Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 130 of 190
Found at i:20898809 original size:19 final size:19
Alignment explanation
Indices: 20898766--20898850 Score: 73
Period size: 19 Copynumber: 4.3 Consensus size: 19
20898756 TATGATTTCG
* *
20898766 GGGTTTCACTTAGGGTTTA
1 GGGTTTTACCTAGGGTTTA
**
20898785 CAGTTTTACCTAGGGTTTA
1 GGGTTTTACCTAGGGTTTA
*
20898804 GGGTTTTACGCCTAGAGCTTTA
1 GGGTTTTA--CCTAG-GGTTTA
*
20898826 GGG-TTTACCTAAGGTTTTA
1 GGGTTTTACCT-AGGGTTTA
20898845 GGGTTT
1 GGGTTT
20898851 AGGTTCTCAC
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
19 32 0.60
20 4 0.08
21 9 0.17
22 8 0.15
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.41
Consensus pattern (19 bp):
GGGTTTTACCTAGGGTTTA
Found at i:20901585 original size:3 final size:3
Alignment explanation
Indices: 20901567--20901610 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
20901557 TTTTTAAACT
20901567 TTA TTA TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
20901611 GACTTTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:20907493 original size:16 final size:16
Alignment explanation
Indices: 20907456--20907495 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
20907446 AAATAAATTT
20907456 TTTTAAAATAATTTAA
1 TTTTAAAATAATTTAA
** *
20907472 AATTAAACTAATTTAA
1 TTTTAAAATAATTTAA
20907488 TTTTAAAA
1 TTTTAAAA
20907496 CTCGATAATT
Statistics
Matches: 18, Mismatches: 6, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTTAAAATAATTTAA
Found at i:20907615 original size:16 final size:16
Alignment explanation
Indices: 20907560--20907615 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
20907550 AACCAAAATG
20907560 TCAAATTCAAAATAAAAT
1 TCAAATTCAAAAT--AAT
* * *
20907578 TCAAATCCAATATTAT
1 TCAAATTCAAAATAAT
*
20907594 TAAAATTCAAAATAAT
1 TCAAATTCAAAATAAT
20907610 TCAAAT
1 TCAAAT
20907616 CTAAAATATT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
16 19 0.63
18 11 0.37
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (16 bp):
TCAAATTCAAAATAAT
Found at i:20907629 original size:32 final size:33
Alignment explanation
Indices: 20907562--20907631 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
20907552 CCAAAATGTC
*
20907562 AAATTCAAAATAAAATTCAAATCCAATATTATTA
1 AAATTCAAAAT-AAATTCAAATCCAAAATTATTA
* *
20907596 AAATTCAAAAT-AATTCAAATCTAAAA-TATTT
1 AAATTCAAAATAAATTCAAATCCAAAATTATTA
20907627 AAATT
1 AAATT
20907632 TTCTTTTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 9 0.27
32 13 0.39
34 11 0.33
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (33 bp):
AAATTCAAAATAAATTCAAATCCAAAATTATTA
Found at i:20911563 original size:1 final size:1
Alignment explanation
Indices: 20911557--20911585 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
20911547 CGACAAAGGT
20911557 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20911586 TTCTCTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:20911627 original size:26 final size:26
Alignment explanation
Indices: 20911598--20911649 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
20911588 CTCTTTTGAG
20911598 AATAATAAAAAATTG-AAAGTGTTCAA
1 AATAATAAAAAA-TGAAAAGTGTTCAA
20911624 AATAATAAAAAATGAAAAGTGTTCAA
1 AATAATAAAAAATGAAAAGTGTTCAA
20911650 TTGGAACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.25
Consensus pattern (26 bp):
AATAATAAAAAATGAAAAGTGTTCAA
Found at i:20914497 original size:42 final size:42
Alignment explanation
Indices: 20914451--20914574 Score: 136
Period size: 39 Copynumber: 3.1 Consensus size: 42
20914441 ATGTATCATT
* *
20914451 TATCATTGATGTGAAAGATGACCCACATGGTGGATCATGCTG
1 TATCATTGATGTGAAAGATGACCCATATGATGGATCATGCTG
* *
20914493 TATCA--G-TGTTAAAGATGACCCATATCATGGATCATGCTG
1 TATCATTGATGTGAAAGATGACCCATATGATGGATCATGCTG
* *
20914532 --T-ATTGATGCTG-AAGATGACCCATATGATGGGTCATGCTA
1 TATCATTGATG-TGAAAGATGACCCATATGATGGATCATGCTG
20914571 TATC
1 TATC
20914575 GATACTACTG
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 1 0.01
39 56 0.84
40 2 0.03
41 1 0.01
42 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
TATCATTGATGTGAAAGATGACCCATATGATGGATCATGCTG
Found at i:20914507 original size:39 final size:40
Alignment explanation
Indices: 20914464--20914591 Score: 136
Period size: 39 Copynumber: 3.3 Consensus size: 40
20914454 CATTGATGTG
* * *
20914464 AAAGATGACCCACATGGTGGATCATGCTGTATCAG-TGTT
1 AAAGATGACCCATATGATGGATCATGCTGTATCAGATGCT
* *
20914503 AAAGATGACCCATATCATGGATCATGCTGTAT-TGATGCT
1 AAAGATGACCCATATGATGGATCATGCTGTATCAGATGCT
* * * *
20914542 GAAGATGACCCATATGATGGGTCATGCTATATC-GATACT
1 AAAGATGACCCATATGATGGATCATGCTGTATCAGATGCT
**
20914581 ACTGATGACCC
1 AAAGATGACCC
20914592 GATACGTGAA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 73 0.99
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
AAAGATGACCCATATGATGGATCATGCTGTATCAGATGCT
Found at i:20916045 original size:180 final size:180
Alignment explanation
Indices: 20915743--20916087 Score: 519
Period size: 180 Copynumber: 1.9 Consensus size: 180
20915733 TACAAATTGT
** *
20915743 CTTAACCATTGCGAAAATCCTGCATCACATGCTTTCTCCAATTTTGCATCATTTACATTCACAAA
1 CTTAACCATTGCGAAAATCCTGCATCACATGCTTTCTCCAATTTCACATCACTTACATTCACAAA
* * * * *
20915808 TTCTCTTCTGATCGAGTCATCAAATATCCTTTAATTGTAAATTACGAGTTAGAAAAATTGTCAAC
66 TTATCTTCTGATCAAGTCATCAAATATCATATAATTGTAAATTACGAATTAGAAAAATTGTCAAC
* *
20915873 TTACTAAAAACATATATTATAGAGTTGACATAGTATTGTTATGCTCTAAA
131 TGACTAAAAACATACATTATAGAGTTGACATAGTATTGTTATGCTCTAAA
* * * *
20915923 CTTAACCATTGCGAAAATCTTGCATCACATGCTTTCTCTAATTTCACATCACTTATATTCATAAA
1 CTTAACCATTGCGAAAATCCTGCATCACATGCTTTCTCCAATTTCACATCACTTACATTCACAAA
* * * *
20915988 TTATCTTCTTATTAAGTCATCAAATATTATATAATTGTAAATTATGAATTAGAAAAATTGTCAAC
66 TTATCTTCTGATCAAGTCATCAAATATCATATAATTGTAAATTACGAATTAGAAAAATTGTCAAC
*
20916053 TGACTAGAAACATACATTATAGAGTTGACATAGTA
131 TGACTAAAAACATACATTATAGAGTTGACATAGTA
20916088 CTTACTCAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
180 146 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (180 bp):
CTTAACCATTGCGAAAATCCTGCATCACATGCTTTCTCCAATTTCACATCACTTACATTCACAAA
TTATCTTCTGATCAAGTCATCAAATATCATATAATTGTAAATTACGAATTAGAAAAATTGTCAAC
TGACTAAAAACATACATTATAGAGTTGACATAGTATTGTTATGCTCTAAA
Found at i:20921554 original size:30 final size:30
Alignment explanation
Indices: 20921515--20921571 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
20921505 GTTTATTCCA
* **
20921515 AAAATCAAATTCTTTTTTTTTTTTTTTTGTG
1 AAAATCAAA-TCATTTTTAGTTTTTTTTGTG
20921546 AAAA-CAAATCATTTTTAGTTTTTTTT
1 AAAATCAAATCATTTTTAGTTTTTTTT
20921572 AAAAGCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 15 0.65
30 4 0.17
31 4 0.17
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (30 bp):
AAAATCAAATCATTTTTAGTTTTTTTTGTG
Found at i:20924596 original size:49 final size:48
Alignment explanation
Indices: 20924439--20924693 Score: 176
Period size: 49 Copynumber: 5.2 Consensus size: 48
20924429 AAAATTTTTT
* * *
20924439 AATTTTGATAAAA-TCCTCTATACAAAGGTT-TCGAAACTTTGAAAATATA
1 AATTTTGA-AAAACTCCTCTAAACAAAGGTTAT-GAAACTTT-AAAATCTC
* * * * * **
20924488 AACTTTTGAAATAGTCCTTTAAACAGAGGCTACAAAACTTTAAAATCTC
1 AA-TTTTGAAAAACTCCTCTAAACAAAGGTTATGAAACTTTAAAATCTC
** * *
20924537 AATTCAGAAAAACTCCTCTAAATAGAGGTTATGAAACTTTAAAAATCTC
1 AATTTTGAAAAACTCCTCTAAACAAAGGTTATGAAACTTT-AAAATCTC
* * * * *
20924586 AATTTTGAAAAGCTTCTTTAAAAAAAGGTTAGGAAACTTTAAAATCTC
1 AATTTTGAAAAACTCCTCTAAACAAAGGTTATGAAACTTTAAAATCTC
* * * * * *
20924634 AAAATTTGAAAAGGCTCTTATAAAGATAGGCTTA-GAAACTTTAAAAATCTC
1 -AATTTTGAAAA-ACTCCTCTAAACAAAGG-TTATGAAACTTT-AAAATCTC
20924685 -ATTTTGAAA
1 AATTTTGAAA
20924694 GGCTCATATA
Statistics
Matches: 165, Mismatches: 33, Indels: 16
0.77 0.15 0.07
Matches are distributed among these distances:
48 37 0.22
49 71 0.43
50 46 0.28
51 11 0.07
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (48 bp):
AATTTTGAAAAACTCCTCTAAACAAAGGTTATGAAACTTTAAAATCTC
Found at i:20924704 original size:48 final size:48
Alignment explanation
Indices: 20924569--20924941 Score: 362
Period size: 48 Copynumber: 7.6 Consensus size: 48
20924559 TAGAGGTTAT
* * * *
20924569 GAAACTTTAAAAATCTCAATTTTGAAAA-GCTTCTTTAAAAAAAGGTTAG
1 GAAACTTTAAAAATCTC-ATTTTGAAAAGGC-TCTATAAAAATAGGCTAA
* * *
20924618 GAAACTTT-AAAATCTCAAAATTTGAAAAGGCTCTTATAAAGATAGGCTTA
1 GAAACTTTAAAAATCTC--ATTTTGAAAAGGCTC-TATAAAAATAGGCTAA
*
20924668 GAAACTTTAAAAATCTCATTTTG-AAAGGCTCATATAAAAATAGGATAA
1 GAAACTTTAAAAATCTCATTTTGAAAAGGCTC-TATAAAAATAGGCTAA
*
20924716 CG-AACCTTAAAAATCTCATTTTGAAAAAGGCTTCTATAAAAATAGGCTAA
1 -GAAACTTTAAAAATCTCATTTTG-AAAAGGC-TCTATAAAAATAGGCTAA
* * *
20924766 GGAACATTAAAAATCTCATTTGGAAAAAGGGCTTCTATAAAAATAGGCTAA
1 GAAACTTTAAAAATCTCATTTTG-AAAA-GGC-TCTATAAAAATAGGCTAA
* * * * *
20924817 AAAACTTTTAAAATCACATTTTGGAAAGAGGCTACTATAAAAATAAGTTAA
1 GAAACTTTAAAAATCTCATTTT-GAAA-AGGCT-CTATAAAAATAGGCTAA
* * *
20924868 GGAACTTTAAAAATCTCA-ATTGGAAAGGCTCTTATAAAAATAGGCTAA
1 GAAACTTTAAAAATCTCATTTTGAAAAGGCTC-TATAAAAATAGGCTAA
* *
20924916 GGAACTTTAAAAATCTCA-CTTGAAAA
1 GAAACTTTAAAAATCTCATTTTGAAAA
20924942 AAAAGCTTCT
Statistics
Matches: 276, Mismatches: 34, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
47 1 0.00
48 92 0.33
49 30 0.11
50 68 0.25
51 83 0.30
52 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.29
Consensus pattern (48 bp):
GAAACTTTAAAAATCTCATTTTGAAAAGGCTCTATAAAAATAGGCTAA
Found at i:20924732 original size:99 final size:98
Alignment explanation
Indices: 20924569--20924933 Score: 341
Period size: 98 Copynumber: 3.7 Consensus size: 98
20924559 TAGAGGTTAT
* * * * * * *
20924569 GAAACTTTAAAAATCTCAATTTTGAAAAGCTTCTTTAAAAAAAGG-TTAGGAAACTTTAAAATCT
1 GAAACTTTAAAAATCTC-ATTTGGAAAGGCTTCTATAAAAATAGGCTAAGGAACCTTAAAAATCT
* *
20924633 CAAAATTTGAAAAGGCTCTTATAAAGATAGGCTTA
65 C-AATTTTGAAAAGGCTCTTATAAAAATAGGCTTA
* * *
20924668 GAAACTTTAAAAATCTCATTTTGAAAGGC-TCATATAAAAATAGGATAACGAACCTTAAAAATCT
