Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 40 of 193
Found at i:12398992 original size:29 final size:29
Alignment explanation
Indices: 12398714--12398992 Score: 171
Period size: 30 Copynumber: 9.6 Consensus size: 29
12398704 ATTTGAGGGT
* *
12398714 AAAATGGTAATTTTTGAATGTTCAG-GG-C
1 AAAAT-GTAATTTTTGAAAGTTCAGAGGTA
*
12398742 AAAATGGTAATTTTTAGAAAAGTTC-GAGGTC
1 AAAAT-GTAATTTTT-G-AAAGTTCAGAGGTA
** *
12398773 AAAATGTAATTTTTGAAAGTTTGGGGGTA
1 AAAATGTAATTTTTGAAAGTTCAGAGGTA
* * * * **
12398802 AAAATGTGA-TTTTGGAAGTT-TGGGGGC
1 AAAATGTAATTTTTGAAAGTTCAGAGGTA
* * *
12398829 AAAATGTGATTTTTGGAAGTTCGAGGGGTA
1 AAAATGTAATTTTTGAAAGTTC-AGAGGTA
* * *
12398859 AAAATGTGATTTTTGGAAGTT-TGAGGGT-
1 AAAATGTAATTTTTGAAAGTTCAGA-GGTA
* * * *
12398887 AAAGTGTAATTTTGGAGAAATTTA-AGAGTA
1 AAAATGTAATTTTTGA-AAGTTCAGAG-GTA
12398917 AAAATGTAATTTTTGAGAAGTTC-GAGGTA
1 AAAATGTAATTTTTGA-AAGTTCAGAGGTA
* * *
12398946 AAAATATAATTTTGGAAAGTTCAGAGGTC
1 AAAATGTAATTTTTGAAAGTTCAGAGGTA
* *
12398975 AAAACGTGATTTTTGAAA
1 AAAATGTAATTTTTGAAA
12398993 AATTTAGGGA
Statistics
Matches: 205, Mismatches: 31, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
27 13 0.06
28 62 0.30
29 61 0.30
30 63 0.31
31 6 0.03
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAATGTAATTTTTGAAAGTTCAGAGGTA
Found at i:12400041 original size:19 final size:20
Alignment explanation
Indices: 12400019--12400068 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 20
12400009 AGATTTCTTT
12400019 TTATTTTTTAAAAAAT-TTA
1 TTATTTTTTAAAAAATATTA
* *
12400038 TTA-TATTTAATAAATATTA
1 TTATTTTTTAAAAAATATTA
*
12400057 TGTATTTATTAA
1 T-TATTTTTTAA
12400069 GCATGCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 10 0.42
19 7 0.29
20 2 0.08
21 5 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATTTTTTAAAAAATATTA
Found at i:12400692 original size:17 final size:17
Alignment explanation
Indices: 12400670--12400741 Score: 90
Period size: 17 Copynumber: 4.2 Consensus size: 17
12400660 ACTTAATTTT
12400670 AATAAATTTAAATTTAA
1 AATAAATTTAAATTTAA
* * *
12400687 AATAAATTCAAACTCAA
1 AATAAATTTAAATTTAA
* *
12400704 AATAAGTTTCAATTTAA
1 AATAAATTTAAATTTAA
12400721 AATAAATTTAAAATTTAA
1 AATAAATTT-AAATTTAA
12400739 AAT
1 AAT
12400742 TGGGTTTCAT
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 34 0.77
18 10 0.23
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:12401172 original size:39 final size:39
Alignment explanation
Indices: 12401089--12401584 Score: 246
Period size: 39 Copynumber: 12.7 Consensus size: 39
12401079 GAATAACTGC
* * * *
12401089 AATCTGCCCCATGATCGGGGTAAGAGAT-TAGCTGA-TGAT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGA-ATGATTG-T
* * * * * *
12401128 GATCTGCCCCAGGCTCGAGATAAAAGATCGAATGATTGC
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATTGT
* * * * ** *
12401167 AATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATAGT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATTGT
** ** **
12401206 AATCTGCCCCAAGCTCAAGGTAAGAGATCGAATGGCTAC
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATTGT
* * ** * *
12401245 AATCTGCCCCATGATCGGGGTAAGAGATTTACTGATGGT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATTGT
* * * *
12401284 GATCTGCCCTAAGCTCGGGGTAAAAGATCGAATGGTTGT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATTGT
* * * ** * *
12401323 AATCTTCCCCATGATCGGGGTAAGAGATTTACTGATGGT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATTGT
* * * * * *
12401362 GATCTGCCCCAAGCTCGGGATAAAAAATCGAATGGTTGC
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATTGT
* * *
12401401 AATCTGCCCCAAGCTCGGGATAAGAGATTTG-CTGA-TGAT
1 AATCTGCCCCAAGCTCGGGGTAAGAGA-TCGAATGATTG-T
* * * * **
12401440 GATTTGCCCTAAGCTCGGGGTAAGAGATCGGATGGCTGT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATTGT
* * * * * * * *
12401479 AATCTACCTCATGATTGGGGTAAGAGAT-TAGCTGATGGT
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGA-ATGATTGT
* * * * * *
12401518 GATTTGCCTCAAGCTCGGAGTAAGAGATCGAATGGTTGC
1 AATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATTGT
* * * * *
12401557 AATCTACTCTAGGCTCGAGGTAAGAGAT
1 AATCTGCCCCAAGCTCGGGGTAAGAGAT
12401585 TGGCTTATGG
Statistics
Matches: 325, Mismatches: 124, Indels: 16
0.70 0.27 0.03
Matches are distributed among these distances:
38 4 0.01
39 313 0.96
40 8 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (39 bp):
AATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGATTGT
Found at i:12401211 original size:78 final size:78
Alignment explanation
Indices: 12401086--12401602 Score: 561
Period size: 78 Copynumber: 6.6 Consensus size: 78
12401076 TTCGAATAAC
* * * *
12401086 TGCAATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGATGATCTGCCCCAGGCTCGAGATAA
1 TGCAATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGGTGATCTGCCCCAAGCTCGGGATAA
*
12401151 AAGATCGAATGAT
66 AAGATCGAATGGT
* * * * * * * *
12401164 TGCAATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATAGTAATCTGCCCCAAGCTCAAGG-TA
1 TGCAATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGGTGATCTGCCCCAAGCTC-GGGATA
* *
12401228 AGAGATCGAATGGC
65 AAAGATCGAATGGT
* * * *
12401242 TACAATCTGCCCCATGATCGGGGTAAGAGATTTACTGATGGTGATCTGCCCTAAGCTCGGGGTAA
1 TGCAATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGGTGATCTGCCCCAAGCTCGGGATAA
12401307 AAGATCGAATGGT
66 AAGATCGAATGGT
* * *
12401320 TGTAATCTTCCCCATGATCGGGGTAAGAGATTTACTGATGGTGATCTGCCCCAAGCTCGGGATAA
1 TGCAATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGGTGATCTGCCCCAAGCTCGGGATAA
*
12401385 AAAATCGAATGGT
66 AAGATCGAATGGT
* * * * * * *
12401398 TGCAATCTGCCCCAAGCTCGGGATAAGAGATTTGCTGATGATGATTTGCCCTAAGCTCGGGGTAA
1 TGCAATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGGTGATCTGCCCCAAGCTCGGGATAA
* * *
12401463 GAGATCGGATGGC
66 AAGATCGAATGGT
* * * * * * *
12401476 TGTAATCTACCTCATGATTGGGGTAAGAGATTAGCTGATGGTGATTTGCCTCAAGCTC-GGAGTA
1 TGCAATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGGTGATCTGCCCCAAGCTCGGGA-TA
*
12401540 AGAGATCGAATGGT
65 AAAGATCGAATGGT
* * * * * * * *
12401554 TGCAATCTACTCTAGGCTCGAGGTAAGAGATTGGCTTATGGTGATCTGC
1 TGCAATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGGTGATCTGC
12401603 TTATGGCTCG
Statistics
Matches: 364, Mismatches: 72, Indels: 6
0.82 0.16 0.01
Matches are distributed among these distances:
77 4 0.01
78 359 0.99
79 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (78 bp):
TGCAATCTGCCCCATGATCGGGGTAAGAGATTTGCTGATGGTGATCTGCCCCAAGCTCGGGATAA
AAGATCGAATGGT
Found at i:12403873 original size:3 final size:3
Alignment explanation
Indices: 12403865--12403938 Score: 130
Period size: 3 Copynumber: 24.0 Consensus size: 3
12403855 GATCATCCCT
12403865 TTC TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
12403911 TTC TTC TTC TTTC TTC TTC TTC TTC TTC
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC
12403939 AATATCATAA
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
3 63 0.91
4 6 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:12414036 original size:29 final size:28
Alignment explanation
Indices: 12413975--12414215 Score: 134
Period size: 29 Copynumber: 8.3 Consensus size: 28
12413965 AAAATCGAAC
* *
12413975 TTTTGGAAAATTTGAGG-GAAAATGGTAA
1 TTTTGGAAAGTTTGAGGTAAAAAT-GTAA
* *
12414003 TTTTTGGAAAAGTTCGAGGTCAAAATGTAA
1 -TTTTGG-AAAGTTTGAGGTAAAAATGTAA
*
12414033 TTTTTGG-AAGTTTGAGGGTAAAAATGTGAT
1 -TTTTGGAAAGTTTGA-GGTAAAAATGT-AA
** *
12414063 TTTTGG-AAGTTTGAGGGCAAAATGTGAT
1 TTTTGGAAAGTTTGAGGTAAAAATGT-AA
*
12414091 TTTTGG-AAGTTTGAGTGGTAAAAATGTGAG
1 TTTTGGAAAGTTTGA--GGTAAAAATGT-AA
* * *
12414121 TTTTAG-AATTTTAGGGGT-AAAATGTAA
1 TTTTGGAAAGTTT-GAGGTAAAAATGTAA
** * *
12414148 TTTTTAAGAAGTTTAGGGGTAAAAATATAA
1 TTTTGGA-AAGTTT-GAGGTAAAAATGTAA
* * *
12414178 TTTTGGAAAGTTCGGAGGTCAAAATGTGA
1 TTTTGGAAAGTT-TGAGGTAAAAATGTAA
*
12414207 TTTTTGAAA
1 TTTTGGAAA
12414216 AATTCAGGGA
Statistics
Matches: 174, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
27 5 0.03
28 40 0.23
29 68 0.39
30 55 0.32
31 6 0.03
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (28 bp):
TTTTGGAAAGTTTGAGGTAAAAATGTAA
Found at i:12414094 original size:87 final size:83
Alignment explanation
Indices: 12413975--12414212 Score: 221
Period size: 87 Copynumber: 2.7 Consensus size: 83
12413965 AAAATCGAAC
* *
12413975 TTTTGGAAAATTTGAGGGAAAATGGTAATTTTTGGAAAAGTTCGAGGTCAAAATGTAATTTTTGG
1 TTTTGG-AAGTTTGAGGGAAAAT-GT-ATTTTTGG-AAAGTTCGAGGTCAAAATGTGATTTTTGG
*
12414040 AAGTTTGA-GGGTAAAAATGTGAT
62 AA-TTTGAGGGGT-AAAATGTAAT
* * * *
12414063 TTTTGGAAGTTTGAGGGCAAAATGTGATTTTTGG-AAGTTTGAGTGGTAAAAATGTGAGTTTTAG
1 TTTTGGAAGTTTGAGGG-AAAATGT-ATTTTTGGAAAGTTCGA--GGTCAAAATGTGATTTTTGG
*
12414127 AATTTTAGGGGTAAAATGTAAT
62 AATTTGAGGGGTAAAATGTAAT
* * *
12414149 TTTTAAGAAGTTT-AGGGGTAAAAATATAATTTTGGAAAGTTCGGAGGTCAAAATGTGATTTTTG
1 TTTT-GGAAGTTTGA-GGG--AAAATGTATTTTTGGAAAGTTC-GAGGTCAAAATGTGATTTTTG
12414213 AAAAATTCAG
Statistics
Matches: 124, Mismatches: 17, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
85 7 0.06
86 18 0.15
87 75 0.60
88 22 0.18
89 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (83 bp):
TTTTGGAAGTTTGAGGGAAAATGTATTTTTGGAAAGTTCGAGGTCAAAATGTGATTTTTGGAATT
TGAGGGGTAAAATGTAAT
Found at i:12414143 original size:58 final size:57
Alignment explanation
Indices: 12414012--12414173 Score: 202
Period size: 58 Copynumber: 2.8 Consensus size: 57
12414002 ATTTTTGGAA
* * * *
12414012 AAGTTCGAGGTCAAAATGTAATTTTTGGAAGTTTGAGGGTAAAAATGTGATTTTTGG
1 AAGTTTGAGGGCAAAATGTAATTTTTGGAAGTTTGAGGGTAAAAATGTGAGTTTTAG
*
12414069 AAGTTTGAGGGCAAAATGTGATTTTTGGAAGTTTGAGTGGTAAAAATGTGAGTTTTAG
1 AAGTTTGAGGGCAAAATGTAATTTTTGGAAGTTTGAG-GGTAAAAATGTGAGTTTTAG
* * *
12414127 AA-TTTTAGGGGTAAAATGTAATTTTTAAGAAGTTT-AGGGGTAAAAAT
1 AAGTTTGA-GGGCAAAATGTAATTTTT-GGAAGTTTGA-GGGTAAAAAT
12414174 ATAATTTTGG
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
57 38 0.41
58 46 0.50
59 8 0.09
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (57 bp):
AAGTTTGAGGGCAAAATGTAATTTTTGGAAGTTTGAGGGTAAAAATGTGAGTTTTAG
Found at i:12415910 original size:17 final size:17
Alignment explanation
Indices: 12415888--12415946 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
12415878 ACTTAATTTT
12415888 AATAAATTTAAATTTAA
1 AATAAATTTAAATTTAA
* *
12415905 AATAAATTTAAACTCAA
1 AATAAATTTAAATTTAA
* *
12415922 AATAAGTTTCAATTTAA
1 AATAAATTTAAATTTAA
12415939 AATAAATT
1 AATAAATT
12415947 CAAAATTCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:12416414 original size:21 final size:20
Alignment explanation
Indices: 12416377--12416415 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12416367 TAAAATTATA
12416377 TAAAAATTAAAATAATATTT
1 TAAAAATTAAAATAATATTT
12416397 TAAAAACTATAAAA-AATAT
1 TAAAAA-T-TAAAATAATAT
12416416 AAAAAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATTAAAATAATATTT
Found at i:12416516 original size:13 final size:14
Alignment explanation
Indices: 12416492--12416535 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
12416482 AAAAAATATT
*
12416492 AAAAATGATAAAAA
1 AAAAATTATAAAAA
*
12416506 AAATATT-TAAAATA
1 AAAAATTATAAAA-A
12416520 AAAAATTATAAAAA
1 AAAAATTATAAAAA
12416534 AA
1 AA
12416536 TTTAAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 5 0.20
14 15 0.60
15 5 0.20
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
AAAAATTATAAAAA
Found at i:12416614 original size:23 final size:21
Alignment explanation
Indices: 12416550--12416646 Score: 72
Period size: 20 Copynumber: 4.6 Consensus size: 21
12416540 AATATTGAAG
*
12416550 TTATAAAAAAATATTATAAAA
1 TTATAAAAAAATAGTATAAAA
* * * *
12416571 -TATAGAAAAGT-GCAAAAAA
1 TTATAAAAAAATAGTATAAAA
*
12416590 TTATAAAAAAATATTATTACAAA
1 TTATAAAAAAATAGTA-TA-AAA
** *
12416613 TTATTCAAAAATAGTATAGAA
1 TTATAAAAAAATAGTATAAAA
*
12416634 TTATAAAAGAATA
1 TTATAAAAAAATA
12416647 AAATTATATA
Statistics
Matches: 55, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
19 5 0.09
20 18 0.33
21 13 0.24
22 3 0.05
23 16 0.29
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (21 bp):
TTATAAAAAAATAGTATAAAA
Found at i:12416666 original size:17 final size:16
Alignment explanation
Indices: 12416627--12416675 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
12416617 TCAAAAATAG
*
12416627 TATAGAATTATAAAAGA
1 TATAAAATTATAAAA-A
12416644 -ATAAAATTATATAAAA
1 TATAAAATTATA-AAAA
*
12416660 TATAAAAATATAAAAA
1 TATAAAATTATAAAAA
12416676 ATATTTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
TATAAAATTATAAAAA
Found at i:12416676 original size:17 final size:17
Alignment explanation
