Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 122 of 131
Found at i:21997637 original size:11 final size:11
Alignment explanation
Indices: 21997588--21997639 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
21997578 ACAGAAATTG
*
21997588 ATTTACTATTA
1 ATTTATTATTA
* *
21997599 AATTATTACTA
1 ATTTATTATTA
*
21997610 ATTTACTATTA
1 ATTTATTATTA
* *
21997621 AGTTATTATTG
1 ATTTATTATTA
21997632 ATTTATTA
1 ATTTATTA
21997640 CTAAATTATC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (11 bp):
ATTTATTATTA
Found at i:21997656 original size:44 final size:44
Alignment explanation
Indices: 21997584--21997888 Score: 161
Period size: 44 Copynumber: 7.0 Consensus size: 44
21997574 TTAAACAGAA
* * * * *
21997584 ATTGATTTACTATTAAATTATTACTAATTTACTATTAAGTTATT
1 ATTGATTTATTATTAAATTATCATTGATTTAGTATTAAGTTATT
* * * * * *
21997628 ATTGATTTATTACTAAATTATCAATAATTAAGTACTAAGTTATC
1 ATTGATTTATTATTAAATTATCATTGATTTAGTATTAAGTTATT
* * * * * * *
21997672 ATTTATTTTTTGTTAACTTATCATTGATTTAGTAATATGTAATT
1 ATTGATTTATTATTAAATTATCATTGATTTAGTATTAAGTTATT
** * * *
21997716 A-TGCATTTACAATTATATTATGATTGATTTA-TCATTAAGCTATT
1 ATTG-ATTTATTATTAAATTATCATTGATTTAGT-ATTAAGTTATT
** * * * * * * *
21997760 ATACATATATTATTATATTTTTATTGATTTACTA-AAAGTTATCA
1 ATTGATTTATTATTAAATTATCATTGATTTAGTATTAAGTTAT-T
* * * * *
21997804 ATT-ATTTATTACTAAATTATCATTTATTTATTGTTAAGTTATC
1 ATTGATTTATTATTAAATTATCATTGATTTAGTATTAAGTTATT
* * * * * *
21997847 ACTAATTTACTACTAAATTATCAATGA-TTAGTATTAAATTAT
1 ATTGATTTATTATTAAATTATCATTGATTTAGTATTAAGTTAT
21997889 ATTAATTACA
Statistics
Matches: 194, Mismatches: 60, Indels: 15
0.72 0.22 0.06
Matches are distributed among these distances:
43 44 0.23
44 149 0.77
45 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (44 bp):
ATTGATTTATTATTAAATTATCATTGATTTAGTATTAAGTTATT
Found at i:21997808 original size:25 final size:22
Alignment explanation
Indices: 21997780--21997888 Score: 67
Period size: 22 Copynumber: 4.9 Consensus size: 22
21997770 TATTATATTT
21997780 TTATTGATTTACTAAAAGTTATCAA
1 TTATTGA-TTACT-AAA-TTATCAA
* *
21997805 TTATTTATTACTAAATTATCAT
1 TTATTGATTACTAAATTATCAA
* ** * *
21997827 TTATTTATTGTTAAGTTATCAC
1 TTATTGATTACTAAATTATCAA
* * *
21997849 TAATTTACTACTAAATTATCAA
1 TTATTGATTACTAAATTATCAA
* * *
21997871 TGATT-AGTATTAAATTAT
1 TTATTGATTACTAAATTAT
21997889 ATTAATTACA
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
21 11 0.16
22 44 0.64
23 3 0.04
24 5 0.07
25 6 0.09
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.49
Consensus pattern (22 bp):
TTATTGATTACTAAATTATCAA
Found at i:21997830 original size:22 final size:22
Alignment explanation
Indices: 21997779--21997869 Score: 83
Period size: 22 Copynumber: 4.0 Consensus size: 22
21997769 TTATTATATT
*
21997779 TTTATTGATTTACTAAAAGTTATCA
1 TTTATTTA-TTACT-AAA-TTATCA
*
21997804 ATTATTTATTACTAAATTATCA
1 TTTATTTATTACTAAATTATCA
** *
21997826 TTTATTTATTGTTAAGTTATCA
1 TTTATTTATTACTAAATTATCA
* * *
21997848 CTAATTTACTACTAAATTATCA
1 TTTATTTATTACTAAATTATCA
21997870 ATGATTAGTA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
22 40 0.74
23 3 0.06
24 5 0.09
25 6 0.11
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTATTTATTACTAAATTATCA
Found at i:22005805 original size:22 final size:22
Alignment explanation
Indices: 22005758--22005805 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
22005748 GTTGCAAACC
**
22005758 AAAAAAAGAAAGAAAAAAAGTT
1 AAAAAAAGAAAGAAAAAAAGGG
*
22005780 AAAAAAA-ATAGAGAAAAAAGGG
1 AAAAAAAGAAAGA-AAAAAAGGG
22005802 AAAA
1 AAAA
22005806 GTGAGAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (22 bp):
AAAAAAAGAAAGAAAAAAAGGG
Found at i:22011258 original size:13 final size:13
Alignment explanation
Indices: 22011248--22011272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22011238 CATGAATATC
22011248 ATATAAAAATAAA
1 ATATAAAAATAAA
22011261 ATATAAAAATAA
1 ATATAAAAATAA
22011273 TATAATTTAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATATAAAAATAAA
Found at i:22011476 original size:21 final size:21
Alignment explanation
Indices: 22011447--22011585 Score: 86
Period size: 21 Copynumber: 6.7 Consensus size: 21
22011437 ATAATAGAAG
*
22011447 TAAAA-TTTGATCACTTTTGA
1 TAAAATTTTGATAACTTTTGA
* *
22011467 TAAAATTTTGGTAA-TATTCGA
1 TAAAATTTTGATAACT-TTTGA
*
22011488 TATAATTTTTG-TAACTTTTGA
1 TA-AAATTTTGATAACTTTTGA
** * *
22011509 TATTAGTTTGATAACTTATGA
1 TAAAATTTTGATAACTTTTGA
* **
22011530 TATAATTTTGATAACAATTGA
1 TAAAATTTTGATAACTTTTGA
* * * *
22011551 TTAAATTTTGGTACCTCTTGA
1 TAAAATTTTGATAACTTTTGA
* *
22011572 TATAATTTTAATAA
1 TAAAATTTTGATAA
22011586 TTAACATTCT
Statistics
Matches: 88, Mismatches: 26, Indels: 9
0.72 0.21 0.07
Matches are distributed among these distances:
20 10 0.11
21 70 0.80
22 8 0.09
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.47
Consensus pattern (21 bp):
TAAAATTTTGATAACTTTTGA
Found at i:22011558 original size:63 final size:63
Alignment explanation
Indices: 22011452--22011574 Score: 142
Period size: 63 Copynumber: 2.0 Consensus size: 63
22011442 AGAAGTAAAA
* * * * * *
22011452 TTTGATCACTTTTGATAAAATTTTGGTAATATTCGATATAATTTTTGTAACTTTTGATATTAG
1 TTTGATAACTTATGATAAAATTTTGATAAAATTCGATATAATTTTGGTAACTCTTGATATTAG
* *
22011515 TTTGATAACTTATGATATAATTTTGATAACAATT-GAT-TAAATTTTGGTACCTCTTGATAT
1 TTTGATAACTTATGATAAAATTTTGATAA-AATTCGATAT-AATTTTGGTAACTCTTGATAT
22011575 AATTTTAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 1 0.02
63 46 0.92
64 3 0.06
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (63 bp):
TTTGATAACTTATGATAAAATTTTGATAAAATTCGATATAATTTTGGTAACTCTTGATATTAG
Found at i:22011767 original size:20 final size:21
Alignment explanation
Indices: 22011727--22011767 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22011717 ATAAAATAAA
22011727 ATAATTATTTCATTCAAATTT
1 ATAATTATTTCATTCAAATTT
*
22011748 ATAATTTTTTCATT-AAATTT
1 ATAATTATTTCATTCAAATTT
22011768 TTTTATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
ATAATTATTTCATTCAAATTT
Found at i:22012001 original size:44 final size:44
Alignment explanation
Indices: 22011878--22012010 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 44
22011868 TATAAAAAAT
* * * *
22011878 TCAACAAT-TGACAATTAAATTATCATTGATTTTCTATTATATTA
