Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 171 of 240
Found at i:53080294 original size:22 final size:20
Alignment explanation
Indices: 53080243--53080299 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
53080233 GCTCACAAAC
*
53080243 AAACATACAAATAAATGAAA
1 AAACATAAAAATAAATGAAA
*
53080263 AATA-ACAAAAATAACTATGAAA
1 AA-ACATAAAAATAA--ATGAAA
53080285 AAACATAAAAA-AAAT
1 AAACATAAAAATAAAT
53080300 TTGAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
19 2 0.07
20 10 0.33
21 4 0.13
22 14 0.47
ACGTcount: A:0.72, C:0.09, G:0.04, T:0.16
Consensus pattern (20 bp):
AAACATAAAAATAAATGAAA
Found at i:53080568 original size:16 final size:16
Alignment explanation
Indices: 53080549--53080583 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
53080539 CCAAAAAATT
*
53080549 AAAAATTACAAGTCCC
1 AAAAATTAAAAGTCCC
*
53080565 AAAAATTAAAAGTTCC
1 AAAAATTAAAAGTCCC
53080581 AAA
1 AAA
53080584 GTTTTTAATT
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:0.57, C:0.17, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAAATTAAAAGTCCC
Found at i:53085304 original size:18 final size:20
Alignment explanation
Indices: 53085260--53085305 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
53085250 CTCAAATAAA
53085260 ATTTTTTTTGATATATTTTT
1 ATTTTTTTTGATATATTTTT
* *
53085280 -TTCTTTTTTTATGT-TTTTT
1 ATT-TTTTTTGATATATTTTT
53085299 ATTTTTT
1 ATTTTTT
53085306 CCCCTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (20 bp):
ATTTTTTTTGATATATTTTT
Found at i:53088794 original size:61 final size:61
Alignment explanation
Indices: 53088685--53088815 Score: 171
Period size: 63 Copynumber: 2.1 Consensus size: 61
53088675 GATCGCTTTG
* *
53088685 TTTCTATTTTTTTTCAAAAAAAATTTCAAGTAATAAAAAATAAAAATG-ATTTTTTTGAAGT
1 TTTCT-TTTTTTTTCAAAAAAAAATTCAAGTAATAAAAAAAAAAAATGAATTTTTTTGAAGT
53088746 TTTCTTTTTTTTT-AAAAAAAAATT-AAGTAATAAAAATAAAAATGAATGAAATTTTTTTGAAGT
1 TTTCTTTTTTTTTCAAAAAAAAATTCAAGTAATAAAAA-AAAAA--AATG-AATTTTTTTGAAGT
53088809 TTT-TTTT
1 TTTCTTTT
53088816 CAATTTTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
58 12 0.19
59 14 0.22
60 8 0.13
61 9 0.14
62 4 0.06
63 16 0.25
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (61 bp):
TTTCTTTTTTTTTCAAAAAAAAATTCAAGTAATAAAAAAAAAAAATGAATTTTTTTGAAGT
Found at i:53088812 original size:58 final size:55
Alignment explanation
Indices: 53088691--53088815 Score: 135
Period size: 59 Copynumber: 2.1 Consensus size: 55
53088681 TTTGTTTCTA
* *
53088691 TTTTTTTTCAAAAAAAATTTCAAGTAATAAAAAATAAAAATGATTTTTTTGAAGTTTT
1 TTTTTTTTCAAAAAAAAATTCAAGTAATAAAAAAAAAAAATGATTTTTTTGAAG---T
*
53088749 CTTTTTTTTTAAAAAAAAATT-AAGTAATAAAAATAAAAATGAATGAAATTTTTTTGAAGT
1 -TTTTTTTTCAAAAAAAAATTCAAGTAATAAAAA-AAAAA--AATG--ATTTTTTTGAAGT
53088809 TTTTTTT
1 TTTTTTT
53088816 CAATTTTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
58 12 0.21
59 29 0.50
60 1 0.02
61 4 0.07
63 12 0.21
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (55 bp):
TTTTTTTTCAAAAAAAAATTCAAGTAATAAAAAAAAAAAATGATTTTTTTGAAGT
Found at i:53092730 original size:24 final size:23
Alignment explanation
Indices: 53092698--53092749 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
53092688 GCAAACAAAC
*
53092698 AAAAA-ATTAGAATA-TAAAATTTA
1 AAAAATATTAAAATATTAAAA--TA
53092721 AAAAATATTAAAATATTAAAATA
1 AAAAATATTAAAATATTAAAATA
53092744 AAAAAT
1 AAAAAT
53092750 GGCTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 13 0.50
24 8 0.31
25 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAATATTAAAATATTAAAATA
Found at i:53094625 original size:16 final size:16
Alignment explanation
Indices: 53094601--53094631 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53094591 AATTAACTAA
*
53094601 TTAACCTAAAAATTAT
1 TTAAACTAAAAATTAT
53094617 TTAAACTAAAAATTA
1 TTAAACTAAAAATTA
53094632 ACCAATTTAA
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:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAACTAAAAATTAT
Found at i:53104274 original size:18 final size:20
Alignment explanation
Indices: 53104236--53104274 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
53104226 AAGATGTAAG
*
53104236 TTGAACTTTAGAAATAGAAT
1 TTGAACCTTAGAAATAGAAT
53104256 TTGAACCTT-GAAA-AGAAT
1 TTGAACCTTAGAAATAGAAT
53104274 T
1 T
53104275 AGACATTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
TTGAACCTTAGAAATAGAAT
Found at i:53121746 original size:12 final size:12
Alignment explanation
Indices: 53121729--53121761 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
53121719 CAGCCCGCCC
53121729 ATATTAATTTTT
1 ATATTAATTTTT
53121741 ATATT-ATTTTT
1 ATATTAATTTTT
53121752 ATA-TAATTTT
1 ATATTAATTTT
53121762 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:53134294 original size:104 final size:103
Alignment explanation
Indices: 53134042--53134306 Score: 408
Period size: 103 Copynumber: 2.6 Consensus size: 103
53134032 AACCGTTATT
* * * *
53134042 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
* *
53134107 ATCAGCACATAGCAACCCCCTTTTTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCTATTTCAAAGATAC
53134145 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
53134209 AATCAGCACATAGCAACCCCCTTTC-ACTTTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCTA--TTTCAAAGATAC
* **
53134249 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
53134307 TTATGTACAA
Statistics
Matches: 149, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
102 2 0.01
103 82 0.55
104 64 0.43
105 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (103 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCTATTTCAAAGATAC
Found at i:53134668 original size:30 final size:29
Alignment explanation
Indices: 53134634--53134698 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
53134624 TAATCCACCA
53134634 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
53134664 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
53134694 CCCAA
1 CCCAA
53134699 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:53134672 original size:31 final size:30
Alignment explanation
Indices: 53134641--53134698 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
53134631 CCACCCAACT
53134641 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
53134671 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
53134699 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:53146758 original size:16 final size:16
Alignment explanation
Indices: 53146714--53146758 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
53146704 GTGTTAAAAG
* *
53146714 CGCCACTAAAGGCAAA
1 CGCCGCTAAAGGTAAA
53146730 CGCCGCTAAAGGTAAA
1 CGCCGCTAAAGGTAAA
*
53146746 CGTCGCTAAAGGT
1 CGCCGCTAAAGGT
53146759 CATGGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.36, C:0.27, G:0.24, T:0.13
Consensus pattern (16 bp):
CGCCGCTAAAGGTAAA
Found at i:53147794 original size:36 final size:36
Alignment explanation
Indices: 53147749--53147820 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
53147739 ATTTTTCACT
* *
53147749 ATAATAAATAGAGATATATAAAT-ATATAAAAATTAA
1 ATAACAAATAGAGATATAAAAATAATAT-AAAATTAA
* **
53147785 ATAACAAATATATTTATAAAAATAATATAAAATTAA
1 ATAACAAATAGAGATATAAAAATAATATAAAATTAA
53147821 GATATTGCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 26 0.87
37 4 0.13
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (36 bp):
ATAACAAATAGAGATATAAAAATAATATAAAATTAA
Found at i:53150841 original size:3 final size:3
Alignment explanation
Indices: 53150830--53150897 Score: 93
Period size: 3 Copynumber: 22.7 Consensus size: 3
53150820 CAATAATACC
* * *
53150830 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
53150875 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
53150898 AGTTAACAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 56 0.98
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:53152505 original size:43 final size:42
Alignment explanation
Indices: 53152457--53152707 Score: 155
Period size: 43 Copynumber: 5.4 Consensus size: 42
53152447 GATCTGAAAT
*
53152457 CTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGA
1 CTTCAATCTACTCCACTGCCAAC-AGGGAGATAGAATTATCGA
* * *
53152500 CTTCAATGTACTCCACTG-TAGTCACAGGGAGGTAGAATCTGTCATCTATGA
1 CTTCAATCTACTCCACTGCCA---ACAGGGAGATAGAA--T-T-ATC---GA
* *
53152551 TCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGG
1 -CTTCAATCTACTCCACTGCCAA-CAGGGAGATAGAATTATCGA
* * * *
53152595 CTTCAATGTACTCCACTG-TAGTCACAGGGAGGTAAAATCTGCCATCTATGA
1 CTTCAATCTACTCCACTGCCA---ACAGGGAGATAGAAT-T---ATC---GA
*
53152646 TCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGA
1 -CTTCAATCTACTCCACTGCCAAC-AGGGAGATAGAATTATCGA
*
53152690 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
53152708 TAGTCACAGG
Statistics
Matches: 160, Mismatches: 22, Indels: 52
0.68 0.09 0.22
Matches are distributed among these distances:
42 2 0.01
43 48 0.30
44 26 0.16
45 4 0.03
46 1 0.01
47 7 0.04
48 7 0.04
49 1 0.01
50 4 0.03
51 26 0.16
52 32 0.20
53 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (42 bp):
CTTCAATCTACTCCACTGCCAACAGGGAGATAGAATTATCGA
Found at i:53152618 original size:95 final size:94
Alignment explanation
Indices: 53152455--53152727 Score: 501
Period size: 95 Copynumber: 2.9 Consensus size: 94
53152445 AAGATCTGAA
53152455 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
*
53152520 GTCACAGGGAGGTAGAATCTGTCATCTATG
66 GTCACAGGGAGGTA-AATCTGCCATCTATG