Indices: 12416635--12416679 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
12416625 AGTATAGAAT
* *
12416635 TATAAAAGA-ATAAAAT
1 TATAAAAAATATAAAAA
*
12416651 TATATAAAATATAAAAA
1 TATAAAAAATATAAAAA
12416668 TATAAAAAATAT
1 TATAAAAAATAT
12416680 TTACAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
TATAAAAAATATAAAAA
Found at i:12417619 original size:29 final size:28
Alignment explanation
Indices: 12417541--12417622 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 28
12417531 TTGTAGTTTA
* *
12417541 TATTTTTATAATTTATAT-AATTTCATT
1 TATTTTTATAATTTATATAAATTTTAAT
* **
12417568 TATTTTTAATAATTTTTGCAAATTTTAAT
1 TATTTTT-ATAATTTATATAAATTTTAAT
*
12417597 TATTTTTATCATTTATATAAAATTTT
1 TATTTTTATAATTTATAT-AAATTTT
12417623 TGTCATTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
27 7 0.16
28 15 0.35
29 21 0.49
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (28 bp):
TATTTTTATAATTTATATAAATTTTAAT
Found at i:12418732 original size:21 final size:22
Alignment explanation
Indices: 12418686--12418732 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
12418676 AATGTAAGGT
*
12418686 TTGTTATTATGTTTTAATTTAG
1 TTGTTATTATGTTGTAATTTAG
12418708 -TGTTATTAT-TGTGTAATTT-G
1 TTGTTATTATGT-TGTAATTTAG
12418728 TTGTT
1 TTGTT
12418733 TTTTAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (22 bp):
TTGTTATTATGTTGTAATTTAG
Found at i:12423734 original size:22 final size:23
Alignment explanation
Indices: 12423707--12423752 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
12423697 TTTAAGGGTT
12423707 AAAATTAAATTAAAATTTT-TAA
1 AAAATTAAATTAAAATTTTATAA
12423729 AAAATTAAATTAAAATTTTATAA
1 AAAATTAAATTAAAATTTTATAA
12423752 A
1 A
12423753 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATTAAATTAAAATTTTATAA
Found at i:12423762 original size:31 final size:31
Alignment explanation
Indices: 12423719--12423780 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
12423709 AATTAAATTA
* * *
12423719 AAATTTTTAAAAAATTAAATTAAAATTTTAT
1 AAATTTTAAAAAAATCAAAATAAAATTTTAT
*
12423750 AAATTTTAAAAAAATCAAAATACAATTTTAT
1 AAATTTTAAAAAAATCAAAATAAAATTTTAT
12423781 CATTATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (31 bp):
AAATTTTAAAAAAATCAAAATAAAATTTTAT
Found at i:12424219 original size:27 final size:27
Alignment explanation
Indices: 12424174--12424255 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 27
12424164 TTTAAAGTGA
* *
12424174 AATTAATATATAAATTTTGATTTGGTGT
1 AATT-ATATATAAAATTTGATTTGATGT
*
12424202 AATTATATATAAAATTTGAATTGTGATTT
1 AATTATATATAAAATTTG-ATT-TGATGT
12424231 ATATGTATATATAAAATTTTGATTT
1 A-AT-TATATATAAAA-TTTGATTT
12424256 CGATCTAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
27 13 0.28
28 7 0.15
29 5 0.11
30 3 0.07
31 14 0.30
32 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (27 bp):
AATTATATATAAAATTTGATTTGATGT
Found at i:12426700 original size:30 final size:29
Alignment explanation
Indices: 12426641--12426806 Score: 147
Period size: 30 Copynumber: 5.7 Consensus size: 29
12426631 AAAGCCCCTA
* *
12426641 TTTTTCAAAATTACATTTTAACCTCAAAC
1 TTTTTCAAAATTACATTTTGACCCCAAAC
* *
12426670 TTTTTTAAAATTATATTTTGACCCCTAAAC
1 TTTTTCAAAATTACATTTTGACCCC-AAAC
* * *
12426700 TTTTCCAAAATTGCATTTTCACCCCTTAAAC
1 TTTTTCAAAATTACATTTTGACCCC--AAAC
** *
12426731 -TTCCCAAAATCACATTTTGACCCCCAAAC
1 TTTTTCAAAATTACATTTTGA-CCCCAAAC
* * *
12426760 TTTCTCAAAATCATATTTTGACCCCAAAC
1 TTTTTCAAAATTACATTTTGACCCCAAAC
**
12426789 -TTCCCAAAATTACATTTT
1 TTTTTCAAAATTACATTTT
12426807 AATTCCTTGA
Statistics
Matches: 115, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
28 15 0.13
29 33 0.29
30 58 0.50
31 9 0.08
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (29 bp):
TTTTTCAAAATTACATTTTGACCCCAAAC
Found at i:12437823 original size:46 final size:46
Alignment explanation
Indices: 12437756--12437852 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
12437746 CTGTGCTTTT
*
12437756 CAAATAAACTCAGGGAGTGCAATTGCTGGAGGAGTCATACGAGATG
1 CAAATAAACTCAGAGAGTGCAATTGCTGGAGGAGTCATACGAGATG
*
12437802 CAAATAAACTCAGAGAGTGCAATTGTTGGAGGAGTCATACGAGATG
1 CAAATAAACTCAGAGAGTGCAATTGCTGGAGGAGTCATACGAGATG
*
12437848 TAAAT
1 CAAAT
12437853 GGGGATTGGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (46 bp):
CAAATAAACTCAGAGAGTGCAATTGCTGGAGGAGTCATACGAGATG
Found at i:12440480 original size:30 final size:32
Alignment explanation
Indices: 12440424--12440494 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
12440414 AATAAATGCC
12440424 AAAATTATAATTTGATCTTTTTAAAAA-GATA
1 AAAATTATAATTTGATCTTTTTAAAAATGATA
* *
12440455 AAAATT-TGATTTGAT-TTTTTAAAAAATTATA
1 AAAATTATAATTTGATCTTTTT-AAAAATGATA
12440486 AAAA-TATAA
1 AAAATTATAA
12440495 ACTATTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 15 0.44
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (32 bp):
AAAATTATAATTTGATCTTTTTAAAAATGATA
Found at i:12445984 original size:29 final size:28
Alignment explanation
Indices: 12445952--12446016 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 28
12445942 TAAAATTTAA
12445952 AATTATAT-ATAAATTTTAATTTAATGTAT
1 AATTATATAATAAATTTTAATTTAA--TAT
*
12445981 AATTATATACATAAATTTTAATTTGATAT
1 AATTATATA-ATAAATTTTAATTTAATAT
12446010 AATTATA
1 AATTATA
12446017 CACGTAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 18 0.55
31 15 0.45
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (28 bp):
AATTATATAATAAATTTTAATTTAATAT
Found at i:12446024 original size:29 final size:29
Alignment explanation
Indices: 12445960--12446038 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 29
12445950 AAAATTATAT
* *
12445960 ATAAATTTTAATTTAATGTATAATTATATAC
1 ATAAATTTTAATTTGA--TATAATTATACAC
12445991 ATAAATTTTAATTTGATATAATTATACAC
1 ATAAATTTTAATTTGATATAATTATACAC
* *
12446020 GTAAAACTTTAATTGTGAT
1 AT-AAATTTTAATT-TGAT
12446039 TCAAATGTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.31
30 10 0.24
31 19 0.45
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (29 bp):
ATAAATTTTAATTTGATATAATTATACAC
Found at i:12448129 original size:58 final size:57
Alignment explanation
Indices: 12448047--12448226 Score: 202
Period size: 58 Copynumber: 3.1 Consensus size: 57
12448037 AAAATTATTA
* * * *
12448047 TTTTTGGGTGTCTATCAAACCATGACCAACATCTCTTTTTTAGATACCAAAAAAATAT
1 TTTTTGGATGTCTGTCAAATCATGACCGACA-CTCTTTTTTAGATACCAAAAAAATAT
* *
12448105 TTTTTGGATGTCTGTCAATTCATGACCGACACTCATTTTTCAGATACCAAAAAAA-AT
1 TTTTTGGATGTCTGTCAAATCATGACCGACACTC-TTTTTTAGATACCAAAAAAATAT
* * * *
12448162 ATTTTTAGATGTCTGTCAACTCATGATCGACACCCTCTTTTTTAGATACTCAAAAATAT-T
1 -TTTTTGGATGTCTGTCAAATCATGACCGACA--CTCTTTTTTAGATAC-CAAAAAAATAT
12448222 TTTTT
1 TTTTT
12448227 CGAGTTTTTG
Statistics
Matches: 105, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
57 5 0.05
58 73 0.70
59 16 0.15
60 11 0.10
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (57 bp):
TTTTTGGATGTCTGTCAAATCATGACCGACACTCTTTTTTAGATACCAAAAAAATAT
Found at i:12448315 original size:61 final size:59
Alignment explanation
Indices: 12448244--12448366 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 59
12448234 TTGCTAACAC
* * * *
12448244 ATGGTTGACACCCACCATAAATACGAATAAAAAAATTAATATTTTTGGTGTTTGACAACTA
1 ATGGTCGACACCCA-CAAAAATACAAATAAAAAAA-TAATATTTTTAGTGTTTGACAACTA
* * * *
12448305 ATGGTCGACACCCATAAAAATATAAATTAAAAAATAATTTTTTTAGTGTTTGACAACTA
1 ATGGTCGACACCCACAAAAATACAAATAAAAAAATAATATTTTTAGTGTTTGACAACTA
12448364 ATG
1 ATG
12448367 ACCGATACCA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
59 26 0.48
60 15 0.28
61 13 0.24
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (59 bp):
ATGGTCGACACCCACAAAAATACAAATAAAAAAATAATATTTTTAGTGTTTGACAACTA
Found at i:12450077 original size:58 final size:58
Alignment explanation
Indices: 12449987--12450105 Score: 229
Period size: 58 Copynumber: 2.1 Consensus size: 58
12449977 TAACTGTATC
12449987 TACCTCAAGTAAATAACATACAACAGCAGTATAACCAATGGCTTCCAAGTTCTAATGA
1 TACCTCAAGTAAATAACATACAACAGCAGTATAACCAATGGCTTCCAAGTTCTAATGA
*
12450045 TACCTCGAGTAAATAACATACAACAGCAGTATAACCAATGGCTTCCAAGTTCTAATGA
1 TACCTCAAGTAAATAACATACAACAGCAGTATAACCAATGGCTTCCAAGTTCTAATGA
12450103 TAC
1 TAC
12450106 AAGGTCAAAG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (58 bp):
TACCTCAAGTAAATAACATACAACAGCAGTATAACCAATGGCTTCCAAGTTCTAATGA
Found at i:12456160 original size:36 final size:36
Alignment explanation
Indices: 12456105--12456233 Score: 130
Period size: 36 Copynumber: 3.7 Consensus size: 36
12456095 TTATTTAATA
12456105 AAATAATA--TAAAAAATATTTATTTTATTTGACAT
1 AAATAATATTTAAAAAATATTTATTTTATTTGACAT
* *
12456139 AAATAATATTTAAAAATTATTTA-TTTA-AT-A-A-
1 AAATAATATTTAAAAAATATTTATTTTATTTGACAT
* *
12456170 AAAT-TTAATTAAATACAAATATTTATTTTATTTGACAT
1 AAATAAT-ATTTAA-A-AAATATTTATTTTATTTGACAT
*
12456208 AAATAATATTTAAAAATTATTTATTT
1 AAATAATATTTAAAAAATATTTATTT
12456234 AATAAAAATA
Statistics
Matches: 75, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
30 1 0.01
31 9 0.12
32 2 0.03
33 9 0.12
34 13 0.17
35 5 0.07
36 24 0.32
37 2 0.03
38 9 0.12
39 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (36 bp):
AAATAATATTTAAAAAATATTTATTTTATTTGACAT
Found at i:12458325 original size:29 final size:29
Alignment explanation
Indices: 12458216--12458325 Score: 114
Period size: 30 Copynumber: 3.7 Consensus size: 29
12458206 CAAATGATTT
* *
12458216 TAAAATTATTAAAATTATTTTTTCTAAATA
1 TAAAATTATTAAAATAATTTTTT-AAAATA
* * *
12458246 TAAAATTTTTTAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATAATTTTTTAAAATA
* *
12458275 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAA-TAATTTTTTAAAAT-A
*
12458306 TGAAATTATT-AAATAATTTT
1 TAAAATTATTAAAATAATTTT
12458326 AATTTCCAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
29 23 0.34
30 35 0.51
31 10 0.15
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (29 bp):
TAAAATTATTAAAATAATTTTTTAAAATA
Found at i:12458325 original size:30 final size:29
Alignment explanation
Indices: 12458216--12458318 Score: 143
Period size: 29 Copynumber: 3.4 Consensus size: 29
12458206 CAAATGATTT
12458216 TAAAATTATTAAAATTATTTTTTCTAAATA
1 TAAAATTATTAAAATTATTTTTT-TAAATA
* * *
12458246 TAAAATTTTTTAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTTAAATA
12458275 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTT-AAAT-A
*
12458306 TGAAATTATTAAA
1 TAAAATTATTAAA
12458319 TAATTTTAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
29 26 0.41
30 25 0.39
31 13 0.20
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (29 bp):
TAAAATTATTAAAATTATTTTTTTAAATA
Found at i:12465057 original size:15 final size:16
Alignment explanation
Indices: 12465005--12465051 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
12464995 ACACACTATT
12465005 AAAAGAGAAGATAAAA-
1 AAAAGAGAAGA-AAAAG
12465021 AAAAGAGAAGAAAAAG
1 AAAAGAGAAGAAAAAG
12465037 AAAAGA-AAGAAAAAG
1 AAAAGAGAAGAAAAAG
12465052 TCAAGATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.43
16 17 0.57
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (16 bp):
AAAAGAGAAGAAAAAG
Found at i:12465108 original size:52 final size:51
Alignment explanation
Indices: 12465030--12465137 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 51
12465020 AAAAAGAGAA
* *
12465030 GAAAAAGAAAAGAAAGAAAAAGTCAAGATGAAAACCCACAAAGGGCATCTT
1 GAAAAAAAAAAGAAAAAAAAAGTCAAGATGAAAACCCACAAAGGGCATCTT
* *
12465081 TAAAAAAAAAAGAAAAAAGAAAGTCAAGATGAAAACCCGCAAAGGGCATCTT
1 GAAAAAAAAAAGAAAAAA-AAAGTCAAGATGAAAACCCACAAAGGGCATCTT
12465133 GAAAA
1 GAAAA
12465138 TCTATATATC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 15 0.29
52 36 0.71
ACGTcount: A:0.58, C:0.13, G:0.19, T:0.10
Consensus pattern (51 bp):
GAAAAAAAAAAGAAAAAAAAAGTCAAGATGAAAACCCACAAAGGGCATCTT
Found at i:12466424 original size:112 final size:110
Alignment explanation
Indices: 12466275--12466589 Score: 457
Period size: 102 Copynumber: 2.9 Consensus size: 110
12466265 TTAAATATTT
* * * * *
12466275 TCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCTTGTTTAAGCA
1 TCATTCAAACGAGCTTTGCCTCTAATAAAATTTAATTTTATCCACCTTACAACCCTGTTCAAGCA
*
12466340 TTTTTGCATCGAAATAACGGTTAGTGGACTAATGATTCGTAATCTTG
66 TTTTT-CAT-GAAATAACGGTTAGTGGACTAACGATTCGTAATCTTG
12466387 TCATTCAAACGAGCTTTGCCTCTAATAAAATTTAATTTTATCCACCTTACAACCCTGTTCAAGCA
1 TCATTCAAACGAGCTTTGCCTCTAATAAAATTTAATTTTATCCACCTTACAACCCTGTTCAAGCA
*
12466452 --TTT--T----TAACGGTTAGTGGACCAACGATTCGTAATCTTG
66 TTTTTCATGAAATAACGGTTAGTGGACTAACGATTCGTAATCTTG
12466489 TCATTCAAACGAGCTTTGCCTCTAATAAAATTTAATTTTATCCACCTTACAACCCTGTTCAAGCA
1 TCATTCAAACGAGCTTTGCCTCTAATAAAATTTAATTTTATCCACCTTACAACCCTGTTCAAGCA
* *
12466554 TTTTTACATTGAAATGACGGTTAGTGGTCTAACGAT