1 TCAACAATGT-ACTATTAAATTATCATTGATTTACTACTAAATTA
* * ** *
22011922 TCAACAATTTACTACTAAGCTATCGA-TGATATACTACTAAATTA
1 TCAACAATGTACTATTAAATTATC-ATTGATTTACTACTAAATTA
* * *
22011966 TCAATAATGTACTATTAAATTAACATTGATTTACTACTAATTTA
1 TCAACAATGTACTATTAAATTATCATTGATTTACTACTAAATTA
22012010 T
1 T
22012011 GAATGATTTA
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 67 0.96
45 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (44 bp):
TCAACAATGTACTATTAAATTATCATTGATTTACTACTAAATTA
Found at i:22012017 original size:22 final size:22
Alignment explanation
Indices: 22011893--22012020 Score: 103
Period size: 22 Copynumber: 5.8 Consensus size: 22
22011883 AATTGACAAT
* * *
22011893 TAAATTATCATTGATTTTCTAT
1 TAAATTATCAATGATTTACTAC
* **
22011915 TATATTATCAACAATTTACTAC
1 TAAATTATCAATGATTTACTAC
** * *
22011937 TAAGCTATCGATGATATACTAC
1 TAAATTATCAATGATTTACTAC
* * *
22011959 TAAATTATCAATAATGTACTAT
1 TAAATTATCAATGATTTACTAC
* *
22011981 TAAATTAACATTGATTTACTAC
1 TAAATTATCAATGATTTACTAC
* *
22012003 TAATTTATGAATGATTTA
1 TAAATTATCAATGATTTA
22012021 AGTTATGAAT
Statistics
Matches: 78, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 78 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (22 bp):
TAAATTATCAATGATTTACTAC
Found at i:22012043 original size:22 final size:22
Alignment explanation
Indices: 22012018--22012124 Score: 67
Period size: 22 Copynumber: 4.9 Consensus size: 22
22012008 TATGAATGAT
22012018 TTAAGTTATGAATGATTTACTA
1 TTAAGTTATGAATGATTTACTA
* *
22012040 TTAAATTGTTG-ATGATTTACTA
1 TTAAGTT-ATGAATGATTTACTA
* ***
22012062 CTAAGTTACTG-ATGATTCGTTA
1 TTAAGTTA-TGAATGATTTACTA
* * *
22012084 TAAAGTTAT-AACTAATTTACTG
1 TTAAGTTATGAA-TGATTTACTA
* *
22012106 TTAATTTATCAATGATTTA
1 TTAAGTTATGAATGATTTA
22012125 TTAAAAATTG
Statistics
Matches: 62, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
21 2 0.03
22 56 0.90
23 4 0.06
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (22 bp):
TTAAGTTATGAATGATTTACTA
Found at i:22012170 original size:22 final size:22
Alignment explanation
Indices: 22012147--22012355 Score: 91
Period size: 22 Copynumber: 9.4 Consensus size: 22
22012137 AATGATTAAC
*
22012147 TAATTTACTACTAAATTATCAC
1 TAATTTACTACTAAATTATCAA
* ** * *
22012169 TATTTTTGTGCTAAATTATCAT
1 TAATTTACTACTAAATTATCAA
* * *
22012191 TGATTTA-TAACTAAATTATTAG
1 TAATTTACT-ACTAAATTATCAA
* * **
22012213 TGATTTATTACTAAGCTATCAA
1 TAATTTACTACTAAATTATCAA
*
22012235 AAATTTAC-ATCTAAATTATCAA
1 TAATTTACTA-CTAAATTATCAA
* * *
22012257 TAATTTACTATTATGTTATTATCAT
1 TAATTTACTACTA---AATTATCAA
* * * * *
22012282 TGATTTACAATTAAATTATTAG
1 TAATTTACTACTAAATTATCAA
* **
22012304 TAATTTATTACTAAGCTATCAA
1 TAATTTACTACTAAATTATCAA
* *
22012326 AAATTTAC-ATCTAAATTATCAG
1 TAATTTACTA-CTAAATTATCAA
*
22012348 TGATTTAC
1 TAATTTAC
22012356 CAAGATTCAT
Statistics
Matches: 135, Mismatches: 44, Indels: 16
0.69 0.23 0.08
Matches are distributed among these distances:
21 3 0.02
22 112 0.83
23 2 0.01
25 18 0.13
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (22 bp):
TAATTTACTACTAAATTATCAA
Found at i:22012233 original size:44 final size:44
Alignment explanation
Indices: 22012193--22012354 Score: 153
Period size: 44 Copynumber: 3.6 Consensus size: 44
22012183 ATTATCATTG
* * *
22012193 ATTTATAACTAAATTATTAGTGATTTATTACTAAGCTATCAAAA
1 ATTTACAACTAAATTATCAGTAATTTATTACTAAGCTATCAAAA
* * * * * * ***
22012237 ATTTACATCTAAATTATCAATAATTTACTATTATGTTATTATCATTG
1 ATTTACAACTAAATTATCAGTAATTTATTACTAAG---CTATCAAAA
* *
22012284 ATTTACAATTAAATTATTAGTAATTTATTACTAAGCTATCAAAA
1 ATTTACAACTAAATTATCAGTAATTTATTACTAAGCTATCAAAA
* *
22012328 ATTTACATCTAAATTATCAGTGATTTA
1 ATTTACAACTAAATTATCAGTAATTTA
22012355 CCAAGATTCA
Statistics
Matches: 88, Mismatches: 27, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
44 55 0.62
47 33 0.38
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.44
Consensus pattern (44 bp):
ATTTACAACTAAATTATCAGTAATTTATTACTAAGCTATCAAAA
Found at i:22012297 original size:91 final size:91
Alignment explanation
Indices: 22012183--22012355 Score: 301
Period size: 91 Copynumber: 1.9 Consensus size: 91
22012173 TTTGTGCTAA
* *
22012183 ATTATCATTGATTTATAACTAAATTATTAGTGATTTATTACTAAGCTATCAAAAATTTACATCTA
1 ATTATCATTGATTTACAACTAAATTATTAGTAATTTATTACTAAGCTATCAAAAATTTACATCTA
22012248 AATTATCAATAATTTACTATTATGTT
66 AATTATCAATAATTTACTATTATGTT
*
22012274 ATTATCATTGATTTACAATTAAATTATTAGTAATTTATTACTAAGCTATCAAAAATTTACATCTA
1 ATTATCATTGATTTACAACTAAATTATTAGTAATTTATTACTAAGCTATCAAAAATTTACATCTA
* *
22012339 AATTATCAGTGATTTAC
66 AATTATCAATAATTTAC
22012356 CAAGATTCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 77 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (91 bp):
ATTATCATTGATTTACAACTAAATTATTAGTAATTTATTACTAAGCTATCAAAAATTTACATCTA
AATTATCAATAATTTACTATTATGTT
Found at i:22012300 original size:25 final size:25
Alignment explanation
Indices: 22012249--22012302 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
22012239 TTACATCTAA
* **
22012249 ATTATCAATAATTTACTATTATGTT
1 ATTATCAATAATTTACAATTAAATT
* *
22012274 ATTATCATTGATTTACAATTAAATT
1 ATTATCAATAATTTACAATTAAATT
22012299 ATTA
1 ATTA
22012303 GTAATTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (25 bp):
ATTATCAATAATTTACAATTAAATT
Found at i:22012411 original size:21 final size:22
Alignment explanation
Indices: 22012380--22012553 Score: 78
Period size: 22 Copynumber: 7.9 Consensus size: 22
22012370 AAATTATCGT
22012380 TAATTTA-TATTCAA-TTATT-A
1 TAATTTACTATT-AAGTTATTAA
22012400 TAATTTACTATTAAGTTATTAA
1 TAATTTACTATTAAGTTATTAA
*
22012422 TAATTAACTACTATTAAATTATGT--
1 TAATT---TACTATTAAGTTAT-TAA
* * *
22012446 TGATTTATTTTTAAGTT-TTCAA
1 TAATTTACTATTAAGTTATT-AA
* * * *
22012468 TTATTAATTATTAAGTTATTTA
1 TAATTTACTATTAAGTTATTAA
* *
22012490 TGATTTACTAATAAGTTTATTAA
1 TAATTTACTATTAAG-TTATTAA
* * *
22012513 TTAA-TTACTACTAAACTGA--AA
1 -TAATTTACTA-TTAAGTTATTAA
22012534 CTAATTTACTATTAAGTTAT
1 -TAATTTACTATTAAGTTAT
22012554 CATTATTAAG
Statistics
Matches: 115, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
19 1 0.01
20 10 0.09
21 28 0.24
22 38 0.33
23 16 0.14
24 8 0.07
25 13 0.11
26 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (22 bp):
TAATTTACTATTAAGTTATTAA
Found at i:22012443 original size:46 final size:46
