Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 70 of 204
Found at i:20852353 original size:23 final size:23
Alignment explanation
Indices: 20852323--20852370 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
20852313 TGTATGATTG
*
20852323 CTTATGTTTCAGTCCGGTAATGC
1 CTTATGTTTCAGTCCGATAATGC
20852346 CTTATGTTTCAGTCCGATAATGC
1 CTTATGTTTCAGTCCGATAATGC
20852369 CT
1 CT
20852371 CGTACCTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (23 bp):
CTTATGTTTCAGTCCGATAATGC
Found at i:20858724 original size:51 final size:50
Alignment explanation
Indices: 20858604--20858893 Score: 368
Period size: 51 Copynumber: 5.7 Consensus size: 50
20858594 TATCATTCGA
* * *
20858604 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGG
*
20858654 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTTCCGG
* * * * *
20858705 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACCT-TCCGG
*
20858756 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAGCCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTTCCGG
* * * * *
20858807 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACCT-TCCGG
*
20858858 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
20858894 TTTATAGGCA
Statistics
Matches: 208, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
50 41 0.20
51 163 0.78
52 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGG
Found at i:20858788 original size:102 final size:102
Alignment explanation
Indices: 20858604--20858893 Score: 476
Period size: 102 Copynumber: 2.9 Consensus size: 102
20858594 TATCATTCGA
* * * * * * * *
20858604 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA--AACTTTCCGGTTCACGTAGTAGC
1 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTAT-CGATACACGTAGTAGC
*
20858667 CTGCACATAGTACTACACACGTGACCAAAGCCTTCCGG
65 CTGCACTTAGTACTACACACGTGACCAAAGCCTTCCGG
20858705 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTATCGATACACGTAGTAGCC
1 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTATCGATACACGTAGTAGCC
20858770 TGCACTTAGTACTACACACGTGACCAAAGCCTTCCGG
66 TGCACTTAGTACTACACACGTGACCAAAGCCTTCCGG
20858807 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTATCGATACACGTAGTAGCC
1 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTATCGATACACGTAGTAGCC
20858872 TGCACTTAGTACTACACACGTG
66 TGCACTTAGTACTACACACGTG
20858894 TTTATAGGCA
Statistics
Matches: 178, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
101 36 0.20
102 138 0.78
103 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (102 bp):
TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTATCGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCAAAGCCTTCCGG
Found at i:20858872 original size:153 final size:152
Alignment explanation
Indices: 20858592--20858889 Score: 431
Period size: 153 Copynumber: 2.0 Consensus size: 152
20858582 CCGTGTAATT
* * * *
20858592 ATTATCATTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGGTTC
1 ATTATCATTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGGTAC
* *
20858657 ACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGGTACACATAGTAGCCTGC
66 ACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGATACACATAGTAGCCTGC
20858722 ACATAGTACTACACATGTGACC
131 ACATAGTACTACACATGTGACC
*
20858744 ATTATC-TATCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAGCCTTCCGGT
1 ATTATCAT-TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTTCCGGT
* * * *
20858808 ACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTA-TCTAT-CGATACACGTAGTAGC
64 ACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-AAGCCT-TCCGATACACATAGTAGC
*
20858871 CTGCACTTAGTACTACACA
127 CTGCACATAGTACTACACA
20858890 CGTGTTTATA
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
151 1 0.01
152 49 0.38
153 78 0.60
154 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (152 bp):
ATTATCATTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGGTAC
ACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGATACACATAGTAGCCTGC
ACATAGTACTACACATGTGACC
Found at i:20866342 original size:12 final size:13
Alignment explanation
Indices: 20866312--20866344 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
20866302 AGCCTTTCGG
20866312 TACACATAGTAGCC
1 TACACATAGTA-CC
20866326 TACACATAGTA-C
1 TACACATAGTACC
20866338 TACACAT
1 TACACAT
20866345 GTGACCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
14 11 0.58
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (13 bp):
TACACATAGTACC
Found at i:20866373 original size:51 final size:51
Alignment explanation
Indices: 20866249--20866394 Score: 170
Period size: 51 Copynumber: 2.9 Consensus size: 51
20866239 CCGTGTAATT
* *
20866249 ATTATC-ATTCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACC
1 ATTATCTA-TCGATACACGTAGTAGCCTACACATAGTACTACACATGTGACC
* * * * *
20866300 A-AAGCCTTTCGGTACACATAGTAGCCTACACATAGTACTACACATGTGACC
1 ATTA-TCTATCGATACACGTAGTAGCCTACACATAGTACTACACATGTGACC
* * *
20866351 ATTATCTATCGATACATGTAGTAGCCTGCACTTAGTACTACACA
1 ATTATCTATCGATACACGTAGTAGCCTACACATAGTACTACACA
20866395 CGTGTTTATA
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
50 1 0.01
51 75 0.97
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (51 bp):
ATTATCTATCGATACACGTAGTAGCCTACACATAGTACTACACATGTGACC
Found at i:20875965 original size:26 final size:26
Alignment explanation
Indices: 20875930--20875981 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
20875920 AATGTGAAAG
*
20875930 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
20875956 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
20875982 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:20875999 original size:103 final size:105
Alignment explanation
Indices: 20875747--20876013 Score: 450
Period size: 105 Copynumber: 2.6 Consensus size: 105
20875737 TTGTATATAA
* *
20875747 AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
20875811 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
20875852 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
20875917 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
20875955 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
20876014 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
103 60 0.39
104 24 0.16
105 69 0.45
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:20882533 original size:22 final size:22
Alignment explanation
Indices: 20882486--20882534 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
20882476 TGTCATCGCC
* *
20882486 GCAACATCTCTTTCAATCTATT
1 GCAACATCTCTTTCAATCCATA
*
20882508 GCAACATCTCTTCTCCA-CCATA
1 GCAACATCTCTT-TCAATCCATA
20882530 GCAAC
1 GCAAC
20882535 CACATCCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.29, C:0.35, G:0.06, T:0.31
Consensus pattern (22 bp):
GCAACATCTCTTTCAATCCATA
Found at i:20884344 original size:13 final size:12
Alignment explanation
Indices: 20884326--20884359 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
20884316 GTTTTCCCTC
20884326 TTTTTTTCTATTT
1 TTTTTTTC-ATTT
20884339 TTTTTTTCATTT
1 TTTTTTTCATTT
20884351 TTTTTTTCA
1 TTTTTTTCA
20884360 AAATAATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTCATTT
Found at i:20888756 original size:9 final size:9
Alignment explanation
Indices: 20888729--20888765 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
20888719 TGAGTTTTCG
20888729 AATTCGAAT
1 AATTCGAAT
* *
20888738 AACTCAAAT
1 AATTCGAAT
20888747 AATTCGAAT
1 AATTCGAAT
20888756 AATTCGAAT
1 AATTCGAAT
20888765 A
1 A
20888766 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:20893431 original size:22 final size:24
Alignment explanation
Indices: 20893381--20893431 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
20893371 TTACATTGCT
20893381 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
20893406 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
20893427 TTTAT
1 TTTAT
20893432 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:20893626 original size:20 final size:20
Alignment explanation
Indices: 20893601--20893640 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20893591 AATATTTTCT
20893601 AGTAAATAATTTTACAGAAA
1 AGTAAATAATTTTACAGAAA
* *
20893621 AGTAAATCATTTTCCAGAAA
1 AGTAAATAATTTTACAGAAA
20893641 TTAATTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAATAATTTTACAGAAA
Found at i:20893655 original size:34 final size:34
Alignment explanation
Indices: 20893590--20893655 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
20893580 AAACATCAGA
*
20893590 AAATATTTTCTAGTAAATAATTTTACAGAAAAGT
1 AAATATTTTCCAGTAAATAATTTTACAGAAAAGT
*
20893624 AAATCATTTTCCAG-AAATTAA-TTTACGGAAAA
1 AAAT-ATTTTCCAGTAAA-TAATTTTACAGAAAA
20893656 CATTTTACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (34 bp):
AAATATTTTCCAGTAAATAATTTTACAGAAAAGT
Found at i:20899601 original size:20 final size:20
Alignment explanation
Indices: 20899576--20899616 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20899566 GAGTGGAAGG
20899576 ATTACCCAAGCACTAAGGGT
1 ATTACCCAAGCACTAAGGGT
20899596 ATTACCCAAGCACTAAGGGT
1 ATTACCCAAGCACTAAGGGT
20899616 A
1 A
20899617 AAGGTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATTACCCAAGCACTAAGGGT
Found at i:20899839 original size:13 final size:13
Alignment explanation
Indices: 20899821--20899845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20899811 AAATTATTAT
20899821 TAAAATAATTACA
1 TAAAATAATTACA
20899834 TAAAATAATTAC
1 TAAAATAATTAC
20899846 TAATCTAATC
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:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAATAATTACA
Found at i:20902076 original size:27 final size:27
Alignment explanation
Indices: 20902034--20902113 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
20902024 ATCTCTTAGT
*
20902034 TCGCCACAAAGCCTTCCATTTTTTGGA
1 TCGCCACAAAGGCTTCCATTTTTTGGA
* * *
20902061 TTGCCACAAAGGCTTCCATTTCTTAGA
1 TCGCCACAAAGGCTTCCATTTTTTGGA
*
20902088 TCGCCACAAAGGCTTCCAATTTTTGG
1 TCGCCACAAAGGCTTCCATTTTTTGG
20902114 CGTGATCACA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (27 bp):
TCGCCACAAAGGCTTCCATTTTTTGGA
Found at i:20911832 original size:17 final size:17
Alignment explanation
Indices: 20911810--20911847 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
20911800 GTGATAATAA
20911810 TGTGGATATTTTGGCCT
1 TGTGGATATTTTGGCCT
20911827 TGTGGATATTTTGGCCT
1 TGTGGATATTTTGGCCT
20911844 TGTG
1 TGTG
20911848 ACCTTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.32, T:0.47
Consensus pattern (17 bp):
TGTGGATATTTTGGCCT
Found at i:20913519 original size:4 final size:4
Alignment explanation
Indices: 20913510--20913550 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
20913500 ACTGTTTGTA
20913510 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG T
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG T
20913551 ATGTATGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTTG
Found at i:20947708 original size:27 final size:28
Alignment explanation
Indices: 20947659--20947722 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
20947649 GTGTTTTATT
*
20947659 TTAATTCATGTTTTAAATATGTCCTAG-
1 TTAATACATGTTTTAAATATGTCCTAGC
* *
20947686 TTAATACATGTTGTT-AATTTGTCTTAGC
1 TTAATACATGTT-TTAAATATGTCCTAGC
*
20947714 TTATTACAT
1 TTAATACAT
20947723 AATTTTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (28 bp):
TTAATACATGTTTTAAATATGTCCTAGC
Found at i:20949078 original size:33 final size:33
Alignment explanation
Indices: 20949041--20949107 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
20949031 TCGAAGAATC
20949041 ACACTATCCGAGGATCCTTTTGGTAGATTTTGT
1 ACACTATCCGAGGATCCTTTTGGTAGATTTTGT
*
20949074 ACACTATCCTAGGATCCTTTTGGTAGATTTTGT
1 ACACTATCCGAGGATCCTTTTGGTAGATTTTGT
20949107 A
1 A
20949108 TACATCTTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (33 bp):
ACACTATCCGAGGATCCTTTTGGTAGATTTTGT
Found at i:20950870 original size:89 final size:90
Alignment explanation
Indices: 20950777--20950961 Score: 237
Period size: 90 Copynumber: 2.1 Consensus size: 90
20950767 ATTTTTTTAA
* * *
20950777 AAAAAAAAGTAATTAAGCCCCTCCCTTTTTTAT-ACTTAATTGAGCACTTAAATTTTTAAAATGC
1 AAAAAAAAGTAATTAAGCCCCTCCCTTTTTTATCACTCAATTGAGCACTTAAACTTTCAAAATGC
* * *
20950841 ATCAAAAAGGCTCTCAAACTTGTTC
66 ATCAAAAAGACCCTCAAAATTGTTC
* * * * * * *
20950866 AAAAAAAAGTAATTAAGTCCCTGCTTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGC
1 AAAAAAAAGTAATTAAGCCCCTCCCTTTTTTATCACTCAATTGAGCACTTAAACTTTCAAAATGC
*
20950931 ATCAAAAAGACCCTCAAAATTTTTC
66 ATCAAAAAGACCCTCAAAATTGTTC
20950956 AAAAAA
1 AAAAAA
20950962 TTACAATTAA
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
89 29 0.36
90 52 0.64
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (90 bp):
AAAAAAAAGTAATTAAGCCCCTCCCTTTTTTATCACTCAATTGAGCACTTAAACTTTCAAAATGC
ATCAAAAAGACCCTCAAAATTGTTC
Found at i:20951056 original size:20 final size:20
Alignment explanation
Indices: 20951010--20951057 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
20951000 AATAACTAAT
* *
20951010 AAATTTTATAAAAATTATTA
1 AAATTTAATAAAAATTATAA
*
20951030 AATTTTAATAAAAA-TATGAA
1 AAATTTAATAAAAATTAT-AA
20951050 AAATTTAA
1 AAATTTAA
20951058 AATTTATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AAATTTAATAAAAATTATAA
Found at i:20951386 original size:28 final size:30
Alignment explanation
Indices: 20951346--20951418 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
20951336 ACTTTATAAA
*
20951346 ATTTTATAATTTTTTTAT-ATTTCTATA-T
1 ATTTCATAATTTTTTTATGATTTCTATAGT
*
20951374 ATTTCATAATTTTTTTTATGATTTTTATAGT
1 ATTTCATAA-TTTTTTTATGATTTCTATAGT
* *
20951405 TTTTCCTAATTTTT
1 ATTTCATAATTTTT
20951419 AATAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 8 0.21
29 9 0.24
30 13 0.34
31 8 0.21
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (30 bp):
ATTTCATAATTTTTTTATGATTTCTATAGT
Found at i:20957402 original size:15 final size:15
Alignment explanation
Indices: 20957379--20957426 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
20957369 TGTAAGACCT
20957379 TAATTAATAAAACCC
1 TAATTAATAAAACCC
** *
20957394 TCGTTAATAAAATCC
1 TAATTAATAAAACCC
20957409 TAATTAATAAAACCC
1 TAATTAATAAAACCC
20957424 TAA
1 TAA
20957427 AATCCCTGTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (15 bp):
TAATTAATAAAACCC
Found at i:20962654 original size:20 final size:21
Alignment explanation
Indices: 20962612--20962694 Score: 62
Period size: 21 Copynumber: 4.0 Consensus size: 21
20962602 CTTGAACACT
*
20962612 AAAAACCCTAACAATAAAACC
1 AAAAACCCTAACAACAAAACC
*
20962633 AAAAACTCTAA-AAC-AAACC
1 AAAAACCCTAACAACAAAACC
* * *
20962652 CAAAACCCTAATTAACATACACC
1 AAAAACCCTAA-CAACA-AAACC
* * *
20962675 CAAAACCCTAATAATAAAAC
1 AAAAACCCTAACAACAAAAC
20962695 TATTTTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
19 14 0.27
20 2 0.04
21 16 0.31
22 4 0.08
23 15 0.29
ACGTcount: A:0.58, C:0.29, G:0.00, T:0.13
Consensus pattern (21 bp):
AAAAACCCTAACAACAAAACC
Found at i:20962656 original size:19 final size:20
Alignment explanation
Indices: 20962613--20962688 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 20
20962603 TTGAACACTA
* * *
20962613 AAAACCCTAACAATAAAACCA
1 AAAACCCTAATAA-CAAACCC
*
20962634 AAAACTCTAA-AACAAACCC
1 AAAACCCTAATAACAAACCC
20962653 AAAACCCTAATTAACATACACCC
1 AAAACCCTAA-TAACA-A-ACCC
20962676 AAAACCCTAATAA
1 AAAACCCTAATAA
20962689 TAAAACTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 14 0.30
20 2 0.04
21 13 0.28
22 4 0.09
23 14 0.30
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (20 bp):
AAAACCCTAATAACAAACCC
Found at i:20965222 original size:20 final size:20
Alignment explanation
Indices: 20965166--20965230 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 20
20965156 CCAAAGAAAA
*
20965166 AAAACAATTAAAATAAGAAATTT
1 AAAACAA-T-AAATAA-ATATTT
20965189 AAGAACAA-ATAATAAATATTT
1 AA-AACAATA-AATAAATATTT
20965210 AAAACAATAAATAAATTATTT
1 AAAACAATAAATAAA-TATTT
20965231 TAATAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
20 11 0.30
21 14 0.38
22 5 0.14
23 2 0.05
24 5 0.14
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAACAATAAATAAATATTT
Found at i:20969925 original size:19 final size:19
Alignment explanation
Indices: 20969871--20969925 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
20969861 TTAAACTTAA
20969871 TCACTTTAATATTAAATCT
1 TCACTTTAATATTAAATCT
* * *
20969890 T-A-TTAAAATAATAAAATGT
1 TCACTT-TAAT-ATTAAATCT
20969909 TCACTTTAATATTAAAT
1 TCACTTTAATATTAAAT
20969926 TAATAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
17 2 0.07
18 4 0.15
19 15 0.56
20 4 0.15
21 2 0.07
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (19 bp):
TCACTTTAATATTAAATCT
Found at i:20976784 original size:15 final size:15
Alignment explanation
Indices: 20976760--20976791 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20976750 TATGCATGCA
*
20976760 AAATATAAAAGACAT
1 AAATACAAAAGACAT
20976775 AAATACAAAAGACAT
1 AAATACAAAAGACAT
20976790 AA
1 AA
20976792 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:20980040 original size:81 final size:82
Alignment explanation
Indices: 20979905--20980105 Score: 325
Period size: 81 Copynumber: 2.5 Consensus size: 82
20979895 CAAACTAATT
* * *
20979905 CTGTGATTGGCTAAGGCCCTACTGCATATTTGAAACTAATTCTGTGATGGGCTAAGGCCCTACTG
1 CTGTGATAGGCTAAGGCCCTACTGCATATTTGATACTGATTCTGTGATGGGCTAAGGCCCTACTG
*
20979970 CATATTTGATACT-ATA
66 CATATCTGATACTGATA
20979986 CTGTGATAGGCTAAGGCCCTACTGCATATTTGATACTGATAT-TGTGATGGGCTAAGGCCCTACT
1 CTGTGATAGGCTAAGGCCCTACTGCATATTTGATACTGAT-TCTGTGATGGGCTAAGGCCCTACT
20980050 GCATATCTGATACTGATA
65 GCATATCTGATACTGATA
* *
20980068 CTGTGATGGGCTAAGGCCCTACTGCGTATTTGATACTG
1 CTGTGATAGGCTAAGGCCCTACTGCATATTTGATACTG
20980106 TACTAAGATG
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
81 72 0.64
82 40 0.36
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (82 bp):
CTGTGATAGGCTAAGGCCCTACTGCATATTTGATACTGATTCTGTGATGGGCTAAGGCCCTACTG
CATATCTGATACTGATA
Found at i:20980105 original size:41 final size:41
Alignment explanation
Indices: 20979905--20980125 Score: 329
Period size: 41 Copynumber: 5.4 Consensus size: 41
20979895 CAAACTAATT
* * * *
20979905 CTGTGATTGGCTAAGGCCCTACTGCATATTTGAAACTAATT
1 CTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTGATA
20979946 CTGTGATGGGCTAAGGCCCTACTGCATATTTGATACT-ATA
1 CTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTGATA
*
20979986 CTGTGATAGGCTAAGGCCCTACTGCATATTTGATACTGATA
