Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 155 of 172
Found at i:50791319 original size:18 final size:18
Alignment explanation
Indices: 50791298--50791488 Score: 149
Period size: 18 Copynumber: 10.6 Consensus size: 18
50791288 TAACTGATTA
50791298 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
50791316 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
* *
50791334 TTACTGGAT-ATTAGGCTG
1 TTACTGAATAATT-GACTG
* * *
50791352 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
50791370 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
50791388 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
50791406 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* * *
50791424 CTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
50791443 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
50791460 TTACTGAATAATTGACTA
1 TTACTGAATAATTGACTG
*
50791478 TTACTGGATAA
1 TTACTGAATAA
50791489 CCGATCAATT
Statistics
Matches: 140, Mismatches: 23, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
17 20 0.14
18 103 0.74
19 17 0.12
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:50791374 original size:36 final size:36
Alignment explanation
Indices: 50791286--50791568 Score: 128
Period size: 36 Copynumber: 7.6 Consensus size: 36
50791276 AAAGGTATAA
*
50791286 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACCG
* * * * * * *
50791322 GATAATTGACTGTTACTGGAT-ATTAGGCTGTTACTG
1 AATAACTGAATATTACTGAATAATT-GACTGTTACCG
* *
50791358 AATAACTGAATATTACTGAATAATTGA-TCATTACTG
1 AATAACTGAATATTACTGAATAATTGACT-GTTACCG
* * * * *
50791394 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACCG
* * * *
50791430 AATAACTTAATTGTTACTGAAT-ATCTGA-TTTTACTG
1 AATAACTGAA-TATTACTGAATAAT-TGACTGTTACCG
* * * *
50791466 AATAATTGACTATTACTGGATAACCGATCAATTGA-TCGATACTG
1 AATAACTGAATATTACT-G---A---AT-AATTGACT-GTTACCG
** * * *
50791510 AATAACTGGTTATTATTGAATAATTTATTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACCG
* *
50791546 AATAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAA
50791569 ATAATTGTTC
Statistics
Matches: 187, Mismatches: 41, Indels: 38
0.70 0.15 0.14
Matches are distributed among these distances:
35 11 0.06
36 125 0.67
37 22 0.12
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 20 0.11
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACCG
Found at i:50791429 original size:72 final size:72
Alignment explanation
Indices: 50791286--50791476 Score: 183
Period size: 72 Copynumber: 2.7 Consensus size: 72
50791276 AAAGGTATAA
* * * * * * * * *
50791286 AATAACTGATTATTACTGAATAATTGA-CTGTTACCGGATAATTGACTGTTACTGGATATTAGGC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTGACTGTCACTGAATAATAGAC
*
50791350 TGTTACTG
65 TGCTACTG
*
50791358 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAAT-AATAGAC
50791422 TGCTACTG
65 TGCTACTG
* * * *
50791430 AATAACTTAATTGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACT
1 AATAACTGAA-TATTACTGAATAAT-TGATCATTACTGAATAACTGACT
50791477 ATTACTGGAT
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
72 82 0.83
73 17 0.17
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAATAGACT
GCTACTG
Found at i:50791577 original size:18 final size:18
Alignment explanation
Indices: 50791526--50791581 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
50791516 TGGTTATTAT
* *
50791526 TGAATAATTTATTGTTAC
1 TGAATAAATAATTGTTAC
* * * *
50791544 CGAATAACTGACTGTTAC
1 TGAATAAATAATTGTTAC
50791562 TGAATAAATAATTGTT-C
1 TGAATAAATAATTGTTAC
50791579 TGA
1 TGA
50791582 GAGTTAATGA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (18 bp):
TGAATAAATAATTGTTAC
Found at i:50795721 original size:46 final size:46
Alignment explanation
Indices: 50795655--50796622 Score: 1400
Period size: 46 Copynumber: 21.0 Consensus size: 46
50795645 GTGTGCTCTC
*
50795655 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
50795701 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*
50795747 TGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
50795793 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
50795839 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*
50795885 TGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
50795931 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
50795977 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*
50796023 TGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
50796069 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
50796115 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*
50796161 TGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
50796207 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
50796253 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*
50796299 TGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
50796345 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
50796391 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*
50796437 TGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
50796483 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
50796529 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
50796575 TGACA-GAAAATG-AGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTA-TAAGACCATGGTTGAAAGATACCATGGCAACA
50796621 TG
1 TG
50796623 TCAAAGATAA
Statistics
Matches: 827, Mismatches: 93, Indels: 4
0.90 0.10 0.00
Matches are distributed among these distances:
45 2 0.00
46 825 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:50795909 original size:138 final size:138
Alignment explanation
Indices: 50795661--50796622 Score: 1784
Period size: 138 Copynumber: 7.0 Consensus size: 138
50795651 TCTCTGATAT
*
50795661 GAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
1 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
50795726 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
66 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
50795791 CATGACGG
131 CATGACGG
50795799 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
1 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
50795864 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
66 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
50795929 CATGACGG
131 CATGACGG
50795937 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
1 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
50796002 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
66 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
50796067 CATGACGG
131 CATGACGG
50796075 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
1 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
50796140 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
66 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
50796205 CATGACGG
131 CATGACGG
50796213 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
1 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
50796278 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
66 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
50796343 CATGACGG
131 CATGACGG
50796351 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
1 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
50796416 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
66 TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
50796481 CATGACGG
131 CATGACGG
* * **
50796489 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGG
1 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
* * * * * *
50796554 TTGAAAGATACCATGGCAACATGACA-GAAAATG-AGTAAGACCATAGTTGAAAGACACTATGGC
66 TTGAAAGATACCATGGCAACGTGATATG-AAATGTA-TAAGACCGTGGTTGAAAGATACCATGGC
*
50796617 ATCATG
129 AACATG
50796623 TCAAAGATAA
Statistics
Matches: 810, Mismatches: 12, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
137 2 0.00
138 808 1.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (138 bp):
GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
TTGAAAGATACCATGGCAACGTGATATGAAATGTATAAGACCGTGGTTGAAAGATACCATGGCAA
CATGACGG
Found at i:50796924 original size:16 final size:17
Alignment explanation
Indices: 50796903--50796935 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50796893 ATGATGGAGC
50796903 ATGAAAT-ATTAATATA
1 ATGAAATGATTAATATA
*
50796919 ATGAAATGATTGATATA
1 ATGAAATGATTAATATA
50796936 TACTTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTAATATA
Found at i:50800714 original size:21 final size:21
Alignment explanation
Indices: 50800652--50800717 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
50800642 CCTGATCAGT
** * *
50800652 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
50800673 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
50800694 ATACGACACGCGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
50800715 ATA
1 ATA
50800718 TATGACACAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:50801135 original size:15 final size:15