Alignment explanation
Indices: 22012387--22012525 Score: 128
Period size: 46 Copynumber: 3.0 Consensus size: 46
22012377 CGTTAATTTA
* *
22012387 TATTCAATTATTATAATTTACTATTAAGTTATTAATAATTAACTAC
1 TATTAAATTATTATGATTTACTATTAAGTTATTAATAATTAACTAC
* * *
22012433 TATTAAATTATGT-TGATTTATTTTTAAGTT-TTCAATTATTAA-T--
1 TATTAAATTAT-TATGATTTACTATTAAGTTATT-AATAATTAACTAC
* *
22012476 TATTAAGTTATTTATGATTTACTAATAAGTTTATTAATTAATT-ACTAC
1 TATTAAATTA-TTATGATTTACTATTAAG-TTATTAA-TAATTAACTAC
22012524 TA
1 TA
22012526 AACTGAAACT
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
43 10 0.14
44 13 0.18
45 8 0.11
46 39 0.53
47 1 0.01
48 2 0.03
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (46 bp):
TATTAAATTATTATGATTTACTATTAAGTTATTAATAATTAACTAC
Found at i:22012984 original size:10 final size:10
Alignment explanation
Indices: 22012971--22013077 Score: 89
Period size: 10 Copynumber: 11.1 Consensus size: 10
22012961 TACTATAATT
22012971 TAGTATATTA
1 TAGTATATTA
22012981 TAGTATATTA
1 TAGTATATTA
* *
22012991 TCGTATAGTA
1 TAGTATATTA
*
22013001 TAGTTTATTA
1 TAGTATATTA
*
22013011 T--TATAGTA
1 TAGTATATTA
22013019 TAGTATATTA
1 TAGTATATTA
* *
22013029 TACTATAGTA
1 TAGTATATTA
*
22013039 T-GT-TATTT
1 TAGTATATTA
*
22013047 TATTATATTA
1 TAGTATATTA
*
22013057 TTA-TATATTG
1 -TAGTATATTA
22013067 TAGTATATTA
1 TAGTATATTA
22013077 T
1 T
22013078 TATTATTATT
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
8 10 0.14
9 4 0.05
10 58 0.78
11 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.53
Consensus pattern (10 bp):
TAGTATATTA
Found at i:22012987 original size:5 final size:5
Alignment explanation
Indices: 22012971--22013039 Score: 61
Period size: 5 Copynumber: 14.2 Consensus size: 5
22012961 TACTATAATT
* * * * *
22012971 TAGTA TATTA TAGTA TATTA TCGTA TAGTA TAGTT TA-T- TATTA TAGTA
1 TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA
* *
22013019 TAGTA TATTA TACTA TAGTA T
1 TAGTA TAGTA TAGTA TAGTA T
22013040 GTTATTTTAT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 47 0.92
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (5 bp):
TAGTA
Found at i:22013015 original size:33 final size:33
Alignment explanation
Indices: 22012976--22013080 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
22012966 TAATTTAGTA
** * *
22012976 TATTATAGTATATTATCGTATAGTATAGTTTAT
1 TATTATAGTATATTATAATATACTATAGTATAT
* * *
22013009 TATTATAGTATAGTATATTATACTATAGTATGT
1 TATTATAGTATATTATAATATACTATAGTATAT
* * * * *
22013042 TATTTTATTATATTATTATATATTGTAGTATAT
1 TATTATAGTATATTATAATATACTATAGTATAT
22013075 TATTAT
1 TATTAT
22013081 TATTATTATT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (33 bp):
TATTATAGTATATTATAATATACTATAGTATAT
Found at i:22013058 original size:3 final size:3
Alignment explanation
Indices: 22013041--22013102 Score: 69
Period size: 3 Copynumber: 21.7 Consensus size: 3
22013031 CTATAGTATG
* *
22013041 TTA TT- TTA TTA -TA TTA TTA TATA TT- GTA GTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
22013083 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
22013103 TTCGTGTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
2 7 0.13
3 43 0.81
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:22013064 original size:38 final size:38
Alignment explanation
Indices: 22012969--22013098 Score: 122
Period size: 38 Copynumber: 3.3 Consensus size: 38
22012959 TCTACTATAA
*
22012969 TTTAGTATATTATAGTATATTAT-CGTATAGTATAGTT-T
1 TTTATTATATTATAGTATATTATAC-TATAGTAT-GTTAT
* *
22013007 ATTATTATAGTATAGTATATTATACTATAGTATGTTAT
1 TTTATTATATTATAGTATATTATACTATAGTATGTTAT
* * * *
22013045 TTTATTATATTATTA-TATATTGTAGTATATTATTATTAT
1 TTTATTATATTA-TAGTATATTATACTATAGTA-TGTTAT
22013084 TATTATTATTATTAT
1 T-TTATTA-TATTAT
22013099 TATTTTCGTG
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
37 3 0.04
38 53 0.69
39 9 0.12
40 7 0.09
41 5 0.06
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (38 bp):
TTTATTATATTATAGTATATTATACTATAGTATGTTAT
Found at i:22013944 original size:23 final size:23
Alignment explanation
Indices: 22013913--22013997 Score: 64
Period size: 28 Copynumber: 3.3 Consensus size: 23
22013903 AAATTTTAAA
22013913 TTTATTATTTATTTATTTATTTAT
1 TTTA-TATTTATTTATTTATTTAT
22013937 TTTATATTTTGATTTTGATTTATTTTAT
1 TTTATA-TTT-A-TTT-ATTTA-TTTAT
* *
22013965 TTTATCGATTTTTATTAGTTATTTAT
1 TTTAT--ATTTAT-TTATTTATTTAT
22013991 TTT-TATT
1 TTTATATT
22013998 GAGTGATCTA
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
23 5 0.10
24 7 0.14
25 2 0.04
26 11 0.22
27 10 0.20
28 12 0.24
29 3 0.06
30 1 0.02
ACGTcount: A:0.22, C:0.01, G:0.05, T:0.72
Consensus pattern (23 bp):
TTTATATTTATTTATTTATTTAT
Found at i:22013989 original size:31 final size:27
Alignment explanation
Indices: 22013924--22013993 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 27
22013914 TTATTATTTA
22013924 TTTATTTA-TTTATTTTATATTTTGAT
1 TTTATTTATTTTATTTTATATTTTGAT
*
22013950 TTTGATTTATTTTATTTTATCGATTTTTAT
1 TTT-ATTTATTTTATTTTAT--ATTTTGAT
22013980 TAGTTATTTATTTT
1 T--TTATTTATTTT
22013994 TATTGAGTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 3 0.08
27 5 0.14
28 10 0.27
30 8 0.22
31 9 0.24
32 2 0.05
ACGTcount: A:0.21, C:0.01, G:0.06, T:0.71
Consensus pattern (27 bp):
TTTATTTATTTTATTTTATATTTTGAT
Found at i:22018699 original size:22 final size:21
Alignment explanation
Indices: 22018667--22018711 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
22018657 GAGGTATGCA
22018667 AAAAAAAAAAAGCAAAAATAAAG
1 AAAAAAAAAAA-CAAAAA-AAAG
*
22018690 AAAAATAAAAACAAAAAAAAG
1 AAAAAAAAAAACAAAAAAAAG
22018711 A
1 A
22018712 GGAAAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 6 0.29
23 10 0.48
ACGTcount: A:0.84, C:0.04, G:0.07, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAACAAAAAAAAG
Found at i:22019660 original size:38 final size:38
Alignment explanation
Indices: 22019582--22019661 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
22019572 TATAAATCTA
*
22019582 AAACCTCTACGAAACTTGAAATCTTGTAAATTTTCCTG
1 AAACCTCTACGAAACTTGAAATCTTGTAAATTTTCATG
* * * *
22019620 AAACCTCTACGAATCTTG-AATCTTTGTGATTTTTTATG
1 AAACCTCTACGAAACTTGAAATC-TTGTAAATTTTCATG
22019658 AAAC
1 AAAC
22019662 TTAAAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 4 0.11