* *
53152550 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
53152615 GTCACAGGGAGGTAAAATCTGCCATCTATG
66 GTCACAGGGAGGT-AAATCTGCCATCTATG
53152645 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
53152710 GTCACAGGGAGGTAAATC
66 GTCACAGGGAGGTAAATC
53152728 CTGATGCGAT
Statistics
Matches: 172, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
94 5 0.03
95 166 0.97
96 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (94 bp):
ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
GTCACAGGGAGGTAAATCTGCCATCTATG
Found at i:53153027 original size:44 final size:42
Alignment explanation
Indices: 53152885--53153028 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 42
53152875 CCACTGTAAC
* *
53152885 CGAGAGAGGCAAGATTTGTGTCTCCGATCTGCTTCGCTGTCAA
1 CGAGA-AGGCAAGATTTGTGTCTTCAATCTGCTTCGCTGTCAA
* * * * * ** *
53152928 GGCAAGAAGGCAAGATCTGTTATCTTCAACCAGCTTTACT-ACAA
1 --CGAGAAGGCAAGATTTG-TGTCTTCAATCTGCTTCGCTGTCAA
*
53152972 CCGAGAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAA
1 -CGAGA-AGGCAAGATTTGTGTCTTCAATCTGCTTCGCTGTCAA
53153016 CGTAGGAAGGCAA
1 CG-A-GAAGGCAA
53153029 TATCTGTTAT
Statistics
Matches: 74, Mismatches: 20, Indels: 11
0.70 0.19 0.10
Matches are distributed among these distances:
43 21 0.28
44 34 0.46
45 19 0.26
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (42 bp):
CGAGAAGGCAAGATTTGTGTCTTCAATCTGCTTCGCTGTCAA
Found at i:53153215 original size:43 final size:43
Alignment explanation
Indices: 53153167--53153300 Score: 105
Period size: 44 Copynumber: 3.1 Consensus size: 43
53153157 CAAGATCTTT
53153167 TGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAATGTTTG
1 TGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAATGTTTG
* * * ** * * *
53153210 TGTCTTCGATCTGCTTCGC-TGTCAA-TGCAG-GAAGGCAAGATCTAT-
1 TGTCTTCAACCAGC-TC-CATCACAACCG-AGAG-AGG-AA-ATGTTTG
*
53153255 TGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAAGGTTTG
1 TGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAATGTTTG
53153298 TGT
1 TGT
53153301 TTTCGACCTG
Statistics
Matches: 64, Mismatches: 17, Indels: 20
0.63 0.17 0.20
Matches are distributed among these distances:
42 3 0.05
43 19 0.30
44 22 0.34
45 16 0.25
46 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (43 bp):
TGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAATGTTTG
Found at i:53153245 original size:88 final size:88
Alignment explanation
Indices: 53153047--53153434 Score: 536
Period size: 88 Copynumber: 4.5 Consensus size: 88
53153037 ATCTTTAGTT
* * * *
53153047 TGCTCCGCTGTCATTACAGGAAGGCAAAATCTTTTGTCTTCAACCAGCTCCATCACCACC--GAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* *
53153110 AGGCAAGGTTTGTGTCTTGGACC
66 AGGAAAGGTTTGTGTCTTCGACC
* *
53153133 TGCTTCGCTATCAATATAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* *
53153198 AGGAAATGTTTGTGTCTTCGATC
66 AGGAAAGGTTTGTGTCTTCGACC
* *
53153221 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
*
53153286 AGGAAAGGTTTGTGTTTTCGACC
66 AGGAAAGGTTTGTGTCTTCGACC
53153309 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-C-C-ACCGAGAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* * *
53153371 AGGCAAGGTTT-TGTTTTCGATC
66 AGGAAAGGTTTGTGTCTTCGACC
* ** * **
53153393 TGCTTCGCTGTTAACGCGGGAAGGCAAGATCTGCTGTCTTCA
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCA
53153435 CTGATCTGTT
Statistics
Matches: 273, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
84 46 0.17
85 18 0.07
86 55 0.20
87 1 0.00
88 153 0.56
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (88 bp):
TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
AGGAAAGGTTTGTGTCTTCGACC
Found at i:53155540 original size:9 final size:9
Alignment explanation
Indices: 53155528--53155557 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
53155518 ATATTTTGAC
53155528 TTTGATTTT
1 TTTGATTTT
53155537 TTTGATTTT
1 TTTGATTTT
53155546 TTTGATTTT
1 TTTGATTTT
53155555 TTT
1 TTT
53155558 TTTGAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (9 bp):
TTTGATTTT
Found at i:53158120 original size:19 final size:20
Alignment explanation
Indices: 53158091--53158139 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
53158081 CACTTCGTGA
* *
53158091 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
53158110 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
53158130 AAATG-AATGC
1 AAATGTAATGC
53158140 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:53160644 original size:3 final size:3
Alignment explanation
Indices: 53160633--53160697 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
53160623 CAATAATACC
* * *
53160633 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
53160678 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
53160698 AGTTAACAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.98
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:53164219 original size:3 final size:3
Alignment explanation
Indices: 53164211--53164242 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
53164201 ACTAAACCTT
53164211 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
53164243 GTACTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:53164384 original size:20 final size:20
Alignment explanation
Indices: 53164359--53164409 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
53164349 CTTGACATTT
53164359 TTTTAAGTTATTTAATATAA
1 TTTTAAGTTATTTAATATAA
* * *
53164379 TTTTAAGATA-TTATTATTA
1 TTTTAAGTTATTTAATATAA
53164398 TTTT-AGTTATTT
1 TTTTAAGTTATTT
53164410 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 13 0.50
20 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (20 bp):
TTTTAAGTTATTTAATATAA
Found at i:53171481 original size:20 final size:21
Alignment explanation
Indices: 53171458--53171502 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
53171448 AGCGATACTA
* *
53171458 CCCT-CGATGTTGCGACATAG
1 CCCTCCGATGTCGCGACATAC
*
53171478 CCCTCCTATGTCGCGACATAC
1 CCCTCCGATGTCGCGACATAC
53171499 CCCT
1 CCCT
53171503 TGCGCAGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.18, C:0.40, G:0.18, T:0.24
Consensus pattern (21 bp):
CCCTCCGATGTCGCGACATAC
Found at i:53172601 original size:9 final size:9
Alignment explanation
Indices: 53172587--53172618 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
53172577 TTTGGTTAAA
53172587 AATTAACCG
1 AATTAACCG
*
53172596 AATTAACTG
1 AATTAACCG
53172605 AATTAACCG
1 AATTAACCG
53172614 AATTA
1 AATTA
53172619 CCCAAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:53172626 original size:18 final size:18
Alignment explanation
Indices: 53172586--53172626 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
53172576 TTTTGGTTAA
*
53172586 AAATTAACCGAATTAACT
1 AAATTAACCGAATTAACC
* *
53172604 GAATTAACCGAATTACCC
1 AAATTAACCGAATTAACC
53172622 AAATT
1 AAATT
53172627 GAATCACTGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (18 bp):
AAATTAACCGAATTAACC
Found at i:53172755 original size:20 final size:20
Alignment explanation
Indices: 53172665--53172755 Score: 51
Period size: 21 Copynumber: 4.2 Consensus size: 20
53172655 TAAGTCTTTG
53172665 AATTTTATTTTTATTTATTA
1 AATTTTATTTTTATTTATTA
* *
53172685 AATTATT-TTCTTAGACTT-TTA
1 AATT-TTATT-TT-TATTTATTA
* *
53172706 AACTTTAGTTTTAGTTTTAGTTTTA
1 AATTTTATTTTTA--TTTA---TTA
53172731 GAATTTTATTTTTATTTATTA
1 -AATTTTATTTTTATTTATTA
53172752 AATT
1 AATT
53172756 ATTTGTAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 22
0.63 0.10 0.27
Matches are distributed among these distances:
19 1 0.02
20 14 0.27
21 16 0.31
22 3 0.06
24 4 0.08
25 3 0.06
26 11 0.21
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (20 bp):
AATTTTATTTTTATTTATTA
Found at i:53182933 original size:16 final size:16
Alignment explanation
Indices: 53182914--53182944 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
53182904 GTTCCAAAAC
53182914 CAAAATGTTGTAGGCT
1 CAAAATGTTGTAGGCT
53182930 CAAAATGTTGTAGGC
1 CAAAATGTTGTAGGC
53182945 AAACTATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (16 bp):
CAAAATGTTGTAGGCT
Found at i:53189350 original size:4 final size:4
Alignment explanation
Indices: 53189341--53189739 Score: 361
Period size: 4 Copynumber: 99.8 Consensus size: 4
53189331 TTCCTAGTTA
53189341 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
53189389 TAAG TATG TATG TATG TATG TATG TATG TATA TATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
53189437 TATG CATG TATG CATG TATG CATG TATG CATG CATG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
53189485 CATG TATG TATG TATG TGTG TATG TGTG TATG TGTG TATG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
53189533 TATG TATG TGTG TCTG TCTG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * *
53189581 TATG TATG TATG TATG CATG TGTG TGTG TGTG TGTG TGTGCG TGTG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT--G TATG TATG
* ** * * ** * * * * *
53189631 TGTG CGTG TGTG TGTG TGCG TGTG TGTG TATG CATG --TG TGTG TCTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
** * * * * *
53189677 CGTG TGTG TGTC TGTG TATG TATG TGTG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
53189725 TATG TATG TATG TAT
1 TATG TATG TATG TAT
53189740 ATGATTTAAT
Statistics
Matches: 342, Mismatches: 49, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.01
4 336 0.98
6 4 0.01
ACGTcount: A:0.18, C:0.05, G:0.31, T:0.46
