Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 68 of 161
Found at i:21115617 original size:18 final size:19
Alignment explanation
Indices: 21115594--21115630 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21115584 GCAGGTGCAT
*
21115594 CTGGTGGT-GTTGGAGGGG
1 CTGGTGGTCGTGGGAGGGG
21115612 CTGGTGGTCGTGGGAGGGG
1 CTGGTGGTCGTGGGAGGGG
21115631 TCGTGGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.05, C:0.08, G:0.62, T:0.24
Consensus pattern (19 bp):
CTGGTGGTCGTGGGAGGGG
Found at i:21117826 original size:185 final size:185
Alignment explanation
Indices: 21117514--21117887 Score: 739
Period size: 185 Copynumber: 2.0 Consensus size: 185
21117504 CAGAGCATTG
21117514 GCTTCATTTCCTCTTCTATGTTCTTTTCTTTAATTGTATTCACATCCCATTTTTTTGACTCATTT
1 GCTTCATTTCCTCTTCTATGTTCTTTTCTTTAATTGTATTCACATCCCATTTTTTTGACTCATTT
21117579 AATATGCTTTTACTAGATGGAGTGAAATGCTAGTTTGTTTTTGTCATTTTACTACAGTATTACTG
66 AATATGCTTTTACTAGATGGAGTGAAATGCTAGTTTGTTTTTGTCATTTTACTACAGTATTACTG
21117644 AGCTTTCACTCCTACCCTTCGATTTTTACTGCTATGTGCAAAGCATCTTACGTTT
131 AGCTTTCACTCCTACCCTTCGATTTTTACTGCTATGTGCAAAGCATCTTACGTTT
21117699 GCTTCATTTCCTCTTCTATGTTCTTTTCTTTAATTGTATTCACATCCCATTTTTTTGACTCATTT
1 GCTTCATTTCCTCTTCTATGTTCTTTTCTTTAATTGTATTCACATCCCATTTTTTTGACTCATTT
21117764 AATATGCTTTTACTAGATGGAGTGAAATGCTAGTTTGTTTTTGTCATTTTACTACAGTATTACTG
66 AATATGCTTTTACTAGATGGAGTGAAATGCTAGTTTGTTTTTGTCATTTTACTACAGTATTACTG
*
21117829 AGCTTTCATTCCTACCCTTCGATTTTTACTGCTATGTGCAAAGCATCTTACGTTT
131 AGCTTTCACTCCTACCCTTCGATTTTTACTGCTATGTGCAAAGCATCTTACGTTT
21117884 GCTT
1 GCTT
21117888 TATACCTGTG
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 188 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (185 bp):
GCTTCATTTCCTCTTCTATGTTCTTTTCTTTAATTGTATTCACATCCCATTTTTTTGACTCATTT
AATATGCTTTTACTAGATGGAGTGAAATGCTAGTTTGTTTTTGTCATTTTACTACAGTATTACTG
AGCTTTCACTCCTACCCTTCGATTTTTACTGCTATGTGCAAAGCATCTTACGTTT
Found at i:21123442 original size:21 final size:20
Alignment explanation
Indices: 21123418--21123465 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
21123408 TTTATAATCG
21123418 AAATTATT-AATTTAAGTAATA
1 AAATTATTCAATTTAA-T-ATA
*
21123439 AAATGTTTTCAATTTAATATA
1 AAAT-TATTCAATTTAATATA
21123460 AAATTA
1 AAATTA
21123466 AATATAGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 1 0.04
21 11 0.48
22 4 0.17
23 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
AAATTATTCAATTTAATATA
Found at i:21123841 original size:51 final size:51
Alignment explanation
Indices: 21123781--21123885 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
21123771 TACTTCCAAC
*
21123781 TTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCTCTCAA
1 TTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCCCTCAA
*
21123832 TTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTCCCCTCAA
1 TTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCCCTCAA
21123883 TTT
1 TTT
21123886 TATTTTTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (51 bp):
TTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCCCTCAA
Found at i:21123921 original size:29 final size:29
Alignment explanation
Indices: 21123883--21123950 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
21123873 TTCCCCTCAA
**
21123883 TTTTAT-TTTTTAAAATAATTTTATATTT
1 TTTTATATTTTTAAAATAATTAAATATTT
*
21123911 TTTTATATTTTTAAAATAATTAAATTTTT
1 TTTTATATTTTTAAAATAATTAAATATTT
21123940 TTTTATATTTT
1 TTTTATATTTT
21123951 CATCAATGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTATATTTTTAAAATAATTAAATATTT
Found at i:21125044 original size:7 final size:7
Alignment explanation
Indices: 21125032--21125056 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21125022 AGTCGATTGA
21125032 TATTTAG
1 TATTTAG
21125039 TATTTAG
1 TATTTAG
21125046 TATTTAG
1 TATTTAG
21125053 TATT
1 TATT
21125057 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:21125734 original size:18 final size:18
Alignment explanation
Indices: 21125708--21125742 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21125698 AGGTGTGTTT
* *
21125708 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
21125726 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
21125743 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:21126253 original size:68 final size:70
Alignment explanation
Indices: 21126144--21126325 Score: 296
Period size: 68 Copynumber: 2.6 Consensus size: 70
21126134 TATTTAAATT
*
21126144 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATTTAATACGCATAG-A-TTTTTCGAGTTAT
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACGCATAGAATTTTTTCGAGTTAT
21126207 TTTGA
66 TTTGA
*
21126212 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACGCATAG-AATTTTTTCGAGTTA
21126277 TTTTGA
65 TTTTGA
* *
21126283 TATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAATA
1 TATTATTTGATGTAATAAAATAGAAGTT-TATTTGATATAATA
21126326 AAAACCATAA
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
68 47 0.44
70 1 0.01
71 45 0.42
72 13 0.12
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (70 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACGCATAGAATTTTTTCGAGTTAT
TTTGA
Found at i:21126375 original size:29 final size:29
Alignment explanation
Indices: 21126328--21126479 Score: 218
Period size: 30 Copynumber: 5.1 Consensus size: 29
21126318 ATGTAATAAA
21126328 AACCATAATTTAATTAAAAACCCTAACCCT
1 AACC-TAATTTAATTAAAAACCCTAACCCT
*
21126358 AACCTAATTTAATTAAAAACCC-ACTGCCCT
1 AACCTAATTTAATTAAAAACCCTA--ACCCT
*
21126388 AACCTAATTTAATTAAAAACCC-ACTGCCCT
1 AACCTAATTTAATTAAAAACCCTA--ACCCT
21126418 AACCTAATTTAATTAAAAACCCTAACCCT
1 AACCTAATTTAATTAAAAACCCTAACCCT
*
21126447 AACCTAATTTAATTAAAAACACTAACCCT
1 AACCTAATTTAATTAAAAACCCTAACCCT
21126476 AACC
1 AACC
21126480 CTAACCCTAA
Statistics
Matches: 116, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
28 1 0.01
29 54 0.47
30 60 0.52
31 1 0.01
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.26
Consensus pattern (29 bp):
AACCTAATTTAATTAAAAACCCTAACCCT
Found at i:21126553 original size:55 final size:55
Alignment explanation
Indices: 21126492--21126617 Score: 252
Period size: 55 Copynumber: 2.3 Consensus size: 55
21126482 AACCCTAACC
21126492 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
21126547 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
21126602 TAATTTTACATAATTT
1 TAATTTTACATAATTT
21126618 TACATAATGT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
Found at i:21126616 original size:10 final size:10
Alignment explanation
Indices: 21126601--21126625 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21126591 TTTGGACTTA
21126601 ATAATTTTAC
1 ATAATTTTAC
21126611 ATAATTTTAC
1 ATAATTTTAC
21126621 ATAAT
1 ATAAT
21126626 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:21127572 original size:124 final size:124
Alignment explanation
Indices: 21127352--21127696 Score: 600
Period size: 124 Copynumber: 2.8 Consensus size: 124
21127342 CAAACTTGCT
21127352 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
1 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
* *
21127417 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTACTTCTTACATGAACA
* *
21127476 ACTGTAGCAAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
1 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
* * *
21127541 GAAGCGATTTTATACTTTTTTCTCAGAAACGTCAAAAAAAATTACTTCTTACATGAACT
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTACTTCTTACATGAACA
* *
21127600 ACTGTAGCAAAATCGCGTCCATGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCTTGGTA
1 ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
*
21127665 GAAGCGATTTTATACTATTTGCTCAAAAACGT
66 GAAGCGATTTTATACTATTTGCTCAGAAACGT
21127697 TAACTCGAAA
Statistics
Matches: 207, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 207 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
ACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTACTTCTTACATGAACA
Found at i:21127933 original size:28 final size:28
Alignment explanation
Indices: 21127873--21127934 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
21127863 GCAATTTCCC
21127873 GAAAAATGGACCATTCCGGTAAATAATT
1 GAAAAATGGACCATTCCGGTAAATAATT
* * * *
21127901 AAAAAATCGGCCCATTTCGGTAAAT-TTT
1 GAAAAAT-GGACCATTCCGGTAAATAATT
21127929 GAAAAA
1 GAAAAA
21127935 AAAATAGCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.26
Consensus pattern (28 bp):
GAAAAATGGACCATTCCGGTAAATAATT
Found at i:21128286 original size:16 final size:18
Alignment explanation
Indices: 21128247--21128280 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21128237 TAAGTTTATA
21128247 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
21128264 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
21128281 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:21137141 original size:60 final size:60
Alignment explanation
Indices: 21137070--21137186 Score: 175
Period size: 60 Copynumber: 1.9 Consensus size: 60
21137060 CATAAAAAAT
*
21137070 AAAAATAAAAATAAAATTGAAAATAGTTGCTAGT-ATTTTTTA-TTTTTTATTTTTTACATC
1 AAAAATAAAAATAAAATAGAAAATAGTTGCTAGTGA-TTTTTACTTTTTT-TTTTTTACATC
* *
21137130 AAAAATTAAAATAAAGTAGAAAATAGTTGCTAGTGATTTTTACTTTTTTTTTTTTAC
1 AAAAATAAAAATAAAATAGAAAATAGTTGCTAGTGATTTTTACTTTTTTTTTTTTAC
21137187 CAACAGATTC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
60 45 0.87
61 7 0.13
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (60 bp):
AAAAATAAAAATAAAATAGAAAATAGTTGCTAGTGATTTTTACTTTTTTTTTTTTACATC
Found at i:21139565 original size:26 final size:26
Alignment explanation
Indices: 21139532--21139623 Score: 93
Period size: 23 Copynumber: 3.6 Consensus size: 26
21139522 TTTCAAAAAT
21139532 AATATTATTTTAATAGATTTAATATTA