38 32 0.89
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.38
Consensus pattern (38 bp):
AAACCTCTACGAAACTTGAAATCTTGTAAATTTTCATG
Found at i:22019858 original size:55 final size:53
Alignment explanation
Indices: 22019799--22019980 Score: 195
Period size: 55 Copynumber: 3.4 Consensus size: 53
22019789 CAATTATTTG
* * *
22019799 ATCTTGGCTCAGTCCAAATCATTTTTTAGACTTGTGGTTCTATCCCGATCATCCA
1 ATCTTGGCTCAGTCCAGATCATTTTTTAGACTTATGGTT-TAT-CCGATCATTCA
* * * *
22019854 ATCTTGGCTTAGTCTAGATCATTTTTTAGAC-TATGGTTTCATTCAATCATTCA
1 ATCTTGGCTCAGTCCAGATCATTTTTTAGACTTATGGTTT-ATCCGATCATTCA
* * * * * *
22019907 ATCTTGGCTCAGTCCTGATCATTTTTCAGACTTATGGTTTTTTTCTGGTCATTCG
1 ATCTTGGCTCAGTCCAGATCATTTTTTAGACTTATGG--TTTATCCGATCATTCA
22019962 ATCTTGGCTCAGTCCAGAT
1 ATCTTGGCTCAGTCCAGAT
22019981 TGCTGTCCAA
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
53 36 0.34
54 13 0.12
55 53 0.50
56 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.42
Consensus pattern (53 bp):
ATCTTGGCTCAGTCCAGATCATTTTTTAGACTTATGGTTTATCCGATCATTCA
Found at i:22019927 original size:53 final size:54
Alignment explanation
Indices: 22019776--22019946 Score: 186
Period size: 55 Copynumber: 3.1 Consensus size: 54
22019766 TTTCCAAACT
* ** **
22019776 TATGGTTTCATCTCAATTATTTGATCTTGGCTCAGTCCAAATCATTTTTTAGAC
1 TATGGTTTCATCTCAATCATTCAATCTTGGCTCAGTCCTGATCATTTTTTAGAC
* * * * *
22019830 T-TGTGGTTCTATCCCGATCATCCAATCTTGGCTTAGT-CTAGATCATTTTTTAGAC
1 TATG-GTTTC-ATCTCAATCATTCAATCTTGGCTCAGTCCT-GATCATTTTTTAGAC
*
22019885 TATGGTTTCAT-TCAATCATTCAATCTTGGCTCAGTCCTGATCATTTTTCAGAC
1 TATGGTTTCATCTCAATCATTCAATCTTGGCTCAGTCCTGATCATTTTTTAGAC
22019938 TTATGGTTT
1 -TATGGTTT
22019947 TTTTCTGGTC
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
53 36 0.38
54 18 0.19
55 39 0.41
56 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (54 bp):
TATGGTTTCATCTCAATCATTCAATCTTGGCTCAGTCCTGATCATTTTTTAGAC
Found at i:22020499 original size:33 final size:33
Alignment explanation
Indices: 22020462--22020541 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
22020452 TAGTACAATA
22020462 TAGTTTATTATTATAGTATAGTA-TATTATATTG
1 TAGTTTATTATTATAGTATAGTATTATT-TATTG
* * * *
22020495 TAGTTTATTTTTTTATTATATTATTATTTATTG
1 TAGTTTATTATTATAGTATAGTATTATTTATTG
*
22020528 TAGTCTATTATTAT
1 TAGTTTATTATTAT
22020542 TATTATTGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 35 0.90
34 4 0.10
ACGTcount: A:0.29, C:0.01, G:0.09, T:0.61
Consensus pattern (33 bp):
TAGTTTATTATTATAGTATAGTATTATTTATTG
Found at i:22020513 original size:3 final size:3
Alignment explanation
Indices: 22020507--22020634 Score: 80
Period size: 3 Copynumber: 42.3 Consensus size: 3
22020497 GTTTATTTTT
* * *
22020507 TTA TTA -TA TTA TTA TTTA TT- GTA GTCTA TTA TTA TTA TTA TTG TTG
1 TTA TTA TTA TTA TTA -TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA
* * * * * * * * * * * *
22020553 TTG TTG TTA TTG TTG TTG TTG TTG TTA TTA TTG TTG TTG TTG TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22020601 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
22020635 GTTTTTATTC
Statistics
Matches: 112, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
2 3 0.03
3 103 0.92
4 4 0.04
5 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.12, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:22020568 original size:18 final size:18
Alignment explanation
Indices: 22020541--22020602 Score: 106
Period size: 18 Copynumber: 3.4 Consensus size: 18
22020531 TCTATTATTA
22020541 TTATTATTGTTGTTGTTG
1 TTATTATTGTTGTTGTTG
*
22020559 TTATTGTTGTTGTTGTTG
1 TTATTATTGTTGTTGTTG
22020577 TTATTATTGTTGTTGTTG
1 TTATTATTGTTGTTGTTG
*
22020595 TTGTTATT
1 TTATTATT
22020603 ATTATTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.68
Consensus pattern (18 bp):
TTATTATTGTTGTTGTTG
Found at i:22020571 original size:21 final size:21
Alignment explanation
Indices: 22020547--22020605 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
22020537 ATTATTATTA
*
22020547 TTGTTGTTGTTGTTATTGTTG
1 TTGTTGTTGTTATTATTGTTG
22020568 TTGTTGTTGTTATTATTGTTG
1 TTGTTGTTGTTATTATTGTTG
22020589 TTGTTGTTGTTATTATT
1 TTGTTGTTGTTATTATT
22020606 ATTATTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (21 bp):
TTGTTGTTGTTATTATTGTTG
Found at i:22021483 original size:17 final size:18
Alignment explanation
Indices: 22021461--22021505 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
22021451 TTGATTTATT
*
22021461 TATTTATTTTAT-ATTTA
1 TATTTATTTTATGATTGA
22021478 TATTTATATTT-TGATTGA
1 TATTTAT-TTTATGATTGA
22021496 T-TTTATTTTA
1 TATTTATTTTA
22021506 CTAATTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 13 0.54
18 8 0.33
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (18 bp):
TATTTATTTTATGATTGA
Found at i:22022418 original size:22 final size:22
Alignment explanation
Indices: 22022358--22022408 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
22022348 ATGTTATGAC
*
22022358 ATTTACTACTAAGTTATCAATA
1 ATTTACTACTAAATTATCAATA
22022380 ATTTACTACTAAATTATCAATA
1 ATTTACTACTAAATTATCAATA
22022402 ATTTACT
1 ATTTACT
22022409 TCTACTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATA
Found at i:22022455 original size:22 final size:22
Alignment explanation
Indices: 22022430--22022471 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
22022420 AATGACTAGC
22022430 TATTAAGTAATAAATGATTTAT
1 TATTAAGTAATAAATGATTTAT
*
22022452 TATTAAGTTATAAATGATTT
1 TATTAAGTAATAAATGATTT
22022472 CTATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (22 bp):
TATTAAGTAATAAATGATTTAT
Found at i:22022645 original size:21 final size:21
Alignment explanation
Indices: 22022619--22022658 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22022609 TACAATTATG
22022619 TTATTAGTAATTTACTATTTT
1 TTATTAGTAATTTACTATTTT
*
22022640 TTATTAGTGATTTACTATT
1 TTATTAGTAATTTACTATT
22022659 AAGTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
TTATTAGTAATTTACTATTTT
Found at i:22022688 original size:80 final size:79
Alignment explanation
Indices: 22022585--22022747 Score: 195
Period size: 80 Copynumber: 2.1 Consensus size: 79
22022575 GATTAACTAA
* ** * * * *
22022585 TTTATTACTAAATTATTGCTTATTTACAATTATGTTATTAGTAATTTACTATT-TTTTATTAGTG
1 TTTACTACTAAATTATTAATTATTTACAATTATATTATTA-T-ATGTACTATTATATTATCAGTG