1 GAAACTTTAAAAATCTCATTTGGAAAGGCTTC-TATAAAAATAGGCTAAGGAACCTTAAAAATCT
*
20924732 C-ATTTTGAAAAAGGCT-TCTATAAAAATAGGCTAA
65 CAATTTTG-AAAAGGCTCT-TATAAAAATAGGCTTA
* * ** * *
20924766 GGAACATTAAAAATCTCATTTGGAAAAAGGGCTTCTATAAAAATAGGCTAAAAAACTTTTAAAAT
1 GAAACTTTAAAAATCTCATTTGG--AAA-GGCTTCTATAAAAATAGGCTAAGGAACCTTAAAAAT
* *
20924831 CAC-ATTTTGGAAAGAGGCTAC-TATAAAAATAAG-TTAA
63 CTCAATTTT-GAAA-AGGCT-CTTATAAAAATAGGCTT-A
* * *
20924868 GGAACTTTAAAAATCTCAATTGGAAAGGC-TCTTATAAAAATAGGCTAAGGAACTTTAAAAATCT
1 GAAACTTTAAAAATCTCATTTGGAAAGGCTTC-TATAAAAATAGGCTAAGGAACCTTAAAAATCT
20924932 CA
65 CA
20924934 CTTGAAAAAA
Statistics
Matches: 224, Mismatches: 27, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
97 8 0.04
98 65 0.29
99 65 0.29
100 6 0.03
101 39 0.17
102 41 0.18
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (98 bp):
GAAACTTTAAAAATCTCATTTGGAAAGGCTTCTATAAAAATAGGCTAAGGAACCTTAAAAATCTC
AATTTTGAAAAGGCTCTTATAAAAATAGGCTTA
Found at i:20924971 original size:80 final size:82
Alignment explanation
Indices: 20924873--20925027 Score: 242
Period size: 80 Copynumber: 1.9 Consensus size: 82
20924863 GTTAAGGAAC
* **
20924873 TTTAAAAATCTCAATTGGAAAGGCTCTTATAAAAATAGGCTAAGGAACTTT-AAAAATCTCA-CT
1 TTTAAAAAACTCAATTGGAAAGGCTCTTATAAAAATAGGCTAAAAAACTTTAAAAAATCTCATCT
20924936 TGAAAAAAAAGCTTCTA
66 TGAAAAAAAAGCTTCTA
* * *
20924953 TTTAAAAAACTCAGTTGGAAAGGCTTTTATAAAAATAGGCTAAAAAACTTTAAAAAATCTCATTT
1 TTTAAAAAACTCAATTGGAAAGGCTCTTATAAAAATAGGCTAAAAAACTTTAAAAAATCTCATCT
20925018 TGAAAAAAAA
66 TGAAAAAAAA
20925028 AAGTTTGGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 46 0.69
81 10 0.15
82 11 0.16
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (82 bp):
TTTAAAAAACTCAATTGGAAAGGCTCTTATAAAAATAGGCTAAAAAACTTTAAAAAATCTCATCT
TGAAAAAAAAGCTTCTA
Found at i:20925487 original size:18 final size:18
Alignment explanation
Indices: 20925464--20925505 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
20925454 ATTGTCATTC
*
20925464 CATCATTTATCC-TTTATT
1 CATCATTT-TCCATTTACT
20925482 CATCATTTTCCATTTACT
1 CATCATTTTCCATTTACT
20925500 CATCAT
1 CATCAT
20925506 ATCATCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (18 bp):
CATCATTTTCCATTTACT
Found at i:20925668 original size:25 final size:21
Alignment explanation
Indices: 20925634--20925691 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 21
20925624 AAACACCATT
20925634 TTTTTCATTTTCATATTCTCATATA
1 TTTTTCATTTTCAT-TTCT--T-TA
20925659 TTTTTCATTTTCATTTCTTTA
1 TTTTTCATTTTCATTTCTTTA
20925680 TCTTTTCATTTT
1 T-TTTTCATTTT
20925692 TCTTTTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.09
22 11 0.34
24 4 0.12
25 14 0.44
ACGTcount: A:0.17, C:0.16, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTCATTTTCATTTCTTTA
Found at i:20937922 original size:243 final size:243
Alignment explanation
Indices: 20937484--20937968 Score: 898
Period size: 243 Copynumber: 2.0 Consensus size: 243
20937474 ATGTGAACAC
*
20937484 AATTAACTGCCCATTTACTCTTGCAAATTACAACCTTGCACATTGATAATTTGCTTAATATTTGG
1 AATTAACTGCCCATTTACTCTTGCAAATTACAACCTTGCACATTGATAATTTGCTTAATATTTGA
*
20937549 TGTCTAGGTTCATCCATGAATCTAACAATAATGTCATCCATCTTCATGCTTTCCTTTTTCAGCTA
66 TGTCTAGGTTCATCCATGAATCTAACAATAATCTCATCCATCTTCATGCTTTCCTTTTTCAGCTA
*
20937614 GTGTGAACATAATCTCTCTATTCCAGCCTACTTTATTTTTGCATTTGTTTAGTAGATTTGAACCA
131 GTGTGAACATAATCTCTCTATTCCAACCTACTTTATTTTTGCATTTGTTTAGTAGATTTGAACCA
20937679 AGAATAGGCCCATCTTATTTTTGGATAAGTCTTCCTTAGTCTCAACCT
196 AGAATAGGCCCATCTTATTTTTGGATAAGTCTTCCTTAGTCTCAACCT
* *
20937727 AATTAATTGTCCATTTACTCTTGCAAATTACAACCTTGCACATTGATAATTTGCTTAATATTTGA
1 AATTAACTGCCCATTTACTCTTGCAAATTACAACCTTGCACATTGATAATTTGCTTAATATTTGA
* *
20937792 TGTCTAGGTTTATCCATGAATCTAACCATAATCTCATCCATCTTCATGCTTTCCTTTTTCAGCTA
66 TGTCTAGGTTCATCCATGAATCTAACAATAATCTCATCCATCTTCATGCTTTCCTTTTTCAGCTA
20937857 GTGTGAACATAATCTCTCTATTCCAACCTACTTTATTTTTGCATTTGTTTAGTAGATTTGAACCA
131 GTGTGAACATAATCTCTCTATTCCAACCTACTTTATTTTTGCATTTGTTTAGTAGATTTGAACCA
*
20937922 AGGATAGGCCCATCTTATTTTTGGATAAGTCTTCCTTAGTCTCAACC
196 AGAATAGGCCCATCTTATTTTTGGATAAGTCTTCCTTAGTCTCAACC
20937969 CAAGTTGTAA
Statistics
Matches: 234, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
243 234 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (243 bp):
AATTAACTGCCCATTTACTCTTGCAAATTACAACCTTGCACATTGATAATTTGCTTAATATTTGA
TGTCTAGGTTCATCCATGAATCTAACAATAATCTCATCCATCTTCATGCTTTCCTTTTTCAGCTA
GTGTGAACATAATCTCTCTATTCCAACCTACTTTATTTTTGCATTTGTTTAGTAGATTTGAACCA
AGAATAGGCCCATCTTATTTTTGGATAAGTCTTCCTTAGTCTCAACCT
Found at i:20941209 original size:45 final size:45
Alignment explanation
Indices: 20941158--20941243 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
20941148 TGAGGTAGTA
* * *
20941158 CAAGAAAAAATAGTTCAAAAGGAGGCAGTCCAAGAA-GAAGTAAGT
1 CAAGAAAAAATAGATCAAAAAGAGGAAGTCCAA-AAGGAAGTAAGT
20941203 CAAGAAAAAATAGATCAAAAAGAGGAAGTCCAAAAGGAAGT
1 CAAGAAAAAATAGATCAAAAAGAGGAAGTCCAAAAGGAAGT
20941244 TCAAGCATAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 2 0.05
45 35 0.95
ACGTcount: A:0.55, C:0.10, G:0.23, T:0.12
Consensus pattern (45 bp):
CAAGAAAAAATAGATCAAAAAGAGGAAGTCCAAAAGGAAGTAAGT
Found at i:20942866 original size:61 final size:61
Alignment explanation
Indices: 20942791--20942910 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
20942781 TTTATTTTGA
* *
20942791 GCTTGTTATATTATTTCCTTT-TCTTTGTTTATTTAGCCACATAATAAGCCAATAAGCCTGG
1 GCTTGTTATATTATTT-ATTTATCTTTATTTATTTAGCCACATAATAAGCCAATAAGCCTGG
* * *
20942852 GCTTGTTATATTATTTATTTATTTTTATTTATTTAGGCATATAATAAGCCAATAAGCCT
1 GCTTGTTATATTATTTATTTATCTTTATTTATTTAGCCACATAATAAGCCAATAAGCCT
20942911 TTTCTTTGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 3 0.06
61 50 0.94
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (61 bp):
GCTTGTTATATTATTTATTTATCTTTATTTATTTAGCCACATAATAAGCCAATAAGCCTGG
Found at i:20947139 original size:15 final size:15
Alignment explanation
Indices: 20947119--20947154 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
20947109 GTAAAATATC
20947119 ATTGTTGTTATTATT
1 ATTGTTGTTATTATT
* *
20947134 ATTGTTGTTGTTGTT
1 ATTGTTGTTATTATT
20947149 ATTGTT
1 ATTGTT
20947155 ATTTGCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.67
Consensus pattern (15 bp):
ATTGTTGTTATTATT
Found at i:20950371 original size:3 final size:3
Alignment explanation
Indices: 20950363--20950388 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20950353 ATAAAAAGGG
20950363 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
20950389 ATTTGCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:20953915 original size:17 final size:16
Alignment explanation
Indices: 20953876--20953918 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
20953866 TAAGATCTCA
* *
20953876 TTTTTATTTTTATTCT
1 TTTTTAATTTTATTAT
20953892 TTATTTAATTTTATTAT
1 TT-TTTAATTTTATTAT
20953909 TGTTTTAATT
1 T-TTTTAATT
20953919 AAAGAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 20 0.87
18 1 0.04
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTTAATTTTATTAT
Found at i:20954204 original size:14 final size:13
Alignment explanation
Indices: 20954171--20954214 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
20954161 GGGGTTTAGG
*
20954171 TTTTGGGGTTTCA
1 TTTTAGGGTTTCA
*
20954184 TTTTAGGGTTTTA
1 TTTTAGGGTTTCA
20954197 TCTTTAGGGTTTCA
1 T-TTTAGGGTTTCA
20954211 TTTT
1 TTTT
20954215 TTGGTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.11, C:0.07, G:0.23, T:0.59
Consensus pattern (13 bp):
TTTTAGGGTTTCA
Found at i:20954371 original size:16 final size:16
Alignment explanation
Indices: 20954352--20954402 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
20954342 ATTAAATTTT
*
20954352 TTTTTATTATTTATTA
1 TTTTTATTATTTATAA
*
20954368 TTTTTATTATTTCTAA
1 TTTTTATTATTTATAA
*
20954384 ATTTTATTATTTAATAA
1 TTTTTATTATTT-ATAA
20954401 TT
1 TT
20954403 CCCATCTAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTATTATTTATAA
Found at i:20955567 original size:20 final size:21
Alignment explanation
Indices: 20955531--20955570 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20955521 GCAGGCTCTC
20955531 CTTTTTTTGCTCAAAGCTTTT
1 CTTTTTTTGCTCAAAGCTTTT
20955552 CTTTTTTATGC-C-AAGCTTT
1 CTTTTTT-TGCTCAAAGCTTT
20955571 CGATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 8 0.44
22 3 0.17
ACGTcount: A:0.15, C:0.20, G:0.10, T:0.55
Consensus pattern (21 bp):
CTTTTTTTGCTCAAAGCTTTT
Found at i:20957442 original size:21 final size:20
Alignment explanation
Indices: 20957392--20957442 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
20957382 GATGATGATT
* *
20957392 TATTTTT-TAATATAAATTA
1 TATTTTTATTATATAAACTA
* *
20957411 TAATTTAATTATATATAACTA
1 TATTTTTATTATATA-AACTA
20957432 TATTTTTATTA
1 TATTTTTATTA
20957443 AATTAAGATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTTATTATATAAACTA
Found at i:20958092 original size:12 final size:12
Alignment explanation
Indices: 20958075--20958112 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20958065 TTTAAAAATC
20958075 AATAAATTAAAA
1 AATAAATTAAAA
*
20958087 AATAAATTTAATA
1 AATAAA-TTAAAA
20958100 AA-AAATTAAAA
1 AATAAATTAAAA
20958111 AA
1 AA
20958113 AATTATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 7 0.30
12 9 0.39
13 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAAATTAAAA
Found at i:20958396 original size:23 final size:24
Alignment explanation
Indices: 20958352--20958396 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
20958342 CACTTAAAAT
20958352 CCAATAAATCCAAGTATCAACAGC
1 CCAATAAATCCAAGTATCAACAGC
20958376 CCAATAAATCCAA-TATCAACA
1 CCAATAAATCCAAGTATCAACA
20958397 AAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (24 bp):
CCAATAAATCCAAGTATCAACAGC
Found at i:20963351 original size:20 final size:20
Alignment explanation
Indices: 20963326--20963366 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
20963316 TTAGAACAAC
20963326 ATACAATTATATATATATAT
1 ATACAATTATATATATATAT