1 CTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTGATA
* *
20980027 TTGTGATGGGCTAAGGCCCTACTGCATATCTGATACTGATA
1 CTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTGATA
*
20980068 CTGTGATGGGCTAAGGCCCTACTGCGTATTTGATACTG-TA
1 CTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTGATA
** *
20980108 CTAAGATGGGTTAAGGCC
1 CTGTGATGGGCTAAGGCC
20980126 TAACCTGTTA
Statistics
Matches: 166, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 55 0.33
41 111 0.67
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (41 bp):
CTGTGATGGGCTAAGGCCCTACTGCATATTTGATACTGATA
Found at i:20980123 original size:122 final size:122
Alignment explanation
Indices: 20979906--20980125 Score: 341
Period size: 122 Copynumber: 1.8 Consensus size: 122
20979896 AAACTAATTC
* * *
20979906 TGTGATTGGCTAAGGCCCTACTGCATATTTGAAACTAATTCTGTGATGGGCTAAGGCCCTACTGC
1 TGTGATGGGCTAAGGCCCTACTGCATATCTGAAACTAATACTGTGATGGGCTAAGGCCCTACTGC
**
20979971 ATATTTGATACTATACTGTGATAGGCTAAGGCCCTACTGCATATTTGATACTGATAT
66 ATATTTGATACTATACTAAGATAGGCTAAGGCCCTACTGCATATTTGATACTGATAT
* *
20980028 TGTGATGGGCTAAGGCCCTACTGCATATCTGATACTGATACTGTGATGGGCTAAGGCCCTACTGC
1 TGTGATGGGCTAAGGCCCTACTGCATATCTGAAACTAATACTGTGATGGGCTAAGGCCCTACTGC
* * * *
20980093 GTATTTGATACTGTACTAAGATGGGTTAAGGCC
66 ATATTTGATACTATACTAAGATAGGCTAAGGCC
20980126 TAACCTGTTA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
122 87 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (122 bp):
TGTGATGGGCTAAGGCCCTACTGCATATCTGAAACTAATACTGTGATGGGCTAAGGCCCTACTGC
ATATTTGATACTATACTAAGATAGGCTAAGGCCCTACTGCATATTTGATACTGATAT
Found at i:20981651 original size:16 final size:17
Alignment explanation
Indices: 20981626--20981658 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20981616 AAATTCATGT
*
20981626 GAATGCTTTA-TAATAA
1 GAATGATTTATTAATAA
20981642 GAATGATTTATTAATAA
1 GAATGATTTATTAATAA
20981659 CAAGACAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.39
Consensus pattern (17 bp):
GAATGATTTATTAATAA
Found at i:20986758 original size:51 final size:51
Alignment explanation
Indices: 20986699--20987190 Score: 474
Period size: 51 Copynumber: 9.7 Consensus size: 51
20986689 TATCGATGAA
* * *
20986699 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * * * *
20986750 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGT
* * *
20986801 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * * * * * * *
20986852 CACATGTGTAGTACTAAGTCAAGACTACAATGTGTACCAAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGT
* *
20986903 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * * * * *
20986954 CACATGTGTAGTACTAAGTGAAGACTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGT
* * * * *
20987005 CACGTGTGTAGTACTGTGTGAAGGCTACAATGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * *
20987056 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATG--TTGGT
* ** *
20987107 CACGTGTGTAGTACTATGTGAAGGTTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
*
20987157 CACGTATGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
20987191 TATCAAATGA
Statistics
Matches: 351, Mismatches: 80, Indels: 21
0.78 0.18 0.05
Matches are distributed among these distances:
49 1 0.00
50 42 0.12
51 305 0.87
52 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
Found at i:20986880 original size:102 final size:102
Alignment explanation
Indices: 20986699--20987142 Score: 789
Period size: 102 Copynumber: 4.4 Consensus size: 102
20986689 TATCGATGAA
20986699 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
20986764 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGACTACAATGTGTACCGAGAAGCTTTGGT
20986801 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
20986866 TAAGTCAAGACTACAATGTGTACCAAGAAGCTTTGGT
66 TAAGTGAAGACTACAATGTGTACCGAGAAGCTTTGGT
*
20986903 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
20986968 TAAGTGAAGACTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGACTACAATGTGTACCGAGAAGCTTTGGT
* *
20987005 CACGTGTGTAGTACTGTGTGAAGGCTACAATGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
20987070 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGACTACAATGTGTACCGAGAAGCTTTGGT
* *
20987107 CACGTGTGTAGTACTATGTGAAGGTTACTACGTGAA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAA
20987143 CCGTAAAACT
Statistics
Matches: 326, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 326 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGACTACAATGTGTACCGAGAAGCTTTGGT
Found at i:20987457 original size:37 final size:38
Alignment explanation
Indices: 20987388--20987460 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
20987378 ATGTGTAGAA
* *
20987388 TTGAATTGAATATTGACTTGAAAATGACAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
20987426 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
20987461 ATTGTGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:20990823 original size:19 final size:19
Alignment explanation
Indices: 20990799--20990835 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20990789 TCCTTAAACT
20990799 AAAAATAAAATAAAACTAA
1 AAAAATAAAATAAAACTAA
* *
20990818 AAAAATAAGATGAAACTA
1 AAAAATAAAATAAAACTA
20990836 TAAGGCTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAATAAAATAAAACTAA
Found at i:20994253 original size:22 final size:22
Alignment explanation
Indices: 20994228--20994276 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
20994218 TAATTAGGGA
* * *
20994228 AATTATGGAAATATTATTTTGT
1 AATTATAGAAAAATTATTTCGT
20994250 AATTATAGAAAAATTATTTCGT
1 AATTATAGAAAAATTATTTCGT
20994272 AATTA
1 AATTA
20994277 ATTTATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (22 bp):
AATTATAGAAAAATTATTTCGT
Found at i:21007251 original size:45 final size:45
Alignment explanation
Indices: 21007187--21007374 Score: 195
Period size: 45 Copynumber: 4.2 Consensus size: 45
21007177 TACTACGTCT
* * *
21007187 ACCGGGTACCAGTGATTATAAAGGTGGTTGTTGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
* *
21007232 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTATGCTGGTTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
* ** * *
21007277 ACCGGGTA-CTATTGATTATGAAGGTCATTGCTATGTTCTGATTCC
1 ACCGGGTATC-ATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
* * * *
21007322 ACCGAGTATCATTGACTAT-AAGGATGG-TGCTATGTTCTGA-TCC
1 ACCGGGTATCATTGATTATAAAGG-TGGTTGCTGTGTGCTGATTCC
*
21007365 ACCGTGTATC
1 ACCGGGTATC
21007375 TGTTATTATT
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
43 12 0.10
44 18 0.15
45 92 0.75
46 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (45 bp):
ACCGGGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCC
Found at i:21014992 original size:16 final size:16
Alignment explanation
Indices: 21014971--21015002 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21014961 TTATATTTTG
21014971 TAAATGGACTTTTATT
1 TAAATGGACTTTTATT
21014987 TAAATGGACTTTTATT
1 TAAATGGACTTTTATT
21015003 AATTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
TAAATGGACTTTTATT
Found at i:21023066 original size:19 final size:19
Alignment explanation
Indices: 21023042--21023083 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
21023032 AATGATAGGA
*
21023042 GTGAGGTGGCAAGGTGGTG
1 GTGAGGTGGCAAGGTGATG
**
21023061 GTGAGGTGGTGAGGTGATG
1 GTGAGGTGGCAAGGTGATG
21023080 GTGA
1 GTGA
21023084 TGCAAAGCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.02, G:0.57, T:0.24
Consensus pattern (19 bp):
GTGAGGTGGCAAGGTGATG
Found at i:21036447 original size:23 final size:23
Alignment explanation
Indices: 21036415--21036458 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
21036405 TTACCCTAAC
*
21036415 CCTAAGCCTAATAA-AATAAAAAT
1 CCTAACCCTAA-AACAATAAAAAT
21036438 CCTAACCCTAAAACAATAAAA
1 CCTAACCCTAAAACAATAAAA
21036459 GCCTTAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.57, C:0.23, G:0.02, T:0.18
Consensus pattern (23 bp):
CCTAACCCTAAAACAATAAAAAT
Found at i:21038159 original size:20 final size:20
Alignment explanation
Indices: 21038134--21038194 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
21038124 AATTAAGTTT
21038134 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATTAA
*
21038154 ATTTAAATTAAAAATA-TAA
1 ATTTAAAATAAAAATATTAA
* **
21038173 AATTAAATATTTAAATATTAA
1 ATTTAAA-ATAAAAATATTAA
21038194 A
1 A
21038195 AAATCTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 9 0.26
20 21 0.62
21 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTAAAATAAAAATATTAA
Found at i:21038161 original size:19 final size:18
Alignment explanation
Indices: 21038134--21038181 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
21038124 AATTAAGTTT
21038134 ATTTAAAATAAAAATATTAA
1 ATTT-AAATAAAAATA-TAA
21038154 ATTTAAATTAAAAATATAA
1 ATTTAAA-TAAAAATATAA
*
21038173 AATTAAATA
1 ATTTAAATA
21038182 TTTAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 12 0.46
20 12 0.46
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTTAAATAAAAATATAA
Found at i:21038177 original size:14 final size:14
Alignment explanation
Indices: 21038158--21038196 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
21038148 TATTAAATTT
21038158 AAATTAAAAATATA
1 AAATTAAAAATATA
* *
