTTGTGGGCTTTGAAAGGAG
* * *
2347824 TGCCACTGATTTGTAGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACT
1 TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
*
2347889 GACTTGTGGGCATTGAAAGG-G
65 GACTTGTGGGCTTTGAAAGGAG
* * *
2347910 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTATGGGCTTTGAAAAGAGTGCCACT
1 TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
2347975 GACTTGTGGGCTTTGAAAGGAG
65 GACTTGTGGGCTTTGAAAGGAG
* * * *
2347997 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAGTTATGGGCTTTG-AAAGGGTGCCACTG
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
*
2348061 ACTTGTGGGCTTTGAAAAGAG
66 ACTTGTGGGCTTTGAAAGGAG
* *
2348082 TGCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
2348147 GACTTGTGGGCTTTGAAAGG-G
65 GACTTGTGGGCTTTGAAAGGAG
* * *
2348168 TGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
* *
2348232 AACTTGTGGGCTTTGAAAAGAG
65 GACTTGTGGGCTTTGAAAGGAG
*
2348254 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGCTTTGAAAAGAGTGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTT-GTGGGCTTTGAAAAGAGTGCCACT
*
2348319 GATTTGTGGGCTTTGAAAGGAG
65 GACTTGTGGGCTTTGAAAGGAG
2348341 TGCCACTGACTTGTGGGCTTTGAAAG
1 TGCCACTGACTTGTGGGCTTTGAAAG
2348367 GGATGAACAT
Statistics
Matches: 947, Mismatches: 91, Indels: 41
0.88 0.08 0.04
Matches are distributed among these distances:
84 98 0.10
85 184 0.19
86 423 0.45
87 179 0.19
88 21 0.02
89 42 0.04
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (86 bp):
TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
ACTTGTGGGCTTTGAAAGGAG
Found at i:2347744 original size:229 final size:229
Alignment explanation
Indices: 2347209--2348368 Score: 1676
Period size: 229 Copynumber: 5.0 Consensus size: 229
2347199 ACAGTGGTGA
* * * *
2347209 TTTGAAAAGGGTTGCCATTGACTTGCATGGGCTTT-AAAAGGGTGCCACTGACTTGCGTGGGCTT
1 TTTG-AAAGGG-TGCCACTAACTTG--TGGGCTTTGAAAAGAGTGCCACTGA-TT-TGTGGGCTT
* * * *
2347273 TG-AAAGAATGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAG
60 TGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * *
2347337 TGCCACTAACTTGTAGGCTTTGAAAAG-GTACCACTGACTTGCGTGAGCTTT-AAAAGGAGTGCC
125 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA-TT-TGTGGGCTTTGAAAA-GAGTGCC
* *
2347400 ACTGACTTGTGTGGGCTTTAAAAAG-GTGCCACTGACTTGTGGGC
187 ACTGAC-T-TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* * * * * *
2347444 TTTGAAAGAGTGCCACTGAA-TTGTGGGCTTCGCAATG-GTGCCACTGACTTGTGGGCTTCG-AA
1 TTTGAAAGGGTGCCACT-AACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAA
* * * *
2347506 AGGGTGCCACTAACTTGTGGGCTCTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAATGGTGCCA
65 AGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
2347571 CTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
130 CTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
2347636 GTGGGCTTTGAAAGGAGTGCCATTGACTTGTGAGC
195 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
2347671 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAA
1 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAA
*
2347736 GAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
66 GAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
*
2347801 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTAGGCTTTGAAAAGAGTGCCACTGACTTG
131 TGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTG
2347866 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
196 TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* *
2347900 ATTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTATGGGCTTTGAAAA
1 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAA
*
2347965 GAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
66 GAGTGCCACTAACTTGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
* * * * *
2348030 CTGAGTTATGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTT
130 CTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
2348094 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
195 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* * * *
2348129 TTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAA
1 TTTGAAAGG-GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAA
* * *
2348193 GGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCC
65 AGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCC
* * *
2348258 ACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTCGTGGGCTTTGAAAAGAGTGCCACTGAT
129 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA-TTTGTGGGCTTTGAAAAGAGTGCCACTGAC
2348322 TTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
193 TTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
2348359 TTTGAAAGGG
1 TTTGAAAGGG
2348369 ATGAACATTC
Statistics
Matches: 851, Mismatches: 62, Indels: 30
0.90 0.07 0.03
Matches are distributed among these distances:
226 16 0.02
227 48 0.06
228 64 0.08
229 529 0.62
230 155 0.18
231 17 0.02
232 3 0.00
233 9 0.01
234 6 0.01
235 4 0.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (229 bp):
TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAA
GAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
TGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTG
TGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
Found at i:2348366 original size:29 final size:29
Alignment explanation
Indices: 2347221--2348367 Score: 1614
Period size: 29 Copynumber: 39.9 Consensus size: 29
2347211 TGAAAAGGGT
* *
2347221 TGCCATTGACTTGCATGGGCTTTAAAAGG-G
1 TGCCACTGACTTG--TGGGCTTTGAAAGGAG
*
2347251 TGCCACTGACTTGCGTGGGCTTTGAAA-GAA
1 TGCCACTGACTT--GTGGGCTTTGAAAGGAG
* *
2347281 TGCCACTAACTCGTGGGCTTTGAAAGGA-
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2347309 TGCCACTGACTTGTGGGCTTTGAAA-GAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * *
2347337 TGCCACTAACTTGTAGGCTTTGAAAAG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * *
2347365 TACCACTGACTTGCGTGAGCTTTAAAAGGAG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGAG
* *
2347396 TGCCACTGACTTGTGTGGGCTTTAAAAAG-G
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGAG
2347426 TGCCACTGACTTGTGGGCTTTGAAA-GAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * * *
2347454 TGCCACTGAATTGTGGGCTTCGCAATG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
2347482 TGCCACTGACTTGTGGGCTTCGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
2347510 TGCCACTAACTTGTGGGCTCTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
2347538 TGCCACTAACTTGTGGGCTTTGAAATG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
2347566 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
2347595 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2347624 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
2347653 TGCCATTGACTTGTGAGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
2347681 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
2347710 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2347739 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2347767 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
2347795 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * *
2347824 TGCCACTGATTTGTAGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2347853 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
2347882 TGCCACTGACTTGTGGGCATTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
2347910 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * *
2347939 TGCCACTGATTTATGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2347968 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2347997 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
2348025 TGCCACTGAGTTATGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
2348053 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
2348082 TGCCACTGATTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2348111 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2348140 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
2348168 TGCCACTAACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
2348197 TGCCACTAACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
2348225 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2348254 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
2348282 TGCCACTGACTTCGTGGGCTTTGAAAAGAG
1 TGCCACTGACTT-GTGGGCTTTGAAAGGAG
*
2348312 TGCCACTGATTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
2348341 TGCCACTGACTTGTGGGCTTTGAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGG
2348368 GATGAACATT
Statistics
Matches: 1018, Mismatches: 77, Indels: 45
0.89 0.07 0.04
Matches are distributed among these distances:
27 3 0.00
28 430 0.42
29 493 0.48
30 66 0.06
31 23 0.02
32 2 0.00
33 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGAG
Found at i:2349600 original size:1 final size:1
Alignment explanation
Indices: 2349596--2349638 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
2349586 TTTTTTGCTA
* * * *
2349596 TTTTTTTCTTTTTTTTTGTTTTGTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2349639 GGGTGTAAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:2349624 original size:14 final size:13
Alignment explanation