* *
20963346 ATACAATTTTATGTATATAT
1 ATACAATTATATATATATAT
20963366 A
1 A
20963367 AAGCTTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (20 bp):
ATACAATTATATATATATAT
Found at i:20964858 original size:21 final size:21
Alignment explanation
Indices: 20964832--20964886 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
20964822 TAAATTCCAA
* *
20964832 TAAAATTTTGTCAAACAAAGT
1 TAAAATTTAGTCAAACAAAAT
20964853 TAAAA-TTAGTCAAACAAAAT
1 TAAAATTTAGTCAAACAAAAT
*
20964873 CAAAA-TTAGTCAAA
1 TAAAATTTAGTCAAA
20964887 ATTGGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (21 bp):
TAAAATTTAGTCAAACAAAAT
Found at i:20964866 original size:20 final size:20
Alignment explanation
Indices: 20964841--20964886 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
20964831 ATAAAATTTT
* *
20964841 GTCAAACAAAGTTAAAATTA
1 GTCAAACAAAATCAAAATTA
20964861 GTCAAACAAAATCAAAATTA
1 GTCAAACAAAATCAAAATTA
20964881 GTCAAA
1 GTCAAA
20964887 ATTGGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.57, C:0.13, G:0.09, T:0.22
Consensus pattern (20 bp):
GTCAAACAAAATCAAAATTA
Found at i:20966934 original size:19 final size:19
Alignment explanation
Indices: 20966912--20966965 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
20966902 CCAAGCCATA
*
20966912 AAACCAAACCCTAAACTCT
1 AAACCAAACCCTAAACCCT
20966931 AAACCAAACCCTAAACCCT
1 AAACCAAACCCTAAACCCT
20966950 AAACCAAAACCCTAAA
1 AAACC-AAACCCTAAA
20966966 TTGAAACCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 23 0.70
20 10 0.30
ACGTcount: A:0.52, C:0.37, G:0.00, T:0.11
Consensus pattern (19 bp):
AAACCAAACCCTAAACCCT
Found at i:20966939 original size:12 final size:12
Alignment explanation
Indices: 20966891--20967030 Score: 86
Period size: 13 Copynumber: 10.9 Consensus size: 12
20966881 CTTAAATTTA
20966891 AAACCCTAAACCC
1 AAACCCTAAA-CC
* *
20966904 AAGCCATAAAACC
1 AAACCCT-AAACC
20966917 AAACCCTAAACTC
1 AAACCCTAAAC-C
20966930 TAAA-CC-AAACCC
1 -AAACCCTAAA-CC
20966942 TAAACCCTAAACC
1 -AAACCCTAAACC
**
20966955 AAAACCCTAAATTG
1 -AAACCCTAAA-CC
*
20966969 AAACCCTAAATTC
1 AAACCCTAAA-CC
*
20966982 AAACTCTAAAACC
1 AAACCCT-AAACC
* *
20966995 AAACACTAATCCC
1 AAACCCTAA-ACC
20967008 AAACCCTAAACC
1 AAACCCTAAACC
*
20967020 AAAACCTAAAC
1 AAACCCTAAAC
20967031 TTTAGCCCCA
Statistics
Matches: 103, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
12 26 0.25
13 65 0.63
14 12 0.12
ACGTcount: A:0.50, C:0.35, G:0.01, T:0.14
Consensus pattern (12 bp):
AAACCCTAAACC
Found at i:20967057 original size:64 final size:65
Alignment explanation
Indices: 20966943--20967081 Score: 165
Period size: 64 Copynumber: 2.2 Consensus size: 65
20966933 ACCAAACCCT
* ** *
20966943 AAACCCTAAACCAAAACCCTAAATTGAAACCCTAAATTCAAACTCTAAAACCAAACACTAATCCC
1 AAACCCTAAACCAAAACCCTAAATTGAAACCCCAAACCCAAACCCTAAAACCAAACACTAATCCC
* * * * *
20967008 AAACCCTAAACCAAAA-CCTAAACTT-TAGCCCCAAACCCAAACCCTAAAACTAAGCGCTAATCC
1 AAACCCTAAACCAAAACCCTAAA-TTGAAACCCCAAACCCAAACCCTAAAACCAAACACTAATCC
*
20967071 T
65 C
20967072 AAACCCTAAA
1 AAACCCTAAA
20967082 ACCCTAAACC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
64 45 0.71
65 18 0.29
ACGTcount: A:0.47, C:0.34, G:0.03, T:0.16
Consensus pattern (65 bp):
AAACCCTAAACCAAAACCCTAAATTGAAACCCCAAACCCAAACCCTAAAACCAAACACTAATCCC
Found at i:20967265 original size:17 final size:18
Alignment explanation
Indices: 20967243--20967280 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
20967233 CATTCATACT
20967243 TTGTCATCCA-TATCATA
1 TTGTCATCCATTATCATA
*
20967260 TTGTCATGCATTTATCATA
1 TTGTCATCCA-TTATCATA
20967279 TT
1 TT
20967281 TTATTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.47
Consensus pattern (18 bp):
TTGTCATCCATTATCATA
Found at i:20967275 original size:19 final size:19
Alignment explanation
Indices: 20967211--20967280 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 19
20967201 ATTATTATCA
* *
20967211 CATGCATTT-TTATATTAT
1 CATGCATTTATCATATTGT
*
20967229 CATGCATTCAT-ACT-TTGT
1 CATGCATTTATCA-TATTGT
*
20967247 CATCCA--TATCATATTGT
1 CATGCATTTATCATATTGT
20967264 CATGCATTTATCATATT
1 CATGCATTTATCATATT
20967281 TTATTATGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
16 3 0.07
17 10 0.24
18 17 0.41
19 11 0.27
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.47
Consensus pattern (19 bp):
CATGCATTTATCATATTGT
Found at i:20967650 original size:8 final size:8
Alignment explanation
Indices: 20967607--20967652 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
20967597 TTTTATTTCT
*
20967607 AAAAAAAG
1 AAAAGAAG
20967615 AAAA-AAG
1 AAAAGAAG
20967622 AAAAGGAA-
1 AAAA-GAAG
*
20967630 AAAAAAAG
1 AAAAGAAG
20967638 AAAAGAAG
1 AAAAGAAG
20967646 AAAAGAA
1 AAAAGAA
20967653 CTTAATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 9 0.27
8 22 0.67
9 2 0.06
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAGAAG
Found at i:20968269 original size:16 final size:16
Alignment explanation
Indices: 20968248--20968302 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
20968238 TTCTCACCAA
20968248 AAAAAAATGAAAAATG
1 AAAAAAATGAAAAATG
* *
20968264 AAAAAAATAAAAAATTT
1 AAAAAAATGAAAAA-TG
*
20968281 AAAAAATTGCAAAAA-G
1 AAAAAAATG-AAAAATG
20968297 AAAAAA
1 AAAAAA
20968303 GGTATAGGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 19 0.59
17 8 0.25
18 5 0.16
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (16 bp):
AAAAAAATGAAAAATG
Found at i:20969185 original size:19 final size:19
Alignment explanation
Indices: 20969147--20969185 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20969137 GTTCTAAATA
*
20969147 AAAAAAAAACCCAAAAAAC
1 AAAAAAAAACCAAAAAAAC
20969166 AAAAAAAAA-CAAAAACAAC
1 AAAAAAAAACCAAAAA-AAC
20969185 A
1 A
20969186 TAAATGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAAACCAAAAAAAC
Found at i:20969413 original size:38 final size:38
Alignment explanation
Indices: 20969348--20969501 Score: 111
Period size: 38 Copynumber: 4.2 Consensus size: 38
20969338 ATGATTGAAA
* * ***
20969348 ATAATAAGATAATGCATGTACCCCATCTCATGCACATC
1 ATAATAAGATAATACATGCATTTCATCTCATGCACATC
*
20969386 ATAATAAGATAATACATGCATTTCATCTCATCCACATC
1 ATAATAAGATAATACATGCATTTCATCTCATGCACATC
* * * * *
20969424 --AATAA-ATAGTACATGTA-TTCTATTTCAGGCACATG
1 ATAATAAGATAATACATGCATTTC-ATCTCATGCACATC
* ** * *
20969459 TTAAT-AGATGGTACATACATTTCATCTCATGCATATC
1 ATAATAAGATAATACATGCATTTCATCTCATGCACATC
*
20969496 TTAATA
1 ATAATA
20969502 GGTAGCACAT
Statistics
Matches: 91, Mismatches: 19, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
34 3 0.03
35 20 0.22
36 6 0.07
37 27 0.30
38 35 0.38
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (38 bp):
ATAATAAGATAATACATGCATTTCATCTCATGCACATC
Found at i:20969500 original size:37 final size:37
Alignment explanation
Indices: 20969371--20969537 Score: 142
Period size: 37 Copynumber: 4.5 Consensus size: 37
20969361 GCATGTACCC
* *
20969371 CATCTCATGCACATCATAATAAGATAATACATGCATTT
1 CATCTCATGCACATCTTAAT-AGATAGTACATGCATTT
* * *
20969409 CATCTCATCCACATC--AATAAATAGTACATGTA-TT
1 CATCTCATGCACATCTTAATAGATAGTACATGCATTT
* * * * *
20969443 CTATTTCAGGCACATGTTAATAGATGGTACATACATTT
1 C-ATCTCATGCACATCTTAATAGATAGTACATGCATTT
* * * *
20969481 CATCTCATGCATATCTTAATAGGTAGCACATGCATTC
1 CATCTCATGCACATCTTAATAGATAGTACATGCATTT
* *
20969518 CACCTCATTGCATATCTTAA
1 CATCTCA-TGCACATCTTAA
20969538 GTAGTGTCAA
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
34 3 0.03
35 21 0.21
36 3 0.03
37 46 0.45
38 29 0.28
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (37 bp):
CATCTCATGCACATCTTAATAGATAGTACATGCATTT
Found at i:20971712 original size:8 final size:8
Alignment explanation
Indices: 20971699--20971725 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
20971689 AAAATGAAAG
20971699 AAAAAATA
1 AAAAAATA
20971707 AAAAAATA
1 AAAAAATA
20971715 AAAAAATA
1 AAAAAATA
20971723 AAA
1 AAA
20971726 GAAAGAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:20971842 original size:94 final size:92
Alignment explanation
Indices: 20971721--20971899 Score: 279
Period size: 94 Copynumber: 1.9 Consensus size: 92
20971711 AATAAAAAAA
* *
20971721 TAAAAGAAAGAGAAAGAGAAAGTTTTCTTTTATGATAAAAGAT-GAAAGAAGTTTCAAAAGAGTT
1 TAAAAGAAAGAGAAAGAAAAAATTTTCTTTTATGATAAAAGATGGAAAG-AGTTTCAAAAGAGTT
20971785 GGCTATCTCCAATAGAAATAATATAAAG
65 GGCTATCTCCAATAGAAATAATATAAAG
* *
20971813 TAAAAGAAGAGAGAAAATAAAAAATTTTCTTTTATGATAAAAGATGGAAAGTGTTTCAAAAGAGT
1 TAAAAGAA-AGAG-AAAGAAAAAATTTTCTTTTATGATAAAAGATGGAAAGAGTTTCAAAAGAGT
*
20971878 TGGCTATCTCCATTAGAAATAA
64 TGGCTATCTCCAATAGAAATAA
20971900 ACCCACAATG
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
92 8 0.10
93 4 0.05
94 62 0.78
95 5 0.06
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (92 bp):
TAAAAGAAAGAGAAAGAAAAAATTTTCTTTTATGATAAAAGATGGAAAGAGTTTCAAAAGAGTTG
GCTATCTCCAATAGAAATAATATAAAG
Found at i:20971964 original size:94 final size:95
Alignment explanation
Indices: 20971851--20972037 Score: 290
Period size: 94 Copynumber: 2.0 Consensus size: 95
20971841 CTTTTATGAT
20971851 AAAAGATGGAAAGTGTTTCAAAAGAGTTGGCTATCTCCATTAGAAATAAACCCA-C-AATGCCTT
1 AAAAGATGGAAAGTGTTTCAAAAGAGTTGGCTATCTCCATTAGAAATAAACCCACCAAATGCCTT
*
20971914 CACACCTTTTGCAAACATTCTCATGTCCTA
66 CACACCCTTTGCAAACATTCTCATGTCCTA
* * * *
20971944 AAAAGATGGAAGGAGT-TTTCAAAAGAGTTGGTTATCTCTATTAGAAATAACCCCACCAAATGTC
1 AAAAGATGGAA--AGTGTTTCAAAAGAGTTGGCTATCTCCATTAGAAATAAACCCACCAAATGCC
20972008 TTCACACCCTTTGCAAACATTCTCATGTCC
64 TTCACACCCTTTGCAAACATTCTCATGTCC
20972038 CAAATCACTC
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
93 11 0.13
94 36 0.42
95 4 0.05
96 34 0.40
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (95 bp):
AAAAGATGGAAAGTGTTTCAAAAGAGTTGGCTATCTCCATTAGAAATAAACCCACCAAATGCCTT
CACACCCTTTGCAAACATTCTCATGTCCTA
Found at i:20973087 original size:19 final size:18
Alignment explanation
Indices: 20973065--20973110 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