21038172 AAATTAAATATTTA
1 AAATTAAAAATATA
21038186 AATATTAAAAA
1 AA-ATTAAAAA
21038197 ATCTTTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATTAAAAATATA
Found at i:21038360 original size:22 final size:22
Alignment explanation
Indices: 21038315--21038361 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21038305 TAATTATTGA
* *
21038315 AAATTTTTAAATATATATTTTT
1 AAATTTTTAAATATATAATGTT
* *
21038337 AAATTTTTAAATTTTTAATGTT
1 AAATTTTTAAATATATAATGTT
21038359 AAA
1 AAA
21038362 CCATTCCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AAATTTTTAAATATATAATGTT
Found at i:21038605 original size:25 final size:25
Alignment explanation
Indices: 21038563--21038610 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
21038553 TTTATTTTTA
* *
21038563 TATATTATTTTAATTTTTTTAAATT
1 TATATTATTTTAAATTTTATAAATT
21038588 TATA-TATTTTAGAATTTTATAAA
1 TATATTATTTTA-AATTTTATAAA
21038611 AAAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TATATTATTTTAAATTTTATAAATT
Found at i:21038674 original size:25 final size:26
Alignment explanation
Indices: 21038641--21038692 Score: 97
Period size: 25 Copynumber: 2.0 Consensus size: 26
21038631 GAATGATTTA
21038641 TATATTATATATGA-TTTTTTTACAT
1 TATATTATATATGATTTTTTTTACAT
21038666 TATATTATATATGATTTTTTTTACAT
1 TATATTATATATGATTTTTTTTACAT
21038692 T
1 T
21038693 TCTAATCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (26 bp):
TATATTATATATGATTTTTTTTACAT
Found at i:21038676 original size:27 final size:27
Alignment explanation
Indices: 21038638--21038692 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
21038628 TTTGAATGAT
21038638 TTATATATTATATATGA-TTTTTTTACA
1 TTATAT-TTATATATGATTTTTTTTACA
21038665 TTATA-TTATATATGATTTTTTTTACA
1 TTATATTTATATATGATTTTTTTTACA
21038691 TT
1 TT
21038693 TCTAATCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 10 0.37
26 12 0.44
27 5 0.19
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (27 bp):
TTATATTTATATATGATTTTTTTTACA
Found at i:21038978 original size:23 final size:23
Alignment explanation
Indices: 21038952--21038999 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
21038942 GTATTTTTGC
21038952 TTCCTTGAATTACTTAATTTTTA
1 TTCCTTGAATTACTTAATTTTTA
21038975 TTCCTTGAATTACTTAATTTTTA
1 TTCCTTGAATTACTTAATTTTTA
21038998 TT
1 TT
21039000 TACCTCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.58
Consensus pattern (23 bp):
TTCCTTGAATTACTTAATTTTTA
Found at i:21039465 original size:31 final size:31
Alignment explanation
Indices: 21039427--21039486 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
21039417 AGCAAAGCGC
21039427 GCTGACGTGGCCGCGATTTCCTAGCACATTT
1 GCTGACGTGGCCGCGATTTCCTAGCACATTT
21039458 GCTGACGTGGCCGCGATTTCCTAGCACAT
1 GCTGACGTGGCCGCGATTTCCTAGCACAT
21039487 GCCGTAGTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.27
Consensus pattern (31 bp):
GCTGACGTGGCCGCGATTTCCTAGCACATTT
Found at i:21043075 original size:116 final size:115
Alignment explanation
Indices: 21042835--21043077 Score: 407
Period size: 116 Copynumber: 2.1 Consensus size: 115
21042825 TAAGTTTGTG
* *
21042835 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATGATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATGATCAAATTATACAAAATTATTAA
** *
21042900 TTGTTGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
66 TTGTTGTACCAGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
*
21042950 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATACAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATGATCAAATTATACAAAATTATTAA
21043014 TTGTTAGTACCAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTT-GTACCA-GAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
21043066 AAATTATTAATT
1 AAATTATTAATT
21043078 TAGTTTAGGG
Statistics
Matches: 120, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
114 32 0.27
115 40 0.33
116 48 0.40
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (115 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATGATCAAATTATACAAAATTATTAA
TTGTTGTACCAGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
Found at i:21043115 original size:24 final size:23
Alignment explanation
Indices: 21043071--21043546 Score: 267
Period size: 23 Copynumber: 21.2 Consensus size: 23
21043061 AAGTAAAATT
* *
21043071 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
21043094 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
21043117 AGTT-AA--GGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* *
21043138 AGTT-AA--GGGTTTAGTGTTTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
* *
21043160 AGTT-AA--GGGTTTGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
** *
21043181 AGTT-AAGGAGGTTTGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* *
21043204 AGTT-AA--GGGTTTAGTGTTTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
* *
21043226 AGTT-AAGT--GTTAGAGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*** *
21043247 AGTT-AAGGGGGTTAAGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
21043270 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
21043292 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*** *
21043315 AGTT-AAGGGGGTTAAGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
21043338 AGTT---TAAGGTTTAGGGTTTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
21043360 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
21043383 AGTT-AA--GGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* * *
21043404 ATTTAATTAGTTTAGGGGTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
21043427 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
21043450 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
21043473 AGTT-AATTAGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* * *
21043496 AGTT-AA--GGGTTTAAGATTTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
21043518 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
21043541 AGTTAA
1 A-TTAA
21043547 GGGTATTAAT
Statistics
Matches: 381, Mismatches: 43, Indels: 57
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.01
21 86 0.23
22 76 0.20
23 194 0.51
24 20 0.05
25 3 0.01
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (23 bp):
ATTAAATTAGGTTAGGGTTTTTA
Found at i:21043225 original size:45 final size:44
Alignment explanation
Indices: 21043082--21043546 Score: 423
Period size: 45 Copynumber: 10.4 Consensus size: 44
21043072 TTAATTTAGT
*
21043082 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTT-AATGAGGTTAGGGTTTTTAAGTTAAGGG
*
21043126 TTAGGGTTTTTAAGTTAA-G-GGTTTAGTGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAATGAGG-TTAGGGTTTTTAAGTTAAGGG
* * *
21043169 TTTGGGTTTTTAAGTTAAGGAGGTTTGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAGTTAAGGG
* * *
21043213 TTTAGTGTTTTTAAGTTAA-G-TGTTAGAGTTTTTAAGTTAAGGGGG
1 -TTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAGTTAA--GGG
* * * *
21043258 TTAAGGTTTTTAAGTTTA-G-GGTTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATGAGG-TTAGGGTTTTTAAGTTAA--GGG
* * * *
21043303 TTAGGGTTTTTAAGTTAAGGGGGTTAAGGTTTTTAAGTTTAAGGT
1 TTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAG-TTAAGGG
*
21043348 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTT-AATGAGGTTAGGGTTTTTAAGTTAAGGG
* * * * *
21043392 TTAGGGTTTTTAATTTAATTAGTTTAGGGGTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAGTT-AA--GGG
* * *
21043438 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAGTTAA--GGG
* * *
21043484 TTAGGGTTTTTAAGTTAA-G-GGTTTAAGATTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTTAATGAGG-TTAGGGTTTTTAAGTT-AA--GGG
21043529 TTAGGGTTTTTAAGTTAA
1 TTAGGGTTTTTAAGTTAA
21043547 GGGTATTAAT
Statistics
Matches: 363, Mismatches: 39, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
42 2 0.01
43 56 0.15
44 98 0.27
45 126 0.35
46 73 0.20
47 8 0.02
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (44 bp):
TTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAGTTAAGGG
Found at i:21043528 original size:68 final size:69
Alignment explanation
Indices: 21043072--21043546 Score: 458
Period size: 66 Copynumber: 7.1 Consensus size: 69
21043062 AGTAAAATTA
21043072 TTAATTTA-GTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAA-G-GGTTAGGGT
1 TTAA-TTAGGTTTAGGGTTTTTAAGTT-AA-TAGGTTAGGGTTTTTAAGTTAAGGAGGTTAGGGT
21043133 TTTTAAG
63 TTTTAAG
* * * * *
21043140 TTAA--GGGTTTAGTGTTTTTAAGTTAA-GGGTTTGGGTTTTTAAGTTAAGGAGGTTTGGGTTTT
1 TTAATTAGGTTTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAAGGAGGTTAGGGTTTT
21043202 TAAG
66 TAAG
* * * * *
21043206 TTAA--GGGTTTAGTGTTTTTAAGTT-A-AGTGTTAGAGTTTTTAAGTTAAGGGGGTTAAGGTTT
1 TTAATTAGGTTTAGGGTTTTTAAGTTAATAG-GTTAGGGTTTTTAAGTTAAGGAGGTTAGGGTTT
21043267 TTAAG
65 TTAAG
* * *
21043272 -T--TTAGGGTTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAAGGTT
1 TTAATTA-GGTTTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAGTTAAGGAGGTTAGGGTT
21043334 TTTAAG
64 TTTAAG
*
21043340 TT--TAAGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAA-G-GGTTAGGGTT
1 TTAATTAGGTTTAGGGTTTTTAAGTT-AA-TAGGTTAGGGTTTTTAAGTTAAGGAGGTTAGGGTT
*
21043400 TTTAAT
64 TTTAAG
* * **
21043406 TTAATTA-GTTTAGGGGTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTT
1 TTAATTAGGTTTAGGGTTTTTAAGTT-AA-TAGGTTAGGGTTTTTAAGTTAAGGAGGTTAGGGTT
21043469 TTTAAG
64 TTTAAG
* * * **
21043475 TTAATTAGG-TTAGGGTTTTTAAGTTAA-GGGTTTAAGATTTTTAA-TTAAATTAGGTTAGGGTT
1 TTAATTAGGTTTAGGGTTTTTAAGTTAATAGG-TTAGGGTTTTTAAGTT-AAGGAGGTTAGGGTT
21043537 TTTAAG
64 TTTAAG
21043543 TTAA
1 TTAA
21043547 GGGTATTAAT
Statistics
Matches: 359, Mismatches: 27, Indels: 42
0.84 0.06 0.10
Matches are distributed among these distances:
64 19 0.05
65 4 0.01
66 121 0.34
67 51 0.14
68 120 0.33
69 41 0.11
70 3 0.01
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.48
Consensus pattern (69 bp):
TTAATTAGGTTTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAGTTAAGGAGGTTAGGGTTTT
TAAG
Found at i:21043617 original size:23 final size:23
Alignment explanation
Indices: 21043591--21043634 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
21043581 TAAAAAATTT
21043591 CTATTTTATTACATCAAATAAAC
1 CTATTTTATTACATCAAATAAAC
21043614 CTATTTTATTACATCAAATAA
1 CTATTTTATTACATCAAATAA
21043635 TATCAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (23 bp):
CTATTTTATTACATCAAATAAAC
Found at i:21044086 original size:18 final size:18
Alignment explanation
Indices: 21044063--21044102 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
21044053 GACTCGGAAA
*
21044063 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
21044081 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
21044099 AGGA
1 AGGA
21044103 AACGCACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:21044763 original size:7 final size:7
Alignment explanation
Indices: 21044753--21044777 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21044743 TTATATACAT
21044753 AATACTA
1 AATACTA
21044760 AATACTA
1 AATACTA
21044767 AATACTA
1 AATACTA
21044774 AATA
1 AATA
21044778 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:21044984 original size:20 final size:20
Alignment explanation
Indices: 21044947--21044984 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21044937 TTTATTTTTA
*
21044947 AAAATCTACATAATAATTAT
1 AAAATCTACATAAAAATTAT
21044967 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
21044985 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTAT
Found at i:21045897 original size:11 final size:11
Alignment explanation
Indices: 21045881--21045905 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21045871 TTTACGGTTT
21045881 AAAAAAATTTA
1 AAAAAAATTTA
21045892 AAAAAAATTTA
1 AAAAAAATTTA
21045903 AAA
1 AAA
21045906 TTATTTAAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAAAATTTA
Found at i:21045904 original size:21 final size:21
Alignment explanation
Indices: 21045878--21045917 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21045868 ATTTTTACGG
21045878 TTTAAAAAAATTTAAAAAAAA
1 TTTAAAAAAATTTAAAAAAAA
**
21045899 TTTAAAATTATTTAAAAAA
1 TTTAAAAAAATTTAAAAAA
21045918 GGGAGTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTAAAAAAATTTAAAAAAAA
Found at i:21045916 original size:11 final size:10
Alignment explanation
Indices: 21045878--21045917 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
21045868 ATTTTTACGG
21045878 TTTAAAAAAA
1 TTTAAAAAAA
21045888 TTTAAAAAAAA
1 TTT-AAAAAAA
**
21045899 TTTAAAATTA
1 TTTAAAAAAA
21045909 TTTAAAAAA
1 TTTAAAAAA
21045918 GGGAGTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:21045939 original size:11 final size:11
Alignment explanation
Indices: 21045923--21045962 Score: 80
Period size: 11 Copynumber: 3.6 Consensus size: 11
21045913 AAAAAGGGAG
21045923 TTAAGAGGAAC
1 TTAAGAGGAAC
21045934 TTAAGAGGAAC
1 TTAAGAGGAAC
21045945 TTAAGAGGAAC
1 TTAAGAGGAAC
21045956 TTAAGAG
1 TTAAGAG
21045963 AATTTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.20
Consensus pattern (11 bp):
TTAAGAGGAAC
Found at i:21046011 original size:14 final size:11
Alignment explanation
Indices: 21045968--21046007 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
21045958 AAGAGAATTT
21045968 TTGA-AGGAAA
1 TTGAGAGGAAA
21045978 TTGAGAGGAAA
1 TTGAGAGGAAA
21045989 TTGAGAGGAAA
1 TTGAGAGGAAA
21046000 TTTGAGAG
1 -TTGAGAG
21046008 AGGATTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 17 0.61
12 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:21046761 original size:24 final size:24
Alignment explanation
Indices: 21046721--21046770 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
21046711 ATATTTTAAT
21046721 AATTTTTTTAAAAATAA-AATAAA
1 AATTTTTTTAAAAATAATAATAAA
* * *
21046744 AATTTATTTTATATATAATATTAAA
1 AATTT-TTTTAAAAATAATAATAAA
21046769 AA
1 AA
21046771 ACAAAAAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 5 0.23
24 10 0.45
25 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AATTTTTTTAAAAATAATAATAAA
Found at i:21048729 original size:3 final size:3
Alignment explanation
Indices: 21048721--21048746 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21048711 TTCCCAGTCT
21048721 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
21048747 TATAGAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21055221 original size:87 final size:88
Alignment explanation
Indices: 21055075--21055248 Score: 244
Period size: 87 Copynumber: 2.0 Consensus size: 88
21055065 TGAGAATTTC
* * * * *
21055075 TCGCGGTTGATATCTCGAAACCATGCCAATCTCAACATCAAAAATTTTAGGGCGTTACAAGCTCG
1 TCGCGGTTGAAATCTCGAAACCATGCAAACCCCAACATCAAAAATTTTAGGGCATTACAAGCTCG
21055140 AGCTATGTCTT-TTGTTTTTTGA
66 AGCTATGTCTTATTGTTTTTTGA
* *
21055162 TCGCGGTTGAAATCTC-AGAACCGTGCAAACCCCAACATCTAAAATTTTAGGGCATTACAAGCTC
1 TCGCGGTTGAAATCTCGA-AACCATGCAAACCCCAACATCAAAAATTTTAGGGCATTACAAGCTC
* *
21055226 GCGCTATGTCTTATTTTTTTTTG
65 GAGCTATGTCTTATTGTTTTTTG
21055249 CAAACATGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
86 1 0.01
87 66 0.87
88 9 0.12
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (88 bp):
TCGCGGTTGAAATCTCGAAACCATGCAAACCCCAACATCAAAAATTTTAGGGCATTACAAGCTCG
AGCTATGTCTTATTGTTTTTTGA
Found at i:21062899 original size:26 final size:26
Alignment explanation
Indices: 21062870--21062924 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
21062860 AAAATAATAT
21062870 ATACTTAGTTTTAATAACTGCATTAG
1 ATACTTAGTTTTAATAACTGCATTAG
21062896 ATACTTAGTTTTAATAACTGCATTAG
1 ATACTTAGTTTTAATAACTGCATTAG
21062922 ATA
1 ATA
21062925 ATAGATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (26 bp):
ATACTTAGTTTTAATAACTGCATTAG
Found at i:21070303 original size:15 final size:15
Alignment explanation
Indices: 21070283--21070322 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
21070273 ATTCATTTAA
*
21070283 TTCACGATTGTCATT
1 TTCACGATTCTCATT
21070298 TTCACGATTCTCATT
1 TTCACGATTCTCATT
21070313 TTCACGATTC
1 TTCACGATTC
21070323 AATTCAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.45
Consensus pattern (15 bp):
TTCACGATTCTCATT
Found at i:21074197 original size:16 final size:17
Alignment explanation
Indices: 21074164--21074197 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
21074154 TCGAAAGTTA
21074164 AAAATATTCTGATTTTG
1 AAAATATTCTGATTTTG
21074181 AAAATATTCTG-TTTTG
1 AAAATATTCTGATTTTG
21074197 A
1 A
21074198 TAAAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
AAAATATTCTGATTTTG
Found at i:21080091 original size:38 final size:38
Alignment explanation
Indices: 21080040--21080115 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
21080030 TTTTTAGGGA
21080040 AAGGATTAAATGATAAAGTAAGGGAAACATGGGTGATT
1 AAGGATTAAATGATAAAGTAAGGGAAACATGGGTGATT
21080078 AAGGATTAAATGATAAAGTAAGGGAAACATGGGTGATT
1 AAGGATTAAATGATAAAGTAAGGGAAACATGGGTGATT
21080116 GAAAGTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.03, G:0.29, T:0.24
Consensus pattern (38 bp):
AAGGATTAAATGATAAAGTAAGGGAAACATGGGTGATT
Found at i:21083738 original size:17 final size:17
Alignment explanation
Indices: 21083718--21083751 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21083708 TGATAAACAA
21083718 TATTGCCTGGCGGACAC
1 TATTGCCTGGCGGACAC
* *
21083735 TATTGCTTGGTGGACAC
1 TATTGCCTGGCGGACAC
21083752 AGTTCATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (17 bp):
TATTGCCTGGCGGACAC
Found at i:21086708 original size:29 final size:29
Alignment explanation
Indices: 21086662--21086810 Score: 129
Period size: 29 Copynumber: 5.1 Consensus size: 29
21086652 TGTGTTAAAT
* *
21086662 GATGGTCGTAACCGTCCCTTTTCATATTC
1 GATGGTCGTAACCATCCCTTTTCATAATC
* * *
21086691 GATTGTCGAAACCATCCCCTTTCATTAATC
1 GATGGTCGTAACCATCCCTTTTCA-TAATC
* * *
21086721 GATGGTCGTCACCATCCCTTTTCATAGTT
1 GATGGTCGTAACCATCCCTTTTCATAATC
* * * * *
21086750 AATGGTTGTCACCATCCTTTTTCATCATC
1 GATGGTCGTAACCATCCCTTTTCATAATC
* * *
21086779 GATAGCCG-AAGCTATCCCTTTTCATAATC
1 GATGGTCGTAA-CCATCCCTTTTCATAATC
21086808 GAT
1 GAT
21086811 AGCCAAAGCT
Statistics
Matches: 93, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
28 1 0.01
29 68 0.73
30 24 0.26
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (29 bp):
GATGGTCGTAACCATCCCTTTTCATAATC
Found at i:21086811 original size:29 final size:29
Alignment explanation
Indices: 21086763--21086822 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
21086753 GGTTGTCACC
* * *
21086763 ATCCTTTTTCATCATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