Indices: 2349604--2349638 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
2349594 TATTTTTTTC
2349604 TTTTTTTTTGTTT
1 TTTTTTTTTGTTT
2349617 TGTTTTTTTTGTTT
1 T-TTTTTTTTGTTT
2349631 TTTTTTTT
1 TTTTTTTT
2349639 GGGTGTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Found at i:2363182 original size:20 final size:20
Alignment explanation
Indices: 2363135--2363209 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2363125 AAAAAGACAT
*
2363135 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2363154 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2363175 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
2363195 AATGTATCGATACAT
1 AATGTATCGATACAT
2363210 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2363203 original size:40 final size:39
Alignment explanation
Indices: 2363132--2363209 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2363122 GGTAAAAAGA
* *
2363132 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
2363171 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2363210 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2364466 original size:2 final size:2
Alignment explanation
Indices: 2364459--2364490 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2364449 TTGATAAAAG
2364459 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2364491 AAAGAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2373852 original size:26 final size:26
Alignment explanation
Indices: 2373823--2373872 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2373813 GTGTTTTGGG
2373823 TTGTACACAAACATTAGACACGACGT
1 TTGTACACAAACATTAGACACGACGT
*
2373849 TTGTACGCAAACATTAGACACGAC
1 TTGTACACAAACATTAGACACGAC
2373873 CACACATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (26 bp):
TTGTACACAAACATTAGACACGACGT
Found at i:2374386 original size:16 final size:16
Alignment explanation
Indices: 2374367--2374398 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2374357 TTCATTTCGG
2374367 ATAAAATTTTATTTTC
1 ATAAAATTTTATTTTC
2374383 ATAAAATTTTATTTTC
1 ATAAAATTTTATTTTC
2374399 CAATGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
ATAAAATTTTATTTTC
Found at i:2374474 original size:16 final size:16
Alignment explanation
Indices: 2374455--2374505 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
2374445 AGTTAATATT
2374455 TATAATAATTAATTTA
1 TATAATAATTAATTTA
2374471 TATAAT-A--AATTTGA
1 TATAATAATTAATTT-A
*
2374485 TAT-ATAATTAATTGA
1 TATAATAATTAATTTA
2374500 TATAAT
1 TATAAT
2374506 TGATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 7 0.24
14 5 0.17
15 5 0.17
16 12 0.41
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
TATAATAATTAATTTA
Found at i:2374475 original size:13 final size:13
Alignment explanation
Indices: 2374452--2374512 Score: 59
Period size: 13 Copynumber: 4.4 Consensus size: 13
2374442 TAAAGTTAAT
2374452 ATTTATAATAATTA
1 ATTTAT-ATAATTA
*
2374466 ATTTATATAATAA
1 ATTTATATAATTA
2374479 ATTTGATATATAATTA
1 A-TT--TATATAATTA
* *
2374495 ATTGATATAATTG
1 ATTTATATAATTA
2374508 ATTTA
1 ATTTA
2374513 AAAATTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 19 0.49
14 8 0.21
15 2 0.05
16 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (13 bp):
ATTTATATAATTA
Found at i:2374511 original size:29 final size:27
Alignment explanation
Indices: 2374452--2374505 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
2374442 TAAAGTTAAT
*
2374452 ATTTATAATAATTAATTTATATAATAA
1 ATTTATAATAATTAATTGATATAATAA
2374479 ATTTGATATATAATTAATTGATATAAT
1 ATTT-ATA-ATAATTAATTGATATAAT
2374506 TGATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.17
28 3 0.12
29 17 0.71
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (27 bp):
ATTTATAATAATTAATTGATATAATAA
Found at i:2376902 original size:59 final size:60
Alignment explanation
Indices: 2376839--2376966 Score: 159
Period size: 59 Copynumber: 2.1 Consensus size: 60
2376829 CCAATGTAAT
* * * * *
2376839 TGGCTCAAGACAAACTTAATGAAGTTGGCACTTTAAATAAA-ATTTAAGCTTAACGTAGC
1 TGGCTCAAGACAAACTTAACGAAATTGGCACTATAAATAAAGATTTAAGCTCAACATAGC
* * * * *
2376898 TGGCTTAAGACAAACTTAGCGAAATTGGCACTATAAATAAAGTTTTAAGCTCAGCATAGT
1 TGGCTCAAGACAAACTTAACGAAATTGGCACTATAAATAAAGATTTAAGCTCAACATAGC
2376958 TGGCTCAAG
1 TGGCTCAAG
2376967 GCAAGTTTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
59 36 0.63
60 21 0.37
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (60 bp):
TGGCTCAAGACAAACTTAACGAAATTGGCACTATAAATAAAGATTTAAGCTCAACATAGC
Found at i:2377893 original size:27 final size:27
Alignment explanation
Indices: 2377863--2378073 Score: 201
Period size: 28 Copynumber: 7.7 Consensus size: 27
2377853 AAGTAGGGTT
*
2377863 TATAGAATTTTTAATCAAACTTTTACA
1 TATAGAATTTTTAATTAAACTTTTACA
* * *
2377890 TATAAAATTTTAAATTAAAATTTTTACA
1 TATAGAATTTTTAATT-AAACTTTTACA
* * * * *
2377918 TAAAAAAATTCTTAATTGAACTTTTACG
1 T-ATAGAATTTTTAATTAAACTTTTACA
* *
2377946 TATACAATTTTAAATTAAACTTTGTACA
1 TATAGAATTTTTAATTAAACTTT-TACA
* *
2377974 TATAAAATTTTTAATTAAATTTTTACA
1 TATAGAATTTTTAATTAAACTTTTACA
* *
2378001 T-T-GAATTTTCAATTAAATATTTTACA
1 TATAGAATTTTTAATTAAA-CTTTTACA
* *
2378027 CATAGAATTCTTAATTAAACTTTTACA
1 TATAGAATTTTTAATTAAACTTTTACA
*
2378054 TTATAGAATTTTAAATTAAA
1 -TATAGAATTTTTAATTAAA
2378074 ACTAAATTAA
Statistics
Matches: 148, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
25 13 0.09
26 8 0.05
27 43 0.29
28 72 0.49
29 12 0.08
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (27 bp):
TATAGAATTTTTAATTAAACTTTTACA
Found at i:2377995 original size:12 final size:13
Alignment explanation
Indices: 2377953--2378056 Score: 70
Period size: 12 Copynumber: 7.8 Consensus size: 13
2377943 ACGTATACAA
*
2377953 TTTTAAATTAAACT
1 TTTTACATTAAA-T
*
2377967 TTGTACATATAAAAT
1 TTTTACAT-T-AAAT
2377982 TTTTA-ATTAAAT
1 TTTTACATTAAAT
*
2377994 TTTTACATTGAAT
1 TTTTACATTAAAT
*
2378007 TTTCA-ATTAAAT
1 TTTTACATTAAAT
*
2378019 ATTTTACACATAGAAT
1 -TTTTACA-TTA-AAT
* *
2378035 TCTTA-ATTAAAC
1 TTTTACATTAAAT
2378047 TTTTACATTA
1 TTTTACATTA
2378057 TAGAATTTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
12 21 0.30
13 21 0.30
14 10 0.14
15 12 0.17
16 6 0.09
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (13 bp):
TTTTACATTAAAT
Found at i:2378203 original size:28 final size:27
Alignment explanation
Indices: 2378141--2378217 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
2378131 TCAATTAACC
* *
2378141 TTTTAATCAAACTTTTACATA-CAAGA
1 TTTTAATTAAACTTTTACATATCAAAA
*
2378167 TTTTCAATTAAACTTTTTACATATGAAAA
1 TTTT-AATTAAAC-TTTTACATATCAAAA
* *
2378196 TTTTAATTGAACCTTTACATAT
1 TTTTAATTAAACTTTTACATAT
2378218 ATAACTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
26 4 0.09
27 16 0.37
28 16 0.37
29 7 0.16
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (27 bp):
TTTTAATTAAACTTTTACATATCAAAA
Found at i:2384545 original size:16 final size:16
Alignment explanation
Indices: 2384524--2384557 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2384514 ATTTACTTGC
2384524 ATTAGAATATAATTTA
1 ATTAGAATATAATTTA
* *
2384540 ATTAGAGTTTAATTTA
1 ATTAGAATATAATTTA
2384556 AT
1 AT
2384558 AGTGATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (16 bp):
ATTAGAATATAATTTA
Found at i:2388075 original size:2 final size:2
Alignment explanation
Indices: 2388068--2388096 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2388058 ACCTAATAAT
2388068 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2388097 GACATAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2389337 original size:17 final size:16
Alignment explanation
Indices: 2389315--2389378 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
2389305 TAATATGTCC
2389315 AATTCAAATTAAAAAAT
1 AATTCAAATT-AAAAAT
*
2389332 AATTCAAATCT-GAAAT
1 AATTCAAAT-TAAAAAT
* *
2389348 AATTTAAATTTAAAAT
1 AATTCAAATTAAAAAT
*
2389364 AATTTAAACTTAAAA
1 AATTCAAA-TTAAAA
2389379 TTACTTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.03
16 24 0.60
17 14 0.35
18 1 0.03
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (16 bp):
AATTCAAATTAAAAAT
Found at i:2389368 original size:16 final size:16
Alignment explanation
Indices: 2389327--2389391 Score: 76
Period size: 16 Copynumber: 4.1 Consensus size: 16
2389317 TTCAAATTAA
* *
2389327 AAAATAATTCAAATCT
1 AAAATAATTTAAATTT
*
2389343 GAAATAATTTAAATTT
1 AAAATAATTTAAATTT
*
2389359 AAAATAATTTAAACTT
1 AAAATAATTTAAATTT
* *
2389375 AAAATTACTTAAATTT
1 AAAATAATTTAAATTT
2389391 A
1 A
2389392 GATAATTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATAATTTAAATTT
Found at i:2389548 original size:17 final size:17
Alignment explanation
Indices: 2389537--2389571 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2389527 CTAAACCAAT
*
2389537 ATTTTATTTAAAATAAA
1 ATTTTATTTAAAACAAA
2389554 ATTTTATTTAAATACAAA
1 ATTTTATTTAAA-ACAAA
2389572 TTAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTATTTAAAACAAA
Found at i:2389605 original size:21 final size:21
Alignment explanation
Indices: 2389572--2389623 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2389562 TAAATACAAA
*
2389572 TTAAAAT-ATAAAAATTTATT
1 TTAAAATAATAAAAAATTATT
2389592 TTAAAATAATAAAAAATTATT
1 TTAAAATAATAAAAAATTATT
* *
2389613 TCAAAAAAATA
