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 163 of 190
Found at i:26464072 original size:17 final size:17
Alignment explanation
Indices: 26464004--26464073 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
26463994 TATGGTTTTA
26464004 TATT-CATTGCATGATT
1 TATTGCATTGCATGATT
* *
26464020 TATTGCATGGTATGATATTT
1 TATTGCATTGCATG--A-TT
** *
26464040 TATATTTATTGTATGATT
1 TAT-TGCATTGCATGATT
26464058 TATTGCATTGCATGAT
1 TATTGCATTGCATGAT
26464074 AAGTTTGGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
16 4 0.10
17 17 0.41
18 5 0.12
19 2 0.05
20 5 0.12
21 8 0.20
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (17 bp):
TATTGCATTGCATGATT
Found at i:26478787 original size:187 final size:187
Alignment explanation
Indices: 26478450--26478827 Score: 573
Period size: 187 Copynumber: 2.0 Consensus size: 187
26478440 GATTATGGTC
*
26478450 TACTAATCAAAATATGGTTTGGGAGGTTGGTTACATATGAAAAAGGCTATAACACCCCTACATGA
1 TACTAATCAAAATATGGTTTGGGAGGTTCGTTACATATGAAAAAGGCTATAACACCCCTACATGA
* * *
26478515 CCATCCAAAGAACAGTACCATTTTATTTTAAATTATTCTATGGTTTTGATTCTAATATCTTAAAT
66 CCATCCAAAGAACAATACCATTTTATTTTAAATTATCCTATCGTTTTGATTCTAATATCTTAAAT
*
26478580 TTAATATTGAAAATAATTTTTAAGATTTCTCCATCAATTTGATAGAATTCTTAATAA
131 TTAATATTGAAAATAATTTTTAAGATTTCTCCATCAATTTGACAGAATTCTTAATAA
* ** * * *
26478637 TACTAATCAGAATATGGTTTGGGA-GTTCGTTACATAT-AGGGAATGTTATAACACCTCTACAT-
1 TACTAATCAAAATATGGTTTGGGAGGTTCGTTACATATGA-AAAAGGCTATAACACCCCTACATG
* *
26478699 ACCCATCCAAAGAATAATACCATTTTATTTTAAATTATCCTATCGTTTTGATTCTAATGGTCTTA
65 A-CCATCCAAAGAACAATACCATTTTATTTTAAATTATCCTATCGTTTTGATTCTAAT-ATCTTA
* *
26478764 AATTTAATATTGAAAATAATTTTTAAGATTTCTCCATCAATTTGGCAGGATTCTTAATAA
128 AATTTAATATTGAAAATAATTTTTAAGATTTCTCCATCAATTTGACAGAATTCTTAATAA
26478824 TACT
1 TACT
26478828 TTCTCACCTC
Statistics
Matches: 173, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
185 2 0.01
186 82 0.47
187 89 0.51
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (187 bp):
TACTAATCAAAATATGGTTTGGGAGGTTCGTTACATATGAAAAAGGCTATAACACCCCTACATGA
CCATCCAAAGAACAATACCATTTTATTTTAAATTATCCTATCGTTTTGATTCTAATATCTTAAAT
TTAATATTGAAAATAATTTTTAAGATTTCTCCATCAATTTGACAGAATTCTTAATAA
Found at i:26479023 original size:6 final size:6
Alignment explanation
Indices: 26479012--26479045 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
26479002 ATTCTCAAAA
*
26479012 TTTATT TTTATT TTTATT TATATT TTTATAT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTAT-T TTT
26479046 TGGAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:26480798 original size:44 final size:44
Alignment explanation
Indices: 26480748--26480855 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 44
26480738 AGGCTTTATA
*
26480748 ACTTTTGGAAAATAAATAAGGCTCAT-TTAAACAGAGCCTCAATG
1 ACTTTTGGAAAATAAATAA-GCTCATATAAAACAGAGCCTCAATG
* * * * *
26480792 ATTTTTGGGAAATAAATACAGCTCCTATAAAATAGAGGCTCAATG
1 ACTTTTGGAAAATAAATA-AGCTCATATAAAACAGAGCCTCAATG
*
26480837 ACTTTTGAAAAATAAATAA
1 ACTTTTGGAAAATAAATAA
26480856 AAGTTGTTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 22 0.42
45 31 0.58
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (44 bp):
ACTTTTGGAAAATAAATAAGCTCATATAAAACAGAGCCTCAATG
Found at i:26480836 original size:45 final size:44
Alignment explanation
Indices: 26480704--26480855 Score: 137
Period size: 44 Copynumber: 3.4 Consensus size: 44
26480694 GAGGCTTACA
* * * * ** *
26480704 ACTTTTGAAAAATATATAAGGTTCCTCT-AAATAGAGGCTTTATA
1 ACTTTTGGAAAATAAATAAGGCTCAT-TAAAATAGAGGCTCAATG
* * *
26480748 ACTTTTGGAAAATAAATAAGGCTCATTTAAACAGAGCCTCAATG
1 ACTTTTGGAAAATAAATAAGGCTCATTAAAATAGAGGCTCAATG
* * *
26480792 ATTTTTGGGAAATAAATACA-GCTCCTATAAAATAGAGGCTCAATG
1 ACTTTTGGAAAATAAATA-AGGCTCAT-TAAAATAGAGGCTCAATG
*
26480837 ACTTTTGAAAAATAAATAA
1 ACTTTTGGAAAATAAATAA
26480856 AAGTTGTTCT
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
43 1 0.01
44 55 0.63
45 31 0.36
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (44 bp):
ACTTTTGGAAAATAAATAAGGCTCATTAAAATAGAGGCTCAATG
Found at i:26487841 original size:27 final size:27
Alignment explanation
Indices: 26487811--26487863 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
26487801 GGTCTTATAG
* **
26487811 AGGTTGAATGTTTGGACTATATATGAA
1 AGGTTAAATGTTTAAACTATATATGAA
26487838 AGGTTAAATGTTTAAACTATATATGA
1 AGGTTAAATGTTTAAACTATATATGA
26487864 GAGCTTAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGTTAAATGTTTAAACTATATATGAA
Found at i:26493955 original size:15 final size:15
Alignment explanation
Indices: 26493935--26493964 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26493925 GTGATAATAG
*
26493935 CATGAGAAGAAATGA
1 CATGAGAAAAAATGA
26493950 CATGAGAAAAAATGA
1 CATGAGAAAAAATGA
26493965 ATGTAGTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.23, T:0.13
Consensus pattern (15 bp):
CATGAGAAAAAATGA
Found at i:26494468 original size:17 final size:16
Alignment explanation
Indices: 26494435--26494476 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
26494425 CATATGTTTT
*
26494435 TTTTTTAAA-TTAGTA
1 TTTTTTAAATTTAATA
26494450 TTTTTTAAATTTATATA
1 TTTTTTAAATTTA-ATA
*
26494467 TTTTATAAAT
1 TTTTTTAAAT
26494477 ATTTTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 3 0.13
17 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTTTAAATTTAATA
Found at i:26494470 original size:16 final size:16
Alignment explanation
Indices: 26494435--26494476 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
26494425 CATATGTTTT
26494435 TTTTTTAAA-TTAGTA
1 TTTTTTAAATTTAGTA
26494450 TTTTTTAAATTTA-TA
1 TTTTTTAAATTTAGTA
26494465 TATTTTATAAAT
1 T-TTTT-TAAAT
26494477 ATTTTATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 12 0.50
16 7 0.29
17 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTTTAAATTTAGTA
Found at i:26494655 original size:15 final size:16
Alignment explanation
Indices: 26494635--26494669 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
26494625 GATTAAAAAA
26494635 TTAATTTT-TTATTTT
1 TTAATTTTATTATTTT
*
26494650 TTAATTTTATTTTTTT
1 TTAATTTTATTATTTT
26494666 TTAA
1 TTAA
26494670 AAATAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTAATTTTATTATTTT
Found at i:26495214 original size:26 final size:26
Alignment explanation
Indices: 26495184--26495233 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
26495174 TATTTTGTTA
26495184 TTTATTTGTTGAGATTATTGTTGGGT
1 TTTATTTGTTGAGATTATTGTTGGGT
*
26495210 TTTATTTGTTGAGATTATTTTTGG
1 TTTATTTGTTGAGATTATTGTTGG
26495234 TTTATTGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (26 bp):
TTTATTTGTTGAGATTATTGTTGGGT
Found at i:26499634 original size:19 final size:19
Alignment explanation
Indices: 26499606--26499643 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
26499596 ATGGGTTGAG
*
26499606 TATTTTTTGTTATAGATTT
1 TATTTCTTGTTATAGATTT
26499625 TATTTCTTGTTATAGATTT
1 TATTTCTTGTTATAGATTT
26499644 GTTGAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTTCTTGTTATAGATTT
Found at i:26500731 original size:25 final size:26
Alignment explanation
Indices: 26500698--26500768 Score: 98
Period size: 25 Copynumber: 2.9 Consensus size: 26
26500688 CTCAAATTTC
26500698 TTTTT-TTATTTTGAT-TATTTTTAA
1 TTTTTGTTATTTTGATCTATTTTTAA
*
26500722 TTTTTGTTATTTT-ATCTTTTTTTAA
1 TTTTTGTTATTTTGATCTATTTTTAA
26500747 TTTTTGTTATTTTG-TCT-TTTTT
1 TTTTTGTTATTTTGATCTATTTTT
26500769 CTTTTTTAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
24 12 0.28
25 31 0.72
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (26 bp):
TTTTTGTTATTTTGATCTATTTTTAA
Found at i:26500776 original size:41 final size:40
Alignment explanation
Indices: 26500696--26500776 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 40
26500686 AACTCAAATT
*
26500696 TCTTTTTTTATTTTGATTATTTTTAATTTTTGTTATTTTA
1 TCTTTTTTTATTTTGATTATTTTTAATTTTTCTTATTTTA
**
26500736 TCTTTTTTTAATTTTTG-TTATTTTGTCTTTTTTCTT-TTTTA
1 TCTTTTTTT-A-TTTTGATTATTTT-TAATTTTTCTTATTTTA
26500777 ATTAGATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 9 0.26
41 13 0.37
42 13 0.37
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (40 bp):
TCTTTTTTTATTTTGATTATTTTTAATTTTTCTTATTTTA
Found at i:26508339 original size:22 final size:23
Alignment explanation
Indices: 26508287--26508340 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
26508277 ATGAGTACAC
26508287 ATTTAATATATTTAACATGTTTA
1 ATTTAATATATTTAACATGTTTA