20973055 AAAGTGAAAC
* *
20973065 AAGAAAAAATTAGGAAAAA
1 AAGAAAAAATGA-AAAAAA
20973084 AAGAAGAAAATGAAAAAAA
1 AAGAA-AAAATGAAAAAAA
20973103 AAGAAAAA
1 AAGAAAAA
20973111 CAAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (18 bp):
AAGAAAAAATGAAAAAAA
Found at i:20975591 original size:56 final size:54
Alignment explanation
Indices: 20975522--20975720 Score: 193
Period size: 56 Copynumber: 3.6 Consensus size: 54
20975512 TCTCTTAGTA
*
20975522 GTGATATCTAAGTTTTCTTTGGTGGTGATATCTAAAGTCATTTGTTTTCACTCGGT
1 GTGATATCCAAGTTTTCTTTGGTGGTGATATCTAAAGTC-TTTGTTTT-ACTCGGT
* * * ** * * *
20975578 GTGATATTCAAGTTCTCTTTAGTAATGATATCTAAAGCCCTATGTTTTACTCAGT
1 GTGATATCCAAGTTTTCTTTGGTGGTGATATCTAAAG-TCTTTGTTTTACTCGGT
* * * * **
20975633 GGTGATATCCAAGTTTTCTTTGTTGGTGATATCTAAAACTCTTTGTTTTAGTTAGCA
1 -GTGATATCCAAGTTTTCTTTGGTGGTGATATCT-AAAGTCTTTGTTTTA-CTCGGT
20975690 GTGATATCCAAG-TTTCTTTTGGTGGTGATAT
1 GTGATATCCAAGTTTTC-TTTGGTGGTGATAT
20975721 TCCATGTTAT
Statistics
Matches: 114, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
55 10 0.09
56 99 0.87
57 5 0.04
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.45
Consensus pattern (54 bp):
GTGATATCCAAGTTTTCTTTGGTGGTGATATCTAAAGTCTTTGTTTTACTCGGT
Found at i:20984079 original size:140 final size:139
Alignment explanation
Indices: 20983829--20984087 Score: 333
Period size: 140 Copynumber: 1.8 Consensus size: 139
20983819 CAAATTAACA
* * * *
20983829 GTTATTGTTCTGTTTTAATAGTTTTGATAGTTTCAATACATGATATTAAACTTATCAAAAGTATT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCAAAAGTATT
* * **
20983894 GAACTTAGTTGCCATGGTTGATATGTATGAAGAAATTATTGTTTATGTCTATTTAGGTAAAAATA
66 GAACTTAGTTGCCAT-GTTGATATGTATGAAAAAACTATCATTTATGTCTATTTAGGTAAAAATA
20983959 CAAATTTGTT
130 CAAATTTGTT
* * **
20983969 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACTTGATATTAAACTTGTTCAATTG-AT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTT-ATCAAAAGTAT
* * *
20984033 TGAACTTGGTTTCTACAT-TTGATATGTGTGAAAAAACTATCATTTATGTCTATTT
65 TGAACTTAGTTGC--CATGTTGATATGTATGAAAAAACTATCATTTATGTCTATTT
20984088 GGGACTATTT
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
140 93 0.92
141 5 0.05
142 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (139 bp):
GTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTATCAAAAGTATT
GAACTTAGTTGCCATGTTGATATGTATGAAAAAACTATCATTTATGTCTATTTAGGTAAAAATAC
AAATTTGTT
Found at i:20984943 original size:21 final size:21
Alignment explanation
Indices: 20984917--20984967 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
20984907 AACATGAGCG
20984917 TGCCAAAATTGAGGAAGAA-CA
1 TGCCAAAATTGAGGAA-AAGCA
* *
20984938 TGCCAAAATGGAGTAAAAGCA
1 TGCCAAAATTGAGGAAAAGCA
20984959 TG-CAAAATT
1 TGCCAAAATT
20984968 TTAGTAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.18
Consensus pattern (21 bp):
TGCCAAAATTGAGGAAAAGCA
Found at i:20990154 original size:6 final size:6
Alignment explanation
Indices: 20990143--20990177 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
20990133 GCAAGGAATG
* *
20990143 GAAAAA GAAAAA GAAAAA GAAACA GCAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
20990178 TAATAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:20992312 original size:10 final size:10
Alignment explanation
Indices: 20992288--20992335 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
20992278 AGAAAAGAAT
20992288 GATTCTTGGAA
1 GATTCTT-GAA
*
20992299 -ATTCTTGAG
1 GATTCTTGAA
20992308 GATTCTTGAA
1 GATTCTTGAA
* *
20992318 GTTTCTTGAT
1 GATTCTTGAA
20992328 GATTCTTG
1 GATTCTTG
20992336 GATGATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 2 0.06
10 29 0.94
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (10 bp):
GATTCTTGAA
Found at i:20992313 original size:20 final size:21
Alignment explanation
Indices: 20992288--20992342 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
20992278 AGAAAAGAAT
20992288 GATTCTTGGAA-ATTCTTGAG
1 GATTCTTGGAAGATTCTTGAG
* *
20992308 GATTCTT-GAAGTTTCTTGAT
1 GATTCTTGGAAGATTCTTGAG
*
20992328 GATTCTTGGATGATT
1 GATTCTTGGAAGATT
20992343 TTTAATCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 21 0.72
21 5 0.17
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.45
Consensus pattern (21 bp):
GATTCTTGGAAGATTCTTGAG
Found at i:20992716 original size:14 final size:14
Alignment explanation
Indices: 20992697--20992724 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20992687 TGGATTTCTT
20992697 TTCTTAGTGAGAAA
1 TTCTTAGTGAGAAA
20992711 TTCTTAGTGAGAAA
1 TTCTTAGTGAGAAA
20992725 GTATTCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
TTCTTAGTGAGAAA
Found at i:20993266 original size:16 final size:15
Alignment explanation
Indices: 20993227--20993270 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
20993217 ATTTATAAGA
20993227 TCTTTAGTTTTC-TT
1 TCTTTAGTTTTCTTT
*
20993241 T-TTAAGTTTTCTTGT
1 TCTTTAGTTTTCTT-T
20993256 TCTTTAGTTTTCTTT
1 TCTTTAGTTTTCTTT
20993271 AAGCTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 9 0.36
14 2 0.08
15 3 0.12
16 11 0.44
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.70
Consensus pattern (15 bp):
TCTTTAGTTTTCTTT
Found at i:20993288 original size:29 final size:28
Alignment explanation
Indices: 20993227--20993280 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
20993217 ATTTATAAGA
*
20993227 TCTTTAGTTTTCTTTTTAAGTTTTCTTGT
1 TCTTTAGTTTTC-TTTTAAGCTTTCTTGT
20993256 TCTTTAGTTTTC-TTTAAGCTTTCTT
1 TCTTTAGTTTTCTTTTAAGCTTTCTT
20993281 TAGTTCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.50
29 12 0.50
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (28 bp):
TCTTTAGTTTTCTTTTAAGCTTTCTTGT
Found at i:20994853 original size:19 final size:20
Alignment explanation
Indices: 20994829--20994866 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20994819 TATAAAAATT
*
20994829 CAAAGA-TTAGAAATAAAAC
1 CAAAGATTTACAAATAAAAC
20994848 CAAAGATTTACAAATAAAA
1 CAAAGATTTACAAATAAAA
20994867 TTAAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.63, C:0.11, G:0.08, T:0.18
Consensus pattern (20 bp):
CAAAGATTTACAAATAAAAC
Found at i:20995181 original size:23 final size:22
Alignment explanation
Indices: 20995155--20995278 Score: 62
Period size: 25 Copynumber: 5.5 Consensus size: 22
20995145 AATTGATATT
20995155 AAAAAAATTTAAGATTTACA-TC
1 AAAAAAATTTAA-ATTTACATTC
* *
20995177 --CAAAATTCAAATTTTCACATTC
1 AAAAAAATTTAAA-TTT-ACATTC
* *
20995199 AAAAAAATTAAAAATTCACATTC
1 AAAAAAATT-TAAATTTACATTC
* *
20995222 AAAAAAATTTTATAGGTTCACATTC
1 AAAAAAA-TTTA-A-ATTTACATTC
20995247 ---AAAATTTAAATATTCACATTC
1 AAAAAAATTTAAAT-TT-ACATTC
20995268 AAACAAAATTT
1 AAA-AAAATTT
20995279 TAATGATTTG
Statistics
Matches: 78, Mismatches: 9, Indels: 27
0.68 0.08 0.24
Matches are distributed among these distances:
19 2 0.03
20 13 0.17
21 13 0.17
22 6 0.08
23 14 0.18
24 11 0.14
25 19 0.24
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAAAAATTTAAATTTACATTC
Found at i:20995262 original size:21 final size:21
Alignment explanation
Indices: 20995158--20995270 Score: 79
Period size: 23 Copynumber: 5.1 Consensus size: 21
20995148 TGATATTAAA
*
20995158 AAAATTTAAGAT-TT-ACATCC
1 AAAATTTAA-ATATTCACATTC
* *
20995178 AAAATTCAAATTTTCACATTC
1 AAAATTTAAATATTCACATTC
* *
20995199 AAAAAAATTAAAAATTCACATTC
1 --AAAATTTAAATATTCACATTC
*
20995222 AAAAAAATTT-TATAGGTTCACATTC
1 ---AAAATTTAAATA--TTCACATTC
20995247 AAAATTTAAATATTCACATTC
1 AAAATTTAAATATTCACATTC
20995268 AAA
1 AAA
20995271 CAAAATTTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
19 2 0.03
20 10 0.13
21 17 0.23
22 7 0.09
23 22 0.29
24 8 0.11
25 9 0.12
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAATTTAAATATTCACATTC
Found at i:20995265 original size:46 final size:48
Alignment explanation
Indices: 20995190--20995280 Score: 141
Period size: 46 Copynumber: 1.9 Consensus size: 48
20995180 AATTCAAATT
20995190 TTCACATTCAAAAAAATTAAAAATTCACATTCAAA-AAAATTTTATAGG
1 TTCACATTC-AAAAAATTAAAAATTCACATTCAAACAAAATTTTATAGG
* *
20995238 TTCACATTC-AAAATTTAAATATTCACATTCAAACAAAATTTTA
1 TTCACATTCAAAAAATTAAAAATTCACATTCAAACAAAATTTTA
20995281 ATGATTTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
46 22 0.55
47 9 0.22
48 9 0.22
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.34
Consensus pattern (48 bp):
TTCACATTCAAAAAATTAAAAATTCACATTCAAACAAAATTTTATAGG
Found at i:20995278 original size:25 final size:25
Alignment explanation
Indices: 20995177--20995278 Score: 94
Period size: 23 Copynumber: 4.3 Consensus size: 25
20995167 GATTTACATC
* *
20995177 CAAAATTCAAATTTTCACATTCAAA
1 CAAAATTTAAATATTCACATTCAAA
*
20995202 -AAAA-TTAAAAATTCACATTCAAA
1 CAAAATTTAAATATTCACATTCAAA
*
20995225 -AAAATTT-TATAGGTTCACATT----
1 CAAAATTTAAATA--TTCACATTCAAA
20995246 CAAAATTTAAATATTCACATTCAAA
1 CAAAATTTAAATATTCACATTCAAA
20995271 CAAAATTT
1 CAAAATTT
20995279 TAATGATTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
21 8 0.13
22 7 0.11
23 25 0.40
24 6 0.10
25 16 0.26
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (25 bp):
CAAAATTTAAATATTCACATTCAAA
Found at i:20997260 original size:17 final size:17
Alignment explanation
Indices: 20997228--20997290 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
20997218 CATGCTTTTG
*
20997228 CATCTTTTTCATTTCTTT
1 CATCTTTTT-TTTTCTTT
20997246 C-TCTTTTTTTGTTC--T
1 CATCTTTTTTT-TTCTTT
20997261 CAT-TTTTTTTTCTCTTT
1 CATCTTTTTTTT-TCTTT
*
20997278 CTTCTTTTTTTTT
1 CATCTTTTTTTTT
20997291 TTTTGGGATG
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
14 1 0.03
15 11 0.30
16 2 0.05
17 14 0.38
18 9 0.24
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.75
Consensus pattern (17 bp):
CATCTTTTTTTTTCTTT
Found at i:20997285 original size:15 final size:13
Alignment explanation
Indices: 20997243--20997294 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
20997233 TTTTCATTTC
20997243 TTTCTCTTTTTTT