Alignment explanation
Indices: 50801110--50801167 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
50801100 TCATATATAT
50801110 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
50801126 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
50801141 AATAATTTCAATCAA
1 TATAAATTCAATCAA
50801156 TATAAATTCAAT
1 TATAAATTCAAT
50801168 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:50802443 original size:5 final size:5
Alignment explanation
Indices: 50802430--50802471 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
50802420 TTCTTTAGTT
50802430 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
50802472 TAAAACATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 32 0.89
6 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:50802507 original size:8 final size:8
Alignment explanation
Indices: 50802494--50802522 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
50802484 TATCTTTATT
50802494 ATATAATA
1 ATATAATA
50802502 ATATAATA
1 ATATAATA
50802510 ATATAATA
1 ATATAATA
50802518 ATATA
1 ATATA
50802523 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:50809484 original size:140 final size:140
Alignment explanation
Indices: 50809232--50809512 Score: 544
Period size: 140 Copynumber: 2.0 Consensus size: 140
50809222 ACATTCCTCG
50809232 ATGGTTTGTAGCGGACTTTGTTGATCTTGTTAATCTGGTAGGACATCTAGATATCCATCAAAAGG
1 ATGGTTTGTAGCGGACTTTGTTGATCTTGTTAATCTGGTAGGACATCTAGATATCCATCAAAAGG
*
50809297 TTTCCATACCCATGTTCTTTTTGTCAATGGATTCACCTCAGAATTTCGATTCAGTGCTTAGTACA
66 TTTCCATACCCATGTTCTTTTTGTCAATGGATTCACCACAGAATTTCGATTCAGTGCTTAGTACA
50809362 ATGGTGTATA
131 ATGGTGTATA
*
50809372 ATGGTTTGTAGCGGACTTTGTTGATCTTGTTAATCTGGTCGGACATCTAGATATCCATCAAAAGG
1 ATGGTTTGTAGCGGACTTTGTTGATCTTGTTAATCTGGTAGGACATCTAGATATCCATCAAAAGG
50809437 TTTCCATACCCATGTTCTTTTTGTCAATGGATTCACCACAGAATTTCGATTCAGTGCTTAGTACA
66 TTTCCATACCCATGTTCTTTTTGTCAATGGATTCACCACAGAATTTCGATTCAGTGCTTAGTACA
50809502 ATGGTGTATA
131 ATGGTGTATA
50809512 A
1 A
50809513 GCCAGAAGCA
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (140 bp):
ATGGTTTGTAGCGGACTTTGTTGATCTTGTTAATCTGGTAGGACATCTAGATATCCATCAAAAGG
TTTCCATACCCATGTTCTTTTTGTCAATGGATTCACCACAGAATTTCGATTCAGTGCTTAGTACA
ATGGTGTATA
Found at i:50827771 original size:20 final size:20
Alignment explanation
Indices: 50827732--50827771 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50827722 CGTAAAATGA
* *
50827732 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATCTACT
*
50827752 TTTCTGTAAAATGATCTACT
1 TTTCTGGAAAATGATCTACT
50827772 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATCTACT
Found at i:50845031 original size:20 final size:20
Alignment explanation
Indices: 50845003--50845041 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50844993 GGTAAAAGAT
* *
50845003 AAATTTTGAGAAATTCTTAA
1 AAATATTGAGAAATCCTTAA
*
50845023 AAATATTGATAAATCCTTA
1 AAATATTGAGAAATCCTTA
50845042 GATTTTTAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
AAATATTGAGAAATCCTTAA
Found at i:50848789 original size:29 final size:29
Alignment explanation
Indices: 50848743--50848802 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
50848733 ATATGGTAAA
* * *
50848743 TTAATTATGGTTAAAATGGCATGTATAGG
1 TTAATTATGGTCAAAATGGCATATAAAGG
50848772 TTAATT-TGGTCAACAATGGCATATAAAGG
1 TTAATTATGGTCAA-AATGGCATATAAAGG
50848801 TT
1 TT
50848803 TGGTTATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (29 bp):
TTAATTATGGTCAAAATGGCATATAAAGG
Found at i:50852756 original size:21 final size:23
Alignment explanation
Indices: 50852731--50852773 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
50852721 ATTTTTGAAA
*
50852731 TTTATTTATTT-T-TAAAATATT
1 TTTATTAATTTGTATAAAATATT
50852752 TTTATTAATTTGTATAAAATAT
1 TTTATTAATTTGTATAAAATAT
50852774 ACGTGGACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTATTAATTTGTATAAAATATT
Found at i:50857831 original size:16 final size:16
Alignment explanation
Indices: 50857810--50857879 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
50857800 TTGATTTGTT
* *
50857810 ATTACACCTTTATTCC
1 ATTACACCTCTAATCC
50857826 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
50857842 AATACACCTCCAATCC
1 ATTACACCTCTAATCC
*
50857858 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
50857874 AATACA
1 ATTACA
50857880 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:50865081 original size:22 final size:20
Alignment explanation
Indices: 50865034--50865073 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
50865024 TTTACCCTAC
*
50865034 AATATATTAATTTTTAAAAG
1 AATATATTAATTTTCAAAAG
*
50865054 ATTATATTATATTTTCAAAA
1 AATATATTA-ATTTTCAAAA
50865074 TTAATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
AATATATTAATTTTCAAAAG
Found at i:50866675 original size:22 final size:22
Alignment explanation
Indices: 50866650--50866692 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
50866640 TGATAATAAA
50866650 AATTTA-ATTTTATAATTTTAAT
1 AATTTATATTTT-TAATTTTAAT
50866672 AATTTATATTTTTAATTTTAA
1 AATTTATATTTTTAATTTTAA
50866693 AAAATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AATTTATATTTTTAATTTTAAT
Found at i:50868837 original size:17 final size:16
Alignment explanation
Indices: 50868811--50868848 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
50868801 GGCTTAATGA
*
50868811 TATATGCATGTGTATAT
1 TATATACATGT-TATAT
50868828 TATATACATGTTATAT
1 TATATACATGTTATAT
50868844 T-TATA
1 TATATA
50868849 AGTTAACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 10 0.50
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (16 bp):
TATATACATGTTATAT
Found at i:50873283 original size:54 final size:54
Alignment explanation
Indices: 50873161--50873283 Score: 149
Period size: 54 Copynumber: 2.3 Consensus size: 54
50873151 TAGGGCCTGC
* * * * *
50873161 GACATGGCCGTGTGATCCAAGTCAGTATGTTACACGGGCAGAGGTACGGGTTGG
1 GACACGGCCGTGTGTTCCAAGTCAGTATGTTACACGGGCAAAGGCACGGGCTGG
* * * *
50873215 GATACGGCCGTGTGTTTCAAGTCAGTGA-GTTACACGGGTAAAGGCATGGGCTGG
1 GACACGGCCGTGTGTTCCAAGTCAGT-ATGTTACACGGGCAAAGGCACGGGCTGG
50873269 GACACGGCCGTGTGT
1 GACACGGCCGTGTGT
50873284 CCCAGCTTCG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 57 0.98
55 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.37, T:0.23
Consensus pattern (54 bp):
GACACGGCCGTGTGTTCCAAGTCAGTATGTTACACGGGCAAAGGCACGGGCTGG
Found at i:50874692 original size:12 final size:12
Alignment explanation
Indices: 50874675--50874699 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50874665 TTGTGAGATA
50874675 ATATATATATTT
1 ATATATATATTT
50874687 ATATATATATTT
1 ATATATATATTT
50874699 A
1 A
50874700 AGAAATAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATATATATTT
Found at i:50877303 original size:21 final size:20
Alignment explanation
Indices: 50877260--50877303 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
50877250 ATCTTTAAAG
*
50877260 GCTTCTTAATTTTGAAGCTA
1 GCTTCTTAATTTTGAAACTA
50877280 GCTT-TTAATTTTTGAAAACTA
1 GCTTCTTAA-TTTTG-AAACTA
50877301 GCT
1 GCT
50877304 GCAGTTCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 9 0.43
21 8 0.38
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (20 bp):
GCTTCTTAATTTTGAAACTA
Found at i:50884738 original size:21 final size:21
Alignment explanation
Indices: 50884712--50884752 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50884702 ATCTGCTCAA
* *
50884712 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
50884733 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
50884753 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:50888858 original size:36 final size:36
Alignment explanation
Indices: 50888811--50888883 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
50888801 TCATGGATGG
50888811 CGTATGACTCCTACTAAAAAGCCCTAAAGAAGTTAA
1 CGTATGACTCCTACTAAAAAGCCCTAAAGAAGTTAA
50888847 CGTATGACTCCTACTAAAAAGCCCTAAAGAAGTTAA
1 CGTATGACTCCTACTAAAAAGCCCTAAAGAAGTTAA
50888883 C
1 C
50888884 TTGAAGTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (36 bp):
CGTATGACTCCTACTAAAAAGCCCTAAAGAAGTTAA
Found at i:50891511 original size:24 final size:24
Alignment explanation
Indices: 50891483--50891531 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
50891473 GTTCTCACAA
50891483 AAATATAATTTATTTGAGAAAAAT
1 AAATATAATTTATTTGAGAAAAAT
50891507 AAATATAATTTATTTGAGAAAAAT
1 AAATATAATTTATTTGAGAAAAAT
50891531 A
1 A
50891532 CTCTTACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (24 bp):
AAATATAATTTATTTGAGAAAAAT
Found at i:50897258 original size:31 final size:31
Alignment explanation
Indices: 50897223--50897315 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 31
50897213 CATGGGCCAT
50897223 GCCCAAAAAAAGAGCCTAAAAATTTATCCAA
1 GCCCAAAAAAAGAGCCTAAAAATTTATCCAA
** * * *
50897254 GCCCAACCCAAA-A---T-AAAA-TT-GCTAG
1 GCCCAA-AAAAAGAGCCTAAAAATTTATCCAA
*