* * **
26508310 ATAT-ATATTTTTATTAT-TTTA
1 ATTTAATATATTTAACATGTTTA
26508331 ATTTAATATA
1 ATTTAATATA
26508341 AACATATAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
21 7 0.29
22 14 0.58
23 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTAATATATTTAACATGTTTA
Found at i:26509373 original size:16 final size:17
Alignment explanation
Indices: 26509349--26509385 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
26509339 TTATTAATAT
*
26509349 AATATATAAAT-ATAAA
1 AATAAATAAATAATAAA
26509365 AATAAATAAATAATAAA
1 AATAAATAAATAATAAA
26509382 AATA
1 AATA
26509386 TTATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAATAAATAATAAA
Found at i:26514752 original size:16 final size:17
Alignment explanation
Indices: 26514731--26514762 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26514721 ATGATACATA
26514731 TTTTA-TTTTAAATATT
1 TTTTATTTTTAAATATT
26514747 TTTTATTTTTAAATAT
1 TTTTATTTTTAAATAT
26514763 ATATTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTATTTTTAAATATT
Found at i:26515404 original size:6 final size:6
Alignment explanation
Indices: 26515393--26515426 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
26515383 TTCTCCGTTG
* *
26515393 TATAAT TATAAT TATAAC TATAAT TATGAT TATA
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATA
26515427 TTTTATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (6 bp):
TATAAT
Found at i:26515671 original size:27 final size:25
Alignment explanation
Indices: 26515615--26515676 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 25
26515605 TGAGAAAGAC
* *
26515615 AATAAATATTAATTATTTTTTATAT
1 AATAAATATTAATTATTTTTGAAAT
* *
26515640 GATAAATATATTATTATCTTTTGAAAT
1 AATAAATAT-TAATTAT-TTTTGAAAT
*
26515667 AATAATTATT
1 AATAAATATT
26515677 TTTATATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 8 0.28
26 7 0.24
27 14 0.48
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (25 bp):
AATAAATATTAATTATTTTTGAAAT
Found at i:26515830 original size:18 final size:20
Alignment explanation
Indices: 26515809--26515845 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
26515799 ATCACTATTA
26515809 TTTTTATTT-AT-TAAAAAG
1 TTTTTATTTGATATAAAAAG
26515827 TTTTTATTTGATATAAAAA
1 TTTTTATTTGATATAAAAA
26515846 TAATTTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTTTATTTGATATAAAAAG
Found at i:26518230 original size:2 final size:2
Alignment explanation
Indices: 26518223--26518252 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26518213 TTAATCCATT
26518223 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26518253 ATTCGAATTC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26519473 original size:2 final size:2
Alignment explanation
Indices: 26519466--26519496 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26519456 AATTCATTTT
26519466 TA TA 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 TA TA T
26519497 TAGTTGTCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26520317 original size:19 final size:19
Alignment explanation
Indices: 26520293--26520340 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
26520283 TATTTTTTAC
*
26520293 ATAATTTATATTAT-AAAAA
1 ATAATTTAT-CTATCAAAAA
26520312 ATAATTTATCTATCAAAAA
1 ATAATTTATCTATCAAAAA
26520331 ATATATTTAT
1 ATA-ATTTAT
26520341 TAATTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 6 0.23
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATTTATCTATCAAAAA
Found at i:26524923 original size:15 final size:15
Alignment explanation
Indices: 26524903--26524935 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
26524893 GCCTTTTAAA
26524903 ATTAT-AATTATTTAT
1 ATTATAAATT-TTTAT
26524918 ATTATAAATTTTTAT
1 ATTATAAATTTTTAT
26524933 ATT
1 ATT
26524936 TTCATACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATAAATTTTTAT
Found at i:26526505 original size:85 final size:85
Alignment explanation
Indices: 26526355--26526519 Score: 233
Period size: 85 Copynumber: 1.9 Consensus size: 85
26526345 AATCTCATTG
* * * * *
26526355 TAACTGACAAAAATCTTATTGCAAATGTTTTAAGCACTTGCTATTATAATCCTCAAATCTCTGCT
1 TAACTGACAAAAATCTTATTGCAAATGTTTTAACCACCTCCTATTATAATCCTAAAAACTCTGCT
26526420 TACCCTTTTTTTTTTCTTTT
66 TACCCTTTTTTTTTTCTTTT
* * * *
26526440 TAACTGGCAAAAAT-TTCATTGTAAATGTTTTAACCACCTCCTATTATAATCCTAAAAAGTTTGC
1 TAACTGACAAAAATCTT-ATTGCAAATGTTTTAACCACCTCCTATTATAATCCTAAAAACTCTGC
26526504 TTACCCTTTTTTTTTT
65 TTACCCTTTTTTTTTT
26526520 TTTCTTTTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
84 2 0.03
85 68 0.97
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.45
Consensus pattern (85 bp):
TAACTGACAAAAATCTTATTGCAAATGTTTTAACCACCTCCTATTATAATCCTAAAAACTCTGCT
TACCCTTTTTTTTTTCTTTT
Found at i:26528299 original size:17 final size:17
Alignment explanation
Indices: 26528257--26528300 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
26528247 ACTTAGATTT
26528257 AAATTCAAAATATTTTAC
1 AAATT-AAAATATTTTAC
*
26528275 CAATTAAAATATTTTA-
1 AAATTAAAATATTTTAC
26528291 AAATATAAAA
1 AAAT-TAAAA
26528301 CTCAATTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 16 0.70
18 4 0.17
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAAAATATTTTAC
Found at i:26529329 original size:16 final size:16
Alignment explanation
Indices: 26529306--26529366 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
26529296 TCAAGAATGA
26529306 TCAAATTT-AAAGTAAT
1 TCAAATTTCAAA-TAAT
* *
26529322 TTAAATTTGAAATAAT
1 TCAAATTTCAAATAAT
26529338 TCAAATTTCAAATAAT
1 TCAAATTTCAAATAAT
* *
26529354 TCTAATGTCAAAT
1 TCAAATTTCAAAT
26529367 TATTTAAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
16 36 0.92
17 3 0.08
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (16 bp):
TCAAATTTCAAATAAT
Found at i:26531079 original size:21 final size:21
Alignment explanation
Indices: 26531038--26531094 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
26531028 TGAAAATTTT
**
26531038 AATTAAAAATAATTAAATAAA
1 AATTAAAAATAAAAAAATAAA
*
26531059 AATT-AAAATAAAAAAATTAA
1 AATTAAAAATAAAAAAATAAA
*
26531079 AATCAAGAAATAAAAA
1 AATTAA-AAATAAAAA
26531095 GATTTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 16 0.53
21 5 0.17
22 9 0.30
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
AATTAAAAATAAAAAAATAAA
Found at i:26533027 original size:7 final size:7
Alignment explanation
Indices: 26533015--26533040 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
26533005 ATAAACAAAC
26533015 AATAATT
1 AATAATT
26533022 AATAATT
1 AATAATT
26533029 AATAATT
1 AATAATT
26533036 AATAA
1 AATAA
26533041 AGTAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATAATT
Found at i:26539887 original size:3 final size:3
Alignment explanation
Indices: 26539879--26539907 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26539869 TACAGAAGGA
26539879 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26539908 AGCTGCAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:26541296 original size:13 final size:12
Alignment explanation
Indices: 26541270--26541294 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26541260 ATTTGAAATA
26541270 TAAATAATTTTT
1 TAAATAATTTTT
26541282 TAAATAATTTTT
1 TAAATAATTTTT
26541294 T
1 T
26541295 TATATATTAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAAATAATTTTT
Found at i:26542506 original size:16 final size:16
Alignment explanation
Indices: 26542487--26542517 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26542477 ATTATTTATA
26542487 TTTAAATTATTTTAAG
1 TTTAAATTATTTTAAG
*
26542503 TTTAAATTCTTTTAA
1 TTTAAATTATTTTAA
26542518 ATTTGATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTAAATTATTTTAAG
Found at i:26542555 original size:19 final size:19
Alignment explanation
Indices: 26542531--26542593 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
26542521 TGATAAATTC
26542531 AATTTTAAATATTTTTTAA
1 AATTTTAAATATTTTTTAA
** * *
26542550 AATTTTACGTAATATTTAA
1 AATTTTAAATATTTTTTAA
** *
26542569 TCTTTTCAATATATTTTTAA
1 AATTTTAAATAT-TTTTTAA
26542589 AATTT
1 AATTT
26542594 AAGTCAAGTT
Statistics
Matches: 30, Mismatches: 13, Indels: 1
0.68 0.30 0.02
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (19 bp):
AATTTTAAATATTTTTTAA
Found at i:26549724 original size:104 final size:105
Alignment explanation
Indices: 26549544--26549950 Score: 486
Period size: 104 Copynumber: 3.9 Consensus size: 105
26549534 TGCAAAAAAA