Consensus pattern (4 bp):
TATG
Found at i:53192309 original size:89 final size:84
Alignment explanation
Indices: 53192135--53192357 Score: 247
Period size: 88 Copynumber: 2.6 Consensus size: 84
53192125 CTTCAAAGCA
* ** * **
53192135 TTTTTTTGCACTCGATTAAGTACTTGAACTTTCAAAAGGCATAAAAAAGGTCCTCAAACTTTTTC
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTTTC
53192200 AAAAAAAGCAATTAAGCCCTTGC
66 AAAAAAAGCAATTAAG-CC---C
* * *
53192223 TTTTTTTGCACTCAATTGGGTGCTTAAACTTTCAAAATGCATAAAAACATACCCTCAAACTTTTT
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAA-AGACCCTCAAACTTTTT
53192288 CAAAAATAA-CAATTGAA-CCC
65 CAAAAA-AAGCAATT-AAGCCC
* * *
53192308 -TTTTTTGCAATCAATTGGGTACTTGAA-TGTCAAAATGCATCAAAAAGACC
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGACC
53192358 TTTAGATTGT
Statistics
Matches: 117, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
82 4 0.03
83 16 0.14
84 24 0.21
85 1 0.01
88 43 0.37
89 25 0.21
90 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (84 bp):
TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTTTC
AAAAAAAGCAATTAAGCCC
Found at i:53192516 original size:29 final size:29
Alignment explanation
Indices: 53192482--53192557 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
53192472 AATAAAAATC
* *
53192482 AATAAAAATTATAAAAATGGTTAAATTTT
1 AATAAAAATTAAAAAAATAGTTAAATTTT
* *
53192511 AATAAAAAATAAAAAAATATTTAAATTTT
1 AATAAAAATTAAAAAAATAGTTAAATTTT
*
53192540 ATTAAAAATTAGAAAAAA
1 AATAAAAATTA-AAAAAA
53192558 ATATTTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 34 0.85
30 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (29 bp):
AATAAAAATTAAAAAAATAGTTAAATTTT
Found at i:53198763 original size:9 final size:9
Alignment explanation
Indices: 53198751--53198880 Score: 79
Period size: 9 Copynumber: 13.9 Consensus size: 9
53198741 AGTATGTCTA
53198751 TTATGTATG
1 TTATGTATG
*
53198760 TTATGTATA
1 TTATGTATG
*
53198769 TTA-CTAT-
1 TTATGTATG
53198776 TTATGTATG
1 TTATGTATG
53198785 TTATGTA-G
1 TTATGTATG
53198793 TATAT-TATTG
1 T-TATGTA-TG
53198803 TTTATGTATG
1 -TTATGTATG
*
53198813 TTATGTATA
1 TTATGTATG
*
53198822 TTACTGTTTATA
1 TTA-TG--TATG
*
53198834 TCATGTATG
1 TTATGTATG
* *
53198843 TTATGTTTA
1 TTATGTATG
*
53198852 TTATTGTTTATA
1 TTA-TG--TATG
53198864 TTATGTATG
1 TTATGTATG
53198873 TTATGTAT
1 TTATGTAT
53198881 ATTACAATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 26
0.72 0.08 0.19
Matches are distributed among these distances:
7 3 0.03
8 10 0.10
9 55 0.57
10 10 0.10
11 7 0.07
12 12 0.12
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (9 bp):
TTATGTATG
Found at i:53198790 original size:30 final size:28
Alignment explanation
Indices: 53198749--53198959 Score: 202
Period size: 30 Copynumber: 7.4 Consensus size: 28
53198739 TTAGTATGTC
*
53198749 TATTATGTATGTTATGTATATTACTATT
1 TATTATGTATGTTATGTATATTACTGTT
*
53198777 TATGTATGTTATG-TA-GTATATTA-T-TG
1 TAT-TATG-TATGTTATGTATATTACTGTT
53198803 T-TTATGTATGTTATGTATATTACTGTT
1 TATTATGTATGTTATGTATATTACTGTT
* *
53198830 TATATCATGTATGTTATGTTTATTATTGTTT
1 TAT-T-ATGTATGTTATGTATATTACTG-TT
**
53198861 ATATTATGTATGTTATGTATATTACAATT
1 -TATTATGTATGTTATGTATATTACTGTT
**
53198890 TACATTATGTATGTTATGTATATTGTTGTTT
1 T--ATTATGTATGTTATGTATATTACTG-TT
*
53198921 ATATTATTTATGTTATGTATATTACTGTT
1 -TATTATGTATGTTATGTATATTACTGTT
53198950 TA-TAT-TATGT
1 TATTATGTATGT
53198960 ACCTGATTTT
Statistics
Matches: 153, Mismatches: 15, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
23 4 0.03
24 6 0.04
25 9 0.06
26 8 0.05
27 6 0.04
28 15 0.10
29 11 0.07
30 85 0.56
31 5 0.03
32 4 0.03
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTATGTATGTTATGTATATTACTGTT
Found at i:53198816 original size:16 final size:16
Alignment explanation
Indices: 53198760--53198952 Score: 52
Period size: 16 Copynumber: 12.2 Consensus size: 16
53198750 ATTATGTATG
* *
53198760 TTATGTATATTACTAT
1 TTATGTATATTATTGT
*
53198776 TTATGTATGTTA-TG-
1 TTATGTATATTATTGT
53198790 -TA-GTATATTATTGT
1 TTATGTATATTATTGT
* *
53198804 TTATGTATGTTATGTAT
1 TTATGTATATTAT-TGT
* *
53198821 ATTACTGTTTATATCATGTAT
1 -TTA-TG--TATATTAT-TGT
*
53198842 GTTATGTTTATTATTGT
1 -TTATGTATATTATTGT
*
53198859 TTATAT-TATGTA-TG-
1 TTATGTATAT-TATTGT
***
53198873 TTATGTATATTACAAT
1 TTATGTATATTATTGT
**
53198889 TTACAT-TATGTA-TG-
1 TTATGTATAT-TATTGT
*
53198903 TTATGTATATTGTTGT
1 TTATGTATATTATTGT
*
53198919 TTATAT-TATT-TATG-
1 TTATGTATATTAT-TGT
*
53198933 TTATGTATATTACTGT
1 TTATGTATATTATTGT
53198949 TTAT
1 TTAT
53198953 ATTATGTACC
Statistics
Matches: 131, Mismatches: 25, Indels: 42
0.66 0.13 0.21
Matches are distributed among these distances:
12 7 0.05
13 4 0.03
14 18 0.14
15 31 0.24
16 41 0.31
17 4 0.03
18 9 0.07
19 2 0.02
20 2 0.02
21 13 0.10
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (16 bp):
TTATGTATATTATTGT
Found at i:53198844 original size:15 final size:15
Alignment explanation
Indices: 53198804--53198960 Score: 64
Period size: 15 Copynumber: 10.5 Consensus size: 15
53198794 ATATTATTGT
*
53198804 TTATGTATG-TTATG
1 TTATGTATGTTTATA
53198818 TATAT-TACTGTTTATA
1 T-TATGTA-TGTTTATA
* *
53198834 TCATGTATG-TTATGT
1 TTATGTATGTTTAT-A
53198849 TTAT-TATTGTTTATA
1 TTATGTA-TGTTTATA
*
53198864 TTATGTATG-TTATG
1 TTATGTATGTTTATA
** *
53198878 TATAT-TACAATTTACA
1 T-TATGTA-TGTTTATA
*
53198894 TTATGTATG-TTATG
1 TTATGTATGTTTATA
53198908 TATATTGT-TGTTTATA
1 T-TA-TGTATGTTTATA
* *
53198924 TTATTTATG-TTATG
1 TTATGTATGTTTATA
53198938 TATAT-TACTGTTTATA
1 T-TATGTA-TGTTTATA
53198954 TTATGTA
1 TTATGTA
53198961 CCTGATTTTA
Statistics
Matches: 105, Mismatches: 18, Indels: 38
0.65 0.11 0.24
Matches are distributed among these distances:
14 29 0.28
15 42 0.40
16 34 0.32
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (15 bp):
TTATGTATGTTTATA
Found at i:53198881 original size:60 final size:60
Alignment explanation
Indices: 53198749--53198960 Score: 278
Period size: 60 Copynumber: 3.6 Consensus size: 60
53198739 TTAGTATGTC
*
53198749 TATTATGTATGTTATGTATATTACTATTTAT-GTATGTTATG-TA-GTATATTATTG----
1 TATTATGTATGTTATGTATATTACTATTTATATTATG-TATGTTATGTATATTATTGTTTA
* * *
53198803 T-TTATGTATGTTATGTATATTACTGTTTATATCATGTATGTTATGTTTATTATTGTTTA
1 TATTATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATATTATTGTTTA
* * *
53198862 TATTATGTATGTTATGTATATTACAATTTACATTATGTATGTTATGTATATTGTTGTTTA
1 TATTATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATATTATTGTTTA
* *
53198922 TATTATTTATGTTATGTATATTACTGTTTATATTATGTA
1 TATTATGTATGTTATGTATATTACTATTTATATTATGTA
53198961 CCTGATTTTA
Statistics
Matches: 136, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
53 32 0.24
54 6 0.04
55 10 0.07
59 1 0.01
60 87 0.64
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (60 bp):
TATTATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATATTATTGTTTA
Found at i:53203007 original size:27 final size:27
Alignment explanation
Indices: 53202949--53203116 Score: 209
Period size: 27 Copynumber: 6.3 Consensus size: 27
53202939 TATAACAGTT
* *
53202949 ATTTTACCCTATGGGGGTATTTTCGATC
1 ATTTTACCCTATGGGAGTA-TTTCGGTC
*
53202977 ATTTTACCCTATAGGAGTATTTCGGTC
1 ATTTTACCCTATGGGAGTATTTCGGTC
* *
53203004 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGAGTATTTCGGTC
*
53203031 ATTTTACCTTATGAGG-G---TTCGGTC
1 ATTTTACCCTATG-GGAGTATTTCGGTC
53203055 ATTTTACCCTATGGGAGTATTTCGGTC
1 ATTTTACCCTATGGGAGTATTTCGGTC
* * *
53203082 ATTTTACCCTATGGGTGTATTTTGGTT
1 ATTTTACCCTATGGGAGTATTTCGGTC
53203109 ATTTTACC
1 ATTTTACC
53203117 TATTTTGGAG
Statistics
Matches: 123, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.02
24 19 0.15
27 83 0.67
28 19 0.15
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGAGTATTTCGGTC
Found at i:53203069 original size:51 final size:53
Alignment explanation
Indices: 53202949--53203094 Score: 217
Period size: 51 Copynumber: 2.8 Consensus size: 53
53202939 TATAACAGTT
53202949 ATTTTACCCTATGGGGGTATTTTCGATCATTTTACCCTAT-AGGAGTATTTCGGTC
1 ATTTTACCCTATGGGGGTA-TTTCGATCATTTTACCCTATGAGGAG--TTTCGGTC
*
53203004 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGG-G-TTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGAGTTTCGGTC
* *
53203055 ATTTTACCCTATGGGAGTATTTCGGTCATTTTACCCTATG
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
53203095 GGTGTATTTT
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
51 44 0.51
54 20 0.23
55 22 0.26
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (53 bp):
ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGAGTTTCGGTC
Found at i:53203072 original size:78 final size:78
Alignment explanation
Indices: 53202970--53203117 Score: 242
Period size: 78 Copynumber: 1.9 Consensus size: 78
53202960 TGGGGGTATT
53202970 TTCGATCATTTTACCCTATAGGAGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTT
1 TTCGATCATTTTACCCTATAGGAGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTT
53203035 TACCTTATGAGGG
66 TACCTTATGAGGG
* * * * * *
53203048 TTCGGTCATTTTACCCTATGGGAGTATTTCGGTCATTTTACCCTATGGGTGTATTTTGGTTATTT
1 TTCGATCATTTTACCCTATAGGAGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTT
53203113 TACCT
66 TACCT
53203118 ATTTTGGAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (78 bp):
TTCGATCATTTTACCCTATAGGAGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTT
TACCTTATGAGGG
Found at i:53205444 original size:9 final size:9
Alignment explanation
Indices: 53205430--53205585 Score: 87