50897279 GCCCAAAAAAAGGGCCTAAAAATTTATCCAA
1 GCCCAAAAAAAGAGCCTAAAAATTTATCCAA
50897310 GCCCAA
1 GCCCAA
50897316 CCCAAATAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 16
0.61 0.16 0.23
Matches are distributed among these distances:
24 3 0.07
25 8 0.19
26 2 0.05
27 4 0.09
28 2 0.05
29 4 0.09
30 2 0.05
31 15 0.35
32 3 0.07
ACGTcount: A:0.47, C:0.26, G:0.12, T:0.15
Consensus pattern (31 bp):
GCCCAAAAAAAGAGCCTAAAAATTTATCCAA
Found at i:50897332 original size:55 final size:56
Alignment explanation
Indices: 50897223--50897332 Score: 195
Period size: 56 Copynumber: 2.0 Consensus size: 56
50897213 CATGGGCCAT
*
50897223 GCCCAAAAAAAGAGCCTAAAAATTTATCCAAGCCCAACCCAAAATAAAATTGCTAG
1 GCCCAAAAAAAGAGCCTAAAAATTTATCCAAGCCCAACCCAAAATAAAAATGCTAG
*
50897279 GCCCAAAAAAAGGGCCTAAAAATTTATCCAAGCCCAACCC-AAATAAAAATGCTA
1 GCCCAAAAAAAGAGCCTAAAAATTTATCCAAGCCCAACCCAAAATAAAAATGCTA
50897333 AAACCCGGGC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
55 13 0.25
56 39 0.75
ACGTcount: A:0.48, C:0.25, G:0.11, T:0.15
Consensus pattern (56 bp):
GCCCAAAAAAAGAGCCTAAAAATTTATCCAAGCCCAACCCAAAATAAAAATGCTAG
Found at i:50897547 original size:29 final size:30
Alignment explanation
Indices: 50897505--50897565 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
50897495 CTTAACAAGT
50897505 AAATGCCTCTAAAATAATAA-AAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
50897534 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
50897564 AA
1 AA
50897566 GAAAATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:50897965 original size:70 final size:70
Alignment explanation
Indices: 50897852--50897992 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
50897842 GCAGGCCTTT
*
50897852 AGGCCAGGCCGGGTAGCCCGGCCCATGAACACCACTAGATGTAACTTAATAAACACATGTCTCTA
1 AGGCCAGGCCGGGTAGCCCGGCCCATGAACACCACTAGATGTAACTTAATAAACAAATGTCTCTA
50897917 AATTA
66 AATTA
50897922 AGGCCAGGCCGGGTAGCCCGGCCCATGAACACCACTAGATGTAACTTAATAAACAAATGTCTCTA
1 AGGCCAGGCCGGGTAGCCCGGCCCATGAACACCACTAGATGTAACTTAATAAACAAATGTCTCTA
50897987 AATTA
66 AATTA
50897992 A
1 A
50897993 TAACAAAATT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (70 bp):
AGGCCAGGCCGGGTAGCCCGGCCCATGAACACCACTAGATGTAACTTAATAAACAAATGTCTCTA
AATTA
Found at i:50898009 original size:30 final size:30
Alignment explanation
Indices: 50897973--50898034 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
50897963 TAACTTAATA
*
50897973 AACAAATGTCTCTAAATTAATAACAAAATT
1 AACAAATGTCTCTAAAATAATAACAAAATT
*
50898003 AACAAATGTCTTTAAAATAATAACAAAATT
1 AACAAATGTCTCTAAAATAATAACAAAATT
50898033 AA
1 AA
50898035 TAATAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
AACAAATGTCTCTAAAATAATAACAAAATT
Found at i:50909221 original size:19 final size:20
Alignment explanation
Indices: 50909197--50909238 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
50909187 TTATTCTTTT
50909197 CTTTTTG-AAAAAAAAAATA
1 CTTTTTGCAAAAAAAAAATA
*
50909216 CTTTTTGCTAAAAAAAAACTA
1 CTTTTTGC-AAAAAAAAAATA
50909237 CT
1 CT
50909239 CAATCCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
21 13 0.65
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (20 bp):
CTTTTTGCAAAAAAAAAATA
Found at i:50916340 original size:28 final size:28
Alignment explanation
Indices: 50916286--50916348 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
50916276 AAATTTTAAA
* *
50916286 TTATTTTTACTAATTTAAATATGAAATAT
1 TTATTTTTACTAATTAAAAAATGAAAT-T
50916315 TTATTTTTACATAA-TAAAAAAT-AAATT
1 TTATTTTTAC-TAATTAAAAAATGAAATT
50916342 TTGATTT
1 TT-ATTT
50916349 GATTCAGGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.10
28 8 0.27
29 16 0.53
30 3 0.10
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (28 bp):
TTATTTTTACTAATTAAAAAATGAAATT
Found at i:50925359 original size:84 final size:86
Alignment explanation
Indices: 50925266--50925486 Score: 223
Period size: 84 Copynumber: 2.6 Consensus size: 86
50925256 TTAATTAAGC
* * * *
50925266 ACTTGAACTTTTAAAATGTATAAAAAAACTCTTAAACTTCTTCAAAAAAAGTAATTAGGTCCCT-
1 ACTTAAACTTTCAAAATGTATAAAAAAACCCTTAAACTTCTTCAAAAAAAGTAATTAGGCCCCTC
50925330 TTTTTTTT-ACTCAATTGGAT
66 TTTTTTTTCACTCAATTGGAT
* ** * * *
50925350 ACTTAAACTTTCAAAATTTATAAAAATGCCCTTAAATTTTTTCAAAAAAATTAATTAGGCCCCTG
1 ACTTAAACTTTCAAAATGTATAAAAAAACCCTTAAACTTCTTCAAAAAAAGTAATTAGGCCCCT-
*
50925415 CTTTTTTTTCGCTCAATT-GAGT
65 CTTTTTTTTCACTCAATTGGA-T
* * ** * * * *
50925437 ATTTGAACTTTCAAAATACATCAAAAAGACCCTCAAAATTTTTCAAAAAA
1 ACTTAAACTTTCAAAATGTAT-AAAAAAACCCTTAAACTTCTTCAAAAAA
50925487 GAAATTAAGT
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
84 54 0.48
86 10 0.09
87 25 0.22
88 24 0.21
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.37
Consensus pattern (86 bp):
ACTTAAACTTTCAAAATGTATAAAAAAACCCTTAAACTTCTTCAAAAAAAGTAATTAGGCCCCTC
TTTTTTTTCACTCAATTGGAT
Found at i:50925485 original size:87 final size:84
Alignment explanation
Indices: 50925306--50925486 Score: 213
Period size: 87 Copynumber: 2.1 Consensus size: 84
50925296 CTTAAACTTC
* **
50925306 TTCAAAAAAAGTAATTAGGTCCCTTTTTTTTTACTCAATTGGATACTTAAACTTTCAAAATTTAT
1 TTCAAAAAAAGTAATTAGGCCCCTTTTTTTTTACTCAATTGGATACTTAAACTTTCAAAATACAT
* *
50925371 AAAAATGCCCTTAAATTTT
66 AAAAATGCCCTCAAAATTT
* * * *
50925390 TTCAAAAAAATTAATTAGGCCCCTGCTTTTTTTTCGCTCAATT-GAGTATTTGAACTTTCAAAAT
1 TTCAAAAAAAGTAATTAGGCCCCT--TTTTTTTT-ACTCAATTGGA-TACTTAAACTTTCAAAAT
50925454 ACATCAAAAA-GACCCTCAAAATTT
62 ACAT-AAAAATG-CCCTCAAAATTT
50925478 TTCAAAAAA
1 TTCAAAAAA
50925487 GAAATTAAGT
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
84 22 0.27
86 10 0.12
87 26 0.32
88 24 0.29
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (84 bp):
TTCAAAAAAAGTAATTAGGCCCCTTTTTTTTTACTCAATTGGATACTTAAACTTTCAAAATACAT
AAAAATGCCCTCAAAATTT
Found at i:50925550 original size:14 final size:14
Alignment explanation
Indices: 50925509--50925551 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
50925499 TAGCTCTTAT
*
50925509 TAAAAATTAGAAAA
1 TAAATATTAGAAAA
* *
50925523 TAAATAATAAAAAA
1 TAAATATTAGAAAA
*
50925537 TAAATTTTAGAAAA
1 TAAATATTAGAAAA
50925551 T
1 T
50925552 CTATTAAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (14 bp):
TAAATATTAGAAAA
Found at i:50925635 original size:38 final size:38
Alignment explanation
Indices: 50925593--50925667 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
50925583 AAAACTTATT
**
50925593 AAAAATTATAATTTTTTATAAAAAT-AGTAAAAAAAATA
1 AAAAATTATAACATTTTATAAAAATCA-TAAAAAAAATA
*
50925631 AAAAATTGTAACATTTTATAAAAATCATAAAAAAAAT
1 AAAAATTATAACATTTTATAAAAATCATAAAAAAAAT
50925668 TAACGACCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (38 bp):
AAAAATTATAACATTTTATAAAAATCATAAAAAAAATA
Found at i:50926966 original size:46 final size:47
Alignment explanation
Indices: 50926886--50926984 Score: 173
Period size: 46 Copynumber: 2.1 Consensus size: 47
50926876 ATCATATTCC
50926886 TTAAGTTAGATTACGATTTTTTTCTTAATTCTCGAGAATATTTAAAAA
1 TTAA-TTAGATTACGATTTTTTTCTTAATTCTCGAGAATATTTAAAAA
*
50926934 TTAATTAGATTTCGATTTTTTT-TTAATTCTCGAGAATATTTAAAAA
1 TTAATTAGATTACGATTTTTTTCTTAATTCTCGAGAATATTTAAAAA
50926980 TTAAT
1 TTAAT
50926985 GCATTGAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 29 0.58
47 17 0.34
48 4 0.08
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.48
Consensus pattern (47 bp):
TTAATTAGATTACGATTTTTTTCTTAATTCTCGAGAATATTTAAAAA
Found at i:50927339 original size:23 final size:22
Alignment explanation
Indices: 50927310--50927356 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
50927300 AAAATGAAAT
*
50927310 AAATAAATAAAATAATAAAGGAA
1 AAATAAATAAAATAACAAA-GAA
*
50927333 AAATAAATGAAATAACAAAGAA
1 AAATAAATAAAATAACAAAGAA
50927355 AA
1 AA
50927357 TTCTAGTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (22 bp):
AAATAAATAAAATAACAAAGAA
Found at i:50929068 original size:4 final size:4
Alignment explanation
Indices: 50929059--50929111 Score: 61
Period size: 4 Copynumber: 13.2 Consensus size: 4
50929049 TATGTTTTCT
* ** * *
50929059 TTTA TTTA TTCA TTTA TTTA TACA TTCA TTCA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
50929107 TTTA T
1 TTTA T
50929112 GCTTTTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:50929562 original size:24 final size:24
Alignment explanation
Indices: 50929533--50929662 Score: 97
Period size: 24 Copynumber: 5.4 Consensus size: 24
50929523 TTTCAACATG
50929533 TTATTTTAAATTGTTATATATTAT
1 TTATTTTAAATTGTTATATATTAT
* *
50929557 TTATTTTAAGTTGCT-T-TA-T-T
1 TTATTTTAAATTGTTATATATTAT
* *
50929577 TTATTTTAAATTGTTTTACATATTAA
1 TTATTTTAAATTG--TTATATATTAT
* *
50929603 TTATTTTAAATTGTTTTATACTAT
1 TTATTTTAAATTGTTATATATTAT
* * * *
50929627 TCACTTTAAATTGCTTTTTATAATAT
1 TTATTTTAAATTG--TTATATATTAT
*
50929653 CTATTTTAAA
1 TTATTTTAAA
50929663 CTTATTTTTT
Statistics
Matches: 82, Mismatches: 16, Indels: 14
0.73 0.14 0.12
Matches are distributed among these distances:
20 13 0.16
21 1 0.01
22 3 0.04
23 1 0.01
24 33 0.40
25 1 0.01
26 30 0.37