* * * * * * *
26549544 TCTTAGAGATTATGCTCG-TAGGTTTTAGAAATCTCAACATTTTTAAATGCTCTTCGTATCAGAG
1 TCTTAGAGATTATGCTCGAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCATCATATCAGAG
* * *
26549608 GAATTGAAACTTTGAAATTTTAAAATGTTTTACTCGGAGG
66 GTATTAAAACTTTGAAATTTTAAAATATTTTACTCGGAGG
* *
26549648 TCTTAGAGATTATACTCGA-AGGTCTTACAAATCTCAACATCTTTGAATGCTCATCATATCATAG
1 TCTTAGAGATTATGCTCGAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCATCATATCAGAG
* * * **
26549712 GTATTAAAACTTTGAAAATTTAAAATATTTTGCCCAAAGG
66 GTATTAAAACTTTGAAATTTTAAAATATTTTACTCGGAGG
* * ** *
26549752 TCTT-GAAAATTATGC-CAAGAGGTCTTACAAATCTCAACATCTTTGAACACTCATCATATCAAA
1 TCTTAG-AGATTATGCTCGAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCATCATATCAGA
* *
26549815 GGCATTAAAACTTTAAAATTTTAAAATATTTTACTCGGAGG
65 GGTATTAAAACTTTGAAATTTTAAAATATTTTACTCGGAGG
* *
26549856 TCTTAGAGATTATG-TCGAGAGGTCTTACAAATCTCAATATCTTTGAATGCT--TCTAGAATCAG
1 TCTTAGAGATTATGCTCGAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCATC-A-TATCAG
* *
26549918 AGGTATTGAAACTTTGAAATTTTAAAATGTTTT
64 AGGTATTAAAACTTTGAAATTTTAAAATATTTT
26549951 GTCCAGAGGT
Statistics
Matches: 256, Mismatches: 40, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
102 2 0.01
103 4 0.02
104 249 0.97
105 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (105 bp):
TCTTAGAGATTATGCTCGAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCATCATATCAGAG
GTATTAAAACTTTGAAATTTTAAAATATTTTACTCGGAGG
Found at i:26549986 original size:208 final size:208
Alignment explanation
Indices: 26549563--26549973 Score: 576
Period size: 208 Copynumber: 2.0 Consensus size: 208
26549553 TTATGCTCGT
* * * ** * * * * *
26549563 AGGTTTTAGAAATCTCAACATTTTTAAATGCTCTTCGTATCAGAGGAATTGAAACTTTGAAATTT
1 AGGTCTTACAAATCTCAACATCTTTAAACACTCATCATATCAAAGGAATTAAAACTTTAAAATTT
*
26549628 TAAAATGTTTTACTCGGAGGTCTTAGAGATTATACTCGAAGGTCTTACAAATCTCAACATCTTTG
66 TAAAATATTTTACTCGGAGGTCTTAGAGATTATACTCGAAGGTCTTACAAATCTCAACATCTTTG
* *
26549693 AATGCTCATCATATCATAGGTATTAAAACTTTGAAAATTTAAAATATTTTGCCCAAAGGTCTTGA
131 AATGCTCATCAAATCAGAGGTATTAAAACTTTGAAAATTTAAAATATTTTGCCCAAAGGTCTTGA
26549758 AAATTATGCCAAG
196 AAATTATGCCAAG
* *
26549771 AGGTCTTACAAATCTCAACATCTTTGAACACTCATCATATCAAAGGCATTAAAACTTTAAAATTT
1 AGGTCTTACAAATCTCAACATCTTTAAACACTCATCATATCAAAGGAATTAAAACTTTAAAATTT
* *
26549836 TAAAATATTTTACTCGGAGGTCTTAGAGATTAT-GTCGAGAGGTCTTACAAATCTCAATATCTTT
66 TAAAATATTTTACTCGGAGGTCTTAGAGATTATACTCGA-AGGTCTTACAAATCTCAACATCTTT
* * * * *
26549900 GAATGCT--TCTAGAATCAGAGGTATTGAAACTTTGAAATTTTAAAATGTTTTGTCCAGAGGTCT
130 GAATGCTCATC-A-AATCAGAGGTATTAAAACTTTGAAAATTTAAAATATTTTGCCCAAAGGTCT
26549963 TGAAAATTATG
193 TGAAAATTATG
26549974 TTGGAAGGTC
Statistics
Matches: 178, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
206 2 0.01
207 5 0.03
208 171 0.96
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (208 bp):
AGGTCTTACAAATCTCAACATCTTTAAACACTCATCATATCAAAGGAATTAAAACTTTAAAATTT
TAAAATATTTTACTCGGAGGTCTTAGAGATTATACTCGAAGGTCTTACAAATCTCAACATCTTTG
AATGCTCATCAAATCAGAGGTATTAAAACTTTGAAAATTTAAAATATTTTGCCCAAAGGTCTTGA
AAATTATGCCAAG
Found at i:26550088 original size:33 final size:33
Alignment explanation
Indices: 26550051--26550116 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
26550041 TGGGTTTAGT
*
26550051 TATCATTT-GAGTGTCAGCTAAACTAGGCTTAAA
1 TATCATTTAG-GTGCCAGCTAAACTAGGCTTAAA
* *
26550084 TATCATTTAGGTGCCAGCTAAATTGGGCTTAAA
1 TATCATTTAGGTGCCAGCTAAACTAGGCTTAAA
26550117 GTGCCAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (33 bp):
TATCATTTAGGTGCCAGCTAAACTAGGCTTAAA
Found at i:26550121 original size:23 final size:23
Alignment explanation
Indices: 26550094--26550173 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 23
26550084 TATCATTTAG
*
26550094 GTGCCAGCTAAATTGGGCTTAAA
1 GTGCCAGCTAAATTGGGTTTAAA
* * **
26550117 GTGCCAACTAAACTGGGTTTAGT
1 GTGCCAGCTAAATTGGGTTTAAA
* * *
26550140 TTGCTAGCTAAATTAGGTTTAAA
1 GTGCCAGCTAAATTGGGTTTAAA
*
26550163 GTGCTAGCTAA
1 GTGCCAGCTAA
26550174 TCTGGACTTG
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (23 bp):
GTGCCAGCTAAATTGGGTTTAAA
Found at i:26550570 original size:16 final size:16
Alignment explanation
Indices: 26550551--26550580 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26550541 ACTTACTACT
26550551 TTTTTC-TTTCTTTTC
1 TTTTTCATTTCTTTTC
26550566 TTTTTCATTTCTTTT
1 TTTTTCATTTCTTTT
26550581 ACTACTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCATTTCTTTTC
Found at i:26552372 original size:16 final size:17
Alignment explanation
Indices: 26552339--26552372 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26552329 GTGCTTGTGG
26552339 CATATGAAGATCTTGAA
1 CATATGAAGATCTTGAA
*
26552356 CATATGAATAT-TTGAA
1 CATATGAAGATCTTGAA
26552372 C
1 C
26552373 TCAAGTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (17 bp):
CATATGAAGATCTTGAA
Found at i:26557588 original size:3 final size:3
Alignment explanation
Indices: 26557577--26557635 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
26557567 TTTTATTTAA
26557577 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26557624 AAT AAT AAT AAT
1 AAT AAT AAT AAT
26557636 GAAATTGAGC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26559682 original size:13 final size:13
Alignment explanation
Indices: 26559644--26559687 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
26559634 GAGATAAATC
26559644 AATAACTAAAGATA
1 AATAA-TAAAGATA
*
26559658 AATCAGTAAAGATA
1 AAT-AATAAAGATA
26559672 AATAATAAAGATA
1 AATAATAAAGATA
26559685 AAT
1 AAT
26559688 GAAATAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 12 0.44
14 14 0.52
15 1 0.04
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.23
Consensus pattern (13 bp):
AATAATAAAGATA
Found at i:26559696 original size:27 final size:28
Alignment explanation
Indices: 26559644--26559708 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
26559634 GAGATAAATC
* *
26559644 AATAACTAAAGATAAATCAGTAAAGA-TA
1 AATAA-TAAAGATAAATAAATAAAGAGTA
26559672 AATAATAAAGATAAATGAAAT-AAGAGTA
1 AATAATAAAGATAAAT-AAATAAAGAGTA
*
26559700 AAAAATAAA
1 AATAATAAA
26559709 TAAATAGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 15 0.47
28 17 0.53
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (28 bp):
AATAATAAAGATAAATAAATAAAGAGTA
Found at i:26559712 original size:39 final size:38
Alignment explanation
Indices: 26559669--26559805 Score: 93
Period size: 39 Copynumber: 3.5 Consensus size: 38
26559659 ATCAGTAAAG
26559669 ATAAATAATAAAGATAAATGAAATAAGAGTAAAAAATAA
1 ATAAATAATAAA-ATAAATGAAATAAGAGTAAAAAATAA
** * * *
26559708 ATAAATAGCAAAAAAAAGTAAAGATAA-AGAAAAAAATAAA
1 ATAAATAATAAAATAAA-TGAA-ATAAGAGTAAAAAAT-AA
* * *
26559748 ATAAA-AAGT-AAATAAAGGTAAATAAG-CTAAAATTATAA
1 ATAAATAA-TAAAATAAATG-AAATAAGAGTAAAA-AATAA
26559786 ATTAAATAATAAAGATAAAT
1 A-TAAATAATAAA-ATAAAT
26559806 AAGTGAAATA
Statistics
Matches: 73, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
38 15 0.21
39 38 0.52
40 15 0.21
41 5 0.07
ACGTcount: A:0.69, C:0.01, G:0.09, T:0.20
Consensus pattern (38 bp):
ATAAATAATAAAATAAATGAAATAAGAGTAAAAAATAA
Found at i:26559740 original size:18 final size:17
Alignment explanation
Indices: 26559718--26559752 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
26559708 ATAAATAGCA
26559718 AAAAAAAGTAAAGATAAAG
1 AAAAAAA-TAAA-ATAAAG
26559737 AAAAAAATAAAATAAA
1 AAAAAAATAAAATAAA
26559753 AAGTAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (17 bp):
AAAAAAATAAAATAAAG
Found at i:26559755 original size:19 final size:20
Alignment explanation
Indices: 26559699--26559755 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 20
26559689 AAATAAGAGT
*
26559699 AAAAAAT-AAATAAATAGCAA
1 AAAAAATAAAATAAAAAG-AA
26559719 AAAAAAGTAAAGAT--AAAG-A
1 AAAAAA-TAAA-ATAAAAAGAA
26559738 AAAAAATAAAATAAAAAG
1 AAAAAATAAAATAAAAAG
26559756 TAAATAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
17 2 0.06
18 4 0.13
19 11 0.35
20 6 0.19
21 4 0.13
22 2 0.06
23 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (20 bp):
AAAAAATAAAATAAAAAGAA
Found at i:26559828 original size:35 final size:35
Alignment explanation
Indices: 26559740--26559829 Score: 87
Period size: 35 Copynumber: 2.5 Consensus size: 35
26559730 GATAAAGAAA
* *
26559740 AAAATAAAATAAAAAGTAAATAAAGGTAAATAAGCT
1 AAAATAAAATAAAAAAT-AATAAAGATAAATAAGCT
*
26559776 AAAATTATAAAT--TAAATAATAAAGATAAATAAG-T