22022649 ATTTACTA-TTAAGTTT
64 ATTTACTACTTAA-TTT
* * *
22022665 TTTACTACTAAATTATTAATTATTTACTATTATATTTTTATATGTACTATTATATTATCATTGAT
1 TTTACTACTAAATTATTAATTATTTACAATTATATTATTATATGTACTATTATATTATCAGTGAT
22022730 TTACTACTTAATTT
66 TTACTACTTAATTT
22022744 TTTA
1 TTTA
22022748 TTTTTTATTA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
78 9 0.13
79 24 0.34
80 38 0.54
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.56
Consensus pattern (79 bp):
TTTACTACTAAATTATTAATTATTTACAATTATATTATTATATGTACTATTATATTATCAGTGAT
TTACTACTTAATTT
Found at i:22022941 original size:22 final size:22
Alignment explanation
Indices: 22022916--22022988 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
22022906 TCAATAATTA
22022916 ACTACTAAATTATAAATT-ATTT
1 ACTACTAAATTAT-AATTGATTT
* * *
22022938 ACTAATAATTTATTATTGATTT
1 ACTACTAAATTATAATTGATTT
* * *
22022960 ACTACTAATTTGTCATTGATTT
1 ACTACTAAATTATAATTGATTT
22022982 ACTACTA
1 ACTACTA
22022989 TCAATTAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
21 3 0.07
22 41 0.93
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (22 bp):
ACTACTAAATTATAATTGATTT
Found at i:22023040 original size:22 final size:22
Alignment explanation
Indices: 22022997--22023085 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
22022987 TATCAATTAA
* **
22022997 TTACTATTAAATAAAAAATAAT
1 TTACTATTAAATTATTAATAAT
*
22023019 TTACTATTAAATTATTACTAAT
1 TTACTATTAAATTATTAATAAT
* * * *
22023041 TTAGTATTAAGTTATTATTGAT
1 TTACTATTAAATTATTAATAAT
* * *
22023063 TTATTATTAAGTTATCAATAAT
1 TTACTATTAAATTATTAATAAT
22023085 T
1 T
22023086 AAGTACTAAG
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (22 bp):
TTACTATTAAATTATTAATAAT
Found at i:22023061 original size:83 final size:83
Alignment explanation
Indices: 22022906--22023065 Score: 187
Period size: 83 Copynumber: 1.9 Consensus size: 83
22022896 TTTTAAATTT
* * * * * * *
22022906 TCAATAATTAACTACTAAATTATAAATTATTTACTAATAATTTATTATTGATTTACTACTAATTT
1 TCAATAATTAACTACTAAATAAAAAATAATTTACTAATAAATTATTACTAATTTACTACTAAGTT
*
22022971 GTCATTGATTTACTACTA
66 ATCATTGATTTACTACTA
* * * *
22022989 TCAATTAATT-ACTATTAAATAAAAAATAATTTACTATTAAATTATTACTAATTTAGTATTAAGT
1 TCAA-TAATTAACTACTAAATAAAAAATAATTTACTAATAAATTATTACTAATTTACTACTAAGT
*
22023053 TATTATTGATTTA
65 TATCATTGATTTA
22023066 TTATTAAGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
83 58 0.92
84 5 0.08
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (83 bp):
TCAATAATTAACTACTAAATAAAAAATAATTTACTAATAAATTATTACTAATTTACTACTAAGTT
ATCATTGATTTACTACTA
Found at i:22023077 original size:11 final size:11
Alignment explanation
Indices: 22023023--22023077 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
22023013 AATAATTTAC
*
22023023 TATTAAATTAT
1 TATTAAGTTAT
* * *
22023034 TACTAATTTAG
1 TATTAAGTTAT
22023045 TATTAAGTTAT
1 TATTAAGTTAT
* *
22023056 TATTGATTTAT
1 TATTAAGTTAT
22023067 TATTAAGTTAT
1 TATTAAGTTAT
22023078 CAATAATTAA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (11 bp):
TATTAAGTTAT
Found at i:22023271 original size:22 final size:22
Alignment explanation
Indices: 22023212--22023293 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 22
22023202 ATCATTACTG
* *
22023212 ATTTACTA-AAAGTTATCAATT
1 ATTTACTATTAAGTTATCATTT
* *
22023233 ATTTACTACTAAATTATCATTT
1 ATTTACTATTAAGTTATCATTT
* **
22023255 ATTTACTATTAAGTTATTATAA
1 ATTTACTATTAAGTTATCATTT
22023277 ATTTACTATTAAGTTAT
1 ATTTACTATTAAGTTAT
22023294 TGATAATTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 8 0.15
22 44 0.85
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTT
Found at i:22023294 original size:22 final size:22
Alignment explanation
Indices: 22023255--22023314 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
22023245 ATTATCATTT
22023255 ATTTACTATTAAGTTATT-ATAA
1 ATTTACTATTAAGTTATTGAT-A
22023277 ATTTACTATTAAGTTATTGATA
1 ATTTACTATTAAGTTATTGATA
*
22023299 A-TTATTATTAAGTTAT
1 ATTTACTATTAAGTTAT
22023315 GCTGACTACA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
21 14 0.39
22 20 0.56
23 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (22 bp):
ATTTACTATTAAGTTATTGATA
Found at i:22027155 original size:20 final size:20
Alignment explanation
Indices: 22027130--22027169 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22027120 TAAATAAATT
22027130 GATAAAATTAT-ATATTTAAA
1 GATAAAATTATCA-ATTTAAA
*
22027150 GATAAAGTTATCAATTTAAA
1 GATAAAATTATCAATTTAAA
22027170 AATTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (20 bp):
GATAAAATTATCAATTTAAA
Found at i:22028954 original size:6 final size:6
Alignment explanation
Indices: 22028934--22028980 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
22028924 TTAAATCATA
* *
22028934 TTATTT TTATATT TTATTT TTATTT ATA-TT TTATTT TTATTT ATATT
1 TTATTT TTAT-TT TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
22028981 CATATAGTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 4 0.11
6 26 0.72
7 6 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:22028957 original size:11 final size:11
Alignment explanation
Indices: 22028938--22028980 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
22028928 ATCATATTAT
22028938 TTTTATATTTTA
1 TTTTAT-TTTTA
*
22028950 TTTTTATTTATA
1 -TTTTATTTTTA
22028962 TTTTATTTTTA
1 TTTTATTTTTA
22028973 TTTATATT
1 TTT-TATT
22028981 CATATAGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 13 0.48
12 8 0.30
13 6 0.22
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:22028960 original size:23 final size:23
Alignment explanation
Indices: 22028938--22028985 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
22028928 ATCATATTAT
*
22028938 TTTTATATTTTATTTTTATTTATA
1 TTTTAT-TTTTATTTATATTTATA
*
22028962 TTTTATTTTTATTTATATTCATA
1 TTTTATTTTTATTTATATTTATA
22028985 T
1 T
22028986 AGTGTTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTATTTTTATTTATATTTATA
Found at i:22028961 original size:17 final size:17
Alignment explanation
Indices: 22028939--22028980 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
22028929 TCATATTATT
22028939 TTTATATTTTATTTTTA
1 TTTATATTTTATTTTTA
22028956 TTTATATTTTATTTTTA
1 TTTATATTTTATTTTTA
22028973 TTTATATT
1 TTTATATT