Period size: 9 Copynumber: 15.7 Consensus size: 9
53205420 ATATTATTAG
53205430 TATGTATAT
1 TATGTATAT
53205439 TATGTATAT
1 TATGTATAT
*
53205448 TACTTTTTATAT
1 TA---TGTATAT
* *
53205460 AATGTATGT
1 TATGTATAT
53205469 TATGTTTACTAT
1 TATG--TA-TAT
*
53205481 TATTTATAT
1 TATGTATAT
*
53205490 TATGTATGT
1 TATGTATAT
53205499 TATGTATAT
1 TATGTATAT
*
53205508 TACAATTTATAT
1 T---ATGTATAT
*
53205520 TATGTATGT
1 TATGTATAT
53205529 TATGTATAT
1 TATGTATAT
*
53205538 TGTTGTTTATAT
1 T-ATG--TATAT
* *
53205550 TATTTATGT
1 TATGTATAT
53205559 TATGTATAT
1 TATGTATAT
53205568 TACTGTTTATAT
1 TA-TG--TATAT
53205580 TATGTA
1 TATGTA
53205586 CCTGACTTTA
Statistics
Matches: 112, Mismatches: 20, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
9 68 0.61
10 6 0.05
11 5 0.04
12 33 0.29
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (9 bp):
TATGTATAT
Found at i:53205449 original size:21 final size:21
Alignment explanation
Indices: 53205424--53205585 Score: 97
Period size: 21 Copynumber: 8.0 Consensus size: 21
53205414 AAATTGATAT
* *
53205424 TATTAGTATGTATATTATGTA
1 TATTACTATTTATATTATGTA
* *
53205445 TATTACTTTTTATATAATGTA
1 TATTACTATTTATATTATGTA
* *
53205466 TGTTA-TGTTTACTATTAT-T-
1 TATTACTATTTA-TATTATGTA
* * *
53205485 TA-TATTATGTATGTTATGTA
1 TATTACTATTTATATTATGTA
*
53205505 TATTACAATTTATATTATGTA
1 TATTACTATTTATATTATGTA
* * * *
53205526 T-GT--TATGTATATTGTTGTT
1 TATTACTATTTATATT-ATGTA
* *
53205545 TA-TATTATTTATGTTATGTA
1 TATTACTATTTATATTATGTA
*
53205565 TATTACTGTTTATATTATGTA
1 TATTACTATTTATATTATGTA
53205586 CCTGACTTTA
Statistics
Matches: 104, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
18 15 0.14
19 11 0.11
20 14 0.13
21 64 0.62
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.57
Consensus pattern (21 bp):
TATTACTATTTATATTATGTA
Found at i:53205472 original size:30 final size:30
Alignment explanation
Indices: 53205430--53205585 Score: 199
Period size: 30 Copynumber: 5.2 Consensus size: 30
53205420 ATATTATTAG
*
53205430 TATGTATATTATGTATATTACTTTTTATAT
1 TATGTATGTTATGTATATTACTTTTTATAT
* * *
53205460 AATGTATGTTATGTTTACTA-TTATTTATAT
1 TATGTATGTTATGTATATTACTT-TTTATAT
**
53205490 TATGTATGTTATGTATATTACAATTTATAT
1 TATGTATGTTATGTATATTACTTTTTATAT
*
53205520 TATGTATGTTATGTATATT-GTTGTTTATAT
1 TATGTATGTTATGTATATTACTT-TTTATAT
* *
53205550 TATTTATGTTATGTATATTACTGTTTATAT
1 TATGTATGTTATGTATATTACTTTTTATAT
53205580 TATGTA
1 TATGTA
53205586 CCTGACTTTA
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
29 2 0.02
30 103 0.97
31 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TATGTATGTTATGTATATTACTTTTTATAT
Found at i:53205496 original size:60 final size:60
Alignment explanation
Indices: 53205430--53205585 Score: 222
Period size: 60 Copynumber: 2.6 Consensus size: 60
53205420 ATATTATTAG
* * * *
53205430 TATGTATATTATGTATATTACTTTTTATATAATGTATGTTATGTTTACTATTATTTATAT
1 TATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATACTATTATTTATAT
* * * *
53205490 TATGTATGTTATGTATATTACAATTTATATTATGTATGTTATGTATATTGTTGTTTATAT
1 TATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATACTATTATTTATAT
* *
53205550 TATTTATGTTATGTATATTACTGTTTATATTATGTA
1 TATGTATGTTATGTATATTACTATTTATATTATGTA
53205586 CCTGACTTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 85 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (60 bp):
TATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATACTATTATTTATAT
Found at i:53205967 original size:17 final size:17
Alignment explanation
Indices: 53205945--53205977 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
53205935 GACACACTTG
53205945 ATGTTATTGATGATACC
1 ATGTTATTGATGATACC
53205962 ATGTTATTGATGATAC
1 ATGTTATTGATGATAC
53205978 TTCCCAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (17 bp):
ATGTTATTGATGATACC
Found at i:53208010 original size:70 final size:69
Alignment explanation
Indices: 53207887--53208032 Score: 256
Period size: 70 Copynumber: 2.1 Consensus size: 69
53207877 AATGTTTACA
* * *
53207887 CATTCTATCAATTTAATCCTAAATATAAAAAGTTTAACAAATTTAGTGCTCAATGTTTACAAAAT
1 CATTTTATCAATTTAATCCTAAATATAAAAAGTTCAACAAATTTAGCGCTCAATGTTTACAAAAT
53207952 TTGT
66 TTGT
53207956 CATTTTATCAATTTAATCCTAAATATAAAAAAGTTCAACAAATTTAGCGCTCAATGTTTACAAAA
1 CATTTTATCAATTTAATCCTAAATAT-AAAAAGTTCAACAAATTTAGCGCTCAATGTTTACAAAA
53208021 TTTGT
65 TTTGT
53208026 CATTTTA
1 CATTTTA
53208033 GTTCAAATTC
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 25 0.34
70 48 0.66
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (69 bp):
CATTTTATCAATTTAATCCTAAATATAAAAAGTTCAACAAATTTAGCGCTCAATGTTTACAAAAT
TTGT
Found at i:53209277 original size:60 final size:61
Alignment explanation
Indices: 53209179--53209331 Score: 168
Period size: 61 Copynumber: 2.5 Consensus size: 61
53209169 TAAATTTTGT
** *
53209179 AATTTTGTAAATGTTGAGGACTAAATTTATTGAA-TTTTTATAATTTAA-ACTAAAATGATA
1 AATTTTGTAAACATTAAGGACTAAATTTATTGAATTTTTTAT-ATTTAAGACTAAAATGATA
* * *
53209239 AATTTTGTAAACATTAAGG-CTAAATTTGTTGAACTTTTTTATATTTAAGATTAAATTGATA
1 AATTTTGTAAACATTAAGGACTAAATTTATTGAA-TTTTTTATATTTAAGACTAAAATGATA
* * * *
53209300 AAATATGTAAACATTAGAGAATTAAATTTATT
1 AATTTTGTAAACATTA-AGGACTAAATTTATT
53209332 ATTAGACTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
59 13 0.17
60 22 0.29
61 31 0.40
62 2 0.03
63 9 0.12
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (61 bp):
AATTTTGTAAACATTAAGGACTAAATTTATTGAATTTTTTATATTTAAGACTAAAATGATA
Found at i:53214698 original size:22 final size:21
Alignment explanation
Indices: 53214642--53214698 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
53214632 TTTAAATACT
53214642 TTTTAGAATTTTATAAAAAAATA
1 TTTTA-AATTTT-TAAAAAAATA
* *
53214665 TTTTAAACTTTT-AAAATATA
1 TTTTAAATTTTTAAAAAAATA
53214685 TATTTACAATTTTT
1 T-TTTA-AATTTTT
53214699 TCACAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 8 0.28
21 5 0.17
22 11 0.38
23 5 0.17
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTAAATTTTTAAAAAAATA
Found at i:53226334 original size:30 final size:30
Alignment explanation
Indices: 53226279--53226335 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
53226269 ACAATTTAAC
* *
53226279 TTTTTTTAAAAGTTTAATGGTCAAATTCGA
1 TTTTTTTAAAAGGTTAATGGCCAAATTCGA
53226309 TTTTTTTAAAAGGTTAA-GCGCCAAATT
1 TTTTTTTAAAAGGTTAATG-GCCAAATT
53226336 TAATATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (30 bp):
TTTTTTTAAAAGGTTAATGGCCAAATTCGA
Found at i:53237127 original size:27 final size:27
Alignment explanation
Indices: 53237089--53237145 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
53237079 CATAAAAAGG
53237089 TTATGTCGAATCATGATCTCTTGTGAC
1 TTATGTCGAATCATGATCTCTTGTGAC
53237116 TTATGTCGAATCATGATCTCTTGTGAC
1 TTATGTCGAATCATGATCTCTTGTGAC
53237143 TTA
1 TTA
53237146 GGTAGCAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
TTATGTCGAATCATGATCTCTTGTGAC
Found at i:53239958 original size:20 final size:22
Alignment explanation
Indices: 53239933--53239982 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
53239923 TGTACCAATT
*
53239933 TTCAAACAAATTAAAGT-A-CA
1 TTCAAACAAAATAAAGTCATCA
* *
53239953 TTCAAATAAAATAAATTCATCA
1 TTCAAACAAAATAAAGTCATCA
53239975 TTCAAACA
1 TTCAAACA
53239983 TATATATTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 14 0.58
21 1 0.04
22 9 0.38
ACGTcount: A:0.54, C:0.16, G:0.02, T:0.28
Consensus pattern (22 bp):
TTCAAACAAAATAAAGTCATCA
Found at i:53243251 original size:20 final size:22
Alignment explanation
Indices: 53243226--53243275 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
53243216 TGTACCAATT
*
53243226 TTCAAACAAATTAAAGT-A-CA
1 TTCAAACAAAATAAAGTCATCA
* *
53243246 TTCAAATAAAATAAATTCATCA
1 TTCAAACAAAATAAAGTCATCA
53243268 TTCAAACA
1 TTCAAACA
53243276 TATATATTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 14 0.58
21 1 0.04
22 9 0.38
ACGTcount: A:0.54, C:0.16, G:0.02, T:0.28
Consensus pattern (22 bp):
TTCAAACAAAATAAAGTCATCA
Found at i:53246870 original size:10 final size:11
Alignment explanation
Indices: 53246855--53246888 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
53246845 GCAAAAAAAG
53246855 TTTCTATTTT-
1 TTTCTATTTTC
53246865 TTTCTATTTTC
1 TTTCTATTTTC
*
53246876 TTGCTATTTTC
1 TTTCTATTTTC
53246887 TT
1 TT
53246889 ATTGTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.09, C:0.15, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTCTATTTTC
Found at i:53247127 original size:16 final size:18
Alignment explanation
Indices: 53247091--53247128 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
53247081 AAAATATTTA
*
53247091 TTTTAATGTTTTTAGTAT
1 TTTTAATGTTATTAGTAT
53247109 TTTTAAT-TTATTA-TAT
1 TTTTAATGTTATTAGTAT
53247125 TTTT
1 TTTT
53247129 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 5 0.26
18 7 0.37
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTTAATGTTATTAGTAT
Found at i:53247627 original size:22 final size:23
Alignment explanation
Indices: 53247602--53247653 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
53247592 TACTTTTTTG
* *
53247602 TTATTTACCATTTACTACTCAT-
1 TTATTAACCATTTACTACTAATA
**
53247624 TTATTAACTGTTTACTACTAATA
1 TTATTAACCATTTACTACTAATA
53247647 TTATTAA
1 TTATTAA
53247654 TCTTTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.50
Consensus pattern (23 bp):
TTATTAACCATTTACTACTAATA
Found at i:53247659 original size:22 final size:22
Alignment explanation