1 TTAAAATAATA
2389624 GTTTATGGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAAATAATAAAAAATTATT
Found at i:2394167 original size:42 final size:42
Alignment explanation
Indices: 2394120--2394204 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
2394110 ATCCTTAAAG
* *
2394120 TATCCTAAATACCCTAAATAGATCATTTACTCTTGAAATGAC
1 TATCCTAAATACCCCAAATAGATAATTTACTCTTGAAATGAC
* *
2394162 TATCCTAAATACCCCGAATAGGTAATTTACTCTTGAAATGAC
1 TATCCTAAATACCCCAAATAGATAATTTACTCTTGAAATGAC
2394204 T
1 T
2394205 TACTTGGCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (42 bp):
TATCCTAAATACCCCAAATAGATAATTTACTCTTGAAATGAC
Found at i:2397544 original size:16 final size:16
Alignment explanation
Indices: 2397525--2397566 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
2397515 TTTGTGTCTT
*
2397525 AATTAATTCTTAATTG
1 AATTAATTCATAATTG
2397541 AATTAATTCATAATTG
1 AATTAATTCATAATTG
2397557 AATTAATTCA
1 AATTAATTCA
2397567 ATTAAGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (16 bp):
AATTAATTCATAATTG
Found at i:2401297 original size:32 final size:32
Alignment explanation
Indices: 2401255--2401325 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
2401245 AGCTTCGTAA
* *
2401255 CGATATATTGTATCGGTACAACACTTATGTAG
1 CGATACATTGTATCGATACAACACTTATGTAG
* *
2401287 CGATACATTGTATTGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAG
2401319 CGATACA
1 CGATACA
2401326 GTTACTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAG
Found at i:2401323 original size:19 final size:19
Alignment explanation
Indices: 2401263--2401325 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
2401253 AACGATATAT
*
2401263 TGTATCGGTACAACACTTA
1 TGTATCGATACAACACTTA
*
2401282 TGTAGCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
2401295 TGTATTGATACAACACTTA
1 TGTATCGATACAACACTTA
2401314 TGTATCGATACA
1 TGTATCGATACA
2401326 GTTACTGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
13 7 0.21
14 1 0.03
16 6 0.18
18 1 0.03
19 18 0.55
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2403236 original size:19 final size:19
Alignment explanation
Indices: 2403212--2403307 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
2403202 TTTCAGCGAT
2403212 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATG
2403231 TTGTATCGATAC---AA--
1 TTGTATCGATACATAAATG
*
2403245 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAATG
2403263 TTGTATCGATAC---AA-G
1 TTGTATCGATACATAAATG
* *
2403278 --GTATCGATACATAAGTT
1 TTGTATCGATACATAAATG
2403295 TTGTATCGATACA
1 TTGTATCGATACA
2403308 ATGTATCGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
13 21 0.34
15 1 0.02
16 5 0.08
19 34 0.56
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAATG
Found at i:2403249 original size:32 final size:32
Alignment explanation
Indices: 2403213--2403315 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
2403203 TTCAGCGATT
*
2403213 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2403245 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
2403277 GGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2403309 TGTATCG
1 TGTATCG
2403316 CTAGGAAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2403250 original size:13 final size:13
Alignment explanation
Indices: 2403232--2403288 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2403222 ACATAAATGT
2403232 TGTATCGATACAA
1 TGTATCGATACAA
2403245 TGTATCGATACATAA
1 TGTATCGATAC--AA
2403260 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
2403277 GGTATCGATACA
1 TGTATCGATACA
2403289 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2403377 original size:13 final size:13
Alignment explanation
Indices: 2403359--2403384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2403349 CATTTTTCTG
2403359 TGTATCGATACAT
1 TGTATCGATACAT
2403372 TGTATCGATACAT
1 TGTATCGATACAT
2403385 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2403402 original size:34 final size:33
Alignment explanation
Indices: 2403340--2403405 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
2403330 CCAAGGAAAC
*
2403340 GTATCGATACATTTTTCTGTGTATCGATACATT
1 GTATCGATACATTATTCTGTGTATCGATACATT
*
2403373 GTATCGATACATCTATTCTTTGTATCGATACAT
1 GTATCGATACAT-TATTCTGTGTATCGATACAT
2403406 CTAGGAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (33 bp):
GTATCGATACATTATTCTGTGTATCGATACATT
Found at i:2405849 original size:51 final size:53
Alignment explanation
Indices: 2405750--2405871 Score: 162
Period size: 52 Copynumber: 2.4 Consensus size: 53
2405740 AATTCTCCGC
* *
2405750 AATCGGGGATATTCCAA-CTCCGATTTTATTTTCAAAACACTAATTTTCT-AT
1 AATCGGGGATACTCCAACCTCCGACTTTATTTTCAAAACACTAATTTTCTCAT
* * *
2405801 AATCGGGGATACTCCAACCTCCGGCTTTA-TTTCTAAAATATTAA-TTTCTCAT
1 AATCGGGGATACTCCAACCTCCGACTTTATTTTC-AAAACACTAATTTTCTCAT
2405853 AATCGGGGATACTCCAACC
1 AATCGGGGATACTCCAACC
2405872 CCGTTATCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 25 0.40
52 38 0.60
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (53 bp):
AATCGGGGATACTCCAACCTCCGACTTTATTTTCAAAACACTAATTTTCTCAT
Found at i:2405942 original size:79 final size:80
Alignment explanation
Indices: 2405806--2405953 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 80
2405796 TCTATAATCG
* * *
2405806 GGGATACTCCAACCTCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGATACTCCAACCTCCGGCTTTATTTCTAAAATATCAATTTCTCACAATCAGGGATACTCCAAC
2405871 CCCGTTATCTCCGAA
66 CCCGTTATCTCCGAA
* * * * *
2405886 GGGATACTCCAACC-CCGGTTTTATTTC-CAAATCATCGATTTTTCACAATCAGGGATACTCTAA
1 GGGATACTCCAACCTCCGGCTTTATTTCTAAAAT-ATCAATTTCTCACAATCAGGGATACTCCAA
2405949 CCCCG
65 CCCCG
2405954 GCTTTATTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
78 4 0.07
79 41 0.69
80 14 0.24
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (80 bp):
GGGATACTCCAACCTCCGGCTTTATTTCTAAAATATCAATTTCTCACAATCAGGGATACTCCAAC
CCCGTTATCTCCGAA
Found at i:2405945 original size:51 final size:51
Alignment explanation
Indices: 2405885--2406054 Score: 171
Period size: 52 Copynumber: 3.3 Consensus size: 51
2405875 TTATCTCCGA
* * *
2405885 AGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTTCACAATC
1 AGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATC
* * * * **
2405936 AGGGATACTCTAACCCCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 AGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTC-ACAATC
* * * * *
2405988 GGGGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAGT-
1 AGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTTCACAATC
*
2406039 TGAGGATACTCCAACC
1 AG-GGATACTCCAACC
2406055 TCGTTATTTC
Statistics
Matches: 95, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 39 0.41
52 41 0.43
53 15 0.16
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
AGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:2405989 original size:131 final size:131
Alignment explanation
Indices: 2405755--2405997 Score: 296
Period size: 131 Copynumber: 1.9 Consensus size: 131
2405745 TCCGCAATCG
* * * * * *
2405755 GGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACGAATTTTCTACAATCAGGGATACTCCAACC
* **
2405820 TCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGA
66 TCCGGCTTTATTTCTAAAACACCAATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGA
2405885 A
131 A
* * * *
2405886 GGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTTC-ACAATCAGGGATACTCTAAC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACA-CGAATTTTCTACAATCAGGGATACTCCAAC
*
2405950 C-CCGGCTTTATTT-TCAAAACACCAATTT-TCCTTTAATCGGGGATACTC
65 CTCCGGCTTTATTTCT-AAAACACCAATTTCT-C-ATAATCGGGGATACTC
2405998 TAACTCCGAT
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
129 2 0.02
130 23 0.24
131 62 0.66
132 7 0.07
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (131 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACGAATTTTCTACAATCAGGGATACTCCAACC
TCCGGCTTTATTTCTAAAACACCAATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGA
A
Found at i:2406065 original size:31 final size:28
Alignment explanation
Indices: 2406042--2406113 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2406032 TCACAGTTGA
*
2406042 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTATTTCATCGG
** ***
2406070 GGATACTCCAACCCCGTTACCTCCGAGG
1 GGATACTCCAACCCCGTTATTTCATCGG
2406098 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
2406114 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTCATCGG
Found at i:2406173 original size:78 final size:78
Alignment explanation
Indices: 2406067--2406288 Score: 250
Period size: 78 Copynumber: 2.8 Consensus size: 78
2406057 GTTATTTCAT
** * *
2406067 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCAAAATATT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGGTTTTATTCCAAAATATT
* *
2406132 GATTTCTCATAAT
66 GATTTCTCACAAC
* * * * * *
2406145 TGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAATCCCGTTTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGGTTTTATTCCAAAAT-AT
*
2406209 CGATTTCTCACAAC
65 TGATTTCTCACAAC
* * * *
2406223 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGGACACTCCAATCCC-GTTATTATCTCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGGTT-TTAT-TCCAAAATA