21086792 ATCCCTTTTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
21086821 AT
1 AT
21086823 AGCCGTTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCAAAGCT
Found at i:21092991 original size:18 final size:18
Alignment explanation
Indices: 21092968--21093002 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21092958 GTGGCTCCAT
*
21092968 TTTATCTTCTGATCTCAA
1 TTTATCTTCCGATCTCAA
21092986 TTTATCTTCCGATCTCA
1 TTTATCTTCCGATCTCA
21093003 CTGATTAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.26, G:0.06, T:0.49
Consensus pattern (18 bp):
TTTATCTTCCGATCTCAA
Found at i:21107188 original size:17 final size:20
Alignment explanation
Indices: 21107152--21107190 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
21107142 CGCGAGTTCC
21107152 TTTTAGCCTAGATCTAATTA
1 TTTTAGCCTAGATCTAATTA
21107172 TTTTA-CCTA-AT-TAATTA
1 TTTTAGCCTAGATCTAATTA
21107189 TT
1 TT
21107191 GATGCAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 4 0.21
20 5 0.26
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTAGCCTAGATCTAATTA
Found at i:21120799 original size:20 final size:20
Alignment explanation
Indices: 21120774--21120823 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
21120764 ATTTTGTGAT
21120774 GAGGTATCA-AAACTTGGTAA
1 GAGGTATCAGAAAC-TGGTAA
*
21120794 GAGGTATTAGAAACTGGTAA
1 GAGGTATCAGAAACTGGTAA
21120814 GAGGTATCAG
1 GAGGTATCAG
21120824 TACTTTGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (20 bp):
GAGGTATCAGAAACTGGTAA
Found at i:21127899 original size:17 final size:17
Alignment explanation
Indices: 21127879--21127947 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 17
21127869 AAAATAATAT
21127879 TATTTTAA-TAGATTTAA
1 TATTTTAATTA-ATTTAA
21127896 TA-TTTAATTTAATTTAA
1 TATTTTAA-TTAATTTAA
* *
21127913 TA-TTTATCTTAA--TAG
1 TATTTTA-ATTAATTTAA
21127928 TATTTT-ATTAATTTAA
1 TATTTTAATTAATTTAA
21127944 TATT
1 TATT
21127948 AAAGTGGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
14 4 0.10
15 4 0.10
16 14 0.33
17 18 0.43
18 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTTTAATTAATTTAA
Found at i:21127987 original size:68 final size:72
Alignment explanation
Indices: 21127892--21128025 Score: 195
Period size: 68 Copynumber: 1.9 Consensus size: 72
21127882 TTTAATAGAT
* * *
21127892 TTAATATTTAATTTAATTTAATATTTATC-T-TA-AT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATATTAAAGT
21127953 GGTTATC
66 GGTTATC
* *
21127960 TTAATATTAAATTTAATTTAATTTTTATCTTGTAGATAAATATTCTATTAATTTAATGTTAAAGT
1 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATATTAAAGT
21128025 G
66 G
21128026 ATTAAGTTGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
68 27 0.47
69 1 0.02
70 2 0.04
71 2 0.04
72 25 0.44
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (72 bp):
TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATATTAAAGT
GGTTATC
Found at i:21141104 original size:66 final size:66
Alignment explanation
Indices: 21140965--21141142 Score: 196
Period size: 66 Copynumber: 2.6 Consensus size: 66
21140955 ATAGCGGAAC
* * * *
21140965 TGCATTCATGAGCAAAGTGTTCTCCTTCTCCACACTTGTAGCATAAGCTAGATGCTGCAGTACCA
1 TGCATTCATGTGCAAA--G-TCTCCTCCTCCACACTTGTAGCATAAACTAGATGATGCAGTACCA
**
21141030 GTGG
63 GTAA
* * *
21141034 TGCATT-GTCGTGCAAAGTGTCCTCCTCCACACTTGTAGTATAAACTAGATGATGCAGTACCAGT
1 TGCATTCAT-GTGCAAAGTCTCCTCCTCCACACTTGTAGCATAAACTAGATGATGCAGTACCAGT
21141098 AA
65 AA
*
21141100 TGCATTCATGTGCAAAGTCCCCTCCTTCACCACACTTGTAGCA
1 TGCATTCATGTGCAAAGTCTCCTCC-T--CCACACTTGTAGCA
21141143 CAAGCTAGGT
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
66 62 0.68
67 3 0.03
68 1 0.01
69 25 0.27
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (66 bp):
TGCATTCATGTGCAAAGTCTCCTCCTCCACACTTGTAGCATAAACTAGATGATGCAGTACCAGTA
A
Found at i:21154931 original size:6 final size:6
Alignment explanation
Indices: 21154920--21154947 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21154910 GTGGCTATCT
21154920 TACAAG TACAAG TACAAG TACAAG TACA
1 TACAAG TACAAG TACAAG TACAAG TACA
21154948 TAAGGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (6 bp):
TACAAG
Found at i:21158922 original size:45 final size:45
Alignment explanation
Indices: 21158828--21159106 Score: 253
Period size: 45 Copynumber: 6.5 Consensus size: 45
21158818 AGGTATAAGG
* * * * * *
21158828 TATATATAATAATTGTCGGTTTTACCGACTAGTGCTGGG--CACA
1 TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
* * *
21158871 TATATATAATATTTGTTAGTTTCACTGACTAATGCCGGGCACACA
1 TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
* ** *
21158916 CATATATAATATTTGTCAGTTTCACCAACCAATGTTGGGCACACA
1 TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
* * *
21158961 TATATATAATATTTGTCGGTTTCATTGACCAGTGCTGGGCACAC-
1 TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
* * * *
21159005 ---AT-T-A-ATTTGTCAGTTTTACCGACCAGTGCT-GAC-CACA
1 TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
* *
21159042 TATATATAATAATTGTC-GATTTCACTGACCAATGTTGGGCACAC-
1 TATATATAATATTTGTCAG-TTTCACTGACCAATGCTGGGCACACA
21159086 -ATATATAATATTTGTCAGTTT
1 TATATATAATATTTGTCAGTTT
21159107 GACCGGCTAG
Statistics
Matches: 190, Mismatches: 33, Indels: 26
0.76 0.13 0.10
Matches are distributed among these distances:
36 3 0.02
37 2 0.01
38 22 0.12
39 1 0.01
40 3 0.02
41 3 0.02
42 2 0.01
43 69 0.36
44 3 0.02
45 82 0.43
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (45 bp):
TATATATAATATTTGTCAGTTTCACTGACCAATGCTGGGCACACA
Found at i:21159124 original size:43 final size:43
Alignment explanation
Indices: 21158829--21159111 Score: 254
Period size: 43 Copynumber: 6.6 Consensus size: 43
21158819 GGTATAAGGT
* * * * *
21158829 ATATATAATAATTGTCGGTTTTACCGACTAGTGCTGGGCACAT
1 ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGGCACAC
* * * * *
21158872 ATATATAATATTTGTTAGTTTCACTGACTAATGCCGGGCACACAC
1 ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGG--CACAC
* * *
21158917 ATATATAATATTTGTCAGTTTCACCAACCAATGTTGGGCACAC
1 ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGGCACAC
* **
21158960 ATATATATAATATTTGTCGGTTTCATTGACCAGTGCTGGGCACAC
1 --ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGGCACAC
* ** *
21159005 --AT-T-A-ATTTGTCAGTTTTACCGACCAGTGCTGACCACAT
1 ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGGCACAC
* * * *
21159043 ATATATAATAATTGTC-GATTTCACTGACCAATGTTGGGCACAC
1 ATATATAATATTTGTCAG-TTTCACCGACCAGTGCTGGGCACAC
*
21159086 ATATATAATATTTGTCAGTTTGACCG
1 ATATATAATATTTGTCAGTTTCACCG
21159112 GCTAGCGTTG
Statistics
Matches: 191, Mismatches: 38, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
38 27 0.14
39 1 0.01
40 3 0.02
41 3 0.02
42 2 0.01
43 81 0.42
44 1 0.01
45 73 0.38
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (43 bp):
ATATATAATATTTGTCAGTTTCACCGACCAGTGCTGGGCACAC
Found at i:21172606 original size:18 final size:18
Alignment explanation
Indices: 21172583--21172618 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21172573 AAAGACAAAA
*
21172583 ATTAATGATGTTTGAACT
1 ATTAATGATGTTTAAACT
21172601 ATTAATGATGTTTAAACT
1 ATTAATGATGTTTAAACT
21172619 TAAGTAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (18 bp):
ATTAATGATGTTTAAACT
Found at i:21174963 original size:28 final size:28
Alignment explanation
Indices: 21174900--21175137 Score: 388
Period size: 28 Copynumber: 8.5 Consensus size: 28
21174890 ATATTAAGTC
*
21174900 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
21174927 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
21174955 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
21174983 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
21175011 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
21175039 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
21175067 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
21175095 TGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
21175124 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21175138 CAATCTCATG
Statistics
Matches: 197, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.11
28 157 0.80
29 18 0.09
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21199449 original size:50 final size:50
Alignment explanation
Indices: 21199336--21199528 Score: 233
Period size: 50 Copynumber: 3.8 Consensus size: 50
21199326 GATAATAACA
* * *** ** *
21199336 TGCCAAAGTCATGTCCCAGACATGGTCTTACCTAGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* * * **
21199387 TGCCCATGCCATGTCCCAAACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
21199437 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
21199487 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
21199529 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 95 0.77
51 29 0.23
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:21224430 original size:14 final size:14
Alignment explanation
Indices: 21224411--21224438 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21224401 TCAACAAAGA
21224411 ATAAGAGCTTTGGT
1 ATAAGAGCTTTGGT
21224425 ATAAGAGCTTTGGT
1 ATAAGAGCTTTGGT
21224439 TTTGACTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
ATAAGAGCTTTGGT
Found at i:21237343 original size:20 final size:21
Alignment explanation