1 AATATTATTTTAATA-ATTTAATATTA
*
21139559 AAT-TTATTTTAAT-ATTT-ATCTT-
1 AATATTATTTTAATAATTTAATATTA
* *
21139581 AATAATATTTTATTAATTTAATATTA
1 AATATTATTTTAATAATTTAATATTA
*
21139607 AAGTGATTATCTTAATA
1 AA-T-ATTATTTTAATA
21139624 TTAAGTTTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
22 3 0.06
23 12 0.23
24 8 0.15
25 4 0.08
26 12 0.23
27 4 0.08
28 9 0.17
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (26 bp):
AATATTATTTTAATAATTTAATATTA
Found at i:21142150 original size:17 final size:18
Alignment explanation
Indices: 21142104--21142152 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
21142094 TTACGGTAAC
*
21142104 GAAATTAGAATTAGATTGA
1 GAAATTA-ATTTAGATTGA
21142123 GAAAATT-ATTTA-ATTGA
1 G-AAATTAATTTAGATTGA
21142140 GAAATTAATTTAG
1 GAAATTAATTTAG
21142153 TTAATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.19
17 11 0.42
18 4 0.15
19 1 0.04
20 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (18 bp):
GAAATTAATTTAGATTGA
Found at i:21144638 original size:21 final size:19
Alignment explanation
Indices: 21144600--21144640 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
21144590 GAATACAATA
*
21144600 AAATATTTTTTTACAATTT
1 AAATATTTTTTTAAAATTT
21144619 AAATATTTAATTTTAAAATTT
1 AAATATTT--TTTTAAAATTT
21144640 A
1 A
21144641 TTTTGACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATATTTTTTTAAAATTT
Found at i:21147781 original size:18 final size:18
Alignment explanation
Indices: 21147758--21147800 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
21147748 ACAATTAAAA
21147758 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
21147776 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
21147794 ATGTAAA
1 ATATAAA
21147801 AACAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:21147921 original size:20 final size:20
Alignment explanation
Indices: 21147876--21147921 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
21147866 CATCCAAACA
21147876 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
*
21147896 -CAGAAAAGTAATTCATTTT
1 CCAGAAAAGTAAATCATTTT
21147915 CCAGAAA
1 CCAGAAA
21147922 TCATTTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:21147927 original size:14 final size:14
Alignment explanation
Indices: 21147908--21147942 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21147898 GAAAAGTAAT
21147908 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
*
21147922 TCATTTTTCAGAAA
1 TCATTTTCCAGAAA
*
21147936 ACATTTT
1 TCATTTT
21147943 ACTAGCAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:21150143 original size:2 final size:2
Alignment explanation
Indices: 21150136--21150165 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21150126 GCCAATGCCA
21150136 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21150166 AATCCCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:21151325 original size:48 final size:48
Alignment explanation
Indices: 21151254--21151349 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
21151244 GGACAAAGTT
21151254 TCTTTCCAAGCTTTTCTTCTTACATTCAAGATCCTAATGCATTTTGTG
1 TCTTTCCAAGCTTTTCTTCTTACATTCAAGATCCTAATGCATTTTGTG
21151302 TCTTTCCAAGCTTTTCTTCTTACATTCAAGATCCTAATGCATTTTGTG
1 TCTTTCCAAGCTTTTCTTCTTACATTCAAGATCCTAATGCATTTTGTG
21151350 GTTATCTTCG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (48 bp):
TCTTTCCAAGCTTTTCTTCTTACATTCAAGATCCTAATGCATTTTGTG
Found at i:21154654 original size:13 final size:13
Alignment explanation
Indices: 21154636--21154662 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21154626 TCAATATTTC
21154636 AGCTTCATAACAA
1 AGCTTCATAACAA
21154649 AGCTTCATAACAA
1 AGCTTCATAACAA
21154662 A
1 A
21154663 ACCAAAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (13 bp):
AGCTTCATAACAA
Found at i:21159268 original size:15 final size:15
Alignment explanation
Indices: 21159248--21159276 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21159238 TAAGAGGAGG
21159248 AAATCGATTTTCATC
1 AAATCGATTTTCATC
21159263 AAATCGATTTTCAT
1 AAATCGATTTTCAT
21159277 ATCTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
AAATCGATTTTCATC
Found at i:21163672 original size:22 final size:21
Alignment explanation
Indices: 21163644--21163691 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
21163634 ACATTTTTCA
**
21163644 TATATATACATTGGTTTATTTT
1 TATATATACATTACTTTA-TTT
*
21163666 TATATATGCATTACTTTATTT
1 TATATATACATTACTTTATTT
21163687 TATAT
1 TATAT
21163692 GTATTATTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (21 bp):
TATATATACATTACTTTATTT
Found at i:21164223 original size:41 final size:40
Alignment explanation
Indices: 21164106--21164288 Score: 278
Period size: 40 Copynumber: 4.5 Consensus size: 40
21164096 TATAATAAAT
* *
21164106 ATTTTTTTAATTTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
21164145 ATTTTTCTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTT-TTAATTTTAAAATATTTTTAAAATACTTTTTTTA
* *
21164186 ATTTTTTTAATTTTAAAAAATTTTAAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
21164226 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 A-TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
21164267 ATTTTTTAAAAATTTTAAAATA
1 ATTTTTT--TAATTTTAAAATA
21164289 AAAATGGGCC
Statistics
Matches: 132, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
39 6 0.05
40 63 0.48
41 51 0.39
42 12 0.09
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:21164242 original size:81 final size:80
Alignment explanation
Indices: 21164106--21164273 Score: 282
Period size: 81 Copynumber: 2.1 Consensus size: 80
21164096 TATAATAAAT
* ** *
21164106 ATTTTTTTAATTTTAAAATATTTTTTACATACTTTTTTAATTTTTCTTAATTTTAAAATATTTTT
1 ATTTTTTTAATTTTAAAAAATTTTAAAAATACTTTTTTAATTTTTCTTAATTTTAAAATATTTTT
21164171 AAAATACTTTTTTTA
66 AAAATACTTTTTTTA
*
21164186 ATTTTTTTAATTTTAAAAAATTTTAAAAATACTTTTTTTAATTTTTTTTAATTTTAAAATATTTT
1 ATTTTTTTAATTTTAAAAAATTTTAAAAATAC-TTTTTTAATTTTTCTTAATTTTAAAATATTTT
21164251 TAAAATACTTTTTTTA
65 TAAAATACTTTTTTTA
21164267 ATTTTTT
1 ATTTTTT
21164274 AAAAATTTTA
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 28 0.34
81 54 0.66
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (80 bp):
ATTTTTTTAATTTTAAAAAATTTTAAAAATACTTTTTTAATTTTTCTTAATTTTAAAATATTTTT
AAAATACTTTTTTTA
Found at i:21164541 original size:28 final size:27
Alignment explanation
Indices: 21164500--21164594 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 27
21164490 TATATTAGAT
*
21164500 ATTTT-ATTTCTTTCAAATATTTTAAC
1 ATTTTAATTTATTTCAAATATTTTAAC
* *
21164526 ATCTTTAATTTATTTCAACTTATTTCAAC
1 AT-TTTAATTTATTTCAA-ATATTTTAAC
*
21164555 ATTGTTAATTCA-TTCAAATTTATTTTAAC
1 ATT-TTAATTTATTTCAAA--TATTTTAAC
*
21164584 TTTTTAATTTA
1 ATTTTAATTTA
21164595 CATATATTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
26 2 0.04
27 3 0.05
28 23 0.42
29 27 0.49
ACGTcount: A:0.32, C:0.12, G:0.01, T:0.56
Consensus pattern (27 bp):
ATTTTAATTTATTTCAAATATTTTAAC
Found at i:21169305 original size:13 final size:14
Alignment explanation
Indices: 21169281--21169321 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
21169271 ATCATTTAAA
*
21169281 AAAACAAAAAAATC
1 AAAATAAAAAAATC
21169295 AAAATAAAAAAATC
1 AAAATAAAAAAATC
21169309 AAAATAAAAAAAT
1 AAAATAAAAAAAT
21169322 GAGAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAATAAAAAAATC
Found at i:21169320 original size:22 final size:21
Alignment explanation
Indices: 21169277--21169321 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
21169267 TTAGATCATT
21169277 TAAAAAAACAAAAAAATCAAAA
1 TAAAAAAACAAAAAAA-CAAAA
21169299 TAAAAAAATCAAAATAAA-AAAA
1 TAAAAAAA-CAAAA-AAACAAAA
21169321 T
1 T
21169322 GAGAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 13 0.62
23 5 0.24
24 3 0.14
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (21 bp):
TAAAAAAACAAAAAAACAAAA
Found at i:21169345 original size:61 final size:59
Alignment explanation
Indices: 21169280--21169396 Score: 148
Period size: 60 Copynumber: 1.9 Consensus size: 59
21169270 GATCATTTAA
*
21169280 AAAAACAAAAAAATCAAAAT-AAAAAAATCAAAATAAAAAAATGAGAGAAAAAG-AAAGAAG
1 AAAAA-AAAAAAATCAAAATAAAAAAAATCAAAAT-AAAAAATGACA-AAAAAGTAAAGAAG
* * *
21169340 AAAAAAGAAAAATCTAGATGAAAAAAAATCAAAATAAAAAATGACAAAAAAGTAAAG
1 AAAAAAAAAAAATCAAAAT-AAAAAAAATCAAAATAAAAAATGACAAAAAAGTAAAG
21169397 GAGATGCCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
59 17 0.34
60 19 0.38
61 14 0.28
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.10
Consensus pattern (59 bp):
AAAAAAAAAAAATCAAAATAAAAAAAATCAAAATAAAAAATGACAAAAAAGTAAAGAAG
Found at i:21169704 original size:24 final size:24
Alignment explanation
Indices: 21169672--21169720 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
21169662 AGGTCTGTGA
21169672 TCAATTCAAAATCAGATACCATAG
1 TCAATTCAAAATCAGATACCATAG
21169696 TCAATTCAAAATCAGATACCATAG
1 TCAATTCAAAATCAGATACCATAG
21169720 T
1 T
21169721 TCATCACTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (24 bp):
TCAATTCAAAATCAGATACCATAG
Found at i:21172839 original size:27 final size:27
Alignment explanation
Indices: 21172809--21172863 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
21172799 TGTTTTAGTA
21172809 AGTTTAATTAAATTCAATAAAATGTGC
1 AGTTTAATTAAATTCAATAAAATGTGC
21172836 AGTTTAATTAAATTCAATAAAATGTGC
1 AGTTTAATTAAATTCAATAAAATGTGC
21172863 A
1 A
21172864 AATTGAGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (27 bp):
AGTTTAATTAAATTCAATAAAATGTGC
Found at i:21179114 original size:5 final size:5
Alignment explanation
Indices: 21179104--21179135 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
21179094 GGCTTAAGTG
21179104 ATCCA ATCCA ATCCA ATCCA ATCCA ATCCA AT
1 ATCCA ATCCA ATCCA ATCCA ATCCA ATCCA AT