2406287 TT
64 TT
2406289 AAATTTCTTA
Statistics
Matches: 116, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
77 5 0.04
78 104 0.90
79 4 0.03
80 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGGTTTTATTCCAAAATATT
GATTTCTCACAAC
Found at i:2412653 original size:55 final size:54
Alignment explanation
Indices: 2412451--2413302 Score: 907
Period size: 55 Copynumber: 14.9 Consensus size: 54
2412441 CCTTTTTTCT
* * *
2412451 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAAAGCAGGATGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGA---C---GCC
*
2412511 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACG------CC
*
2412571 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGATGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGACGCC
*
2412626 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCGGGACGCTTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGCAGGACGC-----C
2412686 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACG-C---C
2412744 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACG-C----C
* *
2412803 TTTTAAAGCCCACACAAGTTGATGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACG-C----C
* * * *
2412862 TTTTAAAGCCCACCCAAGTTGGTGGCACTTTCAGTCCTCAAAGAGTAGGATGCTTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGC-----C
* * *
2412921 TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGACCAGGACTCC
1 TTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCC
* ** *
2412977 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCC
* ** * *
2413032 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCC
* * * *
2413087 TCTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCC
* ** *
2413142 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCC
* * *
2413197 TCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAACAAGACGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCC
* * * *
2413252 TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 TTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGA
2413303 TACACTTTAT
Statistics
Matches: 711, Mismatches: 56, Indels: 55
0.86 0.07 0.07
Matches are distributed among these distances:
54 4 0.01
55 327 0.46
56 10 0.01
57 1 0.00
58 59 0.08
59 139 0.20
60 130 0.18
61 41 0.06
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (54 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCC
Found at i:2414151 original size:19 final size:19
Alignment explanation
Indices: 2414127--2414177 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
2414117 TTTCAGCGAT
2414127 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATG
* *
2414146 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAATG
2414165 TTGTATCGATACA
1 TTGTATCGATACA
2414178 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAATG
Found at i:2414247 original size:13 final size:13
Alignment explanation
Indices: 2414229--2414254 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2414219 CATTTTTCTA
2414229 TGTATCGATACAT
1 TGTATCGATACAT
2414242 TGTATCGATACAT
1 TGTATCGATACAT
2414255 CTAGGAAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2414298 original size:20 final size:20
Alignment explanation
Indices: 2414273--2414312 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2414263 TTTACCCAGA
2414273 TACAATGTATCGATACATTC
1 TACAATGTATCGATACATTC
2414293 TACAATGTATCGATACATTC
1 TACAATGTATCGATACATTC
2414313 AGGCATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
TACAATGTATCGATACATTC
Found at i:2416833 original size:51 final size:52
Alignment explanation
Indices: 2416740--2416853 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 52
2416730 TTATCTCTGA
* * * * * *
2416740 GGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTTC-ACAATC
1 GGGGATACTCTAACCCCGGCTTTATTTCCAAAACACCAATTTTCCTACAATC
* * **
2416791 GGGGATACTCTTACCCCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCTAACCCCGGCTTTATTTCCAAAACACCAATTTTCCTACAATC
2416843 GGGGATACTCT
1 GGGGATACTCT
2416854 GATTTTATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
51 37 0.71
52 15 0.29
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGGCTTTATTTCCAAAACACCAATTTTCCTACAATC
Found at i:2417065 original size:79 final size:78
Alignment explanation
Indices: 2416918--2417119 Score: 208
Period size: 79 Copynumber: 2.6 Consensus size: 78
2416908 TATTTCATCG
** * *
2416918 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATCG
*
2416983 ATTTCTCATAATTA
66 ATTTCTCACAA-TA
* * * * ** *
2416997 GGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCATC
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-ATC
*
2417061 GATTTCTCACAATC
65 GATTTCTCACAATA
* * * * *
2417075 GAGGATACTCCAGCCCCGTTATTTTCAAGTGGACACTCCAACCCC
1 G-GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC
2417120 ATTATTATCT
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 5 0.05
79 96 0.95
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (78 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATCG
ATTTCTCACAATA
Found at i:2419700 original size:23 final size:24
Alignment explanation
Indices: 2419649--2419700 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
2419639 AATATTTTTT
* *
2419649 ATTTTTTAAAAAAAATAAAGATCA
1 ATTTTTTAAAAAAAATAAACATAA
* *
2419673 TTTTTTTTAAAAAAA-AAACATAA
1 ATTTTTTAAAAAAAATAAACATAA
2419696 ATTTT
1 ATTTT
2419701 GAACTTTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTTTTTAAAAAAAATAAACATAA
Found at i:2420248 original size:17 final size:17
Alignment explanation
Indices: 2420226--2420261 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2420216 CATTTCATAT
* *
2420226 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
2420243 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
2420260 TT
1 TT
2420262 CATCTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:2421433 original size:49 final size:45
Alignment explanation
Indices: 2421370--2421485 Score: 106
Period size: 45 Copynumber: 2.5 Consensus size: 45
2421360 ATGTGCCATT
* * *
2421370 TCAAGGTCAACGACATCGGACTAAGGGAAAAGTGGACCAATGTGCTGAC
1 TCAAGGCCAGCGACATCGGACTAA--GAAAAGT-G-CCAATATGCTGAC
* * * * * *
2421419 TCAAGGCTAGCGACATTGGGCTTAGAAAGGTGCCAATATGCTGAT
1 TCAAGGCCAGCGACATCGGACTAAGAAAAGTGCCAATATGCTGAC
*
2421464 TCAAGGCCAGCGATATCGGACT
1 TCAAGGCCAGCGACATCGGACT
2421486 TTAAGATGAC
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
45 29 0.54
46 1 0.02
47 6 0.11
49 18 0.33
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (45 bp):
TCAAGGCCAGCGACATCGGACTAAGAAAAGTGCCAATATGCTGAC
Found at i:2421556 original size:32 final size:32
Alignment explanation
Indices: 2421507--2422045 Score: 893
Period size: 32 Copynumber: 16.8 Consensus size: 32
2421497 AAAATGGTGA
* * *
2421507 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2421539 TTTTAAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
2421571 TTTTAAATGGGTTGCCACCAACTTCTGGGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
2421603 TTTGAAAAAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2421635 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2421667 TTT-AGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
2421699 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2421731 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2421763 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2421795 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2421827 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2421859 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2421891 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2421923 TTT-AGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
*
2421955 TTTGAAATTGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2421987 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2422019 TTTGGAATGGGTTGCCACCGATTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
2422046 AATTTAAAAG
Statistics
Matches: 480, Mismatches: 23, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
31 2 0.00
32 476 0.99
33 2 0.00
ACGTcount: A:0.16, C:0.19, G:0.33, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:2422097 original size:27 final size:27
Alignment explanation
Indices: 2422031--2422685 Score: 979
Period size: 27 Copynumber: 23.9 Consensus size: 27
2422021 TGGAATGGGT
* * * *
2422031 TGCCACCGATTTGTGAATTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2422058 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
2422086 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2422113 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
2422141 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
* *
2422169 TGCCACAGAGTTGTGGACTAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2422196 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
2422224 TGCCACAGAGTTGTGGACTTAAAAAAGA
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
* *
2422252 TGCCACAGAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2422279 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
2422306 TGCTACGGAGTTGTGGTCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2422333 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