1 TTTCTCTTTTTTT
* *
20997256 GTTCTCATTTTTT
1 TTTCTCTTTTTTT
20997269 TTTCTCTTTCTTCTT
1 TTTCTCTTT-TT-TT
20997284 TTT-T-TTTTTTT
1 TTTCTCTTTTTTT
20997295 GGGATGTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 2 0.06
12 2 0.06
13 21 0.64
14 3 0.09
15 5 0.15
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTCTCTTTTTTT
Found at i:20999247 original size:32 final size:32
Alignment explanation
Indices: 20999179--20999264 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 32
20999169 ACTGTATGCT
* * *
20999179 AAGGTGAGCTCGTACAA-GGATAATTTTTATC
1 AAGGTGAGCTCATACAAGGGACAAGTTTTATC
* *
20999210 AAGGTGAGCTCATACAAGGGGCAAGTTTTATT
1 AAGGTGAGCTCATACAAGGGACAAGTTTTATC
* * *
20999242 GAGGTGAGCTTATA-AAAGGACAA
1 AAGGTGAGCTCATACAAGGGACAA
20999265 TTTATGTCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 23 0.51
32 22 0.49
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.27
Consensus pattern (32 bp):
AAGGTGAGCTCATACAAGGGACAAGTTTTATC
Found at i:20999691 original size:60 final size:58
Alignment explanation
Indices: 20999544--20999732 Score: 172
Period size: 60 Copynumber: 3.2 Consensus size: 58
20999534 TGAGTCCATG
* *
20999544 TGAAGGCAATTTTTTCTGAGGTGAGATCTTTTGAATGTAATTTTGCAAGGATGAGCT-CTA
1 TGAAGGCAATTTTTT-TGAGGTGA-TTCTTTTAAATGTAATTTTGCAAGG-TGAGCTCCTA
* * * *
20999604 --ACA--CAACTTTTTTCGAGGTGAGTTCTTTTAAAGGAAATTTTGTCAAAGTGAGCTCCTA
1 TGA-AGGCAA-TTTTTTTGAGGTGA-TTCTTTTAAATGTAATTTTG-CAAGGTGAGCTCCTA
* * *
20999662 TGAAGGCAATTTTTTTGAGGTGATCTCTTTGAAATGTAATTTTGCCAAGGTAAGCTCATA
1 TGAAGGCAATTTTTTTGAGGTGAT-TCTTTTAAATGTAATTTTG-CAAGGTGAGCTCCTA
*
20999722 TAAAGGCAATT
1 TGAAGGCAATT
20999733 ATGTCGAGGT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
57 33 0.31
58 14 0.13
59 3 0.03
60 52 0.50
61 3 0.03
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (58 bp):
TGAAGGCAATTTTTTTGAGGTGATTCTTTTAAATGTAATTTTGCAAGGTGAGCTCCTA
Found at i:20999742 original size:60 final size:60
Alignment explanation
Indices: 20999616--20999775 Score: 153
Period size: 60 Copynumber: 2.6 Consensus size: 60
20999606 ACAACTTTTT
* * * * * * * *
20999616 TCGAGGTGAGT-TCTTTTAAAGGAAATTTTGTCAAAGTGAGCTCCTATGAAGGCAATTTTT
1 TCGAGGTGA-TCTCTTTGAAAGGAAATTTTGCCAAGGTAAGCTCATATAAAGGCAATTATG
* * *
20999676 TTGAGGTGATCTCTTTGAAATGTAATTTTGCCAAGGTAAGCTCATATAAAGGCAATTATG
1 TCGAGGTGATCTCTTTGAAAGGAAATTTTGCCAAGGTAAGCTCATATAAAGGCAATTATG
* * *
20999736 TCGAGGTAAGCTCTTATG-AAGGCAACTTTTGCCAAGGTAA
1 TCGAGGTGATCTCTT-TGAAAGG-AAATTTTGCCAAGGTAA
20999776 ATACTCATAT
Statistics
Matches: 80, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
59 1 0.01
60 62 0.77
61 17 0.21
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (60 bp):
TCGAGGTGATCTCTTTGAAAGGAAATTTTGCCAAGGTAAGCTCATATAAAGGCAATTATG
Found at i:21000709 original size:75 final size:74
Alignment explanation
Indices: 21000616--21000847 Score: 243
Period size: 75 Copynumber: 3.1 Consensus size: 74
21000606 TTTATGCCAC
* ** * * * **
21000616 CTCAATCATTCTCTTCTTTTTCTCTTTCCTCAGGTTGGCCACACCTTGGATTTAAATCACCTTGG
1 CTCAATCAATCTAATCTTTTTCTCTTTCCT-AGGTTGGCCAAACCTTGGATTTGAATTACCTCAG
21000681 TTATGCTTAG
65 TTATGCTTAG
* * ** *
21000691 CTCAATTAATCTAATCTTTTTTTCCTTTTTTAGGTTGGCCAAACCTTGGATTTGAATTACCTCAA
1 CTCAATCAATCTAATCTTTTTCT-CTTTCCTAGGTTGGCCAAACCTTGGATTTGAATTACCTCAG
21000756 TTATGCTTAG
65 TTATGCTTAG
* ** ** *
21000766 CTCAATCAATTTCCTCCTTTTTC-C-TTCACTAGGTCAGCCAAACTTTGGATTTGAATTACCTCA
1 CTCAATCAATCTAAT-CTTTTTCTCTTTC-CTAGGTTGGCCAAACCTTGGATTTGAATTACCTCA
21000829 GTTATGCTTAG
64 GTTATGCTTAG
21000840 CTCAATCA
1 CTCAATCA
21000848 GTTTCTTTTT
Statistics
Matches: 130, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
73 2 0.02
74 50 0.38
75 67 0.52
76 11 0.08
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (74 bp):
CTCAATCAATCTAATCTTTTTCTCTTTCCTAGGTTGGCCAAACCTTGGATTTGAATTACCTCAGT
TATGCTTAG
Found at i:21000902 original size:75 final size:74
Alignment explanation
Indices: 21000616--21000904 Score: 242
Period size: 75 Copynumber: 3.9 Consensus size: 74
21000606 TTTATGCCAC
* * ** * * * * **
21000616 CTCAATC-ATTCTCTTCTTTTTCTCTTTCCTCAGGTTGGCCACACCTTGGATTTAAATCACCTTG
1 CTCAATCAATT-TCTT-TTTTTTTCCTTCCTTTGGTCGGCCAAACATTGGATTTGAATCACCTCA
21000680 GTTATGCTTAG
64 GTTATGCTTAG
* ** * * * * *
21000691 CTCAATTAATCTAATCTTTTTTTCCTT-TTTTAGGTTGGCCAAACCTTGGATTTGAATTACCTCA
1 CTCAATCAAT-TTCTTTTTTTTTCCTTCCTTT-GGTCGGCCAAACATTGGATTTGAATCACCTCA
*
21000755 ATTATGCTTAG
64 GTTATGCTTAG
* ** * * * *
21000766 CTCAATCAATTTCCTCCTTTTTCCTTCAC-TAGGTCAGCCAAACTTTGGATTTGAATTACCTCAG
1 CTCAATCAATTTCTTTTTTTTTCCTTC-CTTTGGTCGGCCAAACATTGGATTTGAATCACCTCAG
21000830 TTATGCTTAG
65 TTATGCTTAG
* * *
21000840 CTCAATCAGTTTCTTTTTTTTTTCCTTCCTTTGGTCGGCTAGACATTGGATTTGAATCACCTCAG
1 CTCAATCAATTTC-TTTTTTTTTCCTTCCTTTGGTCGGCCAAACATTGGATTTGAATCACCTCAG
21000905 CTACAACCAA
Statistics
Matches: 169, Mismatches: 38, Indels: 14
0.76 0.17 0.06
Matches are distributed among these distances:
74 63 0.37
75 102 0.60
76 3 0.02
77 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (74 bp):
CTCAATCAATTTCTTTTTTTTTCCTTCCTTTGGTCGGCCAAACATTGGATTTGAATCACCTCAGT
TATGCTTAG
Found at i:21002029 original size:36 final size:36
Alignment explanation
Indices: 21001988--21002057 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
21001978 AAGAGGAAAT
21001988 ATTAGGAATTGATT-TAAAAAAGTTAAAAAAGATAGA
1 ATTAGGAATTGATTAT-AAAAAGTTAAAAAAGATAGA
*
21002024 ATTAGGAATTGATTATAAAAAGTTAAAAGAGATA
1 ATTAGGAATTGATTATAAAAAGTTAAAAAAGATA
21002058 TAAAAACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (36 bp):
ATTAGGAATTGATTATAAAAAGTTAAAAAAGATAGA
Found at i:21004602 original size:12 final size:11
Alignment explanation
Indices: 21004571--21004611 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
21004561 TTTAACTTTC
21004571 AAAAAATAATT
1 AAAAAATAATT
21004582 AAAAAATAATT
1 AAAAAATAATT
*
21004593 AAATAGATAATT
1 AAA-AAATAATT
21004605 AAAAAAT
1 AAAAAAT
21004612 TAAACTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
AAAAAATAATT
Found at i:21007905 original size:18 final size:18
Alignment explanation
Indices: 21007884--21007940 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
21007874 TATTAACTAA
21007884 AAATTATATTAAAATTTT
1 AAATTATATTAAAATTTT
*
21007902 AAATTAT-TTAATATTTT
1 AAATTATATTAAAATTTT
*
21007919 AAAAT-TATTAAATTATTTT
1 AAATTATATTAAA--ATTTT
21007938 AAA
1 AAA
21007941 ATCAAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 1 0.03
17 17 0.52
18 7 0.21
19 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATTATATTAAAATTTT
Found at i:21007937 original size:19 final size:18
Alignment explanation
Indices: 21007890--21007942 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 18
21007880 CTAAAAATTA
21007890 TATTAAA-ATTTT-AAAT
1 TATTAAATATTTTAAAAT
*
21007906 TATTTAATATTTTAAAAT
1 TATTAAATATTTTAAAAT
21007924 TATTAAATTATTTTAAAAT
1 TATTAAA-TATTTTAAAAT
21007943 CAAATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 6 0.19
17 5 0.16
18 10 0.31
19 11 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTAAATATTTTAAAAT
Found at i:21013415 original size:17 final size:17
Alignment explanation
Indices: 21013382--21013415 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21013372 AATCAAAAAC
* *
21013382 TAAAAAAACAAATGAAA
1 TAAAAAAAAAAAAGAAA
21013399 TAAAAAAAAAAAAGAAA
1 TAAAAAAAAAAAAGAAA
21013416 GACAAATGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (17 bp):
TAAAAAAAAAAAAGAAA
Found at i:21013705 original size:13 final size:13
Alignment explanation
Indices: 21013687--21013711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21013677 GAGAATAAAT
21013687 AAAGGATAAAGAA
1 AAAGGATAAAGAA
21013700 AAAGGATAAAGA
1 AAAGGATAAAGA
21013712 CAAGGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (13 bp):
AAAGGATAAAGAA
Found at i:21014465 original size:27 final size:27
Alignment explanation
Indices: 21014435--21014500 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
21014425 AGAGGAGGTG
* *
21014435 AATTAGATTTCACTAAGATTTTTCCAA
1 AATTAGATTTCACCAAGATTTTCCCAA
21014462 AATTAGATTTCACCAAGATTTTCCCAA
1 AATTAGATTTCACCAAGATTTTCCCAA
21014489 AATTAGATTTCA
1 AATTAGATTTCA
21014501 ATATAATTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (27 bp):
AATTAGATTTCACCAAGATTTTCCCAA
Found at i:21023333 original size:15 final size:17
Alignment explanation
Indices: 21023313--21023347 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
21023303 ATCATTTCTA
21023313 AATAATAAA-TT-AGAT
1 AATAATAAACTTAAGAT
21023328 AATAATAAACTTAAGAT
1 AATAATAAACTTAAGAT
21023345 AAT
1 AAT
21023348 CTTAACTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 2 0.11
17 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
AATAATAAACTTAAGAT
Found at i:21023402 original size:20 final size:19
Alignment explanation
Indices: 21023379--21023426 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
21023369 ACATAAATTT
21023379 AAATAAACAATAACAAATAA
1 AAATAAACAA-AACAAATAA
* *
21023399 AAATATAACTAAATAAATAA
1 AAATA-AACAAAACAAATAA
21023419 AATATAAA
1 AA-ATAAA
21023427 TAACAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAACAAAACAAATAA
Found at i:21025458 original size:21 final size:20
Alignment explanation
Indices: 21025433--21025476 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
21025423 TTTTAATATG
21025433 AAAATAAAAAATAGAAAAATT
1 AAAATAAAAAATAG-AAAATT
*
21025454 AAAATAAAAAATAGATAATT
1 AAAATAAAAAATAGAAAATT
21025474 AAA
1 AAA
21025477 TAATTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAATAAAAAATAGAAAATT
Found at i:21037356 original size:28 final size:29
Alignment explanation
Indices: 21037319--21037383 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
21037309 CGCATTATTT
* *
21037319 AATATATTTATAATTCAAAT-ACTACATTA
1 AATATTTTTAAAATTCAAATAAC-ACATTA
* *
21037348 AA-ATTTTTAAAATTTAAGTAACACATTA
1 AATATTTTTAAAATTCAAATAACACATTA
21037376 AATATTTT
1 AATATTTT