66 TTTTT-CA-TGAAATAACGGTTAGTGGACTAACGAT
12466590 GTAAGGAATA
Statistics
Matches: 183, Mismatches: 10, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
102 96 0.52
104 3 0.02
107 1 0.01
108 1 0.01
110 3 0.02
112 79 0.43
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (110 bp):
TCATTCAAACGAGCTTTGCCTCTAATAAAATTTAATTTTATCCACCTTACAACCCTGTTCAAGCA
TTTTTCATGAAATAACGGTTAGTGGACTAACGATTCGTAATCTTG
Found at i:12467141 original size:49 final size:49
Alignment explanation
Indices: 12467010--12467151 Score: 126
Period size: 49 Copynumber: 2.9 Consensus size: 49
12467000 AAACATGGAA
* * * *
12467010 ATATAAAGGAAAAGGTTGAGGCCGCAATGACGAACCTTGTCCCTTCGAAG
1 ATATGAAGG-AAAGGTTGAGGCCGCAATGACGAACCTGGTACCATCGAAG
* * * * * * *
12467060 ATGTGATGGGATGGATTGAGGTCACAACGACGAATCC-GGTACCAT-GAAG
1 ATATGAAGGAAAGG-TTGAGGCCGCAATGACGAA-CCTGGTACCATCGAAG
*
12467109 ATATGAAGAGAAAGGTTGAGGCCGCAATGACGAACTTGGTACC
1 ATATGAAG-GAAAGGTTGAGGCCGCAATGACGAACCTGGTACC
12467152 TTAGAATATG
Statistics
Matches: 69, Mismatches: 19, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
48 1 0.01
49 35 0.51
50 31 0.45
51 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.20
Consensus pattern (49 bp):
ATATGAAGGAAAGGTTGAGGCCGCAATGACGAACCTGGTACCATCGAAG
Found at i:12467193 original size:99 final size:99
Alignment explanation
Indices: 12467020--12467206 Score: 268
Period size: 99 Copynumber: 1.9 Consensus size: 99
12467010 ATATAAAGGA
* * * * * * *
12467020 AAAGGTTGAGGCCGCAATGACGAACCTTGTCCCTTCGAAGATGTGATGGGATGGATTGAGGTCAC
1 AAAGGTTGAGGCCGCAATGACGAACCTTGTACCTTAGAAGATGCGATAGGAAGGATTAAGGCCAC
12467085 AACGACGAATCCGGTACCATGAAGATATGAAGAG
66 AACGACGAATCCGGTACCATGAAGATATGAAGAG
*
12467119 AAAGGTTGAGGCCGCAATGACGAA-CTTGGTACCTTAGAATATGCGATAGGAAGGATTAAGGCCA
1 AAAGGTTGAGGCCGCAATGACGAACCTT-GTACCTTAGAAGATGCGATAGGAAGGATTAAGGCCA
* *
12467183 CAACGGCGAATTCGGTACCATGAA
65 CAACGACGAATCCGGTACCATGAA
12467207 AATAATGGGG
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 3 0.04
99 74 0.96
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (99 bp):
AAAGGTTGAGGCCGCAATGACGAACCTTGTACCTTAGAAGATGCGATAGGAAGGATTAAGGCCAC
AACGACGAATCCGGTACCATGAAGATATGAAGAG
Found at i:12467298 original size:49 final size:49
Alignment explanation
Indices: 12467197--12467381 Score: 135
Period size: 49 Copynumber: 3.8 Consensus size: 49
12467187 GGCGAATTCG
* * * * * **
12467197 GTACCAT-GAAA-ATAATGGGGAAGGTTGAGGTCGTAACGGTGAACCT-
1 GTACCATAGAAACATGATGGGAAAGATTGAGGCCGCAACGCCGAACCTA
* * * *
12467243 GATACCATAGAAACGTGATGGGAAAGATTGAGGCCGCTACGGCGAATCTA
1 G-TACCATAGAAACATGATGGGAAAGATTGAGGCCGCAACGCCGAACCTA
* * ** *
12467293 GTACCAT-GACAATATAACAGGAAAGGTTGAGGCCGCAACGCCGAACCTA
1 GTACCATAGA-AACATGATGGGAAAGATTGAGGCCGCAACGCCGAACCTA
* * * * *
12467342 GTAGCTTAAAAACATGATGAGAAAGATTGAGGTCGCAACG
1 GTACCATAGAAACATGATGGGAAAGATTGAGGCCGCAACG
12467382 ATAAATCTTA
Statistics
Matches: 105, Mismatches: 28, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
46 1 0.01
47 6 0.06
48 6 0.06
49 90 0.86
50 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (49 bp):
GTACCATAGAAACATGATGGGAAAGATTGAGGCCGCAACGCCGAACCTA
Found at i:12468011 original size:122 final size:122
Alignment explanation
Indices: 12467776--12468273 Score: 545
Period size: 122 Copynumber: 4.1 Consensus size: 122
12467766 TACCCTAATC
* * * *
12467776 AAGTGGGTAAGATAATGAAGCAGTCATATTCTTGATGAGATACAGAGAAGTAGACCAAATCAAGG
1 AAGTGGGTCAGACAATGAAGCGGTCATATTCTTGATGAGATACAGAGAAGTAGACCAAATCAATG
* * *
12467841 AAGCGGAGATCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAG
66 AAGCGGAGCTCAATGTAAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAGAG
** * * * * * *
12467898 AAGTTAGTCATACGATGAAGCGGTCATCTTCTTGGTGAGGTATAGAGAAGTAGACCAAATCAATG
1 AAGTGGGTCAGACAATGAAGCGGTCATATTCTTGATGAGATACAGAGAAGTAGACCAAATCAATG
* *
12467963 AAGCGGAGCTCAATGTAAGTGAAACTTCAAACCCCATCCTT-TTAATGAGAAACAGAG
66 AAGCGGAGCTCAATGTAAGTGAAACTTCAAACCCCAT-CTTCCTAATGAGATACAGAG
* * * * * *
12468020 AAGTGGGTCAGACAATGAAGTGGTCATATTCCTGGTAAGGTTCAGAGAAGTAGACCAAATCAATG
1 AAGTGGGTCAGACAATGAAGCGGTCATATTCTTGATGAGATACAGAGAAGTAGACCAAATCAATG
* * * * ** * *
12468085 AAGCAGAGCTC-ATGTGAGTAAAACTTTGAAACCCCATCTTTATGATGAGATACATAG
66 AAGCGGAGCTCAATGTAAGTGAAAC-TTCAAACCCCATCTTCCTAATGAGATACAGAG
* * * * *
12468142 AAGTGGGTCAGACAACGAAGCGGTAATATTCTTGATGAGATACAAAGAAGTGGACCAAAACAAT-
1 AAGTGGGTCAGACAATGAAGCGGTCATATTCTTGATGAGATACAGAGAAGTAGACCAAATCAATG
*** * * * *
12468206 AAG-GTGAAGCTCAAAACAAGTGAGACTTCAAATCCCATCTTCCTAATGAGGTATAGAG
66 AAGCG-G-AGCTCAATGTAAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAGAG
12468264 AAGTGGGTCA
1 AAGTGGGTCA
12468274 AAATAATGAA
Statistics
Matches: 309, Mismatches: 61, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
121 18 0.06
122 281 0.91
123 10 0.03
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (122 bp):
AAGTGGGTCAGACAATGAAGCGGTCATATTCTTGATGAGATACAGAGAAGTAGACCAAATCAATG
AAGCGGAGCTCAATGTAAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAGAG
Found at i:12468403 original size:96 final size:96
Alignment explanation
Indices: 12468224--12468564 Score: 466
Period size: 96 Copynumber: 3.6 Consensus size: 96
12468214 GCTCAAAACA
** * *
12468224 AGTGAGACTTCAAATCCCATCTTCCTAATGAGGTATAGAGAAGTGGGTCAAAATAATGAAGCAGA
1 AGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAAAGAAGTGGGTCAAAATAATGAAGCAGA
*
12468289 GCTTAATGTCCTTGAGGTTACAGTGGAGTGG
66 GCTCAATGTCCTTGAGGTTACAGTGGAGTGG
* * * * * *
12468320 AGTGAGACATCAGATCCCATCTTCCTGGTGAGGTACAGAGAAGTGGGTTAAAATAATAAAGCAGT
1 AGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAAAGAAGTGGGTCAAAATAATGAAGCAGA
* * * **
12468385 GCTCAACGACCTTAAGGTTACAGTGGAACGG
66 GCTCAATGTCCTTGAGGTTACAGTGGAGTGG
* * * * * *
12468416 AGTTAAACTTCAGATCTCATCTTCCTGGTGAGGTACAAAGAAGTGAGTCAAAATAATGAAGTAGA
1 AGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAAAGAAGTGGGTCAAAATAATGAAGCAGA
*
12468481 GCTCAATGTCCTTGAGGATACAGTGGAGTGG
66 GCTCAATGTCCTTGAGGTTACAGTGGAGTGG
*
12468512 AGTGAGACTTCAAATCCCATCTTCCTGGTGAGGAACAAAGAAGTGGGTCAAAA
1 AGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAAAGAAGTGGGTCAAAA
12468565 CAGTGTGTTG
Statistics
Matches: 209, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 209 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.24
Consensus pattern (96 bp):
AGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAAAGAAGTGGGTCAAAATAATGAAGCAGA
GCTCAATGTCCTTGAGGTTACAGTGGAGTGG
Found at i:12471859 original size:15 final size:16
Alignment explanation
Indices: 12471839--12471882 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
12471829 AAACACTATT
* *
12471839 AAAAGAGGAGATAAA-
1 AAAAGAGAAGAAAAAG
12471854 AAAAGAGAAGAAAAAG
1 AAAAGAGAAGAAAAAG
*
12471870 AAAAGAAAAGAAA
1 AAAAGAGAAGAAA
12471883 TAAAAAGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (16 bp):
AAAAGAGAAGAAAAAG
Found at i:12473434 original size:112 final size:112
Alignment explanation
Indices: 12473105--12473421 Score: 406
Period size: 112 Copynumber: 2.8 Consensus size: 112
12473095 ATTTTTAATA
*
12473105 TTTTCATTCATACGAGCTTTACCTCCAATAAAATTCAATTTTATCTACCTTACAACCTTGTTCAA
1 TTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATC-ACCTTACAACCTTGTTCAA
12473170 GCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGAT-TTGGAATC
65 GCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGATATTGGAATC
* * * * * * *
12473217 TTGTAATTCAAATGAGCTTTGCCTCCAACAAAATTCAATTTTATCCATCTTAAAACCTTGTTCAA
1 TTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTAT-CACCTTACAACCTTGTTCAA
* * * *
12473282 GC-TTGTTTGCATCCAAATAATGGTTAGTGGACCAATGATATT-TATTC
65 GCATT-TTTGCATCGAAATAACGGTTAGTGGACCAATGATATTGGAATC
* * * *
12473329 TTTTCATCCATGCGAGCTTTGCCTTCAATAAAATTCAATTTTATGCACCTTACAACCCTGTTCAA
1 TTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTAT-CACCTTACAACCTTGTTCAA
* * *
12473394 GCATTTTTGCATTGAAATGACAGTTAGT
65 GCATTTTTGCATCGAAATAACGGTTAGT
12473422 TGTCTAACGA
Statistics
Matches: 172, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
111 2 0.01
112 165 0.96
113 5 0.03
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (112 bp):
TTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTTATCACCTTACAACCTTGTTCAAG
CATTTTTGCATCGAAATAACGGTTAGTGGACCAATGATATTGGAATC
Found at i:12474036 original size:99 final size:99
Alignment explanation
Indices: 12473844--12474161 Score: 295
Period size: 99 Copynumber: 3.2 Consensus size: 99
12473834 ACCGAGGAAA
* * * * * *
12473844 CATAAAAATATAAAGGGAAAGGTTGAGGCCACAACGGTGAACCTTG-TCCCTTCGAAGATGTAAT
1 CATAGAAATATAAAGGGAAAGGTTGAGGTCGCAACGGTGAACC-TGATACCTTAGAAGATGTGAT
* * * * *
12473908 GGAAAGGATTGAGGTCGCAATGACAAATCCAATAC
65 GGGAAGGATTGAGGCCGCAACGGCGAATCCAATAC
* * *
12473943 CAT-GAAGATATGAAGGGAAATGTTGAGGTCGCAACGGTGAACCTGATACCTTAGAAGATGCGAT
1 CATAGAA-ATATAAAGGGAAAGGTTGAGGTCGCAACGGTGAACCTGATACCTTAGAAGATGTGAT
* * *
12474007 GGGAAGGATTGAGGCCACAACGGCGAATCCGATAT
65 GGGAAGGATTGAGGCCGCAACGGCGAATCCAATAC
* * * *** * * *
12474042 CAT-GGAA-ATAAAGGGCAAGGTTGAGGTCGTAACAACGAACTTGATACCTTA-AAAACGTGATG
1 CATAGAAATATAAAGGGAAAGGTTGAGGTCGCAACGGTGAACCTGATACCTTAGAAGATGTGATG
** * * *
12474104 GGAAATATTGAGGCCGCAACAGCGAATCTAGTAC
66 GGAAGGATTGAGGCCGCAACGGCGAATCCAATAC
*
12474138 CATAGAAATATAAAAGGAAAGGTT
1 CATAGAAATATAAAGGGAAAGGTT
12474162 TAGGCCGTAA
Statistics
Matches: 175, Mismatches: 40, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
96 37 0.21
97 39 0.22
98 18 0.10
99 81 0.46
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.20
Consensus pattern (99 bp):
CATAGAAATATAAAGGGAAAGGTTGAGGTCGCAACGGTGAACCTGATACCTTAGAAGATGTGATG
GGAAGGATTGAGGCCGCAACGGCGAATCCAATAC
Found at i:12474146 original size:96 final size:98
Alignment explanation
Indices: 12473981--12474230 Score: 240
Period size: 98 Copynumber: 2.6 Consensus size: 98
12473971 TCGCAACGGT
* * * * * * * *
12473981 GAACCTGATACCTTAGAAGATGCGATGGGAAGGATTGAGGCCACAACGGCGAATC-CGATATCAT
1 GAACTTGATACCTTA-AAAACGTGATGGGAAAGATTGAGGCCGCAAC-GCGAATCTAGATACCAT
* * * *
12474045 -GGAA-ATAAAGGGCAAGGTTGAGGTCGTAACAAC
64 AGAAATATAAAAGGAAAGGTTGAGGCCGTAACAAC
*
12474078 GAACTTGATACCTTAAAAACGTGATGGGAAATATTGAGGCCGCAACAGCGAATCTAG-TACCATA
1 GAACTTGATACCTTAAAAACGTGATGGGAAAGATTGAGGCCGCAAC-GCGAATCTAGATACCATA
*
12474142 GAAATATAAAAGGAAAGGTTTAGGCCGTAACAAC
65 GAAATATAAAAGGAAAGGTTGAGGCCGTAACAAC
* * * * * *
12474176 TAATCTAG-TATCTTAAAAACATAATGGGAAAGATTAAGGCCGCAACGACGAATCT
1 GAA-CTTGATACCTTAAAAACGTGATGGGAAAGATTGAGGCCGCAACG-CGAATCT
12474231 TATACCTTGA
Statistics
Matches: 126, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
96 37 0.29
97 19 0.15
98 67 0.53
99 3 0.02
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (98 bp):
GAACTTGATACCTTAAAAACGTGATGGGAAAGATTGAGGCCGCAACGCGAATCTAGATACCATAG
AAATATAAAAGGAAAGGTTGAGGCCGTAACAAC
Found at i:12474206 original size:49 final size:49
Alignment explanation
Indices: 12474049--12474238 Score: 150
Period size: 49 Copynumber: 3.9 Consensus size: 49
12474039 TATCATGGAA
* * * *
12474049 ATAAAGGGCAAGGTTGAGGTCGTAACAACGAA-CTTGATACCTTAAAAAC
1 ATAAAGGGAAAGATTGAGGCCGTAACAACGAATCTAG-TACCTTAAAAAC
* * * * * * * * *
12474098 GTGATGGGAAATATTGAGGCCGCAACAGCGAATCTAGTACCATAGAAAT
1 ATAAAGGGAAAGATTGAGGCCGTAACAACGAATCTAGTACCTTAAAAAC
* * * * *
12474147 ATAAAAGGAAAGGTTTAGGCCGTAACAACTAATCTAGTATCTTAAAAAC
1 ATAAAGGGAAAGATTGAGGCCGTAACAACGAATCTAGTACCTTAAAAAC
* * * *
12474196 ATAATGGGAAAGATTAAGGCCGCAACGACGAATCTTA-TACCTT
1 ATAAAGGGAAAGATTGAGGCCGTAACAACGAATC-TAGTACCTT
12474239 GAAGATGAGG
Statistics
Matches: 104, Mismatches: 35, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
49 99 0.95
50 5 0.05
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (49 bp):
ATAAAGGGAAAGATTGAGGCCGTAACAACGAATCTAGTACCTTAAAAAC
Found at i:12474593 original size:42 final size:42
Alignment explanation
Indices: 12474535--12474614 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
12474525 TAAGTCAAAA
*
12474535 GGGGAAGATTGAAGCCACATTCCAATCTTTTCCCCTAACCAT
1 GGGGAAGATTGAAGCCACATTCCAATCTTTTACCCTAACCAT
* *
12474577 GGGGCAGATTGAAGCCACATTCCGATCTTTTACCCTAA
1 GGGGAAGATTGAAGCCACATTCCAATCTTTTACCCTAA
12474615 TCAAGTGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (42 bp):
GGGGAAGATTGAAGCCACATTCCAATCTTTTACCCTAACCAT
Found at i:12474845 original size:122 final size:122
Alignment explanation
Indices: 12474617--12475105 Score: 526
Period size: 122 Copynumber: 4.0 Consensus size: 122
12474607 TACCCTAATC
* * *
12474617 AAGTGTGTCAGACAATGAAGCGATCATCTT-CTAGATGAGATACAGAAAAGTAGACCAAATCAAG
1 AAGTGAGTCAGACAATGAAGCGATCATCTTCCT-GATGAGATACAGAGAAGTAGACCAAATCAAT
* *