2422360 ATGCCATGGAGTTATGGACTTAAAAGAG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
2422388 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
2422415 TGCCACGGAGTTGTGGATTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
2422442 TTCCACGGAGTTGTGGTA-TTAAAAGGAA
1 TGCCACGGAGTTGTGG-ACTTAAAAGG-G
*
2422470 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2422497 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
2422524 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
2422551 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
2422578 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
2422605 TACCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
2422633 TGCCACAGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
2422660 TGCCACAGAGTTGTGGACTTTAAAAG
1 TGCCACGGAGTTGTGGAC-TTAAAAG
2422686 AAAATGCCAC
Statistics
Matches: 579, Mismatches: 39, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
27 373 0.64
28 206 0.36
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:2422100 original size:55 final size:54
Alignment explanation
Indices: 2422031--2422685 Score: 979
Period size: 55 Copynumber: 12.0 Consensus size: 54
2422021 TGGAATGGGT
* * * *
2422031 TGCCACCGATTTGTGAATTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGG
2422086 TGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGG
* *
2422141 ATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
2422196 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGG
* *
2422252 TGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* *
2422306 TGCTACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
2422360 ATGCCATGGAGTTATGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
2422415 TGCCACGGAGTTGTGGATTTAAAAGGGTTCCACGGAGTTGTGGTA-TTAAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG-ACTTAAAAGG-G
*
2422470 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
*
2422524 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* *
2422578 TGCCACAGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
2422633 TGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG
2422686 AAAATGCCAC
Statistics
Matches: 551, Mismatches: 41, Indels: 16
0.91 0.07 0.03
Matches are distributed among these distances:
54 214 0.39
55 289 0.52
56 48 0.09
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (54 bp):
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:2422242 original size:82 final size:81
Alignment explanation
Indices: 2422031--2422685 Score: 979
Period size: 82 Copynumber: 8.0 Consensus size: 81
2422021 TGGAATGGGT
* * * * * *
2422031 TGCCACCGATTTGTGAATTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAG
2422096 TTGTGGACTTAAAAGGG
65 TTGTGGACTTAAAAGGG
*
2422113 ATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGA
1 -TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGA
*
2422178 GTTGTGGACTAAAAAGGG
64 GTTGTGGACTTAAAAGGG
* *
2422196 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAAGATGCCACAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTT-AAAAGGGTGCCACAGA
*
2422261 GTTATGGACTTAAAAGGG
64 GTTGTGGACTTAAAAGGG
* * * *
2422279 TGCCACGGAGTTGTGGACTTAAAAGGGTGCTACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
2422344 TGTGGACTTAAAAGGG
66 TGTGGACTTAAAAGGG
* * * * *
2422360 ATGCCATGGAGTTATGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 -TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAG
*
2422425 TTGTGGATTTAAAAGGG
65 TTGTGGACTTAAAAGGG
* * *
2422442 TTCCACGGAGTTGTGGTA-TTAAAAGGAATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGA
1 TGCCACGGAGTTGTGG-ACTTAAAAGG-GTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGA
2422506 GTTGTGGACTTAAAAGGG
64 GTTGTGGACTTAAAAGGG
2422524 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
2422589 TGTGGACTTAAAAGGG
66 TGTGGACTTAAAAGGG
* *
2422605 TACCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAG
2422670 TTGTGGACTTTAAAAG
65 TTGTGGAC-TTAAAAG
2422686 AAAATGCCAC
Statistics
Matches: 528, Mismatches: 36, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
81 121 0.23
82 267 0.51
83 140 0.27
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (81 bp):
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
TGTGGACTTAAAAGGG
Found at i:2422382 original size:109 final size:109
Alignment explanation
Indices: 2422031--2422685 Score: 1017
Period size: 109 Copynumber: 6.0 Consensus size: 109
2422021 TGGAATGGGT
* * * *
2422031 TGCCACCGATTTGTGAATTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TGCCACAGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
2422096 TTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGA
65 TTGTGGACTTAAAAGGG-TGCCACAGAGTTGTGGACTTAAAAGGGA
* * *
2422142 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
**
2422207 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAAGA
66 TGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGA
* *
2422252 TGCCACAGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCTACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
2422317 TGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGA
66 TGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGA
** * *
2422361 TGCCATGGAGTTATGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* * * *
2422426 TGTGGATTTAAAAGGGTTCCACGGAGTTGTGGTA-TTAAAAGGAA
66 TGTGGACTTAAAAGGGTGCCACAGAGTTGTGG-ACTTAAAAGGGA
2422470 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
2422535 TGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG-
66 TGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGA
* *
2422578 TGCCACAGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAG
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2422643 TTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
65 TTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAG
2422686 AAAATGCCAC
Statistics
Matches: 502, Mismatches: 37, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
108 45 0.09
109 283 0.56
110 142 0.28
111 32 0.06
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (109 bp):
TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
TGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGA
Found at i:2423755 original size:13 final size:13
Alignment explanation
Indices: 2423737--2423762 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2423727 AGGGTGAAAA
2423737 GGTTTTTTTTTTT
1 GGTTTTTTTTTTT
2423750 GGTTTTTTTTTTT
1 GGTTTTTTTTTTT
2423763 TTAGGATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
GGTTTTTTTTTTT
Found at i:2429988 original size:23 final size:24
Alignment explanation
Indices: 2429937--2429988 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
2429927 AATATTTTTT
* *
2429937 ATTTTTTAAAAAAAATAAAGATCA
1 ATTTTTTAAAAAAAATAAACATAA
* *
2429961 TTTTTTTTAAAAAAA-AAACATAA
1 ATTTTTTAAAAAAAATAAACATAA
2429984 ATTTT
1 ATTTT
2429989 GAACTTTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTTTTTAAAAAAAATAAACATAA
Found at i:2430541 original size:17 final size:17
Alignment explanation
Indices: 2430519--2430554 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2430509 ATTTCATATT
* *
2430519 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
2430536 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
2430553 TT
1 TT
2430555 CATCTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:2432260 original size:49 final size:49
Alignment explanation
Indices: 2432188--2432404 Score: 254
Period size: 49 Copynumber: 4.3 Consensus size: 49
2432178 ATGTGGGGAC
*
2432188 GAATCAGCACATTGGCACCTTCATCTTTAATTCCAATGTCGCTGGCCTT
1 GAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTT
*
2432237 GAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTT
1 GAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTT
* * * * *
2432286 GAATCAGCATATTGGCGCCTTCGTAATCTTTAAAATCCGATGTCGTTGGCCTT
1 GAATCAGCACATTGGCACCTTC---ATCTTT-AAGTCCAATGTCGCTGGCCTT
* * * ** *
2432339 GAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTTACCGT
1 GAATCAGCACATTGGCA--CCT-TCATCTTTAAGTCCAATGTCGCTGGCCTT
2432391 GAATCAGCACATTG
1 GAATCAGCACATTG
2432405 ACATCCTTTT
Statistics
Matches: 142, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
49 67 0.47
52 34 0.24
53 37 0.26
55 2 0.01
56 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
GAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTT
Found at i:2432449 original size:55 final size:52
Alignment explanation
Indices: 2432328--2432459 Score: 131
Period size: 55 Copynumber: 2.5 Consensus size: 52
2432318 AAATCCGATG
* * * *
2432328 TCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATG
1 TCGTTGGCCATGAATCAGCACATTGACATTCTTCTCATCTTCAAGCCTAATA
* * * *
2432380 TCGCTT-ACCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCTAATA
1 TCG-TTGGCCATGAATCAGCACATTGACA---TTCTTCTCATCTTCAAGCCTAATA
* *
2432435 TCGTTGGCCATGAATTAGCATATTG
1 TCGTTGGCCATGAATCAGCACATTG
2432460 GTCCCTTTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
52 22 0.34
53 2 0.03
54 2 0.03
55 38 0.59
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
TCGTTGGCCATGAATCAGCACATTGACATTCTTCTCATCTTCAAGCCTAATA