21179136 GTCCGTGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.22
Consensus pattern (5 bp):
ATCCA
Found at i:21182638 original size:35 final size:35
Alignment explanation
Indices: 21182595--21182665 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
21182585 AGAATAGAAC
21182595 AAAAAATATCTACAAAA-GATAATTGGAAGAGCTAA
1 AAAAAATATCTA-AAAAGGATAATTGGAAGAGCTAA
*
21182630 AAAAAATATCTAAAAAGGATAATTGGCAGAGCTAA
1 AAAAAATATCTAAAAAGGATAATTGGAAGAGCTAA
21182665 A
1 A
21182666 TCTGATGTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.20
Consensus pattern (35 bp):
AAAAAATATCTAAAAAGGATAATTGGAAGAGCTAA
Found at i:21183735 original size:35 final size:35
Alignment explanation
Indices: 21183692--21183762 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
21183682 AGAATAGAAC
21183692 AAAAAATATCTACAAAA-GATAATTGGAAGAGCTAA
1 AAAAAATATCTA-AAAAGGATAATTGGAAGAGCTAA
*
21183727 AAAAAATATCTAAAAAGGATAATTGGCAGAGCTAA
1 AAAAAATATCTAAAAAGGATAATTGGAAGAGCTAA
21183762 A
1 A
21183763 TCTGATGTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.20
Consensus pattern (35 bp):
AAAAAATATCTAAAAAGGATAATTGGAAGAGCTAA
Found at i:21198295 original size:25 final size:26
Alignment explanation
Indices: 21198247--21198297 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
21198237 TATGAATAAT
*
21198247 TACAGGGTATGAAAATGCAAATGTGA
1 TACAGGATATGAAAATGCAAATGTGA
*
21198273 TACAGGATATG-ATATGCAAATGTGA
1 TACAGGATATGAAAATGCAAATGTGA
21198298 ATGATACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.25
Consensus pattern (26 bp):
TACAGGATATGAAAATGCAAATGTGA
Found at i:21204777 original size:14 final size:15
Alignment explanation
Indices: 21204760--21204798 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
21204750 AATATTTCCC
21204760 GGAAAATGATTT-CT
1 GGAAAATGATTTACT
21204774 GGAAAATGATTTACT
1 GGAAAATGATTTACT
21204789 -GAAAAT-ATTT
1 GGAAAATGATTT
21204799 TCTAGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.17
14 18 0.75
15 2 0.08
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (15 bp):
GGAAAATGATTTACT
Found at i:21206209 original size:32 final size:32
Alignment explanation
Indices: 21206163--21206223 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
21206153 TGTCAATCAT
21206163 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
21206195 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
21206224 CAATATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:21206230 original size:27 final size:30
Alignment explanation
Indices: 21206163--21206236 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
21206153 TGTCAATCAT
*
21206163 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
21206195 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
21206223 -TCAATATCTAACAA
1 TTCAATATCTAACAA
21206237 ATTCAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 14 0.34
28 2 0.05
29 2 0.05
32 23 0.56
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:21206247 original size:27 final size:27
Alignment explanation
Indices: 21206164--21206250 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 27
21206154 GTCAATCATT
* *
21206164 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
*
21206195 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
21206223 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
21206250 T
1 T
21206251 AATTTCAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.04
27 23 0.45
28 2 0.04
29 2 0.04
32 22 0.43
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:21220436 original size:21 final size:22
Alignment explanation
Indices: 21220398--21220443 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
21220388 ATTATGTGTA
* *
21220398 TTAATTTATAATATAATTTATT
1 TTAATTTATAATACAATTTAAT
*
21220420 TTAATTT-TAATGCAATTTAAT
1 TTAATTTATAATACAATTTAAT
21220441 TTA
1 TTA
21220444 TGTTAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTAATTTATAATACAATTTAAT
Found at i:21227141 original size:15 final size:17
Alignment explanation
Indices: 21227113--21227158 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
21227103 TTAGGATTAG
* *
21227113 TTTAAATTTGATAA-TA
1 TTTATATTTAATAAGTA
21227129 TTT-TATTTAATAAGTA
1 TTTATATTTAATAAGTA
*
21227145 TTTATTTTTAATAA
1 TTTATATTTAATAA
21227159 ATTAATAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTATATTTAATAAGTA
Found at i:21237635 original size:17 final size:17
Alignment explanation
Indices: 21237615--21237647 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21237605 TATTTTTAGG
21237615 TTTTTAGAATTTATTTA
1 TTTTTAGAATTTATTTA
21237632 TTTTTAGAATTTATTT
1 TTTTTAGAATTTATTT
21237648 TTAGGTTTGT
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:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTTAGAATTTATTTA
Found at i:21237645 original size:13 final size:13
Alignment explanation
Indices: 21237627--21237651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21237617 TTTAGAATTT
21237627 ATTTATTTTTAGA
1 ATTTATTTTTAGA
21237640 ATTTATTTTTAG
1 ATTTATTTTTAG
21237652 GTTTGTGTGA
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
ATTTATTTTTAGA
Found at i:21237989 original size:15 final size:16
Alignment explanation
Indices: 21237957--21237990 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21237947 ATTTCATCTC
*
21237957 ATTTGCATTTAGGTTA
1 ATTTGCATCTAGGTTA
21237973 ATTTGCATCTA-GTTA
1 ATTTGCATCTAGGTTA
21237988 ATT
1 ATT
21237991 AATTATTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (16 bp):
ATTTGCATCTAGGTTA
Found at i:21242260 original size:13 final size:14
Alignment explanation
Indices: 21242242--21242271 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
21242232 TGATTGTTTT
21242242 TAATCTAATTT-AC
1 TAATCTAATTTAAC
21242255 TAATCTAATTTAAC
1 TAATCTAATTTAAC
21242269 TAA
1 TAA
21242272 GAATGCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATCTAATTTAAC
Found at i:21244970 original size:18 final size:15
Alignment explanation
Indices: 21244947--21244994 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 15
21244937 TAAGTCTAAG
21244947 AAAATAACAATAAACAT
1 AAAATAA-AATAAA-AT
21244964 AAAAATAAAAATAAAAT
1 -AAAAT-AAAATAAAAT
21244981 AAAATAAAATAAAA
1 AAAATAAAATAAAA
21244995 CAAATAGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.31
16 5 0.17
17 2 0.07
18 11 0.38
19 2 0.07
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:21244979 original size:5 final size:5
Alignment explanation
Indices: 21244947--21244994 Score: 60
Period size: 5 Copynumber: 8.8 Consensus size: 5
21244937 TAAGTCTAAG
21244947 AAAAT AACAAT AAACAT AAAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AA-AAT AAA-AT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
21244995 CAAATAGACT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 22 0.55
6 15 0.38
7 3 0.08
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:21246758 original size:10 final size:10
Alignment explanation
Indices: 21246743--21246789 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
21246733 GACTAATAAC
21246743 AATAATAAAT
1 AATAATAAAT
21246753 AATAATAAAT
1 AATAATAAAT
*
21246763 AA-AGAAAAAT
1 AATA-ATAAAT
*
21246773 AAT-ATAACT
1 AATAATAAAT
21246782 AATAATAA
1 AATAATAA
21246790 TAGACAGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (10 bp):
AATAATAAAT
Found at i:21251603 original size:30 final size:30
Alignment explanation
Indices: 21251559--21251616 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21251549 CACGGGTTGG
* *
21251559 CACATGGGCATGTGGCCAACTCGTGTGGCT
1 CACACGGGCATGTGGCCAACCCGTGTGGCT
* *
21251589 CACACGGGCTTGTGGCCAGCCCGTGTGG
1 CACACGGGCATGTGGCCAACCCGTGTGG
21251617 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (30 bp):
CACACGGGCATGTGGCCAACCCGTGTGGCT
Found at i:21252841 original size:18 final size:18
Alignment explanation
Indices: 21252818--21252854 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21252808 GGTGAGTAAA
21252818 ATTCGGGGGAGAATTCAG
1 ATTCGGGGGAGAATTCAG
*
21252836 ATTCGGTGGAGAATTCAG
1 ATTCGGGGGAGAATTCAG
21252854 A
1 A
21252855 AAGATGTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.11, G:0.35, T:0.24
Consensus pattern (18 bp):
ATTCGGGGGAGAATTCAG
Found at i:21263615 original size:21 final size:20
Alignment explanation
Indices: 21263569--21263618 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
21263559 AACCCCAAGC
*
21263569 CCCAAACTCATTAACCATGA
1 CCCAAACCCATTAACCATGA
* *
21263589 CTCCAAACCCTTTAACCTTGAA
1 C-CCAAACCCATTAACCATG-A
21263611 CCCAAACC
1 CCCAAACC
21263619 TTGAACCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.88
22 2 0.08
ACGTcount: A:0.36, C:0.40, G:0.04, T:0.20
Consensus pattern (20 bp):
CCCAAACCCATTAACCATGA
Found at i:21263620 original size:13 final size:14
Alignment explanation
Indices: 21263602--21263633 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
21263592 CAAACCCTTT
21263602 AACCTTGAACCC-A
1 AACCTTGAACCCTA
21263615 AACCTTGAACCCTA
1 AACCTTGAACCCTA
21263629 AACCT
1 AACCT
21263634 AAAACCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.38, C:0.38, G:0.06, T:0.19
Consensus pattern (14 bp):
AACCTTGAACCCTA
Found at i:21265938 original size:10 final size:10
Alignment explanation
Indices: 21265905--21265980 Score: 88
Period size: 10 Copynumber: 7.7 Consensus size: 10
21265895 ATGTTTTACA
21265905 TATATTAT-T
1 TATATTATAT
21265914 T-TATTATAT
1 TATATTATAT
*
21265923 AATATAATATAT
1 --TATATTATAT
21265935 TATATTA-AT
1 TATATTATAT
21265944 TATATTATAT
1 TATATTATAT
21265954 TATATTATAT
1 TATATTATAT
21265964 TATATTAT-T
1 TATATTATAT
21265973 ATATATTA
1 -TATATTA
21265981 AATAAGTAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.10
9 12 0.20
10 33 0.56
