Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 62 of 290
Found at i:19013643 original size:24 final size:24
Alignment explanation
Indices: 19013597--19013644 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19013587 ATTCTTAAGG
* * * *
19013597 ATAAGAATAGATAAGTAAGAGAAA
1 ATAAGAAAAGAAAAGAAAAAGAAA
19013621 ATAAGAAAAGAAAAGAAAAAGAAA
1 ATAAGAAAAGAAAAGAAAAAGAAA
19013645 GAGAAAGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (24 bp):
ATAAGAAAAGAAAAGAAAAAGAAA
Found at i:19013644 original size:16 final size:17
Alignment explanation
Indices: 19013623--19013660 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
19013613 AAGAGAAAAT
19013623 AAGAAAAGA-AAAGAAA
1 AAGAAAAGAGAAAGAAA
19013639 AAG-AAAGAGAAAGAAA
1 AAGAAAAGAGAAAGAAA
19013655 AA-AAAA
1 AAGAAAA
19013661 TTAAAGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAGAAAGAAA
Found at i:19013800 original size:21 final size:19
Alignment explanation
Indices: 19013769--19013821 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 19
19013759 TCAATTTTTT
19013769 AAAAAATTAAAAGGAATAAAAG
1 AAAAAA-TAAAAGG-A-AAAAG
*
19013791 AAAAAATAAATGG-AAAAG
1 AAAAAATAAAAGGAAAAAG
19013809 AAAAAA-AAAAGGA
1 AAAAAATAAAAGGA
19013822 GAGCCTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 5 0.18
18 11 0.39
21 6 0.21
22 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.09
Consensus pattern (19 bp):
AAAAAATAAAAGGAAAAAG
Found at i:19013816 original size:22 final size:21
Alignment explanation
Indices: 19013769--19013818 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
19013759 TCAATTTTTT
* *
19013769 AAAAAATTAAAAGGAATAAAA
1 AAAAAAATAAAAGGAAAAAAA
* *
19013790 GAAAAAATAAATGGAAAAGAAA
1 AAAAAAATAAAAGGAAAA-AAA
19013812 AAAAAAA
1 AAAAAAA
19013819 GGAGAGCCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAAAATAAAAGGAAAAAAA
Found at i:19018424 original size:26 final size:26
Alignment explanation
Indices: 19018393--19018445 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
19018383 ACAGCTCTTA
19018393 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAAAGGCTCTTTG
*
19018419 TGAGCTTCTCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAAAGGCTCTTTG
19018445 T
1 T
19018446 AAGATTCTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
TGAGCTTCCCGATTAAAGGCTCTTTG
Found at i:19018453 original size:26 final size:26
Alignment explanation
Indices: 19018402--19018457 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
19018392 ATGAGCTTCC
* *
19018402 CGATTAAAGGCTCTTTGTGAGCTTCT
1 CGATTAAAGGCTCTTTGTAAGATTCT
19018428 CGATTAAAGGCTCTTTGTAAGATTCT
1 CGATTAAAGGCTCTTTGTAAGATTCT
19018454 CGAT
1 CGAT
19018458 ATGGCTCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (26 bp):
CGATTAAAGGCTCTTTGTAAGATTCT
Found at i:19021480 original size:22 final size:22
Alignment explanation
Indices: 19021452--19021495 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19021442 TTATTGATTC
19021452 AGCTCAAAAAAGCTTACTGTTT
1 AGCTCAAAAAAGCTTACTGTTT
* *
19021474 AGCTCAATAGAGCTTACTGTTT
1 AGCTCAAAAAAGCTTACTGTTT
19021496 TCAGCTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (22 bp):
AGCTCAAAAAAGCTTACTGTTT
Found at i:19021506 original size:24 final size:24
Alignment explanation
Indices: 19021449--19021528 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
19021439 GAGTTATTGA
* *
19021449 TTCAGCTCAAAAAAGCTTACTG-T
1 TTCAGCTCAATAGAGCTTACTGTT
19021472 TT-AGCTCAATAGAGCTTACTGTT
1 TTCAGCTCAATAGAGCTTACTGTT
* *
19021495 TTCAGCTTAATAGAGCTTACTATT
1 TTCAGCTCAATAGAGCTTACTGTT
19021519 TATCAGCTCA
1 T-TCAGCTCA
19021529 GGAGGAGCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 17 0.35
23 5 0.10
24 20 0.41
25 7 0.14
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (24 bp):
TTCAGCTCAATAGAGCTTACTGTT
Found at i:19022313 original size:10 final size:10
Alignment explanation
Indices: 19022300--19022328 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
19022290 ATGGTCAATT
19022300 ATGCTTGTAA
1 ATGCTTGTAA
19022310 ATGCTTGTAA
1 ATGCTTGTAA
19022320 ATGCTTGTA
1 ATGCTTGTA
19022329 TTTTTAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (10 bp):
ATGCTTGTAA
Found at i:19029157 original size:33 final size:33
Alignment explanation
Indices: 19029120--19029187 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
19029110 TGTTTTGTTA
19029120 TTAAAAAATGGTCTTAATATGCTTAATGTGTGT
1 TTAAAAAATGGTCTTAATATGCTTAATGTGTGT
19029153 TTAAAAAATGGTCTTAATATGCTTAATGTGTGT
1 TTAAAAAATGGTCTTAATATGCTTAATGTGTGT
19029186 TT
1 TT
19029188 GAAATGGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (33 bp):
TTAAAAAATGGTCTTAATATGCTTAATGTGTGT
Found at i:19033630 original size:25 final size:27
Alignment explanation
Indices: 19033593--19033646 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
19033583 TCAAACATGC
19033593 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* *
19033619 ATTTCGGT-AATTTTACACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
19033645 AT
1 AT
19033647 AACAGTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:19033654 original size:26 final size:26
Alignment explanation
Indices: 19033602--19033685 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 26
19033592 CATTTAGGTC
* * *
19033602 AATTTAAC-CCTAGGGGTATTTCGGT
1 AATTTTACACCTAGGGGTATTACAGT
*
19033627 AATTTTACACCTAGGGGTATAACAGT
1 AATTTTACACCTAGGGGTATTACAGT
* * *
19033653 AATTTTCCATACATAGGGGTATTATAGT
1 AATTTT--ACACCTAGGGGTATTACAGT
19033681 AATTT
1 AATTT
19033686 AGCTACTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 7 0.15
26 20 0.42
28 21 0.44
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (26 bp):
AATTTTACACCTAGGGGTATTACAGT
Found at i:19035164 original size:26 final size:26
Alignment explanation
Indices: 19035133--19035240 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
19035123 TGAAATGCCC
*
19035133 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
19035159 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
19035185 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
19035211 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19035237 ATCA
1 ATCA
19035241 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19040768 original size:32 final size:32
Alignment explanation
Indices: 19040730--19040889 Score: 221
Period size: 32 Copynumber: 5.0 Consensus size: 32
19040720 TATAACTATG
*
19040730 CTACTTTTTTATATGTAAAACTAATATATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* **
19040762 CTACTTTTTCATATACAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
19040794 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* * *
19040826 ATACTTTTTTATATGCAAAACTAATGTATAAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
19040858 CTACTTTTTTATAGGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
19040890 ATTTTTTATG
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 109 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:19040831 original size:64 final size:64
Alignment explanation
Indices: 19040730--19040891 Score: 252
Period size: 64 Copynumber: 2.5 Consensus size: 64
19040720 TATAACTATG
* * * *
19040730 CTACTTTTTTATATGTAAAACTAATATATGATCTACTTTTTCATATACAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATATACTTTTTCATATACAAAACTAATGTATAAT
* * *
19040794 CTACTTTTTTATATGTGAACCTAATGTATGATATACTTTTTTATATGCAAAACTAATGTATAAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATATACTTTTTCATATACAAAACTAATGTATAAT
*
19040858 CTACTTTTTTATAGGTAAACCTAATGTATGATAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATAT
19040892 TTTTTATGTT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 89 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATATACTTTTTCATATACAAAACTAATGTATAAT
Found at i:19042916 original size:21 final size:21
Alignment explanation
Indices: 19042890--19042941 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
19042880 CGCTGTTTCT
*
19042890 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
19042911 AATCTCACCACTACAGTAACC
1 AATCTCACCGCTACAGTAACC
19042932 AATCTCACCG
1 AATCTCACCG
19042942 TCACTGCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.38, G:0.08, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:19050737 original size:34 final size:34
Alignment explanation
Indices: 19050694--19050763 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
19050684 AGGCAAAGAT
19050694 AATTTTACTATAATGGCAAAAGAACGAATAGTAC
1 AATTTTACTATAATGGCAAAAGAACGAATAGTAC
*
19050728 AATTTTACTATAATGGCAAAAGAATGAATAGTAC
1 AATTTTACTATAATGGCAAAAGAACGAATAGTAC
19050762 AA
1 AA
19050764 AAGATGGAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (34 bp):
AATTTTACTATAATGGCAAAAGAACGAATAGTAC
Found at i:19052137 original size:25 final size:25
Alignment explanation
Indices: 19052105--19052153 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
19052095 AATTTACCAT
19052105 TCCTTAATGTATTTGGGCAAGTTAC
1 TCCTTAATGTATTTGGGCAAGTTAC
19052130 TCCTTAATGTATTTGGGCAAGTTA
1 TCCTTAATGTATTTGGGCAAGTTA
19052154 TACCTCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (25 bp):
TCCTTAATGTATTTGGGCAAGTTAC
Found at i:19053433 original size:14 final size:14
Alignment explanation
Indices: 19053414--19053453 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
19053404 TTGATTGGCA
19053414 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
19053428 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
19053442 GGAAAATGTTTT
1 GTAAAATGTTTT
19053454 ACATTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:19053475 original size:20 final size:20
Alignment explanation
Indices: 19053436--19053475 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19053426 CCGTAAAATG
**
19053436 ATTTCTGGAAAATGTTTTAC
1 ATTTCTGGAAAATGACTTAC
*
19053456 ATTTCTGTAAAATGACTTAC
1 ATTTCTGGAAAATGACTTAC
19053476 TGGAAAATGT
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:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
ATTTCTGGAAAATGACTTAC
Found at i:19053483 original size:35 final size:34
Alignment explanation
Indices: 19053423--19053488 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
19053413 AGTAAAATGT
*
19053423 TTTCCGTAAAATGATTTCTGGAAAATGTTTTACA
1 TTTCCGTAAAATGATTACTGGAAAATGTTTTACA
*
19053457 TTTCTGTAAAATGACTTACTGGAAAATGTTTT