1 AAAA-TA-AAATAAAAAATAATAAAGATAAATAAGCT
*
26559810 GAAATAACAATAAAAAATAA
1 AAAATAA-AATAAAAAATAA
26559830 AAAATTAAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
32 1 0.02
33 5 0.11
34 4 0.09
35 21 0.48
36 7 0.16
37 2 0.05
38 4 0.09
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (35 bp):
AAAATAAAATAAAAAATAATAAAGATAAATAAGCT
Found at i:26565110 original size:216 final size:216
Alignment explanation
Indices: 26564847--26565258 Score: 716
Period size: 216 Copynumber: 1.9 Consensus size: 216
26564837 AACTAAATCT
* * *
26564847 GTTTCACCTTAAAAAGGAGTCTCAAACTTGATTTGAGTATGTTTAAAATGTAGATTCTAGTTTAC
1 GTTTCACCTTAAAAAGAAGTCTCAAACTTGATTTGAGTATCTTTAAAATGTAAATTCTAGTTTAC
* * **
26564912 GAAATCATATTTTAAATTTGAAAATATGGTTACATGTGAGGATAGTTACAGCACCCTTATTCAAT
66 GAAATCAGATTTTAAATTTGAAAATATGGTTACACGTGAGGATAGTTACAGCACCCACATTCAAT
*
26564977 CCATCCAAAAGATGGTACTAGTTTGATTTCAAATTATGCAAGCCATGAAGTCTTTTTGTAATTTT
131 CCATCCAAAAGATGGTACTAGTTTGATTTCAAATTATGCAAGCCATGAAATCTTTTTGTAATTTT
26565042 AAAAAGGAGTATCTTTTTGTA
196 AAAAAGGAGTATCTTTTTGTA
* *
26565063 GTTTCACTTTAAAAAGAAGTCTCAAACTTGATTTGAGTATCTTTAAAATGTAAATTCTAGTTTAT
1 GTTTCACCTTAAAAAGAAGTCTCAAACTTGATTTGAGTATCTTTAAAATGTAAATTCTAGTTTAC
*
26565128 GAAATCAGATTTTAGATTTGAAAATATGGTTACACGTGAGGATAGTTACAGCACCCACATTCAAT
66 GAAATCAGATTTTAAATTTGAAAATATGGTTACACGTGAGGATAGTTACAGCACCCACATTCAAT
*
26565193 CTATCCAAAAGATGGTACTAGTTTGATTTCAAATTATGCAAGCCATGAAATCTTTTTGTAATTTT
131 CCATCCAAAAGATGGTACTAGTTTGATTTCAAATTATGCAAGCCATGAAATCTTTTTGTAATTTT
26565258 A
196 A
26565259 CCAAATAATT
Statistics
Matches: 184, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
216 184 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (216 bp):
GTTTCACCTTAAAAAGAAGTCTCAAACTTGATTTGAGTATCTTTAAAATGTAAATTCTAGTTTAC
GAAATCAGATTTTAAATTTGAAAATATGGTTACACGTGAGGATAGTTACAGCACCCACATTCAAT
CCATCCAAAAGATGGTACTAGTTTGATTTCAAATTATGCAAGCCATGAAATCTTTTTGTAATTTT
AAAAAGGAGTATCTTTTTGTA
Found at i:26565735 original size:14 final size:13
Alignment explanation
Indices: 26565709--26565734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26565699 GGTAAGATCA
26565709 AAAAACATTTTTT
1 AAAAACATTTTTT
26565722 AAAAACATTTTTT
1 AAAAACATTTTTT
26565735 TTTAATTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAAACATTTTTT
Found at i:26565823 original size:7 final size:7
Alignment explanation
Indices: 26565811--26565895 Score: 50
Period size: 7 Copynumber: 12.4 Consensus size: 7
26565801 AATAAATATC
26565811 AAAATAA
1 AAAATAA
26565818 AAAATAA
1 AAAATAA
* *
26565825 TATATAA
1 AAAATAA
26565832 AAAATATA
1 AAAATA-A
* *
26565840 AAATTGA
1 AAAATAA
26565847 AAAATAA
1 AAAATAA
*
26565854 AACA-AA
1 AAAATAA
*
26565860 AAAAT-C
1 AAAATAA
**
26565866 AAAGCAA
1 AAAATAA
26565873 AAAATAA
1 AAAATAA
*
26565880 ACAA-AA
1 AAAATAA
*
26565886 AAAAGAA
1 AAAATAA
26565893 AAA
1 AAA
26565896 CCTGAGATCA
Statistics
Matches: 56, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
6 13 0.23
7 38 0.68
8 5 0.09
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:26565826 original size:22 final size:21
Alignment explanation
Indices: 26565799--26565864 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
26565789 TCAAATAACT
*
26565799 ATAATAAATATCAAAATAAAAA
1 ATAATAAATA-AAAAATAAAAA
*
26565821 ATAATATATAAAAAATATAAAA
1 ATAATAAATAAAAAATA-AAAA
* *
26565843 TTGAA-AAATAAAACA-AAAAA
1 AT-AATAAATAAAAAATAAAAA
26565863 AT
1 AT
26565865 CAAAGCAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
20 5 0.14
21 7 0.19
22 22 0.61
23 2 0.06
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.23
Consensus pattern (21 bp):
ATAATAAATAAAAAATAAAAA
Found at i:26565836 original size:29 final size:28
Alignment explanation
Indices: 26565791--26565889 Score: 87
Period size: 29 Copynumber: 3.6 Consensus size: 28
26565781 AGATTAATTC
* *
26565791 AAATAACTATAATAAATATCAAAATAAA
1 AAATAAATATAAAAAATATCAAAATAAA
*
26565819 AAATAATATATAAAAAATAT-AAAATTGAA
1 AAATAA-ATATAAAAAATATCAAAA-TAAA
* **
26565848 AAATAAA-ACAAAAAA-ATCAAAGCAAA
1 AAATAAATATAAAAAATATCAAAATAAA
* *
26565874 AAATAAACAAAAAAAA
1 AAATAAATATAAAAAA
26565890 GAAAAACCTG
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
26 11 0.19
27 17 0.29
28 11 0.19
29 20 0.34
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.18
Consensus pattern (28 bp):
AAATAAATATAAAAAATATCAAAATAAA
Found at i:26565862 original size:13 final size:13
Alignment explanation
Indices: 26565846--26565888 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
26565836 TATAAAATTG
26565846 AAAAATAAAACAA
1 AAAAATAAAACAA
*
26565859 AAAAATCAAAGC-A
1 AAAAAT-AAAACAA
26565872 AAAAAT-AAACAA
1 AAAAATAAAACAA
26565884 AAAAA
1 AAAAA
26565889 AGAAAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 3 0.12
12 6 0.23
13 13 0.50
14 4 0.15
ACGTcount: A:0.81, C:0.09, G:0.02, T:0.07
Consensus pattern (13 bp):
AAAAATAAAACAA
Found at i:26565945 original size:21 final size:22
Alignment explanation
Indices: 26565919--26565963 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
26565909 CAGATCTAGA
26565919 GCAT-GGGTTAATGTGCGGGTT
1 GCATGGGGTTAATGTGCGGGTT
26565940 GCATGGGGTTAATGTGCGGGTT
1 GCATGGGGTTAATGTGCGGGTT
26565962 GC
1 GC
26565964 CAGGTTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.13, C:0.11, G:0.44, T:0.31
Consensus pattern (22 bp):
GCATGGGGTTAATGTGCGGGTT
Found at i:26567381 original size:214 final size:214
Alignment explanation
Indices: 26567011--26567422 Score: 754
Period size: 214 Copynumber: 1.9 Consensus size: 214
26567001 GTAAAATTAA
26567011 ACAAATCAAGAAATCAAATTAAAATTAAAATTTTTACTATTAGGGCTGAAGCTTCCTAATCAAGC
1 ACAAATCAAGAAATCAAATTAAAATTAAAATTTTTACTATTAGGGCTGAAGCTTCCTAATCAAGC
*
26567076 CCAATTAATCATCGAAGGCTCGTTTTCAGTTTTGAAAAAATTTTCAAACAAAATGCGGTGTCTAC
66 CCAATTAATCATCGAAGGCTCGTTTTCAGTCTTGAAAAAATTTTCAAACAAAATGCGGTGTCTAC
*
26567141 AGGTACCTCTTTTTACACAATTTCTGTGAAACAATAATTGCCTAAAGACAAAAGACATTTTTTTT
131 AGGTACCTCTCTTTACACAATTTCTGTGAAACAATAATTGCCTAAAGACAAAAGACATTTTTTTT
26567206 GTTTAAGGATTTCTGATTT
196 GTTTAAGGATTTCTGATTT
*
26567225 ACAAATCAATAAATCAAATTAAAATTAAAATTTTTACTATTAGGGCTGAAGCTTCCTAATCAAGC
1 ACAAATCAAGAAATCAAATTAAAATTAAAATTTTTACTATTAGGGCTGAAGCTTCCTAATCAAGC
*
26567290 CCAATTAATCATCGAAGGC-CAGTTTTCAGTCTTGAAAAAATTTTCAGACAAAATGCGGTGTCTA
66 CCAATTAATCATCGAAGGCTC-GTTTTCAGTCTTGAAAAAATTTTCAAACAAAATGCGGTGTCTA
* *
26567354 CAGGTACCTCTCTTTGCACAGTTTCTGTGAAACAATAATTGCCTAAAGACAAAAGACATTTTTTT
130 CAGGTACCTCTCTTTACACAATTTCTGTGAAACAATAATTGCCTAAAGACAAAAGACATTTTTTT
26567419 TGTT
195 TGTT
26567423 CGAGTTCAAA
Statistics
Matches: 191, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
213 1 0.01
214 190 0.99
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (214 bp):
ACAAATCAAGAAATCAAATTAAAATTAAAATTTTTACTATTAGGGCTGAAGCTTCCTAATCAAGC
CCAATTAATCATCGAAGGCTCGTTTTCAGTCTTGAAAAAATTTTCAAACAAAATGCGGTGTCTAC
AGGTACCTCTCTTTACACAATTTCTGTGAAACAATAATTGCCTAAAGACAAAAGACATTTTTTTT
GTTTAAGGATTTCTGATTT
Found at i:26567451 original size:15 final size:15
Alignment explanation
Indices: 26567430--26567464 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26567420 GTTCGAGTTC
*
26567430 AAAAAAATAAAAAATT
1 AAAAAAA-AAAAACTT
26567446 AAAAAAAAAAAACTT
1 AAAAAAAAAAAACTT
26567461 AAAA
1 AAAA
26567465 TCCAAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAAAAAAAACTT
Found at i:26567708 original size:18 final size:18
Alignment explanation
Indices: 26567630--26567732 Score: 68
Period size: 18 Copynumber: 5.7 Consensus size: 18
26567620 AAGAATTTTC
* *
26567630 AAGATTTGCAATGATTCT
1 AAGATTTGTAAAGATTCT
* *
26567648 AAAAGTTTGTAAATAATT-T
1 AAGA-TTTGTAAA-GATTCT
* *
26567667 AAGA-TTGTAAAAAATCCT
1 AAGATTTGT-AAAGATTCT
* *
26567685 AGGATTTGTAGAGATT-T
1 AAGATTTGTAAAGATTCT
*
26567702 CAAGATTCGTAAAGATTCT
1 -AAGATTTGTAAAGATTCT
26567721 AAGATTTGTAAA
1 AAGATTTGTAAA
26567733 AAACAAAATC
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
17 8 0.12
18 38 0.59
19 15 0.23
20 3 0.05
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.36
Consensus pattern (18 bp):
AAGATTTGTAAAGATTCT
Found at i:26567727 original size:36 final size:36
Alignment explanation
Indices: 26567626--26567732 Score: 92
Period size: 36 Copynumber: 2.9 Consensus size: 36
26567616 TCACAAGAAT
* * *
26567626 TTTCAAGATTTGCAATGATTCTAAAAGTTTGTAAATAA
1 TTTCAAGA-TTGTAAAGATTCTAAGA-TTTGTAAATAA
* * * * *
26567664 TTT-AAGATTGTAAAAAATCCTAGGATTTGTAGA-GA