12474681 GAAGTGGAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATATAGAG
65 GAAGCGGAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAG
* * * * * * * *
12474739 AATTGAGTCATACAATGAAGTGATAATCTTCCTGGTGAGGTATAGAGAAGTAGTCCAAATCAATG
1 AAGTGAGTCAGACAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATG
* *
12474804 AAGCGGAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTAATGAAATACAGAG
66 AAGCGGAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAG
* * * * *
12474861 AAGTGGGTCAGACAATGAAGTGGTCATCTTCCTGGTGAGATACAAAGAAGTAGACCAAATCAATG
1 AAGTGAGTCAGACAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATG
* * * *
12474926 AAGCAGAGCTC-ATGTGAATAAAACTTCGAAA-CCCATCTTCCTGATGAGATACATAG
66 AAGCGGAGCTCAATGTGAGTGAAACTTC-AAACCCCATCTTCCTGATGAGATACAGAG
* * * ** * *
12474982 AAGT-AGGTCAAACAACGAAGCGATTATCTTATTGATGAGAT-TAGAGAAGT-GAACCAAAACAA
1 AAGTGA-GTCAGACAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAG-ACCAAATCAA
** * * * * *
12475044 T-AAG-GTGAAGCTCAATACGAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACTGAG
64 TGAAGCG-G-AGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAG
12475103 AAG
1 AAG
12475106 AGGGTCAAAA
Statistics
Matches: 307, Mismatches: 52, Indels: 17
0.82 0.14 0.05
Matches are distributed among these distances:
119 5 0.02
120 25 0.08
121 102 0.33
122 173 0.56
123 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (122 bp):
AAGTGAGTCAGACAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATG
AAGCGGAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAG
Found at i:12475228 original size:96 final size:96
Alignment explanation
Indices: 12475062--12475403 Score: 513
Period size: 96 Copynumber: 3.6 Consensus size: 96
12475052 AGCTCAATAC
* * *
12475062 GAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACTGAGAAGAGGGTCAAAATAATGAAGCAA
1 GAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAATAATGAAGCAG
*
12475127 AGCTCAACATCCCTGAGGTTACAATGGAGTG
66 AGCTCAACGTCCCTGAGGTTACAATGGAGTG
* * * * * **
12475158 GAGTGAGACTTCAGATCCCATCTTCTTGGTGAAGTACAGAAAAGTGGGTCAAAATAATAAAATAG
1 GAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAATAATGAAGCAG
* * *
12475223 TGCTCAACGTCCCTAAGGTTACAATGGAATG
66 AGCTCAACGTCCCTGAGGTTACAATGGAGTG
* *
12475254 GAGTTAGACTTCAAATCCCATCTTCCTAGTGAGGTACAGAGAAGTGGGTCAAAATAATGAAGCAG
1 GAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAATAATGAAGCAG
* *
12475319 AGCTCAACGTCTCTGAGGTTACAGTGGAGTG
66 AGCTCAACGTCCCTGAGGTTACAATGGAGTG
*
12475350 GAATGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAA
1 GAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAA
12475404 CAGTGTGTTG
Statistics
Matches: 215, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 215 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (96 bp):
GAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAAATAATGAAGCAG
AGCTCAACGTCCCTGAGGTTACAATGGAGTG
Found at i:12481257 original size:7 final size:7
Alignment explanation
Indices: 12481245--12481315 Score: 65
Period size: 7 Copynumber: 10.3 Consensus size: 7
12481235 TTTCGAAAAA
12481245 GTCAACG
1 GTCAACG
12481252 GTCAACG
1 GTCAACG
* *
12481259 ATCAA-A
1 GTCAACG
12481265 GTCAACG
1 GTCAACG
12481272 GTCAACG
1 GTCAACG
12481279 GTCAACG
1 GTCAACG
*
12481286 ATCAATC-
1 GTCAA-CG
** *
12481293 AACATCG
1 GTCAACG
12481300 GTCAACG
1 GTCAACG
12481307 GTCAACG
1 GTCAACG
12481314 GT
1 GT
12481316 TTGACTTGGT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
6 5 0.10
7 45 0.88
8 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:12481267 original size:20 final size:20
Alignment explanation
Indices: 12481242--12481283 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
12481232 GTTTTTCGAA
12481242 AAAGTCAACGGTCAACGATC
1 AAAGTCAACGGTCAACGATC
*
12481262 AAAGTCAACGGTCAACGGTC
1 AAAGTCAACGGTCAACGATC
12481282 AA
1 AA
12481284 CGATCAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.14
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGATC
Found at i:12481283 original size:27 final size:28
Alignment explanation
Indices: 12481245--12481313 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 28
12481235 TTTCGAAAAA
12481245 GTCAACGGTCAACGATCAAAGTC-A-A-CG
1 GTCAACGGTCAACGATC-AA-TCAACATCG
12481272 GTCAACGGTCAACGATCAATCAACATCG
1 GTCAACGGTCAACGATCAATCAACATCG
12481300 GTCAACGGTCAACG
1 GTCAACGGTCAACG
12481314 GTTTGACTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
25 2 0.05
26 3 0.08
27 18 0.46
28 16 0.41
ACGTcount: A:0.35, C:0.28, G:0.22, T:0.16
Consensus pattern (28 bp):
GTCAACGGTCAACGATCAATCAACATCG
Found at i:12481368 original size:15 final size:15
Alignment explanation
Indices: 12481348--12481377 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12481338 TGGTTCATTT
12481348 GGTTTGGTTCAAATG
1 GGTTTGGTTCAAATG
*
12481363 GGTTTGGTTTAAATG
1 GGTTTGGTTCAAATG
12481378 AATTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (15 bp):
GGTTTGGTTCAAATG
Found at i:12481387 original size:21 final size:21
Alignment explanation
Indices: 12481361--12481428 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
12481351 TTGGTTCAAA
12481361 TGGGTTTGGTTTAAATGAATT
1 TGGGTTTGGTTTAAATGAATT
*
12481382 TGGGTTTGGTTTAAATGAATG
1 TGGGTTTGGTTTAAATGAATT
*
12481403 TGGGTTTGGTTTAAATAGGATT
1 TGGGTTTGGTTTAAAT-GAATT
12481425 TGGG
1 TGGG
12481429 CTTAATGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
21 36 0.84
22 7 0.16
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (21 bp):
TGGGTTTGGTTTAAATGAATT
Found at i:12481830 original size:11 final size:11
Alignment explanation
Indices: 12481797--12481836 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
12481787 AAGTGTGATT
*
12481797 AAAAGAGGAAG
1 AAAAGAGAAAG
*
12481808 AAAATAGAAAAG
1 AAAAGAG-AAAG
12481820 AAAAGAGAAAG
1 AAAAGAGAAAG
12481831 AAAAGA
1 AAAAGA
12481837 TAAGAGGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:12488309 original size:7 final size:7
Alignment explanation
Indices: 12488297--12488367 Score: 56
Period size: 7 Copynumber: 10.3 Consensus size: 7
12488287 TTTCGAAAAA
12488297 GTCAACG
1 GTCAACG
12488304 GTCAACG
1 GTCAACG
* *
12488311 ATCAA-A
1 GTCAACG
12488317 GTCAACG
1 GTCAACG
12488324 GTCAACG
1 GTCAACG
*
12488331 GTCAACA
1 GTCAACG
*
12488338 ATCAATC-
1 GTCAA-CG
** *
12488345 AACATCG
1 GTCAACG
12488352 GTCAACG
1 GTCAACG
12488359 GTCAACG
1 GTCAACG
12488366 GT
1 GT
12488368 TTGACTTGGT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
6 5 0.10
7 44 0.88
8 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:12488319 original size:20 final size:20
Alignment explanation
Indices: 12488294--12488335 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
12488284 GTTTTTCGAA
12488294 AAAGTCAACGGTCAACGATC
1 AAAGTCAACGGTCAACGATC
*
12488314 AAAGTCAACGGTCAACGGTC
1 AAAGTCAACGGTCAACGATC
12488334 AA
1 AA
12488336 CAATCAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.14
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGATC
Found at i:12488335 original size:27 final size:28
Alignment explanation
Indices: 12488297--12488365 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
12488287 TTTCGAAAAA
12488297 GTCAACGGTCAACGATCAAAGTC-A-A-CG
1 GTCAACGGTCAACGATC-AA-TCAACATCG
*
12488324 GTCAACGGTCAACAATCAATCAACATCG
1 GTCAACGGTCAACGATCAATCAACATCG
12488352 GTCAACGGTCAACG
1 GTCAACGGTCAACG
12488366 GTTTGACTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.05
26 3 0.08
27 17 0.46
28 15 0.41
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.16
Consensus pattern (28 bp):
GTCAACGGTCAACGATCAATCAACATCG
Found at i:12488420 original size:15 final size:15
Alignment explanation
Indices: 12488400--12488429 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12488390 TGGTTCATTT
12488400 GGTTTGGTTCAAATG
1 GGTTTGGTTCAAATG
*
12488415 GGTTTGGTTTAAATG
1 GGTTTGGTTCAAATG
12488430 AATTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (15 bp):
GGTTTGGTTCAAATG
Found at i:12488439 original size:21 final size:21
Alignment explanation
Indices: 12488413--12488480 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
12488403 TTGGTTCAAA
12488413 TGGGTTTGGTTTAAATGAATT
1 TGGGTTTGGTTTAAATGAATT
*
12488434 TGGGTTTGGTTTAAATGAATG
1 TGGGTTTGGTTTAAATGAATT
* *
12488455 TAGGTTTGGTTTAAATAGGATT
1 TGGGTTTGGTTTAAAT-GAATT
12488477 TGGG
1 TGGG
12488481 CTTAATGGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 35 0.85
22 6 0.15
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (21 bp):
TGGGTTTGGTTTAAATGAATT
Found at i:12488883 original size:11 final size:11
Alignment explanation
Indices: 12488850--12488924 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
12488840 AAGTGTGATT
*
12488850 AAAAGAGGAAG
1 AAAAGAGAAAG
*
12488861 AAAATAGAAAAG
1 AAAAGAG-AAAG
12488873 AAAAGAGAAAG
1 AAAAGAGAAAG
12488884 AAATA-AGAAATG
1 AAA-AGAGAAA-G
* *
12488896 AATGAGAAAAAG
1 AA-AAGAGAAAG
12488908 AAAAGAGAAAG
1 AAAAGAGAAAG
*
12488919 GAAAGA
1 AAAAGA
12488925 TAAGAGGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
11 30 0.59
12 17 0.33
13 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.05
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:12488892 original size:23 final size:23
Alignment explanation
Indices: 12488850--12488922 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
12488840 AAGTGTGATT
*
12488850 AAAAGAGGAAGAAAATAGAAAAG
1 AAAAGAGAAAGAAAATAGAAAAG
*
12488873 AAAAGAGAAAG-AAATAAGAAATG
1 AAAAGAGAAAGAAAAT-AGAAAAG
* * * *
12488896 AATGAGAAAAAGAAAAGAGAAAGG
1 AA-AAGAGAAAGAAAATAGAAAAG
12488920 AAA
1 AAA
12488923 GATAAGAGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
22 4 0.10
23 18 0.45
24 15 0.38
25 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (23 bp):
AAAAGAGAAAGAAAATAGAAAAG
Found at i:12490857 original size:18 final size:17
Alignment explanation
Indices: 12490834--12490870 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
12490824 AACTAAGTCC
12490834 TTTTATTCTATTTTTATT
1 TTTTATTCTA-TTTTATT
*
12490852 TTTTATTTTATTTTATT
1 TTTTATTCTATTTTATT
12490869 TT
1 TT
12490871 CTTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTATTCTATTTTATT
Found at i:12497014 original size:9 final size:9
Alignment explanation
Indices: 12497000--12497083 Score: 52
Period size: 9 Copynumber: 9.7 Consensus size: 9
12496990 CAAAAATATT
12497000 TTTTTATAA
1 TTTTTATAA
12497009 TTTTTAAATAA
1 TTTTT--ATAA
* *
12497020 TTTTAATGA
1 TTTTTATAA
*
12497029 TTTTTA-AT
1 TTTTTATAA
12497037 TTTTTATAA
1 TTTTTATAA
**
12497046 ---AAATAA
1 TTTTTATAA
*
12497052 TTCTTATAA
1 TTTTTATAA
*
12497061 TTCTTATAA
1 TTTTTATAA
12497070 TTTTT-TAA
1 TTTTTATAA
12497078 TTTTTA
1 TTTTTA
12497084 ATTTTATTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
6 4 0.07
8 14 0.25
9 31 0.54
11 8 0.14
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:12497984 original size:19 final size:19
Alignment explanation
Indices: 12497960--12498000 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
12497950 TATAAATAAA
*
12497960 ATAAT-AAATATGTAATTAT
1 ATAATAAAATATAT-ATTAT
12497979 ATAATAAAATATATATTAT
1 ATAATAAAATATATATTAT
12497998 ATA
1 ATA
12498001 TATCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATAAAATATATATTAT
Found at i:12498232 original size:13 final size:14
Alignment explanation
Indices: 12498213--12498246 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
12498203 AATATAAAAA
*
12498213 ATATATAATTTCAT
1 ATATATAATTACAT
12498227 -TATATAATTACAT
1 ATATATAATTACAT
12498240 ATATATA
1 ATATATA
12498247 TATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATAATTACAT
Found at i:12498340 original size:22 final size:23
Alignment explanation
Indices: 12498313--12498369 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
12498303 ACATAATGTT
*
12498313 TTATATAATATATATATTT-TTA
1 TTATATAATATACATATTTATTA
12498335 TTATATAAT-TACATATTTATTA
1 TTATATAATATACATATTTATTA
*
12498357 TTTTATTAATATA
1 TTATA-TAATATA
12498370 AATAAAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 8 0.27
22 16 0.53
23 4 0.13
24 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATATAATATACATATTTATTA
Found at i:12501671 original size:30 final size:29
Alignment explanation
Indices: 12501637--12501830 Score: 171
Period size: 30 Copynumber: 6.7 Consensus size: 29
12501627 CATTAAAACT
*
12501637 GGGTCAAATTTGAATTTTCAAAAACTTTAG
1 GGGTCAAATTTGAATTTTTAAAAA-TTTAG
** * *
12501667 GGGTCAAATAAGAATTTTTAGAAAGTTTGG
1 GGGTCAAATTTGAATTTTTA-AAAATTTAG
* *
12501697 GGGTCAAATTAGAATTTTTGAAAAATTTGG
1 GGGTCAAATTTGAATTTTT-AAAAATTTAG
** * *
12501727 GGGTCAAATTCAAATTTTTGGAAAGTTTAG
1 GGGTCAAATTTGAATTTTT-AAAAATTTAG