1 TTTCCGTAAAATGA-TTACTGGAAAATGTTTT
19053489 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTCCGTAAAATGATTACTGGAAAATGTTTTACA
Found at i:19054679 original size:18 final size:18
Alignment explanation
Indices: 19054624--19054671 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
19054614 TAGGCTTCGA
19054624 AACGGGAAAGGGAAGGAG
1 AACGGGAAAGGGAAGGAG
19054642 AACGGGAAAGGGAAGGAG
1 AACGGGAAAGGGAAGGAG
*
19054660 AAGGGGAAAGGG
1 AACGGGAAAGGG
19054672 GAGAAGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.04, G:0.52, T:0.00
Consensus pattern (18 bp):
AACGGGAAAGGGAAGGAG
Found at i:19055129 original size:6 final size:6
Alignment explanation
Indices: 19055118--19055143 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19055108 CCGGCTAAAG
19055118 CCACAC CCACAC CCACAC CCACAC CC
1 CCACAC CCACAC CCACAC CCACAC CC
19055144 CATCTCCCAA
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:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (6 bp):
CCACAC
Found at i:19059388 original size:13 final size:13
Alignment explanation
Indices: 19059370--19059394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19059360 ATAGTAAAAC
19059370 TTTTAAAAAAATA
1 TTTTAAAAAAATA
19059383 TTTTAAAAAAAT
1 TTTTAAAAAAAT
19059395 GAGATATATG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTTAAAAAAATA
Found at i:19059509 original size:19 final size:20
Alignment explanation
Indices: 19059485--19059524 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
19059475 CTATTGGTGT
*
19059485 AAAATT-ATTTTTATATTTA
1 AAAATTAATTATTATATTTA
19059504 AAAATTAAATTATTATATTTA
1 AAAATT-AATTATTATATTTA
19059525 TATTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAATTAATTATTATATTTA
Found at i:19059537 original size:21 final size:22
Alignment explanation
Indices: 19059491--19059537 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
19059481 GTGTAAAATT
19059491 ATTT-TTATATTTAAAAATTAA
1 ATTTATTATATTTAAAAATTAA
* *
19059512 A-TTATTATATTT-ATATTTAA
1 ATTTATTATATTTAAAAATTAA
19059532 ATTTAT
1 ATTTAT
19059538 ACTATTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTATTATATTTAAAAATTAA
Found at i:19060332 original size:19 final size:20
Alignment explanation
Indices: 19060300--19060342 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
19060290 TATAATTAAT
*
19060300 AAAAAATTATTAAAAATT-TA
1 AAAAAATCATT-AAAATTCTA
19060320 AAAAAATCA-TAAAATTCTA
1 AAAAAATCATTAAAATTCTA
19060339 AAAA
1 AAAA
19060343 GTTGTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAATCATTAAAATTCTA
Found at i:19061892 original size:417 final size:415
Alignment explanation
Indices: 19061198--19062015 Score: 1006
Period size: 417 Copynumber: 2.0 Consensus size: 415
19061188 TGTGACGGGA
* * * * *
19061198 CTAGACTTTCAGTCTCGCAATCCATGTAGCCTTAGGCGATTTCTTTGACTCAAATATGCCTAGTC
1 CTAGAATTTCAGTCTCACAATCCATGCAGCCTTAGGCGATTCCTTCGACTCAAATATGCCTAGTC
* * * *
19061263 AATCTAACTCCCACAAAGTGAGGATTCTCGCAGAATTTCTCCAAAGCACCAATTTATATAGAAGA
66 AACCTAACTCCCACAAAGTAAGGATTCTCGCAGAATTCCTCCAAAGCACCAATCTATATAGAAGA
* *
19061328 AGCAACTCAAGCCAAAAGAATGTAAAAAAACAAAATAGCCATAGAAAAATAACGCATGAGAGGTG
131 AGCAACTCAAGCCAAAAGAATGTAAAAAAACAAAATAGCCATAGAAAAATAACGCACGAGAAGTG
* * *
19061393 TTTGAGTAAATGCTCTCAAAGAATAATACGACTCAAGGAATTCAGTATACAATGGGTGATTTACA
196 TTTAAGTAAATGCTCTCAAAAAATAATACGACTCAAGGAATTCAGTATACAATGGATGATTTACA
* ** * * *
19061458 ACTAAGGGGGAGGCTCTCTATTTCTAGTTGAGCTC-CCTCAAATCAAATAGTTTACCTAAATTTA
261 ACTAAGAGAAAGGCTCTCTATTTATAGTTGAGCTCTCCT-AAAGCAAATAGTCTACCTAAATTTA
* * * * *
19061522 CAT--TTGCAGATGAGATGAAGCCTATCCCTACAATT-AAGTGATTTAAAAGATTTACATAATCA
325 CATCGATG-A-ACGAGATGAAACCTATCCCTACAATTAAAGGGATTTAAAAGATTTACACAATCA
*
19061584 AATCAAATCTAATCTTACTATCATAGGG
388 AATCAAATCAAATCTTACTATCATAGGG
* * *
19061612 CTAGAATTTTAGTCTCACAATCCGTGCGGCCTTAGGCGATTCCTTCGACTCAAATATGCCTAAGT
1 CTAGAATTTCAGTCTCACAATCCATGCAGCCTTAGGCGATTCCTTCGACTCAAATATGCCT-AGT
* * * * * * *
19061677 CAGCCTAACTCCCCCAAAGTAAGGGTTCTTGTAGAATTCCTCCAAGGCACCGATCTATATAGTGA
65 CAACCTAACTCCCACAAAGTAAGGATTCTCGCAGAATTCCTCCAAAGCACCAATCTATATA--GA
* * * * * *
19061742 A-AA-CAATTCAAGTCAAAAGATTGCTCAAAAGAACAAAATAGCCATAGAAAAATAATGCACGCG
128 AGAAGCAACTCAAGCCAAAAGAATG-T-AAAAAAACAAAATAGCCATAGAAAAATAACGCACGAG
** **
19061805 AAGTGTTTAAGTAAATGCTCTCAAAAAATTCTATTACTCTAA-GAATTCA-TGATACAATGGATG
191 AAGTGTTTAAGTAAATGCTCTCAAAAAATAATACGACTC-AAGGAATTCAGT-ATACAATGGATG
* * *
19061868 ATTTACAACTGAA-AGAAAGGCTCTCTATTTATAGTTGAGCTCTCCTGAAGCCAATAGTCTAGCT
254 ATTTACAACT-AAGAGAAAGGCTCTCTATTTATAGTTGAGCTCTCCTAAAGCAAATAGTCTACCT
* * *
19061932 AAGTTTACATCGATGAACGAGATGAAACTTATCCCTACAATTAAAGGGATTTATAAGATTTACAC
318 AAATTTACATCGATGAACGAGATGAAACCTATCCCTACAATTAAAGGGATTTAAAAGATTTACAC
19061997 AATCAAATCAAATCAAATC
383 AATCAAATCAAATCAAATC
19062016 ATATTAGATT
Statistics
Matches: 340, Mismatches: 52, Indels: 20
0.83 0.13 0.05
Matches are distributed among these distances:
414 53 0.16
415 70 0.21
416 4 0.01
417 166 0.49
418 45 0.13
419 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (415 bp):
CTAGAATTTCAGTCTCACAATCCATGCAGCCTTAGGCGATTCCTTCGACTCAAATATGCCTAGTC
AACCTAACTCCCACAAAGTAAGGATTCTCGCAGAATTCCTCCAAAGCACCAATCTATATAGAAGA
AGCAACTCAAGCCAAAAGAATGTAAAAAAACAAAATAGCCATAGAAAAATAACGCACGAGAAGTG
TTTAAGTAAATGCTCTCAAAAAATAATACGACTCAAGGAATTCAGTATACAATGGATGATTTACA
ACTAAGAGAAAGGCTCTCTATTTATAGTTGAGCTCTCCTAAAGCAAATAGTCTACCTAAATTTAC
ATCGATGAACGAGATGAAACCTATCCCTACAATTAAAGGGATTTAAAAGATTTACACAATCAAAT
CAAATCAAATCTTACTATCATAGGG
Found at i:19064368 original size:44 final size:45
Alignment explanation
Indices: 19064308--19064484 Score: 222
Period size: 45 Copynumber: 4.0 Consensus size: 45
19064298 TAGGATTCTA
*
19064308 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTT-GCATCAAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
*
19064352 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* ** * *
19064397 ATATGTGGTTAAGTGTAAGACCATGTCGGGGACATTGGCATCG-T
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* *
19064441 AT-T-TG-ATTCGTGTAAGACCCTGTCTGGGACAG-TGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT
19064483 AT
1 AT
19064485 GAGATGACAT
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 28 0.24
42 5 0.04
43 1 0.01
44 38 0.33
45 44 0.38
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
Found at i:19064413 original size:45 final size:44
Alignment explanation
Indices: 19064320--19064521 Score: 186
Period size: 45 Copynumber: 4.7 Consensus size: 44
19064310 ATGTGTTTTC
* * * **
19064320 GTGTAAGACCATGTCTGGGACGTT-GCATCAATATATGTGTTTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATC-GTATATGTGATTAA
*
19064364 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTAA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-TATATGTGATTAA
* * * *
19064409 GTGTAAGACCATGTCGGGGACATTGGCATCGTAT-T-TGATT-C
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGTATATGTGATTAA
* *
19064450 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCG-ATATGAGATGACA
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGTATATGTGATTA-A
*
19064494 -TGTAAGACCACGTCTGGGATGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
19064522 TGTTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
40 2 0.02
41 27 0.21
42 8 0.06
43 24 0.18
44 27 0.21
45 43 0.33
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (44 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGTATATGTGATTAA
Found at i:19064477 original size:86 final size:89
Alignment explanation
Indices: 19064320--19064484 Score: 225
Period size: 86 Copynumber: 1.9 Consensus size: 89
19064310 ATGTGTTTTC
* * *
19064320 GTGTAAGACCATGTCTGGGACGTTGCATCAATATATGTGTTTTCGTGTAAGACCACGTCTGGGAC
1 GTGTAAGACCATGTCGGGGACATTGCATCAATATATGTGTATTCGTGTAAGACCACGTCTGGGAC
19064385 GTTGGCATCGATATATGTGGTTAA
66 GTTGGCATCGATATATGTGGTTAA
*
19064409 GTGTAAGACCATGTCGGGGACATTGGCATC-GTAT-T-TG-ATTCGTGTAAGACC-CTGTCTGGG
1 GTGTAAGACCATGTCGGGGACATT-GCATCAATATATGTGTATTCGTGTAAGACCAC-GTCTGGG
19064469 ACAG-TGGCATCGATAT
64 AC-GTTGGCATCGATAT
19064485 GAGATGACAT
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
85 1 0.01
86 34 0.49
87 3 0.04
88 1 0.01
89 25 0.36
90 5 0.07
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (89 bp):
GTGTAAGACCATGTCGGGGACATTGCATCAATATATGTGTATTCGTGTAAGACCACGTCTGGGAC
GTTGGCATCGATATATGTGGTTAA
Found at i:19080994 original size:19 final size:21
Alignment explanation
Indices: 19080966--19081014 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
19080956 AAACTCCTCG
*
19080966 AGATTAACCACTCGT-C-TCT
1 AGATTGACCACTCGTCCTTCT
19080985 AGATTGACCACTCGTCCTTCT
1 AGATTGACCACTCGTCCTTCT
19081006 AGAGTTGAC
1 AGA-TTGAC
19081015 AATATGTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 14 0.54
20 1 0.04
21 6 0.23
22 5 0.19
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (21 bp):
AGATTGACCACTCGTCCTTCT
Found at i:19083615 original size:4 final size:4
Alignment explanation
Indices: 19083614--19083660 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
19083604 ACCTCTCTCT
19083614 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTC
19083661 TCTCTCTCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (4 bp):
CTCC
Found at i:19083665 original size:4 final size:4
Alignment explanation
Indices: 19083658--19083686 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
19083648 CCCTCCCTCC
19083658 CTCT CTCT CTCT CTCT CTCT CTCT CTCT C
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT C
19083687 AGATAAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (4 bp):
CTCT
Found at i:19083673 original size:12 final size:12
Alignment explanation
Indices: 19083605--19083686 Score: 92
Period size: 12 Copynumber: 6.8 Consensus size: 12
19083595 CAATGTTCGA
*
19083605 CCTCTCTCTCTC
1 CCTCCCTCTCTC
*
19083617 CCTCCCTCCCTC
1 CCTCCCTCTCTC
*
19083629 CCTCCCTCCCTC
1 CCTCCCTCTCTC
*
19083641 CCTCCCTCCCTC
1 CCTCCCTCTCTC
19083653 CCTCCCTCTCTC
1 CCTCCCTCTCTC
* *
19083665 TCTCTCTCTCTC
1 CCTCCCTCTCTC
* *
19083677 TCTCTCTCTC
1 CCTCCCTCTC
19083687 AGATAAGAAC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (12 bp):
CCTCCCTCTCTC
Found at i:19083764 original size:13 final size:13
Alignment explanation
Indices: 19083748--19083818 Score: 54
Period size: 13 Copynumber: 5.4 Consensus size: 13