Indices: 53247612--53247659 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
53247602 TTATTTACCA
* *
53247612 TTTACTACTCATTTATTAACTG
1 TTTACTACTAATTTATTAACTC
53247634 TTTACTACTAATATTATTAA-TC
1 TTTACTACTAAT-TTATTAACTC
53247656 TTTA
1 TTTA
53247660 TAATTACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.31, C:0.15, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTACTACTAATTTATTAACTC
Found at i:53247816 original size:27 final size:27
Alignment explanation
Indices: 53247758--53247817 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
53247748 TTTAATTATC
* *
53247758 TAATAATTGTAAATTAACTTGTATAAA
1 TAATATTTGTAAATTAACTTGCATAAA
* *
53247785 AAATATTTGTAAGTTAACTTGCA-AAA
1 TAATATTTGTAAATTAACTTGCATAAA
53247811 TTAATAT
1 -TAATAT
53247818 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (27 bp):
TAATATTTGTAAATTAACTTGCATAAA
Found at i:53248528 original size:28 final size:28
Alignment explanation
Indices: 53248486--53248539 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
53248476 GTTAATGATT
*
53248486 TTTATTAAATTTTTTTGA-AAATTTTAGA
1 TTTATTAAATATTTTT-ATAAATTTTAGA
*
53248514 TTTATTTAATATTTTTATAAATTTTA
1 TTTATTAAATATTTTTATAAATTTTA
53248540 ATAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTATTAAATATTTTTATAAATTTTAGA
Found at i:53261515 original size:16 final size:16
Alignment explanation
Indices: 53261496--53261542 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
53261486 AATATATACC
53261496 ATATTTAATATAAATA
1 ATATTTAATATAAATA
*
53261512 ATATTTAAGATAAATA
1 ATATTTAATATAAATA
53261528 ATATTT--TATAAATA
1 ATATTTAATATAAATA
53261542 A
1 A
53261543 AAGAGATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 8 0.28
16 21 0.72
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
ATATTTAATATAAATA
Found at i:53265934 original size:41 final size:41
Alignment explanation
Indices: 53265889--53265981 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
53265879 GATTCACTGG
* * *
53265889 CACTTAGCTTGTTAGGCTTA-AATCCTGATTCAGATCACCGA
1 CACTTAGCCTGCTAGGCTTATAAT-CTAATTCAGATCACCGA
* * *
53265930 CACTTAGCCTGCTAGGCTTATAGTCTAATTCAGTTCACCGG
1 CACTTAGCCTGCTAGGCTTATAATCTAATTCAGATCACCGA
53265971 CACTTAGCCTG
1 CACTTAGCCTG
53265982 ATTCAGATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (41 bp):
CACTTAGCCTGCTAGGCTTATAATCTAATTCAGATCACCGA
Found at i:53265985 original size:25 final size:25
Alignment explanation
Indices: 53265957--53266006 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
53265947 TTATAGTCTA
*
53265957 ATTCAGTTCACCGGCACTTAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTG
53265982 ATTCAGATCACCGGCACTTAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTG
53266007 CTAGGCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (25 bp):
ATTCAGATCACCGGCACTTAGCCTG
Found at i:53265993 original size:66 final size:66
Alignment explanation
Indices: 53265912--53266047 Score: 220
Period size: 66 Copynumber: 2.1 Consensus size: 66
53265902 AGGCTTAAAT
*
53265912 CCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAG-TCTAATTCAGTTCACCGGCACTT
1 CCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAGCT-TAATTCAGATCACCGGCACTT
53265976 AG
65 AG
* * *
53265978 CCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTTAGATCACCGGCACTTA
1 CCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAGCTTAATTCAGATCACCGGCACTTA
53266043 G
66 G
53266044 CCTG
1 CCTG
53266048 CTAGGCTTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
66 64 0.98
67 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (66 bp):
CCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAGCTTAATTCAGATCACCGGCACTTA
G
Found at i:53266037 original size:41 final size:41
Alignment explanation
Indices: 53265975--53266175 Score: 312
Period size: 41 Copynumber: 4.9 Consensus size: 41
53265965 CACCGGCACT
53265975 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
* *
53266016 TAGCTTGATTTAGATCACCGGCACTTAGCCTGCTAGGCTTA
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
* ** *
53266057 TAGCCTGATTCAGTTCAATGGCACTTAGCTTGCTAGGCTTA
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
*
53266098 TAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTA
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
* * *
53266139 TAACCTGATTTAGATCACCGGTACTTAGCCTGCTAGG
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
53266176 TTTTAAAACC
Statistics
Matches: 145, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 145 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (41 bp):
TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
Found at i:53266050 original size:107 final size:107
Alignment explanation
Indices: 53265882--53266085 Score: 300
Period size: 107 Copynumber: 1.9 Consensus size: 107
53265872 TTAAATAGAT
* * * *
53265882 TCACTGGCACTTAGCTTGTTAGGCTTAAATCCTGATTCAGATCACCGACACTTAGCCTGCTAGGC
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGC
* *
53265947 TTATAGTCTAATTCAGTTCACCGGCACTTAGCCTGATTCAGA
66 TTATAGCCTAATTCAGTTCAACGGCACTTAGCCTGATTCAGA
* * * *
53265989 TCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTTAGATCACCGGCACTTAGCCTGCTAGGC
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGC
* *
53266054 TTATAGCCTGATTCAGTTCAATGGCACTTAGC
66 TTATAGCCTAATTCAGTTCAACGGCACTTAGC
53266086 TTGCTAGGCT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
107 85 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (107 bp):
TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGC
TTATAGCCTAATTCAGTTCAACGGCACTTAGCCTGATTCAGA
Found at i:53266198 original size:123 final size:122
Alignment explanation
Indices: 53265975--53266198 Score: 333
Period size: 123 Copynumber: 1.8 Consensus size: 122
53265965 CACCGGCACT
* *
53265975 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTTAGATCACCGGCAC
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACCGGCAC
* * * *
53266040 TTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCAATGGCACTTAGCTTGCTAGGCTTA
66 TTAGCCTGCTAGGCTTAAAACCTGA-TAAATTCAATGGCACTTAGCTTGCTAGGCTTA
* *
53266098 TAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACCGGTAC
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACCGGCAC
*
53266163 TTAGCCTGCTAGGTTTTAAAACCTGA-AAATCTCAAT
66 TTAGCCTGCTAGG-CTTAAAACCTGATAAAT-TCAAT
53266199 TTCTCATATA
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
122 2 0.02
123 79 0.88
124 9 0.10
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (122 bp):
TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACCGGCAC
TTAGCCTGCTAGGCTTAAAACCTGATAAATTCAATGGCACTTAGCTTGCTAGGCTTA
Found at i:53273006 original size:41 final size:41
Alignment explanation
Indices: 53272961--53273141 Score: 211
Period size: 41 Copynumber: 4.4 Consensus size: 41
53272951 AGATTCACTC
* * * *
53272961 GCACTTAGCTTGTTAGGCTTAAAGCCTGATTTAGATCACCA
1 GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCG
* * *
53273002 GCACTTAGCCTGCTCGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCG
* * *
53273043 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCATCG
1 GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCG
* * *
53273084 GCATTTAGCTTGCTAGGCTTATAA-CCTGATTTAGATCACCG
1 GCACTTAGCCTGCTAGGCTTA-AAGCCTGATTCAGATCACCG
* *
53273125 GTACTTAGCCTACTAGG
1 GCACTTAGCCTGCTAGG
53273142 TTTTAAAACC
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
41 119 0.99
42 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.31
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCG
Found at i:53275617 original size:41 final size:41
Alignment explanation
Indices: 53275528--53275617 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
53275518 AGGCTTATTT
* * ** *
53275528 CCAGTGAATCAATTTAGACTCTATGTCTAGCAGGCTGGATG
1 CCAGTGAAACAATTCAGACTCTATGTCTAGCAGGCAAGATA
* * *
53275569 CCGGTGAAACAATTCAGACTTTATGTCTATCAGGCAA-AGTA
1 CCAGTGAAACAATTCAGACTCTATGTCTAGCAGGCAAGA-TA
53275610 CCAGTGAA
1 CCAGTGAA
53275618 TCTATTTATA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
CCAGTGAAACAATTCAGACTCTATGTCTAGCAGGCAAGATA
Found at i:53281179 original size:7 final size:7
Alignment explanation
Indices: 53281167--53281195 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
53281157 CTTTTAAAGA
53281167 TCAAGCT
1 TCAAGCT
53281174 TCAAGCT
1 TCAAGCT
53281181 TCAAGCT
1 TCAAGCT
53281188 TCAAGCT
1 TCAAGCT
53281195 T
1 T
53281196 GAGGATCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (7 bp):
TCAAGCT
Found at i:53284483 original size:21 final size:21
Alignment explanation
Indices: 53284459--53284505 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
53284449 GGCGGAGATT
*
53284459 TTAGATATTGTAGCGGTGAGA
1 TTAGATATTGTAGCAGTGAGA
*
53284480 TTAGATATTGTAGCAGTGATA
1 TTAGATATTGTAGCAGTGAGA
53284501 TTAGA
1 TTAGA
53284506 AACAATGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (21 bp):
TTAGATATTGTAGCAGTGAGA
Found at i:53288179 original size:17 final size:18
Alignment explanation
Indices: 53288152--53288187 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
53288142 GTTAGTACTC
*
53288152 AATATTTAATTAAATAAA
1 AATATTTAATTAAAGAAA
53288170 AATA-TTAATTAAAGAAA
1 AATATTTAATTAAAGAAA
53288187 A
1 A
53288188 TTTATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AATATTTAATTAAAGAAA
Found at i:53289726 original size:21 final size:21
Alignment explanation
Indices: 53289700--53289742 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