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (24 bp):
TTATTTTAAATTGTTATATATTAT
Found at i:50929594 original size:20 final size:22
Alignment explanation
Indices: 50929533--50929708 Score: 95
Period size: 26 Copynumber: 7.3 Consensus size: 22
50929523 TTTCAACATG
50929533 TTATTTTAAATTGTTATATATTAT
1 TTATTTTAAATTGTT-T-TATTAT
* *
50929557 TTATTTTAAGTTGCTTTA-T-T
1 TTATTTTAAATTGTTTTATTAT
*
50929577 TTATTTTAAATTGTTTTACATATTAA
1 TTATTTTAAATTG-TTT---TATTAT
50929603 TTATTTTAAATTGTTTTATACTAT
1 TTATTTTAAATTGTTTTAT--TAT
* *
50929627 TCACTTTAAATTGCTTTTTATAATAT
1 TTATTTTAAATTG--TTTTAT--TAT
* *
50929653 CTATTTTAAACTTATTTTTTTATGTAT
1 TTATTTT-AA---ATTGTTTTAT-TAT
* * *
50929680 TTATTTAAAATTGTCTCATTAT
1 TTATTTTAAATTGTTTTATTAT
50929702 TTATTTT
1 TTATTTT
50929709 TAAACGGTAT
Statistics
Matches: 118, Mismatches: 20, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
20 13 0.11
21 3 0.03
22 14 0.12
23 8 0.07
24 28 0.24
25 4 0.03
26 29 0.25
27 10 0.08
28 6 0.05
30 3 0.03
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.61
Consensus pattern (22 bp):
TTATTTTAAATTGTTTTATTAT
Found at i:50929611 original size:46 final size:44
Alignment explanation
Indices: 50929533--50929621 Score: 124
Period size: 46 Copynumber: 2.0 Consensus size: 44
50929523 TTTCAACATG
* * *
50929533 TTATTTTAAATTGTTATATATTATTTATTTTAAGTTGCTTTATT
1 TTATTTTAAATTGTTACATATTAATTATTTTAAATTGCTTTATT
*
50929577 TTATTTTAAATTGTTTTACATATTAATTATTTTAAATTGTTTTAT
1 TTATTTTAAATTG--TTACATATTAATTATTTTAAATTGCTTTAT
50929622 ACTATTCACT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 13 0.33
46 26 0.67
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (44 bp):
TTATTTTAAATTGTTACATATTAATTATTTTAAATTGCTTTATT
Found at i:50930616 original size:3 final size:3
Alignment explanation
Indices: 50930610--50930725 Score: 83
Period size: 3 Copynumber: 39.0 Consensus size: 3
50930600 TAGTTTTGAC
* * * * * * *
50930610 AAT AAT AAT GAT GAT GAT ACT A-T AAT GAT AAT AAT AAC AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * **
50930657 AAT AAT AAT AAT ACT AAT GAT AAT AAT AGC AAT AAT AAT AGA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * *
50930702 CAT AAT AGT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
50930726 GTTGATAGGA
Statistics
Matches: 87, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
2 3 0.03
3 83 0.95
4 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:50934151 original size:21 final size:21
Alignment explanation
Indices: 50934120--50934173 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
50934110 TCAACAAATA
*
50934120 TATAAATTTAATATTATAATTT
1 TATAATTTTAATA-TATAATTT
50934142 T-TAATTTTAA-ATATAATTT
1 TATAATTTTAATATATAATTT
50934161 TAATAATTTTAAT
1 T-ATAATTTTAAT
50934174 TACTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.32
20 1 0.04
21 17 0.61
22 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATAATTTTAATATATAATTT
Found at i:50934170 original size:27 final size:27
Alignment explanation
Indices: 50934122--50934174 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50934112 AACAAATATA
*
50934122 TAAATTTAATATTATAATTTTTAATTT
1 TAAATATAATATTATAATTTTTAATTT
*
50934149 TAAATATAATTTTAATAA-TTTTAATT
1 TAAATATAATATT-ATAATTTTTAATT
50934175 ACTTAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TAAATATAATATTATAATTTTTAATTT
Found at i:50940044 original size:28 final size:29
Alignment explanation
Indices: 50940000--50940054 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
50939990 TTGTAGGCAA
* * *
50940000 AAGAAAAAAGTATC-AAAGGAGTGAAAGG
1 AAGAAAAAAGAAGCAAAAGAAGTGAAAGG
50940028 AAGAAAAAAGAAGCAAAAGAAGTGAAA
1 AAGAAAAAAGAAGCAAAAGAAGTGAAA
50940055 TCTAGTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.64, C:0.04, G:0.25, T:0.07
Consensus pattern (29 bp):
AAGAAAAAAGAAGCAAAAGAAGTGAAAGG
Found at i:50940847 original size:24 final size:24
Alignment explanation
Indices: 50940815--50940860 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
50940805 TATTATCTAT
*
50940815 GTGCTCGTG-TTCCTTAGCACTTCA
1 GTGCTCGTGATT-ATTAGCACTTCA
50940839 GTGCTCGTGATTATTAGCACTT
1 GTGCTCGTGATTATTAGCACTT
50940861 ACATGCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (24 bp):
GTGCTCGTGATTATTAGCACTTCA
Found at i:50943950 original size:5 final size:6
Alignment explanation
Indices: 50943938--50943963 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
50943928 GATTGAATAT
50943938 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
50943964 ACAAACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:50955649 original size:22 final size:22
Alignment explanation
Indices: 50955619--50955661 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
50955609 TAGTACTACA
50955619 TTGCATATCAACCAAGGGAAAG
1 TTGCATATCAACCAAGGGAAAG
*
50955641 TTGCGTATCAACCAAGGGAAA
1 TTGCATATCAACCAAGGGAAA
50955662 CAGTAGATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.19
Consensus pattern (22 bp):
TTGCATATCAACCAAGGGAAAG
Found at i:50964854 original size:45 final size:45
Alignment explanation
Indices: 50964804--50964898 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 45
50964794 AAATTAGCAC
*
50964804 TATTTTTTTACTTCCTAATTATTCTTAAATGTGTAAATATCATAA
1 TATTTTTTTACATCCTAATTATTCTTAAATGTGTAAATATCATAA
50964849 TATTTTTTTACATCCTAATTATTCTTAAATGTGTAAATATCATAA
1 TATTTTTTTACATCCTAATTATTCTTAAATGTGTAAATATCATAA
50964894 T-TTTT
1 TATTTT
50964899 ATTAAATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 4 0.08
45 45 0.92
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.53
Consensus pattern (45 bp):
TATTTTTTTACATCCTAATTATTCTTAAATGTGTAAATATCATAA
Found at i:50967008 original size:25 final size:24
Alignment explanation
Indices: 50966933--50967010 Score: 113
Period size: 25 Copynumber: 3.2 Consensus size: 24
50966923 TAAGCCCTCC
*
50966933 AAAAAA-AAAAACCTAACCCCCCC
1 AAAAAAGAAAAACCTAACCCCCCA
50966956 AAAAAAGAAAAAACCTAACCCCCCA
1 AAAAAAG-AAAAACCTAACCCCCCA
* *
50966981 AAAAAAGAAAAACCTAACCCGCAA
1 AAAAAAGAAAAACCTAACCCCCCA
50967005 AAAAAA
1 AAAAAA
50967011 TCAAAAAACT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
23 6 0.12
24 21 0.42
25 23 0.46
ACGTcount: A:0.63, C:0.29, G:0.04, T:0.04
Consensus pattern (24 bp):
AAAAAAGAAAAACCTAACCCCCCA
Found at i:50967017 original size:25 final size:24
Alignment explanation
Indices: 50966933--50967010 Score: 113
Period size: 24 Copynumber: 3.2 Consensus size: 24
50966923 TAAGCCCTCC
50966933 AAAAAAAAAAACCTAACCCCCCCAA
1 AAAAAAAAAAACCTAA-CCCCCCAA
*
50966958 AAAAGAAAAAACCTAACCCCCCAA
1 AAAAAAAAAAACCTAACCCCCCAA
* *
50966982 AAAAAGAAAAACCTAA-CCCGCAA
1 AAAAAAAAAAACCTAACCCCCCAA
50967005 AAAAAA
1 AAAAAA
50967011 TCAAAAAACT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.23
24 22 0.46
25 15 0.31
ACGTcount: A:0.63, C:0.29, G:0.04, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAAACCTAACCCCCCAA
Found at i:50967269 original size:13 final size:13
Alignment explanation
Indices: 50967251--50967275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50967241 ATTTTACTCT
50967251 TTTTTTATTTTTA
1 TTTTTTATTTTTA
50967264 TTTTTTATTTTT
1 TTTTTTATTTTT
50967276 TTTCCTTTTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:50977655 original size:72 final size:72
Alignment explanation
Indices: 50977470--50978810 Score: 2250
Period size: 72 Copynumber: 18.5 Consensus size: 72
50977460 TCTGTTTAAA
* * *
50977470 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
*
50977535 TGTTGTC
66 TGTTTTC
* *
50977542 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATT
50977607 TCTGTTTTC
64 TCTGTTTTC
50977616 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50977681 TGTTTTC
66 TGTTTTC
50977688 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50977753 TGTTTTC
66 TGTTTTC
50977760 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50977825 TGTTTTC
66 TGTTTTC
50977832 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50977897 TGTTTTC
66 TGTTTTC
50977904 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50977969 TGTTTTC
66 TGTTTTC
50977976 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50978041 TGTTTTC
66 TGTTTTC
50978048 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50978113 TGTTTTC
66 TGTTTTC
50978120 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50978185 TGTTTTC
66 TGTTTTC
50978192 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50978257 TGTTTTC
66 TGTTTTC
50978264 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50978329 TGTTTTC
66 TGTTTTC
*
50978336 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50978401 TGTTTTC
66 TGTTTTC
* ** ** ** * * *
50978408 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50978473 TGTCTTTC
66 TGT-TTTC
* * * *
50978481 AAAAAAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATT
50978546 TCTGTTTTC
64 TCTGTTTTC
* ** ** ** * * *