11 1 0.02
12 7 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATATTATAT
Found at i:21265938 original size:15 final size:15
Alignment explanation
Indices: 21265920--21265984 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
21265910 TATTTTATTA
21265920 TATAATATAATATAT
1 TATAATATAATATAT
21265935 TAT-AT-TAATTATAT
1 TATAATATAA-TATAT
* *
21265949 TATATTATATTATAT
1 TATAATATAATATAT
* *
21265964 TATATTATTATATAT
1 TATAATATAATATAT
21265979 TA-AATA
1 TATAATA
21265985 AGTAAATAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
13 3 0.07
14 13 0.31
15 24 0.57
16 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATAATATAATATAT
Found at i:21265952 original size:29 final size:28
Alignment explanation
Indices: 21265905--21265976 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
21265895 ATGTTTTACA
*
21265905 TATATTATTTTATTATATAATATAATATAT
1 TATATTATTATA-T-TATAATATAATATAT
* *
21265935 TATATTAATTATATTATATTATATTATAT
1 TATATT-ATTATATTATAATATAATATAT
21265964 TATATTATTATAT
1 TATATTATTATAT
21265977 ATTAAATAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 7 0.18
29 19 0.50
30 7 0.18
31 5 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TATATTATTATATTATAATATAATATAT
Found at i:21265978 original size:39 final size:39
Alignment explanation
Indices: 21265905--21265981 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
21265895 ATGTTTTACA
21265905 TATATTATTTTATTATATAATATAATATATTATATTAAT
1 TATATTATTTTATTATATAATATAATATATTATATTAAT
* *
21265944 TATATTATATTATATTATATTATATTAT-TA-TATATTAA
1 TATATTAT-TT-TATTATATAATATAATATATTATATTAA
21265982 ATAAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 16 0.47
40 4 0.12
41 14 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (39 bp):
TATATTATTTTATTATATAATATAATATATTATATTAAT
Found at i:21266211 original size:22 final size:22
Alignment explanation
Indices: 21266173--21266219 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
21266163 ATAAAAAGAT
21266173 AAAGAAACAAAAGAAGA-ACAGA
1 AAAGAAACAAAAGAAGAGAC-GA
*
21266195 AAAGAAAC-AGAGAAAGAGACGA
1 AAAGAAACAAAAG-AAGAGACGA
21266217 AAA
1 AAA
21266220 CAGGGGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 3 0.14
22 17 0.77
23 2 0.09
ACGTcount: A:0.70, C:0.09, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAGAAACAAAAGAAGAGACGA
Found at i:21267206 original size:27 final size:28
Alignment explanation
Indices: 21267148--21267206 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
21267138 ATCTAATGCC
21267148 TTATTGGTGTGTTTGGGAGGATATGATA
1 TTATTGGTGTGTTTGGGAGGATATGATA
* *
21267176 -TATTTGTGTGTTAT-GGAGGAT-TTATA
1 TTATTGGTGTGTT-TGGGAGGATATGATA
21267202 TTATT
1 TTATT
21267207 CCAGGTGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (28 bp):
TTATTGGTGTGTTTGGGAGGATATGATA
Found at i:21273168 original size:5 final size:5
Alignment explanation
Indices: 21273141--21273299 Score: 200
Period size: 5 Copynumber: 32.2 Consensus size: 5
21273131 TTTTTATGTT
* * * *
21273141 TTATA -TATA TTAT- TT-TA TTATA TAATATA ATATA ATATA ATATA ATATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
* * *
21273190 ATATA ATATA ATATA TTA-A TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
*
21273239 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATG
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
21273289 TTATA TTATA T
1 TTATA TTATA T
21273300 AACTAAATAG
Statistics
Matches: 144, Mismatches: 4, Indels: 12
0.90 0.03 0.08
Matches are distributed among these distances:
3 1 0.01
4 12 0.08
5 127 0.88
7 4 0.03
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (5 bp):
TTATA
Found at i:21273915 original size:22 final size:24
Alignment explanation
Indices: 21273887--21273930 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
21273877 TATGGCAAGA
21273887 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
21273909 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
21273931 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:21276899 original size:35 final size:36
Alignment explanation
Indices: 21276858--21277021 Score: 179
Period size: 35 Copynumber: 4.6 Consensus size: 36
21276848 ATACTCTCTG
*
21276858 TTTGGCGTGTTTTGGTTGGACTAGCTCTTATAAGCA
1 TTTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
* ** * *
21276894 -CTGGCGTGTTTCAGTTGTACTAGCTCTTATGAGTA
1 TTTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
* *
21276929 -TTGGCGTGTTTCGGTTGGACTAGCTCTTGTGAGCA
1 TTTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
* ** * * *
21276964 TTTGGTGTGTTTTGGAGGGATTGGCTCGTATGAGCA
1 TTTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
*
21277000 TTTGGCGTGTTATGGTTGGACT
1 TTTGGCGTGTTTTGGTTGGACT
21277022 GACGATGTGC
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
35 59 0.57
36 44 0.43
ACGTcount: A:0.14, C:0.13, G:0.32, T:0.40
Consensus pattern (36 bp):
TTTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
Found at i:21282237 original size:50 final size:49
Alignment explanation
Indices: 21282165--21282788 Score: 664
Period size: 50 Copynumber: 12.7 Consensus size: 49
21282155 TCGCATATAG
*
21282165 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-GTCC
* * *
21282215 GTGCAGATGCCATGTCCTAGACATGGTCTTACACT-AGCACTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTC-GTCC
* *
21282265 GTGTCGATGCCATGTCCCAGACATGGTCTTACACT-AGCACTCATC-T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCGTCC
* * **
21282312 GAGCTGATGCCATGTCCCAGACATGGTCTTACACT-AGCACTTATC-T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCGTCC
* * * * * * *
21282359 GAGCTGATGCCATGTCCCAGACATGGTTTTACACTAACTCCCCTCTGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-GTCC
*
21282409 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCACTCCTCCGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCT-CGTCC
* * * *
21282459 GTGTCGATGCCATGTCCCAGACATGGTCTTACAATGGCACTCATC-T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCC
*** * *
21282506 AAACCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-GTCC
* * *
21282556 ATGCCGAGGCCATGTCCCAGACATGGTCTTACACT-AGCACTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTC-GTCC
* *
21282606 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC-T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCC
* * * *
21282653 GAGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCCCCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-GTCC
* * *
21282703 GTGCCGATGCCATGTCCCAAACATGGTCTTACACT-AGCACTCATCAGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTC-GTCC
*
21282753 GTGCCGATGCCATGTCCCAGACATGATCTTACACTG
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
21282789 GCACACTCAT
Statistics
Matches: 491, Mismatches: 65, Indels: 35
0.83 0.11 0.06
Matches are distributed among these distances:
47 156 0.32
48 4 0.01
49 8 0.02
50 322 0.66
51 1 0.00
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.27
Consensus pattern (49 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCC
Found at i:21282348 original size:97 final size:97
Alignment explanation
Indices: 21282165--21282792 Score: 727
Period size: 97 Copynumber: 6.4 Consensus size: 97
21282155 TCGCATATAG
* *
21282165 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-GACTCTCCTCTGTCCGTGCAGATGCCATG
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACTCCTC-GT-CGTGCCGATGCCATG
* *
21282229 TCCTAGACATGGTCTTACACTAGCACTCCTCGGTCT
63 TCCCAGACATGGTCTTACACTAGCACTCATC-GTCT
* * * *
21282265 GTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATC-TCGAGCTGATGCCATGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGTCGTGCCGATGCCATGTCC
*
21282329 CAGACATGGTCTTACACTAGCACTTATC-TC-
66 CAGACATGGTCTTACACTAGCACTCATCGTCT
* * * * * *
21282359 GAGCTGATGCCATGTCCCAGACATGGTTTTACACTAACTCCCCTCTGTCTGTGCCGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTC-GTC-GTGCCGATGCCATGT
*
21282424 CCCAGACATGGTCTTACACTAGCACTCCTCCGTCT
64 CCCAGACATGGTCTTACACTAGCACTCAT-CGTCT
* * * * ***
21282459 GTGTCGATGCCATGTCCCAGACATGGTCTTACAATGGCACTCATC-TCAAACCGATGCCATGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGTCGTGCCGATGCCATGTCC
* * * *
21282523 CAAACATGGTCTTACACT-GACTCTCCTCTGTCC
66 CAGACATGGTCTTACACTAG-CACTCATC-GTCT
* *
21282556 ATGCCGAGGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTC-GTC-GTGCCGATGCCATGT
*
21282621 CCCAGACATGGTCTTACACTGGCACTCATC-TC-
64 CCCAGACATGGTCTTACACTAGCACTCATCGTCT
* *
21282653 GAGCCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACTCCCCTCTGTCCGTGCCGATGCCAT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACT--CCTC-GT-CGTGCCGATGCCAT
*
21282716 GTCCCAAACATGGTCTTACACTAGCACTCATCAGTCT
62 GTCCCAGACATGGTCTTACACTAGCACTCATC-GTCT
* *
21282753 GTGCCGATGCCATGTCCCAGACATGATCTTACACTGGCAC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
21282793 ACTCATTGCC
Statistics
Matches: 449, Mismatches: 58, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
94 37 0.08
95 5 0.01
96 5 0.01
97 240 0.53
98 7 0.02
99 6 0.01
100 144 0.32
101 3 0.01
102 2 0.00
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (97 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGTCGTGCCGATGCCATGTCC
CAGACATGGTCTTACACTAGCACTCATCGTCT
Found at i:21282530 original size:147 final size:147
Alignment explanation
Indices: 21282165--21282792 Score: 884
Period size: 147 Copynumber: 4.3 Consensus size: 147
21282155 TCGCATATAG
* * * * *
21282165 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCAGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC--T-CGAGCCGATGCCATGT
* * * * * * * *
21282230 CCTAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGTCGATGCCATGTCCCAGACATGGTCTT