53289690 ATGATCTAAA
* *
53289700 TCTCAAATGTTGTTCTAGGTG
1 TCTCAAATGTTATTATAGGTG
53289721 TCTCAAATGTTATTATAGGTG
1 TCTCAAATGTTATTATAGGTG
53289742 T
1 T
53289743 ATAACATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (21 bp):
TCTCAAATGTTATTATAGGTG
Found at i:53291906 original size:11 final size:11
Alignment explanation
Indices: 53291890--53291929 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
53291880 TTTAATCAAA
53291890 TATATATATTT
1 TATATATATTT
53291901 TATATATATTAAT
1 TATATATATT--T
53291914 TATATATATTT
1 TATATATATTT
*
53291925 AATAT
1 TATAT
53291930 GGGCCGGGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 15 0.58
13 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATATATATTT
Found at i:53291907 original size:13 final size:13
Alignment explanation
Indices: 53291890--53291923 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
53291880 TTTAATCAAA
53291890 TATATATATT--T
1 TATATATATTAAT
53291901 TATATATATTAAT
1 TATATATATTAAT
53291914 TATATATATT
1 TATATATATT
53291924 TAATATGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATATATATTAAT
Found at i:53293271 original size:8 final size:9
Alignment explanation
Indices: 53293256--53293377 Score: 55
Period size: 9 Copynumber: 11.9 Consensus size: 9
53293246 TTTATATATC
53293256 ATTATATTAA
1 ATTAT-TTAA
53293266 ATTATTTAA
1 ATTATTTAA
*
53293275 ATAATTTATGTA
1 ATTATTTA---A
53293287 TCATTATGTTAA
1 --ATTAT-TTAA
53293299 ATTATTTAA
1 ATTATTTAA
*
53293308 ATATAATTTATT
1 AT-T-ATTTA-A
53293320 ATTATATTAA
1 ATTAT-TTAA
53293330 ATTATTTAA
1 ATTATTTAA
*
53293339 ATCTTATTTATT
1 A--TTATTTA-A
*
53293351 ATTATATTTA
1 ATTAT-TTAA
*
53293361 ATTTTTTAA
1 ATTATTTAA
*
53293370 AATATTTA
1 ATTATTTA
53293378 TATATCATCC
Statistics
Matches: 87, Mismatches: 11, Indels: 29
0.69 0.09 0.23
Matches are distributed among these distances:
9 31 0.36
10 26 0.30
11 18 0.21
12 5 0.06
14 4 0.05
15 3 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (9 bp):
ATTATTTAA
Found at i:53293283 original size:33 final size:34
Alignment explanation
Indices: 53293241--53293385 Score: 155
Period size: 31 Copynumber: 4.5 Consensus size: 34
53293231 TAGATTAATT
53293241 TATATTTTATATATCATTATATTAAATTATTTAAA
1 TATA-TTTATATATCATTATATTAAATTATTTAAA
* *
53293276 TA-ATTTATGTATCATTATGTTAAATTATTTAAA
1 TATATTTATATATCATTATATTAAATTATTTAAA
*
53293309 TATAATT-TAT-T-ATTATATTAAATTATTTAAA
1 TATATTTATATATCATTATATTAAATTATTTAAA
* * *
53293340 TCT-TATT-TAT-T-ATTATATTTAATTTTTTAAA
1 TATAT-TTATATATCATTATATTAAATTATTTAAA
53293371 -ATATTTATATATCAT
1 TATATTTATATATCAT
53293386 CCATTTTACA
Statistics
Matches: 94, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.03
31 49 0.52
32 2 0.02
33 34 0.36
34 4 0.04
35 2 0.02
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (34 bp):
TATATTTATATATCATTATATTAAATTATTTAAA
Found at i:53317796 original size:231 final size:231
Alignment explanation
Indices: 53317364--53317806 Score: 542
Period size: 231 Copynumber: 1.9 Consensus size: 231
53317354 AGCCTTCACA
* * * * * *
53317364 TCTTTCAACTCAAATTGTTCTTCTTTCAACTCATACTCGCTCAAGCACTTCTCCAAATATTTCTC
1 TCTTTCAACCCAAATTGTTCTTCTCTCAACACAAAATCACTCAAGCACTTCTCCAAATATTTCTC
* * *
53317429 TTTCACCCCAACTTCCTCCAACTTATCTTTTACTGATTTCTCCATCAACTTAAACTCTTCACATT
66 TTTCAACCCAACTTCCTCCAACTTATCATTTACTCATTTCTCCATCAACTTAAACTCTTCACATT
* * * *
53317494 GCCGCTCACATTGTTTTACACTAACTTCAAGATCTCTGCGACGTTCTTCCAAAGCCTTTTCTTCC
131 GCCGCTCACATTGTTCTACACTAAATTCAAGATCTCTACGACGTGCTTCCAAAGCCTTTTCTTCC
*
53317559 AACTCAAACTCCATACACCGCTTCTCAAAACTCTTC
196 AACTCAAAATCCATACACCGCTTCTCAAAACTCTTC
*
53317595 TCTTTCAACCCAAATTGTTGTTCTCTCAACACAAAATCACTCAAGCGA-TTCTCCAAATCA-TTC
1 TCTTTCAACCCAAATTGTTCTTCTCTCAACACAAAATCACTCAAGC-ACTTCTCCAAAT-ATTTC
* *
53317658 TCGTTT-AACCCAA-TTTCTCCCAACTTATCATTTAC-CACTTTCTCCATCAACTTAAACTCTTT
64 TC-TTTCAACCCAACTTCCT-CCAACTTATCATTTACTCA-TTTCTCCATCAACTTAAACTCTTC
* ** * *
53317720 ACATTGCTGCTCACATTGTTCTACACTAAATTGGAGATCTTTACGAC-TGCGTT-CAAGATCCTT
126 ACATTGCCGCTCACATTGTTCTACACTAAATTCAAGATCTCTACGACGTGC-TTCCAA-AGCCTT
* *
53317783 CTTC-TCTAACTCAAAATCCCTACA
189 -TTCTTCCAACTCAAAATCCATACA
53317807 ACACTTGTCA
Statistics
Matches: 180, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
230 10 0.06
231 162 0.90
232 8 0.04
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.36
Consensus pattern (231 bp):
TCTTTCAACCCAAATTGTTCTTCTCTCAACACAAAATCACTCAAGCACTTCTCCAAATATTTCTC
TTTCAACCCAACTTCCTCCAACTTATCATTTACTCATTTCTCCATCAACTTAAACTCTTCACATT
GCCGCTCACATTGTTCTACACTAAATTCAAGATCTCTACGACGTGCTTCCAAAGCCTTTTCTTCC
AACTCAAAATCCATACACCGCTTCTCAAAACTCTTC
Found at i:53318328 original size:7 final size:7
Alignment explanation
Indices: 53318316--53318352 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
53318306 AAAAGGAAAG
53318316 AAAATTA
1 AAAATTA
53318323 AAAATTA
1 AAAATTA
53318330 AAAATTA
1 AAAATTA
53318337 AAAATTA
1 AAAATTA
53318344 AAAATTA
1 AAAATTA
53318351 AA
1 AA
53318353 TTTTTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:53318408 original size:18 final size:19
Alignment explanation
Indices: 53318385--53318420 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
53318375 TGCCTTTAAG
*
53318385 GGAGACGGAGATG-GAGAC
1 GGAGACAGAGATGAGAGAC
53318403 GGAGACAGAGATGAGAGA
1 GGAGACAGAGATGAGAGA
53318421 GAAATTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.08, G:0.47, T:0.06
Consensus pattern (19 bp):
GGAGACAGAGATGAGAGAC
Found at i:53319791 original size:16 final size:17
Alignment explanation
Indices: 53319770--53319802 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
53319760 AAGTGGATAT
53319770 TCAACCTTT-ATCTTTC
1 TCAACCTTTCATCTTTC
53319786 TCAACCTTTCATCTTTC
1 TCAACCTTTCATCTTTC
53319803 ATGTTCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.33, G:0.00, T:0.48
Consensus pattern (17 bp):
TCAACCTTTCATCTTTC
Found at i:53319904 original size:16 final size:16
Alignment explanation
Indices: 53319883--53319913 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
53319873 TCTAATCTCC
53319883 CTATATATATATATAG
1 CTATATATATATATAG
53319899 CTATATATATATATA
1 CTATATATATATATA
53319914 AGAATATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
CTATATATATATATAG
Found at i:53319920 original size:16 final size:18
Alignment explanation
Indices: 53319884--53319921 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
53319874 CTAATCTCCC
*
53319884 TATATATATATATAGCTA
1 TATATATATATATAGCAA
53319902 TATATATATATA-AG-AA
1 TATATATATATATAGCAA
53319918 TATA
1 TATA
53319922 CTACTTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 2 0.11
18 12 0.63
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
TATATATATATATAGCAA
Found at i:53321552 original size:24 final size:24
Alignment explanation
Indices: 53321525--53321576 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
53321515 ATGTCTGCAT
53321525 GTCTAAAAC-TTAAAAATTTGCAAA
1 GTCTAAAACATT-AAAATTTGCAAA
* *
53321549 GTCTTAAACATTAAATTTTGCAAA
1 GTCTAAAACATTAAAATTTGCAAA
53321573 GTCT
1 GTCT
53321577 TATAATAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (24 bp):
GTCTAAAACATTAAAATTTGCAAA
Found at i:53330250 original size:40 final size:40
Alignment explanation
Indices: 53330220--53330429 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
53330210 GGACTAAGAT
* * * *
53330220 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
53330260 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
53330300 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
53330340 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
53330380 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
53330419 CCGAAGGCATT
1 CCGAAGGCATT
53330430 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:53330304 original size:80 final size:80
Alignment explanation
Indices: 53330167--53330429 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
53330157 TTGAATGCTG
* * * * * **
53330167 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
53330230 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
53330247 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
53330312 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
53330327 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
53330391 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
53330406 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53330430 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:53330381 original size:120 final size:120
Alignment explanation
Indices: 53330167--53330429 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
53330157 TTGAATGCTG
* * *
53330167 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
53330231 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * **
53330287 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
53330350 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
53330406 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53330430 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 35 0.29
120 81 0.66
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:53330449 original size:79 final size:80
Alignment explanation
Indices: 53330220--53330464 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
53330210 GGACTAAGAT
* * * * * ** * *
53330220 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
53330284 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