** *
12501757 GATTC-AATTT---TTTTTTAAAATTTAG
1 GGGTCAAATTTGAATTTTTAAAAATTTAG
*
12501782 GGGTCAAAATTGAATTTTTAAAAAATTTAG
1 GGGTCAAATTTGAATTTTT-AAAAATTTAG
*
12501812 GGGTTAAATTTGAATTTTT
1 GGGTCAAATTTGAATTTTT
12501831 GAATAGTTTG
Statistics
Matches: 134, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
25 11 0.08
26 9 0.07
29 9 0.07
30 101 0.75
31 4 0.03
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.40
Consensus pattern (29 bp):
GGGTCAAATTTGAATTTTTAAAAATTTAG
Found at i:12501800 original size:85 final size:87
Alignment explanation
Indices: 12501681--12501839 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 87
12501671 CAAATAAGAA
* * *
12501681 TTTTTAGAAAGTTTGGGGGTCAAATTAGAATTTTTGAAAAATTTGGGGGTCAAATTCAAATTTTT
1 TTTTTAGAAAGTTTAGGGGTCAAATTAGAATTTTTAAAAAATTTAGGGGTCAAATTCAAATTTTT
12501746 GGAA-AGTTTAGGATTCAATTTT
66 -GAATAGTTTAGGATTCAATTTT
* **
12501768 TTTTTA-AAA-TTTAGGGGTCAAAATT-GAATTTTTAAAAAATTTAGGGGTTAAATTTGAATTTT
1 TTTTTAGAAAGTTTAGGGGTC-AAATTAGAATTTTTAAAAAATTTAGGGGTCAAATTCAAATTTT
12501830 TGAATAGTTT
65 TGAATAGTTT
12501840 GAGGGTTGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
84 3 0.05
85 47 0.73
86 8 0.12
87 6 0.09
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.43
Consensus pattern (87 bp):
TTTTTAGAAAGTTTAGGGGTCAAATTAGAATTTTTAAAAAATTTAGGGGTCAAATTCAAATTTTT
GAATAGTTTAGGATTCAATTTT
Found at i:12503704 original size:79 final size:77
Alignment explanation
Indices: 12503614--12503881 Score: 288
Period size: 79 Copynumber: 3.4 Consensus size: 77
12503604 ATAGCTTTAG
* * *
12503614 GGGTAAAAGATTAGATTGCTTTAATCTGTCCCATGGTCGGGGTAAGAGATCGAATGGTTTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTG-CCCATGGTCGGGGTAAGAGATTG-ATGGTTTTCAAT
12503679 CTGCCCTCTGGTTA
64 CTGCCCTCTGGTTA
* * * * *
12503693 GGGTAAAAGATTGGATTGCTTTAATTTGCCCCATGGTTGGGGTAAGATATTGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTG-CCCATGGTCGGGGTAAGAGATT-GATGGTTTTCAAT
* * *
12503758 CTACCCTTTGATTA
64 CTGCCCTCTGGTTA
* * * *
12503772 GGGTAAAAGATTGGATTACTTCAATCTGCCTCATGGTCGAGGTAAAAGATTTGATGGCTTT-AAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCC-CATGGTCGGGGTAAGAGA-TTGATGGTTTTCAAT
**
12503836 CTGCCC-CATGGTCG
64 CTGCCCTC-TGGTTA
*
12503850 GGGTAAGAGATCTGGATTGCTTCAATCTGCCC
1 GGGTAAAAGAT-TGGATTGCTTCAATCTGCCC
12503882 TCTGGTTAGG
Statistics
Matches: 158, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
78 24 0.15
79 131 0.83
80 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (77 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCATGGTCGGGGTAAGAGATTGATGGTTTTCAATCT
GCCCTCTGGTTA
Found at i:12503832 original size:118 final size:119
Alignment explanation
Indices: 12503673--12503915 Score: 332
Period size: 118 Copynumber: 2.1 Consensus size: 119
12503663 TCGAATGGTT
* * * *
12503673 TTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTTAATTTGCCCCATGGTTGGGGTAA
1 TTCAATCTGCCCTCTGGTGAGGGTAAAAGATTGGATGGCTTTAATCTGCCCCATGGTCGGGGTAA
* * *
12503738 GATAT-TGGATGGTCTTCAATCTACCCTTTGATTAGGGTAAAAGAT-TGGATTAC
66 GAGATCTGGATGG-CTTCAATCTACCCTCTGATTAGGGTAAAAGATCTGAATTAC
*
12503791 TTCAATCTG-CCTCATGGTCGA-GGTAAAAGATTTGATGGCTTTAATCTGCCCCATGGTCGGGGT
1 TTCAATCTGCCCTC-TGGT-GAGGGTAAAAGATTGGATGGCTTTAATCTGCCCCATGGTCGGGGT
* * *
12503854 AAGAGATCTGGATTGCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCTGAATTAC
64 AAGAGATCTGGATGGCTTCAATCTACCCTCTGATTAGGGTAAAAGATCTGAATTAC
12503910 TTCAAT
1 TTCAAT
12503916 TTGGTCCATG
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
117 4 0.04
118 86 0.78
119 20 0.18
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (119 bp):
TTCAATCTGCCCTCTGGTGAGGGTAAAAGATTGGATGGCTTTAATCTGCCCCATGGTCGGGGTAA
GAGATCTGGATGGCTTCAATCTACCCTCTGATTAGGGTAAAAGATCTGAATTAC
Found at i:12504052 original size:50 final size:50
Alignment explanation
Indices: 12503998--12504105 Score: 162
Period size: 50 Copynumber: 2.2 Consensus size: 50
12503988 ATCCTTGTGA
12503998 CTTCAATCCACCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTGCGG
1 CTTCAATCCACCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTGCGG
* ** * * *
12504048 CTTCATTCTGCCTCTTTACAGCTTTAGGTGTATGAGATTTGCCATTGCGG
1 CTTCAATCCACCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTGCGG
12504098 CTTCAATC
1 CTTCAATC
12504106 TTCAACTCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (50 bp):
CTTCAATCCACCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTGCGG
Found at i:12504119 original size:50 final size:50
Alignment explanation
Indices: 12504015--12504125 Score: 159
Period size: 50 Copynumber: 2.2 Consensus size: 50
12504005 CCACCCCTCT
* ** **
12504015 ACAGCTTTAGGTGAATGAGATTTGCCATTGCGGCTTCATTCTGCCTCTTT
1 ACAGCTTTAGGTGAATGAGATTTGCCATTGCGGCTTCAATCTGCAACTCC
* *
12504065 ACAGCTTTAGGTGTATGAGATTTGCCATTGCGGCTTCAATCTTCAACTCC
1 ACAGCTTTAGGTGAATGAGATTTGCCATTGCGGCTTCAATCTGCAACTCC
12504115 ACAGCTTTAGG
1 ACAGCTTTAGG
12504126 GTAAAAGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (50 bp):
ACAGCTTTAGGTGAATGAGATTTGCCATTGCGGCTTCAATCTGCAACTCC
Found at i:12510677 original size:31 final size:31
Alignment explanation
Indices: 12510642--12510702 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
12510632 TTAATACATG
12510642 AAAATGCGACACAAAAC-TTTATGAATGCATA
1 AAAATGCGACAC-AAACTTTTATGAATGCATA
**
12510673 AAAATGCGATGCAAACTTTTATGAATGCAT
1 AAAATGCGACACAAACTTTTATGAATGCAT
12510703 GAATACATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (31 bp):
AAAATGCGACACAAACTTTTATGAATGCATA
Found at i:12514178 original size:18 final size:17
Alignment explanation
Indices: 12514142--12514199 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
12514132 ATTTACAAGT
*
12514142 ATACATAATAAAAAAACA
1 ATACATAAT-AAAATACA
12514160 ATACATACATAAAATACA
1 ATACATA-ATAAAATACA
12514178 ATA-A-AATAAAATA-A
1 ATACATAATAAAATACA
12514192 TATACATA
1 -ATACATA
12514200 TGCATATGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 1 0.03
15 11 0.31
16 2 0.06
17 2 0.06
18 17 0.49
19 2 0.06
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.22
Consensus pattern (17 bp):
ATACATAATAAAATACA
Found at i:12514355 original size:30 final size:30
Alignment explanation
Indices: 12514251--12514434 Score: 119
Period size: 30 Copynumber: 6.2 Consensus size: 30
12514241 TTAAAATCGA
* *
12514251 GTCAATTTTGAA-TTTTTAAAAACTTT-AGG
1 GTCAAATTTGAATTTTTTGAAAA-TTTGAGG
** * * *
12514280 GATCAAATAGGAATTTTTGGAAAGTTTAAGG
1 G-TCAAATTTGAATTTTTTGAAAATTTGAGG
** *
12514311 GTC--ATTCAAATTTTTTGAAAATTCGAGG
1 GTCAAATTTGAATTTTTTGAAAATTTGAGG
*
12514339 GTCAAATTTGAATTTTTGGAAAATTTG-GTG
1 GTCAAATTTGAATTTTTTGAAAATTTGAG-G
* *
12514369 GTGAAATTTGAA-TTTTTGAAAAATTTAAGG
1 GTCAAATTTGAATTTTTTG-AAAATTTGAGG
** * * * *
12514399 GTTTAATTTGAATTTTTGGATAGTTTGGGG
1 GTCAAATTTGAATTTTTTGAAAATTTGAGG
12514429 GTCAAA
1 GTCAAA
12514435 AACAATTTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 17
0.72 0.18 0.10
Matches are distributed among these distances:
28 21 0.18
29 7 0.06
30 72 0.62
31 17 0.15
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (30 bp):
GTCAAATTTGAATTTTTTGAAAATTTGAGG
Found at i:12517211 original size:24 final size:25
Alignment explanation
Indices: 12517184--12517230 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
12517174 TAATGTTCAT
*
12517184 TTAACCGAATTAA-TCAAATTAAAA
1 TTAACCGAATTAACTAAAATTAAAA
12517208 TTAACCGAATTAACTAAAATTAA
1 TTAACCGAATTAACTAAAATTAA
12517231 TCGAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (25 bp):
TTAACCGAATTAACTAAAATTAAAA
Found at i:12517246 original size:20 final size:19
Alignment explanation
Indices: 12517203--12517257 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
12517193 TTAATCAAAT
12517203 TAAAATTAACCGAATTAAC
1 TAAAATTAACCGAATTAAC
*
12517222 TAAAATTAATCGAAATTAA-
1 TAAAATTAACCG-AATTAAC
*
12517241 TCAAAATGAACCGAATT
1 T-AAAATTAACCGAATT
12517258 GGTAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (19 bp):
TAAAATTAACCGAATTAAC
Found at i:12519655 original size:21 final size:22
Alignment explanation
Indices: 12519631--12519676 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12519621 ATATTAGGGG
*
12519631 TTTGAG-ATAAAATATAAAAAA
1 TTTGAGAATAAAAGATAAAAAA
* *
12519652 TTTGAGAATCAAAGATAAATAA
1 TTTGAGAATAAAAGATAAAAAA
12519674 TTT
1 TTT
12519677 CGGATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (22 bp):
TTTGAGAATAAAAGATAAAAAA
Found at i:12519843 original size:68 final size:66
Alignment explanation
Indices: 12519729--12519854 Score: 173
Period size: 68 Copynumber: 1.9 Consensus size: 66
12519719 ATCAAAATGT
* * *
12519729 AATATTTTTATTTAGCCATGACTTTAAAACATTAAATTAAATTATTAATTTTTAAGAGGGGTCAA
1 AATATTTTTATTTAACCATGACTTTAAAACATTAAACTAAATTATTAATGTTTAAGAGGGGTCAA
12519794 A
66 A
* *
12519795 AATATTTTTAATTTAACCAATGA-TTTAAAAGGATTAAACTGAATTATTAATGTTTAAGAG
1 AATATTTTT-ATTTAACC-ATGACTTTAAAA-CATTAAACTAAATTATTAATGTTTAAGAG
12519855 AGAGAAAGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
66 9 0.17
67 14 0.27
68 29 0.56
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.40
Consensus pattern (66 bp):
AATATTTTTATTTAACCATGACTTTAAAACATTAAACTAAATTATTAATGTTTAAGAGGGGTCAA
A
Found at i:12520885 original size:31 final size:31
Alignment explanation
Indices: 12520850--12520908 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
12520840 TATCATTGAT
*
12520850 CTATTCAAAAATTTTCATTTAAGTCACTGAA
1 CTATTCAAAAATTTTCACTTAAGTCACTGAA
** * *
12520881 CTATTTGAAAGTTTTTACTTAAGTCACT
1 CTATTCAAAAATTTTCACTTAAGTCACT
12520909 AGGTTGTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (31 bp):
CTATTCAAAAATTTTCACTTAAGTCACTGAA
Found at i:12525679 original size:15 final size:15
Alignment explanation
Indices: 12525655--12525684 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12525645 TTACCGAACT
12525655 TAATAAATAATATTA
1 TAATAAATAATATTA
*
12525670 TAATATATAATATTA
1 TAATAAATAATATTA
12525685 GTCCACTACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATAAATAATATTA
Found at i:12528501 original size:97 final size:97
Alignment explanation
Indices: 12528326--12528519 Score: 289
Period size: 97 Copynumber: 2.0 Consensus size: 97
12528316 AAACTTGAAA
* *
12528326 AAGGGTATCCGATTATCCCGGTTTGAAGAAGAGTCACGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATCCGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCA
* * *
12528391 AAACCCGAGATAAACGAATATTACCTCGATTT
66 AAACCAGAAATAAACGAATATTACCTCAATTT
* * *
12528423 AAGGGTATTCGATTATCCTGGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATCCGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCA
* * *
12528488 AAACTAGAAATAAAGGAATATTGCCTCAATTT
66 AAACCAGAAATAAACGAATATTACCTCAATTT
12528520 TAAATATTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 86 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (97 bp):
AAGGGTATCCGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACCAGAAATAAACGAATATTACCTCAATTT
Found at i:12528887 original size:29 final size:29
Alignment explanation
Indices: 12528829--12529131 Score: 234
Period size: 30 Copynumber: 10.3 Consensus size: 29
12528819 AAGTTTTAGG
* * * *
12528829 GGTAAAAATGTCA-TTTTAAGGGAGTTCAA
1 GGTAAAAATGTAATTTTTGA-GAAGTTTAA
* **
12528858 GGTAAAAATGTGATTTTTGAGAAGTCCAA
1 GGTAAAAATGTAATTTTTGAGAAGTTTAA
* *
12528887 GGCAAAAATGTAATTTTTG-GAAGTTTAGGG
1 GGTAAAAATGTAATTTTTGAGAAGTTTA--A
* * *
12528917 GGCAAAAATGTAATTTTTGA-AAATTTAG
1 GGTAAAAATGTAATTTTTGAGAAGTTTAA
* *
12528945 GGGAAAAATGTAATTTTTGAGAAGTTTGA
1 GGTAAAAATGTAATTTTTGAGAAGTTTAA
** * * * * *
12528974 GGGCAAAATGTGATTTTGGAAAATTTTAGG
1 GGTAAAAATGTAATTTTTGAGAAGTTTA-A
12529004 GGTAAAAATGTAATTTTTGAGAAGTTTAA
1 GGTAAAAATGTAATTTTTGAGAAGTTTAA
* * * *
12529033 GGGTCAAAATGTGATTTTGGAAAAGTTTAA
1 -GGTAAAAATGTAATTTTTGAGAAGTTTAA
*
12529063 GGGTAAAAATATAATTTTTGAGAAGTTTAA
1 -GGTAAAAATGTAATTTTTGAGAAGTTTAA
* * * * *
12529093 GGGTAAAATTGAAATTTTGGAAAAGTTTGA
1 -GGTAAAAATGTAATTTTTGAGAAGTTTAA
*
12529123 GGTCAAAAT
1 GGTAAAAAT
12529132 ATGATTTCTG
Statistics
Matches: 222, Mismatches: 45, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
28 26 0.12
29 70 0.32
30 126 0.57
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.34
Consensus pattern (29 bp):
GGTAAAAATGTAATTTTTGAGAAGTTTAA
Found at i:12529067 original size:60 final size:60
Alignment explanation
Indices: 12528818--12529120 Score: 318
Period size: 60 Copynumber: 5.1 Consensus size: 60
12528808 GTAATTTTAG
* * * * * * *
12528818 AAAGTTTTAGGGGTAAAAATGTCA-TTTTAAGGGAGTTCAA-GGTAAAAATGTGATTTTTGA
1 AAAG-TTTAAGGGTAAAAATGTAATTTTTGA-GAAGTTTAAGGGTCAAAATGTGATTTTGGA
* ** * * * * *