Found at i:2433139 original size:19 final size:19
Alignment explanation
Indices: 2433115--2433177 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
2433105 AAACAGTAAC
2433115 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2433134 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
2433147 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2433166 TGTATCGATACA
1 TGTATCGATACA
2433178 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:2433152 original size:13 final size:13
Alignment explanation
Indices: 2433134--2433191 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
2433124 ACATAAGTGT
2433134 TGTATCGATACAA
1 TGTATCGATACAA
2433147 TGTATCGATACATAA
1 TGTATCGATAC--AA
2433162 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
2433179 TGTATCGCTACAA
1 TGTATCGATACAA
2433192 AGCTACTACC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2433156 original size:32 final size:32
Alignment explanation
Indices: 2433115--2433190 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
2433105 AAACAGTAAC
2433115 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2433147 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2433179 TGTATCGCTACA
1 TGTATCGATACA
2433191 AAGCTACTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2433227 original size:13 final size:13
Alignment explanation
Indices: 2433209--2433234 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2433199 ACCAAGGAAA
2433209 TGTATCGATACAT
1 TGTATCGATACAT
2433222 TGTATCGATACAT
1 TGTATCGATACAT
2433235 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2438320 original size:18 final size:20
Alignment explanation
Indices: 2438281--2438320 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
2438271 TATAAATTAA
2438281 TTTCTTTTATAATTATAATT
1 TTTCTTTTATAATTATAATT
2438301 TTTCTTTT-TAA-TATAATT
1 TTTCTTTTATAATTATAATT
2438319 TT
1 TT
2438321 GATAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTCTTTTATAATTATAATT
Found at i:2438991 original size:16 final size:15
Alignment explanation
Indices: 2438958--2438995 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2438948 TCATGTTTTC
*
2438958 TAATT-ATATTTGCT
1 TAATTCATAGTTGCT
2438972 TAATTCATAGTTGCCT
1 TAATTCATAGTTG-CT
2438988 TAATTCAT
1 TAATTCAT
2438996 GTATATTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 6 0.29
16 10 0.48
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (15 bp):
TAATTCATAGTTGCT
Found at i:2439576 original size:72 final size:72
Alignment explanation
Indices: 2439438--2439633 Score: 190
Period size: 72 Copynumber: 2.8 Consensus size: 72
2439428 GTTTTTGTAA
* * ** **
2439438 ATGGCCAATCCTTAAGGGCCTTTTTGCAAATTTTTCATAATTTTCAAAATTCATTTTGGGTCATT
1 ATGGCCAAACCTTAAGGGCCTTTTTGCAAAATTCCCATAATTTTCAAAATTCATTTTGAATCATT
2439503 TTCCAAT
66 TTCCAAT
* * *
2439510 ATGGCCAAACCTT-AGAGGTCTTTTTGCAAAATTCCCATAATTTTCAAAATTCGTTTTGAATTAT
1 ATGGCCAAACCTTAAG-GGCCTTTTTGCAAAATTCCCATAATTTTCAAAATTCATTTTGAATCAT
2439574 TTTCC---
65 TTTCCAAT
* * * ** *
2439579 A--GCCAAACCTTAAGAGACTTTTTACCTAATTCTCATAACTTTT-AAAATTCATTTT
1 ATGGCCAAACCTTAAGGGCCTTTTTGCAAAATTCCCATAA-TTTTCAAAATTCATTTT
2439634 AGGTTACTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
67 39 0.37
68 6 0.06
69 1 0.01
71 2 0.02
72 57 0.54
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (72 bp):
ATGGCCAAACCTTAAGGGCCTTTTTGCAAAATTCCCATAATTTTCAAAATTCATTTTGAATCATT
TTCCAAT
Found at i:2441999 original size:20 final size:20
Alignment explanation
Indices: 2441974--2442029 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
2441964 ATTTTTTAAT
* *
2441974 TTAAATAAATATTAAATATA
1 TTAAATAATTATTAAAAATA
*
2441994 TTAAATAATTAATAAAAATA
1 TTAAATAATTATTAAAAATA
*
2442014 TGTATATAATTATTAA
1 T-TAAATAATTATTAA
2442030 TGAAACTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TTAAATAATTATTAAAAATA
Found at i:2442692 original size:21 final size:21
Alignment explanation
Indices: 2442668--2442724 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
2442658 GTAGAAGATG
*
2442668 AAAAATAAAATATA-AAAAAT
1 AAAAAAAAAATATATAAAAAT
*
2442688 AAAAAAATAAATA-ATAAGAAT
1 AAAAAAA-AAATATATAAAAAT
2442709 AAAAAGAAAAATATAT
1 AAAAA-AAAAATATAT
2442725 TATAATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 7 0.23
21 20 0.65
22 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAAAAAAAATATATAAAAAT
Found at i:2443429 original size:17 final size:16
Alignment explanation
Indices: 2443400--2443433 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2443390 TTAATTAATG
*
2443400 ATTTTTTTTATTTTTT
1 ATTTTTTTCATTTTTT
2443416 ATTTTTTATCATTTTTT
1 ATTTTTT-TCATTTTTT
2443433 A
1 A
2443434 CTCAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTTTCATTTTTT
Found at i:2444300 original size:13 final size:13
Alignment explanation
Indices: 2444282--2444308 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2444272 CCTTAACTGT
2444282 TTGTATCGATACA
1 TTGTATCGATACA
2444295 TTGTATCGATACA
1 TTGTATCGATACA
2444308 T
1 T
2444309 GACCAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2446996 original size:305 final size:293
Alignment explanation
Indices: 2446464--2447044 Score: 695
Period size: 292 Copynumber: 1.9 Consensus size: 293
2446454 ATTAAAATAT
*
2446464 ATATATATAATTGAATTAAAGATAAATTTAAAACATTTTTCGTATAAAAAATTTAGGAGAAGGGA
1 ATATATATAATTAAATTAAAGATAAATTTAAAACATTTTTCGTATAAAAAATTTAGGAGAAGGGA
* * * *
2446529 GATTATCCAAATTTAAAATTAGAGCATGCCAGTGGTACTTATAGATTACTGGTCGAATAAGACTG
66 GATTATCCAAATCTAAAATTAGAGCATGCCAGTAGTACTTATAGATCAATGGTCGAATAAGACTG
* *
2446594 CTTCTAAAACCCAAACCTTAAAAAAATTTTAACATGTCTACTTGAATGAAAATATAATTTAATTT
131 CTTATAAAACCCAAACCTTAAAAAAATTTTAACATGTCTACTTGAATGAAAATATAATTTAACTT
* * *
2446659 GATAGTAATTAAAAATAATTTTGTAGTT-AAAAATACTTTAAGTAAAAA-ATATAAGAAAAAAAA
196 GATACTAATTAAAAATAATTTTGTAATTAAAAAATACTTTAAGTAAAAATATAAAAGAAAAAAAA
2446722 ATAAATAAAAAGTAAATCATTAATAAAAGGCTTA
261 ATAAATAAAAA-TAAATCATTAATAAAAGGCTTA
* * * *
2446756 ATATATGTAATTAAATTAAAGA-AAAGTTTAAAATATTTTTTG-ATAAAAAAATTTAGGTGAAGG
1 ATATATATAATTAAATTAAAGATAAA-TTTAAAACATTTTTCGTAT-AAAAAATTTAGGAGAAGG
* * * * * **
2446819 GAGATTATCCAAATCTAATATTAGGGCATGCTAGTAGTACTTATAGATCAATTGT-TAAGTGGGA
64 GAGATTATCCAAATCTAAAATTAGAGCATGCCAGTAGTACTTATAGATCAATGGTCGAA-TAAGA
* * * * * * *
2446883 TTGTTTATGAAACCCGAATCTTAGAAAAGATATTTAACATGTCTACTTGAACAAAAATATAATTT
128 CTGCTTATAAAACCCAAACCTTA-AAAAAAT-TTTAACATGTCTACTTG------AAT-GAA---
* *
2446948 AATTATAATTTAACTTGATACTAATTAAAGATAATTTTGTAATTAAAAAATGCTTTAAGTAAAAA
181 AA-TATAATTTAACTTGATACTAATTAAAAATAATTTTGTAATTAAAAAATACTTTAAGTAAAAA
*
2447013 TATAAAAGAAAAAAAAGTAAATAAAAATAAAT
245 TATAAAAGAAAAAAAAATAAATAAAAATAAAT
2447045 AACTGATAAT
Statistics
Matches: 240, Mismatches: 31, Indels: 22
0.82 0.11 0.08
Matches are distributed among these distances:
291 7 0.03
292 118 0.49
293 6 0.03
294 17 0.07
300 3 0.01
301 2 0.01
304 2 0.01
305 37 0.15
306 24 0.10
307 24 0.10
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (293 bp):
ATATATATAATTAAATTAAAGATAAATTTAAAACATTTTTCGTATAAAAAATTTAGGAGAAGGGA
GATTATCCAAATCTAAAATTAGAGCATGCCAGTAGTACTTATAGATCAATGGTCGAATAAGACTG
CTTATAAAACCCAAACCTTAAAAAAATTTTAACATGTCTACTTGAATGAAAATATAATTTAACTT
GATACTAATTAAAAATAATTTTGTAATTAAAAAATACTTTAAGTAAAAATATAAAAGAAAAAAAA
ATAAATAAAAATAAATCATTAATAAAAGGCTTA
Found at i:2447231 original size:7 final size:7
Alignment explanation
Indices: 2447219--2447244 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2447209 TTTTATTTTA
2447219 TTTTATT
1 TTTTATT
2447226 TTTTATT
1 TTTTATT
2447233 TTTTATT
1 TTTTATT
2447240 TTTTA
1 TTTTA
2447245 AATAGTCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:2449057 original size:19 final size:20
Alignment explanation
Indices: 2449028--2449065 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2449018 ATATGGTATA
*
2449028 ATATAAAATACATAAACATT
1 ATATAAAATACAAAAACATT
2449048 ATAT-AAATACAAAAACAT
1 ATATAAAATACAAAAACAT
2449066 GTCAAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (20 bp):
ATATAAAATACAAAAACATT
Found at i:2449677 original size:28 final size:26
Alignment explanation
Indices: 2449627--2449682 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 26
2449617 TAATTAGTCA
2449627 TATTAATTATATAATAATGAAATATATT
1 TATTAATTATATAATAA-GAAAT-TATT
2449655 TATTAATTATATTGAATAA-AAATTATT
1 TATTAATTATA-T-AATAAGAAATTATT
2449682 T
1 T
2449683 CATTTTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 5 0.19
28 15 0.58
29 1 0.04
30 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
TATTAATTATATAATAAGAAATTATT
Found at i:2449874 original size:68 final size:67
Alignment explanation
Indices: 2449753--2449887 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 67
2449743 ACTAGAAAGC
* *
2449753 ATTTTAACCCATCCAGCAGGGGGAAGGGCACCAACACGGTCAAATACTCCGTGCTGATGCCATGC
1 ATTTTAACCCACCCAGCAGGGGAAAGGGCACCAACACGGTCAAATACTCCGTGCTGATGCCATGC
2449818 TA
66 TA
* ** * *
2449820 ATTTTAACCCACCCAGTAGGGGAAAGGGGCACCAGGACGTTGAAATACTCCGTGCTGATGCCATG
1 ATTTTAACCCACCCAGCAGGGGAAA-GGGCACCAACACGGTCAAATACTCCGTGCTGATGCCATG
2449885 CTA
65 CTA
2449888 TCCAAATAGC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
67 22 0.37
68 38 0.63