21037384 ATTATAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (29 bp):
AATATTTTTAAAATTCAAATAACACATTA
Found at i:21037726 original size:2 final size:2
Alignment explanation
Indices: 21037719--21037745 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21037709 TAAAATGTTT
21037719 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21037746 TTAGTGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21052900 original size:17 final size:17
Alignment explanation
Indices: 21052880--21052913 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21052870 AAATTTTAAA
*
21052880 AAAAAATCTAAAAATTT
1 AAAAAATCCAAAAATTT
21052897 AAAAAATCCAAAAATTT
1 AAAAAATCCAAAAATTT
21052914 TTCTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAAATCCAAAAATTT
Found at i:21053025 original size:19 final size:18
Alignment explanation
Indices: 21052981--21053076 Score: 61
Period size: 19 Copynumber: 5.2 Consensus size: 18
21052971 TGAATTATTT
*
21052981 TAAAAAATTTCAAGAAAAA
1 TAAAAAATTTTAA-AAAAA
*
21053000 CT-CAAAATTTTAATAAAAA
1 -TAAAAAATTTTAA-AAAAA
** *
21053019 TAAAAAA-AATAAAAAAT
1 TAAAAAATTTTAAAAAAA
** *
21053036 TATGAAACTTTAAAAAAA
1 TAAAAAATTTTAAAAAAA
*
21053054 TTAAAAATTTTAATAAAAA
1 TAAAAAATTTTAA-AAAAA
21053073 TAAA
1 TAAA
21053077 TTTTTCTTAA
Statistics
Matches: 56, Mismatches: 17, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
17 9 0.16
18 20 0.36
19 26 0.46
20 1 0.02
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAAAATTTTAAAAAAA
Found at i:21053377 original size:20 final size:19
Alignment explanation
Indices: 21053341--21053395 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
21053331 AGATTTTTGG
* *
21053341 AAATATTTT-TAACATTTT
1 AAATATTTTAAAAAATTTT
*
21053359 AGAATTTTTTAAAAAATTTT
1 A-AATATTTTAAAAAATTTT
*
21053379 ACATATTTTAAAAAATT
1 AAATATTTTAAAAAATT
21053396 CAGAAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 21 0.70
20 8 0.27
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
AAATATTTTAAAAAATTTT
Found at i:21053518 original size:29 final size:28
Alignment explanation
Indices: 21053486--21053550 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
21053476 TTTTTTTTAA
21053486 TTTTTAAAAATTTTTTGA-ATTTTTTACCT
1 TTTTTAAAAA--TTTTGAGATTTTTTACCT
* **
21053515 TTTTATTAAAATTTTGAGATTTTTTATTT
1 TTTT-TAAAAATTTTGAGATTTTTTACCT
21053544 TTTTTAA
1 TTTTTAA
21053551 TTTTAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 8 0.27
29 17 0.57
30 5 0.17
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (28 bp):
TTTTTAAAAATTTTGAGATTTTTTACCT
Found at i:21053545 original size:28 final size:27
Alignment explanation
Indices: 21053498--21053550 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
21053488 TTTAAAAATT
21053498 TTTTGAATTTTTTACCTTTTTATTAAAA
1 TTTTGAATTTTTTACCTTTTT-TTAAAA
*
21053526 TTTTGAGATTTTTTA-TTTTTTTTAA
1 TTTTGA-ATTTTTTACCTTTTTTTAA
21053551 TTTTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.48
29 8 0.35
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.66
Consensus pattern (27 bp):
TTTTGAATTTTTTACCTTTTTTTAAAA
Found at i:21053605 original size:66 final size:64
Alignment explanation
Indices: 21053469--21053641 Score: 152
Period size: 66 Copynumber: 2.6 Consensus size: 64
21053459 TTTCTATTAA
* * * ** *
21053469 ATTTTCATTTTTTTTAATTTTTAAAAATTTTTTGAATTTTTTACCTTTTTATTAAAATTTTGAG
1 ATTTTTATTTTTTTTAATTTTAAAAAATTTTTTGAATTTTTTACATAATTATTAAAATTTTCAG
**
21053533 ATTTTTTATTTTTTTTAATTTTAATAAAATTTTTTGAATTTTTTTTATAAATT-TTAAAATATTT
1 A-TTTTTATTTTTTTTAATTTTAA-AAAATTTTTTGAATTTTTTACAT-AATTATTAAAAT-TTT
*
21053597 CAT
62 CAG
* * * * *
21053600 ATTTTTAAATATTTTATAATTTTTAAATATTTTAT-AATTTTT
1 ATTTTT--ATTTTTTTTAATTTTAAAAAATTTTTTGAATTTTT
21053642 AAAATTATTT
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
64 1 0.01
65 20 0.22
66 39 0.44
67 15 0.17
68 14 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (64 bp):
ATTTTTATTTTTTTTAATTTTAAAAAATTTTTTGAATTTTTTACATAATTATTAAAATTTTCAG
Found at i:21053607 original size:18 final size:19
Alignment explanation
Indices: 21053579--21053665 Score: 92
Period size: 18 Copynumber: 4.7 Consensus size: 19
21053569 AATTTTTTTT
*
21053579 ATAAATTTTAAAATATTTC
1 ATAATTTTTAAAATATTTC
*
21053598 AT-ATTTTT-AAATATTTT
1 ATAATTTTTAAAATATTTC
*
21053615 ATAATTTTT-AAATATTTT
1 ATAATTTTTAAAATATTTC
21053633 ATAATTTTTAAAATTATTTC
1 ATAATTTTTAAAA-TATTTC
*
21053653 CT-ATTTTGTAAAA
1 ATAATTTT-TAAAA
21053666 AAAATTTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
17 10 0.17
18 29 0.48
19 10 0.17
20 11 0.18
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (19 bp):
ATAATTTTTAAAATATTTC
Found at i:21053613 original size:27 final size:28
Alignment explanation
Indices: 21053574--21053659 Score: 90
Period size: 27 Copynumber: 3.1 Consensus size: 28
21053564 TTTTGAATTT
21053574 TTTTTATAA-ATTTTAAAATATTTCATA
1 TTTTTATAATATTTTAAAATATTTCATA
* * *
21053601 TTTTTA-AATATTTTATAAT-TTTTAAA
1 TTTTTATAATATTTTAAAATATTTCATA
*
21053627 TATTTTATAAT-TTTTAAAATTATTTCCTA
1 T-TTTTATAATATTTTAAAA-TATTTCATA
21053656 TTTT
1 TTTT
21053660 GTAAAAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
26 8 0.17
27 27 0.57
28 7 0.15
29 5 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTTATAATATTTTAAAATATTTCATA
Found at i:21053624 original size:36 final size:36
Alignment explanation
Indices: 21053575--21053644 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
21053565 TTTGAATTTT
21053575 TTTTATAAATTTTAAAATATTTCAT-ATTTTTAAATA
1 TTTTATAAATTTT-AAATATTTCATAATTTTTAAATA
* *
21053611 TTTTATAATTTTTAAATATTTTATAATTTTTAAA
1 TTTTATAAATTTTAAATATTTCATAATTTTTAAA
21053645 ATTATTTCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 10 0.32
36 21 0.68
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (36 bp):
TTTTATAAATTTTAAATATTTCATAATTTTTAAATA
Found at i:21054298 original size:13 final size:12
Alignment explanation
Indices: 21054276--21054329 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 12
21054266 AATTTTGTTT
21054276 TTATATATTTAA
1 TTATATATTTAA
21054288 TTATAATATTTAA
1 TTAT-ATATTTAA
*
21054301 TTAGATAATTT-A
1 TTATAT-ATTTAA
21054313 TTA-ATA-TTAA
1 TTATATATTTAA
*
21054323 TTTTATA
1 TTATATA
21054330 AAATTATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 2 0.06
10 4 0.11
11 5 0.14
12 10 0.28
13 15 0.42
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TTATATATTTAA
Found at i:21054339 original size:22 final size:22
Alignment explanation
Indices: 21054286--21054339 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
21054276 TTATATATTT
21054286 AATTATAATATTTAATTAGATA
1 AATTATAATATTTAATTAGATA
* **
21054308 ATTTATTAATA-TTAATTTTATAA
1 AATTA-TAATATTTAATTAGAT-A
21054331 AATTATAAT
1 AATTATAAT
21054340 TAATTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTATAATATTTAATTAGATA
Found at i:21054405 original size:16 final size:16
Alignment explanation
Indices: 21054386--21054418 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21054376 TATAAAATAT
21054386 TATTATAATAATATTA
1 TATTATAATAATATTA
*
21054402 TATTATTATAATATTA
1 TATTATAATAATATTA
21054418 T
1 T
21054419 TAAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATAATAATATTA
Found at i:21054406 original size:19 final size:19
Alignment explanation
Indices: 21054382--21054420 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
21054372 TTAATATAAA
21054382 ATATTATTATAATAATATT
1 ATATTATTATAATAATATT
*
21054401 ATATTATTATAATATTATT
1 ATATTATTATAATAATATT
21054420 A
1 A
21054421 AAATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTATTATAATAATATT
Found at i:21054417 original size:30 final size:30
Alignment explanation
Indices: 21054378--21054451 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
21054368 ATCTTTAATA
* * **
21054378 TAAAATATTATTATAATAATATTATATTAT
1 TAAAATATTATTAAAATAAAATTATAAAAT
* *
21054408 TATAATATTATTAAAATAAAATTTTAAAAT
1 TAAAATATTATTAAAATAAAATTATAAAAT
21054438 TAAAATATTATTAA
1 TAAAATATTATTAA
21054452 TTTAATGTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
TAAAATATTATTAAAATAAAATTATAAAAT
Found at i:21054593 original size:11 final size:11
Alignment explanation
Indices: 21054579--21054659 Score: 62
Period size: 11 Copynumber: 7.4 Consensus size: 11
21054569 ACTAAAATAT
21054579 TATTAAATTAA
1 TATTAAATTAA
21054590 TATTTAATATTAA
1 TA-TTAA-ATTAA
21054603 -ATTAATATTTAA
1 TATTAA-A-TTAA
21054615 TATTAAATTAA
1 TATTAAATTAA
*
21054626 TATTATA-T-A
1 TATTAAATTAA
* *
21054635 TATTATA-TAT
1 TATTAAATTAA
*
21054645 TGTTAAATTAA
1 TATTAAATTAA
21054656 TATT
1 TATT
21054660 TAGTATTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
9 9 0.16
10 6 0.10
11 23 0.40
12 10 0.17
13 10 0.17
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (11 bp):
TATTAAATTAA
Found at i:21054600 original size:18 final size:18
Alignment explanation
Indices: 21054579--21054639 Score: 104
Period size: 18 Copynumber: 3.3 Consensus size: 18
21054569 ACTAAAATAT
21054579 TATTAAATTAATATTTAA
1 TATTAAATTAATATTTAA
21054597 TATTAAATTAATATTTAA
1 TATTAAATTAATATTTAA
21054615 TATTAAATTAATATTATATA
1 TATTAAATTAATATT-TA-A
21054635 TATTA
1 TATTA
21054640 TATATTGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 33 0.80
19 2 0.05
20 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTAAATTAATATTTAA
Found at i:21054603 original size:29 final size:29
Alignment explanation
Indices: 21054566--21054755 Score: 121
Period size: 29 Copynumber: 6.0 Consensus size: 29
21054556 TAAACAAAAA
*
21054566 AATACTAAAATATTATTAAATTAATATTT
1 AATATTAAAATATTATTAAATTAATATTT
21054595 AATATTAAATTAATATTTAATATTAAATTAATATTAT
1 AATATT-AA--AATA--T--TATTAAATTAATATT-T
* *
21054632 ATATATT-ATATATTGTTAAATTAATATTT
1 A-ATATTAAAATATTATTAAATTAATATTT
* * *
21054661 AGTATTAAAATATTTAGTAATCTAATGTGTAATACTT
1 AATATTAAAATA--T--T-AT-TAA-AT-TAATATTT
* * *
21054698 AATATTAAAATATTATAAAAATAATATTA
1 AATATTAAAATATTATTAAATTAATATTT