12528878 GAAGTCCAA-GGCAAAAATGTAATTTTTG-GAAGTTTAGGGGGCAAAAATGTAATTTTTGA
1 AAAGTTTAAGGGTAAAAATGTAATTTTTGAGAAGTTTAAGGGTC-AAAATGTGATTTTGGA
* *
12528937 AAA-TTT-AGGGGAAAAATGTAATTTTTGAGAAGTTTGAGGG-CAAAATGTGATTTTGGA
1 AAAGTTTAAGGGTAAAAATGTAATTTTTGAGAAGTTTAAGGGTCAAAATGTGATTTTGGA
* *
12528994 AAATTTTAGGGGTAAAAATGTAATTTTTGAGAAGTTTAAGGGTCAAAATGTGATTTTGGA
1 AAAGTTTAAGGGTAAAAATGTAATTTTTGAGAAGTTTAAGGGTCAAAATGTGATTTTGGA
*
12529054 AAAGTTTAAGGGTAAAAATATAATTTTTGAGAAGTTTAAGGGT-AAAAT-TGAAATTTTGGA
1 AAAGTTTAAGGGTAAAAATGTAATTTTTGAGAAGTTTAAGGGTCAAAATGTG--ATTTTGGA
12529114 AAAGTTT
1 AAAGTTT
12529121 GAGGTCAAAA
Statistics
Matches: 206, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
57 24 0.12
58 38 0.18
59 69 0.33
60 75 0.36
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (60 bp):
AAAGTTTAAGGGTAAAAATGTAATTTTTGAGAAGTTTAAGGGTCAAAATGTGATTTTGGA
Found at i:12530504 original size:14 final size:14
Alignment explanation
Indices: 12530485--12530525 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
12530475 CAATGATTGT
*
12530485 AATTTATTTTTTTC
1 AATTTATGTTTTTC
12530499 AATTTAATGTTTTTC
1 AATTT-ATGTTTTTC
12530514 AATTTAATGTTT
1 AATTT-ATGTTT
12530526 GTCTTGTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (14 bp):
AATTTATGTTTTTC
Found at i:12530513 original size:15 final size:15
Alignment explanation
Indices: 12530493--12530525 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
12530483 GTAATTTATT
12530493 TTTTTCAATTTAATG
1 TTTTTCAATTTAATG
12530508 TTTTTCAATTTAATG
1 TTTTTCAATTTAATG
12530523 TTT
1 TTT
12530526 GTCTTGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTTTCAATTTAATG
Found at i:12530863 original size:6 final size:6
Alignment explanation
Indices: 12530852--12530893 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
12530842 TAAAAGGGAC
* *
12530852 ATTTAA ATTTAA ATTT-A TTTTAA ATTTAA ATTTAA ACTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
12530894 ATAAATCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:12530875 original size:17 final size:17
Alignment explanation
Indices: 12530853--12530885 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
12530843 AAAAGGGACA
12530853 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
12530870 TTTAAATTTAAATTTA
1 TTTAAATTTAAATTTA
12530886 AACTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:12530898 original size:23 final size:23
Alignment explanation
Indices: 12530852--12530904 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
12530842 TAAAAGGGAC
* ***
12530852 ATTTAAATTTAAATTTATTTTAA
1 ATTTAAATTTAAACTTAAAATAA
12530875 ATTTAAATTTAAACTTAAAATAA
1 ATTTAAATTTAAACTTAAAATAA
*
12530898 ATCTAAA
1 ATTTAAA
12530905 AAAAATGGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTTAAATTTAAACTTAAAATAA
Found at i:12531504 original size:39 final size:39
Alignment explanation
Indices: 12531461--12531882 Score: 247
Period size: 39 Copynumber: 10.8 Consensus size: 39
12531451 GCTTTCTGCA
* * *
12531461 ATCTGGCCCAAGCTCGGGGTAAGAGGTTGACTGGTGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGGTGATG
* *
12531500 ATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTGCA--
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGG-TG-ATG
* * * * *
12531539 ATCTGTCCCAGGCTCAGGGTAAGCGATTGATTGGTGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGGTGATG
* *
12531578 ATCTGCCCCATGCTCGGGGTAAGAGATCGAATGGCTGCA--
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGG-TG-ATG
* * * * *
12531617 ATCTACCCTAGGCTCGGGGTAAGAGATTGACTAGTGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGGTGATG
* * * * *
12531656 ATCTACCCCAAGCTCAGGGTAAAAGGTCGAATGGCTGCA--
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGG-TG-ATG
* * * * *
12531695 ATCTG-CCCAGGCTCGGGTTAAGAGATCGGATAGCTGCA--
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAAT-GGTG-ATG
* * * * ** *
12531733 ACCTGCCCCAAGCTCGAGGCAAGAGATTGACTAATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGGTGATG
* * **
12531772 ATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGT--TG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGGTGATG
* * * * *
12531809 CAATCTGTCACAGGCTCGGGGTAAGAGATTGACTGACT-ATG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATG-GTGATG
* * *
12531850 ATCTGCCCCAAGCTCGAGGTAAAAGATCGAATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATG
12531883 ACTGCAATTT
Statistics
Matches: 288, Mismatches: 77, Indels: 36
0.72 0.19 0.09
Matches are distributed among these distances:
37 4 0.01
38 34 0.12
39 238 0.83
40 7 0.02
41 5 0.02
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGAATGGTGATG
Found at i:12531593 original size:78 final size:77
Alignment explanation
Indices: 12531456--12531720 Score: 377
Period size: 78 Copynumber: 3.4 Consensus size: 77
12531446 GACGAGCTTT
* * *
12531456 CTGCAATCTGGCCCAAGCTCGGGGTAAGAGGTTGACTGGTGATGATCTGCCTCAAGCTCGGGGTA
1 CTGCAATCT-GCCCAGGCTCGGGGTAAGAGATTGACTGGTGATGATCTGCCCCAAGCTCGGGGTA
12531521 AGAGATCGAATGG
65 AGAGATCGAATGG
* * * *
12531534 CTGCAATCTGTCCCAGGCTCAGGGTAAGCGATTGATTGGTGATGATCTGCCCCATGCTCGGGGTA
1 CTGCAATCTG-CCCAGGCTCGGGGTAAGAGATTGACTGGTGATGATCTGCCCCAAGCTCGGGGTA
12531599 AGAGATCGAATGG
65 AGAGATCGAATGG
* * * *
12531612 CTGCAATCTACCCTAGGCTCGGGGTAAGAGATTGACTAGTGATGATCTACCCCAAGCTCAGGGTA
1 CTGCAATCTGCCC-AGGCTCGGGGTAAGAGATTGACTGGTGATGATCTGCCCCAAGCTCGGGGTA
* *
12531677 AAAGGTCGAATGG
65 AGAGATCGAATGG
*
12531690 CTGCAATCTGCCCAGGCTCGGGTTAAGAGAT
1 CTGCAATCTGCCCAGGCTCGGGGTAAGAGAT
12531721 CGGATAGCTG
Statistics
Matches: 166, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
77 21 0.13
78 145 0.87
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (77 bp):
CTGCAATCTGCCCAGGCTCGGGGTAAGAGATTGACTGGTGATGATCTGCCCCAAGCTCGGGGTAA
GAGATCGAATGG
Found at i:12531758 original size:116 final size:117
Alignment explanation
Indices: 12531578--12531837 Score: 351
Period size: 116 Copynumber: 2.2 Consensus size: 117
12531568 ATTGGTGATG
* * * * * * *
12531578 ATCTGCCCCATGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCTAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATAGCTGCAACCTACCCCAAGCTCGAGGCAAGAGA
* * *
12531643 TTGACTAGTGATGATCTACCCCAAGCTCAGGGTAAAAGGTCGAATGGCTGCA
66 TTGACTAATGATGATCTACCCCAAGCTCAGGGTAAAAGATCAAATGGCTGCA
* * *
12531695 ATCTG-CCCAGGCTCGGGTTAAGAGATCGGATAGCTGCAACCTGCCCCAAGCTCGAGGCAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATAGCTGCAACCTACCCCAAGCTCGAGGCAAGAGA
* * *
12531759 TTGACTAATGGTGATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGTTGCA
66 TTGACTAATGATGATCTACCCCAAGCTCAGGGTAAAAGATCAAATGGCTGCA
* *
12531811 ATCTGTCACAGGCTCGGGGTAAGAGAT
1 ATCTGCCCCAGGCTCGGGGTAAGAGAT
12531838 TGACTGACTA
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
116 100 0.81
117 24 0.19
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (117 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATAGCTGCAACCTACCCCAAGCTCGAGGCAAGAGA
TTGACTAATGATGATCTACCCCAAGCTCAGGGTAAAAGATCAAATGGCTGCA
Found at i:12531811 original size:78 final size:77
Alignment explanation
Indices: 12531728--12532111 Score: 351
Period size: 78 Copynumber: 4.9 Consensus size: 77
12531718 GATCGGATAG
* * *
12531728 CTGCAACCTGCCCCAAGCTCGAGGCAAGAGATTGACTAATGGTGATCTACCCCAAGCTCGGGGTA
1 CTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACTAAT-GTGATCTACCCCAAGCTCGGGGTA
*
12531793 AAAGATCAAATGG
65 AAAGATCAAATGA
* * * * * * * *
12531806 TTGCAATCTGTCACAGGCTCGGGGTAAGAGATTGACTGACTATGATCTGCCCCAAGCTCGAGGTA
1 CTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACT-AATGTGATCTACCCCAAGCTCGGGGTA
*
12531871 AAAGATCGAATGA
65 AAAGATCAAATGA
* * * * * * * *
12531884 CTGCAATTTGACCTAGGCTCGAGGTAAGAGATTAACTAATGGTGATCT-GCCCAGGCTCGGGGTA
1 CTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACTAAT-GTGATCTACCCCAAGCTCGGGGTA
12531948 AAAGATCAAATGA
65 AAAGATCAAATGA
* * * * * * *
12531961 CTACAATCTGCCCCAAGCTCGGGGTTAGAGATT-AGTTGATTGTGATTTACCTCAGGCTCGGGGT
1 CTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGA-CT-AATGTGATCTACCCCAAGCTCGGGGT
* *
12532025 AAAAAAT-AGAATTA
64 AAAAGATCA-AATGA
* * * * * * *
12532039 CTGCAATCTGCCCTATGCTCGGGGTAAAAAATTGGCTAACTGTGATTTGCCCCAAGCTCGGGGTA
1 CTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACTAA-TGTGATCTACCCCAAGCTCGGGGTA
12532104 AAAGATCA
65 AAAGATCA
12532112 GAATCTTCAA
Statistics
Matches: 244, Mismatches: 53, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
76 1 0.00
77 62 0.25
78 178 0.73
79 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (77 bp):
CTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACTAATGTGATCTACCCCAAGCTCGGGGTAA
AAGATCAAATGA
Found at i:12531813 original size:194 final size:193
Alignment explanation
Indices: 12531500--12531915 Score: 498
Period size: 194 Copynumber: 2.1 Consensus size: 193
12531490 ACTGGTGATG
* * * * * * *
12531500 ATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTGTCCCAGGCTCAGGGTAAGCGA
1 ATCTGCC-CAGGCTC-GGGTAAGAGATCGAATAGCTGCAACCTGCCCCAAGCTCAGGGCAAGAGA
* ** * * * * *
12531565 TTGATTGGTGATGATCTGCCCCATGCTCGGGGTAAGAGATCGAATGGCTGCAATCT-ACCCTAGG
64 TTGACTAATGATGATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGCTGCAATCTGACAC-AGG
* * *
12531629 CTCGGGGTAAGAGATTGACT-AGTGATGATCTACCCCAAGCTC-AGGGTAAAAGGTCGAATGGCT
128 CTCGGGGTAAGAGATTGACTGACT-ATGATCTACCCCAAGCTCGA-GGTAAAAGATCGAATGACT
12531692 GCA
191 GCA
*
12531695 ATCTGCCCAGGCTCGGGTTAAGAGATCGGATAGCTGCAACCTGCCCCAAGCTC-GAGGCAAGAGA
1 ATCTGCCCAGGCTCGGG-TAAGAGATCGAATAGCTGCAACCTGCCCCAAGCTCAG-GGCAAGAGA
* * *
12531759 TTGACTAATGGTGATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGTTGCAATCTGTCACAGGC
64 TTGACTAATGATGATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGCTGCAATCTGACACAGGC
*
12531824 TCGGGGTAAGAGATTGACTGACTATGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTGCA
129 TCGGGGTAAGAGATTGACTGACTATGATCTACCCCAAGCTCGAGGTAAAAGATCGAATGACTGCA
* *
12531889 ATTTGACCTAGGCTCGAGGTAAGAGAT
1 ATCTG-CCCAGGCTCG-GGTAAGAGAT
12531916 TAACTAATGG
Statistics
Matches: 189, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
193 4 0.02
194 154 0.81
195 29 0.15
196 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (193 bp):
ATCTGCCCAGGCTCGGGTAAGAGATCGAATAGCTGCAACCTGCCCCAAGCTCAGGGCAAGAGATT
GACTAATGATGATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGCTGCAATCTGACACAGGCTC
GGGGTAAGAGATTGACTGACTATGATCTACCCCAAGCTCGAGGTAAAAGATCGAATGACTGCA
Found at i:12531885 original size:39 final size:39
Alignment explanation
Indices: 12531498--12532115 Score: 162
Period size: 39 Copynumber: 15.9 Consensus size: 39
12531488 TGACTGGTGA
* * * *
12531498 TGATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTG
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
** * * ** * * *
12531537 CAATCTGTCCCAGGCTC-AGGGTAAGCGATTGATTG-GTG
1 TGATCTGCCCCAAGCTCGA-GGTAAAAGATCGAATGACTG
* * * *
12531575 ATGATCTGCCCCATGCTCGGGGTAAGAGATCGAATGGCTG
1 -TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
** * * * * * * * *
12531615 CAATCTACCCTAGGCTCGGGGTAAGAGATTGACT-AGTG
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
* * *
12531653 ATGATCTACCCCAAGCTC-AGGGTAAAAGGTCGAATGGCTG
1 -TGATCTGCCCCAAGCTCGA-GGTAAAAGATCGAATGACTG
** * * *
12531693 CAATCTG-CCCAGGCTCG-GGTTAAGAGATCGGAT-AGCTG
1 TGATCTGCCCCAAGCTCGAGG-TAAAAGATCGAATGA-CTG
** * * * * * *
12531731 CAACCTGCCCCAAGCTCGAGGCAAGAGATTGACT-AATGG
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACT-G
* * * **
12531770 TGATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGTTG
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
** * * * * * * * *
12531809 CAATCTGTCACAGGCTCGGGGTAAGAGATTGACTGACTA
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
12531848 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
** * * * * * * *
12531887 CAATTTGACCTAGGCTCGAGGTAAGAGAT-TAACT-AATGG
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAA-TGACT-G
* * * *
12531926 TGATCTG-CCCAGGCTCGGGGTAAAAGATCAAATGACTA
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
** * * * * * *
12531964 CAATCTGCCCCAAGCTCGGGGTTAGAGAT-TAGTTGATTG
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGA-ATGACTG
* * * * * * * *
12532003 TGATTTACCTCAGGCTCGGGGTAAAAAATAGAATTACTG
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
** * * * * * ** *
12532042 CAATCTGCCCTATGCTCGGGGTAAAAAATTGGCTAACTG
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
* *
12532081 TGATTTGCCCCAAGCTCGGGGTAAAAGATCAGAAT
1 TGATCTGCCCCAAGCTCGAGGTAAAAGATC-GAAT
12532116 CTTCAATCTG
Statistics
Matches: 408, Mismatches: 149, Indels: 43
0.68 0.25 0.07
Matches are distributed among these distances:
37 2 0.00
38 61 0.15