1 TTTCAAGATTGT-AAAGATTCTAAGATTTGTAAATAA
26567699 TTTCAAGATTCGTAAAGATTCTAAGATTTGTAAA
1 TTTCAAGATT-GTAAAGATTCTAAGATTTGTAAA
26567733 AAACAAAATC
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
35 4 0.07
36 33 0.61
37 14 0.26
38 3 0.06
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.37
Consensus pattern (36 bp):
TTTCAAGATTGTAAAGATTCTAAGATTTGTAAATAA
Found at i:26568274 original size:23 final size:22
Alignment explanation
Indices: 26568233--26568275 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
26568223 AAACTTAGAG
*
26568233 ATTCACATCAAAAATTTTAAAA
1 ATTCACATCAAAAAGTTTAAAA
*
26568255 ATTCACATTCAAAAGGTTTAA
1 ATTCACA-TCAAAAAGTTTAA
26568276 TGTTTCACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.33
Consensus pattern (22 bp):
ATTCACATCAAAAAGTTTAAAA
Found at i:26568337 original size:22 final size:21
Alignment explanation
Indices: 26568274--26568352 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 21
26568264 CAAAAGGTTT
26568274 AATGTTTCACAACCAAAATTTC
1 AATGTTTCAC-ACCAAAATTTC
*
26568296 AATGATTTTCATCTA-AAAAATTTC
1 AATG--TTTCA-C-ACCAAAATTTC
26568320 AATGTTTCACAGCCAAAATTTC
1 AATGTTTCACA-CCAAAATTTC
* *
26568342 AAAGATTCACA
1 AATGTTTCACA
26568353 TAAGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 26 0.55
24 17 0.36
25 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (21 bp):
AATGTTTCACACCAAAATTTC
Found at i:26568337 original size:24 final size:24
Alignment explanation
Indices: 26568274--26568337 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
26568264 CAAAAGGTTT
26568274 AATGTTTCACAACC--AAAATTTC
1 AATGTTTCACAACCAAAAAATTTC
* * *
26568296 AATGATTT-TCATCTAAAAAATTTC
1 AATG-TTTCACAACCAAAAAATTTC
*
26568320 AATGTTTCACAGCCAAAA
1 AATGTTTCACAACCAAAA
26568338 TTTCAAAGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
22 7 0.22
23 6 0.19
24 19 0.59
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (24 bp):
AATGTTTCACAACCAAAAAATTTC
Found at i:26568361 original size:46 final size:46
Alignment explanation
Indices: 26568234--26568390 Score: 124
Period size: 46 Copynumber: 3.4 Consensus size: 46
26568224 AACTTAGAGA
* * * * **
26568234 TTCACATCAAAAATTTTAAAAATTCACATTC-AAAAGGTTT-AATGT
1 TTCACAACCAAAATTTCAAAGATTCACA-TCAAAAAAATTTCAATGT
* ** *
26568279 TTCACAACCAAAATTTCAATGATTTTCATCTAAAAAATTTCAATGT
1 TTCACAACCAAAATTTCAAAGATTCACATCAAAAAAATTTCAATGT
* * *
26568325 TTCACAGCCAAAATTTCAAAGATTCACAT-AAGAAAAATTTTAGA-GA
1 TTCACAACCAAAATTTCAAAGATTCACATCAA-AAAAATTTCA-ATGT
* *
26568371 TTCACATCCAAAGTTTCAAA
1 TTCACAACCAAAATTTCAAA
26568391 AGTTCTTTTA
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
44 2 0.02
45 29 0.32
46 58 0.64
47 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (46 bp):
TTCACAACCAAAATTTCAAAGATTCACATCAAAAAAATTTCAATGT
Found at i:26568422 original size:45 final size:47
Alignment explanation
Indices: 26568325--26568503 Score: 129
Period size: 46 Copynumber: 3.9 Consensus size: 47
26568315 ATTTCAATGT
* ** * * * *
26568325 TTCACAGCCAAAATTTC-AAAGATTCACA-TAAGAAAAATTTTAGAGA
1 TTCACATCCAAAATTTCAAAAGATTCTTATTCA-AAAAACTTTAGGGC
* *
26568371 TTCACATCCAAAGTTTCAAAAG-TTCTT-TT-ACAAAAACTTTATGGC
1 TTCACATCCAAAATTTCAAAAGATTCTTATTCA-AAAAACTTTAGGGC
* * * *
26568416 TTCACATCAAAAAATTT-TAAAGATTCTTATTCAAAAAATTTTAGGGT
1 TTCACATC-CAAAATTTCAAAAGATTCTTATTCAAAAAACTTTAGGGC
* * **
26568463 TTCACATCCAAATTTTC-AAAGATTCTCATTTGAAAAACTTT
1 TTCACATCCAAAATTTCAAAAGATTCTTATTCAAAAAACTTT
26568504 TTTAAACAAA
Statistics
Matches: 105, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
45 23 0.22
46 56 0.53
47 25 0.24
48 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (47 bp):
TTCACATCCAAAATTTCAAAAGATTCTTATTCAAAAAACTTTAGGGC
Found at i:26568451 original size:46 final size:45
Alignment explanation
Indices: 26568357--26568503 Score: 120
Period size: 47 Copynumber: 3.2 Consensus size: 45
26568347 TTCACATAAG
* * * * *
26568357 AAAAATTTTAGAGATTCACATCCAAAGTTTCAAA-AGTTCTT-TTAC
1 AAAAACTTTAGGGCTTCACATCAAAATTTTCAAAGA-TTCTTATT-C
*
26568402 AAAAACTTTATGGCTTCACATCAAAAAATTTT-AAAGATTCTTATTC
1 AAAAACTTTAGGGCTTCACATC--AAAATTTTCAAAGATTCTTATTC
* * * * *
26568448 AAAAAATTTTAGGGTTTCACATCCAAATTTTCAAAGATTCTCATTTG
1 -AAAAACTTTAGGGCTTCACATCAAAATTTTCAAAGATTCTTA-TTC
26568495 AAAAACTTT
1 AAAAACTTT
26568504 TTTAAACAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
45 25 0.30
46 27 0.33
47 30 0.37
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (45 bp):
AAAAACTTTAGGGCTTCACATCAAAATTTTCAAAGATTCTTATTC
Found at i:26568474 original size:24 final size:23
Alignment explanation
Indices: 26568402--26568470 Score: 57
Period size: 24 Copynumber: 3.0 Consensus size: 23
26568392 GTTCTTTTAC
* * *
26568402 AAAAACTTTATGGCTTCACATCA
1 AAAAATTTTAAGGATTCACATCA
* **
26568425 AAAAATTTTAAAGATTCTTATTCA
1 AAAAATTTTAAGGATTCACA-TCA
* *
26568449 AAAAATTTTAGGGTTTCACATC
1 AAAAATTTTAAGGATTCACATC
26568471 CAAATTTTCA
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
23 16 0.47
24 18 0.53
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (23 bp):
AAAAATTTTAAGGATTCACATCA
Found at i:26569856 original size:19 final size:19
Alignment explanation
Indices: 26569834--26569873 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
26569824 TTTCTTTCTC
26569834 TTTTTTC-CTTTTTTCATT
1 TTTTTTCACTTTTTTCATT
*
26569852 TTTTTTCATTTTTTTCATT
1 TTTTTTCACTTTTTTCATT
26569871 TTT
1 TTT
26569874 CATCATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTCACTTTTTTCATT
Found at i:26569872 original size:26 final size:26
Alignment explanation
Indices: 26569834--26569885 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
26569824 TTTCTTTCTC
* **
26569834 TTTTTTCCTTTTTTCATTTTTTTTCA
1 TTTTTTCCATTTTTCATCATTTTTCA
*
26569860 TTTTTTTCATTTTTCATCATTTTTCA
1 TTTTTTCCATTTTTCATCATTTTTCA
26569886 AGAAATATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTTTCCATTTTTCATCATTTTTCA
Found at i:26569873 original size:10 final size:10
Alignment explanation
Indices: 26569842--26569883 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
26569832 TCTTTTTTCC
26569842 TTTTTTCATT
1 TTTTTTCATT
26569852 TTTTTTCA-T
1 TTTTTTCATT
26569861 TTTTTTCATT
1 TTTTTTCATT
**
26569871 TTTCATCATT
1 TTTTTTCATT
26569881 TTT
1 TTT
26569884 CAAGAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 9 0.31
10 20 0.69
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:26569879 original size:19 final size:19
Alignment explanation
Indices: 26569842--26569883 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
26569832 TCTTTTTTCC
**
26569842 TTTTTTCATTTTTTTTCAT
1 TTTTTTCATTTTTCATCAT
26569861 TTTTTTCATTTTTCATCAT
1 TTTTTTCATTTTTCATCAT
26569880 TTTT
1 TTTT
26569884 CAAGAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTCATTTTTCATCAT
Found at i:26572848 original size:8 final size:8
Alignment explanation
Indices: 26572835--26572869 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
26572825 AATAACAGAT
26572835 ATATATAA
1 ATATATAA
26572843 ATATATAA
1 ATATATAA
26572851 ATATATAA
1 ATATATAA
* *
26572859 AAATACAA
1 ATATATAA
26572867 ATA
1 ATA
26572870 AAAAAAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (8 bp):
ATATATAA
Found at i:26573715 original size:58 final size:58
Alignment explanation
Indices: 26573649--26573759 Score: 213
Period size: 58 Copynumber: 1.9 Consensus size: 58
26573639 TTACACCCTC
*
26573649 TAATAGTTTGGTAAGACTTAATTCAAGAGTTAAATCCTTAAATAATTTAGTAGTCTGG
1 TAATAGTTTGGTAAGACTTAATTCAAGAGTTAAATCCTCAAATAATTTAGTAGTCTGG
26573707 TAATAGTTTGGTAAGACTTAATTCAAGAGTTAAATCCTCAAATAATTTAGTAG
1 TAATAGTTTGGTAAGACTTAATTCAAGAGTTAAATCCTCAAATAATTTAGTAG
26573760 GATTAAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (58 bp):
TAATAGTTTGGTAAGACTTAATTCAAGAGTTAAATCCTCAAATAATTTAGTAGTCTGG
Found at i:26573925 original size:30 final size:30
Alignment explanation
Indices: 26573869--26573924 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
26573859 AGTAAATATT
*
26573869 AAAATATAAAAATAATATATAAAAAAACAC
1 AAAATATAAAAATAAAATATAAAAAAACAC
*
26573899 AAAATATAAAATTAAAAT-TAAAAAAA
1 AAAATATAAAAATAAAATATAAAAAAA
26573925 AAAGTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (30 bp):
AAAATATAAAAATAAAATATAAAAAAACAC
Found at i:26575073 original size:4 final size:4
Alignment explanation
Indices: 26575064--26575093 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
26575054 TAAACAAAAA
*