50978555 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50978620 TGTCTTTC
66 TGT-TTTC
* * * *
50978628 AAAAAAATCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATT
*
50978693 TCTGTTGTTAA
64 TCTGTT-TT-C
* *
50978704 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
50978769 TGTTTTC
66 TGTTTTC
50978776 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
50978811 TTCAAATCAC
Statistics
Matches: 1207, Mismatches: 52, Indels: 18
0.95 0.04 0.01
Matches are distributed among these distances:
72 941 0.78
73 10 0.01
74 138 0.11
75 118 0.10
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:50982284 original size:23 final size:23
Alignment explanation
Indices: 50982252--50982311 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
50982242 CACCAACTAT
50982252 AAAAAA-AATATTTTAAAAATAA
1 AAAAAATAATATTTTAAAAATAA
* ** *
50982274 ATAAAATAATA-AGTAAAATTAA
1 AAAAAATAATATTTTAAAAATAA
50982296 AAAATAATAATATTTT
1 AAAA-AATAATATTTT
50982312 TAATTTTTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
22 16 0.57
23 11 0.39
24 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAAAATAATATTTTAAAAATAA
Found at i:50982344 original size:17 final size:17
Alignment explanation
Indices: 50982306--50982349 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
50982296 AAAATAATAA
50982306 TATTTTTAATT-TTTAAT
1 TATTTTT-ATTATTTAAT
*
50982323 T-TTTTTATTATTTATT
1 TATTTTTATTATTTAAT
50982339 TATTTTTATTA
1 TATTTTTATTA
50982350 AAATATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 11 0.46
17 10 0.42
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TATTTTTATTATTTAAT
Found at i:50983067 original size:23 final size:24
Alignment explanation
Indices: 50983040--50983094 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 24
50983030 GACACCAGCA
50983040 CTGGCCACCTGCTCCACCATGCCT
1 CTGGCCACCTGCTCCACCATGCCT
50983064 -TGGCCACCTGCTCCACCATGCCT
1 CTGGCCACCTGCTCCACCATGCCT
50983087 CT-GCCACC
1 CTGGCCACC
50983095 GCCGTTCGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.13, C:0.51, G:0.16, T:0.20
Consensus pattern (24 bp):
CTGGCCACCTGCTCCACCATGCCT
Found at i:50984161 original size:23 final size:23
Alignment explanation
Indices: 50984135--50984180 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
50984125 TTTTTACATA
50984135 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
50984158 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
50984181 ATTACAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:50984253 original size:3 final size:3
Alignment explanation
Indices: 50984133--50984233 Score: 63
Period size: 3 Copynumber: 34.3 Consensus size: 3
50984123 TCTTTTTACA
* *
50984133 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * *
50984177 TAT TAT TA- CAGT TAT TAT TAT T-T TCAT TAT TGT TAT T-T TAT TAA
1 TAT TAT TAT TA-T TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
50984221 T-T TAT TAAT TAT T
1 TAT TAT T-AT TAT T
50984234 TTTAAAAAGT
Statistics
Matches: 76, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
2 10 0.13
3 58 0.76
4 8 0.11
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:50984269 original size:6 final size:6
Alignment explanation
Indices: 50984260--50984286 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
50984250 ATTACCAATA
50984260 ATTAAT ATTAAT ATTAAT ATTAAT ATT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATT
50984287 TGTATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTAAT
Found at i:50984495 original size:52 final size:52
Alignment explanation
Indices: 50984438--50984590 Score: 161
Period size: 52 Copynumber: 3.2 Consensus size: 52
50984428 TTATTTCTAA
50984438 TATGTATATAATATGTAAATGTTTTACTATTATATGTATTTTACTCATACGT
1 TATGTATATAATATGTAAATGTTTTACTATTATATGTATTTTACTCATACGT
* * *
50984490 TATGTATATAAGTAT-T--AT-TGTTAGT-TGT-TATTTA-TTT-CT-A-A---
1 TATGTATATAA-TATGTAAATGTTTTACTAT-TATATGTATTTTACTCATACGT
*
50984531 TATGTATATAATATGTAAATGTTTTACTATTATACGTATTTTACTCATACGT
1 TATGTATATAATATGTAAATGTTTTACTATTATATGTATTTTACTCATACGT
50984583 TATGTATA
1 TATGTATA
50984591 GAAATTTTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 30
0.68 0.06 0.26
Matches are distributed among these distances:
40 3 0.04
41 12 0.15
43 2 0.03
44 7 0.09
45 6 0.08
46 5 0.06
47 5 0.06
48 7 0.09
49 7 0.09
50 2 0.03
52 20 0.25
53 3 0.04
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (52 bp):
TATGTATATAATATGTAAATGTTTTACTATTATATGTATTTTACTCATACGT
Found at i:50984514 original size:93 final size:93
Alignment explanation
Indices: 50984407--50984590 Score: 350
Period size: 93 Copynumber: 2.0 Consensus size: 93
50984397 TATTTCTAAT
50984407 AGTATTATTATTAGTTGTTATTTATTTCTAATATGTATATAATATGTAAATGTTTTACTATTATA
1 AGTATTATTATTAGTTGTTATTTATTTCTAATATGTATATAATATGTAAATGTTTTACTATTATA
*
50984472 TGTATTTTACTCATACGTTATGTATATA
66 CGTATTTTACTCATACGTTATGTATATA
*
50984500 AGTATTATTGTTAGTTGTTATTTATTTCTAATATGTATATAATATGTAAATGTTTTACTATTATA
1 AGTATTATTATTAGTTGTTATTTATTTCTAATATGTATATAATATGTAAATGTTTTACTATTATA
50984565 CGTATTTTACTCATACGTTATGTATA
66 CGTATTTTACTCATACGTTATGTATA
50984591 GAAATTTTTA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (93 bp):
AGTATTATTATTAGTTGTTATTTATTTCTAATATGTATATAATATGTAAATGTTTTACTATTATA
CGTATTTTACTCATACGTTATGTATATA
Found at i:50990202 original size:21 final size:22
Alignment explanation
Indices: 50990166--50990206 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
50990156 ACCTTCCTTT
*
50990166 TTATTGATTTTTTTATTATCCA
1 TTATTGATTATTTTATTATCCA
50990188 TTATT-ATTATTTTATTATC
1 TTATTGATTATTTTATTATC
50990207 ATCTTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (22 bp):
TTATTGATTATTTTATTATCCA
Found at i:50990972 original size:131 final size:130
Alignment explanation
Indices: 50990733--50990975 Score: 299
Period size: 131 Copynumber: 1.9 Consensus size: 130
50990723 TGTTTCGAAT
* * * * *
50990733 TTTAGAGACTCGAGAAAGTCGTGCACTAACTTACAGGGTTTTGATTTCTCTCGTTGAATCTAAAT
1 TTTAGAAACTCGAGAAAGTCGTCCACTAACTTACAGGGTTTCGATTTCTCTAGTTGAATCTAAAC
* ** *
50990798 AGCCAAATATCCTTTTAAATTTCAAAATACATGAATTTTAAATAAAAGTAAAAGCAATATTCCGT
66 AACCAAATATCCTTTTAAAAATCAAAATA-ATAAATTTTAAATAAAAGTAAAAGCAATATTCCGT
50990863 A
130 A
* * * * * *
50990864 TTTAGAAATTCGAGAAGGTCGTCCCCTAACTTACGGGGTTTCGATTTTTTCTAGTTGGATCTAAA
1 TTTAGAAACTCGAGAAAGTCGTCCACTAACTTACAGGGTTTCGA-TTTCTCTAGTTGAATCTAAA
* *
50990929 CAACCGAATATCCTTTTAAAAATCAAAGT-ATAAATTTTAAAATAAAA
65 CAACCAAATATCCTTTTAAAAATCAAAATAATAAATTTT-AAATAAAA
50990976 CAATTTAAAG
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
130 8 0.09
131 45 0.48
132 40 0.43
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (130 bp):
TTTAGAAACTCGAGAAAGTCGTCCACTAACTTACAGGGTTTCGATTTCTCTAGTTGAATCTAAAC
AACCAAATATCCTTTTAAAAATCAAAATAATAAATTTTAAATAAAAGTAAAAGCAATATTCCGTA
Found at i:50991610 original size:5 final size:5
Alignment explanation
Indices: 50991600--50991627 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
50991590 GATAGTTGTG
50991600 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
50991628 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:50997356 original size:5 final size:5
Alignment explanation
Indices: 50997346--50997373 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
50997336 CCAATTTGTG
50997346 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
50997374 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:51006880 original size:13 final size:13
Alignment explanation
Indices: 51006862--51006893 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
51006852 TGTTCCTTTA
51006862 AGTATATATATAT
1 AGTATATATATAT
51006875 AGTATATATATAT
1 AGTATATATATAT
*
51006888 AATATA
1 AGTATA
51006894 GTTGAGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (13 bp):
AGTATATATATAT
Found at i:51008993 original size:12 final size:11
Alignment explanation
Indices: 51008982--51009015 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
51008972 TTTTTTAAAG
51008982 GAAAAAAGAAA
1 GAAAAAAGAAA
*
51008993 GAAAATAGAAAA
1 GAAAAAAG-AAA
51009005 GAAAAAAGAAA
1 GAAAAAAGAAA
51009016 ATGGACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:51009016 original size:12 final size:12
Alignment explanation
Indices: 51008982--51009016 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
51008972 TTTTTTAAAG
51008982 GAAAAAAG-AAA
1 GAAAAAAGAAAA
*
51008993 GAAAATAGAAAA
1 GAAAAAAGAAAA
51009005 GAAAAAAGAAAA
1 GAAAAAAGAAAA
51009017 TGGACTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
GAAAAAAGAAAA
Found at i:51009702 original size:3 final size:3
Alignment explanation
Indices: 51009690--51009812 Score: 95
Period size: 3 Copynumber: 39.7 Consensus size: 3
51009680 GTTATTTTTC
* * *
51009690 TAT T-T TAT TAT TAA AAT TTAT TTAT TTAT TTAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT -TAT T-AT T-AT TAT TAT TAT TAT TAT
* * * * * *