39 335 0.82
40 10 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (39 bp):
TGATCTGCCCCAAGCTCGAGGTAAAAGATCGAATGACTG
Found at i:12531981 original size:155 final size:155
Alignment explanation
Indices: 12531744--12532111 Score: 416
Period size: 155 Copynumber: 2.4 Consensus size: 155
12531734 CCTGCCCCAA
* * ** *
12531744 GCTCGAGGCAAGAGATTGACTAATGGTGATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGTTG
1 GCTCGAGGTAAGAGATTGACTAATGGTGATCT-GCCCAAGCTCGGGGTAAAAGATCAAATGACTA
* * *
12531809 CAATCTGTCACAGGCTCGGGGTAAGAGATT-GACTGACTATGATCTGCCCCAAGCTCGAGGTAAA
65 CAATCTGCCACAAGCTCGGGGTAAGAGATTAG-CTGACTATGATCTACCCCAAGCTCGAGGTAAA
* * *
12531873 AGATCGAATGACTGCAATTTGACCTAG
129 AAATAGAATGACTGCAATCTGACCTAG
* *
12531900 GCTCGAGGTAAGAGATTAACTAATGGTGATCTGCCCAGGCTCGGGGTAAAAGATCAAATGACTAC
1 GCTCGAGGTAAGAGATTGACTAATGGTGATCTGCCCAAGCTCGGGGTAAAAGATCAAATGACTAC
* * * * * * * * *
12531965 AATCTGCCCCAAGCTCGGGGTTAGAGATTAGTTGATTGTGATTTACCTCAGGCTCGGGGTAAAAA
66 AATCTGCCACAAGCTCGGGGTAAGAGATTAGCTGACTATGATCTACCCCAAGCTCGAGGTAAAAA
* * *
12532030 ATAGAATTACTGCAATCTGCCCTAT
131 ATAGAATGACTGCAATCTGACCTAG
* * * * *
12532055 GCTCGGGGTAAAAAATTGGCTAACT-GTGATTTGCCCCAAGCTCGGGGTAAAAGATCA
1 GCTCGAGGTAAGAGATTGACTAA-TGGTGATCTG-CCCAAGCTCGGGGTAAAAGATCA
12532112 GAATCTTCAA
Statistics
Matches: 177, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
155 123 0.69
156 54 0.31
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (155 bp):
GCTCGAGGTAAGAGATTGACTAATGGTGATCTGCCCAAGCTCGGGGTAAAAGATCAAATGACTAC
AATCTGCCACAAGCTCGGGGTAAGAGATTAGCTGACTATGATCTACCCCAAGCTCGAGGTAAAAA
ATAGAATGACTGCAATCTGACCTAG
Found at i:12531983 original size:272 final size:272
Alignment explanation
Indices: 12531456--12531992 Score: 695
Period size: 272 Copynumber: 2.0 Consensus size: 272
12531446 GACGAGCTTT
* * * * * ** * *
12531456 CTGCAATCTGGCCCAAGCTCGGGGTAAGAGGTTGACTGGTGATGATCTGCCTCAAGCTCGGGGTA
1 CTGCAACCTGCCCCAAGCTCGAGGCAAGAGATTGACTAATGATGATCTACCCCAAGCTCGGGGTA
* * * * * *
12531521 AGAGATCGAATGGCTGCAATCTGTCCCAGGCTCAGGGTAAGCGATTGATTGGTGATGATCTGCCC
66 AAAGATCAAATGGCTGCAATCTGTCACAGGCTCAGGGTAAGAGATTGACTGCTGATGATCTGCCC
* * * * * * *
12531586 CATGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCTAGGCTCGGGGTAAGAGATTGACTAG
131 CAAGCTCGAGGTAAAAGATCGAATGACTGCAATCTACCCTAGGCTCGAGGTAAGAGATTAACTAA
* * * * *
12531651 TGATGATCTACCCCAAGCTCAGGGTAAAAGGTCGAATGGCTGCAATCTGCCCAGGCTC-GGGTTA
196 TGATGATCTACCCCAAGCTCAGGGTAAAAGATCAAATGACTACAATCTGCCCAAGCTCGGGGTT-
12531715 AGAGATCGGATAG
260 AGAGATCGGATAG
*
12531728 CTGCAACCTGCCCCAAGCTCGAGGCAAGAGATTGACTAATGGTGATCTACCCCAAGCTCGGGGTA
1 CTGCAACCTGCCCCAAGCTCGAGGCAAGAGATTGACTAATGATGATCTACCCCAAGCTCGGGGTA
* *
12531793 AAAGATCAAATGGTTGCAATCTGTCACAGGCTCGGGGTAAGAGATTGACTGACT-ATGATCTGCC
66 AAAGATCAAATGGCTGCAATCTGTCACAGGCTCAGGGTAAGAGATTGACTG-CTGATGATCTGCC
*
12531857 CCAAGCTCGAGGTAAAAGATCGAATGACTGCAATTTGA-CCTAGGCTCGAGGTAAGAGATTAACT
130 CCAAGCTCGAGGTAAAAGATCGAATGACTGCAATCT-ACCCTAGGCTCGAGGTAAGAGATTAACT
* * * *
12531921 AATGGTGATCT-GCCCAGGCTCGGGGTAAAAGATCAAATGACTACAATCTGCCCCAAGCTCGGGG
194 AATGATGATCTACCCCAAGCTCAGGGTAAAAGATCAAATGACTACAATCTG-CCCAAGCTCGGGG
12531985 TTAGAGAT
258 TTAGAGAT
12531993 TAGTTGATTG
Statistics
Matches: 226, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
271 32 0.14
272 187 0.83
273 7 0.03
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (272 bp):
CTGCAACCTGCCCCAAGCTCGAGGCAAGAGATTGACTAATGATGATCTACCCCAAGCTCGGGGTA
AAAGATCAAATGGCTGCAATCTGTCACAGGCTCAGGGTAAGAGATTGACTGCTGATGATCTGCCC
CAAGCTCGAGGTAAAAGATCGAATGACTGCAATCTACCCTAGGCTCGAGGTAAGAGATTAACTAA
TGATGATCTACCCCAAGCTCAGGGTAAAAGATCAAATGACTACAATCTGCCCAAGCTCGGGGTTA
GAGATCGGATAG
Found at i:12532046 original size:233 final size:234
Alignment explanation
Indices: 12531695--12532115 Score: 519
Period size: 233 Copynumber: 1.8 Consensus size: 234
12531685 AATGGCTGCA
* * ** *
12531695 ATCTGCCCAGGCTCGGGTTAAGAGATCGGATAGCTGCAACCTGCCCCAAGCTCGAGGCAAGAGAT
1 ATCTGCCCAGGCTCGGGGTAAAAGATCAAATAGCTACAACCTGCCCCAAGCTCGAGGCAAGAGAT
* **
12531760 TGACTAATGGTGATCTACCCCAAGCTCGGGGTAAAAGATCAAATGGTTGCAATCTGTCAC-AGGC
66 TGACTAATGGTGATCTACCCCAAGCTCGGGGTAAAAAATCAAATGACTGCAATCTG-CACTAGGC
* * *
12531824 TCGGGGTAAGAGATTGACTGACTATGATCTGCCCCAAGCTCGAGGTAAAAGATC-GAATGACTGC
130 TCGGGGTAAAAAATTGACTAACTATGATCTGCCCCAAGCTCGAGGTAAAAGATCAGAATGACTGC
12531888 AATTTGACCTAGGCTCGAGGTAAGAGATTAACTAATGGTG
195 AATTTGACCTAGGCTCGAGGTAAGAGATTAACTAATGGTG
* * **
12531928 ATCTGCCCAGGCTCGGGGTAAAAGATCAAAT-GACTACAATCTGCCCCAAGCTCGGGGTTAGAGA
1 ATCTGCCCAGGCTCGGGGTAAAAGATCAAATAG-CTACAACCTGCCCCAAGCTCGAGGCAAGAGA
* * * * * * * * *
12531992 TT-AGTTGATTGTGATTTACCTCAGGCTCGGGGTAAAAAAT-AGAATTACTGCAATCTGCCCTAT
65 TTGA-CTAATGGTGATCTACCCCAAGCTCGGGGTAAAAAATCA-AATGACTGCAATCTGCACTAG
* * * *
12532055 GCTCGGGGTAAAAAATTGGCTAACTGTGATTTGCCCCAAGCTCGGGGTAAAAGATCAGAAT
128 GCTCGGGGTAAAAAATTGACTAACTATGATCTGCCCCAAGCTCGAGGTAAAAGATCAGAAT
12532116 CTTCAATCTG
Statistics
Matches: 155, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
232 5 0.03
233 146 0.94
234 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (234 bp):
ATCTGCCCAGGCTCGGGGTAAAAGATCAAATAGCTACAACCTGCCCCAAGCTCGAGGCAAGAGAT
TGACTAATGGTGATCTACCCCAAGCTCGGGGTAAAAAATCAAATGACTGCAATCTGCACTAGGCT
CGGGGTAAAAAATTGACTAACTATGATCTGCCCCAAGCTCGAGGTAAAAGATCAGAATGACTGCA
ATTTGACCTAGGCTCGAGGTAAGAGATTAACTAATGGTG
Found at i:12532208 original size:41 final size:41
Alignment explanation
Indices: 12532099--12532233 Score: 180
Period size: 41 Copynumber: 3.2 Consensus size: 41
12532089 CCCAAGCTCG
* * * *
12532099 GGGTAAAAGATCAGAATCTTCAATCTGTCATTCTTGATTTAA
1 GGGTAAAAGATCGGAATCTTCAATTTGCCCTTCTTG-TTTAA
* *
12532141 GGGTAAAAAAACTGGAATCTTCAATTTGCCCTTCTTGTTTAA
1 GGGTAAAAGATC-GGAATCTTCAATTTGCCCTTCTTGTTTAA
* *
12532183 GGGTAAAAGATCGGAATCTTCAATTTACCCTTCTTGATTAA
1 GGGTAAAAGATCGGAATCTTCAATTTGCCCTTCTTGTTTAA
12532224 GGGTAAAAGA
1 GGGTAAAAGA
12532234 CTGAATGATG
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
41 37 0.45
42 25 0.30
43 20 0.24
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (41 bp):
GGGTAAAAGATCGGAATCTTCAATTTGCCCTTCTTGTTTAA
Found at i:12533358 original size:20 final size:20
Alignment explanation
Indices: 12533329--12533384 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
12533319 GACCTCTCCT
*
12533329 TTTCTTTTTTCTTTTTTTAA
1 TTTCTCTTTTCTTTTTTTAA
* **
12533349 TTTCTCTTTTTTATTTTTTCC
1 TTTCTCTTTTCT-TTTTTTAA
12533370 TTT-TC-TTTCTTTTTT
1 TTTCTCTTTTCTTTTTT
12533385 ATATTTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.17
19 4 0.13
20 12 0.40
21 9 0.30
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTCTCTTTTCTTTTTTTAA
Found at i:12533374 original size:22 final size:23
Alignment explanation
Indices: 12533330--12533386 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
12533320 ACCTCTCCTT
* *
12533330 TTCTTTTTTCTTTTTTTAATTTC
1 TTCTTTTTTATTTTTTCAATTTC
**
12533353 -TCTTTTTTATTTTTTCCTTTTC
1 TTCTTTTTTATTTTTTCAATTTC
12533375 TTTCTTTTTTAT
1 -TTCTTTTTTAT
12533387 ATTTATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 18 0.64
24 10 0.36
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (23 bp):
TTCTTTTTTATTTTTTCAATTTC
Found at i:12533396 original size:23 final size:23
Alignment explanation
Indices: 12533353--12533399 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
12533343 TTTTAATTTC
*
12533353 TCTTTTTTATTTTTTCCTTTTCTT
1 TCTTTTTTATTTTAT-CTTTTCTT
12533377 TCTTTTTTATATTTAT-TTTTCTT
1 TCTTTTTTAT-TTTATCTTTTCTT
12533400 CATCAAATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 10 0.48
25 4 0.19
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (23 bp):
TCTTTTTTATTTTATCTTTTCTT
Found at i:12538016 original size:97 final size:96
Alignment explanation
Indices: 12537871--12538059 Score: 245
Period size: 97 Copynumber: 2.0 Consensus size: 96
12537861 TTGAAAAAGT
* * * * *
12537871 GTATTCGATAATCCCGGTTTGAAGAAAGTCACGCCTAGTAAGTTAAGGCACAAATTTTTAAAACC
1 GTATTCGATAATCCCGGTATGAAGAAAATCACGCCTAATAAGTTAAGGCACAAATTCTCAAAA-C
*
12537936 CG-AGATAAACGAATATTGCCTCAATTTAAGG
65 CGAAAATAAACGAATATTGCCTCAATTTAAGG
* * * *
12537967 GTATTCGATTATCTCGGTATGAAGAAAAATCGCGCCTAATAAGTTAAGGCTCAAATTCTCAAAAC
1 GTATTCGATAATCCCGGTATGAAG-AAAATCACGCCTAATAAGTTAAGGCACAAATTCTCAAAAC
* *
12538032 CGAAAATAAAGGAATATTGCCTCGATTT
65 CGAAAATAAACGAATATTGCCTCAATTT
12538060 TAAATATTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
96 24 0.30
97 55 0.70
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (96 bp):
GTATTCGATAATCCCGGTATGAAGAAAATCACGCCTAATAAGTTAAGGCACAAATTCTCAAAACC
GAAAATAAACGAATATTGCCTCAATTTAAGG
Found at i:12538386 original size:29 final size:29
Alignment explanation
Indices: 12538335--12538806 Score: 268
Period size: 29 Copynumber: 16.2 Consensus size: 29
12538325 AGTTTCGAAG
* * *
12538335 AGTTTG-GGGTTAAAATATAATTTTAGAA
1 AGTTTGAGGGTAAAAATGTGATTTTAGAA
* * * *
12538363 AGTTTTAGGGTAAAAATGTCATTTTGGGAG
1 AGTTTGAGGGTAAAAATGTGATTTT-AGAA
* * *
12538393 AG-TTCAGGGTAAAAATATGATTTTTGAGA
1 AGTTTGAGGGTAAAAATGTGATTTTAGA-A
* * *
12538422 AGTTCGA-GGCAAAAATATGATTTTTAG-A
1 AGTTTGAGGGTAAAAATGTGA-TTTTAGAA
* * *
12538450 AGTTTGGGGGGCAAAAATGTGATTTTTGAGA
1 AGTTT-GAGGGTAAAAATGTGATTTTAGA-A
* * *
12538481 AGTTTG-GGGTAAAAATATGATTTTTGGA
1 AGTTTGAGGGTAAAAATGTGATTTTAGAA
** * * *
12538509 AGTTT-AGGAGGCAAAATGTAATTTTTGGA
1 AGTTTGAGG-GTAAAAATGTGATTTTAGAA
* *
12538538 AGATCGAGGGTAAAAATGTGATTTTTA-AA
1 AGTTTGAGGGTAAAAATGTGA-TTTTAGAA
* * *
12538567 TGTTTGGAAGGTAAAAATGTAATTTTTAG-A
1 AGTTT-GAGGGTAAAAATGTGA-TTTTAGAA
* * * *
12538597 AGATCGAGGGTAAAAATGTGATTTTTGGA
1 AGTTTGAGGGTAAAAATGTGATTTTAGAA
* * * *
12538626 AGTTTTAGGGTAAAAATGTAATTTTTGGA
1 AGTTTGAGGGTAAAAATGTGATTTTAGAA
* * *
12538655 AGTTTTAAGGTAAAAATGTAATTTTTAG-A
1 AGTTTGAGGGTAAAAATGTGA-TTTTAGAA
*
12538684 AGTTTGAGGGTAAAAATGTAATTTTTA-ATA
1 AGTTTGAGGGTAAAAATGTGA-TTTTAGA-A
* *
12538714 AGTTT-AGGGGT-TAAATGTGATTTTGGAA
1 AGTTTGA-GGGTAAAAATGTGATTTTAGAA
* *
12538742 ATGTTTAAAGGTAAAAATGTGATTTTTA-AA
1 A-GTTTGAGGGTAAAAATGTGA-TTTTAGAA
* * * *
12538772 AGTTTGAAGGTAAAAATCTAATTTTGAAAA
1 AGTTTGAGGGTAAAAATGTGATTTT-AGAA
12538802 AGTTT
1 AGTTT
12538807 AATGTAAATA
Statistics
Matches: 356, Mismatches: 61, Indels: 52
0.76 0.13 0.11
Matches are distributed among these distances:
28 35 0.10
29 223 0.63
30 88 0.25
31 10 0.03
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (29 bp):
AGTTTGAGGGTAAAAATGTGATTTTAGAA
Found at i:12538473 original size:59 final size:58
Alignment explanation
Indices: 12538335--12538788 Score: 345
Period size: 58 Copynumber: 7.8 Consensus size: 58
12538325 AGTTTCGAAG
* * * ** * **
12538335 AGTTTG-GGGTTAAAATATAATTTTAGA-AAGTTTTAGGGTAAAAATGTCATTTTGGGA
1 AGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTCGA-GGTAAAAATGTGATTTTTAGA
* * * * *
12538392 GAG-TTCAGGGTAAAAATATGATTTTTGAGAAGTTCGAGGCAAAAATATGATTTTTAGA
1 -AGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTCGAGGTAAAAATGTGATTTTTAGA
* * * * * * *
12538450 AGTTTGGGGGGCAAAAATGTGATTTTTGAGAAGTTTGGGGTAAAAATATGATTTTTGGA
1 AGTTT-GAGGGTAAAAATGTAATTTTTGAGAAGTTCGAGGTAAAAATGTGATTTTTAGA
** *
12538509 AGTTT-AGGAGGCAAAATGTAATTTTTG-GAAGATCGAGGGTAAAAATGTGATTTTTA-A
1 AGTTTGAGG-GTAAAAATGTAATTTTTGAGAAGTTCGA-GGTAAAAATGTGATTTTTAGA
* * *
12538566 ATGTTTGGAAGGTAAAAATGTAATTTTT-AGAAGATCGAGGGTAAAAATGTGATTTTTGGA
1 A-GTTT-GAGGGTAAAAATGTAATTTTTGAGAAGTTCGA-GGTAAAAATGTGATTTTTAGA
* ** *
12538626 AGTTTTAGGGTAAAAATGTAATTTTTG-GAAGTTTTAAGGTAAAAATGTAATTTTTAGA
1 AGTTTGAGGGTAAAAATGTAATTTTTGAGAAG-TTCGAGGTAAAAATGTGATTTTTAGA
* * * * * *
12538684 AGTTTGAGGGTAAAAATGTAATTTTTAATAAGTTTAGGGGT-TAAATGTGA-TTTTGGAA
1 AGTTTGAGGGTAAAAATGTAATTTTTGAGAAG-TTCGAGGTAAAAATGTGATTTTTAG-A
* * * * *
12538742 ATGTTTAAAGGTAAAAATGTGATTTTT-AAAAGTTTGAAGGTAAAAAT
1 A-GTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTCG-AGGTAAAAAT
12538789 CTAATTTTGA
Statistics
Matches: 323, Mismatches: 55, Indels: 35
0.78 0.13 0.08
Matches are distributed among these distances:
57 22 0.07
58 157 0.49
59 140 0.43
60 4 0.01
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (58 bp):
AGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTCGAGGTAAAAATGTGATTTTTAGA
Found at i:12538755 original size:117 final size:116
Alignment explanation
Indices: 12538341--12538796 Score: 433
Period size: 117 Copynumber: 3.9 Consensus size: 116
12538331 GAAGAGTTTG
* * * * * * *
12538341 GGGTTAAAATATAA-TTTTAGAAAGTTTTAGGGTAAAAATGTCATTTTGGGAGAG-TTCAGGGTA
1 GGGTAAAAATGTAATTTTTAG-AAG-TTTGGGGTAAAAATGTGATTTTTGGA-AGTTTAAAGGTA
* * * * * * *
12538404 AAAATATGATTTTTGAGAAGTTCG-AGGCAAAAATATGATTTTTAGAAGTTTGGG