22028981 CATATAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATATTTTATTTTTA
Found at i:22031129 original size:25 final size:25
Alignment explanation
Indices: 22031101--22031155 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
22031091 AATGATATAA
22031101 TCAAACTAACATAACATTTTATGTG
1 TCAAACTAACATAACATTTTATGTG
** * **
22031126 TCAAGTTGATTTAACATTTTATGTG
1 TCAAACTAACATAACATTTTATGTG
22031151 TCAAA
1 TCAAA
22031156 TTGATTTAAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (25 bp):
TCAAACTAACATAACATTTTATGTG
Found at i:22031159 original size:25 final size:25
Alignment explanation
Indices: 22031112--22031167 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
22031102 CAAACTAACA
*
22031112 TAACATTTTATGTGTCAAGTTGATT
1 TAACATTTTATGTGTCAAATTGATT
22031137 TAACATTTTATGTGTCAAATTGATT
1 TAACATTTTATGTGTCAAATTGATT
22031162 TAACAT
1 TAACAT
22031168 GTTAGATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (25 bp):
TAACATTTTATGTGTCAAATTGATT
Found at i:22048451 original size:21 final size:21
Alignment explanation
Indices: 22048427--22048468 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22048417 ACTTGCTTAT
22048427 TTCATATTGTGCT-CATTTGAA
1 TTCATATTGTG-TGCATTTGAA
22048448 TTCATATTGTGTGCATTTGAA
1 TTCATATTGTGTGCATTTGAA
22048469 CTTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.48
Consensus pattern (21 bp):
TTCATATTGTGTGCATTTGAA
Found at i:22051453 original size:15 final size:15
Alignment explanation
Indices: 22051433--22051465 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22051423 TGACCATAGC
22051433 TAACGATTTGAATGA
1 TAACGATTTGAATGA
*
22051448 TAACGATTTGATTGA
1 TAACGATTTGAATGA
22051463 TAA
1 TAA
22051466 TGATGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (15 bp):
TAACGATTTGAATGA
Found at i:22051481 original size:16 final size:16
Alignment explanation
Indices: 22051460--22051491 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22051450 ACGATTTGAT
22051460 TGATAATGATGATTTA
1 TGATAATGATGATTTA
22051476 TGATAATGATGATTTA
1 TGATAATGATGATTTA
22051492 CGATGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
TGATAATGATGATTTA
Found at i:22056809 original size:16 final size:16
Alignment explanation
Indices: 22056788--22056819 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22056778 ACTATTTGAT
22056788 TGATAATGATGATTTA
1 TGATAATGATGATTTA
22056804 TGATAATGATGATTTA
1 TGATAATGATGATTTA
22056820 CGATGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
TGATAATGATGATTTA
Found at i:22057388 original size:2 final size:2
Alignment explanation
Indices: 22057381--22057410 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22057371 ATGGTGAAGA
22057381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22057411 CATTCAAGAT
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):
AT
Found at i:22059727 original size:17 final size:19
Alignment explanation
Indices: 22059700--22059737 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
22059690 ACATGGAATG
22059700 AATATAAGGCACT-ACATT
1 AATATAAGGCACTAACATT
*
22059718 AATA-AAGGCATTAACATT
1 AATATAAGGCACTAACATT
22059736 AA
1 AA
22059738 AGATAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (19 bp):
AATATAAGGCACTAACATT
Found at i:22061968 original size:4 final size:4
Alignment explanation
Indices: 22061959--22061989 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
22061949 ACTGGAAGTG
22061959 AGAA AGAA AGAA AGAA AGAA A-AA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
22061990 GAGGTGAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:22062187 original size:16 final size:16
Alignment explanation
Indices: 22062152--22062197 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
22062142 TTTTAACATA
* *
22062152 AAAAAAATAAAAAAAT
1 AAAAAAATAAAAGAAG
22062168 AAAAAAATAAAAGAAG
1 AAAAAAATAAAAGAAG
*
22062184 AAAAGAAAAAAAAG
1 AAAA-AAATAAAAG
22062198 TGCATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.07
Consensus pattern (16 bp):
AAAAAAATAAAAGAAG
Found at i:22062195 original size:8 final size:8
Alignment explanation
Indices: 22062152--22062179 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
22062142 TTTTAACATA
22062152 AAAAAAAT
1 AAAAAAAT
22062160 AAAAAAAT
1 AAAAAAAT
22062168 AAAAAAAT
1 AAAAAAAT
22062176 AAAA
1 AAAA
22062180 GAAGAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:22073351 original size:722 final size:722
Alignment explanation
Indices: 22071966--22074011 Score: 4038
Period size: 722 Copynumber: 2.8 Consensus size: 722
22071956 TGCTATCCTC
*
22071966 GTGAAGATTAAACTCTGACCACTAACCATTCTGCACTTCTGTCTTAATTCTATCTAACTCACTAT
1 GTGAAGATTAAACTCTGACCACTAACCATTCTGCACTTCTGTCTTAATTCTGTCTAACTCACTAT
22072031 CTTCTTTTTGTGCAAATTTTATCTTTTCGATCAAAGTTGGTTGAACCATCAAACTAGCCATAACA
66 CTTCTTTTTGTGCAAATTTTATCTTTTCGATCAAAGTTGGTTGAACCATCAAACTAGCCATAACA
22072096 ATACCTTTTCCCTGTATAATCACCTCGATTTGCTGCATATCAAGTTCTTTCAACAATTTTGGTTG
131 ATACCTTTTCCCTGTATAATCACCTCGATTTGCTGCATATCAAGTTCTTTCAACAATTTTGGTTG
22072161 CAAAGTAAGCAAAACAACCATACTTCCAATGGACTTTCATACTAAAAGCATCAGCAACTACATTA
196 CAAAGTAAGCAAAACAACCATACTTCCAATGGACTTTCATACTAAAAGCATCAGCAACTACATTA
22072226 GCTTTGCCCGGATGATAATTGATGGTCAAATCATAATCTTTGATTAATTCCAACCATCTTCTTTG
261 GCTTTGCCCGGATGATAATTGATGGTCAAATCATAATCTTTGATTAATTCCAACCATCTTCTTTG
22072291 TCTCATGTTCAACTCTTTCTGCGTAAACAGATACTTTAAACTCTTATAGTCCGTATAAATTGCAC
326 TCTCATGTTCAACTCTTTCTGCGTAAACAGATACTTTAAACTCTTATAGTCCGTATAAATTGCAC
22072356 AAGGCTCCCCATACAAATAATGTCTCCATATTTTCAAAGCAAACACAATGGCAGCTAACTCTAAG
391 AAGGCTCCCCATACAAATAATGTCTCCATATTTTCAAAGCAAACACAATGGCAGCTAACTCTAAG
*
22072421 TTATGAGTCGGATAATTCTGCTCGTAGGTTTTTAATTGCCTAGAAACATAAGCAATTACCCTTTC
456 TTATGAGTCGGATAATTCTGCTCGTAGGTTTTTAATTGCCTAGAAGCATAAGCAATTACCCTTTC
22072486 ATTCTGTATTAACACACAACCTAACCCCTTCTTGGAAGCATCACTATAAATGGTAAAACTACCAA
521 ATTCTGTATTAACACACAACCTAACCCCTTCTTGGAAGCATCACTATAAATGGTAAAACTACCAA
22072551 TATCAGAAGGTAAAGTACATTGCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCTGAACCCG
586 TATCAGAAGGTAAAGTACATTGCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCTGAACCCG
*
22072616 TGCGGCTCCGAGACCCGAGCATTCACCCTTCCGGTGTCCCGAATCAACCTGACCGCCACGGTTCA
651 TGCAGCTCCGAGACCCGAGCATTCACCCTTCCGGTGTCCCGAATCAACCTGACCGCCACGGTTCA
22072681 CACCCTT
716 CACCCTT