* *
21054727 AATATTAAAATATTGTTAAATTAAAATTT
1 AATATTAAAATATTATTAAATTAATATTT
21054756 GGAATAAAAT
Statistics
Matches: 124, Mismatches: 19, Indels: 36
0.69 0.11 0.20
Matches are distributed among these distances:
28 4 0.03
29 41 0.33
30 16 0.13
31 3 0.02
32 7 0.06
33 2 0.02
34 5 0.04
35 4 0.03
36 17 0.14
37 20 0.16
38 5 0.04
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (29 bp):
AATATTAAAATATTATTAAATTAATATTT
Found at i:21054711 original size:66 final size:61
Alignment explanation
Indices: 21054566--21054740 Score: 170
Period size: 66 Copynumber: 2.7 Consensus size: 61
21054556 TAAACAAAAA
*
21054566 AATACTAAAATATTATTAAATTAATATTTAATATTAAATTAATATTTAATATTAAATTAATATT
1 AATATTAAAATATTATTAAATTAATATTTAATATT-AA--AATATTTAATATTAAATTAATATT
* * * * * *
21054630 ATATATATTATATATTGTTAAATTAATATTTAGTATTAAAATATTTAGTAATCTAATGTGTAATA
1 A-ATAT-TAAAATATTATTAAATTAATATTTAATATTAAAATATTTAAT-AT-TAA-AT-TAATA
21054695 CTT
60 -TT
* * *
21054698 AATATTAAAATATTATAAAAATAATATTAAATATTAAAATATT
1 AATATTAAAATATTATTAAATTAATATTTAATATTAAAATATT
21054741 GTTAAATTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
63 9 0.10
64 3 0.03
65 8 0.09
66 58 0.64
67 9 0.10
68 3 0.03
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (61 bp):
AATATTAAAATATTATTAAATTAATATTTAATATTAAAATATTTAATATTAAATTAATATT
Found at i:21054788 original size:10 final size:10
Alignment explanation
Indices: 21054775--21054872 Score: 61
Period size: 10 Copynumber: 9.4 Consensus size: 10
21054765 TATTACAAAA
21054775 TATTTAATAT
1 TATTTAATAT
* *
21054785 TATTTTATTAA
1 TA-TTTAATAT
21054796 TATTTAATAT
1 TATTTAATAT
* *
21054806 TATTAAATTT
1 TATTTAATAT
21054816 CATATTTAATAT
1 --TATTTAATAT
* * *
21054828 GATTAAATTT
1 TATTTAATAT
21054838 ATATTTAATAT
1 -TATTTAATAT
* *
21054849 TGTTCAATAT
1 TATTTAATAT
* *
21054859 TTTTTAAAAT
1 TATTTAATAT
21054869 TATT
1 TATT
21054873 AAATTAATAT
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
10 41 0.64
11 15 0.23
12 8 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (10 bp):
TATTTAATAT
Found at i:21054797 original size:21 final size:21
Alignment explanation
Indices: 21054773--21055163 Score: 123
Period size: 21 Copynumber: 18.6 Consensus size: 21
21054763 AATATTACAA
**
21054773 AATATTTAATATTATTTTATT
1 AATATTTAATATTATTAAATT
21054794 AATATTTAATATTATTAAATTT
1 AATATTTAATATTATTAAA-TT
* *
21054816 CATATTTAATATGATTAAATT
1 AATATTTAATATTATTAAATT
* * *
21054837 TATATTTAATATTGTTCAA-T
1 AATATTTAATATTATTAAATT
* * *
21054857 ATTTTTTAAAATTATTAAATT
1 AATATTTAATATTATTAAATT
* *
21054878 AATATTACAAATATTAGCATTAAAAT
1 AATATT--TAATATT---ATTAAATT
* * * *
21054904 ATTATTCAAATAATATTAAAGT
1 AATATT-TAATATTATTAAATT
* * *
21054926 --T-TTAAAAATTAATT-ATTT
1 AATATTTAATATT-ATTAAATT
*
21054944 AATATTTAATA--A-GAAA-T
1 AATATTTAATATTATTAAATT
* * *
21054961 AA-AATTAAAATTTTATAAATT
1 AATATTTAATATTAT-TAAATT
* ** *
21054982 GAATTATTTAATGTTAAGATATT
1 -AA-TATTTAATATTATTAAATT
* * * * *
21055005 ATTAAATTAAAATT-TCATATT
1 AAT-ATTTAATATTATTAAATT
*
21055026 AAAATATTTAATATTATTTAATT
1 --AATATTTAATATTATTAAATT
** *
21055049 GAATATTTAGCATGATTAAATTAT
1 -AATATTTAATATTATTAAA-T-T
21055073 AATATTTAATATTA--AAA-T
1 AATATTTAATATTATTAAATT
*
21055091 -ATAGTTAATATTATTAAATT
1 AATATTTAATATTATTAAATT
* * *
21055111 ACTATTTAATAATATTGAATT
1 AATATTTAATATTATTAAATT
* *
21055132 AACATTGAATA-TATTAAATT
1 AATATTTAATATTATTAAATT
*
21055152 ATTA-TTAATATT
1 AATATTTAATATT
21055164 TTATTCATTT
Statistics
Matches: 266, Mismatches: 73, Indels: 63
0.66 0.18 0.16
Matches are distributed among these distances:
16 6 0.02
17 15 0.06
18 10 0.04
19 13 0.05
20 31 0.12
21 78 0.29
22 59 0.22
23 27 0.10
24 8 0.03
25 7 0.03
26 12 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (21 bp):
AATATTTAATATTATTAAATT
Found at i:21055039 original size:15 final size:15
Alignment explanation
Indices: 21054964--21055103 Score: 51
Period size: 15 Copynumber: 9.3 Consensus size: 15
21054954 AAGAAATAAA
*
21054964 ATTAAAAT-TTTATAA
1 ATTAAAATATTTA-AT
* *
21054979 ATTGAATTATTTAAT
1 ATTAAAATATTTAAT
* *
21054994 GTTAAGATATTATTAA-
1 ATTAAAATA-T-TTAAT
*
21055010 ATT-AAA-ATTTCAT
1 ATTAAAATATTTAAT
21055023 ATTAAAATATTTAAT
1 ATTAAAATATTTAAT
** *
21055038 ATT-ATTTAATTGAAT
1 ATTAAAAT-ATTTAAT
**
21055053 ATTTAGCATGA-TTAA-
1 A-TTAAAAT-ATTTAAT
*
21055068 ATTATAATATTTAAT
1 ATTAAAATATTTAAT
21055083 ATTAAAATATAGTTAAT
1 ATTAAAATAT--TTAAT
21055100 ATTA
1 ATTA
21055104 TTAAATTACT
Statistics
Matches: 90, Mismatches: 22, Indels: 24
0.66 0.16 0.18
Matches are distributed among these distances:
12 3 0.03
13 5 0.06
14 15 0.17
15 40 0.44
16 12 0.13
17 15 0.17
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (15 bp):
ATTAAAATATTTAAT
Found at i:21057157 original size:6 final size:6
Alignment explanation
Indices: 21057132--21057200 Score: 59
Period size: 7 Copynumber: 10.7 Consensus size: 6
21057122 AAAAATCAAC
* *
21057132 AAAAT- AAAATA AATAATA AAAATA AAATATA AAACTTA AAATATA AAATGAAA
1 AAAATA AAAATA AA-AATA AAAATA AAA-ATA AAA-ATA AAA-ATA AAA--ATA
21057185 AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAA
21057201 AACCTATGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
5 5 0.09
6 21 0.40
7 22 0.42
8 5 0.09
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:21057200 original size:14 final size:14
Alignment explanation
Indices: 21057122--21057202 Score: 62
Period size: 14 Copynumber: 5.9 Consensus size: 14
21057112 TGCTCATCAA
*
21057122 AAAAATCAACAAAAT
1 AAAAAT-AAAAAAAT
*
21057137 -AAAAT-AAATAAT
1 AAAAATAAAAAAAT
*
21057149 AAAAAT-AAAATAT
1 AAAAATAAAAAAAT
* * *
21057162 AAAACTTAAAATAT
1 AAAAATAAAAAAAT
21057176 -AAAATGAAAAAAAT
1 AAAAAT-AAAAAAAT
21057190 AAAAATAAAAAAA
1 AAAAATAAAAAAA
21057203 CCTATGATCG
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
12 5 0.09
13 19 0.35
14 25 0.46
15 5 0.09
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.19
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:21057201 original size:13 final size:13
Alignment explanation
Indices: 21057122--21057201 Score: 65
Period size: 13 Copynumber: 5.9 Consensus size: 13
21057112 TGCTCATCAA
21057122 AAAAATCAACAAAAT
1 AAAAAT-AA-AAAAT
*
21057137 -AAAATAAATAAT
1 AAAAATAAAAAAT
*
21057149 AAAAATAAAATAT
1 AAAAATAAAAAAT
* *
21057162 AAAACT-TAAAAT
1 AAAAATAAAAAAT
21057174 ATAAAATGAAAAAAAT
1 A-AAAAT--AAAAAAT
21057190 AAAAATAAAAAA
1 AAAAATAAAAAA
21057202 ACCTATGATC
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
12 9 0.17
13 27 0.52
14 5 0.10
15 5 0.10
16 6 0.12
ACGTcount: A:0.76, C:0.04, G:0.01, T:0.19
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:21057971 original size:3 final size:3
Alignment explanation
Indices: 21057963--21058003 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
21057953 AAAAGGAAAG
21057963 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21058004 AAACATAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21058723 original size:17 final size:16
Alignment explanation
Indices: 21058700--21058743 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
21058690 TACATTTTTT
21058700 ATAATTAAAAAAATTA
1 ATAATTAAAAAAATTA
21058716 ATTAATT--AAAAATTA
1 A-TAATTAAAAAAATTA
*
21058731 AAAATTAAAAAAA
1 ATAATTAAAAAAA
21058744 AAAGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 6 0.25
17 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAATTAAAAAAATTA
Found at i:21058731 original size:7 final size:7
Alignment explanation
Indices: 21058708--21058741 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
21058698 TTATAATTAA
21058708 AAAAATT
1 AAAAATT
*
21058715 AATTAATT
1 AA-AAATT
21058723 AAAAATT
1 AAAAATT
21058730 AAAAATT
1 AAAAATT
21058737 AAAAA
1 AAAAA
21058742 AAAAAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:21060277 original size:15 final size:16
Alignment explanation
Indices: 21060233--21060321 Score: 98
Period size: 15 Copynumber: 5.8 Consensus size: 16
21060223 CTAGGTTTCT
*
21060233 AAAACCCCTAAAATCC
1 AAAATCCCTAAAATCC
21060249 AAAATCCCCTAAAATCC
1 AAAAT-CCCTAAAATCC
*
21060266 AAAAT-TCTAAAATCC
1 AAAATCCCTAAAATCC
*
21060281 AAAATCCCTTAAATCC
1 AAAATCCCTAAAATCC
21060297 -AAA-CCTCTAAAAT-C
1 AAAATCC-CTAAAATCC
21060311 AAAA-CCCTAAA
1 AAAATCCCTAAA
21060322 CCTTCCATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
14 8 0.12
15 28 0.44
16 12 0.19
17 16 0.25
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATCCCTAAAATCC
Found at i:21060298 original size:31 final size:31
Alignment explanation
Indices: 21060240--21060381 Score: 115
Period size: 29 Copynumber: 4.7 Consensus size: 31
21060230 TCTAAAACCC
*
21060240 CTAAAATCCAAAATCCCCTAAAATCCAAAATT
1 CTAAAATCCAAAAT-CCCTAAAATCCAAAACT
* *
21060272 CTAAAATCCAAAATCCCTTAAATCCAAACCT
1 CTAAAATCCAAAATCCCTAAAATCCAAAACT
* * *
21060303 CTAAAAT-CAAAA-CCCTAAACCTTCCATACCT
1 CTAAAATCCAAAATCCCTAAA--ATCCAAAACT
21060334 -TAAAA-CC-AAA-CCCTAAAATCCTTAAAACT
1 CTAAAATCCAAAATCCCTAAAATCC--AAAACT
21060363 -T-AAAT-CAAAA-CCCTAAAAT
1 CTAAAATCCAAAATCCCTAAAAT
21060382 TTGAATCTTC
Statistics
Matches: 94, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
27 3 0.03
28 4 0.04
29 33 0.35
30 11 0.12
31 29 0.31
32 14 0.15
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.22
Consensus pattern (31 bp):
CTAAAATCCAAAATCCCTAAAATCCAAAACT
Found at i:21066808 original size:19 final size:19
Alignment explanation
Indices: 21066786--21066840 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
21066776 GATGGGGCAT
21066786 AAAAAAATAAAAAAAAGTA-
1 AAAAAAATAAAAAAAAG-AG
*
21066805 AAAAAAA-AAAGTAAAAGAG
1 AAAAAAATAAA-AAAAAGAG
*
21066824 AAAAAAATAAACAAAAG
1 AAAAAAATAAAAAAAAG
21066841 GGACATATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 4 0.13
19 24 0.77
20 3 0.10
ACGTcount: A:0.82, C:0.02, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAAAAATAAAAAAAAGAG
Found at i:21066812 original size:13 final size:13