63 AAAATGTAATTTTTG-GAAGTTTGAAGGTAAAAATGTAATTTTTAGAAGTTTGGA
* * * * *
12538458 GGGCAAAAATGTGATTTTTGAGAAGTTTGGGGTAAAAATATGATTTTTGGAAGTTTAGGAGG-CA
1 GGGTAAAAATGTAATTTTT-AGAAGTTTGGGGTAAAAATGTGATTTTTGGAAGTTTA-AAGGTAA
* * * *
12538522 AAATGTAATTTTTGGAAGATCGAGGGTAAAAATGTGATTTTTA-AATGTTTGGA
64 AAATGTAATTTTTGGAAGTTTGAAGGTAAAAATGTAATTTTTAGAA-GTTTGGA
* * * * *
12538575 AGGTAAAAATGTAATTTTTAGAAGATCGAGGGTAAAAATGTGATTTTTGGAAGTTTTAGGGTAAA
1 GGGTAAAAATGTAATTTTTAGAAGTTTG-GGGTAAAAATGTGATTTTTGGAAGTTTAAAGGTAAA
*
12538640 AATGTAATTTTTGGAAGTTTTAAGGTAAAAATGTAATTTTTAGAAGTTT-GA
65 AATGTAATTTTTGGAAGTTTGAAGGTAAAAATGTAATTTTTAGAAGTTTGGA
* *
12538691 GGGTAAAAATGTAATTTTTAATAAGTTTAGGGGT-TAAATGTGA-TTTTGGAAATGTTTAAAGGT
1 GGGTAAAAATGTAATTTTT-AGAAGTTT-GGGGTAAAAATGTGATTTTTGG-AA-GTTTAAAGGT
* ** *
12538754 AAAAATGTGATTTTTAAAAGTTTGAAGGTAAAAATCTAATTTT
62 AAAAATGTAATTTTTGGAAGTTTGAAGGTAAAAATGTAATTTT
12538797 GAAAAAGTTT
Statistics
Matches: 280, Mismatches: 46, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
115 6 0.02
116 50 0.18
117 210 0.75
118 12 0.04
119 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (116 bp):
GGGTAAAAATGTAATTTTTAGAAGTTTGGGGTAAAAATGTGATTTTTGGAAGTTTAAAGGTAAAA
ATGTAATTTTTGGAAGTTTGAAGGTAAAAATGTAATTTTTAGAAGTTTGGA
Found at i:12538777 original size:88 final size:88
Alignment explanation
Indices: 12538335--12538807 Score: 337
Period size: 88 Copynumber: 5.4 Consensus size: 88
12538325 AGTTTCGAAG
* * * * *
12538335 AGTTTG-GGGTTAAAATATAA-TTTTAGAAAGTTTTAGGGTAAAAATGTCATTTTGGGAGA-G-T
1 AGTTTGAGGGTAAAAATGTAATTTTTAAAAAG-TTTAGGGTAAAAATGTGATTTT-GGAAATGTT
* * * *
12538396 TCAGGGTAAAAATATGATTTTTGAGA
64 TAAAGGTAAAAATGTAATTTTT-AGA
* * * * * * * *
12538422 AGTTCGA-GGCAAAAATATGATTTTT-AGAAGTTTGGGGGGCAAAAATGTGATTTTTGAGAA-GT
1 AGTTTGAGGGTAAAAATGTAATTTTTAAAAAGTTT--AGGGTAAAAATGTGATTTTGGA-AATGT
** * * *
12538484 TT-GGGGTAAAAATATGATTTTTGGA
63 TTAAAGGTAAAAATGTAATTTTTAGA
** ** ** *
12538509 AGTTT-AGGAGGCAAAATGTAATTTTT-GGAAGATCGAGGGTAAAAATGTGATTTT-TAAATGTT
1 AGTTTGAGG-GTAAAAATGTAATTTTTAAAAAG-TTTAGGGTAAAAATGTGATTTTGGAAATGTT
*
12538571 TGGAAGGTAAAAATGTAATTTTTAGA
64 T-AAAGGTAAAAATGTAATTTTTAGA
* * * ** *
12538597 AGATCGAGGGTAAAAATGTGATTTTT-GGAAGTTTTAGGGTAAAAATGTAATTTTTGG-AA-GTT
1 AGTTTGAGGGTAAAAATGTAATTTTTAAAAAG-TTTAGGGTAAAAATGTGA-TTTTGGAAATGTT
*
12538659 TTAAGGTAAAAATGTAATTTTTAGA
64 TAAAGGTAAAAATGTAATTTTTAGA
* *
12538684 AGTTTGAGGGTAAAAATGTAATTTTTAATAAGTTTAGGGGT-TAAATGTGATTTTGGAAATGTTT
1 AGTTTGAGGGTAAAAATGTAATTTTTAAAAAGTTTA-GGGTAAAAATGTGATTTTGGAAATGTTT
* *
12538748 AAAGGTAAAAATGTGATTTTTAAA
65 AAAGGTAAAAATGTAATTTTTAGA
* * *
12538772 AGTTTGAAGGTAAAAATCTAATTTTGAAAAAGTTTA
1 AGTTTGAGGGTAAAAATGTAATTTTTAAAAAGTTTA
12538808 ATGTAAATAT
Statistics
Matches: 313, Mismatches: 54, Indels: 37
0.77 0.13 0.09
Matches are distributed among these distances:
85 2 0.01
86 15 0.05
87 103 0.33
88 181 0.58
89 12 0.04
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (88 bp):
AGTTTGAGGGTAAAAATGTAATTTTTAAAAAGTTTAGGGTAAAAATGTGATTTTGGAAATGTTTA
AAGGTAAAAATGTAATTTTTAGA
Found at i:12540522 original size:17 final size:17
Alignment explanation
Indices: 12540500--12540630 Score: 172
Period size: 17 Copynumber: 7.6 Consensus size: 17
12540490 AAGGGACATT
*
12540500 TAAATTTAAATTTAGAA
1 TAAATTTAAATTTAAAA
12540517 TAAATTTAAATTTAAGAA
1 TAAATTTAAATTTAA-AA
* *
12540535 TAAATTTAAACTTAAAT
1 TAAATTTAAATTTAAAA
12540552 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
12540569 TAAATTTAAACTTAAAT
1 TAAATTTAAATTTAAAA
12540586 TAAATTTAAATTTAAAAA
1 TAAATTTAAATTT-AAAA
* *
12540604 CAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
*
12540621 TAAATCTAAA
1 TAAATTTAAA
12540631 AAAATGGGTT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
17 69 0.70
18 30 0.30
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:12540524 original size:23 final size:22
Alignment explanation
Indices: 12540497--12540601 Score: 90
Period size: 23 Copynumber: 4.6 Consensus size: 22
12540487 TAAAAGGGAC
12540497 ATTTAAATTTAAATTTAGAATAA
1 ATTTAAATTTAAATTTA-AATAA
*
12540520 ATTTAAATTTAAGA-ATAAATTTAA
1 ATTTAAATTTAA-ATTTAAA--TAA
*
12540544 ACTTAAA-TTAAATTTAAATTTAA
1 ATTTAAATTTAAATTTAAA--TAA
* *
12540567 A-ATAAATTTAAACTTAAATTAA
1 ATTTAAATTTAAATTTAAA-TAA
12540589 ATTTAAATTTAAA
1 ATTTAAATTTAAA
12540602 AACAAATTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
22 12 0.17
23 48 0.69
24 10 0.14
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTAAATTTAAATTTAAATAA
Found at i:12540539 original size:35 final size:34
Alignment explanation
Indices: 12540500--12540630 Score: 192
Period size: 35 Copynumber: 3.8 Consensus size: 34
12540490 AAGGGACATT
*
12540500 TAAATTTAAATTTAGAA-TAAATTTAAATTTAAGAA
1 TAAATTTAAACTTA-AATTAAATTTAAATTTAA-AA
12540535 TAAATTTAAACTTAAATTAAATTTAAATTTAAAA
1 TAAATTTAAACTTAAATTAAATTTAAATTTAAAA
12540569 TAAATTTAAACTTAAATTAAATTTAAATTTAAAAA
1 TAAATTTAAACTTAAATTAAATTTAAATTT-AAAA
* * *
12540604 CAAATTTAAACTTAAAATAAATCTAAA
1 TAAATTTAAACTTAAATTAAATTTAAA
12540631 AAAATGGGTT
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
34 34 0.38
35 56 0.62
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (34 bp):
TAAATTTAAACTTAAATTAAATTTAAATTTAAAA
Found at i:12540557 original size:52 final size:52
Alignment explanation
Indices: 12540499--12540630 Score: 176
Period size: 52 Copynumber: 2.5 Consensus size: 52
12540489 AAAGGGACAT
* *
12540499 TTAAATTTAAATTTAGAATAAATTTAAATTTAAGAATAAATTTAAACTT-AAA
1 TTAAATTTAAATTTAAAATAAATTTAAACTTAA-AATAAATTTAAACTTAAAA
* *
12540551 TTAAATTTAAATTTAAAATAAATTTAAACTTAAATTAAATTTAAATTTAAAA
1 TTAAATTTAAATTTAAAATAAATTTAAACTTAAAATAAATTTAAACTTAAAA
** * *
12540603 ACAAATTTAAACTTAAAATAAATCTAAA
1 TTAAATTTAAATTTAAAATAAATTTAAA
12540631 AAAATGGGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 13 0.18
52 58 0.82
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (52 bp):
TTAAATTTAAATTTAAAATAAATTTAAACTTAAAATAAATTTAAACTTAAAA
Found at i:12540619 original size:6 final size:6
Alignment explanation
Indices: 12540497--12540601 Score: 114
Period size: 6 Copynumber: 18.2 Consensus size: 6
12540487 TAAAAGGGAC
*
12540497 ATTTAA ATTTAA ATTTAGA A--TAA ATTTAA ATTTAA GA-ATAA ATTTAA
1 ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA -ATTTAA ATTTAA
* * *
12540544 ACTTAA A-TTAA ATTTAA ATTTAA A-ATAA ATTTAA ACTTAA A-TTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
12540589 ATTTAA ATTTAA A
1 ATTTAA ATTTAA A
12540602 AACAAATTTA
Statistics
Matches: 85, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
4 2 0.02
5 17 0.20
6 63 0.74
7 3 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:12544672 original size:126 final size:126
Alignment explanation
Indices: 12544529--12544781 Score: 506
Period size: 126 Copynumber: 2.0 Consensus size: 126
12544519 CTTTACCCAT
12544529 AATTTTTTATCCTCCTCGAAAAAAAAATTTCACGTAAAATAAATATATTTAATCTTTTCAGTTTC
1 AATTTTTTATCCTCCTCGAAAAAAAAATTTCACGTAAAATAAATATATTTAATCTTTTCAGTTTC
12544594 TTTATTATTTTATATGTTCGTCGTTTAATTAGATTTATCCCAACATTTAACTTGAAATCAC
66 TTTATTATTTTATATGTTCGTCGTTTAATTAGATTTATCCCAACATTTAACTTGAAATCAC
12544655 AATTTTTTATCCTCCTCGAAAAAAAAATTTCACGTAAAATAAATATATTTAATCTTTTCAGTTTC
1 AATTTTTTATCCTCCTCGAAAAAAAAATTTCACGTAAAATAAATATATTTAATCTTTTCAGTTTC
12544720 TTTATTATTTTATATGTTCGTCGTTTAATTAGATTTATCCCAACATTTAACTTGAAATCAC
66 TTTATTATTTTATATGTTCGTCGTTTAATTAGATTTATCCCAACATTTAACTTGAAATCAC
12544781 A
1 A
12544782 TAAAGTGAAA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.44
Consensus pattern (126 bp):
AATTTTTTATCCTCCTCGAAAAAAAAATTTCACGTAAAATAAATATATTTAATCTTTTCAGTTTC
TTTATTATTTTATATGTTCGTCGTTTAATTAGATTTATCCCAACATTTAACTTGAAATCAC
Found at i:12544985 original size:23 final size:22
Alignment explanation
Indices: 12544946--12545011 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 22
12544936 CCTTTTAAAA
* *
12544946 TAAAAAAATTTTATTTAATTTT
1 TAAAAAAATTATATTTAATTAT
12544968 TAAAAAAATTATATTTTAATTAT
1 TAAAAAAATTATA-TTTAATTAT
*
12544991 TATAAAAATTATAATTTAATT
1 TAAAAAAATTAT-ATTTAATT
12545012 CGATTCCTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 12 0.31
23 26 0.67
24 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAAAAAATTATATTTAATTAT
Found at i:12545979 original size:20 final size:21
Alignment explanation
Indices: 12545944--12545998 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
12545934 TATTTTCCAT
*
12545944 AAAATTATTTAAAAAATCAAG-
1 AAAATTATTAAAAAAAT-AAGA
*
12545965 AAAATTA-TAAAAAAATACGA
1 AAAATTATTAAAAAAATAAGA
12545985 AAAATTATTAAAAA
1 AAAATTATTAAAAA
12545999 TATTAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 13 0.43
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAATTATTAAAAAAATAAGA
Found at i:12545997 original size:9 final size:9
Alignment explanation
Indices: 12545985--12546103 Score: 69
Period size: 9 Copynumber: 13.8 Consensus size: 9
12545975 AAAAATACGA
12545985 AAAATTATT
1 AAAATTATT
*
12545994 AAAAATATT
1 AAAATTATT
12546003 -AAA-TATT
1 AAAATTATT
12546010 -AAA-TATT
1 AAAATTATT
12546017 -AAA-TATTT
1 AAAATTA-TT
12546025 AAAA-TATT
1 AAAATTATT
12546033 AAAATTATAT
1 AAAATTAT-T
* *
12546043 AAACTCATT
1 AAAATTATT
*
12546052 AAAATCA-T
1 AAAATTATT
12546060 AAATATTA-T
1 AAA-ATTATT
*
12546069 AAAAATA-T
1 AAAATTATT
*
12546077 AAAATTAAT
1 AAAATTATT
12546086 AAAACTTATTT
1 AAAA-TTA-TT
12546097 AAAATTA
1 AAAATTA
12546104 AAAAAACATA
Statistics
Matches: 94, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
7 16 0.17
8 25 0.27
9 35 0.37
10 13 0.14
11 5 0.05
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAATTATT
Found at i:12546008 original size:7 final size:7
Alignment explanation
Indices: 12545996--12546039 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
12545986 AAATTATTAA
12545996 AAATATT
1 AAATATT
12546003 AAATATT
1 AAATATT
12546010 AAATATT
1 AAATATT
12546017 AAATATTT
1 AAATA-TT
12546025 AAAATATT
1 -AAATATT
12546033 AAA-ATT
1 AAATATT
12546039 A
1 A
12546040 TATAAACTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 4 0.11
7 22 0.63
8 4 0.11
9 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATATT
Found at i:12546016 original size:23 final size:23
Alignment explanation
Indices: 12545990--12546039 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
12545980 TACGAAAAAT
12545990 TATTAAAAATATT-AAATATTAAA
1 TATTAAAAAT-TTAAAATATTAAA
*
12546013 TATTAAATATTTAAAATATTAAA
1 TATTAAAAATTTAAAATATTAAA
12546036 -ATTA
1 TATTA
12546040 TATAAACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TATTAAAAATTTAAAATATTAAA
Found at i:12546091 original size:44 final size:44
Alignment explanation
Indices: 12546016--12546101 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
12546006 TATTAAATAT
12546016 TAAATATTTAAAATATTAAAATTATATAAACTCA-TTAAAATCA
1 TAAATATTTAAAATATTAAAATTATATAAACTCATTTAAAATCA
*
12546059 TAAATATTATAAAA-ATATAAAATTA-ATAAAACTTATTTAAAAT
1 TAAATATT-TAAAATAT-TAAAATTATAT-AAACTCATTTAAAAT
12546102 TAAAAAAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
43 12 0.32
44 19 0.50
45 7 0.18
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (44 bp):
TAAATATTTAAAATATTAAAATTATATAAACTCATTTAAAATCA
Found at i:12546121 original size:19 final size:20
Alignment explanation
Indices: 12546076--12546115 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12546066 TATAAAAATA
* *
12546076 TAAAATTAATAAAACTTATT
1 TAAAATTAAAAAAACATATT
12546096 TAAAATTAAAAAAACATATT
1 TAAAATTAAAAAAACATATT
12546116 AGAATTCTTA
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:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAATTAAAAAAACATATT
Found at i:12552182 original size:115 final size:115
Alignment explanation
Indices: 12551980--12552211 Score: 464
Period size: 115 Copynumber: 2.0 Consensus size: 115
12551970 TGGTTTAAAC
12551980 TTAACACAAATGGTTCTTCTTTGGGTAATCCGGGGAGAGAGGGGGTAGGAAATTGGGTGATTGGT
1 TTAACACAAATGGTTCTTCTTTGGGTAATCCGGGGAGAGAGGGGGTAGGAAATTGGGTGATTGGT
12552045 GCCTATCAGCATATACCAAGAACGACTAATGTAGAAGCTGAGTTGTGGGA
66 GCCTATCAGCATATACCAAGAACGACTAATGTAGAAGCTGAGTTGTGGGA
12552095 TTAACACAAATGGTTCTTCTTTGGGTAATCCGGGGAGAGAGGGGGTAGGAAATTGGGTGATTGGT
1 TTAACACAAATGGTTCTTCTTTGGGTAATCCGGGGAGAGAGGGGGTAGGAAATTGGGTGATTGGT
12552160 GCCTATCAGCATATACCAAGAACGACTAATGTAGAAGCTGAGTTGTGGGA
66 GCCTATCAGCATATACCAAGAACGACTAATGTAGAAGCTGAGTTGTGGGA
12552210 TT
1 TT
12552212 TGCGAGATGG
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 117 1.00
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (115 bp):
TTAACACAAATGGTTCTTCTTTGGGTAATCCGGGGAGAGAGGGGGTAGGAAATTGGGTGATTGGT
GCCTATCAGCATATACCAAGAACGACTAATGTAGAAGCTGAGTTGTGGGA
Done.