22072688 GTGAAGATTAAACTCTGACCACTAACCATTCTGCACTTCTGTCTTAATTCTGTCTAACTCACTAT
1 GTGAAGATTAAACTCTGACCACTAACCATTCTGCACTTCTGTCTTAATTCTGTCTAACTCACTAT
22072753 CTTCTTTTTGTGCAAATTTTATCTTTTCGATCAAAGTTGGTTGAACCATCAAACTAGCCATAACA
66 CTTCTTTTTGTGCAAATTTTATCTTTTCGATCAAAGTTGGTTGAACCATCAAACTAGCCATAACA
22072818 ATACCTTTTCCCTGTATAATCACCTCGATTTGCTGCATATCAAGTTCTTTCAACAATTTTGGTTG
131 ATACCTTTTCCCTGTATAATCACCTCGATTTGCTGCATATCAAGTTCTTTCAACAATTTTGGTTG
22072883 CAAAGTAAGCAAAACAACCATACTTCCAATGGACTTTCATACTAAAAGCATCAGCAACTACATTA
196 CAAAGTAAGCAAAACAACCATACTTCCAATGGACTTTCATACTAAAAGCATCAGCAACTACATTA
22072948 GCTTTGCCCGGATGATAATTGATGGTCAAATCATAATCTTTGATTAATTCCAACCATCTTCTTTG
261 GCTTTGCCCGGATGATAATTGATGGTCAAATCATAATCTTTGATTAATTCCAACCATCTTCTTTG
*
22073013 TCTCATGTTCAACTCTTTCTGCGTAAACAGATACTTTAAACTCTTATAGTCCGTATAAATTACAC
326 TCTCATGTTCAACTCTTTCTGCGTAAACAGATACTTTAAACTCTTATAGTCCGTATAAATTGCAC
22073078 AAGGCTCCCCATACAAATAATGTCTCCATATTTTCAAAGCAAACACAATGGCAGCTAACTCTAAG
391 AAGGCTCCCCATACAAATAATGTCTCCATATTTTCAAAGCAAACACAATGGCAGCTAACTCTAAG
22073143 TTATGAGTCGGATAATTCTGCTCGTAGGTTTTTAATTGCCTAGAAGCATAAGCAATTACCCTTTC
456 TTATGAGTCGGATAATTCTGCTCGTAGGTTTTTAATTGCCTAGAAGCATAAGCAATTACCCTTTC
22073208 ATTCTGTATTAACACACAACCTAACCCCTTCTTGGAAGCATCACTATAAATGGTAAAACTACCAA
521 ATTCTGTATTAACACACAACCTAACCCCTTCTTGGAAGCATCACTATAAATGGTAAAACTACCAA
22073273 TATCAGAAGGTAAAGTACATTGCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCTGAACCCG
586 TATCAGAAGGTAAAGTACATTGCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCTGAACCCG
*
22073338 TGCAGCTCCGAGACCCGAGCATTCACCCTTCCGGTGTCCCGAATCAGCCTGACCGCCACGGTTCA
651 TGCAGCTCCGAGACCCGAGCATTCACCCTTCCGGTGTCCCGAATCAACCTGACCGCCACGGTTCA
22073403 CACCCTT
716 CACCCTT
22073410 GTGAAGATTAAACTCTGACCACTAACCATTCTGCACTTCTGTCTTAATTCTGTCTAACTCACTAT
1 GTGAAGATTAAACTCTGACCACTAACCATTCTGCACTTCTGTCTTAATTCTGTCTAACTCACTAT
22073475 CTTCTTTTTGTGCAAATTTTATCTTTTCGATCAAAGTTGGTTGAACCATCAAACTAGCCATAACA
66 CTTCTTTTTGTGCAAATTTTATCTTTTCGATCAAAGTTGGTTGAACCATCAAACTAGCCATAACA
22073540 ATACCTTTTCCCTGTATAATCACCTCGATTTGCTGCATATCAAGTTCTTTCAACAATTTTGGTTG
131 ATACCTTTTCCCTGTATAATCACCTCGATTTGCTGCATATCAAGTTCTTTCAACAATTTTGGTTG
22073605 CAAAGTAAGCAAAACAACCATACTTCCAATGGACTTTCATACTAAAAGCATCAGCAACTACATTA
196 CAAAGTAAGCAAAACAACCATACTTCCAATGGACTTTCATACTAAAAGCATCAGCAACTACATTA
22073670 GCTTTGCCCGGATGATAATTGATGGTCAAATCATAATCTTTGATTAATTCCAACCATCTTCTTTG
261 GCTTTGCCCGGATGATAATTGATGGTCAAATCATAATCTTTGATTAATTCCAACCATCTTCTTTG
*
22073735 TCTCATGTTCAACTCTTTCTGCATAAACAGATACTTTAAACTCTTATAGTCCGTATAAATTGCAC
326 TCTCATGTTCAACTCTTTCTGCGTAAACAGATACTTTAAACTCTTATAGTCCGTATAAATTGCAC
22073800 AAGGCTCCCCATACAAATAATGTCTCCATATTTTCAAAGCAAACACAATGGCAGCTAACTCTAAG
391 AAGGCTCCCCATACAAATAATGTCTCCATATTTTCAAAGCAAACACAATGGCAGCTAACTCTAAG
22073865 TTATGAGTCGGATAATTCTGCTCGTAGGTTTTTAATTGCCTAGAAGCATAAGCAATTACCCTTTC
456 TTATGAGTCGGATAATTCTGCTCGTAGGTTTTTAATTGCCTAGAAGCATAAGCAATTACCCTTTC
22073930 ATTCTGTATTAACACACAACCTAACCCCTTCTTGGAAGCATCACTATAAATGGTAAAACTACCAA
521 ATTCTGTATTAACACACAACCTAACCCCTTCTTGGAAGCATCACTATAAATGGTAAAACTACCAA
22073995 TATCAGAAGGTAAAGTA
586 TATCAGAAGGTAAAGTA
22074012 AGGATAGGTG
Statistics
Matches: 1317, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
722 1317 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (722 bp):
GTGAAGATTAAACTCTGACCACTAACCATTCTGCACTTCTGTCTTAATTCTGTCTAACTCACTAT
CTTCTTTTTGTGCAAATTTTATCTTTTCGATCAAAGTTGGTTGAACCATCAAACTAGCCATAACA
ATACCTTTTCCCTGTATAATCACCTCGATTTGCTGCATATCAAGTTCTTTCAACAATTTTGGTTG
CAAAGTAAGCAAAACAACCATACTTCCAATGGACTTTCATACTAAAAGCATCAGCAACTACATTA
GCTTTGCCCGGATGATAATTGATGGTCAAATCATAATCTTTGATTAATTCCAACCATCTTCTTTG
TCTCATGTTCAACTCTTTCTGCGTAAACAGATACTTTAAACTCTTATAGTCCGTATAAATTGCAC
AAGGCTCCCCATACAAATAATGTCTCCATATTTTCAAAGCAAACACAATGGCAGCTAACTCTAAG
TTATGAGTCGGATAATTCTGCTCGTAGGTTTTTAATTGCCTAGAAGCATAAGCAATTACCCTTTC
ATTCTGTATTAACACACAACCTAACCCCTTCTTGGAAGCATCACTATAAATGGTAAAACTACCAA
TATCAGAAGGTAAAGTACATTGCTGATACCACTTGTCACGGGTCGAGACTCAAGCTCTGAACCCG
TGCAGCTCCGAGACCCGAGCATTCACCCTTCCGGTGTCCCGAATCAACCTGACCGCCACGGTTCA
CACCCTT
Found at i:22082933 original size:24 final size:24
Alignment explanation
Indices: 22082897--22082943 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
22082887 AGTCCTTAAC
*
22082897 GGAAAAAGCTAAAGCTGAAAAAAG
1 GGAAAAAGATAAAGCTGAAAAAAG
22082921 GGAAAAAGATAAAGCTGAAAAAA
1 GGAAAAAGATAAAGCTGAAAAAA
22082944 ATTCTAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.62, C:0.06, G:0.23, T:0.09
Consensus pattern (24 bp):
GGAAAAAGATAAAGCTGAAAAAAG
Found at i:22085456 original size:21 final size:22
Alignment explanation
Indices: 22085432--22085474 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
22085422 AAAGAAATGT
22085432 TTTCACAATCAAACAAA-AAAA
1 TTTCACAATCAAACAAACAAAA
22085453 TTTCACAATCAAACAAACAAAA
1 TTTCACAATCAAACAAACAAAA
22085475 AAAAAAGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (22 bp):
TTTCACAATCAAACAAACAAAA
Found at i:22086309 original size:2 final size:2
Alignment explanation
Indices: 22086262--22086290 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22086252 TTTTTTAATT
22086262 TA TA TA -A 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
22086291 CACAATCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22091570 original size:19 final size:19
Alignment explanation
Indices: 22091548--22091587 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
22091538 TGTATCTGAA
*
22091548 TTTTAATATTTTTTTGTTG
1 TTTTAATATTTTATTGTTG
*
22091567 TTTTGATATTTTATTGTTG
1 TTTTAATATTTTATTGTTG
22091586 TT
1 TT
22091588 AATTTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.72
Consensus pattern (19 bp):
TTTTAATATTTTATTGTTG
Found at i:22092036 original size:21 final size:23
Alignment explanation
Indices: 22091993--22092038 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
22091983 TTTAAATTAA
22091993 ATATTATATTTTAATTGTGTTAT
1 ATATTATATTTTAATTGTGTTAT
22092016 ATATTA-ATTTATAATT-T-TTAT
1 ATATTATATTT-TAATTGTGTTAT
22092037 AT
1 AT
22092039 GAAATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 5 0.23
23 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
ATATTATATTTTAATTGTGTTAT
Found at i:22092046 original size:20 final size:21
Alignment explanation