26575064 AATC AATC AATT AATC AATC AATC AATC AA
1 AATC AATC AATC AATC AATC AATC AATC AA
26575094 ATTAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (4 bp):
AATC
Found at i:26576297 original size:13 final size:13
Alignment explanation
Indices: 26576274--26576328 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
26576264 TATAAATATG
26576274 AAATAC-AAGAAA
1 AAATACAAAGAAA
*
26576286 AAATACCAAG-AA
1 AAATACAAAGAAA
* *
26576298 TAATACAAAATAAA
1 AAATAC-AAAGAAA
*
26576312 AAATACAAAAAAA
1 AAATACAAAGAAA
26576325 AAAT
1 AAAT
26576329 CAAGGATGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
12 13 0.37
13 15 0.43
14 7 0.20
ACGTcount: A:0.75, C:0.09, G:0.04, T:0.13
Consensus pattern (13 bp):
AAATACAAAGAAA
Found at i:26576318 original size:14 final size:13
Alignment explanation
Indices: 26576299--26576328 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
26576289 TACCAAGAAT
26576299 AATACAAAATAAAA
1 AATACAAAA-AAAA
26576313 AATACAAAAAAAA
1 AATACAAAAAAAA
26576326 AAT
1 AAT
26576329 CAAGGATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (13 bp):
AATACAAAAAAAA
Found at i:26576326 original size:12 final size:12
Alignment explanation
Indices: 26576274--26576326 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
26576264 TATAAATATG
*
26576274 AAATACAAGAAA
1 AAATACAAAAAA
* *
26576286 AAATACCAAGAA
1 AAATACAAAAAA
*
26576298 TAATACAAAATAAA
1 AAATAC-AAA-AAA
26576312 AAATACAAAAAA
1 AAATACAAAAAA
26576324 AAA
1 AAA
26576327 ATCAAGGATG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
12 20 0.62
13 5 0.16
14 7 0.22
ACGTcount: A:0.75, C:0.09, G:0.04, T:0.11
Consensus pattern (12 bp):
AAATACAAAAAA
Found at i:26577176 original size:10 final size:10
Alignment explanation
Indices: 26577161--26577207 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
26577151 CAGGTAAAAA
26577161 AAATTTTTTT
1 AAATTTTTTT
26577171 AAATTTTTTT
1 AAATTTTTTT
* *
26577181 TAATTTTTAT
1 AAATTTTTTT
*
26577191 ATATTTTTTT
1 AAATTTTTTT
26577201 AATATTT
1 AA-ATTT
26577208 ATGCATATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 26 0.87
11 4 0.13
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
AAATTTTTTT
Found at i:26577187 original size:20 final size:20
Alignment explanation
Indices: 26577162--26577209 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
26577152 AGGTAAAAAA
*
26577162 AATTTTTTTAAATTTTTTTT
1 AATTTTTATAAATTTTTTTT
*
26577182 AATTTTTATATA-TTTTTTT
1 AATTTTTATAAATTTTTTTT
*
26577201 AATATTTAT
1 AATTTTTAT
26577210 GCATATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
AATTTTTATAAATTTTTTTT
Found at i:26577557 original size:18 final size:17
Alignment explanation
Indices: 26577522--26577584 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
26577512 TTCAAATTTT
*
26577522 TAAATAAAAAATAATAA
1 TAAATAAAAATTAATAA
*
26577539 TAAATAAAAATTGATTAA
1 TAAATAAAAATT-AATAA
*
26577557 TATATTAAAAA-TAATAA
1 TA-AATAAAAATTAATAA
26577574 -ATAATAAAAAT
1 TA-AATAAAAAT
26577585 GAGAAGAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 9 0.24
17 15 0.39
18 7 0.18
19 7 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAATAAAAATTAATAA
Found at i:26578312 original size:69 final size:69
Alignment explanation
Indices: 26578214--26578354 Score: 237
Period size: 69 Copynumber: 2.0 Consensus size: 69
26578204 TCAACCGTAA
*
26578214 AATTATCTTTTTAATAAATTTTAATTAATTTTAAAACTTTATTAAAAGAATATGTTTTAGTAGGT
1 AATTATCTTTTTAATAAATTTTAACTAATTTTAAAACTTTATTAAAAGAATATGTTTTAGTAGGT
*
26578279 GGTC
66 GGCC
* * *
26578283 AATTATCTTTTTAATAAATTTTAACTAATTTTGAAACTTTATTATAAGGATATGTTTTAGTAGGT
1 AATTATCTTTTTAATAAATTTTAACTAATTTTAAAACTTTATTAAAAGAATATGTTTTAGTAGGT
26578348 GGCC
66 GGCC
26578352 AAT
1 AAT
26578355 CACACCTAGC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (69 bp):
AATTATCTTTTTAATAAATTTTAACTAATTTTAAAACTTTATTAAAAGAATATGTTTTAGTAGGT
GGCC
Found at i:26579064 original size:19 final size:18
Alignment explanation
Indices: 26579039--26579093 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
26579029 CGAAATAAAA
26579039 TAAAACAAACAAAAAAT-C
1 TAAAACAAA-AAAAAATAC
26579057 TCAAAACACAAAAAAAATAC
1 T-AAAACA-AAAAAAAATAC
*
26579077 TAAAAAAAAAAAAAATA
1 TAAAACAAAAAAAAATA
26579094 TTTTTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 11 0.33
19 18 0.55
20 4 0.12
ACGTcount: A:0.76, C:0.13, G:0.00, T:0.11
Consensus pattern (18 bp):
TAAAACAAAAAAAAATAC
Found at i:26591239 original size:14 final size:14
Alignment explanation
Indices: 26591216--26591248 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26591206 CCTTGAACTA
*
26591216 ATTA-CTTGTTTGT
1 ATTATCTTGTTGGT
26591229 ATTATCTTGTTGGT
1 ATTATCTTGTTGGT
26591243 ATTATC
1 ATTATC
26591249 CTCAGCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.18, C:0.09, G:0.15, T:0.58
Consensus pattern (14 bp):
ATTATCTTGTTGGT
Found at i:26591529 original size:11 final size:11
Alignment explanation
Indices: 26591513--26591537 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26591503 TTATTTAAAA
26591513 ATAAATAAATT
1 ATAAATAAATT
26591524 ATAAATAAATT
1 ATAAATAAATT
26591535 ATA
1 ATA
26591538 TTATTATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAAATAAATT
Found at i:26591717 original size:28 final size:28
Alignment explanation
Indices: 26591679--26591735 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
26591669 TTATATATAA
26591679 TTTTTAATCTAA-TAT-ATTTAATTATCAT
1 TTTTTAATCTAATTATAATTT-A-TATCAT
*
26591707 TTTTTATTCTAATTATAATTTATATCAT
1 TTTTTAATCTAATTATAATTTATATCAT
26591735 T
1 T
26591736 ATCACTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 18 0.69
29 4 0.15
30 4 0.15
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTTAATCTAATTATAATTTATATCAT
Found at i:26593208 original size:51 final size:48
Alignment explanation
Indices: 26593111--26593205 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 48
26593101 ATGATAATGA
26593111 GATTGATTTTTTTTTATTTTGAATTTAAAATTTATAATATTTAAATTT
1 GATTGATTTTTTTTTATTTTGAATTTAAAATTTATAATATTTAAATTT
* *
26593159 GATTAGATTATTTTTTATATTTT-ATATTT-AATTTTATATTATTTAAA
1 GATT-GATT-TTTTTT-TATTTTGA-ATTTAAAATTTATAATATTTAAA
26593206 ATTAATAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
48 4 0.10
49 4 0.10
50 23 0.56
51 10 0.24
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (48 bp):
GATTGATTTTTTTTTATTTTGAATTTAAAATTTATAATATTTAAATTT
Found at i:26593218 original size:21 final size:20
Alignment explanation
Indices: 26593194--26593246 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
26593184 ATTTAATTTT
26593194 ATATTA-TTTAAAATTAATAAA
1 ATATTATTTTAAAA-T-ATAAA
26593215 ATATTATTTTTAAAATATAAA
1 ATATTA-TTTTAAAATATAAA
26593236 ATATTAATTTT
1 ATATT-ATTTT
26593247 TAATGAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 20 0.69
22 2 0.07
23 7 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTATTTTAAAATATAAA
Found at i:26593259 original size:25 final size:22
Alignment explanation
Indices: 26593200--26593266 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 22
26593190 TTTTATATTA
26593200 TTTAAAATTAATAAAATATT-ATT
1 TTTAAAA-T-ATAAAATATTAATT
26593223 TTTAAAATATAAAATATTAATT
1 TTTAAAATATAAAATATTAATT
26593245 TTTAATGAAATATAAAA-ATTAA
1 TTT-A--AAATATAAAATATTAA
26593267 ATAAATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.25
22 7 0.17
23 8 0.20
24 5 0.12
25 10 0.25
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (22 bp):
TTTAAAATATAAAATATTAATT
Found at i:26593281 original size:12 final size:14
Alignment explanation
Indices: 26593261--26593299 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
26593251 GAAATATAAA
26593261 AATTAAATAAATAT
1 AATTAAATAAATAT
*
26593275 -A-TAAATATATAT
1 AATTAAATAAATAT
26593287 AATTAAATAAATA
1 AATTAAATAAATA
26593300 ATTTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 10 0.48
13 2 0.10
14 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTAAATAAATAT
Found at i:26593300 original size:12 final size:12
Alignment explanation
Indices: 26593256--26593313 Score: 59
Period size: 11 Copynumber: 4.8 Consensus size: 12
26593246 TTAATGAAAT
26593256 ATAAA-AATTAA
1 ATAAATAATTAA
26593267 ATAAAT-ATATAA
1 ATAAATAAT-TAA
26593279 ATATATATAATTAA
1 ATA-A-ATAATTAA
*
26593293 ATAAATAATTTA
1 ATAAATAATTAA
26593305 A-AAATAATT
1 ATAAATAATT
26593314 TTTTTAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
11 15 0.37