51009738 TAT TTT TAC TAT TAC TAT TAC TAT TAT TTT CTAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* *
51009784 TAT TAC TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
51009813 CTGTAACGCC
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
2 2 0.02
3 77 0.82
4 15 0.16
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:51009734 original size:12 final size:12
Alignment explanation
Indices: 51009719--51009814 Score: 111
Period size: 12 Copynumber: 7.9 Consensus size: 12
51009709 ATTTATTTAT
51009719 TTATTATTACTA
1 TTATTATTACTA
* *
51009731 TTATTATTATTT
1 TTATTATTACTA
*
51009743 TTACTATTACTA
1 TTATTATTACTA
* * *
51009755 TTACTATTATTT
1 TTATTATTACTA
51009767 TCTATTATTACTA
1 T-TATTATTACTA
51009780 TTATTATTACTA
1 TTATTATTACTA
* *
51009792 TCATTATTATTA
1 TTATTATTACTA
51009804 TTATTATTACT
1 TTATTATTACT
51009815 GTAACGCCCC
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
12 60 0.87
13 9 0.13
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:51009751 original size:49 final size:49
Alignment explanation
Indices: 51009692--51009788 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
51009682 TATTTTTCTA
* *
51009692 TTTTATTATTAAAATT--TATTTATTTATTTATTATTACTATTATTATTAT
1 TTTTACTATTAAAATTACTA-TTATTT-TCTATTATTACTATTATTATTAT
**
51009741 TTTTACTATTACTATTACTATTATTTTCTATTATTACTATTATTATTA
1 TTTTACTATTAAAATTACTATTATTTTCTATTATTACTATTATTATTA
51009789 CTATCATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 34 0.81
50 6 0.14
51 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (49 bp):
TTTTACTATTAAAATTACTATTATTTTCTATTATTACTATTATTATTAT
Found at i:51010553 original size:13 final size:14
Alignment explanation
Indices: 51010537--51010572 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
51010527 CAATCTCATA
51010537 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
51010550 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
51010563 TCTC-ATTTCA
1 TCTCAATTTCA
51010573 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:51010562 original size:18 final size:19
Alignment explanation
Indices: 51010524--51010564 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
51010514 TGGTTCATGT
51010524 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
51010543 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
51010561 TTTC
1 TTTC
51010565 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:51010754 original size:39 final size:38
Alignment explanation
Indices: 51010687--51010821 Score: 92
Period size: 39 Copynumber: 3.4 Consensus size: 38
51010677 ACCAATATGG
* * *
51010687 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
51010726 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * * *
51010764 TACCCAATACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
51010805 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
51010822 ACTCGAGGTC
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
38 17 0.24
39 35 0.49
40 4 0.06
41 15 0.21
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:51011087 original size:18 final size:19
Alignment explanation
Indices: 51011061--51011099 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
51011051 TTTCAATTCA
51011061 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
51011080 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
51011098 AT
1 AT
51011100 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:51012423 original size:5 final size:5
Alignment explanation
Indices: 51012413--51012471 Score: 64
Period size: 5 Copynumber: 11.0 Consensus size: 5
51012403 TTACTTATTT
* *
51012413 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
51012461 ATATA TATATA
1 ATATA -ATATA
51012472 TATTTTAACA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
5 30 0.65
6 12 0.26
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:51012478 original size:18 final size:18
Alignment explanation
Indices: 51012412--51012479 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 18
51012402 TTTACTTATT
*
51012412 TATATAATATAATATATA
1 TATATAATTTAATATATA
* *
51012430 -ATATAATATACTATAATA
1 TATATAATTTAATAT-ATA
51012448 TAATAATAATTTAATATATA
1 T-AT-ATAATTTAATATATA
*
51012468 TATATATTTTAA
1 TATATAATTTAA
51012480 CACATAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 13 0.31
18 11 0.26
19 2 0.05
20 6 0.14
21 10 0.24
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (18 bp):
TATATAATTTAATATATA
Found at i:51014623 original size:9 final size:9
Alignment explanation
Indices: 51014603--51014633 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
51014593 TAAGTACATA
51014603 ATATAT-AT
1 ATATATAAT
51014611 ATATATAAT
1 ATATATAAT
51014620 ATATATAAT
1 ATATATAAT
51014629 ATATA
1 ATATA
51014634 CCTATATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATATATAAT
Found at i:51014623 original size:11 final size:11
Alignment explanation
Indices: 51014600--51014633 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
51014590 AAGTAAGTAC
51014600 ATAATATATAT
1 ATAATATATAT
51014611 ATATATAATATAT
1 ATA-AT-ATATAT
51014624 ATAATATATA
1 ATAATATATA
51014634 CCTATATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.38
12 4 0.19
13 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATATATAT
Found at i:51014632 original size:24 final size:24
Alignment explanation
Indices: 51014600--51014665 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
51014590 AAGTAAGTAC
*
51014600 ATAATATATATATATATAATATAT-
1 ATAATATATATATATATAAGA-ATG
** *
51014624 ATAATATATACCTATATTAGAATG
1 ATAATATATATATATATAAGAATG
51014648 ATAATAT-TATATATATAA
1 ATAATATATATATATATAA
51014666 ACTATACACA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 10 0.29
24 24 0.71
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (24 bp):
ATAATATATATATATATAAGAATG
Found at i:51014714 original size:18 final size:18
Alignment explanation
Indices: 51014691--51014725 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
51014681 CATAAGTACG
51014691 TATATATATAAAAATAAT
1 TATATATATAAAAATAAT
51014709 TATATATATAAAAATAA
1 TATATATATAAAAATAA
51014726 CAGCGGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TATATATATAAAAATAAT
Found at i:51014884 original size:16 final size:15
Alignment explanation
Indices: 51014842--51014894 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
51014832 AATGTACATA
*
51014842 ATATATATA-AATAT
1 ATATATACATAATAT
51014856 ATATATACATAATAT
1 ATATATACATAATAT
* *
51014871 AATATTTACATAATGT
1 -ATATATACATAATAT
*
51014887 ATACATAC
1 ATATATAC
51014895 TAGAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 8 0.25
15 11 0.34
16 13 0.41
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (15 bp):
ATATATACATAATAT
Found at i:51014955 original size:23 final size:24
Alignment explanation
Indices: 51014928--51014977 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
51014918 AATACTATAT
* *
51014928 AAATATATACGCATAT-ATATTAA
1 AAATATACACACATATAATATTAA
*
51014951 AAATATACACATATATAATATTAA
1 AAATATACACACATATAATATTAA
51014975 AAA
1 AAA
51014978 ATGTATATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATATACACACATATAATATTAA
Found at i:51014956 original size:21 final size:20
Alignment explanation
Indices: 51014923--51014967 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
51014913 TTAATAATAC
* *
51014923 TATATAAATATATACGCATA
1 TATATAAAAATATACACATA
51014943 TATATTAAAAATATACACATA
1 TATA-TAAAAATATACACATA
51014964 TATA
1 TATA
51014968 ATATTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (20 bp):
TATATAAAAATATACACATA
Found at i:51014998 original size:27 final size:24
Alignment explanation
Indices: 51014940--51015003 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 24
51014930 ATATATACGC
51014940 ATATATATT-AAAAATATACACAT
1 ATATATATTAAAAAATATACACAT
*
51014963 ATATAATATTAAAAAATGTATATACAT
1 ATAT-ATATTAAAAAA--TATACACAT
*
51014990 AATATATATGAAAA
1 -ATATATATTAAAA
51015004 CATAATATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.12
24 5 0.15
25 5 0.15
27 16 0.47
28 4 0.12
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (24 bp):
ATATATATTAAAAAATATACACAT
Found at i:51015325 original size:15 final size:15
Alignment explanation
Indices: 51015305--51015334 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51015295 AACACAATAT
51015305 ATATGGTATTAAAAA
1 ATATGGTATTAAAAA
51015320 ATATGGTATTAAAAA
1 ATATGGTATTAAAAA
51015335 CATAACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (15 bp):
ATATGGTATTAAAAA
Found at i:51015707 original size:22 final size:22
Alignment explanation
Indices: 51015682--51015724 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51015672 AGAAACGATA
51015682 ATAC-TATATAAAAAGAATATAT
1 ATACATATATAAAAA-AATATAT
*
51015704 ATACATATATAATAAAATATA
1 ATACATATATAAAAAAATATA
51015725 CACTAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (22 bp):
ATACATATATAAAAAAATATAT