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (67 bp):
ATTTTAACCCACCCAGCAGGGGAAAGGGCACCAACACGGTCAAATACTCCGTGCTGATGCCATGC
TA
Found at i:2452983 original size:171 final size:171
Alignment explanation
Indices: 2452439--2452968 Score: 997
Period size: 171 Copynumber: 3.1 Consensus size: 171
2452429 CACAGCGCTG
* *
2452439 CTGGCACTCCTCATATTTCCTCCGGGGATCTTCAGGGTTCAAGTCATGGCTACGCCGCCCTCTCT
1 CTGGCACTCCTCATATTTCCTCCGGGGATCTTCAGGGTTGAAGTCATGGCTATGCCGCCCTCTCT
*
2452504 CTTCTTCCCGTCCTTGCTTCTGCTGCTGCTTCTGGTATTGCCTTTCACAGCTTCGTTCACACTGC
66 CTTCTTCCCGTCCCTGCTTCTGCTGCTGCTTCTGGTATTGCCTTTCACAGCTTCGTTCACACTGC
2452569 TCCTGCTCCCTCTCTCCACGCATTTCCCATTGGCATCGCCT
131 TCCTGCTCCCTCTCTCCACGCATTTCCCATTGGCATCGCCT
2452610 CTGGCACTCCTCATATTTCCTCCGGGGATCTTCAGGGTTGAAGTCATGGCTATGCCGCCCTCTCT
1 CTGGCACTCCTCATATTTCCTCCGGGGATCTTCAGGGTTGAAGTCATGGCTATGCCGCCCTCTCT
*
2452675 CTTCTTCCCGTCCCTGCTTCTGCTGCTGCTTCTGGTGTTGCCTTTCACAGCTTCGTTCACACTGC
66 CTTCTTCCCGTCCCTGCTTCTGCTGCTGCTTCTGGTATTGCCTTTCACAGCTTCGTTCACACTGC
2452740 TCCTGCTCCCTCTCTCCACGCATTTCCCATTGGCATCGCCT
131 TCCTGCTCCCTCTCTCCACGCATTTCCCATTGGCATCGCCT
*
2452781 CTGGCACTCCTCATATTTCCTCCGGGGATCTTCAGGGTTGAAGTCATGGCTATGCCGCCTTCTCT
1 CTGGCACTCCTCATATTTCCTCCGGGGATCTTCAGGGTTGAAGTCATGGCTATGCCGCCCTCTCT
2452846 CTTCTTCCCGTCCCTGCTTCTGCTGCTGCTTCTGGTATTGCCTTTCACAGCTTCGTTCACACTGC
66 CTTCTTCCCGTCCCTGCTTCTGCTGCTGCTTCTGGTATTGCCTTTCACAGCTTCGTTCACACTGC
2452911 TCCTGCTCCCTCTCTCCACGCATTTCCCATTGGCATCGCCT
131 TCCTGCTCCCTCTCTCCACGCATTTCCCATTGGCATCGCCT
* *
2452952 CTGGCACTGCTCGTATT
1 CTGGCACTCCTCATATT
2452969 GCTCTCTAGG
Statistics
Matches: 351, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 351 1.00
ACGTcount: A:0.10, C:0.37, G:0.18, T:0.34
Consensus pattern (171 bp):
CTGGCACTCCTCATATTTCCTCCGGGGATCTTCAGGGTTGAAGTCATGGCTATGCCGCCCTCTCT
CTTCTTCCCGTCCCTGCTTCTGCTGCTGCTTCTGGTATTGCCTTTCACAGCTTCGTTCACACTGC
TCCTGCTCCCTCTCTCCACGCATTTCCCATTGGCATCGCCT
Found at i:2453727 original size:16 final size:15
Alignment explanation
Indices: 2453704--2453775 Score: 65
Period size: 16 Copynumber: 4.6 Consensus size: 15
2453694 ATATTTTTGT
2453704 ATTA-TTTAATTTAAA
1 ATTATTTTAATTT-AA
*
2453719 ATTATTTTAGATTTGA
1 ATTATTTTA-ATTTAA
* *
2453735 ATCATTTTAATTTTGA
1 ATTATTTTAA-TTTAA
*
2453751 GTTATTTTAAATTTAA
1 ATTATTTT-AATTTAA
2453767 ATTATTTTA
1 ATTATTTTA
2453776 GATGTGGGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
15 6 0.13
16 35 0.74
17 6 0.13
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (15 bp):
ATTATTTTAATTTAA
Found at i:2453744 original size:32 final size:32
Alignment explanation
Indices: 2453708--2453775 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
2453698 TTTTGTATTA
* *
2453708 TTTAATTTAAAATTATTTTAGATTTGAATCAT
1 TTTAATTTAAAATTATTTTAAATTTAAATCAT
** * *
2453740 TTTAATTTTGAGTTATTTTAAATTTAAATTAT
1 TTTAATTTAAAATTATTTTAAATTTAAATCAT
2453772 TTTA
1 TTTA
2453776 GATGTGGGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (32 bp):
TTTAATTTAAAATTATTTTAAATTTAAATCAT
Found at i:2454611 original size:12 final size:13
Alignment explanation
Indices: 2454582--2454613 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2454572 TATTTATATA
2454582 AGACTTAAAATTT
1 AGACTTAAAATTT
2454595 A-ACTTAAAA-TT
1 AGACTTAAAATTT
2454606 AGACTTAA
1 AGACTTAA
2454614 TAATATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 14 0.78
13 1 0.06
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.34
Consensus pattern (13 bp):
AGACTTAAAATTT
Found at i:2455159 original size:23 final size:22
Alignment explanation
Indices: 2455120--2455186 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
2455110 ATTTATTTTA
*
2455120 TTTTTTATTATATTATTAAAATAT
1 TTTTTTATTA-A-TATTTAAATAT
*
2455144 TATTTTTATTAATATTTATATAT
1 T-TTTTTATTAATATTTAAATAT
*
2455167 TTTTTAATTAA-ATTTAAATA
1 TTTTTTATTAATATTTAAATA
2455187 AAAATTCAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
21 8 0.21
22 9 0.24
23 10 0.26
24 2 0.05
25 9 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTTTATTAATATTTAAATAT
Found at i:2455170 original size:21 final size:21
Alignment explanation
Indices: 2455118--2455186 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
2455108 AAATTTATTT
*
2455118 TATTTTTTATTATATTATTAAAA
1 TATTTTTTATTA-A-TATTTAAA
*
2455141 TATTATTTTTATTAATATTTATA
1 TA-T-TTTTTATTAATATTTAAA
2455164 TATTTTTTAATTAA-ATTTAAA
1 TATTTTTT-ATTAATATTTAAA
2455185 TA
1 TA
2455187 AAAATTCAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 13 0.32
22 6 0.15
23 10 0.25
24 2 0.05
25 9 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTTTATTAATATTTAAA
Found at i:2455434 original size:24 final size:24
Alignment explanation
Indices: 2455407--2455461 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
2455397 TGTATTGATC
*
2455407 AAAAATATT-ATTTTTTATATATTA
1 AAAAATATTAAATTTTT-TATATTA
*
2455431 AAAAATTTTAAATTTTTTATATTA
1 AAAAATATTAAATTTTTTATATTA
2455455 AATAAAT
1 AA-AAAT
2455462 TGTTAAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AAAAATATTAAATTTTTTATATTA
Found at i:2455452 original size:26 final size:26
Alignment explanation
Indices: 2455418--2455468 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
2455408 AAAATATTAT
2455418 TTTTTATATATTAAA-AAATT-TTAAA
1 TTTTT-TATATTAAATAAATTGTTAAA
2455443 TTTTTTATATTAAATAAATTGTTAAA
1 TTTTTTATATTAAATAAATTGTTAAA
2455469 CATGTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 9 0.38
25 10 0.42
26 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTTTTATATTAAATAAATTGTTAAA
Found at i:2456034 original size:16 final size:16
Alignment explanation
Indices: 2456015--2456067 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
2456005 ACATGGCCCG
* *
2456015 AACTCAAAATAATCCA
1 AACTCAAAAGAAACCA
** *
2456031 AACTGGAAAGAAACCT
1 AACTCAAAAGAAACCA
*
2456047 AACTCAAAAGAACCCA
1 AACTCAAAAGAAACCA
2456063 AACTC
1 AACTC
2456068 GAACCCAAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.53, C:0.26, G:0.08, T:0.13
Consensus pattern (16 bp):
AACTCAAAAGAAACCA
Found at i:2456307 original size:22 final size:22
Alignment explanation
Indices: 2456282--2456325 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2456272 AAATAGTAAT
2456282 TTATCAAAAAATAAATTATATC
1 TTATCAAAAAATAAATTATATC
* *
2456304 TTATCTAAAAGTAAATTATATC
1 TTATCAAAAAATAAATTATATC
2456326 ATGAGCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (22 bp):
TTATCAAAAAATAAATTATATC
Found at i:2459118 original size:16 final size:16
Alignment explanation
Indices: 2459099--2459133 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2459089 ATATATATAT
2459099 ATATACACACACACAC
1 ATATACACACACACAC
* *
2459115 ATATATATACACACAC
1 ATATACACACACACAC
2459131 ATA
1 ATA
2459134 AAGAAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (16 bp):
ATATACACACACACAC
Found at i:2459123 original size:2 final size:2
Alignment explanation
Indices: 2459063--2459103 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
2459053 ACAATGACTT
2459063 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2459104 CACACACACA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2460382 original size:36 final size:31
Alignment explanation
Indices: 2460298--2460392 Score: 104
Period size: 36 Copynumber: 2.9 Consensus size: 31
2460288 CCTTATAACA
2460298 CTATC-TTTCAAGGCTAAGATAGAAACC-TCC
1 CTATCTTTTCAAGGCTAAGATAG-AACCTTCC
*
2460328 CTATCTTTTCACGAGCTAAGATAGAACCTTTCTC
1 CTATCTTTTCAAG-GCTAAGATAGAACC-TTC-C
2460362 TCTATCTTTTTCAAAGGCTAAGATAGAACCT
1 -CTATC-TTTTC-AAGGCTAAGATAGAACCT
2460393 CATAATCACT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
30 5 0.09
31 10 0.18
32 10 0.18
33 2 0.04
34 1 0.02
35 6 0.11
36 19 0.35
37 2 0.04
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (31 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTTCC
Found at i:2460842 original size:13 final size:13
Alignment explanation
Indices: 2460824--2460848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2460814 CTGTTCATAA
2460824 TGTATCGATACAC
1 TGTATCGATACAC
2460837 TGTATCGATACA
1 TGTATCGATACA
2460849 TGAATAGTGA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2460922 original size:46 final size:45
Alignment explanation
Indices: 2460823--2460926 Score: 122
Period size: 47 Copynumber: 2.3 Consensus size: 45
2460813 ACTGTTCATA
*
2460823 ATGTATCGATACACTGTATCGATACATGAATAGTGATGAACAGTG
1 ATGTATCGATACACTGTATCGATACATGAACAGTGATGAACAGTG
* * *
2460868 ATTTTATCGATACA-TGAATAGT-GATACGTGAACAGTTATGAACAGTG
1 A-TGTATCGATACACTG--TA-TCGATACATGAACAGTGATGAACAGTG
2460915 ATGTATCGATAC
1 ATGTATCGATAC
2460927 TATTCACAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
45 3 0.06
46 21 0.42
47 25 0.50
48 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (45 bp):
ATGTATCGATACACTGTATCGATACATGAACAGTGATGAACAGTG
Found at i:2461308 original size:19 final size:19
Alignment explanation
Indices: 2461281--2461317 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2461271 TAACAAATTA
*
2461281 ATTTTATAAATAAATATAG
1 ATTTAATAAATAAATATAG
2461300 ATTTAATAAATAAATATA
1 ATTTAATAAATAAATATA
2461318 TTAAAATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTTAATAAATAAATATAG
Found at i:2461616 original size:16 final size:16