53330300 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
53330365 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
53330380 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
53330444 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
53330458 CCGAAGG
1 CCGAAGG
53330465 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:53338196 original size:40 final size:40
Alignment explanation
Indices: 53338166--53338375 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
53338156 GGACTAAGAT
* * * *
53338166 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
53338206 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
53338246 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
53338286 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
53338326 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
53338365 CCGAAGGCATT
1 CCGAAGGCATT
53338376 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:53338250 original size:80 final size:80
Alignment explanation
Indices: 53338113--53338375 Score: 307
Period size: 80 Copynumber: 3.3 Consensus size: 80
53338103 TTGAATGCTG
* * * * * **
53338113 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
53338176 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
53338193 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
53338258 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * * *
53338273 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
53338337 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
53338352 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53338376 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 35 0.22
80 116 0.74
81 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:53338395 original size:79 final size:80
Alignment explanation
Indices: 53338166--53338410 Score: 244
Period size: 80 Copynumber: 3.1 Consensus size: 80
53338156 GGACTAAGAT
* * * * * ** * *
53338166 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
53338230 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
** * * ** ** *
53338246 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
53338311 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
53338326 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
53338390 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
53338404 CCGAAGG
1 CCGAAGG
53338411 TACGTGATTT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.10
79 46 0.32
80 82 0.58
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:53343993 original size:30 final size:30
Alignment explanation
Indices: 53343957--53344016 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
53343947 TTCCCGAGCC
*
53343957 TAGGGGCAAAAGTATAATTATGCAAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
* * *
53343987 TAGGGGCAAAAATTTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
53344017 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTATGCAAAAGTT
Found at i:53363811 original size:16 final size:17
Alignment explanation
Indices: 53363790--53363828 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
53363780 ACTGTAACAC
*
53363790 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCAAAAT
53363806 CCCAAAAATCCCAAAAT
1 CCCAAAAATCCCAAAAT
53363823 CCCAAA
1 CCCAAA
53363829 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.51, C:0.38, G:0.03, T:0.08
Consensus pattern (17 bp):
CCCAAAAATCCCAAAAT
Found at i:53365128 original size:16 final size:15
Alignment explanation
Indices: 53365106--53365150 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
53365096 GCCGAAATGC
53365106 CGAAATGCCAAAAAT
1 CGAAATGCCAAAAAT
*
53365121 CTGAAATGCCGAAAAGT
1 C-GAAATGCC-AAAAAT
*
53365138 CGAAAAGCCAAAA
1 CGAAATGCCAAAA
53365151 GTTTGGCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 15 0.58
17 6 0.23
ACGTcount: A:0.51, C:0.20, G:0.18, T:0.11
Consensus pattern (15 bp):
CGAAATGCCAAAAAT
Found at i:53367872 original size:29 final size:28
Alignment explanation
Indices: 53367829--53367938 Score: 112
Period size: 29 Copynumber: 3.9 Consensus size: 28
53367819 CATGATTATG
* * *
53367829 AATGTGACTGGGCCTAACGGGCCAAATA
1 AATGTGATTGGGCCTAATGGGCCATATA
*
53367857 AATGTGATTTGGGCCTAATGGGTCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * *
53367886 CAGGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * *
53367915 AATATGATTGGGCTTAATAGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
53367939 GACACATGTA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 22 0.32
29 46 0.68
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:53381031 original size:22 final size:19
Alignment explanation
Indices: 53381005--53381046 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
53380995 AACTAATAAC
53381005 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
53381027 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
53381046 T
1 T
53381047 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:53381037 original size:16 final size:15
Alignment explanation
Indices: 53381005--53381043 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
53380995 AACTAATAAC
53381005 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
53381021 TTATTATAATATATAT
1 TAATTATAAT-TATAT
53381037 TAATTAT
1 TAATTAT
53381044 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:53381763 original size:25 final size:25
Alignment explanation
Indices: 53381736--53381784 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
53381726 TTGTTCTCCT
* *
53381736 AAATTTCAATTTTATTTAATTATTTA
1 AAATTTCAA-ATTATTGAATTATTTA
53381762 AAATTTCAAATTATTGAATTATT
1 AAATTTCAAATTATTGAATTATT
53381785 AATATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (25 bp):
AAATTTCAAATTATTGAATTATTTA
Found at i:53382705 original size:14 final size:14
Alignment explanation
Indices: 53382686--53382713 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53382676 TGAGGATCCC
53382686 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAGA
53382700 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAGA
53382714 TCCTACAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAGAAGA
Found at i:53387389 original size:20 final size:18
Alignment explanation
Indices: 53387356--53387392 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
53387346 TGTGATGTTG
53387356 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
53387374 ATATGTCTTGAATTTAATT
1 ATATGT-TT-AATTTAATT
53387393 CGTGTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:53388434 original size:20 final size:21
Alignment explanation
Indices: 53388405--53388477 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 21
53388395 TTTAAGGTTA
*
53388405 AATTGTAA-TTAAGTTTATTT
1 AATTGGAACTTAAGTTTATTT
* *
53388425 AATTGGAATTTAA-TATAATTT
1 AATTGGAACTTAAGT-TTATTT
* *
53388446 -GTTGTAA-TTAAGTTTATTT
1 AATTGGAACTTAAGTTTATTT
53388465 AATTGGAACTTAA
1 AATTGGAACTTAA
53388478 TATAATTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.22
20 19 0.46
21 13 0.32
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.49
Consensus pattern (21 bp):
AATTGGAACTTAAGTTTATTT
Found at i:53388451 original size:40 final size:40
Alignment explanation
Indices: 53388407--53388484 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
53388397 TAAGGTTAAA
*
53388407 TTGTAATTAAGTTTATTTAATTGGAATTTAATATAATTTG
1 TTGTAATTAAGTTTATTTAATTGGAACTTAATATAATTTG
53388447 TTGTAATTAAGTTTATTTAATTGGAACTTAATATAATT
1 TTGTAATTAAGTTTATTTAATTGGAACTTAATATAATT
53388485 GAAAGACCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.51
Consensus pattern (40 bp):
TTGTAATTAAGTTTATTTAATTGGAACTTAATATAATTTG
Found at i:53404020 original size:34 final size:35
Alignment explanation
Indices: 53403981--53404052 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 35
53403971 ACAACCAAAC
53403981 TTCGATTAT-ATATATTAATTCCAACCATATAAAA
1 TTCGATTATAATATATTAATTCCAACCATATAAAA
53404015 TTCGATTATAGCATATATTAATTCCAACCATATAAAA
1 TTCGATTATA--ATATATTAATTCCAACCATATAAAA
53404052 T
1 T
53404053 GAAATTCACT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 9 0.26
37 26 0.74
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (35 bp):
TTCGATTATAATATATTAATTCCAACCATATAAAA
Found at i:53405137 original size:27 final size:27
Alignment explanation
Indices: 53405080--53405180 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
53405070 TGGATAAGTT
* *
53405080 GTAGAATTACCGAAATACCCCTATA-A
1 GTAGAATTACTGAAATACCCCTGTAGA
* *
53405106 GGTAGAAGTA-TCGAAATACCCTTGTAGA
1 -GTAGAATTACT-GAAATACCCCTGTAGA
* * *
53405134 GTAGAAATACTAAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGA
*
53405161 GTAGAATTACTGAGATACCC
1 GTAGAATTACTGAAATACCC
53405181 TTGTGGGGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 58 0.97
28 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGA
Found at i:53405189 original size:27 final size:27
Alignment explanation
Indices: 53405119--53405197 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
53405109 AGAAGTATCG
* *
53405119 AAATACCCTTGTAGAGTAGAAATACTA
1 AAATACCCTTGTAGGGTAGAATTACTA
* *
53405146 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACTA
* * *
53405173 AGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCTTGTAGGGTAGAATTAC
53405198 CATTTTGCCC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACTA
Found at i:53405894 original size:27 final size:26