Found at i:51018906 original size:12 final size:12
Alignment explanation
Indices: 51018889--51018915 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51018879 TTTGGGATAA
51018889 ATATATATACAT
1 ATATATATACAT
51018901 ATATATATACAT
1 ATATATATACAT
51018913 ATA
1 ATA
51018916 CTATTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATACAT
Found at i:51019881 original size:24 final size:25
Alignment explanation
Indices: 51019847--51019976 Score: 140
Period size: 25 Copynumber: 5.2 Consensus size: 25
51019837 ATTCATATAT
* *
51019847 GCTCATATGAGCTGTA-AACGGGAA
1 GCTCATGTGAGCTGAATAACGGGAA
* * *
51019871 GCTCCTCTGAGCTGAATAACGGAAA
1 GCTCATGTGAGCTGAATAACGGGAA
*
51019896 ACTCATGTGAGCTGAATAACGGGAA
1 GCTCATGTGAGCTGAATAACGGGAA
*
51019921 GCTCATGTGAGCT-AAGTAACGGCAA
1 GCTCATGTGAGCTGAA-TAACGGGAA
* *
51019946 GCTCATGCGAGCT-AACTATCGGGAA
1 GCTCATGTGAGCTGAA-TAACGGGAA
51019971 GCTCAT
1 GCTCAT
51019977 AAGAGCTATG
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
24 15 0.17
25 75 0.83
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.21
Consensus pattern (25 bp):
GCTCATGTGAGCTGAATAACGGGAA
Found at i:51036998 original size:20 final size:20
Alignment explanation
Indices: 51036949--51037014 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
51036939 TATTTTTTAG
* *
51036949 ATTTTTTATAAA-TAATTTCA
1 ATTTTTTA-AAATTATTTTGA
*
51036969 A-TTTTAAAAATTATTTTGA
1 ATTTTTTAAAATTATTTTGA
51036988 ATTTTTTAAAATTATTTTGA
1 ATTTTTTAAAATTATTTTGA
51037008 ATTTTTT
1 ATTTTTT
51037015 TTGTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.08
19 12 0.30
20 25 0.62
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTTTAAAATTATTTTGA
Found at i:51046247 original size:42 final size:43
Alignment explanation
Indices: 51046153--51046303 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
51046143 AAATGCTAAC
* * * * * *
51046153 GTCCCAGACGTGGTCTTACATGTAACT-AAATATCGATTCCACT
1 GTCCCAGACATGGTCTTACACGTAAATCATATA-CGATGCCAAT
51046196 GTCCCAGACA-GAGTCTTACACG-AAATCATATACGATGCCAAT
1 GTCCCAGACATG-GTCTTACACGTAAATCATATACGATGCCAAT
* * *
51046238 GTCCCAGACATGGTCTTGCACGTAAATCATAAATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAAATCATATA-CGATGCCAAT
**
51046282 GTCCCAGATGTGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
51046304 AGAACACATA
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 31 0.34
43 32 0.35
44 28 0.31
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCATATACGATGCCAAT
Found at i:51057400 original size:132 final size:133
Alignment explanation
Indices: 51057177--51057429 Score: 472
Period size: 132 Copynumber: 1.9 Consensus size: 133
51057167 GGGTTTGGGG
* *
51057177 GGGGGCGGGGGGTCTTAAATCCCTGCAGAGAGACATCCCTAAAATCATTTCCCCGTTTAATAATA
1 GGGGGCGGGGGGTCTTAAATCCCTGCAGAGAGACATCCCTAAAATCATCTCCCCCTTTAATAATA
51057242 TAATTGATATGATATAATGCTATGCTGCCTTTTTGTGCCCAAACATACTACTATTTGGGTTTTTT
66 TAATTGATATGATATAATGCTATGCTGCCTTTTTGTGCCCAAACATACTACTATTTGGGTTTTTT
51057307 TTT
131 TTT
*
51057310 GGGGG-GGGGGGTCTTAAATCCCTGCGGAGAGACATCCCTAAAATCATCTCCCCCTTTAATAATA
1 GGGGGCGGGGGGTCTTAAATCCCTGCAGAGAGACATCCCTAAAATCATCTCCCCCTTTAATAATA
51057374 TAATTGATATGATATAATGCTATGCTGCCTTTTTGTGCCCAAACATACTACTATTT
66 TAATTGATATGATATAATGCTATGCTGCCTTTTTGTGCCCAAACATACTACTATTT
51057430 TGGAAATTAT
Statistics
Matches: 117, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
132 112 0.96
133 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (133 bp):
GGGGGCGGGGGGTCTTAAATCCCTGCAGAGAGACATCCCTAAAATCATCTCCCCCTTTAATAATA
TAATTGATATGATATAATGCTATGCTGCCTTTTTGTGCCCAAACATACTACTATTTGGGTTTTTT
TTT
Found at i:51059299 original size:15 final size:16
Alignment explanation
Indices: 51059279--51059311 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
51059269 ATATATATTT
51059279 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
51059294 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
51059311 T
1 T
51059312 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:51059384 original size:21 final size:22
Alignment explanation
Indices: 51059358--51059416 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
51059348 GTTTTAAGAA
*
51059358 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
51059379 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
51059401 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
51059417 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:51059431 original size:26 final size:24
Alignment explanation
Indices: 51059387--51059436 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
51059377 ATTTGTTTTA
*
51059387 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
51059411 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
51059437 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:51060102 original size:22 final size:22
Alignment explanation
Indices: 51060077--51060132 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
51060067 AATTTATACC
*
51060077 ATAATTTTCATATTTTTAATTT
1 ATAATTTCCATATTTTTAATTT
*
51060099 ATAAATCTCCA-ATTTTTAATTT
1 AT-AATTTCCATATTTTTAATTT
51060121 ATAATTTCCATA
1 ATAATTTCCATA
51060133 ATTAAGTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.24
22 16 0.55
23 6 0.21
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTCCATATTTTTAATTT
Found at i:51066447 original size:22 final size:22
Alignment explanation
Indices: 51066422--51066477 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
51066412 AATTTATACC
*
51066422 ATAATTTTCATATTTTTAATTT
1 ATAATTTCCATATTTTTAATTT
*
51066444 ATAAATCTCCA-ATTTTTAATTT
1 AT-AATTTCCATATTTTTAATTT
51066466 ATAATTTCCATA
1 ATAATTTCCATA
51066478 ATTAAGTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.24
22 16 0.55
23 6 0.21
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTCCATATTTTTAATTT
Found at i:51075455 original size:16 final size:16
Alignment explanation
Indices: 51075430--51075460 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51075420 CACCACTTGG
*
51075430 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
51075446 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
51075461 TCATTAATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:51077409 original size:21 final size:21
Alignment explanation
Indices: 51077383--51077423 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51077373 ATCTGCTCAA
* *
51077383 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
51077404 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
51077424 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:51080247 original size:16 final size:16
Alignment explanation
Indices: 51080222--51080252 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51080212 CACCACTTGG
*
51080222 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
51080238 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
51080253 TCATTAATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:51082197 original size:30 final size:30
Alignment explanation
Indices: 51082161--51082221 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
51082151 TTGGTCACCA
51082161 AACTATTTGAAAGTTACAAGTTGATCACTG
1 AACTATTTGAAAGTTACAAGTTGATCACTG
51082191 AACTATTTGAAAGTTACAAGTTGATCACTG
1 AACTATTTGAAAGTTACAAGTTGATCACTG
51082221 A
1 A
51082222 CACATTACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (30 bp):
AACTATTTGAAAGTTACAAGTTGATCACTG
Found at i:51082801 original size:99 final size:99
Alignment explanation
Indices: 51082689--51082875 Score: 320
Period size: 99 Copynumber: 1.9 Consensus size: 99
51082679 AGATAAAATA
* * *
51082689 TAAAAAAAAGAGACTTAAATGTACTAAATTTGGTGAAGAATTAGGTGGAGACTTCCCAACCATAG
1 TAAAAAAAAGAGACTTAAATGTACCAAATTTAGTGAAGAATTAGGTGGAGACTTCCCAACAATAG
51082754 AGGCTCAATCCAAAATGCAAGGAAAAAGTCTTAC
66 AGGCTCAATCCAAAATGCAAGGAAAAAGTCTTAC
* *
51082788 TAAAAAAAGGAGACTTAAATGTACCAAATTTAGTGAAGAATTAGGTGGAGACTTCCCAACAATGG
1 TAAAAAAAAGAGACTTAAATGTACCAAATTTAGTGAAGAATTAGGTGGAGACTTCCCAACAATAG
*
51082853 AGGCTCGATCCAAAATGCAAGGA
66 AGGCTCAATCCAAAATGCAAGGA
51082876 GAAATTTTTA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (99 bp):
TAAAAAAAAGAGACTTAAATGTACCAAATTTAGTGAAGAATTAGGTGGAGACTTCCCAACAATAG
AGGCTCAATCCAAAATGCAAGGAAAAAGTCTTAC
Found at i:51084413 original size:25 final size:26
Alignment explanation
Indices: 51084384--51084451 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
51084374 CGTTTTTAAA
51084384 AAATAAACTATATACATAATAAATTT
1 AAATAAACTATATACATAATAAATTT
*
51084410 -AATAAACTATAT--A-AATAGATTT
1 AAATAAACTATATACATAATAAATTT
*
51084432 AAAAGAAACTATATACATAA
1 -AAATAAACTATATACATAA
51084452 AATAACAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 8 0.23
23 1 0.03
24 11 0.31
25 12 0.34
26 1 0.03
27 2 0.06
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (26 bp):
AAATAAACTATATACATAATAAATTT
Found at i:51085582 original size:14 final size:16
Alignment explanation