63 CCCAAACATGGTCTTACACTAACTCCCCTCTGTCCGTGCCGATGCCATGTCCCAGACATGGTCTT
21282295 ACACTAGCACTCAT-C-TC-
128 ACACTAGCACTCATCCGTCT
* * * * *
21282312 GAGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACTTATCTCGAGCTGATGCCATGTCCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCC
* * *
21282377 AGACATGGTTTTACACTAACTCCCCTCTGTCTGTGCCGATGCCATGTCCCAGACATGGTCTTACA
66 AAACATGGTCTTACACTAACTCCCCTCTGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACA
*
21282442 CTAGCACTCCTCCGTCT
131 CTAGCACTCATCCGTCT
* * * *
21282459 GTGTCGATGCCATGTCCCAGACATGGTCTTACAATGGCACTCATCTCAAACCGATGCCATGTCCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCC
* * * *
21282524 AAACATGGTCTTACACTGACTCTCCTCTGTCCATGCCGAGGCCATGTCCCAGACATGGTCTTACA
66 AAACATGGTCTTACACTAACTCCCCTCTGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACA
* *
21282589 CTAGCACTCCTCGGTCT
131 CTAGCACTCATCCGTCT
21282606 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCC
* *
21282671 AAACATGGTCTTACACTGACTCCCCTCTGTCCGTGCCGATGCCATGTCCCAAACATGGTCTTACA
66 AAACATGGTCTTACACTAACTCCCCTCTGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACA
*
21282736 CTAGCACTCATCAGTCT
131 CTAGCACTCATCCGTCT
*
21282753 GTGCCGATGCCATGTCCCAGACATGATCTTACACTGGCAC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
21282793 ACTCATTGCC
Statistics
Matches: 433, Mismatches: 45, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
144 85 0.20
145 2 0.00
146 2 0.00
147 344 0.79
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (147 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCC
AAACATGGTCTTACACTAACTCCCCTCTGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACA
CTAGCACTCATCCGTCT
Found at i:21287306 original size:687 final size:686
Alignment explanation
Indices: 21285992--21287367 Score: 2716
Period size: 687 Copynumber: 2.0 Consensus size: 686
21285982 TAGGGTACGC
*
21285992 GGTCGTATGGATAGGTTGTGTGAGAGACTATGGTCATGTGGTAATTTGAAAATTTAACCTACAAG
1 GGTCGTATGGATAGGTTGTGTGAGAGACTATGGTCATGGGGTAATTTGAAAATTTAACCTACAAG
* *
21286057 GAAGACATGACCATGTAGGAGGTCGCATGAGGGGTCCTAGGTCGTGTAGAAAGTGTAATCCTAGA
66 GAAGACATGACCATGTAGGAGGTCGCATGAGGGATCCTAGATCGTGTAGAAAGTGTAATCCTAGA
21286122 GTTTTAGTGGTGGCATGGTTGTGTATGGGATAGTGTAACCACATGGGTGGCCCACATGCTTATAT
131 GTTTTAGTGGTGGCATGGTTGTGTATGGGATAGTGTAACCACATGGGTGGCCCACATGCTTATAT
21286187 GGTAGGTCGTCTGATCTGAGCTAGGTTTGGTTTTACCTCAATTTTCTCGTAAAATAACACACACC
196 GGTAGGTCGTCTGATCTGAGCTAGGTTTGGTTTTACCTCAATTTTCTCGTAAAATAACACACACC
21286252 TAACTTATGGGGGTTTTACACAATGATCCTCACATCCAATTCTGGTTTGGGATACCTACAACAGG
261 TAACTTATGGGGGTTTTACACAATGATCCTCACATCCAATTCTGGTTTGGGATACCTACAACAGG
21286317 TCTTTCGATTGACAAATACGCAAGATTTAATATCGACTTTCAAGATTTATTAAAATTATCAAGAT
326 TCTTTCGATTGACAAATACGCAAGATTTAATATCGACTTTCAAGATTTATTAAAATTATCAAGAT
21286382 TTTTGGGGAAAAATCGTAGAAGATTCGAAATCAATTCGAAAGATTGTCAAGAATGATGTTATTCA
391 TTTTGGGGAAAAATCGTAGAAGATTCGAAATCAATTCGAAAGATTGTCAAGAATGATGTTATTCA
21286447 AGAATTCTAGGGTTTTACAAAATTAAGACAAGAATGCTTACCGATATTGATACGTTAGAAACTAA
456 AGAATTCTAGGGTTTTACAAAATTAAGACAAGAATGCTTACCGATATTGATACGTTAGAAACTAA
21286512 TTTATTACACTAATTCGATTAGAAAACCGATTGAGTGGGCTCAGTTTCAATCTCGAGATCAAAAT
521 TTTATTACACTAATTCGATTAGAAAACCGATTGAGTGGGCTCAGTTTCAATCTCGAGATCAAAAT
21286577 AAAATTTCTAGGAAAAGAATATGAATATTTTTATGTAAAGGAAAAGATGGAATAAATGAAAAAGA
586 AAAATTTCTAGGAAAAGAATATGAATATTTTTATGTAAAGGAAAAGATGGAATAAATGAAAAAGA
21286642 TGTATTTAAAGAAAAGAGAAGAGAAATTCTAATTAG
651 TGTATTTAAAGAAAAGAGAAGAGAAATTCTAATTAG
21286678 GNGTCGTATGGATAGGTTGTGTGAGAGACTATGGTCATGGGGTAATTTGAAAATTTAACCTACAA
1 G-GTCGTATGGATAGGTTGTGTGAGAGACTATGGTCATGGGGTAATTTGAAAATTTAACCTACAA
21286743 GGAAGACATGACCATGTAGGAGGTCGCATGAGGGATCCTAGATCGTGTAGAAAGTGTAATCCTAG
65 GGAAGACATGACCATGTAGGAGGTCGCATGAGGGATCCTAGATCGTGTAGAAAGTGTAATCCTAG
21286808 AGTTTTAGTGGTGGCATGGTTGTGTATGGGATAGTGTAACCACATGGGTGGCCCACATGCTTATA
130 AGTTTTAGTGGTGGCATGGTTGTGTATGGGATAGTGTAACCACATGGGTGGCCCACATGCTTATA
21286873 TGGTAGGTCGTCTGATCTGAGCTAGGTTTGGTTTTACCTCAATTTTCTCGTAAAATAACACACAC
195 TGGTAGGTCGTCTGATCTGAGCTAGGTTTGGTTTTACCTCAATTTTCTCGTAAAATAACACACAC
21286938 CTAACTTATGGGGGTTTTACACAATGATCCTCACATCCAATTCTGGTTTGGGATACCTACAACAG
260 CTAACTTATGGGGGTTTTACACAATGATCCTCACATCCAATTCTGGTTTGGGATACCTACAACAG
21287003 GTCTTTCGATTGACAAATACGCAAGATTTAATATCGACTTTCAAGATTTATTAAAATTATCAAGA
325 GTCTTTCGATTGACAAATACGCAAGATTTAATATCGACTTTCAAGATTTATTAAAATTATCAAGA
21287068 TTTTTGGGGAAAAATCGTAGAAGATTCGAAATCAATTCGAAAGATTGTCAAGAATGATGTTATTC
390 TTTTTGGGGAAAAATCGTAGAAGATTCGAAATCAATTCGAAAGATTGTCAAGAATGATGTTATTC
21287133 AAGAATTCTAGGGTTTTACAAAATTAAGACAAGAATGCTTACCGATATTGATACGTTAGAAACTA
455 AAGAATTCTAGGGTTTTACAAAATTAAGACAAGAATGCTTACCGATATTGATACGTTAGAAACTA
21287198 ATTTATTACACTAATTCGATTAGAAAACCGATTGAGTGGGCTCAGTTTCAATCTCGAGATCAAAA
520 ATTTATTACACTAATTCGATTAGAAAACCGATTGAGTGGGCTCAGTTTCAATCTCGAGATCAAAA
21287263 TAAAATTTCTAGGAAAAGAATATGAATATTTTTATGTAAAGGAAAAGATGGAATAAATGAAAAAG
585 TAAAATTTCTAGGAAAAGAATATGAATATTTTTATGTAAAGGAAAAGATGGAATAAATGAAAAAG
21287328 ATGTATTTAAAGAAAAGAGAAGAGAAATTCTAATTAG
650 ATGTATTTAAAGAAAAGAGAAGAGAAATTCTAATTAG
21287365 GGT
1 GGT
21287368 TGAAAAAGAA
Statistics
Matches: 686, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
686 3 0.00
687 683 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (686 bp):
GGTCGTATGGATAGGTTGTGTGAGAGACTATGGTCATGGGGTAATTTGAAAATTTAACCTACAAG
GAAGACATGACCATGTAGGAGGTCGCATGAGGGATCCTAGATCGTGTAGAAAGTGTAATCCTAGA
GTTTTAGTGGTGGCATGGTTGTGTATGGGATAGTGTAACCACATGGGTGGCCCACATGCTTATAT
GGTAGGTCGTCTGATCTGAGCTAGGTTTGGTTTTACCTCAATTTTCTCGTAAAATAACACACACC
TAACTTATGGGGGTTTTACACAATGATCCTCACATCCAATTCTGGTTTGGGATACCTACAACAGG
TCTTTCGATTGACAAATACGCAAGATTTAATATCGACTTTCAAGATTTATTAAAATTATCAAGAT
TTTTGGGGAAAAATCGTAGAAGATTCGAAATCAATTCGAAAGATTGTCAAGAATGATGTTATTCA
AGAATTCTAGGGTTTTACAAAATTAAGACAAGAATGCTTACCGATATTGATACGTTAGAAACTAA
TTTATTACACTAATTCGATTAGAAAACCGATTGAGTGGGCTCAGTTTCAATCTCGAGATCAAAAT
AAAATTTCTAGGAAAAGAATATGAATATTTTTATGTAAAGGAAAAGATGGAATAAATGAAAAAGA
TGTATTTAAAGAAAAGAGAAGAGAAATTCTAATTAG
Found at i:21292857 original size:12 final size:12
Alignment explanation
Indices: 21292842--21292866 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21292832 TATGATTGAT
21292842 TTTTGATATGTG
1 TTTTGATATGTG
21292854 TTTTGATATGTG
1 TTTTGATATGTG
21292866 T
1 T
21292867 ATTAAATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TTTTGATATGTG
Found at i:21293532 original size:85 final size:85
Alignment explanation
Indices: 21293424--21293619 Score: 216
Period size: 86 Copynumber: 2.3 Consensus size: 85
21293414 TTAAGGGTGT
* * ** * ** * *
21293424 AAAAA-ACCCTTAAACTTAAAAAAAAAACACTAATTAAGTTTTTTTTTTTGCACTCATTTGGGTA
1 AAAAAGACCCTCAAACTTAAAAAAAACA-ACTAAGCAACTACTTTTTTTTACACTCAATTGGGTA
* *
21293488 CTTGAGCTTTCAAAATGTATC
65 CTTGAACTTTCAAAATGCATC
* * *
21293509 AAAAA-AGCCCTCAAACCTTAAAAAAAACAATTAAGCACCTACTTTTTTTTATACTCAATTGGGT
1 AAAAAGA-CCCTCAAA-CTTAAAAAAAACAACTAAGCAACTACTTTTTTTTACACTCAATTGGGT
21293573 ACTTGAACTTTCAAAATGCATC
64 ACTTGAACTTTCAAAATGCATC
*
21293595 AAAAAGACCTTCAAACTTAAAAAAA
1 AAAAAGACCCTCAAACTTAAAAAAA
21293620 GAGAGCAATT
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
85 16 0.17
86 64 0.69
87 13 0.14
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (85 bp):
AAAAAGACCCTCAAACTTAAAAAAAACAACTAAGCAACTACTTTTTTTTACACTCAATTGGGTAC
TTGAACTTTCAAAATGCATC
Found at i:21293746 original size:20 final size:20
Alignment explanation
Indices: 21293721--21293788 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
21293711 ATAAAAAATT
21293721 AAAATATTAAAAATTTATTA
1 AAAATATTAAAAATTTATTA
* *
21293741 AAAATAGTAAAAATATATATA
1 AAAATATTAAAAATTTAT-TA
*
21293762 AAAA-ATTGTAAAATTTA-TA
1 AAAATATT-AAAAATTTATTA
21293781 AAATATAT
1 AAA-ATAT
21293789 AGAAATATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.13
20 19 0.49
21 15 0.38
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAATATTAAAAATTTATTA
Found at i:21293764 original size:11 final size:11
Alignment explanation
Indices: 21293720--21293812 Score: 50
Period size: 10 Copynumber: 9.5 Consensus size: 11
21293710 AATAAAAAAT
21293720 TAAAATAT-TA
1 TAAAATATATA
*
21293730 -AAAATTTAT-
1 TAAAATATATA
21293739 TAAAA-ATAGTA
1 TAAAATATA-TA
21293750 -AAAATATATA
1 TAAAATATATA
* *
21293760 TAAAAAAT-TG
1 TAAAATATATA
21293770 TAAAAT-T-TA
1 TAAAATATATA
21293779 TAAAATATATA
1 TAAAATATATA
*
21293790 -GAAATATA-A
1 TAAAATATATA
21293799 -AAAA-AT-TA
1 TAAAATATATA
21293807 TAAAAT
1 TAAAAT
21293813 TTTATAAAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
8 3 0.05
9 24 0.38
10 26 0.41
11 11 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
TAAAATATATA
Found at i:21293772 original size:22 final size:20
Alignment explanation
Indices: 21293721--21293820 Score: 82
Period size: 19 Copynumber: 5.0 Consensus size: 20
21293711 ATAAAAAATT
* *
21293721 AAAATATTAAAAATTTATTA
1 AAAATAGTAAAAATTTATAA
21293741 AAAATAGTAAAAATATATATAA
1 AAAATAGTAAAAAT-T-TATAA
*
21293763 AAAATTGT-AAAATTTATAA
1 AAAATAGTAAAAATTTATAA
* * *
21293782 AATATA-TAGAAATATA-AA
1 AAAATAGTAAAAATTTATAA
*
21293800 AAAATTA-TAAAATTTTATAA
1 AAAA-TAGTAAAAATTTATAA
21293820 A
1 A
21293821 GTCGTAAGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
18 6 0.09
19 24 0.38
20 17 0.27
21 6 0.09
22 11 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATAGTAAAAATTTATAA
Found at i:21293831 original size:38 final size:38
Alignment explanation
Indices: 21293720--21293820 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 38
21293710 AATAAAAAAT
* *
21293720 TAAAATATTA-AAAATTTATTAAAA-ATAGTAAAAATATATA
1 TAAAAAATTATAAAATTTA-TAAAATATA-T-AGAA-ATATA
*
21293760 TAAAAAATTGTAAAATTTATAAAATATATAGAAATATA
1 TAAAAAATTATAAAATTTATAAAATATATAGAAATATA
21293798 -AAAAAATTATAAAATTTTATAAA