Alignment explanation
Indices: 21066794--21066839 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
21066784 ATAAAAAAAT
21066794 AAAAAAAAGTAAA
1 AAAAAAAAGTAAA
21066807 AAAAAAAAGTAAA
1 AAAAAAAAGTAAA
*
21066820 AGAGAAAAAAATAAA
1 A-A-AAAAAAGTAAA
21066835 CAAAA
1 -AAAA
21066840 GGGACATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 14 0.48
14 3 0.10
15 11 0.38
16 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.09, T:0.07
Consensus pattern (13 bp):
AAAAAAAAGTAAA
Found at i:21068614 original size:41 final size:41
Alignment explanation
Indices: 21068548--21068644 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
21068538 TTAAAGTCTT
* *
21068548 TGTTTAAGAGGAACCGTTCTTAATCAAGATTTCAAAGCCTC
1 TGTTTAAGAGGAACCATTCTCAATCAAGATTTCAAAGCCTC
*
21068589 TGTTTAAGAGGAACCAATT-TCAATCAAGATTTTAAAGCCTC
1 TGTTTAAGAGGAACC-ATTCTCAATCAAGATTTCAAAGCCTC
21068630 TGTTT-AGAGAGAACC
1 TGTTTAAGAG-GAACC
21068645 TTCCTTAGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 4 0.08
41 45 0.88
42 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (41 bp):
TGTTTAAGAGGAACCATTCTCAATCAAGATTTCAAAGCCTC
Found at i:21068837 original size:44 final size:44
Alignment explanation
Indices: 21068774--21068867 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
21068764 TTGAGATTTG
* * *
21068774 TAAGACCTCCGGACATAATCTTTAAAATCTCTGAGTACAACTTT
1 TAAGACCTCCGGACATAATCATTAAAACCTCTGAGCACAACTTT
* * * *
21068818 TAAGACCTTCGGGCATAATCATTAAAGCCTCTGCGCACAACTTT
1 TAAGACCTCCGGACATAATCATTAAAACCTCTGAGCACAACTTT
21068862 TAAGAC
1 TAAGAC
21068868 TTTTAAGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (44 bp):
TAAGACCTCCGGACATAATCATTAAAACCTCTGAGCACAACTTT
Found at i:21069076 original size:22 final size:22
Alignment explanation
Indices: 21069034--21069077 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21069024 GTCGATTCTG
*
21069034 TAAGACCTCCGGACATGATTTC
1 TAAGACCTCCGGACATAATTTC
21069056 TAAGACCTCCAGG-CATAATTTC
1 TAAGACCTCC-GGACATAATTTC
21069078 GATTCGCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTC
Found at i:21069139 original size:110 final size:110
Alignment explanation
Indices: 21068940--21069483 Score: 592
Period size: 110 Copynumber: 4.9 Consensus size: 110
21068930 AAGATTTTGA
* * * * ** * *
21068940 GATTTGTAAGACCTCTGGGCATAATTTTGATTCGTGATGTTATCCTGATTAATTCTTTATCTTTC
1 GATTTCTAAGACCTCCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCTTTATTTTTT
*
21069005 GACTTATGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGACAT
66 GACTTGTGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGACAT
* *
21069050 GATTTCTAAGACCTCCAGGCATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATTTTTT
1 GATTTCTAAGACCTCCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCTTTATTTTTT
* * * * * * *
21069115 GACTTGTGATGTTATCCCAATCGATTTTATAAGACCTTCGGGCAT
66 GACTTGTGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGACAT
* ** * *
21069160 GATTTCTATGACCTCCGGGCATAATTTCAATTTGC-AGTGTTATCCCAATCGATTCTTTA-TTTT
1 GATTTCTAAGACCTCCGGGCATAATTTTGATTCGCGA-TGTTATCCCGATCGATTCTTTATTTTT
* * * *
21069223 TAACTTGTGGTGTTATCTCAGTTGATTCTATAAGACCTCCGGACAT
65 TGACTTGTGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGACAT
* * * * * *
21069269 GATTTTTAAGACCTCCGAGCATAATTTTGATTCGTGGTATTATCCTGATCGATTCTTTATTTTTT
1 GATTTCTAAGACCTCCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCTTTATTTTTT
* * * * *
21069334 GACTTGCGGTGTTATCACAGTTGATTCTGTAAGATCTCTGGGCAT
66 GACTTGTGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGACAT
* * ** * * *
21069379 GATTTATAAGACTTCTTGACGTAATTTTGATTCGCGGTGTTATCCCGATCGATT-TTTCATTTTT
1 GATTTCTAAGACCTCCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCTTT-ATTTTT
* * *
21069443 TGACTTACGAGGT-TTGTCCCAGTCGATTCTGTAAGACCTCC
65 TGACTT--GTGGTGTTATCACAGTCGATTCTGTAAGACCTCC
21069484 AAGCATGATT
Statistics
Matches: 363, Mismatches: 65, Indels: 11
0.83 0.15 0.03
Matches are distributed among these distances:
109 93 0.26
110 243 0.67
111 23 0.06
112 4 0.01
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (110 bp):
GATTTCTAAGACCTCCGGGCATAATTTTGATTCGCGATGTTATCCCGATCGATTCTTTATTTTTT
GACTTGTGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGACAT
Found at i:21069295 original size:22 final size:22
Alignment explanation
Indices: 21069253--21069296 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21069243 GTTGATTCTA
*
21069253 TAAGACCTCCGGACATGATTTT
1 TAAGACCTCCGGACATAATTTT
21069275 TAAGACCTCC-GAGCATAATTTT
1 TAAGACCTCCGGA-CATAATTTT
21069297 GATTCGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTT
Found at i:21069421 original size:219 final size:219
Alignment explanation
Indices: 21068940--21069518 Score: 619
Period size: 219 Copynumber: 2.6 Consensus size: 219
21068930 AAGATTTTGA
* * * * * * ** *
21068940 GATTTGTAAGACCTCTGGGCATAATTTTGATTCGTGATGTTATCCTGATTAATTCTTTATCTTTC
1 GATTTATAAGACCTCCGGACATAATTTTGATTCGCGGTGTTATCCCGATCGATTCTTTAT-TTTT
*
21069005 GACTTATGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGACATGATTTCTAAGACCTCC-AGG
65 GACTTGTGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGACATGATTTCTAAGACCTCCGA-G
* * *
21069069 CATAATTTCGATTCGCGATGTTATCCCGATCGATTCTTTATTTTTTGACTTGTGATGTTATCCCA
129 CATAATTTCGATTCGCGATATTATCCCGATCGATTCTTTATTTTTTGACTTGCGATGTTATCACA
*
21069134 ATCGATTTTATAAGACCTTCGGGCAT
194 ATCGATTCTATAAGACCTTCGGGCAT
* * * ** * * * *
21069160 GATTTCTATGACCTCCGGGCATAATTTCAATTTGCAGTGTTATCCCAATCGATTCTTTATTTTTA
1 GATTTATAAGACCTCCGGACATAATTTTGATTCGCGGTGTTATCCCGATCGATTCTTTATTTTTG
* * * *
21069225 ACTTGTGGTGTTATCTCAGTTGATTCTATAAGACCTCCGGACATGATTTTTAAGACCTCCGAGCA
66 ACTTGTGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGACATGATTTCTAAGACCTCCGAGCA
* * * * * *
21069290 TAATTTTGATTCGTGGTATTATCCTGATCGATTCTTTATTTTTTGACTTGCGGTGTTATCACAGT
131 TAATTTCGATTCGCGATATTATCCCGATCGATTCTTTATTTTTTGACTTGCGATGTTATCACAAT
* * *
21069355 TGATTCTGTAAGATC-TCTGGGCAT
196 CGATTCTATAAGACCTTC-GGGCAT
* ** *
21069379 GATTTATAAGACTTCTTGACGTAATTTTGATTCGCGGTGTTATCCCGATCGATT-TTTCATTTTT
1 GATTTATAAGACCTCCGGACATAATTTTGATTCGCGGTGTTATCCCGATCGATTCTTT-A-TTTT
* * * * * *
21069443 TGACTTACGAGGT-TTGTCCCAGTCGATTCTGTAAGACCTCC-AAGCATGATTCTGTAAGACCTT
64 TGACTT--GTGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGA-CATGATT-TCTAAGACCTC
*
21069506 CGAGCATGATTTC
125 CGAGCATAATTTC
21069519 TAAGACCTCC
Statistics
Matches: 295, Mismatches: 56, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
218 5 0.02
219 177 0.60
220 58 0.20
221 31 0.11
222 24 0.08
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (219 bp):
GATTTATAAGACCTCCGGACATAATTTTGATTCGCGGTGTTATCCCGATCGATTCTTTATTTTTG
ACTTGTGGTGTTATCACAGTCGATTCTGTAAGACCTCCGGACATGATTTCTAAGACCTCCGAGCA
TAATTTCGATTCGCGATATTATCCCGATCGATTCTTTATTTTTTGACTTGCGATGTTATCACAAT
CGATTCTATAAGACCTTCGGGCAT
Found at i:21069497 original size:23 final size:23
Alignment explanation
Indices: 21069467--21069528 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
21069457 TGTCCCAGTC
21069467 GATTCTGTAAGACCTCCAAGCAT
1 GATTCTGTAAGACCTCCAAGCAT
* *
21069490 GATTCTGTAAGACCTTCGAGCAT
1 GATTCTGTAAGACCTCCAAGCAT
*
21069513 GATT-TCTAAGACCTCC
1 GATTCTGTAAGACCTCC
21069529 GGGCATAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 10 0.29
23 25 0.71
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCAAGCAT
Found at i:21069633 original size:22 final size:23
Alignment explanation
Indices: 21069599--21069647 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
21069589 TATCCTGATC
21069599 GATTCTGTAAGACCTCCAGG-CAT
1 GATTCTGTAAGACCTCC-GGACAT
21069622 GATTCT-TAAGACCTCCGGACAT
1 GATTCTGTAAGACCTCCGGACAT
21069644 GATT
1 GATT
21069648 TCTAAGATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCGGACAT
Found at i:21069664 original size:131 final size:132
Alignment explanation
Indices: 21069355--21069713 Score: 404
Period size: 131 Copynumber: 2.7 Consensus size: 132
21069345 TTATCACAGT
* * * * * * * * *
21069355 TGATTCTGTAAGATCTCTGGGCATGATTTATAAGACTTCTTGACGTAATTTTGATTCGCGGTGTT
1 TGATTCTGTAAGACCTCCGGACATGATTTCTAAGAC-TCTGGGCATAAATTTGATTCGCGATGTT
* *
21069420 ATCCCGATCGATT-TTTCATTTTTTGACTTACGAGGTTTGTCCCAGTCGATTCTGTAAGACCTCC
65 ATCCCGATCGATTCATT-A-TTTTTGACTTACGAGGTTTATCCCAGTCGATTCTGTAAGACCTCC
21069484 AAGCA
128 AAGCA
* * * *
21069489 TGATTCTGTAAGACCTTC-GAGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATAT
1 TGATTCTGTAAGACCTCCGGA-CATGATTTCTAAGA-CTCTGGGCATAAATTTGATTCGCGATGT
* * *
21069553 TATCCCGATCGATTCATTATTTTTGATTTACGATG-TTAT-CCTGATCGATTCTGTAAGACCTCC
64 TATCCCGATCGATTCATTATTTTTGACTTACGAGGTTTATCCCAG-TCGATTCTGTAAGACCTCC
*
21069616 AGGCA
128 AAGCA
* *
21069621 TGATTCT-TAAGACCTCCGGACATGATTTCTAAGATCTCTGGGCATAAATTCGATTCGTGATGTT
1 TGATTCTGTAAGACCTCCGGACATGATTTCTAAGA-CTCTGGGCATAAATTTGATTCGCGATGTT
* *
21069685 ATCTCAATCGATTCATTATTTTTTGACTT
65 ATCCCGATCGATTCATTA-TTTTTGACTT
21069714 GCGATTCAAT
Statistics
Matches: 190, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
131 66 0.35
132 44 0.23
133 15 0.08
134 62 0.33
135 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (132 bp):
TGATTCTGTAAGACCTCCGGACATGATTTCTAAGACTCTGGGCATAAATTTGATTCGCGATGTTA
TCCCGATCGATTCATTATTTTTGACTTACGAGGTTTATCCCAGTCGATTCTGTAAGACCTCCAAG
CA
Found at i:21071501 original size:15 final size:16
Alignment explanation
Indices: 21071457--21071545 Score: 98
Period size: 15 Copynumber: 5.8 Consensus size: 16
21071447 CTAGGTTTTT
*
21071457 AAAACCCCTAAAATCC
1 AAAATCCCTAAAATCC
21071473 AAAATCCCCTAAAATCC
1 AAAAT-CCCTAAAATCC
*
21071490 AAAAT-TCTAAAATCC
1 AAAATCCCTAAAATCC
*
21071505 AAAATCCCTTAAATCC
1 AAAATCCCTAAAATCC
21071521 -AAA-CCTCTAAAAT-C
1 AAAATCC-CTAAAATCC
21071535 AAAA-CCCTAAA
1 AAAATCCCTAAA
21071546 CCTTTCATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
14 8 0.12
15 28 0.44
16 12 0.19
17 16 0.25
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATCCCTAAAATCC
Done.