19083738 TCTTTTTCTT
19083748 AATTTAATATTTA
1 AATTTAATATTTA
**
19083761 AATTTTTTTATTT-
1 AA-TTTAATATTTA
* *
19083774 AATTTGATATATA
1 AATTTAATATTTA
* * *
19083787 AATTTGATTTTTTT
1 AATTT-AATATTTA
19083801 AATTTAATATTTA
1 AATTTAATATTTA
19083814 AATTT
1 AATTT
19083819 TTTTATCTAA
Statistics
Matches: 42, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
12 7 0.17
13 19 0.45
14 16 0.38
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
AATTTAATATTTA
Found at i:19083775 original size:26 final size:26
Alignment explanation
Indices: 19083746--19083829 Score: 116
Period size: 26 Copynumber: 3.2 Consensus size: 26
19083736 ATTCTTTTTC
19083746 TTAATTTAATATTTAAATTTTTTTAT
1 TTAATTTAATATTTAAATTTTTTTAT
* *
19083772 TTAATTTGATATATAAATTTGATTTT-T
1 TTAATTTAATATTTAAATTT--TTTTAT
19083799 TTAATTTAATATTTAAATTTTTTTAT
1 TTAATTTAATATTTAAATTTTTTTAT
*
19083825 CTAAT
1 TTAAT
19083830 GTAGCACTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.08
26 23 0.46
27 19 0.38
28 4 0.08
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (26 bp):
TTAATTTAATATTTAAATTTTTTTAT
Found at i:19083810 original size:27 final size:25
Alignment explanation
Indices: 19083731--19083822 Score: 114
Period size: 26 Copynumber: 3.6 Consensus size: 25
19083721 TGATATATGA
*
19083731 ATTT-AATTCTTTTTCTTAATTTAAT
1 ATTTAAATT-TTTTTTTTAATTTAAT
*
19083756 ATTTAAATTTTTTTATTTAATTTGAT
1 ATTTAAATTTTTTT-TTTAATTTAAT
*
19083782 ATATAAATTTGATTTTTTTAATTTAAT
1 ATTTAAATTT--TTTTTTTAATTTAAT
19083809 ATTTAAATTTTTTT
1 ATTTAAATTTTTTT
19083823 ATCTAATGTA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
25 13 0.22
26 22 0.38
27 19 0.33
28 4 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTTAAATTTTTTTTTTAATTTAAT
Found at i:19085955 original size:11 final size:11
Alignment explanation
Indices: 19085939--19085963 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19085929 AATAATTAAT
19085939 ATTATGTGTTA
1 ATTATGTGTTA
19085950 ATTATGTGTTA
1 ATTATGTGTTA
19085961 ATT
1 ATT
19085964 TCAAGACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (11 bp):
ATTATGTGTTA
Found at i:19089474 original size:18 final size:19
Alignment explanation
Indices: 19089438--19089475 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
19089428 TGCAAATAAA
*
19089438 TCATTTCTCATTTTAATTT
1 TCATTTCTCATTTCAATTT
*
19089457 TCATTT-TCATTTCCATTT
1 TCATTTCTCATTTCAATTT
19089475 T
1 T
19089476 GAGAAACCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (19 bp):
TCATTTCTCATTTCAATTT
Found at i:19091043 original size:99 final size:98
Alignment explanation
Indices: 19090870--19091301 Score: 596
Period size: 99 Copynumber: 4.4 Consensus size: 98
19090860 AAAACATATG
* * * *
19090870 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGAGCCATAATGTGTCTG
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTCCG
* *
19090935 CATTTATTATGTTGAAAATGAATGAGAATGAGTC
66 CATTTA-TATTTTGAAAATGAATGAGAATGAATC
* *
19090969 ATGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTTCG
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTCCG
*
19091034 CATTTATTATTTTGAAAATTAATGAGAATGAATC
66 CATTTA-TATTTTGAAAATGAATGAGAATGAATC
* * * * *
19091068 AGGTATGAAAGAATTAACATACCATGTTGCGTACTTTTTATTCTCTGTGATTGATAAAGTCTCCG
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTCCG
* ***
19091133 TATTTATATACAGAAAATGAATGAGAATGAATC
66 CATTTATATTTTGAAAATGAATGAGAATGAATC
* * *
19091166 AGGTATGAAAGTATTAACATACCATGTTGTGTACTTGTTATTCTGTGTGATTGATAAAGTGTCCA
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTCCG
*
19091231 CATTTATACTTTTGAAAATGAATGGGAATGAATC
66 CATTTATA-TTTTGAAAATGAATGAGAATGAATC
* * *
19091265 AGTTATGAAAGTGTTAACATATCAT-TTAGCGTACTTG
1 AGGTATGAAAGTATTAACATACCATGTT-GCGTACTTG
19091302 ATATACAATA
Statistics
Matches: 295, Mismatches: 36, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
98 91 0.31
99 204 0.69
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (98 bp):
AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGATCGATAAAGTGTCCG
CATTTATATTTTGAAAATGAATGAGAATGAATC
Found at i:19091206 original size:197 final size:198
Alignment explanation
Indices: 19090870--19091301 Score: 609
Period size: 197 Copynumber: 2.2 Consensus size: 198
19090860 AAAACATATG
* * * *
19090870 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTGTGTGAGCCATAATGTGTCTG
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTCTGTGAGCCATAAAGTCTCCG
*** * *
19090935 CATTTATTATGTTGAAAATGAATGAGAATGAGTCATGTATGAAAGTATTAACATACCATGTTGCG
66 CATTTATTATACAGAAAATGAATGAGAATGAATCAGGTATGAAAGTATTAACATACCATGTTGCG
* * *
19091000 TACTTGTTATTCTGTGTGATCGATAAAGTGTTCGCATTTATTA-TTTTGAAAATTAATGAGAATG
131 TACTTGTTATTCTGTGTGATCGATAAAGTGTCCACATTTA-TACTTTTGAAAATGAATGAGAATG
19091064 AATC
195 AATC
* * ***
19091068 AGGTATGAAAGAATTAACATACCATGTTGCGTACTTTTTATTCTCTGTGATTGATAAAGTCTCCG
1 AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTCTGTGAGCCATAAAGTCTCCG
* *
19091133 TATTTA-TATACAGAAAATGAATGAGAATGAATCAGGTATGAAAGTATTAACATACCATGTTGTG
66 CATTTATTATACAGAAAATGAATGAGAATGAATCAGGTATGAAAGTATTAACATACCATGTTGCG
* *
19091197 TACTTGTTATTCTGTGTGATTGATAAAGTGTCCACATTTATACTTTTGAAAATGAATGGGAATGA
131 TACTTGTTATTCTGTGTGATCGATAAAGTGTCCACATTTATACTTTTGAAAATGAATGAGAATGA
19091262 ATC
196 ATC
* * *
19091265 AGTTATGAAAGTGTTAACATATCAT-TTAGCGTACTTG
1 AGGTATGAAAGTATTAACATACCATGTT-GCGTACTTG
19091302 ATATACAATA
Statistics
Matches: 206, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
196 4 0.02
197 141 0.68
198 61 0.30
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (198 bp):
AGGTATGAAAGTATTAACATACCATGTTGCGTACTTGTTATTCTCTGTGAGCCATAAAGTCTCCG
CATTTATTATACAGAAAATGAATGAGAATGAATCAGGTATGAAAGTATTAACATACCATGTTGCG
TACTTGTTATTCTGTGTGATCGATAAAGTGTCCACATTTATACTTTTGAAAATGAATGAGAATGA
ATC
Found at i:19105855 original size:19 final size:19
Alignment explanation
Indices: 19105831--19105870 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
19105821 ATTAATTATA
*
19105831 TTATAACAATTTTATTTTC
1 TTATAACAAATTTATTTTC
19105850 TTATAACAAATTTATTTTC
1 TTATAACAAATTTATTTTC
19105869 TT
1 TT
19105871 TCTCACACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATAACAAATTTATTTTC
Found at i:19111162 original size:14 final size:14
Alignment explanation
Indices: 19111143--19111172 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19111133 TTATATCGAG
19111143 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
19111157 ACCAATCCAATTCA
1 ACCAATCCAAATCA
19111171 AC
1 AC
19111173 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:19118905 original size:14 final size:14
Alignment explanation
Indices: 19118886--19118915 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19118876 TTATATCGAG
19118886 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
19118900 ACCAATCCAATTCA
1 ACCAATCCAAATCA
19118914 AC
1 AC
19118916 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:19120056 original size:46 final size:46
Alignment explanation
Indices: 19120006--19120181 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
19119996 TGGTTGAGCA
19120006 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19120052 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19120097 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19120145 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19120182 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19120162 original size:93 final size:93
Alignment explanation
Indices: 19120003--19120174 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19119993 GGATGGTTGA
* *
19120003 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19120068 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
19120096 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19120161 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
19120175 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19127130 original size:46 final size:46
Alignment explanation
Indices: 19127080--19127255 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
19127070 TGGTTGAGCA
19127080 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19127126 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19127171 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19127219 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19127256 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19127236 original size:93 final size:93
Alignment explanation
Indices: 19127077--19127248 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19127067 GGATGGTTGA
* *
19127077 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19127142 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
19127170 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19127235 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
19127249 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19129881 original size:284 final size:284
Alignment explanation
Indices: 19129371--19130224 Score: 1591
Period size: 284 Copynumber: 3.0 Consensus size: 284
19129361 TTTCATGTTC
* *
19129371 ATATGCAACATTCTCTATAATTCAACAATTATTTATAGTTCATTCAAAGCTGTCTACTTGAGTTA
1 ATATGCAACATTCTCTATAATTCAACTATTATTTATAGTTCATTCAAAGCTGTCTACTTGAGTCA
19129436 TAGTCACTAAATTATTTTTATCTTGAGCTACAGAACTCCAAATTAGTATCTGATAATTTTACATG
66 TAGTCACTAAATTATTTTTATCTTGAGCTACAGAACTCCAAATTAGTATCTGATAATTTTACATG
*
19129501 AAACTAGACTCACATATCTTCTTACCATAAAATTTTTATAAGTTTTGGTTTAGCCAATTAGTACA
131 AAACTAGACTCACATATCTTCTTACCATAAAATTTTTATAAGTTTTGGTTTAGCCAATCAGTACA
19129566 GTTTATTCTTTAAAGTCACCCCTGTTCTGCTGTTGACAGTTCTAACCCTTCTTCACTAAAAATTA
196 GTTTATTCTTTAAAGTCACCCCTGTTCTGCTGTTGACAGTTCTAACCCTTCTTCACTAAAAATTA
19129631 ATTATCTCTTCATACAGAATTCAA
261 ATTATCTCTTCATACAGAATTCAA
19129655 ATATGCAACATTCTCTATAATTCAACTATTATTTATAGTTCATTCAAAGCTGTCTACTTGAGTCA
1 ATATGCAACATTCTCTATAATTCAACTATTATTTATAGTTCATTCAAAGCTGTCTACTTGAGTCA
* *
19129720 TAGTCACTAAATTATTTTTATCTTGAGCTACAGAACTCCAAATTAGTATATGGTAATTTTACATG
66 TAGTCACTAAATTATTTTTATCTTGAGCTACAGAACTCCAAATTAGTATCTGATAATTTTACATG
19129785 AAACTAGACTCACATATCTTCTTACCATAAAATTTTTATAAGTTTTGGTTTAGCCAATCAGTACA
131 AAACTAGACTCACATATCTTCTTACCATAAAATTTTTATAAGTTTTGGTTTAGCCAATCAGTACA
19129850 GTTTATTCTTTAAAGTCACCCCTGTTCTGCTGTTGACAGTTCTAACCCTTCTTCACTAAAAATTA