Indices: 51085563--51085594 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51085553 CATAAAGTAC
51085563 AATAAA-CC-ACAATT
1 AATAAATCCAACAATT
51085577 AATAAATCCAACAATT
1 AATAAATCCAACAATT
51085593 AA
1 AA
51085595 GTACAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATCCAACAATT
Found at i:51088314 original size:18 final size:19
Alignment explanation
Indices: 51088276--51088314 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
51088266 AAAACAAACT
*
51088276 AAAATAAAAGAAATAGCCA
1 AAAATAAAAGAAATAGACA
51088295 AAAATAAAAGAAATA-ACA
1 AAAATAAAAGAAATAGACA
51088313 AA
1 AA
51088315 TCAAAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.74, C:0.08, G:0.08, T:0.10
Consensus pattern (19 bp):
AAAATAAAAGAAATAGACA
Found at i:51091857 original size:25 final size:25
Alignment explanation
Indices: 51091829--51091881 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
51091819 GTTTTTTGAT
* *
51091829 TTTCTTCTCTCCTAATTAAACTCTG
1 TTTCTACTCTCCCAATTAAACTCTG
* * *
51091854 TTTCTAGTTTCCCACTTAAACTCTG
1 TTTCTACTCTCCCAATTAAACTCTG
51091879 TTT
1 TTT
51091882 AACCTAGAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.49
Consensus pattern (25 bp):
TTTCTACTCTCCCAATTAAACTCTG
Found at i:51093838 original size:31 final size:31
Alignment explanation
Indices: 51093803--51093865 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
51093793 GGCCCAATTT
* *
51093803 ATCCCTAAACCCATTACAACCCAAAACCCAA
1 ATCCCTAAACCCATGAAAACCCAAAACCCAA
* *
51093834 ATCCCTAAATCCATGAAAACCCAATACCCAA
1 ATCCCTAAACCCATGAAAACCCAAAACCCAA
51093865 A
1 A
51093866 CCCAACAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.38, G:0.02, T:0.14
Consensus pattern (31 bp):
ATCCCTAAACCCATGAAAACCCAAAACCCAA
Found at i:51095214 original size:26 final size:25
Alignment explanation
Indices: 51095155--51095223 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
51095145 CACTATTGTA
*
51095155 ATTATTAT-TACTATTATTACATATT
1 ATTATT-TCTACTATTATTACAAATT
*
51095180 AGTATTTTCTACTATTATTACAAATAT
1 ATTA-TTTCTACTATTATTACAAAT-T
51095207 ATTATTTCT-CTTATTAT
1 ATTATTTCTAC-TATTAT
51095224 ATTATTAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 5 0.14
26 28 0.76
27 4 0.11
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.55
Consensus pattern (25 bp):
ATTATTTCTACTATTATTACAAATT
Found at i:51104044 original size:53 final size:53
Alignment explanation
Indices: 51103959--51104082 Score: 180
Period size: 53 Copynumber: 2.4 Consensus size: 53
51103949 GACGAAAAAT
* * *
51103959 ATGTGATAAGTGTG-C-CCGTTTAAGACCGTAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
*
51104011 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
*
51104064 ATGTGATAATGTGATTCCG
1 ATGTGATAATGTGACTCCG
51104083 GGATATGGCT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
51 4 0.06
52 10 0.15
53 51 0.78
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:51111395 original size:53 final size:53
Alignment explanation
Indices: 51111311--51111466 Score: 183
Period size: 53 Copynumber: 3.0 Consensus size: 53
51111301 GACGAAAAAT
* ** *
51111311 ATGTGATAAGTGTG-C-CCGTTTAAGATAATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * *
51111363 ATGTGATAATGTGACTCCGTATAAGACCATAGCTAGGCTATGGCATCAGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * *
51111416 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTA
51111467 TGATATGTGA
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 4 0.04
52 11 0.12
53 74 0.83
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:51116403 original size:46 final size:46
Alignment explanation
Indices: 51116335--51116426 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
51116325 AGATGGATGG
*
51116335 GAAAGAGTTACCTAACCTAGTGAACTCAGATGCTGTAAAGAAATAT
1 GAAAGAGTTACCGAACCTAGTGAACTCAGATGCTGTAAAGAAATAT
51116381 GAAAGAGTTACCGAATCC-AGTGAACTCAGATGCTGTAAAGAAATAT
1 GAAAGAGTTACCGAA-CCTAGTGAACTCAGATGCTGTAAAGAAATAT
51116427 TATGCCTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 42 0.95
47 2 0.05
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (46 bp):
GAAAGAGTTACCGAACCTAGTGAACTCAGATGCTGTAAAGAAATAT
Found at i:51117425 original size:64 final size:64
Alignment explanation
Indices: 51117313--51117506 Score: 248
Period size: 64 Copynumber: 3.0 Consensus size: 64
51117303 TTCAAAAAAA
* * * * *
51117313 ATCAACTCATA-TAGTGAGAGGTGAGTTGAGCCCCGGATCACACTCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTA-CGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGATATTTTTAGTTTCT
*
51117377 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTTACACGCTGAGATATTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGATATTTTTAGTTTCT
* * * * * *
51117441 ATCAACTCATATTGCGAGAGGTGAGTTGA-CCTTCGGGCCACATGCCGAGATATTTTCAATTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCC-TCGGGTCACACGCTGAGATATTTTTAGTTTCT
51117505 AT
1 AT
51117507 TTTTTAATTT
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
63 2 0.02
64 111 0.97
65 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (64 bp):
ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGATATTTTTAGTTTCT
Found at i:51117709 original size:75 final size:75
Alignment explanation
Indices: 51117523--51117711 Score: 202
Period size: 75 Copynumber: 2.5 Consensus size: 75
51117513 ATTTCTTCTT
* *
51117523 TTCAAGAAAATCAACTCATATTGCGA-AAGGTGAGTTGACCCTCGGGTCACACGCTGAGGTATCT
1 TTCAAAAAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCTCGGGTCACACGCTGAGGTATCT
*
51117587 TCAATTTATGC
65 TCAATTTATGA
** * * * *
51117598 TTCAAAAAAATCAACTCATATTATGAGAGGTAAGTTGAGCCTTGGGTCACACGCTGAGGTATTTT
1 TTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATCTT
* * *
51117663 TAGTTTCT-A
66 CAATTTATGA
** * *
51117672 TTCGCCATAAATCGACTCATATTGCGAGAAGTGAGTTGAG
1 TTC-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
51117712 TCTTTTAGTC
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
74 3 0.03
75 88 0.96
76 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (75 bp):
TTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATCTT
CAATTTATGA
Found at i:51118310 original size:31 final size:31
Alignment explanation
Indices: 51118275--51118368 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
51118265 GGCCCAATTT
51118275 ATCCCTAAACCCATTACAACCCAAAACCCAA
1 ATCCCTAAACCCATTACAACCCAAAACCCAA
*
51118306 ATCCCTAAACCCATTACAACCCAAAACCTAA
1 ATCCCTAAACCCATTACAACCCAAAACCCAA
* * *
51118337 ATCCCTAAATCCATGAAAACCCAAAACCCAA
1 ATCCCTAAACCCATTACAACCCAAAACCCAA
51118368 A
1 A
51118369 CCCAACAGAC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.47, C:0.38, G:0.01, T:0.14
Consensus pattern (31 bp):
ATCCCTAAACCCATTACAACCCAAAACCCAA
Found at i:51120227 original size:46 final size:44
Alignment explanation
Indices: 51120168--51120282 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
51120158 ACAGGACAGA
* * *
51120168 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTAGAG
* * *
51120214 ACAGGATTGAGCCATGTAAGTTCATATTATATATGGCATTAGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTAGAG
* **
51120258 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
51120283 GTCAAAGACA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 33 0.57
46 25 0.43
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTAGAG
Found at i:51122093 original size:21 final size:22
Alignment explanation
Indices: 51122064--51122104 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
51122054 TTCATTTCAA
51122064 ATTTCAATTT-AACCCTTTATTC
1 ATTTCAATTTCAA-CCTTTATTC
51122086 ATTT-AATTTCAACCTTTAT
1 ATTTCAATTTCAACCTTTAT
51122105 AGATTGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTCAATTTCAACCTTTATTC
Found at i:51122241 original size:3 final size:3
Alignment explanation
Indices: 51122224--51122334 Score: 84
Period size: 3 Copynumber: 37.7 Consensus size: 3
51122214 CATATGTGTC
* * * * *
51122224 ATT ATT ATA ACT ATT ATT ATT TTT ATT ACT ATT ATT ATT ATT -TT CATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * * *
51122272 ACT ATT ATT ATT TTT ATT -TT ATT ATT ATT ATT ACT ATT -GT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
51122318 ACT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
51122335 ATTGTTTTCC
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
2 5 0.06
3 78 0.93
4 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:51122251 original size:21 final size:19
Alignment explanation
Indices: 51122233--51122303 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
51122223 CATTATTATA
51122233 ACTATTATTATTTTTA-TT
1 ACTATTATTATTTTTATTT
*
51122251 ACTATTATTATTATTT-TCATC
1 ACTATTATTATT-TTTAT--TT
51122272 ACTATTATTATTTTTATTTT
1 ACTATTATTATTTTTA-TTT
*
51122292 ATTATTATTATT
1 ACTATTATTATT
51122304 ACTATTGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 12 0.27
19 3 0.07
20 15 0.34
21 13 0.30
22 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (19 bp):
ACTATTATTATTTTTATTT
Done.