Alignment explanation
Indices: 2461595--2461633 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
2461585 GATATAAATT
2461595 TTAAAATAATTTAAAC
1 TTAAAATAATTTAAAC
*
2461611 TTAAAATAATTTAAAT
1 TTAAAATAATTTAAAC
2461627 TTAAAAT
1 TTAAAAT
2461634 GACCAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAAATAATTTAAAC
Found at i:2463766 original size:17 final size:17
Alignment explanation
Indices: 2463746--2463778 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2463736 ATAAATTTTG
2463746 ATATATATATTTATATC
1 ATATATATATTTATATC
*
2463763 ATATTTATATTTATAT
1 ATATATATATTTATAT
2463779 GTAATTGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATATATTTATATC
Found at i:2466589 original size:1 final size:1
Alignment explanation
Indices: 2466583--2466608 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
2466573 TTTAGCTCAT
2466583 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
2466609 CTAAACTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2469410 original size:18 final size:18
Alignment explanation
Indices: 2469386--2469443 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
2469376 ATGAACCCCA
2469386 CCTGGAGTAATCACTAGG
1 CCTGGAGTAATCACTAGG
* *
2469404 TCTGGAGTAATCGCTAGG
1 CCTGGAGTAATCACTAGG
*
2469422 CCGGGAGTAATCACTAGG
1 CCTGGAGTAATCACTAGG
2469440 CCTG
1 CCTG
2469444 TTACCCCATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (18 bp):
CCTGGAGTAATCACTAGG
Found at i:2471291 original size:36 final size:36
Alignment explanation
Indices: 2471249--2471330 Score: 155
Period size: 36 Copynumber: 2.3 Consensus size: 36
2471239 ATGGTCCCAG
2471249 TTAGTTAACTAAGAAAACAAATGGCTCTATCTTCAC
1 TTAGTTAACTAAGAAAACAAATGGCTCTATCTTCAC
*
2471285 TTAGTTAACTAAGAAAACAAATGTCTCTATCTTCAC
1 TTAGTTAACTAAGAAAACAAATGGCTCTATCTTCAC
2471321 TTAGTTAACT
1 TTAGTTAACT
2471331 TCACTCGCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (36 bp):
TTAGTTAACTAAGAAAACAAATGGCTCTATCTTCAC
Found at i:2473420 original size:13 final size:13
Alignment explanation
Indices: 2473402--2473429 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2473392 ATACAAAGAT
2473402 CAATGTATCGATA
1 CAATGTATCGATA
2473415 CAATGTATCGATA
1 CAATGTATCGATA
2473428 CA
1 CA
2473430 TTAAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2473424 original size:33 final size:32
Alignment explanation
Indices: 2473387--2473449 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
2473377 TTCCCAAATA
2473387 TATCGATACA-AAGATCAATGTATCGATACAATG
1 TATCGATACATAAG-T-AATGTATCGATACAATG
2473420 TATCGATACATTAAGTAATGTATCGATACA
1 TATCGATACA-TAAGTAATGTATCGATACA
2473450 TTTCCTTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 24 0.86
34 1 0.04
35 3 0.11
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (32 bp):
TATCGATACATAAGTAATGTATCGATACAATG
Found at i:2473505 original size:19 final size:21
Alignment explanation
Indices: 2473481--2473530 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
2473471 AGCGATACAT
2473481 TGTATCGATACA-ATACT-TA
1 TGTATCGATACAGATACTGTA
* *
2473500 TGTATCGATACAGTTACTGTT
1 TGTATCGATACAGATACTGTA
2473521 TGTATCGATA
1 TGTATCGATA
2473531 TAAATTGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 12 0.44
20 4 0.15
21 11 0.41
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (21 bp):
TGTATCGATACAGATACTGTA
Found at i:2474070 original size:15 final size:16
Alignment explanation
Indices: 2474037--2474074 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2474027 TTGAATAATT
* *
2474037 AATTTAAAATTACTTA
1 AATTTAAAATTAATCA
2474053 AATTTAAAA-TAATCA
1 AATTTAAAATTAATCA
2474068 AATTTAA
1 AATTTAA
2474075 TAAATTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTTAAAATTAATCA
Found at i:2474168 original size:16 final size:16
Alignment explanation
Indices: 2474147--2474201 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
2474137 ACTCAAATTC
2474147 AAAATAATTTGAATCT
1 AAAATAATTTGAATCT
*
2474163 AAAATAATTTGAAACT
1 AAAATAATTTGAATCT
* * *
2474179 AAAATGATTTAAATTT
1 AAAATAATTTGAATCT
2474195 AAAATAA
1 AAAATAA
2474202 CTCAAAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (16 bp):
AAAATAATTTGAATCT
Found at i:2474933 original size:32 final size:33
Alignment explanation
Indices: 2474871--2474933 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
2474861 TTAATGATAT
*
2474871 TAATATTAAATATTTATATATTTAATAAAATTA
1 TAATATTAAATATTTATATAATTAATAAAATTA
*
2474904 TAATA-TAAATATTTATTTAAATTAA-AAAAT
1 TAATATTAAATATTTATAT-AATTAATAAAAT
2474934 AATATTGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATATTAAATATTTATATAATTAATAAAATTA
Found at i:2474935 original size:24 final size:23
Alignment explanation
Indices: 2474888--2474939 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
2474878 AAATATTTAT
* *
2474888 ATATTTAATAAAATTATAATATAA
1 ATATTTAATAAAATTAAAAAAT-A
* *
2474912 ATATTTATTTAAATTAAAAAATA
1 ATATTTAATAAAATTAAAAAATA
2474935 ATATT
1 ATATT
2474940 GATGTAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATTTAATAAAATTAAAAAATA
Found at i:2475631 original size:21 final size:19
Alignment explanation
Indices: 2475597--2475636 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
2475587 TTACATAAAT
*
2475597 AATATAAAAATATTTTTAA
1 AATATAAAAATATTATTAA
2475616 AATATAATAAATTATTATTAA
1 AATATAA-AAA-TATTATTAA
2475637 TTAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATAAAAATATTATTAA
Found at i:2476182 original size:27 final size:26
Alignment explanation
Indices: 2476131--2476195 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 26
2476121 GCTTTTTATC
* *
2476131 ATATTTAAATTATATTTAAAGTATTTT
1 ATATTTATATTATATTTAAAGTA-TTA
2476158 ATATTTATATTA-ATTTTAATA-TATTA
1 ATATTTATATTATA-TTTAA-AGTATTA
2476184 ATAATTTATATT
1 AT-ATTTATATT
2476196 GTTATAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 5 0.15
27 27 0.82
28 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
ATATTTATATTATATTTAAAGTATTA
Found at i:2476247 original size:22 final size:22
Alignment explanation
Indices: 2476221--2476267 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2476211 TTAATATCTT
2476221 TATTAAGTATGTTAGGTAAATA
1 TATTAAGTATGTTAGGTAAATA
* * *
2476243 TATTAGGTGTGTTAGGTGAATA
1 TATTAAGTATGTTAGGTAAATA
2476265 TAT
1 TAT
2476268 CTTGTATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (22 bp):
TATTAAGTATGTTAGGTAAATA
Found at i:2478003 original size:37 final size:34
Alignment explanation
Indices: 2477940--2478044 Score: 138
Period size: 34 Copynumber: 3.0 Consensus size: 34
2477930 TCTTTATTAA
2477940 GTATGTTAGGTAAACATATTAGGTGTGTTAGGTG
1 GTATGTTAGGTAAACATATTAGGTGTGTTAGGTG
* * *
2477974 GTATGTTAGGTGAGTAATATATTAAGTGTGTTAAGTG
1 GTATGTTAGGT-A--AACATATTAGGTGTGTTAGGTG
* *
2478011 ATATGTTAAGTAAACATATTAGGTGTGTTAGGTG
1 GTATGTTAGGTAAACATATTAGGTGTGTTAGGTG
2478045 AACATATCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
34 30 0.50
35 1 0.02
36 1 0.02
37 28 0.47
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.39
Consensus pattern (34 bp):
GTATGTTAGGTAAACATATTAGGTGTGTTAGGTG
Found at i:2478400 original size:22 final size:23
Alignment explanation
Indices: 2478335--2478399 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
2478325 TTGATAATTT
2478335 TAAG-TAAAAAA-TAATTATTATA
1 TAAGATAAAAAATTAATT-TTATA
*
2478357 TAAGA-AAATAATTAACATTTTATA
1 TAAGATAAAAAATT-A-ATTTTATA
2478381 TAAGATAAAAAATTAATTT
1 TAAGATAAAAAATTAATTT
2478400 AAATACAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 9 0.25
23 5 0.14
24 12 0.33
25 10 0.28
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (23 bp):
TAAGATAAAAAATTAATTTTATA
Found at i:2478705 original size:20 final size:20
Alignment explanation
Indices: 2478652--2478706 Score: 78
Period size: 18 Copynumber: 2.8 Consensus size: 20
2478642 AGGTAAAACT
2478652 TATATTTTTATTTCAAAATAA
1 TATATTTTTATTT-AAAATAA
*
2478673 TAT-TTTATA-TTAAAATAA
1 TATATTTTTATTTAAAATAA
2478691 TATATTTTTATTTAAA
1 TATATTTTTATTTAAA
2478707 TTTAATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 10 0.33
19 7 0.23
20 10 0.33
21 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATTTTTATTTAAAATAA
Found at i:2478707 original size:19 final size:19
Alignment explanation
Indices: 2478652--2478707 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
2478642 AGGTAAAACT
2478652 TATATTTTTATTTCAAAATAA
1 TATATTTTTATTT--AAATAA
* *
2478673 TAT-TTTATATTAAAATAA
1 TATATTTTTATTTAAATAA
2478691 TATATTTTTATTTAAAT
1 TATATTTTTATTTAAAT
2478708 TTAATTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 7 0.23
21 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTTTATTTAAATAA
Found at i:2479207 original size:13 final size:13
Alignment explanation
Indices: 2479189--2479255 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 13
2479179 AAATAATAAT
*
2479189 TTTATATATTATA
1 TTTATAAATTATA
*
2479202 TTTATAAATAATA
1 TTTATAAATTATA
2479215 TTTA-AAATTAT-
1 TTTATAAATTATA
*
2479226 TTTA-AAA-TATT
1 TTTATAAATTATA
*
2479237 TTTATATA-TA-A
1 TTTATAAATTATA
2479248 TTTATAAA
1 TTTATAAA
2479256 ATATCTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
10 3 0.07
11 18 0.39
12 10 0.22
13 15 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTATAAATTATA
Done.