196 GTTTATTCTTTAAAGTCACCCCTGTTCTGCTGTTGACAGTTCTAACCCTTCTTCACTAAAAATTA
19129915 ATTATCTCTTCATACAGAATTCAA
261 ATTATCTCTTCATACAGAATTCAA
*
19129939 ATATGCAACATTCTCTATAATTCAACTATTATTTATAGTTCATTCAAAGCTGTCTACTTGATTCA
1 ATATGCAACATTCTCTATAATTCAACTATTATTTATAGTTCATTCAAAGCTGTCTACTTGAGTCA
* * *
19130004 TAGTCACTAAACTATTTTTATCTTGAGCTACAGAACTCCAAATTAGGATCTGATAATTTTCCATG
66 TAGTCACTAAATTATTTTTATCTTGAGCTACAGAACTCCAAATTAGTATCTGATAATTTTACATG
* *
19130069 AAACTAGACTCACATATATTCTTACCATAAAATTTTTATAATTTTTGGTTTAGCCAATCAGTACA
131 AAACTAGACTCACATATCTTCTTACCATAAAATTTTTATAAGTTTTGGTTTAGCCAATCAGTACA
*
19130134 GTTTATTCTTTAAAGTCACCCCTATTCTGCTGTTGACAGTTCTAACCCTTCTTCACTAAAAATTA
196 GTTTATTCTTTAAAGTCACCCCTGTTCTGCTGTTGACAGTTCTAACCCTTCTTCACTAAAAATTA
*
19130199 ATTATATCTTCATACAGAATTCAA
261 ATTATCTCTTCATACAGAATTCAA
19130223 AT
1 AT
19130225 GATGTTCTTG
Statistics
Matches: 555, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
284 555 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.39
Consensus pattern (284 bp):
ATATGCAACATTCTCTATAATTCAACTATTATTTATAGTTCATTCAAAGCTGTCTACTTGAGTCA
TAGTCACTAAATTATTTTTATCTTGAGCTACAGAACTCCAAATTAGTATCTGATAATTTTACATG
AAACTAGACTCACATATCTTCTTACCATAAAATTTTTATAAGTTTTGGTTTAGCCAATCAGTACA
GTTTATTCTTTAAAGTCACCCCTGTTCTGCTGTTGACAGTTCTAACCCTTCTTCACTAAAAATTA
ATTATCTCTTCATACAGAATTCAA
Found at i:19134822 original size:23 final size:22
Alignment explanation
Indices: 19134796--19134869 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
19134786 TTTATTATTA
*
19134796 ATTTTAAAAATTTCGAAATATAT
1 ATTTTAAAAATTT-TAAATATAT
* **
19134819 ATTTGAAATGTTTTATAATATAT
1 ATTTTAAAAATTTTA-AATATAT
*
19134842 ATTTTTTAAAATTTTAAATATAT
1 A-TTTTAAAAATTTTAAATATAT
19134865 ATTTT
1 ATTTT
19134870 TGAAATTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
22 5 0.12
23 26 0.63
24 10 0.24
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTTAAAAATTTTAAATATAT
Found at i:19134880 original size:25 final size:25
Alignment explanation
Indices: 19134813--19134881 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
19134803 AAATTTCGAA
* *
19134813 ATATATATTTGAAATGTTTTATAAT
1 ATATATTTTTGAAATATTTTATAAT
*
19134838 ATATATTTTTTAAA-ATTTTA-AAT
1 ATATATTTTTGAAATATTTTATAAT
19134861 ATATATTTTTGAAATTATTTT
1 ATATATTTTTGAAA-TATTTT
19134882 TTTTAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.42
24 5 0.13
25 17 0.45
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
ATATATTTTTGAAATATTTTATAAT
Found at i:19134883 original size:14 final size:13
Alignment explanation
Indices: 19134853--19134913 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
19134843 TTTTTTAAAA
19134853 TTTTAAATATATAT
1 TTTTAAAT-TATAT
*
19134867 TTTTGAAATTATTTT
1 TTTT-AAATTA-TAT
* *
19134882 TTTTAAATTTTAAA
1 TTTTAAATTAT-AT
19134896 TTTTAAA-TATAT
1 TTTTAAATTATAT
19134908 TTTTAA
1 TTTTAA
19134914 TAATATAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
12 7 0.18
13 3 0.08
14 18 0.47
15 10 0.26
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TTTTAAATTATAT
Found at i:19135007 original size:16 final size:16
Alignment explanation
Indices: 19134968--19135016 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
19134958 TTATTATTAG
19134968 TTTTATAATATTTTAAA
1 TTTTA-AATATTTTAAA
*
19134985 -TGT--ATATTTTAAA
1 TTTTAAATATTTTAAA
*
19134998 TTTTAAATATTTTTAA
1 TTTTAAATATTTTAAA
19135014 TTT
1 TTT
19135017 GTTTTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
16 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTAAATATTTTAAA
Found at i:19135021 original size:20 final size:21
Alignment explanation
Indices: 19134998--19135036 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19134988 ATATTTTAAA
*
19134998 TTTTA-AATATTTTTAATTTG
1 TTTTATAATATTTTAAATTTG
19135018 TTTTATAATATTTTAAATT
1 TTTTATAATATTTTAAATT
19135037 ATGGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTTTATAATATTTTAAATTTG
Found at i:19135028 original size:21 final size:20
Alignment explanation
Indices: 19134998--19135059 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 20
19134988 ATATTTTAAA
*
19134998 TTTTAAATATTTTTAATTTG
1 TTTTAAATATTTTAAATTTG
19135018 TTTTATAATATTTTAAATTATGG
1 TTTTA-AATATTTTAAATT-T-G
*
19135041 TTTTTAAATTATTTAAAAT
1 -TTTTAAA-TATTTTAAAT
19135060 ATATTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 5 0.14
21 12 0.34
22 1 0.03
23 3 0.09
24 14 0.40
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTAAATATTTTAAATTTG
Found at i:19135139 original size:12 final size:13
Alignment explanation
Indices: 19135122--19135171 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 13
19135112 ATTTTTTTAA
19135122 AATTTTAAATA-T
1 AATTTTAAATATT
19135134 AATTTTTATAAATTATT
1 AA--TTT-TAAA-TATT
19135151 AATTTTAAA-ATT
1 AATTTTAAATATT
19135163 AATTTTAAA
1 AATTTTAAA
19135172 GATATTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 14 0.42
14 7 0.21
15 7 0.21
16 2 0.06
17 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTAAATATT
Found at i:19135202 original size:32 final size:30
Alignment explanation
Indices: 19135153--19135211 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
19135143 AAATTATTAA
*
19135153 TTTTAAAATTAATTTTAAAGATATTCAAACAT
1 TTTTAAAATTAAATTTAAA-AT-TTCAAACAT
*
19135185 TTTTTAAATTAAATTTAAAATTTCAAA
1 TTTTAAAATTAAATTTAAAATTTCAAA
19135212 AATTAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 2 0.08
32 17 0.68
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (30 bp):
TTTTAAAATTAAATTTAAAATTTCAAACAT
Found at i:19138123 original size:131 final size:131
Alignment explanation
Indices: 19137650--19138305 Score: 570
Period size: 132 Copynumber: 5.0 Consensus size: 131
19137640 TAGAAAATAC
* * * * **
19137650 GAGTGAAATTTCGAAGAGACATTCAATTATTTTGAACAAACTG-GGGATTGCAACCCAGCACGAT
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAAC-GAGAAATTGCAACCCAGCACGAT
* * * * * *
19137714 AGGGCACTATTCCCCGAATTGCCAAACATTGAACATT-TCTTCCGTTTTCAA-GAGTTTTTAGAA
65 AGGGCACGATT-CCCGAATTGCCAAACATCGAATATTGCCTT-CGTTTTAAAGGA-TTTTTAAAA
*
19137777 AACGT
127 AACCT
* * * * * * **
19137782 GAGTGAAATTCCAAAGGGATCTTCGATCATTTTAAACAAATGAAAAAGCGCAACCCAGCACGATA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* * * * * *
19137847 GGGCACGATTCTCGAATTGCCAAACATCGAACATCGCATTTGTTTTAAAGGTTTTTCTTAAAAAA
66 GGGCACGATTCCCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGG-ATTT-TT--AAAA
*
19137912 AACAT
127 AACCT
* * ** * **
19137917 GAGTGAAAACTT-AAAGGAACGTTCGATTATTTTGAACAAATGAGAAATCACAACCCAGCACGAT
1 GAGTG-AAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGAT
* * * * * *
19137981 AGGGCATGATTCCCGAATTGTCAAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAGAC
65 AGGGCACGATTCCCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGGATTTTTAAAAAAC
19138046 CT
130 CT
* * * *
19138048 GAGTGAAATTTCAAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* * * * **
19138113 GGGCGCGATTCCGCGAATTGCCAAATATCAAACT-TTGCCTTCGTTTTAAAGAATTTTTAAAAGG
66 GGGCACGATTCC-CGAATTGCCAAACATCGAA-TATTGCCTTCGTTTTAAAGGATTTTTAAAAAA
19138177 CAC-
129 C-CT
* * * * *
19138180 AAGTGAAAATTT-GAAGGGATATTCGATTATTTTGAACAAACGCGAAATTGCAACCCAACACGTT
1 GAGTG-AAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGAT
* * * * * * *
19138244 AGGACACTATTCCACGAATTGCCAAATATCGAATCTCGTCTTCGTTTTAAAGAATTTTTAAA
65 AGGGCACGATTCC-CGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGGATTTTTAAA
19138306 TGAATACTTA
Statistics
Matches: 429, Mismatches: 81, Indels: 28
0.80 0.15 0.05
Matches are distributed among these distances:
130 5 0.01
131 95 0.22
132 211 0.49
133 12 0.03
134 3 0.01
135 99 0.23
136 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (131 bp):
GAGTGAAATTTCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATA
GGGCACGATTCCCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGGATTTTTAAAAAACC
T
Found at i:19140608 original size:24 final size:22
Alignment explanation
Indices: 19140559--19140608 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
19140549 CTGTTTTTTT
*
19140559 TTTGCTTTGTTTTTGCCTGTTC
1 TTTGCTTTGTGTTTGCCTGTTC
*
19140581 -TTGCTGTTGTGTTTGTCTGTTTC
1 TTTGCT-TTGTGTTTGCCTG-TTC
19140604 TTTGC
1 TTTGC
19140609 AGGTGTGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.22
22 11 0.48
23 3 0.13
24 4 0.17
ACGTcount: A:0.00, C:0.16, G:0.22, T:0.62
Consensus pattern (22 bp):
TTTGCTTTGTGTTTGCCTGTTC
Found at i:19141252 original size:44 final size:44
Alignment explanation
Indices: 19141180--19141916 Score: 702
Period size: 44 Copynumber: 16.8 Consensus size: 44
19141170 TAGATTCACC
* * *
19141180 ATCTTCGATCTACTCTCTGTCAAC-ACAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTG-CCACTACAGAGACGCCAAATCTGCT
* * * *
19141224 ATCTTCGATCTGCCCTCTGACAATACAGAGACGTCAAATCTG--
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
* * ** * * * * *
19141266 --CTTGGATTTGCT-TCAACGTA-AACACGTGAAAGCCAAATCAGCT
1 ATCTTCGATCTGCTCTCTGC-CACTACA-GAG-ACGCCAAATCTGCT
* * * *
19141309 ATGTCTTTGATCTGCTCCCTGCCTAATACAGAGATGCCAAATCATGCT
1 A--TCTTCGATCTGCTCTCTGCC-ACTACAGAGACGCCAAATC-TGCT
* * ** *
19141357 ATCTTCGATCTACTCTCCGCTGCTACAGAGATGCCAAATCATGCT
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATC-TGCT
* * * *
19141402 -TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
* * * * *
19141445 ATCTTCGACCTGCTTTCTGCCGCTATAGAAACGCCAAATCTG-T
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
* * * * * * * *
19141488 TTCTTCGATCTGCT-TTTCGTCGCTACGGAAACGCCAAATATGTT
1 ATCTTCGATCTGCTCTCT-GCCACTACAGAGACGCCAAATCTGCT
* *
19141532 ATCTTCGATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
* **
19141576 ATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTATT
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
* * *
19141620 ATCTTCAATCTGCTCTCTGCCACTACAAAGACGCCAAATCTCCT
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
* * **
19141664 ATCTTCGATCTACTCTCTGCCACTATAGAGACGCCAAATCTATT
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
* * *
19141708 ATCTTCGATCTACTCTCCGCCACTACAGAGACGCCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
* * *
19141752 ATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATTTGTT
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
* *
19141796 ATTTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTACT
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
* ** **
19141840 ATCTTCGATCTGCTCTCCGCCACTATGGAGACGCCAAATCTATT
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
*
19141884 ATCTTTGATCTGCTCTCTGCCACTACAGAGACG
1 ATCTTCGATCTGCTCTCTGCCACTACAGAGACG
19141917 TCTGCTCTCT
Statistics
Matches: 580, Mismatches: 95, Indels: 36
0.82 0.13 0.05
Matches are distributed among these distances:
39 5 0.01
40 12 0.02
41 9 0.02
42 2 0.00
43 37 0.06
44 445 0.77
45 24 0.04
46 15 0.03
47 19 0.03
48 9 0.02
49 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGCT
Found at i:19141945 original size:113 final size:113
Alignment explanation
Indices: 19141804--19142029 Score: 380
Period size: 113 Copynumber: 2.0 Consensus size: 113
19141794 TTATTTTCGA
*
19141804 TCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATGGA
1 TCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATAGA
* * *
19141869 GACGCCAAATCTATTATCTTTGATCTGCTCTCTGCCACTACAGAGACG
66 GACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
* * * *
19141917 TCTGCTCTCTGCCACTACAGATACGCCAAATTTGCTATCTTCGATTTGCTCTCCGCCACTATAGA
1 TCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATAGA
19141982 GACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
66 GACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
19142030 CCAAATCTAC
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 105 1.00
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (113 bp):
TCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATAGA
GACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACG
Found at i:19141967 original size:69 final size:69
Alignment explanation
Indices: 19141848--19141984 Score: 175
Period size: 69 Copynumber: 2.0 Consensus size: 69
19141838 CTATCTTCGA
** * * *
19141848 TCTGCTCTCCGCCACTATGGAGACGCCAAATCTATTATCTTTGATCTGCTCTCTGCCACTACAGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAGA
19141913 GACG
66 GACG
* * * * * *
19141917 TCTGCTCTCTGCCACTACAGATACGCCAAATTTGCTATCTTCGATTTGCTCTCCGCCACTATAGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAGA
19141982 GAC
66 GAC
19141985 ACCAAATCTA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (69 bp):
TCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAGA
GACG
Found at i:19141990 original size:44 final size:44
Alignment explanation
Indices: 19141917--19142253 Score: 444
Period size: 44 Copynumber: 7.9 Consensus size: 44
19141907 TACAGAGACG
* * * *
19141917 TCTGCTCTCTGCCACTACAGATACGCCAAATTTGCTATCTTCGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGA
* * * *
19141961 TTTGCTCTCCGCCACTATAGAGACACCAAATCTATTATCTTCGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGA
**
19142005 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGA
* *
19142049 TCTGCTCTCCGCCACTATAGATACGCCAAATCTGTTATCTTCGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGA
*
19142093 TCTGCTCTCCGCCACTACAGGGACGCCAAATCTGTTATCTTCGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGA
*
19142137 TCTGCTCT----C-C-AC-----CGCTAAATCTGTTATCTTCGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGA
* *
19142170 TCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATCTTCGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGA
*
19142214 TCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCT
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCT
19142254 ACTTCAAGGA
Statistics
Matches: 260, Mismatches: 22, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
33 28 0.11
37 1 0.00
38 3 0.01
39 3 0.01
40 1 0.00
44 224 0.86
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCGA
Found at i:19142051 original size:157 final size:157
Alignment explanation
Indices: 19141760--19142065 Score: 486
Period size: 157 Copynumber: 1.9 Consensus size: 157
19141750 TTATCTTCGA
* * *
19141760 TCTGCTCTCCGCCACTACAGAGACGCCAAATTTGTTATTTTCGATCTGCTCTCTGCCACTACAGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATTTGCTATCTTCGATCTGCTCTCCGCCACTACAGA
* ** * *
19141825 GACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATGGAGACGCCAAATCTATTATCTTT
66 GACACCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTC
*
19141890 GATCTGCTCTCTGCCACTACAGAGACG
131 GATCTGCTCTCCGCCACTACAGAGACG
* * * *
19141917 TCTGCTCTCTGCCACTACAGATACGCCAAATTTGCTATCTTCGATTTGCTCTCCGCCACTATAGA
1 TCTGCTCTCCGCCACTACAGAGACGCCAAATTTGCTATCTTCGATCTGCTCTCCGCCACTACAGA
*
19141982 GACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTC
66 GACACCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTC
19142047 GATCTGCTCTCCGCCACTA
131 GATCTGCTCTCCGCCACTA
19142066 TAGATACGCC
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
157 135 1.00
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (157 bp):
TCTGCTCTCCGCCACTACAGAGACGCCAAATTTGCTATCTTCGATCTGCTCTCCGCCACTACAGA
GACACCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTC
GATCTGCTCTCCGCCACTACAGAGACG
Found at i:19142077 original size:201 final size:202
Alignment explanation
Indices: 19141518--19142246 Score: 832
Period size: 201 Copynumber: 3.5 Consensus size: 202
19141508 CGCTACGGAA
* * * * *
19141518 ACGCCAAATATGTTATCTTCGATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGCTATCTTCG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCG
* * * * *
19141583 ATCTGCTCTCCGCCACTACAGAGACGCCAAATCTATTATCTTCAATCTGCTCTCTGCCACTACAA
66 ATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATAG
** * * *
19141648 AGACGCCAAATCTCCTATCTTCGATCTACTCTCTGCCACTATAGAGACGCCAAATCTATTATCTT
131 AGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACG-----------ATC-T
*
19141713 CGATCTACTCTCCGCCACTACAGAG
184 -G--CT-CTCT--GCCACTACAGAT
* *
19141738 ACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATTTGTTATTTTCG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCG
* *
19141803 ATCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATGG
66 ATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATAG
* *
19141868 AGACGCCAAATCTATTATCTTTGATCTGCTCTCTGCCACTACAGAGACG-TCTGCTCTCTGCCAC
131 AGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACGATCTGCTCTCTGCCAC
19141932 TACAGAT
196 TACAGAT
* * * * * *
19141939 ACGCCAAATTTGCTATCTTCGATTTGCTCTCCGCCACTATAGAGACACCAAATCTATTATCTTCG
1 ACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCG
19142004 ATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATAG
66 ATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATAG
* * * * * *
19142069 ATACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGGGACGCCAAATCTGTTATCTT
131 AGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACG----ATCTGCTCTCTG
* * **
19142134 CGATCTGC-TCT
192 CCA-CTACAGAT
* * *
19142145 CCACCGCTAAATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATCT
1 --A-CGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCT
*
19142210 TCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
63 TCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCT
19142247 GTTATCTACT
Statistics
Matches: 448, Mismatches: 52, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
201 175 0.39
203 4 0.01
204 2 0.00
206 12 0.03
207 4 0.01
208 3 0.01
209 88 0.20
220 160 0.36
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (202 bp):
ACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTTATCTTCG
ATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTATAG
AGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACGATCTGCTCTCTGCCAC
TACAGAT
Found at i:19142106 original size:245 final size:245
Alignment explanation
Indices: 19141409--19142253 Score: 821
Period size: 245 Copynumber: 3.3 Consensus size: 245
19141399 GCTTCTTCGA
* * * ** * * * * * *
19141409 TCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGACCTGCTTTCTGCCGCTATAGA
1 TCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCCGCCACTACAGA
* * * * * * * * * * **
19141474 AACGCCAAATCTGTT-TCTTCGATCTGCTTTTCGTCGCTACGGAAACGCCAAATATGTTATCTTC
66 GACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTC
* * * *
19141538 GATCTACTCTCTGCCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACA
131 GATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACA
* *
19141603 GAGACGCCAAATCTATTATCTTCAATCTGCTCTCTGCCACTACAAAGACGCCAAATCTCCTATCT
196 GGGACGCCAAATCTATTATCTTCGATCTGCTCTCTGCCACTAC--AGA-G-----------A---
19141668 TCG
244 -CG
* * *
19141671 ATCTACTCTCTGCCACTATAGAGACGCCAAATCTATTATCTTCGATCTACTCTCCGCCACTACAG
1 -TCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCCGCCACTACAG
* * * ** *
19141736 AGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATTTGTTATTTT
65 AGACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTT
*
19141801 CGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTA-
130 CGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTAC
* *
19141865 TGGAGACGCCAAATCTATTATCTTTGATCTGCTCTCTGCCACTACAGAGACG
195 AGG-GACGCCAAATCTATTATCTTCGATCTGCTCTCTGCCACTACAGAGACG
* * * * * *
19141917 TCTGCTCTCTGCCACTACAGATACGCCAAATTTGCTATCTTCGATTTGCTCTCCGCCACTATAGA
1 TCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCCGCCACTACAGA
19141982 GACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTC
66 GACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTC
* * **
19142047 GATCTGCTCTCCGCCACTATAGATACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACA
131 GATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACA
* ** * * **
19142112 GGGACGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGCTAAATCTGTTATCTTCG
196 GGGACGCCAAATCTATTATCTTCGATCTGCTCTCTGCCACT--A-CAG--A--GACG
** * ** * *
19142169 ATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAG
1 -TCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCCGCCACTACAG
* *
19142234 AGACGCCAAATCTGTTATCT
65 AGACACCAAATCTATTATCT
19142254 ACTTCAAGGA
Statistics
Matches: 503, Mismatches: 68, Indels: 32
0.83 0.11 0.05
Matches are distributed among these distances:
245 207 0.41
246 4 0.01
247 1 0.00
248 2 0.00
250 2 0.00
252 2 0.00
253 73 0.15
261 1 0.00
262 3 0.01
263 68 0.14
264 140 0.28
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (245 bp):
TCTGCTCTCTGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCCGCCACTACAGA
GACACCAAATCTATTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTC
GATCTGCTCTCCGCCACTACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCACTACA
GGGACGCCAAATCTATTATCTTCGATCTGCTCTCTGCCACTACAGAGACG
Found at i:19142162 original size:33 final size:33
Alignment explanation
Indices: 19142120--19142186 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
19142110 CAGGGACGCC
19142120 AAATCTGTTATCTTCGATCTGCTCTCCACCGCT
1 AAATCTGTTATCTTCGATCTGCTCTCCACCGCT
19142153 AAATCTGTTATCTTCGATCTGCTCTCCACCGCT
1 AAATCTGTTATCTTCGATCTGCTCTCCACCGCT
19142186 A
1 A
19142187 CAGAGACGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (33 bp):
AAATCTGTTATCTTCGATCTGCTCTCCACCGCT
Found at i:19142169 original size:77 final size:77
Alignment explanation
Indices: 19142076--19142230 Score: 274
Period size: 77 Copynumber: 2.0 Consensus size: 77
19142066 TAGATACGCC
* *
19142076 AAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGGGACGCCAAATCTGTTATCTTCGATCTG
1 AAATCTGTTATCTTCGATCTGCTCTCCACCACTACAGAGACGCCAAATCTGTTATCTTCGATCTG
19142141 CTCTCCACCGCT
66 CTCTCCACCGCT
*
19142153 AAATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTG
1 AAATCTGTTATCTTCGATCTGCTCTCCACCACTACAGAGACGCCAAATCTGTTATCTTCGATCTG
*
19142218 CTCTCCGCCGCT
66 CTCTCCACCGCT
19142230 A
1 A
19142231 CAGAGACGCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.31
Consensus pattern (77 bp):
AAATCTGTTATCTTCGATCTGCTCTCCACCACTACAGAGACGCCAAATCTGTTATCTTCGATCTG
CTCTCCACCGCT
Found at i:19143527 original size:5 final size:5
Alignment explanation
Indices: 19143517--19143583 Score: 77
Period size: 5 Copynumber: 13.4 Consensus size: 5
19143507 TTGGCCTCTC
*
19143517 CTTTT CTTTT CTTTT CTTTT CTTCT -TTTT CTTTTT CTTCTT -TATTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT C-TTTT CTT-TT CT-TTT
19143563 C-TTT CTTTT CTTTT CTTTT CT
1 CTTTT CTTTT CTTTT CTTTT CT
19143584 CTTTTTTTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
4 7 0.13
5 39 0.72
6 8 0.15
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (5 bp):
CTTTT
Found at i:19143537 original size:15 final size:14
Alignment explanation
Indices: 19143517--19143591 Score: 80
Period size: 15 Copynumber: 5.0 Consensus size: 14
19143507 TTGGCCTCTC
19143517 CTTTTCTTTTCTTTT
1 CTTTTCTTTT-TTTT
*
19143532 CTTTTCTTCTTTTT
1 CTTTTCTTTTTTTT
19143546 CTTTTTCTTCTTTATTT
1 C-TTTTCTT-TTT-TTT
19143563 C-TTTCTTTTCTTTT
1 CTTTTCTTTT-TTTT
19143577 CTTTTCTCTTTTTTT
1 CTTTTCT-TTTTTTT
19143592 TGTTGATCTC
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
14 11 0.21
15 32 0.62
16 5 0.10
17 4 0.08
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (14 bp):
CTTTTCTTTTTTTT
Found at i:19143569 original size:21 final size:20
Alignment explanation
Indices: 19143517--19143592 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 20
19143507 TTGGCCTCTC
19143517 CTTTTCT-TTTC-TTTTCTT
1 CTTTTCTCTTTCTTTTTCTT
*
19143535 -TTCTTCTTTTTCTTTTTCTT
1 CTT-TTCTCTTTCTTTTTCTT
* *
19143555 CTTTATTTCTTTCTTTTCTTTT
1 CTTT-TCTCTTTCTTTT-TCTT
19143577 CTTTTCTCTTT-TTTTT
1 CTTTTCTCTTTCTTTTT
19143593 GTTGATCTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
17 2 0.04
18 4 0.08
19 5 0.10
20 12 0.25
21 18 0.38
22 7 0.15
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (20 bp):
CTTTTCTCTTTCTTTTTCTT
Found at i:19151172 original size:16 final size:15
Alignment explanation
Indices: 19151151--19151189 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
19151141 TAATTTCATG
19151151 AAAAATTTAATACTAA
1 AAAAATTTAATA-TAA
*
19151167 AAAAATGTAATATAA
1 AAAAATTTAATATAA
*
19151182 TAAAATTT
1 AAAAATTT
19151190 GCTATTCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAAATTTAATATAA
Found at i:19152081 original size:34 final size:34
Alignment explanation
Indices: 19152034--19152101 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
19152024 CAACATTTTT
*
19152034 TATGTAAGGCAACTAAATAGAAGAGGATAGCAAG
1 TATGTAAGACAACTAAATAGAAGAGGATAGCAAG
*
19152068 TATGTAAGACAACTAAATAGAAGAGGATTGCAAG
1 TATGTAAGACAACTAAATAGAAGAGGATAGCAAG
19152102 AATCTTGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.19
Consensus pattern (34 bp):
TATGTAAGACAACTAAATAGAAGAGGATAGCAAG
Found at i:19153083 original size:15 final size:15
Alignment explanation
Indices: 19153058--19153100 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
19153048 ACTAATTAAT
* *
19153058 CTAAACCCTAAATCC
1 CTAACCCCTAAACCC
*
19153073 CTAGCCCCT-AACCC
1 CTAACCCCTAAACCC
19153087 CTAACCCCTAAACC
1 CTAACCCCTAAACC
19153101 TTAAACCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.33, C:0.49, G:0.02, T:0.16
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:19153133 original size:21 final size:21
Alignment explanation
Indices: 19153081--19153142 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
19153071 CCCTAGCCCC
** *
19153081 TAACCCCTAACCCCTAAACCT
1 TAACCCCTAAAACATAAACCT
* *
19153102 TAAACCATAAAACATAAACCT
1 TAACCCCTAAAACATAAACCT
* *
19153123 TAACCCCTAAATCTTAAACC
1 TAACCCCTAAAACATAAACC
19153143 CCAATCCCTT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (21 bp):
TAACCCCTAAAACATAAACCT
Found at i:19153202 original size:15 final size:15
Alignment explanation
Indices: 19153177--19153214 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
19153167 AACCTTTAAC
19153177 CCATAAA-CCATAAT
1 CCATAAACCCATAAT
*
19153191 CCCTAAACCCATAAT
1 CCATAAACCCATAAT
19153206 CCATAAACC
1 CCATAAACC
19153215 TTACAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:19153304 original size:19 final size:18
Alignment explanation
Indices: 19153280--19153322 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
19153270 CTATAATGAT
19153280 AATTAATTCAATATTTTAA
1 AATTAATT-AATATTTTAA
19153299 AATTAA-TAATATTTTAA
1 AATTAATTAATATTTTAA
*
19153316 ATTTAAT
1 AATTAAT
19153323 ACTATCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 1 0.05
19 6 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTAATTAATATTTTAA
Found at i:19153524 original size:40 final size:40
Alignment explanation
Indices: 19153449--19153590 Score: 123
Period size: 39 Copynumber: 3.6 Consensus size: 40
19153439 ATTTGTGGCA
* * * * *
19153449 TTTTTCAAAAAACGCCGCTAAAGATC-AGCATTAGCGGCG
1 TTTTTTAAAAAGCGCCGCTAAAGCTCGATCTTTAGCGGCG
*
19153488 TTTTTTAAAAAGCGCCGCTAAAGGT-G-TACTTATAGCGGCG
1 TTTTTTAAAAAGCGCCGCTAAAGCTCGAT-CTT-TAGCGGCG
* *
19153528 TTTCTTAAAAAAGCGCCCCTAATA-CTCGATCTTTAGCGGCG
1 TTT-TTTAAAAAGCGCCGCTAA-AGCTCGATCTTTAGCGGCG
* *
19153569 -ATTTTAAAAAGTGCCGCTAAAG
1 TTTTTTAAAAAGCGCCGCTAAAG
19153591 ACACTAAATT
Statistics
Matches: 83, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.01
39 39 0.47
40 12 0.14
41 25 0.30
42 5 0.06
43 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (40 bp):
TTTTTTAAAAAGCGCCGCTAAAGCTCGATCTTTAGCGGCG
Found at i:19153565 original size:41 final size:39
Alignment explanation
Indices: 19153479--19153578 Score: 105
Period size: 41 Copynumber: 2.5 Consensus size: 39
19153469 AAGATCAGCA
* * *
19153479 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTGTACT
1 TTAGCGGCGTTTTTAAAAAAGCGCCCCTAAAGCTGTACT
19153518 TATAGCGGCGTTTCTTAAAAAAGCGCCCCTAATA-CTCG-ATCT
1 T-TAGCGGCGTTT-TTAAAAAAGCGCCCCTAA-AGCT-GTA-CT
*
19153560 TTAGCGGCGATTTTAAAAA
1 TTAGCGGCGTTTTTAAAAA
19153579 GTGCCGCTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
39 1 0.02
40 18 0.35
41 28 0.54
42 5 0.10
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAAGCGCCCCTAAAGCTGTACT
Found at i:19153691 original size:36 final size:36
Alignment explanation
Indices: 19153627--19153739 Score: 147
Period size: 36 Copynumber: 3.1 Consensus size: 36
19153617 GGCGTTCTAC
19153627 AAAATTAATTTGCGGTG-TTTCTAAAAAGCGCCGCT
1 AAAATTAATTTGCGGTGTTTTCTAAAAAGCGCCGCT
19153662 AAAATTAATTTGCGGTGTTTTCTAAAAAGCGCCGCT
1 AAAATTAATTTGCGGTGTTTTCTAAAAAGCGCCGCT
* * * *
19153698 AAAGTGTACATATTGCGGCGTTTTTTAAAAAAGTGCCGCT
1 AAAAT-TA-AT-TTGCGGTGTTTTCT-AAAAAGCGCCGCT
19153738 AA
1 AA
19153740 TACTCGATCT
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
35 17 0.25
36 22 0.32
37 2 0.03
38 2 0.03
39 12 0.17
40 14 0.20
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (36 bp):
AAAATTAATTTGCGGTGTTTTCTAAAAAGCGCCGCT
Found at i:19153727 original size:39 final size:38
Alignment explanation
Indices: 19153634--19153781 Score: 135
Period size: 40 Copynumber: 3.9 Consensus size: 38
19153624 TACAAAATTA
* * *
19153634 ATTTGCGGTG-TTTCTAAAAAGCGCCGCTAAAAT-TA-
1 ATTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAGTGTAC
* *
19153669 ATTTGCGGTGTTTTCTAAAAAGCGCCGCTAAAGTGTAC
1 ATTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAGTGTAC
* *
19153707 ATATTGCGGCGTTTTTTAAAAAAGTGCCGCTAATACTCG-ATC
1 AT-TTGCGGCGTTTTTT-AAAAAGCGCCGCTAA-AGT-GTA-C
*
19153749 -TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAAAG
1 ATTT-GCGGCGTTTTTTAAAAAGCGCCGCTAAAG
19153782 CCACCAAAGG
Statistics
Matches: 96, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
35 10 0.10
36 22 0.23
37 2 0.02
38 2 0.02
39 13 0.14
40 30 0.31
41 15 0.16
42 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (38 bp):
ATTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAGTGTAC
Found at i:19156922 original size:30 final size:30
Alignment explanation
Indices: 19156881--19156974 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
19156871 GGGTGAAATA
*
19156881 AACTCGAACCGCCTATGTCCGAGTGATATG
1 AACTTGAACCGCCTATGTCCGAGTGATATG
19156911 AACTTGAACCGCCTATGTCCGAGTGATATG
1 AACTTGAACCGCCTATGTCCGAGTGATATG
* * *
19156941 AATTTGAACCGCCAATGTCCGAGTAATATG
1 AACTTGAACCGCCTATGTCCGAGTGATATG
19156971 AACT
1 AACT
19156975 GCTCTGCGAC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (30 bp):
AACTTGAACCGCCTATGTCCGAGTGATATG
Found at i:19158883 original size:18 final size:19
Alignment explanation
Indices: 19158862--19158900 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
19158852 AAATAAGTAA
19158862 TAATATATTAA-TATATTT
1 TAATATATTAAGTATATTT
19158880 TAATATATTAAGTATATTT
1 TAATATATTAAGTATATTT
19158899 TA
1 TA
19158901 TACTCAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TAATATATTAAGTATATTT
Found at i:19158952 original size:17 final size:17
Alignment explanation
Indices: 19158914--19158946 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19158904 TCAACATTTT
19158914 ATTTTAACATATTTAAA
1 ATTTTAACATATTTAAA
*
19158931 ATTTTAATATATTTAA
1 ATTTTAACATATTTAA