Indices: 21237315--21237353 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
21237305 CAATTCTTCT
21237315 TTTCCTTTCTTTTT-TTTTGA
1 TTTCCTTTCTTTTTCTTTTGA
*
21237335 TTTCTTTTCTTTTTCTTTT
1 TTTCCTTTCTTTTTCTTTT
21237354 TTATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTCCTTTCTTTTTCTTTTGA
Found at i:21237371 original size:26 final size:26
Alignment explanation
Indices: 21237320--21237371 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
21237310 CTTCTTTTCC
*
21237320 TTTCTTTTTTTTTGATTTCTTTTCTT
1 TTTCTTTTTTTTTGATTTCTTCTCTT
*
21237346 TTTCTTTTTTATTTTATTT-TTCTCTT
1 TTTCTTTTTT-TTTGATTTCTTCTCTT
21237372 GGTCACTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.81
Consensus pattern (26 bp):
TTTCTTTTTTTTTGATTTCTTCTCTT
Found at i:21244280 original size:41 final size:41
Alignment explanation
Indices: 21244187--21244293 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 41
21244177 TCTTAACATG
** * * * * *
21244187 ATACACCGGCAGGAAGCCTACTAGCCTTAAAGCCTGATATG
1 ATACACCGGCATAAAGCCTGCTAGGCGTAAAGCCTGAAATA
*
21244228 ATACACCGGCATTAAGCCTGCTAGGCGTAAAGCCTGAAATA
1 ATACACCGGCATAAAGCCTGCTAGGCGTAAAGCCTGAAATA
*
21244269 ATTCACCGGCATAAAGCCTGCTAGG
1 ATACACCGGCATAAAGCCTGCTAGG
21244294 TTGAAAGGTC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (41 bp):
ATACACCGGCATAAAGCCTGCTAGGCGTAAAGCCTGAAATA
Found at i:21249192 original size:119 final size:120
Alignment explanation
Indices: 21249016--21249238 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
21249006 TACTCGTTCA
* * * *
21249016 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
*
21249081 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* *
21249136 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
21249198 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
21249239 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:21249238 original size:40 final size:40
Alignment explanation
Indices: 21248995--21249238 Score: 291
Period size: 40 Copynumber: 6.1 Consensus size: 40
21248985 CGGAATTTAA
** *
21248995 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21249035 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21249075 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21249115 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21249154 CCGGA-ATTAGTAACTCACACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21249194 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21249234 CCGGA
1 CCGGA
21249239 CATCATTCAA
Statistics
Matches: 178, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 133 0.75
41 11 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21271424 original size:14 final size:14
Alignment explanation
Indices: 21271405--21271448 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
21271395 AAACATATTT
21271405 AAAACATAACTTAG
1 AAAACATAACTTAG
*
21271419 AAAACATAACTTGG
1 AAAACATAACTTAG
*
21271433 AAAA-ATATCTTA-
1 AAAACATAACTTAG
21271445 AAAA
1 AAAA
21271449 AGTATCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 4 0.15
13 6 0.22
14 17 0.63
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAACTTAG
Found at i:21271473 original size:41 final size:41
Alignment explanation
Indices: 21271427--21271507 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
21271417 AGAAAACATA
21271427 ACTTGGAAAAATATCTTAAAAAAGTATCAAAACTTTAAAAG
1 ACTTGGAAAAATATCTTAAAAAAGTATCAAAACTTTAAAAG
21271468 ACTTGGAAAAATATCTTAAAAAAGTATCAAAACTTTAAAA
1 ACTTGGAAAAATATCTTAAAAAAGTATCAAAACTTTAAAA
21271508 AGACCAAGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.27
Consensus pattern (41 bp):
ACTTGGAAAAATATCTTAAAAAAGTATCAAAACTTTAAAAG
Found at i:21275760 original size:19 final size:17
Alignment explanation
Indices: 21275732--21275777 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 17
21275722 GGTTTTGTTA
*
21275732 TTTTACTTAATTCGATTAG
1 TTTTATTTAATTC--TTAG
21275751 TTTTATTTAA--CTTAG
1 TTTTATTTAATTCTTAG
21275766 TTTTATTTAATT
1 TTTTATTTAATT
21275778 TCTACAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 14 0.58
17 1 0.04
19 9 0.38
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.61
Consensus pattern (17 bp):
TTTTATTTAATTCTTAG
Found at i:21275767 original size:15 final size:15
Alignment explanation
Indices: 21275747--21275775 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21275737 CTTAATTCGA
21275747 TTAGTTTTATTTAAC
1 TTAGTTTTATTTAAC
21275762 TTAGTTTTATTTAA
1 TTAGTTTTATTTAA
21275776 TTTCTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
TTAGTTTTATTTAAC
Found at i:21276010 original size:60 final size:60
Alignment explanation
Indices: 21275907--21276030 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
21275897 GGAACGGGAA
* * *
21275907 TGAT-CCTGGTCCCAATGACAATCCGAATGGTCAAGATATTAATCCTCTTGTTTGTAGGG
1 TGATACCTGGTCCCAATGACAATCCGAATGGTCAAAAGATTAATCCTCATGTTTGTAGGG
** * *
21275966 TGATACCTGGTCTGAATGATAATCTGAATGGTCAAAACGA-TAATCCTCATGTTTGTAGGG
1 TGATACCTGGTCCCAATGACAATCCGAATGGTCAAAA-GATTAATCCTCATGTTTGTAGGG
21276026 TGATA
1 TGATA
21276031 GATGACAGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
59 4 0.07
60 51 0.91
61 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (60 bp):
TGATACCTGGTCCCAATGACAATCCGAATGGTCAAAAGATTAATCCTCATGTTTGTAGGG
Found at i:21278034 original size:12 final size:12
Alignment explanation
Indices: 21278017--21278056 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
21278007 GTATCTTATG
21278017 AGTAAATGTAAT
1 AGTAAATGTAAT
*
21278029 AGTAAATTTAAT
1 AGTAAATGTAAT
*
21278041 AGTAAAGGTAAT
1 AGTAAATGTAAT
21278053 AGTA
1 AGTA
21278057 GCTTATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (12 bp):
AGTAAATGTAAT
Found at i:21292699 original size:14 final size:13
Alignment explanation
Indices: 21292671--21292712 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
21292661 ATATATATTT
21292671 AAAAA-TTATAT-
1 AAAAATTTATATA
*
21292682 AAAAATTTTTATCA
1 AAAAATTTATAT-A
21292696 AAAAATTTATATA
1 AAAAATTTATATA
21292709 AAAA
1 AAAA
21292713 TTGATATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 5 0.19
14 11 0.42
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAATTTATATA
Found at i:21292719 original size:12 final size:12
Alignment explanation
Indices: 21292670--21292719 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
21292660 TATATATATT
21292670 TAAAAA-TTATA
1 TAAAAATTTATA
*
21292681 TAAAAATTTTTA
1 TAAAAATTTATA
21292693 TCAAAAAATTTATA
1 T--AAAAATTTATA
*
21292707 TAAAAATTGATA
1 TAAAAATTTATA
21292719 T
1 T
21292720 GAGGGGTCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 6 0.18
12 16 0.48
14 11 0.33
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (12 bp):
TAAAAATTTATA
Found at i:21296986 original size:18 final size:18
Alignment explanation
Indices: 21296963--21296998 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21296953 TTCCTTATCC
21296963 AGTGACTTGAAATTTTAT
1 AGTGACTTGAAATTTTAT
21296981 AGTGACTTGAAATTTTAT
1 AGTGACTTGAAATTTTAT
21296999 TCTTTCTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (18 bp):
AGTGACTTGAAATTTTAT
Found at i:21307608 original size:11 final size:12
Alignment explanation
Indices: 21307590--21307623 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
21307580 CTAATATTCT
21307590 CTCAAATTCCTA
1 CTCAAATTCCTA
21307602 C-CAAATTCCT-
1 CTCAAATTCCTA
21307612 CTCAAATTCCTA
1 CTCAAATTCCTA
21307624 TTTAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (12 bp):
CTCAAATTCCTA
Found at i:21308806 original size:7 final size:7
Alignment explanation
Indices: 21308794--21308819 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21308784 TAGTCGATTG
21308794 GTATTTA
1 GTATTTA
21308801 GTATTTA
1 GTATTTA
21308808 GTATTTA
1 GTATTTA
21308815 GTATT
1 GTATT
21308820 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:21308825 original size:7 final size:7
Alignment explanation
Indices: 21308815--21308853 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
21308805 TTAGTATTTA
21308815 GTATTAT
1 GTATTAT
21308822 GTATTAT
1 GTATTAT
21308829 GTATTAT
1 GTATTAT
21308836 GTATTAT
1 GTATTAT
21308843 GTATTAT
1 GTATTAT
21308850 GTAT
1 GTAT
21308854 ATAACTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:21308825 original size:14 final size:15
Alignment explanation
Indices: 21308794--21308853 Score: 76
Period size: 14 Copynumber: 4.3 Consensus size: 15
21308784 TAGTCGATTG
21308794 GTATTTA-GTATT-T
1 GTATTTATGTATTAT
21308807 AGTATTTA-GTATTAT
1 -GTATTTATGTATTAT
21308822 GTA-TTATGTATTAT
1 GTATTTATGTATTAT
21308836 GTA-TTATGTATTAT
1 GTATTTATGTATTAT
21308850 GTAT
1 GTAT
21308854 ATAACTAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.07
14 39 0.91
15 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (15 bp):
GTATTTATGTATTAT
Found at i:21309517 original size:18 final size:18
Alignment explanation
Indices: 21309494--21309536 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
21309484 TGCCAAGTGC
*
21309494 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
21309512 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
21309530 GTTTCCT
1 GTATCCT
21309537 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:21310622 original size:125 final size:125