12 14 0.34
13 2 0.05
14 8 0.20
15 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAAATAATTAA
Found at i:26593421 original size:17 final size:16
Alignment explanation
Indices: 26593326--26593418 Score: 52
Period size: 16 Copynumber: 6.1 Consensus size: 16
26593316 TTTAATATAT
* *
26593326 ATTTAATTGAATTAAA
1 ATTTAATTTATTTAAA
*
26593342 A-TGAATTTATTTAAA
1 ATTTAATTTATTTAAA
* **
26593357 ATTTTATTT-TTT-TT
1 ATTTAATTTATTTAAA
**
26593371 ATTT--TTTATTATTCA
1 ATTTAATTTATT-TAAA
*
26593386 ATTTGATTTATTTAAA
1 ATTTAATTTATTTAAA
*
26593402 ATTTAATTTTTTTAAA
1 ATTTAATTTATTTAAA
26593418 A
1 A
26593419 ATTATTAATC
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
12 3 0.05
13 2 0.03
14 5 0.09
15 19 0.33
16 23 0.40
17 6 0.10
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTTAATTTATTTAAA
Found at i:26596128 original size:4 final size:4
Alignment explanation
Indices: 26596119--26596146 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
26596109 TATGACCGGC
26596119 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
26596147 TTAGATTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:26596266 original size:18 final size:19
Alignment explanation
Indices: 26596224--26596266 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
26596214 ACGTTGGGGT
* *
26596224 TTTTTTATTTAAATATTTC
1 TTTTTTATTAAAATATTTA
*
26596243 TATTTT-TTAAAATATTTA
1 TTTTTTATTAAAATATTTA
26596261 TTTTTT
1 TTTTTT
26596267 CTCATATCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATTAAAATATTTA
Found at i:26597758 original size:3 final size:3
Alignment explanation
Indices: 26597752--26597799 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
26597742 TATTATTATT
* *
26597752 ATC ATC ATC ATC ATC ATC ATC ATC ATT ATC ATC ATC TTC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
26597800 TTTGAATGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:26600021 original size:3 final size:3
Alignment explanation
Indices: 26600015--26600044 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
26600005 CAACAATCAC
*
26600015 AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26600045 TCATGGAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:26600480 original size:14 final size:14
Alignment explanation
Indices: 26600461--26600505 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
26600451 TCTCCAAAAC
26600461 AATTTTTTTAGTAT
1 AATTTTTTTAGTAT
*
26600475 AATTTTTTCTAGCAT
1 AATTTTTT-TAGTAT
26600490 AATTTTTTTAGTAT
1 AATTTTTTTAGTAT
26600504 AA
1 AA
26600506 AATTGAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (14 bp):
AATTTTTTTAGTAT
Found at i:26603823 original size:20 final size:20
Alignment explanation
Indices: 26603798--26603839 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
26603788 ATGGTAGAAT
26603798 GGTGGGTGAAGAGTCAATAA
1 GGTGGGTGAAGAGTCAATAA
26603818 GGTGGGTGAAGAGTCAATAA
1 GGTGGGTGAAGAGTCAATAA
26603838 GG
1 GG
26603840 AACAACAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.43, T:0.19
Consensus pattern (20 bp):
GGTGGGTGAAGAGTCAATAA
Found at i:26608195 original size:17 final size:18
Alignment explanation
Indices: 26608168--26608204 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
26608158 TATCAAATTA
26608168 ATATATAATTTTTAAATC
1 ATATATAATTTTTAAATC
*
26608186 ATAT-TAATTTTTATATC
1 ATATATAATTTTTAAATC
26608203 AT
1 AT
26608205 TTTGTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATAATTTTTAAATC
Found at i:26609477 original size:10 final size:8
Alignment explanation
Indices: 26609447--26609477 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
26609437 GAAAGAAAGA
26609447 GAGAGAGG
1 GAGAGAGG
26609455 GAGAGAGG
1 GAGAGAGG
26609463 GAGAGAGG
1 GAGAGAGG
*
26609471 GAAAGAG
1 GAGAGAG
26609478 CTTCTGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (8 bp):
GAGAGAGG
Found at i:26611109 original size:24 final size:22
Alignment explanation
Indices: 26611076--26611152 Score: 59
Period size: 24 Copynumber: 3.4 Consensus size: 22
26611066 TTTGATTAAG
* *
26611076 TTTATTTATTTTTAATTTTAAAAT
1 TTTATATATTTTTAA-TAT-AAAT
26611100 TTTATATATTATTTTAATATAAAT
1 TTTATATA-T-TTTTAATATAAAT
* *
26611124 TTTA-ATATATTT-ATGTAAAT
1 TTTATATATTTTTAATATAAAT
26611144 TTTAATATA
1 TTT-ATATA
26611153 AAAATATTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 10 0.22
21 4 0.09
22 4 0.09
23 3 0.07
24 15 0.33
25 3 0.07
26 6 0.13
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTATATATTTTTAATATAAAT
Found at i:26611127 original size:32 final size:32
Alignment explanation
Indices: 26611089--26611154 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
26611079 ATTTATTTTT
*
26611089 AATTTTAAAAT-TTTATATATTATTTTAATATA
1 AATTTTAAAATATTTATATA-AATTTTAATATA
* *
26611121 AATTTTAATATATTTATGTAAATTTTAATATA
1 AATTTTAAAATATTTATATAAATTTTAATATA
26611153 AA
1 AA
26611155 AATATTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (32 bp):
AATTTTAAAATATTTATATAAATTTTAATATA
Found at i:26611144 original size:20 final size:22
Alignment explanation
Indices: 26611096--26611152 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 22
26611086 TTTAATTTTA
26611096 AAATTTTATATATTATTTTAATAT
1 AAATTTTA-ATA-TATTTTAATAT
*
26611120 AAATTTTAATATA-TTT-ATGT
1 AAATTTTAATATATTTTAATAT
26611140 AAATTTTAATATA
1 AAATTTTAATATA
26611153 AAAATATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.50
21 3 0.09
22 2 0.06
23 3 0.09
24 8 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AAATTTTAATATATTTTAATAT
Found at i:26612383 original size:7 final size:7
Alignment explanation
Indices: 26612360--26612389 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
26612350 ATGGCAACAG
26612360 ATAAAAA
1 ATAAAAA
26612367 ATAAATAA
1 ATAAA-AA
26612375 ATAAAAA
1 ATAAAAA
26612382 ATAAAAA
1 ATAAAAA
26612389 A
1 A
26612390 ACTCAGGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAAAAA
Found at i:26614784 original size:23 final size:23
Alignment explanation
Indices: 26614744--26614790 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
26614734 GTTCAATTAA
* * * *
26614744 ATTAAATGAGCTTGTTCATAAAT
1 ATTAAATGAACATATTCACAAAT
26614767 ATTAAATGAACATATTCACAAAT
1 ATTAAATGAACATATTCACAAAT
26614790 A
1 A
26614791 AACAAACCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.34
Consensus pattern (23 bp):
ATTAAATGAACATATTCACAAAT
Found at i:26616065 original size:21 final size:22
Alignment explanation
Indices: 26616023--26616074 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
26616013 CCCGAAATTA
26616023 ATAAAATATTATTTTTAAAAAT
1 ATAAAATATTATTTTTAAAAAT
*
26616045 ATAAAATATTATTTTT-TAAAT
1 ATAAAATATTATTTTTAAAAAT
26616066 AT-AAATATT
1 ATAAAATATT
26616075 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTTAAAAAT
Found at i:26616098 original size:8 final size:8
Alignment explanation
Indices: 26616064--26616112 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
26616054 TATTTTTTAA
26616064 ATATAAAT
1 ATATAAAT
* *
26616072 ATTTAAAA
1 ATATAAAT
* *
26616080 ATATCATT
1 ATATAAAT
26616088 ATATAAAT
1 ATATAAAT
26616096 ATATAAAT
1 ATATAAAT
*
26616104 AAATAAAT
1 ATATAAAT
26616112 A
1 A
26616113 ATTTAATTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATAAAT
Found at i:26617917 original size:28 final size:28
Alignment explanation
Indices: 26617885--26617954 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
26617875 ATAATATATT
* *
26617885 AATTAATAAA-TTTATAATTTAAATATCA
1 AATTAA-AAATTTTAAAATTAAAATATCA
26617913 AATTAAAAATTTTTAAAATTAAAATATCA
1 AATTAAAAA-TTTTAAAATTAAAATATCA
* *
26617942 TATTAAAATTTTT
1 AATTAAAAATTTT
26617955 TTTTTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.08
28 10 0.28
29 23 0.64
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
AATTAAAAATTTTAAAATTAAAATATCA
Found at i:26617927 original size:29 final size:29
Alignment explanation
Indices: 26617895--26617955 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
26617885 AATTAATAAA
* *
26617895 TTTATAATTTAAATATCAAATTAAAAATT
1 TTTAAAATTAAAATATCAAATTAAAAATT
* *
26617924 TTTAAAATTAAAATATCATATTAAAATTT
1 TTTAAAATTAAAATATCAAATTAAAAATT
26617953 TTT
1 TTT
26617956 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
TTTAAAATTAAAATATCAAATTAAAAATT
Found at i:26621363 original size:2 final size:2
Alignment explanation
Indices: 26621356--26621391 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26621346 ATTTAAATTT