19158947 TTTTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTAACATATTTAAA
Found at i:19158955 original size:36 final size:38
Alignment explanation
Indices: 19158909--19158980 Score: 103
Period size: 36 Copynumber: 1.9 Consensus size: 38
19158899 TATACTCAAC
19158909 ATTTTATTTTAACATATTTAAAATTTT-AATATATTTA
1 ATTTTATTTTAACATATTTAAAATTTTAAATATATTTA
** *
19158946 ATTTT-TTTTAAGTTTTTTAAAATTTTAAATATATT
1 ATTTTATTTTAACATATTTAAAATTTTAAATATATT
19158981 AAAAAATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 18 0.58
37 13 0.42
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (38 bp):
ATTTTATTTTAACATATTTAAAATTTTAAATATATTTA
Found at i:19159131 original size:62 final size:62
Alignment explanation
Indices: 19159064--19159182 Score: 220
Period size: 62 Copynumber: 1.9 Consensus size: 62
19159054 ATATATTGAG
*
19159064 TATATTAAAATTTTAAAATTGATTATACTTAACTTTTTTTAATATATTTAATTTTTTAAAAA
1 TATATTAAAATTTTAAAATTGATTATACTTAACGTTTTTTAATATATTTAATTTTTTAAAAA
*
19159126 TATATTAAAATTTTAAAATTGGTTATACTTAACGTTTTTTAATATATTTAATTTTTT
1 TATATTAAAATTTTAAAATTGATTATACTTAACGTTTTTTAATATATTTAATTTTTT
19159183 TAAGTTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (62 bp):
TATATTAAAATTTTAAAATTGATTATACTTAACGTTTTTTAATATATTTAATTTTTTAAAAA
Found at i:19159133 original size:19 final size:20
Alignment explanation
Indices: 19159104--19159143 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
19159094 AACTTTTTTT
**
19159104 AATATATTTAATTTTTTAAA
1 AATATATTTAAAATTTTAAA
19159124 AATATA-TTAAAATTTTAAA
1 AATATATTTAAAATTTTAAA
19159143 A
1 A
19159144 TTGGTTATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATATTTAAAATTTTAAA
Found at i:19159777 original size:20 final size:20
Alignment explanation
Indices: 19159754--19159809 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
19159744 TGAACAATTA
19159754 TAATATATATTTTTAATTTT
1 TAATATATATTTTTAATTTT
* * *
19159774 TAATTTAAATTTTTACTTTT
1 TAATATATATTTTTAATTTT
19159794 TAATATATATTTTTAA
1 TAATATATATTTTTAA
19159810 ATAAATTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATATATATTTTTAATTTT
Found at i:19160088 original size:22 final size:21
Alignment explanation
Indices: 19160063--19160124 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
19160053 TAAATGTTTT
19160063 ATATTATTAAAAAATATATTTA
1 ATATT-TTAAAAAATATATTTA
19160085 ATA-TTTAAAAAATAATATTTA
1 ATATTTTAAAAAAT-ATATTTA
* *
19160106 AAATTTAAAAAAATA-ATTT
1 ATATTTTAAAAAATATATTT
19160125 CAAATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 13 0.36
21 11 0.31
22 12 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATTTTAAAAAATATATTTA
Found at i:19160092 original size:20 final size:21
Alignment explanation
Indices: 19160069--19160122 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
19160059 TTTTATATTA
*
19160069 TTAAAAAAT-ATATTTAATAT
1 TTAAAAAATAATATTTAAAAT
19160089 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAATATTTAAAAT
19160110 TTAAAAAAATAAT
1 TT-AAAAAATAAT
19160123 TTCAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 9 0.29
21 12 0.39
22 10 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAAT
Found at i:19164489 original size:24 final size:24
Alignment explanation
Indices: 19164462--19164518 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
19164452 CTATTCGGAG
*
19164462 CTTCCCGATATGATTCTTTGTGAA
1 CTTCCCGATAAGATTCTTTGTGAA
* *
19164486 CTTCCCGACAAGGTTCTTTGTGAA
1 CTTCCCGATAAGATTCTTTGTGAA
19164510 CTTCCCGAT
1 CTTCCCGAT
19164519 TATGGCTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (24 bp):
CTTCCCGATAAGATTCTTTGTGAA
Found at i:19164537 original size:24 final size:23
Alignment explanation
Indices: 19164378--19164612 Score: 84
Period size: 24 Copynumber: 9.8 Consensus size: 23
19164368 ACACACCTTA
* *
19164378 GCTCTTATGAGCTTCCCGTTAATTG
1 GCTCTTGTGAGCTTCCCGAT-A-TG
*
19164403 GCTATTTGTGAGCTTCCCGATAAT-
1 GCT-CTTGTGAGCTTCCCGAT-ATG
* *
19164427 GCTCGCT-TGAACTTCCCGATATTG
1 GCTC-TTGTGAGCTTCCCGATA-TG
*
19164451 GCTATTCG-GAGCTTCCCGATATG
1 GCTCTT-GTGAGCTTCCCGATATG
** * * *
19164474 ATTCTTTGTGAACTTCCCGACAAG
1 GCTC-TTGTGAGCTTCCCGATATG
* *
19164498 GTTCTTTGTGAACTTCCCGATTATG
1 GCTC-TTGTGAGCTTCCCGA-TATG
* * *
19164523 GCTCTTATGAGCTTCACGTTATATA
1 GCTCTTGTGAGCTTCCCG--ATATG
** * * *
19164548 GC-CCGGATAAGCTTTCTGATA-G
1 GCTCTTG-TGAGCTTCCCGATATG
* * *
19164570 GCTCTTTATGAGCTTCCCAAAATG
1 GCTC-TTGTGAGCTTCCCGATATG
19164594 GCTCTGTGTGAGCTTCCCG
1 GCTCT-TGTGAGCTTCCCG
19164613 TTACAAGGCT
Statistics
Matches: 153, Mismatches: 41, Indels: 33
0.67 0.18 0.15
Matches are distributed among these distances:
22 3 0.02
23 32 0.21
24 80 0.52
25 21 0.14
26 17 0.11
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (23 bp):
GCTCTTGTGAGCTTCCCGATATG
Found at i:19168508 original size:28 final size:28
Alignment explanation
Indices: 19168468--19168524 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
19168458 ATATTGAACT
19168468 ATCAAAATATTCGAATATTGTTTATAGA
1 ATCAAAATATTCGAATATTGTTTATAGA
19168496 ATCAAAATATTCGAATATTGTTTATAGA
1 ATCAAAATATTCGAATATTGTTTATAGA
19168524 A
1 A
19168525 GTAAGGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.39
Consensus pattern (28 bp):
ATCAAAATATTCGAATATTGTTTATAGA
Found at i:19169749 original size:9 final size:9
Alignment explanation
Indices: 19169735--19169762 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
19169725 TAAATAGTTC
19169735 GAGTTATTT
1 GAGTTATTT
19169744 GAGTTATTT
1 GAGTTATTT
19169753 GAGTTATTT
1 GAGTTATTT
19169762 G
1 G
19169763 GATAAACTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (9 bp):
GAGTTATTT
Found at i:19171810 original size:10 final size:10
Alignment explanation
Indices: 19171767--19171827 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
19171757 AAAGAACATA
19171767 AAAAAATTAT
1 AAAAAATTAT
19171777 --AAAATTAT
1 AAAAAATTAT
* *
19171785 TAGAAATTGAT
1 AAAAAATT-AT
* *
19171796 TAAAAATCAT
1 AAAAAATTAT
*
19171806 AAAAAATTAA
1 AAAAAATTAT
19171816 AAAAAATTAT
1 AAAAAATTAT
19171826 AA
1 AA
19171828 TAATAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 8 0.20
10 25 0.61
11 8 0.20
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:19174656 original size:14 final size:14
Alignment explanation
Indices: 19174596--19174667 Score: 83
Period size: 14 Copynumber: 5.1 Consensus size: 14
19174586 TAGGCGAGCT
*
19174596 CTGTATGCAAACCC
1 CTGTATGCGAACCC
* *
19174610 CTATAGGC-AAGCCC
1 CTGTATGCGAA-CCC
*
19174624 TTGTATGCGAACACC
1 CTGTATGCGAAC-CC
19174639 CTGTATGCGAACCC
1 CTGTATGCGAACCC
19174653 CTGTATGCGAACCC
1 CTGTATGCGAACCC
19174667 C
1 C
19174668 CTACATGTGC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
13 2 0.04
14 32 0.65
15 15 0.31
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.21
Consensus pattern (14 bp):
CTGTATGCGAACCC
Found at i:19174668 original size:15 final size:15
Alignment explanation
Indices: 19174625--19174669 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
19174615 GGCAAGCCCT
*
19174625 TGTATGCGAACACCC
1 TGTATGCGAACCCCC
19174640 TGTATGCGAA-CCCC
1 TGTATGCGAACCCCC
19174654 TGTATGCGAACCCCC
1 TGTATGCGAACCCCC
19174669 T
1 T
19174670 ACATGTGCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (15 bp):
TGTATGCGAACCCCC
Found at i:19174925 original size:44 final size:42
Alignment explanation
Indices: 19174877--19174987 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 42
19174867 ATATGTTAAT
19174877 TATGCAAACCCTACATATGTATATGCGAACACTACATATTGTAA
1 TATGCAAACCCTACATATGTATATGCGAACACTACATATT-T-A
* * * * *
19174921 TATGCGAACCCTACATATTGTAATATGTGAACCCTATATGTTTA
1 TATGCAAACCCTACATA-TGT-ATATGCGAACACTACATATTTA
* *
19174965 TCATGCAAGCCCTATATATGTAT
1 T-ATGCAAACCCTACATATGTAT
19174988 TTATGTGAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
43 2 0.04
44 21 0.38
45 17 0.30
46 16 0.29
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (42 bp):
TATGCAAACCCTACATATGTATATGCGAACACTACATATTTA
Found at i:19174927 original size:23 final size:23
Alignment explanation
Indices: 19174857--19174956 Score: 120
Period size: 23 Copynumber: 4.5 Consensus size: 23
19174847 ATGAATATCT
19174857 TGCGAACCCT--ATA-TGTTAATTA
1 TGCGAACCCTACATATTG-TAA-TA
*
19174879 TGCAAACCCTACATA-TGT-ATA
1 TGCGAACCCTACATATTGTAATA
*
19174900 TGCGAACACTACATATTGTAATA
1 TGCGAACCCTACATATTGTAATA
19174923 TGCGAACCCTACATATTGTAATA
1 TGCGAACCCTACATATTGTAATA
*
19174946 TGTGAACCCTA
1 TGCGAACCCTA
19174957 TATGTTTATC
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
21 15 0.22
22 13 0.19
23 36 0.52
24 5 0.07
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (23 bp):
TGCGAACCCTACATATTGTAATA
Found at i:19174995 original size:45 final size:41
Alignment explanation
Indices: 19174860--19175001 Score: 131
Period size: 45 Copynumber: 3.2 Consensus size: 41
19174850 AATATCTTGC
* *
19174860 GAACCCTATATGTTAATTATGCAAACCCTACATATGTATATGC
1 GAACCCTATATGTTTA-TATGC-AACCCTACATATGTATATGT
* * *
19174903 GAACACTACATATTGTAATATGCGAACCCTACATATTGTAATATGT
1 GAACCCTATATGTT-T-ATATGC-AACCCTACATA-TGT-ATATGT
*
19174949 GAACCCTATATGTTTATCATGCAAGCCCTATATATGTATTTATGT
1 GAACCCTATATGTTTAT-ATGCAA-CCCTACATATGTA--TATGT
19174994 GAACCCTA
1 GAACCCTA
19175002 CAAGTAGTAA
Statistics
Matches: 81, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
43 12 0.15
44 23 0.28
45 30 0.37
46 16 0.20
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (41 bp):
GAACCCTATATGTTTATATGCAACCCTACATATGTATATGT
Found at i:19175059 original size:15 final size:15
Alignment explanation
Indices: 19175035--19175090 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
19175025 TGTATTTAAT
19175035 TGTGCGAACCCTGTA
1 TGTGCGAACCCTGTA
*
19175050 TGTGCAAACCCTAG-A
1 TGTGCGAACCCT-GTA
*
19175065 TGTGTGAACCCTGTA
1 TGTGCGAACCCTGTA
*
19175080 TGTGTGAACCC
1 TGTGCGAACCC
19175091 AACATGTGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (15 bp):
TGTGCGAACCCTGTA
Found at i:19175098 original size:30 final size:30
Alignment explanation
Indices: 19175035--19175099 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
19175025 TGTATTTAAT
* *
19175035 TGTGCGAACCCTGTATGTGCAAACCCTAGA
1 TGTGCGAACCCTGTATGTGCAAACCCAACA
* **
19175065 TGTGTGAACCCTGTATGTGTGAACCCAACA
1 TGTGCGAACCCTGTATGTGCAAACCCAACA
19175095 TGTGC
1 TGTGC