Alignment explanation
Indices: 21310400--21310682 Score: 476
Period size: 125 Copynumber: 2.3 Consensus size: 125
21310390 TGGTTTGCGA
* *
21310400 CGTCCACGTGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCTGTTTAAAGCGTTTTTGAC
1 CGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTGAC
* *
21310465 ACCATTGGCTCAGAAACATCTACTCGAAATTATTTTTTAGGAGCTACTGTAGTAAAAGCG
66 ACCATTGGCTCAGAAACATCTACTCGAAATTATTTTTCAGGAGCTACTGTAGCAAAAGCG
*
21310525 CGTCCACATGGGAGCTTCTTTCAGTACTATTGTTGACAAAGCATCCTGCTTAAAGCGTTTTTGAC
1 CGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTGAC
* * *
21310590 ACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTCAGGAGCTACTGTAGCAAAAGCG
66 ACCATTGGCTCAGAAACATCTACTCGAAATTATTTTTCAGGAGCTACTGTAGCAAAAGCG
* *
21310650 CGTTCACATGGGAGCTTCTTTTAGTACTATTGC
1 CGTCCACATGGGAGCTTCTTTCAGTACTATTGC
21310683 CACTACACCA
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 147 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (125 bp):
CGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCTGCTTAAAGCGTTTTTGAC
ACCATTGGCTCAGAAACATCTACTCGAAATTATTTTTCAGGAGCTACTGTAGCAAAAGCG
Found at i:21310917 original size:41 final size:41
Alignment explanation
Indices: 21310860--21311123 Score: 309
Period size: 41 Copynumber: 6.5 Consensus size: 41
21310850 TGACTTTTTT
*
21310860 TGGGCTTTAGCGGCGTTTTTATGGAAGCGCCGCTAATGTTC
1 TGGGCTTTAGCGGCATTTTTATGGAAGCGCCGCTAATGTTC
* *
21310901 TGGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTC
1 TGGGCTTTAGCGGCATTTTTATGGAAGCGCCGCTAATGTTC
* * * * * *
21310942 TGGCCTTTAGCAGTAATTTTATGTAAGCGCCGCTAATGTTT
1 TGGGCTTTAGCGGCATTTTTATGGAAGCGCCGCTAATGTTC
* *
21310983 TGGGCTTTACCGGCATTTTTATGTAAGCGCCGCTAATGTTC
1 TGGGCTTTAGCGGCATTTTTATGGAAGCGCCGCTAATGTTC
* * * * *
21311024 TGGGCTTTAGAGGC-TTTTTATTGTA-CGCCACTAATATTC
1 TGGGCTTTAGCGGCATTTTTATGGAAGCGCCGCTAATGTTC
* * *
21311063 TGGGATTTAGCGACATTTTTATGGATGCGCCGCTAAT-TTC
1 TGGGCTTTAGCGGCATTTTTATGGAAGCGCCGCTAATGTTC
* * *
21311103 AGGCCTTTAGCGGCTTTTTTA
1 TGGGCTTTAGCGGCATTTTTA
21311124 AAAAACGCCG
Statistics
Matches: 189, Mismatches: 32, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
39 23 0.12
40 35 0.19
41 131 0.69
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (41 bp):
TGGGCTTTAGCGGCATTTTTATGGAAGCGCCGCTAATGTTC
Found at i:21312655 original size:6 final size:6
Alignment explanation
Indices: 21312644--21312668 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21312634 GGATGAATCT
21312644 AGTTTA AGTTTA AGTTTA AGTTTA A
1 AGTTTA AGTTTA AGTTTA AGTTTA A
21312669 AATGAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
AGTTTA
Found at i:21315259 original size:21 final size:21
Alignment explanation
Indices: 21315234--21315273 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21315224 AGTAGATGCA
21315234 GCAGCGAGAGAAACAGAGGCT
1 GCAGCGAGAGAAACAGAGGCT
*
21315255 GCAGCGAGAGAAGCAGAGG
1 GCAGCGAGAGAAACAGAGG
21315274 TTCAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.42, T:0.03
Consensus pattern (21 bp):
GCAGCGAGAGAAACAGAGGCT
Found at i:21315331 original size:87 final size:84
Alignment explanation
Indices: 21315183--21315356 Score: 251
Period size: 87 Copynumber: 2.0 Consensus size: 84
21315173 GACCACAGTT
* * *
21315183 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGTAGATGCAGCAGCGAGAGAAAC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGTAGATGCAGCAGCCAGAGAAAC
21315248 AGAGGCTGCAGCGAGAGAAGCA
66 AGA---TGCAGCGAGAGAAGCA
* * *
21315270 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCT-GATGCGGCATCCAGAGAAG
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAG-TAGATGCAGCAGCCAGAGAAA
21315334 CAGATGCAGCGAGAGAAGCA
65 CAGATGCAGCGAGAGAAGCA
21315354 GAG
1 GAG
21315357 CAGAGTAGAA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
84 19 0.24
87 60 0.75
88 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.28, T:0.13
Consensus pattern (84 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGTAGATGCAGCAGCCAGAGAAAC
AGATGCAGCGAGAGAAGCA
Found at i:21315806 original size:43 final size:43
Alignment explanation
Indices: 21315682--21315910 Score: 335
Period size: 43 Copynumber: 5.5 Consensus size: 43
21315672 ACCAAACAAA
**
21315682 TAGCGGCGTTTGTG-AAAAATTGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
*
21315724 TAGCGGCGTTTGTGTAAAAA--G-CGCTAAAGAACATGAGCTT
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
* *
21315764 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAATATGAGCTT
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
*
21315807 TAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
* **
21315850 TAGCGGCGTTTGTGGAAGTAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
21315893 TAGCGGCGTTT-T-TAAAAA
1 TAGCGGCGTTTGTGTAAAAA
21315911 TAAACGCCGC
Statistics
Matches: 171, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
40 38 0.22
41 4 0.02
42 16 0.09
43 113 0.66
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGATCTT
Found at i:21316371 original size:140 final size:137
Alignment explanation
Indices: 21316195--21316452 Score: 322
Period size: 138 Copynumber: 1.9 Consensus size: 137
21316185 TTAATTAAGT
* * *
21316195 AACCCTAAACTCCAAACCCTAATTTATTTAAGTTTTTACTTAAAAATTC-TAAACACT-AAACCC
1 AACCCTAAACTCCAAACCCTAATTTAATTAAGTTTTT-CTCAAAAA-ACATAAACA-TGAAA-CC
* * * **
21316258 TAATCTAATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGA
62 TAATCCAA-TTTTGAAAAATTTATAATTAATTTAATCAACAAACCCTAAACCCTAATTTATTTGA
21316323 TTTTTCCATAAA
126 TTTTTCCATAAA
* * * *
21316335 AACCCTTAACTCTAAACCCTAATTTAATTGATTTTTTCTCAAAAAACAATAAACATGAAACCTAA
1 AACCCTAAACTCCAAACCCTAATTTAATTAAGTTTTTCTCAAAAAAC-ATAAACATGAAACCTAA
**
21316400 TCCAATTTTGAAAAATTTATAATTAATTTAATTGACAAACCCTAAACCCTAAT
65 TCCAATTTTGAAAAATTTATAATTAATTTAATCAACAAACCCTAAACCCTAAT
21316453 CCCTTATTTA
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
138 43 0.43
139 17 0.17
140 41 0.41
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (137 bp):
AACCCTAAACTCCAAACCCTAATTTAATTAAGTTTTTCTCAAAAAACATAAACATGAAACCTAAT
CCAATTTTGAAAAATTTATAATTAATTTAATCAACAAACCCTAAACCCTAATTTATTTGATTTTT
CCATAAA
Found at i:21316396 original size:44 final size:43
Alignment explanation
Indices: 21316305--21316400 Score: 99
Period size: 43 Copynumber: 2.2 Consensus size: 43
21316295 AAGTAACCCT
* ** * *
21316305 AAACCCTAATTTATTTGATTTTTCCATAAAAACCCTTAACTCT
1 AAACCCTAATTTAATTGATTTTTCCATAAAAACAATAAACTCG
21316348 AAACCCTAATTTAATTGATTTTTTCTCA-AAAAACAATAAACAT-G
1 AAACCCTAATTTAATTGA-TTTTTC-CATAAAAACAATAAAC-TCG
21316392 AAA-CCTAAT
1 AAACCCTAAT
21316401 CCAATTTTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
43 23 0.51
44 19 0.42
45 3 0.07
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (43 bp):
AAACCCTAATTTAATTGATTTTTCCATAAAAACAATAAACTCG
Found at i:21317445 original size:8 final size:8
Alignment explanation
Indices: 21317432--21317479 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
21317422 AAATTATTTT
21317432 AAAAATAA
1 AAAAATAA
21317440 AAAAATAA
1 AAAAATAA
**
21317448 AAAATATTT
1 AAAA-ATAA
*
21317457 TAAAATAA
1 AAAAATAA
*
21317465 AAAAATTA
1 AAAAATAA
21317473 AAAAATA
1 AAAAATA
21317480 TTTATTATAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
8 26 0.84
9 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATAA
Found at i:21317449 original size:25 final size:26
Alignment explanation
Indices: 21317433--21317482 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
21317423 AATTATTTTA
21317433 AAAATAAAAAAA-TAAAAAATATTTT
1 AAAATAAAAAAATTAAAAAATATTTT
21317458 AAAATAAAAAAATTAAAAAATATTT
1 AAAATAAAAAAATTAAAAAATATTT
21317483 ATTATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAATAAAAAAATTAAAAAATATTTT
Found at i:21317483 original size:25 final size:25
Alignment explanation
Indices: 21317419--21317482 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 25
21317409 AATAAACACC
21317419 AAAAAATTATTTTAAAAATAAAAAAAT
1 AAAAAA-TATTTT-AAAATAAAAAAAT
21317446 AAAAAATATTTTAAAATAAAAAAATT
1 AAAAAATATTTTAAAATAAAAAAA-T
21317472 AAAAAATATTT
1 AAAAAATATTT
21317483 ATTATATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
25 12 0.33
26 18 0.50
27 6 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAAAATATTTTAAAATAAAAAAAT
Found at i:21318022 original size:13 final size:13
Alignment explanation
Indices: 21318004--21318030 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21317994 TTTACGAAAA
21318004 GTATTTTACAAGT
1 GTATTTTACAAGT
21318017 GTATTTTACAAGT
1 GTATTTTACAAGT
21318030 G
1 G
21318031 AGATATGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (13 bp):
GTATTTTACAAGT
Found at i:21320254 original size:19 final size:20
Alignment explanation
Indices: 21320223--21320291 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 20
21320213 GTTTTACAAC
*
21320223 TTTGTAATATTTTCAGTAAT
1 TTTGTAATTTTTTCAGTAAT
*
21320243 TTT-TAATTTTTTTAGTAAT
1 TTTGTAATTTTTTCAGTAAT
21320262 TTTGT-ATTATTTTCAGTAAT
1 TTTGTAATT-TTTTCAGTAAT
21320282 TATTG-AATTT
1 T-TTGTAATTT
21320292 CTTACAAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 20 0.48
20 16 0.38
21 6 0.14
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTGTAATTTTTTCAGTAAT
Done.