1 TAAAAAATTATAAAA-TTTATAAA
21293821 GTCGTAAGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
37 13 0.24
38 13 0.24
39 3 0.06
40 14 0.26
41 11 0.20
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (38 bp):
TAAAAAATTATAAAATTTATAAAATATATAGAAATATA
Found at i:21294086 original size:43 final size:43
Alignment explanation
Indices: 21294037--21294125 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
21294027 ATTTTTATAA
*
21294037 AATTTTACT-ATTTTTT-ATTTTTTACGATTTTTATAAAAAATTT
1 AATTTTAATAATTTTTTAATTTTTTA-GATTTTTAT-AAAAATTT
* *
21294080 AATTTTAATAATTTTTTAATTTTTTATATTTTTATTAAAATTT
1 AATTTTAATAATTTTTTAATTTTTTAGATTTTTATAAAAATTT
21294123 AAT
1 AAT
21294126 ATTTTTTCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
43 18 0.44
44 15 0.37
45 8 0.20
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (43 bp):
AATTTTAATAATTTTTTAATTTTTTAGATTTTTATAAAAATTT
Found at i:21294094 original size:37 final size:35
Alignment explanation
Indices: 21294014--21294097 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 35
21294004 CTAGGGGTCA
* *
21294014 TTAATTTTTTATGATTTTTATAAAATTTTACTATTT
1 TTAATTTTTTACGATTTTTATAAAAATTTAC-ATTT
*
21294050 TTTATTTTTTACGATTTTTATAAAAAATTTA-ATTT
1 TTAATTTTTTACGATTTTTAT-AAAAATTTACATTT
21294085 TAATAATTTTTTA
1 T--TAATTTTTTA
21294098 ATTTTTTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 5 0.12
36 19 0.46
37 17 0.41
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (35 bp):
TTAATTTTTTACGATTTTTATAAAAATTTACATTT
Found at i:21294117 original size:19 final size:17
Alignment explanation
Indices: 21294077--21294132 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
21294067 TTATAAAAAA
*
21294077 TTTAATTTTAATAATTT
1 TTTAATTTTAATATTTT
*
21294094 TTTAATTTTTTATATTTT
1 TTTAA-TTTTAATATTTT
*
21294112 TATTAAAATTTAATATTTT
1 T-TT-AATTTTAATATTTT
21294131 TT
1 TT
21294133 CTAAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 5 0.16
18 12 0.38
19 13 0.41
20 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTAATTTTAATATTTT
Found at i:21294137 original size:19 final size:18
Alignment explanation
Indices: 21294083--21294141 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
21294073 AAAATTTAAT
* **
21294083 TTTAATAATTTTTTAATT
1 TTTAATATTTTTTTAAAA
*
21294101 TTTTATATTTTTATTAAAA
1 TTTAATATTTTT-TTAAAA
21294120 TTTAATATTTTTTCTAAAA
1 TTTAATATTTTTT-TAAAA
21294139 TTT
1 TTT
21294142 TTTTTATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 11 0.32
19 23 0.68
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTAATATTTTTTTAAAA
Found at i:21296538 original size:64 final size:64
Alignment explanation
Indices: 21296458--21296650 Score: 377
Period size: 64 Copynumber: 3.0 Consensus size: 64
21296448 TTTTACATTT
*
21296458 TAAGATAACTGTAATTTCTTTAATATCTATTTAAATGTTCAAGTTACATATTGAGCTATTTCAA
1 TAAGATAACTATAATTTCTTTAATATCTATTTAAATGTTCAAGTTACATATTGAGCTATTTCAA
21296522 TAAGATAACTATAATTTCTTTAATATCTATTTAAATGTTCAAGTTACATATTGAGCTATTTCAA
1 TAAGATAACTATAATTTCTTTAATATCTATTTAAATGTTCAAGTTACATATTGAGCTATTTCAA
21296586 TAAGATAACTATAATTTCTTTAATATCTATTTAAATGTTCAAGTTACATATTGAGCTATTTCAA
1 TAAGATAACTATAATTTCTTTAATATCTATTTAAATGTTCAAGTTACATATTGAGCTATTTCAA
21296650 T
1 T
21296651 CATATTGTGA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 128 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (64 bp):
TAAGATAACTATAATTTCTTTAATATCTATTTAAATGTTCAAGTTACATATTGAGCTATTTCAA
Found at i:21311427 original size:19 final size:19
Alignment explanation
Indices: 21311403--21311444 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
21311393 ATAGAAGGGA
21311403 AAAATGTTCAGCATGTCAT
1 AAAATGTTCAGCATGTCAT
21311422 AAAATGTTCAGCATGTCAT
1 AAAATGTTCAGCATGTCAT
21311441 AAAA
1 AAAA
21311445 CATAAGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (19 bp):
AAAATGTTCAGCATGTCAT
Found at i:21311517 original size:30 final size:30
Alignment explanation
Indices: 21311483--21311539 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
21311473 TCGAGCTTTG
*
21311483 GGGAAAAGGTGTAATTATGTAAAAGTTTAA
1 GGGAAAAAGTGTAATTATGTAAAAGTTTAA
* * *
21311513 GGGAAAAATTGTAATTTTGTCAAAGTT
1 GGGAAAAAGTGTAATTATGTAAAAGTT
21311540 AGAGTCGAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.33
Consensus pattern (30 bp):
GGGAAAAAGTGTAATTATGTAAAAGTTTAA
Found at i:21311935 original size:50 final size:50
Alignment explanation
Indices: 21311876--21312145 Score: 334
Period size: 50 Copynumber: 5.4 Consensus size: 50
21311866 CATTTGGGTA
21311876 AAGAGGTCCCATGTAAGACCATGTCTGGGACAT-CATGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGCA-GTTGGCACCGAGAT
*
21311926 AAGAGGTCCCATGTAAGACCATGTCTGGGATATGGCA-TTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACAT-GCAGTTGGCACCGAGAT
* *
21311976 AAGAGGTCCCATGTAAGACCGTGTCTGGGACATGGC-GTTGGCATCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACAT-GCAGTTGGCACCGAGAT
*
21312026 AAGAGGTCCCATGTAAGACCATGTCTGGGGCATGGCA-TTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACAT-GCAGTTGGCACCGAGAT
* ** * * * *
21312076 GAGAGGTCCCCCGTAAGATCATGTCAGGGACATGGCA-TGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACAT-GCAGTTGGCACCGAGAT
* **
21312126 GAGAACTCCCATGTAAGACC
1 AAGAGGTCCCATGTAAGACC
21312146 GTATTTGGGA
Statistics
Matches: 196, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
50 194 0.99
52 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGCAGTTGGCACCGAGAT
Found at i:21312049 original size:100 final size:100
Alignment explanation
Indices: 21311876--21312168 Score: 379
Period size: 100 Copynumber: 2.9 Consensus size: 100
21311866 CATTTGGGTA
***
21311876 AAGAGGTCCCATGTAAGACCATGTCTGGGACATCATGTTGGCACCGAGATAAGAGGTCCCATGTA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTA
21311941 AGACCATGTCTGGGATATGGCATTGGCACCGAGAT
66 AGACCATGTCTGGGATATGGCATTGGCACCGAGAT
* *
21311976 AAGAGGTCCCATGTAAGACCGTGTCTGGGACATGGCGTTGGCATCGAGATAAGAGGTCCCATGTA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTA
**
21312041 AGACCATGTCTGGGGCATGGCATTGGCACCGAGAT
66 AGACCATGTCTGGGATATGGCATTGGCACCGAGAT
* ** * * * * * * **
21312076 GAGAGGTCCCCCGTAAGATCATGTCAGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTA
* * * **
21312141 AGACCGTATTTGGGATATGAAATTGGCA
66 AGACCATGTCTGGGATATGGCATTGGCA
21312169 GTATAGGAAA
Statistics
Matches: 166, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 166 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (100 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTA
AGACCATGTCTGGGATATGGCATTGGCACCGAGAT
Found at i:21312147 original size:150 final size:149
Alignment explanation
Indices: 21311876--21312147 Score: 402
Period size: 150 Copynumber: 1.8 Consensus size: 149
21311866 CATTTGGGTA
*
21311876 AAGAGGTCCCATGTAAGACCATGTCTGGGACATCATGTTGGCACCGAGATAAGAGGTCCCATGTA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATCA-GTTGGCACCGAGATAAGAGGTCCCACGTA
* * * **
21311941 AGACCATGTCTGGGATATGGCATTGGCACCGAGATAAGAGGTCCCATGTAAGACCGTGTCTGGGA
65 AGACCATGTCAGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCGTGTCTGGGA
21312006 CATGGCGTTGGCATCGAGAT
130 CATGGCGTTGGCATCGAGAT
* * *
21312026 AAGAGGTCCCATGTAAGACCATGTCTGGGGCATGGCA-TTGGCACCGAGATGAGAGGTCCCCCGT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACAT--CAGTTGGCACCGAGATAAGAGGTCCCACGT
* * *
21312090 AAGATCATGTCAGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCGT
64 AAGACCATGTCAGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCGT
21312148 ATTTGGGATA
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
150 106 0.98
152 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.21
Consensus pattern (149 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATCAGTTGGCACCGAGATAAGAGGTCCCACGTAA
GACCATGTCAGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCGTGTCTGGGAC
ATGGCGTTGGCATCGAGAT
Found at i:21312167 original size:150 final size:149
Alignment explanation
Indices: 21311876--21312207 Score: 393
Period size: 150 Copynumber: 2.2 Consensus size: 149
21311866 CATTTGGGTA
*
21311876 AAGAGGTCCCATGTAAGACCATGTCTGGGACATCATGTTGGCACCGAGATAAGAGGTCCCATGTA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATCA-GTTGGCACCGAGATAAGAGGTCCCACGTA
* * * ** *
21311941 AGACCATGTCTGGGATATGGCATTGGCACCGAGATAAGAGGTCCCATGTAAGACCGTGTCTGGGA
65 AGACCATGTCAGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCGTATCTGGGA
***
21312006 CATGGCGTTGGCATCGAGAT
130 CATGAAATTGGCATCGAGAT
* * *
21312026 AAGAGGTCCCATGTAAGACCATGTCTGGGGCATGGCA-TTGGCACCGAGATGAGAGGTCCCCCGT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACAT--CAGTTGGCACCGAGATAAGAGGTCCCACGT
* * * *
21312090 AAGATCATGTCAGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCGTATTTGGG
64 AAGACCATGTCAGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCGTATCTGGG
* **
21312155 ATATGAAATTGGCAGTATAGGA-
129 ACATGAAATTGGCA-TCGA-GAT
* *
21312177 AACA--TCCCATGTAAGACTATGTCTGGGACAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACAT
21312208 AGCTTTGGCA
Statistics
Matches: 155, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
149 25 0.16
150 121 0.78
151 5 0.03
152 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (149 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATCAGTTGGCACCGAGATAAGAGGTCCCACGTAA
GACCATGTCAGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAGACCGTATCTGGGAC
ATGAAATTGGCATCGAGAT
Found at i:21312469 original size:20 final size:20
Alignment explanation
Indices: 21312431--21312469 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21312421 TAAGCAAGCA
*
21312431 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
21312451 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
21312470 AAAGAGCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:21315407 original size:26 final size:26