19175100 TGTGAACCTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (30 bp):
TGTGCGAACCCTGTATGTGCAAACCCAACA
Found at i:19176846 original size:25 final size:25
Alignment explanation
Indices: 19176812--19176860 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
19176802 AGATGACACC
19176812 TAGTTGAAAGATGGAAGTTAGAACG
1 TAGTTGAAAGATGGAAGTTAGAACG
* *
19176837 TAGTTGAAAGGTGGAAGTTGGAAC
1 TAGTTGAAAGATGGAAGTTAGAAC
19176861 ATGAAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (25 bp):
TAGTTGAAAGATGGAAGTTAGAACG
Found at i:19180186 original size:90 final size:90
Alignment explanation
Indices: 19180028--19180228 Score: 237
Period size: 90 Copynumber: 2.2 Consensus size: 90
19180018 ACTACTATTC
* * * **
19180028 AAAATATTTGTATTATTTTGGTATCCATAAATCAATTTTAGTCTGTTTTATTTATTGCTCAAAAT
1 AAAATGTTTGTATTATTTTGGTATCCATAAATAAATTTTAGTCTGTATTATTTACCGCTCAAAAT
*
19180093 TTATATTTTCATATATC-AGTTTTGT
66 TTATATTTTCATATATCAAATTTT-T
* * *
19180118 AAAATGTTTGTATTATTTTTGG-ATCCGTAAA-AATATTTTAGTCTGTATTATTTGCCGGTCAAA
1 AAAATGTTTGTATTA-TTTTGGTATCCATAAATAA-ATTTTAGTCTGTATTATTTACCGCTCAAA
* *
19180181 TTTTATATTTTCGTATATCAAATTTTT
64 ATTTATATTTTCATATATCAAATTTTT
*
19180208 AAAATGTTCGTATTAATTTTG
1 AAAATGTTTGTATT-ATTTTG
19180229 TATATGTAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
89 1 0.01
90 82 0.86
91 12 0.13
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (90 bp):
AAAATGTTTGTATTATTTTGGTATCCATAAATAAATTTTAGTCTGTATTATTTACCGCTCAAAAT
TTATATTTTCATATATCAAATTTTT
Found at i:19180249 original size:90 final size:90
Alignment explanation
Indices: 19180086--19180287 Score: 214
Period size: 90 Copynumber: 2.3 Consensus size: 90
19180076 TATTTATTGC
* * * * * *
19180086 TCAAAATTTATATTTTCATATATCAGTTTTGTAAAATGTTTGTATTATTTTTGGATCCGTAAAAA
1 TCAAATTTTATATTTTCGTATATCAATTTTGTAAAATGTTCGTATTAATTTTGGATACGTAAAAA
** *
19180151 TATTTTAGTCT-GTATTATTTGCCGG
66 TAAATTAGT-TAGTATTATTTGCCAG
* *
19180176 TCAAATTTTATATTTTCGTATATCAAATTTT-TAAAATGTTCGTATTAATTTTGTATATGTAAAT
1 TCAAATTTTATATTTTCGTATATC-AATTTTGTAAAATGTTCGTATTAATTTTGGATACGTAAA-
**
19180240 AA-AAATTAGTTAGTATTATTTGTTAG
64 AATAAATTAGTTAGTATTATTTGCCAG
* *
19180266 TC-AATTATATATTTTTGTATAT
1 TCAAATTTTATATTTTCGTATAT
19180288 TAGTTTTCTA
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
89 19 0.20
90 68 0.72
91 7 0.07
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.50
Consensus pattern (90 bp):
TCAAATTTTATATTTTCGTATATCAATTTTGTAAAATGTTCGTATTAATTTTGGATACGTAAAAA
TAAATTAGTTAGTATTATTTGCCAG
Found at i:19180908 original size:27 final size:27
Alignment explanation
Indices: 19180870--19180924 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
19180860 GGGGTTTGAG
19180870 ATAGATTCTGTGTTCCCGAATGGTGGA
1 ATAGATTCTGTGTTCCCGAATGGTGGA
19180897 ATAGATTCTGTGTTCCCGAATGGTGGA
1 ATAGATTCTGTGTTCCCGAATGGTGGA
19180924 A
1 A
19180925 CTCGATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (27 bp):
ATAGATTCTGTGTTCCCGAATGGTGGA
Found at i:19187063 original size:81 final size:81
Alignment explanation
Indices: 19186928--19187093 Score: 251
Period size: 81 Copynumber: 2.0 Consensus size: 81
19186918 CGTTACCTCC
* * *
19186928 TTAACATCGGTCCTACGTGGCAGTCCAAATGAGTTTTAAATACCAACTTGGATATCCAAATGATG
1 TTAACAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATACCAACTAGGATATCCAAATGATG
19186993 GGATGAAAATAGGTTT
66 GGATGAAAATAGGTTT
* * * * * *
19187009 TTAACAGCGGTCCTACATGGCCGTCTAAATGAGTTTTAAATGCCAACTAGGATATCTAGATGCTG
1 TTAACAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATACCAACTAGGATATCCAAATGATG
19187074 GGATGAAAATAGGTTT
66 GGATGAAAATAGGTTT
19187090 TTAA
1 TTAA
19187094 TTAAATAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (81 bp):
TTAACAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATACCAACTAGGATATCCAAATGATG
GGATGAAAATAGGTTT
Found at i:19194196 original size:23 final size:22
Alignment explanation
Indices: 19194164--19194211 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 22
19194154 ATTAATTTAG
19194164 TAAAAATAAAGTTAAATAATTA
1 TAAAAATAAAGTTAAATAATTA
19194186 TAAAAAGTAAAGTTAAATAATTA
1 TAAAAA-TAAAGTTAAATAATTA
19194209 TAA
1 TAA
19194212 TATCTAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (22 bp):
TAAAAATAAAGTTAAATAATTA
Found at i:19199032 original size:26 final size:27
Alignment explanation
Indices: 19198996--19199051 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
19198986 TAACTTTGTT
*
19198996 TATATATTTTTTAGAATTTTTTA-AAA
1 TATATATTTTTTAGAAATTTTTATAAA
**
19199022 TATATATTTTTTTTAAATTTTTATAAA
1 TATATATTTTTTAGAAATTTTTATAAA
19199049 TAT
1 TAT
19199052 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TATATATTTTTTAGAAATTTTTATAAA
Found at i:19199046 original size:19 final size:19
Alignment explanation
Indices: 19199003--19199082 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 19
19198993 GTTTATATAT
*
19199003 TTTTTAGAA-TTTTTTAAA
1 TTTTTATAATTTTTTTAAA
* * *
19199021 -ATATATATTTTTTTTAAA
1 TTTTTATAATTTTTTTAAA
* *
19199039 TTTTTATAAATATTTTAAA
1 TTTTTATAATTTTTTTAAA
* *
19199058 TTTTTGAAAATTTTTTTGAA
1 TTTTT-ATAATTTTTTTAAA
19199078 TTTTT
1 TTTTT
19199083 TTTTGTAATT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
17 4 0.09
18 9 0.20
19 18 0.39
20 15 0.33
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTTATAATTTTTTTAAA
Found at i:19201158 original size:12 final size:13
Alignment explanation
Indices: 19201141--19201172 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
19201131 ATCATCATCC
19201141 TCCTCTTCC-TCT
1 TCCTCTTCCGTCT
19201153 TCCTC-TCCGTCT
1 TCCTCTTCCGTCT
19201165 TCCTCTTC
1 TCCTCTTC
19201173 ATCGACAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (13 bp):
TCCTCTTCCGTCT
Found at i:19206165 original size:17 final size:17
Alignment explanation
Indices: 19206145--19206198 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
19206135 GCATTTTCTT
19206145 AATTTTAAATTTTTAAA
1 AATTTTAAATTTTTAAA
**
19206162 AATTTTAAA-AATTAAA
1 AATTTTAAATTTTTAAA
*
19206178 AATTATTAAATGTTTGAAA
1 AATT-TTAAAT-TTTTAAA
19206197 AA
1 AA
19206199 AAAACATAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 9 0.31
17 14 0.48
19 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTTAAATTTTTAAA
Found at i:19208630 original size:12 final size:12
Alignment explanation
Indices: 19208615--19208664 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
19208605 ATCATCATCC
*
19208615 TCTTCGTCTTCA
1 TCTTCCTCTTCA
* *
19208627 TCTTCGTCTTCG
1 TCTTCCTCTTCA
*
19208639 TCTTCCTCTCCA
1 TCTTCCTCTTCA
19208651 TCTTCCTCTTCA
1 TCTTCCTCTTCA
19208663 TC
1 TC
19208665 AACAACTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.06, C:0.40, G:0.06, T:0.48
Consensus pattern (12 bp):
TCTTCCTCTTCA
Found at i:19208636 original size:18 final size:18
Alignment explanation
Indices: 19208606--19208664 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
19208596 AACATCATCA
19208606 TCATCATCC-TCTTCGTCT
1 TCATC-TCCATCTTCGTCT
* *
19208624 TCATCTTCGTCTTCGTCT
1 TCATCTCCATCTTCGTCT
* *
19208642 TCCTCTCCATCTTCCTCT
1 TCATCTCCATCTTCGTCT
19208660 TCATC
1 TCATC
19208665 AACAACTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 2 0.06
18 32 0.94
ACGTcount: A:0.08, C:0.41, G:0.05, T:0.46
Consensus pattern (18 bp):
TCATCTCCATCTTCGTCT
Found at i:19218042 original size:73 final size:73
Alignment explanation
Indices: 19217956--19218099 Score: 252
Period size: 73 Copynumber: 2.0 Consensus size: 73
19217946 TGTTTATGGA
* *
19217956 AAGTATGATTTCAAATGTGCTATGTACATGAAATTTATCTTACCATGTGATAATTTTGTTAAATT
1 AAGTATGAATTCAAATGTGCTATGTACATGAAATCTATCTTACCATGTGATAATTTTGTTAAATT
19218021 ATGTGTGT
66 ATGTGTGT
* *
19218029 AAGTATGAATTCAAATGTGCTATGTACATGAAATCTATCTTACCATGTGATGATTTTGTTAAGTT
1 AAGTATGAATTCAAATGTGCTATGTACATGAAATCTATCTTACCATGTGATAATTTTGTTAAATT
19218094 ATGTGT
66 ATGTGT
19218100 TTAAAGACTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (73 bp):
AAGTATGAATTCAAATGTGCTATGTACATGAAATCTATCTTACCATGTGATAATTTTGTTAAATT
ATGTGTGT
Found at i:19220056 original size:44 final size:44
Alignment explanation
Indices: 19219988--19220079 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
19219978 CCGATATAAC
*
19219988 AGTAGCAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
* ** *
19220032 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
19220076 AGTA
1 AGTA
19220080 TCCCTGAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
Found at i:19221617 original size:32 final size:33
Alignment explanation
Indices: 19221574--19221645 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
19221564 TATTTATCAT
19221574 ATAAAA-ATC-TTTTACTAATTA-ATAATAAATA
1 ATAAAATATCTTTTTACTAATTATAT-ATAAATA
19221605 ATAAAATATCTTTTTACTAATTATATATAAATA
1 ATAAAATATCTTTTTACTAATTATATATAAATA
19221638 ATACAAAT
1 ATA-AAAT
19221646 GTACTGATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 3 0.08
33 22 0.59
34 6 0.16
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (33 bp):
ATAAAATATCTTTTTACTAATTATATATAAATA
Found at i:19227363 original size:26 final size:26
Alignment explanation
Indices: 19227327--19227380 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
19227317 TACACTAGCA
**
19227327 CACATATCAACGTCAATGCCATGTCC
1 CACATATCAACACCAATGCCATGTCC
* *
19227353 CACATGTCAACACCGATGCCATGTCC
1 CACATATCAACACCAATGCCATGTCC
19227379 CA
1 CA
19227381 GACATGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.37, G:0.13, T:0.20
Consensus pattern (26 bp):
CACATATCAACACCAATGCCATGTCC
Found at i:19227424 original size:48 final size:48
Alignment explanation
Indices: 19227359--19227501 Score: 184
Period size: 48 Copynumber: 3.0 Consensus size: 48
19227349 GTCCCACATG
*
19227359 TCAACACCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCA-CATA
1 TCAACA-CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATA
* *
19227407 TCAACGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATCATA
1 TCAAC-ACGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATA
***
19227455 TCAACACTGATGCCATGTTTAAGACATGGTCTTACACTGGCTC-TCAT
1 TCAACAC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
19227502 TAATTGTGGT
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
47 2 0.02
48 81 0.98
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
TCAACACGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATA
Done.