Alignment explanation
Indices: 53405850--53405901 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53405840 CTCACTGCAA
*
53405850 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
53405877 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
53405902 GCATTCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:53416186 original size:44 final size:44
Alignment explanation
Indices: 53416121--53416206 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
53416111 TTGATATCTC
* *
53416121 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
* * *
53416165 AAAGTCCATGTTTATAACATGGCATTTAAGGAGGAATTGACG
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACG
53416207 ATTAAGGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:53416336 original size:47 final size:48
Alignment explanation
Indices: 53416210--53416416 Score: 135
Period size: 47 Copynumber: 4.4 Consensus size: 48
53416200 ATTGACGATT
** * *
53416210 AAGGATACCATGTAAGACCATGTCAAGACATGGAAAT-GG---TAAGGC
1 AAGGATACCATGTAAGACCACATCAAGACATGG-CATCGGCACTAAGAC
* * * ** * **
53416255 AAAGATCCCATGTAAAACCATGTCAAGACATGGCATCGGCATTAA-TT
1 AAGGATACCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGAC
** *
53416302 AAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGAC
1 AAGGA-TACCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGAC
* *** *
53416350 AAGGATACCATGTAAGACCACGTTTGGAACATGGCATTTGG---TAAGAC
1 AAGGATACCATGTAAGACCACATCAAG-ACATGGCA-TCGGCACTAAGAC
53416397 AAGGATACCATGTAAGACCA
1 AAGGATACCATGTAAGACCA
53416417 TGTTTGGAAC
Statistics
Matches: 131, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 2 0.02
45 32 0.24
47 62 0.47
48 25 0.19
49 6 0.05
50 4 0.03
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (48 bp):
AAGGATACCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGAC
Found at i:53416422 original size:47 final size:47
Alignment explanation
Indices: 53416344--53416460 Score: 180
Period size: 47 Copynumber: 2.5 Consensus size: 47
53416334 GCATTGGCAC
*
53416344 TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGACATTTGG
*
53416391 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGACATTTGG
* * **
53416438 TAAGATAAAGATATTATGTAAGA
1 TAAGACAAGGATACCATGTAAGA
53416461 ACATCCCAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGACATTTGG
Found at i:53416568 original size:55 final size:54
Alignment explanation
Indices: 53416472--53416640 Score: 227
Period size: 55 Copynumber: 3.1 Consensus size: 54
53416462 CATCCCAATG
* * *
53416472 CATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGA
1 CATGGCATTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
* * *
53416526 CATGGCATTGATGAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGG
1 CATGGCATTGATGAGTT-CTATAAGGC-AAGGATACCATGTAAGACCATGTCAAGA
*
53416581 CATGGCATTTG-TGAGTTC-ATAAGGCAAGGATACCACGTAAGACCATGTCAAGA
1 CATGGCA-TTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
53416634 CATGGCA
1 CATGGCA
53416641 ATGGTAAGTT
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
52 4 0.04
53 33 0.33
54 17 0.17
55 40 0.40
56 7 0.07
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
CATGGCATTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
Found at i:53416626 original size:53 final size:54
Alignment explanation
Indices: 53416453--53416640 Score: 222
Period size: 55 Copynumber: 3.5 Consensus size: 54
53416443 TAAAGATATT
* * * * *
53416453 ATGTAAGAACATCCCAATG-CATGGCATTGATAAGTTCTATAAGGCAAGGAAATC
1 ATGTAAGACCATGCCAA-GACATGGCATTGATGAGTTCTATAAGGCAAGGATACC
* *
53416507 ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCCC
1 ATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGATACC
*
53416562 ATGTAAGACCATGCCAAGGCATGGCATTTG-TGAGTTC-ATAAGGCAAGGATACC
1 ATGTAAGACCATGCCAAGACATGGCA-TTGATGAGTTCTATAAGGCAAGGATACC
* *
53416615 ACGTAAGACCATGTCAAGACATGGCA
1 ATGTAAGACCATGCCAAGACATGGCA
53416641 ATGGTAAGTT
Statistics
Matches: 116, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
52 4 0.03
53 34 0.29
54 31 0.27
55 40 0.34
56 7 0.06
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (54 bp):
ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATACC
Found at i:53424339 original size:15 final size:15
Alignment explanation
Indices: 53424319--53424349 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
53424309 AAAAATAAGC
53424319 TTCACACTCTTTTCT
1 TTCACACTCTTTTCT
53424334 TTCACACTCTTTTCT
1 TTCACACTCTTTTCT
53424349 T
1 T
53424350 ACATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.32, G:0.00, T:0.55
Consensus pattern (15 bp):
TTCACACTCTTTTCT
Found at i:53430049 original size:32 final size:32
Alignment explanation
Indices: 53430008--53430071 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
53429998 AAAGTTTATA
53430008 GGGTTAAGGAAACTTACTAGTTCCCAATATTT
1 GGGTTAAGGAAACTTACTAGTTCCCAATATTT
53430040 GGGTTAAGGAAACTTACTAGTTCCCAATATTT
1 GGGTTAAGGAAACTTACTAGTTCCCAATATTT
53430072 CTACTTCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (32 bp):
GGGTTAAGGAAACTTACTAGTTCCCAATATTT
Found at i:53432997 original size:40 final size:40
Alignment explanation
Indices: 53432914--53433099 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
53432904 TTGAATGATG
* * * *
53432914 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
53432954 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53432994 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53433034 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53433075 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53433100 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53433106 original size:80 final size:79
Alignment explanation
Indices: 53432967--53433132 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
53432957 GGACTAAGAT
* **
53432967 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
53433031 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
53433047 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
53433111 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
53433126 CCGAAGG
1 CCGAAGG
53433133 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:53436966 original size:14 final size:14
Alignment explanation
Indices: 53436947--53436990 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
53436937 CATAACTTAT
53436947 ATTATATACATATA
1 ATTATATACATATA
* *
53436961 ATTATATACATTTT
1 ATTATATACATATA
53436975 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
53436991 TATATATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:53442273 original size:27 final size:26
Alignment explanation
Indices: 53442225--53442284 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
53442215 GCGAGGCTGC
*
53442225 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
53442252 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
53442278 CATATAT
1 CAGATAT
53442285 ATATATATGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53445943 original size:19 final size:20
Alignment explanation
Indices: 53445906--53445943 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53445896 ATAAGGTGGT
53445906 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
53445926 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
53445944 TGGTGATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:53452714 original size:46 final size:46
Alignment explanation
Indices: 53452661--53452869 Score: 266
Period size: 46 Copynumber: 4.5 Consensus size: 46
53452651 TGAGCATCCA
53452661 AACTCGTTGAGTTGAGTCCGAGTTTACCTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTTACCTATGGATGCGAATGTCCG
53452707 AACTCGTTGAGTTGAGTCCGAGTTTACCTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTTACCTATGGATGCGAATGTCCG
* *
53452753 AACTCGTTGAGTTGAGTCCGAG-TT--C-GTGAGATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTTACCTATG-GATGCGAA-T--G--TCCG
* * * *
53452800 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTTACCTATGGATGCGAATGTCCG
*
53452846 AGCTCGTTGAGTTGAGTCCGAGTT
1 AACTCGTTGAGTTGAGTCCGAGTT
53452870 CACTTAGGGG
Statistics
Matches: 143, Mismatches: 9, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
42 4 0.03
43 6 0.04
45 3 0.02
46 94 0.66
47 26 0.18
48 2 0.01
50 4 0.03
51 4 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTTACCTATGGATGCGAATGTCCG
Found at i:53453136 original size:19 final size:20
Alignment explanation
Indices: 53453099--53453136 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53453089 ATAAGGTGGT
53453099 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
53453119 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
53453137 TGGTGATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:53458355 original size:40 final size:40
Alignment explanation
Indices: 53458277--53458420 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
53458267 ACCCAAGTAT
*
53458277 CTTCGGGATTTAG-CCGGATATAGCAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACT-AGCACAAATGC
**
53458316 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
53458356 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
53458399 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
53458421 CATCCGAATA
Statistics
Matches: 91, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
39 14 0.15
40 47 0.52
41 1 0.01
43 29 0.32
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Done.