Alignment explanation
Indices: 21315376--21315427 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
21315366 ACGAATTTTC
21315376 TCAAAA-TTTTATCGTGGGTAAAATTG
1 TCAAAAGTTTTA-CGTGGGTAAAATTG
* *
21315402 TCAAAAGTTTTACTTGGTTAAAATTG
1 TCAAAAGTTTTACGTGGGTAAAATTG
21315428 GGATGAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (26 bp):
TCAAAAGTTTTACGTGGGTAAAATTG
Found at i:21322519 original size:21 final size:20
Alignment explanation
Indices: 21322485--21322529 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
21322475 TGTAAAAACT
21322485 AAAATCACGTAAAACTACTAA
1 AAAATCACGTAAAACT-CTAA
21322506 AAAATCAC-TAAAAACTCTTAA
1 AAAATCACGT-AAAACTC-TAA
21322527 AAA
1 AAA
21322530 CAAGCTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.60, C:0.18, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAATCACGTAAAACTCTAA
Found at i:21334633 original size:18 final size:18
Alignment explanation
Indices: 21334622--21334725 Score: 70
Period size: 18 Copynumber: 5.6 Consensus size: 18
21334612 AAAAAGCATG
21334622 TGAAAAAGAAAAAGAAAT
1 TGAAAAAGAAAAAGAAAT
*
21334640 TGAAAAAGAAAAA-AAGAA
1 TGAAAAAGAAAAAGAA-AT
* *
21334658 CGAAAGAAAGAAAAAAGAGAT
1 TG-AA-AAAG-AAAAAGAAAT
* **
21334679 TGAGAGCGAAAAAG-AAT
1 TGAAAAAGAAAAAGAAAT
*
21334696 GTGAGAAAG-AAAAGAAAAT
1 -TGAAAAAGAAAAAG-AAAT
21334715 TGAAAAAGAAA
1 TGAAAAAGAAA
21334726 GTGAGTTTGG
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
17 9 0.14
18 34 0.52
19 9 0.14
20 5 0.08
21 7 0.11
22 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.22, T:0.09
Consensus pattern (18 bp):
TGAAAAAGAAAAAGAAAT
Found at i:21341455 original size:9 final size:9
Alignment explanation
Indices: 21341443--21341479 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
21341433 ATATGTAGTT
21341443 TTAATTTGG
1 TTAATTTGG
*
21341452 TTAATTTAG
1 TTAATTTGG
21341461 TTAATTTGG
1 TTAATTTGG
*
21341470 TTAACTTGG
1 TTAATTTGG
21341479 T
1 T
21341480 CAAATGAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.54
Consensus pattern (9 bp):
TTAATTTGG
Found at i:21344954 original size:7 final size:6
Alignment explanation
Indices: 21344924--21344957 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
21344914 TGGAATAATT
*
21344924 TGAAAA TGAAAA TGAAAA TGGAAA TGAGAAA TGA
1 TGAAAA TGAAAA TGAAAA TGAAAA TGA-AAA TGA
21344958 TTCATTTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.18
Consensus pattern (6 bp):
TGAAAA
Found at i:21348345 original size:79 final size:77
Alignment explanation
Indices: 21348243--21348466 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 77
21348233 GCTCCTCGTT
*
21348243 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
21348308 ATTTAATAACTCGCA
64 ATTT-ATAACTCGCA
* *
21348323 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAACCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG-
* *
21348387 ATTTGTATCTCGCA
64 ATTTATAACTCGCA
* * * * * * *
21348401 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCA-AAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
21348465 GA
63 GA
21348467 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 32 0.26
79 64 0.52
80 28 0.23
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTATAACTCGCA
Found at i:21348360 original size:39 final size:40
Alignment explanation
Indices: 21348243--21348466 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
21348233 GCTCCTCGTT
* *
21348243 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
21348283 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
21348323 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
21348362 CAAATGCCTTCGGG-CTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
21348401 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
*
21348442 -AAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21348467 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 69 0.43
40 79 0.49
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:21349562 original size:13 final size:13
Alignment explanation
Indices: 21349544--21349568 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21349534 AGGATGAGCA
21349544 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
21349557 TTTTTTTTCTTT
1 TTTTTTTTCTTT
21349569 CTAGTTTCGG
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:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:21350473 original size:61 final size:61
Alignment explanation
Indices: 21350373--21350495 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
21350363 AAACTCATTT
*
21350373 TAGAGAAAATCGTAGTTGTACTTTGATTTATTTGAAAATCATTCATTCATTAGGTCGTGTA
1 TAGAAAAAATCGTAGTTGTACTTTGATTTATTTGAAAATCATTCATTCATTAGGTCGTGTA
21350434 TAGAAAAAATCGTAGTTGTACTTTGATTTATTTGAAAATCATTCATTCATTAGGTCGTGTA
1 TAGAAAAAATCGTAGTTGTACTTTGATTTATTTGAAAATCATTCATTCATTAGGTCGTGTA
21350495 T
1 T
21350496 GCTTAGGATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (61 bp):
TAGAAAAAATCGTAGTTGTACTTTGATTTATTTGAAAATCATTCATTCATTAGGTCGTGTA
Found at i:21353719 original size:177 final size:177
Alignment explanation
Indices: 21353416--21353765 Score: 619
Period size: 177 Copynumber: 2.0 Consensus size: 177
21353406 CAAAAGTACC
* * *
21353416 ATTCTATATGTTAAATGTGCTTAATTGTCATGGCTTAATAAATGAAAGGTTCTTATAATGTAATT
1 ATTCTATATGTTAAATGTGCTTAATTGCCATGGCTTAATAAATGAAAGGTCCTTATAATGCAATT
* *
21353481 AGACCATTGATGATGAAATTTGACATAAATGGGCTTAATATCATGAAATTTAACGGCTTTTAATT
66 AGACCATTGATGATGAAATTTGACATAAACGGGCTTAAAATCATGAAATTTAACGGCTTTTAATT
*
21353546 AGGGTTAAATTAGTAAAAATGTAAATAAACTTATATTAAATAATGGG
131 AAGGTTAAATTAGTAAAAATGTAAATAAACTTATATTAAATAATGGG
21353593 ATTCTATATGTTAAATGTGCTTAATTGCCATGGCTTAATAAATGAAAGGTCCTTATAATGCAATT
1 ATTCTATATGTTAAATGTGCTTAATTGCCATGGCTTAATAAATGAAAGGTCCTTATAATGCAATT
* * *
21353658 AGACCATTGATGATGGAATTTGACATAAACGGGCTTAAAATTATGAAATTTAACTGCTTTTAATT
66 AGACCATTGATGATGAAATTTGACATAAACGGGCTTAAAATCATGAAATTTAACGGCTTTTAATT
21353723 AAGGTTAAATTAGTAAAAATGTAAATAAACTTATATTAAATAA
131 AAGGTTAAATTAGTAAAAATGTAAATAAACTTATATTAAATAA
21353766 AACAAAGCTA
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
177 164 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (177 bp):
ATTCTATATGTTAAATGTGCTTAATTGCCATGGCTTAATAAATGAAAGGTCCTTATAATGCAATT
AGACCATTGATGATGAAATTTGACATAAACGGGCTTAAAATCATGAAATTTAACGGCTTTTAATT
AAGGTTAAATTAGTAAAAATGTAAATAAACTTATATTAAATAATGGG
Found at i:21356630 original size:25 final size:25
Alignment explanation
Indices: 21356602--21356692 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
21356592 ATGAGTTATA
* * *
21356602 AATCGGTATGATCTTACGAGCTATG
1 AATCGGTAAGATCATACGAGCTAAG
* *
21356627 AATCAGTAAGCTCATACGAGCTAAG
1 AATCGGTAAGATCATACGAGCTAAG
* * * *
21356652 AATCGATAAGCTTATACGAGCTAAA
1 AATCGGTAAGATCATACGAGCTAAG
* *
21356677 AATCAGTAAGCTCATA
1 AATCGGTAAGATCATA
21356693 AGATTTGTGG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (25 bp):
AATCGGTAAGATCATACGAGCTAAG
Found at i:21359224 original size:30 final size:30
Alignment explanation
Indices: 21359156--21359225 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
21359146 AGTGTCTAAT
*
21359156 GGTCGTGTAAGGCACACGGCACGTTCACAC
1 GGTCGTGTGAGGCACACGGCACGTTCACAC
* *
21359186 GGTCGTGTGAGGCACACGGCATGTTCATAC
1 GGTCGTGTGAGGCACACGGCACGTTCACAC
21359216 AGGT-GTGTGA
1 -GGTCGTGTGA
21359226 CCCTTAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 33 0.92
31 3 0.08
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.21
Consensus pattern (30 bp):
GGTCGTGTGAGGCACACGGCACGTTCACAC
Found at i:21361390 original size:56 final size:53
Alignment explanation
Indices: 21361267--21361417 Score: 131
Period size: 56 Copynumber: 2.8 Consensus size: 53
21361257 ATAGTAAAAG
*
21361267 GACCATATAGTGTAAGACCTAGTTTGGGACTATGGCATCATATAAGGATAAGA
1 GACCATATAGTGTAAGACCTAGTATGGGACTATGGCATCATATAAGGATAAGA
* * ** ** *
21361320 GAACCATATGGTGTAAGATCTAGTCATGGTGGTTATGGCATCATATGGGGATATGAA
1 G-ACCATATAGTGTAAGACCTAGT-ATGG-GACTATGGCATCATATAAGGATAAG-A
* * * * ** *
21361377 GACCACATAGTGTAGGACATAGTCTAAGATTATGGCATCAT
1 GACCATATAGTGTAAGACCTAGTATGGGACTATGGCATCAT
21361418 GTGGGGAAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
53 1 0.01
54 33 0.43
55 4 0.05
56 37 0.48
57 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (53 bp):
GACCATATAGTGTAAGACCTAGTATGGGACTATGGCATCATATAAGGATAAGA
Found at i:21361593 original size:30 final size:30
Alignment explanation
Indices: 21361528--21361613 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 30
21361518 TTATCGAAAT
* * * *
21361528 GTGGAAGCCTTTGTGGCTATTCT-TAAATAC
1 GTGGAAACCTTTATGGTTATTCTCT-AATAA
*
21361558 TTGGAAACCTTTATGGTTATTCTCTAATAA
1 GTGGAAACCTTTATGGTTATTCTCTAATAA
* *
21361588 GTGGAAGA-CTCTATGGTTTTTCTCTA
1 GTGGAA-ACCTTTATGGTTATTCTCTA
21361614 TCATATTTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 44 0.96
31 2 0.04
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (30 bp):
GTGGAAACCTTTATGGTTATTCTCTAATAA
Found at i:21363568 original size:16 final size:17
Alignment explanation
Indices: 21363547--21363579 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21363537 ATGATGGAGC
21363547 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
21363563 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
21363580 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:21377542 original size:86 final size:86
Alignment explanation
Indices: 21377447--21377617 Score: 299
Period size: 86 Copynumber: 2.0 Consensus size: 86
21377437 AGATAAATCT
*
21377447 ATCTTTTTGTTTATGGCCATAGAGA-TCGGCTTGTTTTGAAGTAGGCTATGACCTACAAAATTTC
1 ATCTTTTTGTTTATGGCCATAGA-ACTCAGCTTGTTTTGAAGTAGGCTATGACCTACAAAATTTC
*
21377511 CATGGAAGTTTGTAATCATGTG