26621356 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
26621392 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:26624699 original size:15 final size:15
Alignment explanation
Indices: 26624665--26624700 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
26624655 AAGTTTATTT
*
26624665 AATAATAAATCATAA
1 AATATTAAATCATAA
26624680 AATATTAAATCATAA
1 AATATTAAATCATAA
26624695 AATATT
1 AATATT
26624701 TAACTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
AATATTAAATCATAA
Found at i:26624959 original size:19 final size:19
Alignment explanation
Indices: 26624924--26624961 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26624914 TTAATGGATG
*
26624924 AAAATGAAACATTAATAAA
1 AAAATGAAACATCAATAAA
26624943 AAAATGATAA-ATCAATAAA
1 AAAATGA-AACATCAATAAA
26624962 TTTAACTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAATGAAACATCAATAAA
Found at i:26629671 original size:44 final size:44
Alignment explanation
Indices: 26629623--26629707 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
26629613 AAAAAATAAG
* * *
26629623 TGATAACTTAGTAGTTAATTATTGATAACTTT-ATAATAAATCAA
1 TGATAACTTAATAGTAAATTAGTGATAA-TTTAATAATAAATCAA
26629667 TGATAACTTAATAGTAAATTAGTGATAATTTAATAATAAAT
1 TGATAACTTAATAGTAAATTAGTGATAATTTAATAATAAAT
26629708 TAGCTTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (44 bp):
TGATAACTTAATAGTAAATTAGTGATAATTTAATAATAAATCAA
Found at i:26629710 original size:22 final size:22
Alignment explanation
Indices: 26629616--26629733 Score: 87
Period size: 22 Copynumber: 5.4 Consensus size: 22
26629606 AATTAACAAA
* * * *
26629616 AAATAAGTGATAACTTAGTAGT
1 AAATTAGTGATAATTTAATAAT
* *
26629638 TAATTATTGATAACTTT-ATAAT
1 AAATTAGTGATAA-TTTAATAAT
* * * *
26629660 AAATCAATGATAACTTAATAGT
1 AAATTAGTGATAATTTAATAAT
26629682 AAATTAGTGATAATTTAATAAT
1 AAATTAGTGATAATTTAATAAT
* *
26629704 AAATTAGCT-TTAATTTAATGAT
1 AAATTAG-TGATAATTTAATAAT
*
26629726 AATTTAGT
1 AAATTAGT
26629734 AGTAAAGTAA
Statistics
Matches: 75, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
21 3 0.04
22 69 0.92
23 3 0.04
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (22 bp):
AAATTAGTGATAATTTAATAAT
Found at i:26629744 original size:22 final size:21
Alignment explanation
Indices: 26629719--26629778 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
26629709 AGCTTTAATT
26629719 TAATGATAATTTAGTAGTAAA
1 TAATGATAATTTAGTAGTAAA
*
26629740 GTAATGATAAGTTAGTAGTAAA
1 -TAATGATAATTTAGTAGTAAA
*
26629762 TAATTGATAGTTTAGTA
1 TAA-TGATAATTTAGTA
26629779 TTTAATCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 3 0.09
22 31 0.91
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.38
Consensus pattern (21 bp):
TAATGATAATTTAGTAGTAAA
Found at i:26629978 original size:65 final size:66
Alignment explanation
Indices: 26629886--26630032 Score: 210
Period size: 65 Copynumber: 2.3 Consensus size: 66
26629876 AATAATAAAA
* * *
26629886 AATTAAGTAGTAAATAAATAATAACATAATAGTAAATATA-TAAAAATATAATTGTAAATCATTG
1 AATTTAGTAGTAAATTAATAATAACATAATAGTAAAT-TACTAAAAATATAATTGTAAATCAGTG
26629950 AT
65 AT
* * *
26629952 AATTTAGTAG-AAATTACTAATAACATAATAGTAAATTACTAATAATATAGTTGTAAATCAGTGA
1 AATTTAGTAGTAAATTAATAATAACATAATAGTAAATTACTAAAAATATAATTGTAAATCAGTGA
26630016 T
66 T
26630017 -ATTTAGTAGTAAATTA
1 AATTTAGTAGTAAATTA
26630033 GTTAATCATT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
64 11 0.15
65 53 0.73
66 9 0.12
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.35
Consensus pattern (66 bp):
AATTTAGTAGTAAATTAATAATAACATAATAGTAAATTACTAAAAATATAATTGTAAATCAGTGA
T
Found at i:26630007 original size:22 final size:22
Alignment explanation
Indices: 26629842--26630009 Score: 94
Period size: 22 Copynumber: 7.7 Consensus size: 22
26629832 ACATAATCAT
* *
26629842 TAATTTAATA-TAAATTAGTAA
1 TAATATAATAGTAAATTACTAA
* * * *
26629863 TAATTTTATAATAAA-TAATAA
1 TAATATAATAGTAAATTACTAA
* * *
26629884 -AAAATTAAGTAGTAAATAAATAA
1 TAATA-TAA-TAGTAAATTACTAA
*
26629907 TAACATAATAGTAAATATA-TAA
1 TAATATAATAGTAAAT-TACTAA
* * * * *
26629929 AAATATAATTGTAAATCATTGA
1 TAATATAATAGTAAATTACTAA
* *
26629951 TAATTTAGTAG-AAATTACTAA
1 TAATATAATAGTAAATTACTAA
*
26629972 TAACATAATAGTAAATTACTAA
1 TAATATAATAGTAAATTACTAA
* *
26629994 TAATATAGTTGTAAAT
1 TAATATAATAGTAAAT
26630010 CAGTGATATT
Statistics
Matches: 112, Mismatches: 27, Indels: 15
0.73 0.18 0.10
Matches are distributed among these distances:
20 2 0.02
21 32 0.29
22 66 0.59
23 9 0.08
24 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (22 bp):
TAATATAATAGTAAATTACTAA
Found at i:26630213 original size:22 final size:22
Alignment explanation
Indices: 26630188--26630266 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
26630178 ACTTAATGAC
*
26630188 AAATCATTCATAAATTAGTAGT
1 AAATCATTGATAAATTAGTAGT
* * * *
26630210 AAATAATTGATAATTTACTAAT
1 AAATCATTGATAAATTAGTAGT
* *
26630232 AAAACATTGATAGCA-TAGTAGT
1 AAATCATTGATA-AATTAGTAGT
*
26630254 AAATTATTGATAA
1 AAATCATTGATAA
26630267 CTTAATTATC
Statistics
Matches: 42, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (22 bp):
AAATCATTGATAAATTAGTAGT
Found at i:26630213 original size:44 final size:44
Alignment explanation
Indices: 26630163--26630272 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
26630153 ATAACTTAAC
* * * *
26630163 AGTAAATGATTCATAACTTAATGACAAATCATTCATA-AATTAGT
1 AGTAAATAATTGATAACTTAATAACAAAACATTCATAGAA-TAGT
* * * * *
26630207 AGTAAATAATTGATAATTTACTAATAAAACATTGATAGCATAGT
1 AGTAAATAATTGATAACTTAATAACAAAACATTCATAGAATAGT
*
26630251 AGTAAATTATTGATAACTTAAT
1 AGTAAATAATTGATAACTTAAT
26630273 TATCAATCAT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 52 0.98
45 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.35
Consensus pattern (44 bp):
AGTAAATAATTGATAACTTAATAACAAAACATTCATAGAATAGT
Found at i:26630331 original size:30 final size:30
Alignment explanation
Indices: 26630295--26630355 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
26630285 ATAACTTTTT
26630295 TTATACTTGAAGTTACCAGTGATTGAATTC
1 TTATACTTGAAGTTACCAGTGATTGAATTC
26630325 TTATACTTGAAGTTACCAGTGATTGAATTC
1 TTATACTTGAAGTTACCAGTGATTGAATTC
26630355 T
1 T
26630356 GGTTATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (30 bp):
TTATACTTGAAGTTACCAGTGATTGAATTC
Found at i:26630634 original size:22 final size:22
Alignment explanation
Indices: 26630559--26630671 Score: 77
Period size: 22 Copynumber: 5.2 Consensus size: 22
26630549 AAATATTAGC
**
26630559 AAATAAATGATAGGTTAATAA-
1 AAATAAATGATAACTTAATAAT
* * * * *
26630580 AAACAAATTATTACTAAATAGT
1 AAATAAATGATAACTTAATAAT
* * *
26630602 TAATCACTGATAACTTAATAAT
1 AAATAAATGATAACTTAATAAT
*
26630624 AAATAAATGATAACTTAATAGT
1 AAATAAATGATAACTTAATAAT
* * *
26630646 AAATTAAT-ATTAAATTAAAAAT
1 AAATAAATGA-TAACTTAATAAT
26630668 AAAT
1 AAAT
26630672 CAGTTTCAGT
Statistics
Matches: 67, Mismatches: 23, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
21 15 0.22
22 52 0.78
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (22 bp):
AAATAAATGATAACTTAATAAT
Found at i:26630751 original size:22 final size:22
Alignment explanation
Indices: 26630681--26630754 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
26630671 TCAGTTTCAG
*
26630681 TTTAGTAAT-AATTAATTGATAAA
1 TTTAGTAATAAATCAA-TGAT-AA
* * *
26630704 TTTAGTTATAAATC-ATAAATAT
1 TTTAGTAATAAATCAAT-GATAA
26630726 TTTAGTAATAAATCAATGATAA
1 TTTAGTAATAAATCAATGATAA
26630748 TTTAGTA
1 TTTAGTA
26630755 GTTAATTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
22 25 0.61
23 13 0.32
24 3 0.07
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (22 bp):
TTTAGTAATAAATCAATGATAA
Found at i:26631017 original size:22 final size:22
Alignment explanation
Indices: 26630937--26631060 Score: 92
Period size: 22 Copynumber: 5.6 Consensus size: 22
26630927 AATTTTGTAA
* *
26630937 TAAATAATTGAAAACTA-AATAG
1 TAAATCATTGATAA-TATAATAG
* * * *
26630959 TAAATCAATGATAACATAGTAC
1 TAAATCATTGATAATATAATAG
*
26630981 TAAATACA-TAATAATATAATAG
1 TAAAT-CATTGATAATATAATAG
*
26631003 TAAATCATTGATAATTTAGATA-
1 TAAATCATTGATAATATA-ATAG
* * *
26631025 TAAATTATTGATAATTTAATAA
1 TAAATCATTGATAATATAATAG
*
26631047 TAAATCATTAATAA
1 TAAATCATTGATAA
26631061 CTTAGTTGTA
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
21 6 0.07
22 71 0.87
23 5 0.06
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (22 bp):
TAAATCATTGATAATATAATAG
Done.