65 CATGCAAGTTTGTAATCATGTG
*
21377533 ATCTTTTTGTTTATGTCCATAGAACTCAGCTTGTTTTGAAGTAGGCTATGACCTACAAAATTTCC
1 ATCTTTTTGTTTATGGCCATAGAACTCAGCTTGTTTTGAAGTAGGCTATGACCTACAAAATTTCC
21377598 ATGCAAGTTTGTAATCATGT
66 ATGCAAGTTTGTAATCATGT
21377618 TCGATGGTTG
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
85 1 0.01
86 80 0.99
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (86 bp):
ATCTTTTTGTTTATGGCCATAGAACTCAGCTTGTTTTGAAGTAGGCTATGACCTACAAAATTTCC
ATGCAAGTTTGTAATCATGTG
Found at i:21386198 original size:47 final size:47
Alignment explanation
Indices: 21386126--21386216 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
21386116 AGTGGTTTCG
*
21386126 GGACCGCTAAACCGAGTCACTGAAATGTTTGAATATGATATTTAACA
1 GGACCGCTAAACCGAGTCACCGAAATGTTTGAATATGATATTTAACA
* *
21386173 GGACCGCTAAACGGAGTCACCGAAATGTTTGAATGTGATATTTA
1 GGACCGCTAAACCGAGTCACCGAAATGTTTGAATATGATATTTA
21386217 TTGTCTAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (47 bp):
GGACCGCTAAACCGAGTCACCGAAATGTTTGAATATGATATTTAACA
Found at i:21387904 original size:40 final size:40
Alignment explanation
Indices: 21387810--21387954 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
21387800 TACTCGAATG
*
21387810 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
21387851 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
21387891 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
21387931 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
21387955 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:21410104 original size:25 final size:25
Alignment explanation
Indices: 21410076--21410133 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
21410066 AATTTGATAT
21410076 TTCAGCAAAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
* *
21410101 TTCAACAGAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
21410126 TTC-GCAAA
1 TTCAGCAAA
21410134 CTCAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 3 0.10
25 26 0.90
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (25 bp):
TTCAGCAAAGAAGGCATTGTTGAGA
Found at i:21410951 original size:24 final size:23
Alignment explanation
Indices: 21410884--21410951 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
21410874 TTTTAATAAT
* *
21410884 AATTATA-TTAAGAATGTTATTA
1 AATTATATTTAATAATATTATTA
* *
21410906 AATTATATATT-ATTATCTTTATTA
1 AATTATAT-TTAATAAT-ATTATTA
21410930 AATTATATTTAATAATAATTAT
1 AATTATATTTAATAAT-ATTAT
21410952 ATTAAAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 7 0.19
23 5 0.14
24 24 0.67
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:21411014 original size:59 final size:62
Alignment explanation
Indices: 21410839--21411007 Score: 204
Period size: 63 Copynumber: 2.7 Consensus size: 62
21410829 ATACTATTTT
* ** *
21410839 TTAATATTATATATTATGATTTTTATT-CATTCATATTTTAATAATAATTATATT-AAGAATGTT
1 TTAA-ATTATATATTATTATCATTATTAAATT-ATA-TTTAATAATAATTATATTAAAGAATG-T
21410902 A
62 A
* *
21410903 TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAAGTATG-A
1 TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAATTATATTAAAGAATGTA
*
21410964 TTAAATTATTTATTATT-T-ATTATTAAATTATATTTAATAATAAT
1 TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAAT
21411008 CCTATTATAA
Statistics
Matches: 97, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
59 25 0.26
60 1 0.01
61 17 0.18
62 18 0.19
63 29 0.30
64 7 0.07
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (62 bp):
TTAAATTATATATTATTATCATTATTAAATTATATTTAATAATAATTATATTAAAGAATGTA
Found at i:21411203 original size:46 final size:44
Alignment explanation
Indices: 21411110--21411203 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
21411100 ATTACAATAT
21411110 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
* *
21411154 CATTCCATTCAACCAAACAGC-TGACTTACTGATTACAGTTCTATTC
1 CATTCCATTCAACCAAACA-CAAGA-ATACT-ATTACAGTTCTATTC
21411200 CATT
1 CATT
21411204 AAAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 21 0.47
45 5 0.11
46 19 0.42
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:21411253 original size:16 final size:16
Alignment explanation
Indices: 21411185--21411255 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
21411175 TGACTTACTG
*
21411185 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
21411201 ATTAAAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
21411217 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
21411233 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
21411249 ATTACAG
1 ATTACAG
21411256 TGAACCAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:21411546 original size:27 final size:28
Alignment explanation
Indices: 21411479--21411546 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
21411469 ATAACTTAAT
* **
21411479 TCACAAATTGGTACTTAAATTTTTTTTG
1 TCACAAGTTGGTACTTAAAAATTTTTTG
*
21411507 TCACAAG-TAGTACTTAAACAATTTTTT-
1 TCACAAGTTGGTACTTAAA-AATTTTTTG
21411534 TC-CAAGTTGGTAC
1 TCACAAGTTGGTAC
21411547 CTCATTAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
26 4 0.12
27 17 0.52
28 12 0.36
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (28 bp):
TCACAAGTTGGTACTTAAAAATTTTTTG
Found at i:21412899 original size:19 final size:19
Alignment explanation
Indices: 21412895--21412932 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
21412885 ATTTTAAAAT
*
21412895 ATTTTAAAATAATTTTTTA
1 ATTTTAAAATAATTTTTAA
21412914 ATTTTAAAAT-ATTTTTAA
1 ATTTTAAAATAATTTTTAA
21412932 A
1 A
21412933 ATACTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTAAAATAATTTTTAA
Found at i:21412900 original size:10 final size:10
Alignment explanation
Indices: 21412885--21412940 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
21412875 TATTTTTTAA
21412885 ATTTTAAAAT
1 ATTTTAAAAT
21412895 ATTTTAAAAT
1 ATTTTAAAAT
**
21412905 AATTTT-TTA-
1 -ATTTTAAAAT
21412914 ATTTTAAAAT
1 ATTTTAAAAT
21412924 ATTTTTAAAAT
1 A-TTTTAAAAT
21412935 ACTTTT
1 A-TTTT
21412941 TTTTATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 5 0.14
9 1 0.03
10 12 0.32
11 19 0.51
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:21412910 original size:29 final size:30
Alignment explanation
Indices: 21412878--21412941 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
21412868 ATATATTTAT
21412878 TTTTTAAATTTTAAAATA-TTTTAAAATAA
1 TTTTTAAATTTTAAAATATTTTTAAAATAA
* *
21412907 TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAATTTTAAAATATTTTTAAAATAA
21412937 TTTTT
1 TTTTT
21412942 TTTATTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTTAAATTTTAAAATATTTTTAAAATAA
Found at i:21412912 original size:30 final size:31
Alignment explanation
Indices: 21412876--21412956 Score: 112
Period size: 30 Copynumber: 2.6 Consensus size: 31
21412866 AAATATATTT
21412876 ATTTTTTAAATTTTAAAATA-TTTTAAAATA-
1 ATTTTTT-AATTTTAAAATATTTTTAAAATAC
21412906 ATTTTTTAATTTTAAAATATTTTTAAAATAC
1 ATTTTTTAATTTTAAAATATTTTTAAAATAC
* *
21412937 TTTTTTTTATTTTTAAAATA
1 -ATTTTTTAATTTTAAAATA
21412957 AATTTTTGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 12 0.26
30 17 0.37
32 17 0.37
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:21412962 original size:21 final size:22
Alignment explanation
Indices: 21412923--21412977 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
21412913 AATTTTAAAA
* **
21412923 TATTTTTAAAAT-ACTTTTTTT
1 TATTTTTAAAATAAATTTTTGG
21412944 TATTTTTAAAATAAATTTTTGG
1 TATTTTTAAAATAAATTTTTGG
21412966 TATTTATTAAAA
1 TATTT-TTAAAA
21412978 AATGGGCCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 12 0.41
22 11 0.38
23 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTGG
Found at i:21413414 original size:20 final size:20
Alignment explanation
Indices: 21413373--21413434 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
21413363 TATAAGAAAA
*
21413373 AAACTATATAAAATCTAAATAT
1 AAACTATA-AAAAT-TATATAT
*
21413395 AAATTATAAAAATTATATAT
1 AAACTATAAAAATTATATAT
*
21413415 AAACTCT-AAAA-TATATAT
1 AAACTATAAAAATTATATAT
21413433 AA
1 AA
21413435 GAAATAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 9 0.25
19 4 0.11
20 11 0.31
21 5 0.14
22 7 0.19
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (20 bp):
AAACTATAAAAATTATATAT
Found at i:21413723 original size:18 final size:18
Alignment explanation
Indices: 21413700--21413735 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21413690 AATCTGAATG
21413700 AGAAAACCCAAAAATCTT
1 AGAAAACCCAAAAATCTT
* *
21413718 AGAAAACCTAGAAATCTT
1 AGAAAACCCAAAAATCTT
21413736 TGAATAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.19
Consensus pattern (18 bp):
AGAAAACCCAAAAATCTT
Found at i:21419915 original size:14 final size:14
Alignment explanation
Indices: 21419896--21419922 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21419886 AACACATAAT
21419896 CATATAGAGCTCAC
1 CATATAGAGCTCAC
21419910 CATATAGAGCTCA
1 CATATAGAGCTCA
21419923 GATGTAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (14 bp):
CATATAGAGCTCAC
Found at i:21423614 original size:15 final size:14
Alignment explanation
Indices: 21423593--21423628 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
21423583 ATAATCCTTA
*
21423593 ATAATTATCTTAAT
1 ATAATTATCCTAAT
21423607 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
21423622 ATAATTA
1 ATAATTA
21423629 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:21433399 original size:14 final size:14
Alignment explanation
Indices: 21433380--21433409 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21433370 CAAAAACACA
21433380 TTCTTTTCTTTTCT
1 TTCTTTTCTTTTCT
*
21433394 TTCTTTTTTTTTCT
1 TTCTTTTCTTTTCT
21433408 TT
1 TT
21433410 TACTAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTTTCTTTTCT
Done.