Indices: 22092021--22092062 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
22092011 GTTATATATT
22092021 AATTT-AT-AATTTTTATATGA
1 AATTTAATAAATTTTT-TATGA
22092041 AATTTAATAAATTTTTTATGA
1 AATTTAATAAATTTTTTATGA
22092062 A
1 A
22092063 TAAACCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 8 0.40
22 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
AATTTAATAAATTTTTTATGA
Found at i:22092309 original size:12 final size:14
Alignment explanation
Indices: 22092277--22092313 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
22092267 CATTATATCT
*
22092277 TAAAATGCAATAAA
1 TAAAACGCAATAAA
22092291 TAAAACGCAAT-AA
1 TAAAACGCAATAAA
22092304 -AAAACGCAAT
1 TAAAACGCAAT
22092314 CGCTATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.45
13 2 0.09
14 10 0.45
ACGTcount: A:0.62, C:0.14, G:0.08, T:0.16
Consensus pattern (14 bp):
TAAAACGCAATAAA
Found at i:22096186 original size:16 final size:14
Alignment explanation
Indices: 22096158--22096191 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
22096148 AGTTAATATG
22096158 TAAATATAAATAAA
1 TAAATATAAATAAA
22096172 TAAATATATATATAAA
1 TAAATATA-A-ATAAA
22096188 TAAA
1 TAAA
22096192 CAGAGATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 1 0.06
16 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAATATAAATAAA
Found at i:22117141 original size:15 final size:15
Alignment explanation
Indices: 22117121--22117157 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
22117111 TTTGTTAATA
22117121 TATTTAAATTTTATT
1 TATTTAAATTTTATT
*
22117136 TATTTATA-TTTATT
1 TATTTAAATTTTATT
22117150 TA-TTAAAT
1 TATTTAAAT
22117158 AAATTGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 4 0.21
14 8 0.42
15 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTAAATTTTATT
Found at i:22117277 original size:9 final size:9
Alignment explanation
Indices: 22117265--22117293 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
22117255 AATAAAATTA
22117265 TTTTTTTAT
1 TTTTTTTAT
22117274 TTTTTTTA-
1 TTTTTTTAT
22117282 TTTTTTTAT
1 TTTTTTTAT
22117291 TTT
1 TTT
22117294 AAAGTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:22117278 original size:7 final size:8
Alignment explanation
Indices: 22117262--22117293 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
22117252 ATTAATAAAA
22117262 TTATTTTT
1 TTATTTTT
22117270 TTATTTTTT
1 TTA-TTTTT
22117279 TTATTTTT
1 TTATTTTT
22117287 TTATTTT
1 TTATTTT
22117294 AAAGTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:22117313 original size:10 final size:10
Alignment explanation
Indices: 22117224--22117335 Score: 81
Period size: 10 Copynumber: 11.0 Consensus size: 10
22117214 GTTCAAAATT
22117224 TATTTATTTA
1 TATTTATTTA
22117234 TTATTTATTTA
1 -TATTTATTTA
22117245 TATTAATATTAATA
1 TATT--TATT--TA
* *
22117259 AAATTATTT-
1 TATTTATTTA
22117268 T-TTTATTT-
1 TATTTATTTA
*
22117276 TTTTTATTT-
1 TATTTATTTA
22117285 T-TTTATTTTA
1 TATTTA-TTTA
*
22117295 AAGTTTATTTA
1 TA-TTTATTTA
22117306 TATTTATTTA
1 TATTTATTTA
22117316 TATTTATTTA
1 TATTTATTTA
*
22117326 TATTCATTTA
1 TATTTATTTA
22117336 AAGAAATAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
8 11 0.13
9 11 0.13
10 32 0.38
11 15 0.18
12 12 0.14
14 4 0.05
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (10 bp):
TATTTATTTA
Found at i:22121804 original size:21 final size:22
Alignment explanation
Indices: 22121780--22121829 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
22121770 AAATTTTAAA
*
22121780 TAAATTTATTTAATAAATAA-C
1 TAAATTTATTTAATAAAAAATC
* *
22121801 TAAAATTATTTATTAAAAAATC
1 TAAATTTATTTAATAAAAAATC
22121823 TAAATTT
1 TAAATTT
22121830 CATAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAATTTATTTAATAAAAAATC
Found at i:22121962 original size:22 final size:22
Alignment explanation
Indices: 22121910--22121962 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
22121900 TATTTGAATA
*
22121910 AATTTAAAATTATTTAATTTGT
1 AATTTAAAATTATTTAATGTGT
** *
22121932 AATAAAAAATTATTTTATGTGT
1 AATTTAAAATTATTTAATGTGT
*
22121954 CATTTAAAA
1 AATTTAAAA
22121963 AAATTATTCA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (22 bp):
AATTTAAAATTATTTAATGTGT
Found at i:22122037 original size:29 final size:29
Alignment explanation
Indices: 22121982--22122038 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
22121972 ATATAAATGT
* * *
22121982 TTATATAATAAATTTATTTATGCATATTA
1 TTATATAATAAATATATATATACATATTA
* *
22122011 TTATATAATATATATATATATATATATT
1 TTATATAATAAATATATATATACATATT
22122039 CGATTTGGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
TTATATAATAAATATATATATACATATTA
Found at i:22128608 original size:29 final size:29
Alignment explanation
Indices: 22128574--22128629 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
22128564 ATTGAGTTAA
*
22128574 AATAAAAGATTAAAAATTTAATTGATTGT
1 AATAAAAGATTAAAAATTTAAATGATTGT
*
22128603 AATAAAATATTAAAAATTTAAATGATT
1 AATAAAAGATTAAAAATTTAAATGATT
22128630 ATTAAACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (29 bp):
AATAAAAGATTAAAAATTTAAATGATTGT
Found at i:22140288 original size:21 final size:18
Alignment explanation
Indices: 22140241--22140278 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
22140231 CGATACAATA
*
22140241 ATAAAATATAAAAATAAT
1 ATAAAAAATAAAAATAAT
22140259 ATAAAAAATAAAAATAAT
1 ATAAAAAATAAAAATAAT
22140277 AT
1 AT
22140279 GATTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAAATAAAAATAAT
Found at i:22140609 original size:15 final size:15
Alignment explanation
Indices: 22140589--22140622 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
22140579 TGTGCATAAT
22140589 GTTCATTTACGCTAA
1 GTTCATTTACGCTAA
22140604 GTTCATTTACGCTAA
1 GTTCATTTACGCTAA
22140619 GTTC
1 GTTC
22140623 GGATTTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.41
Consensus pattern (15 bp):
GTTCATTTACGCTAA
Found at i:22144311 original size:212 final size:218
Alignment explanation
Indices: 22143936--22144371 Score: 650
Period size: 212 Copynumber: 2.0 Consensus size: 218
22143926 GGGGTATTTT
* **
22143936 TTATATATATATTTTTTATTTTTTTACAATGAGATCGCAATATAAAATGAAAAAAGAAAGGGTCA
1 TTATATATATATTTTTTAATTTTTTACAATGAGATCGCAATATAAAATGAAAAAAGAAAAAGTCA
* *
22144001 CATCGGTTAAAATTTAAAATTTAAATTTATTGATGATGATTGTATAAATTAATTGAGTTAAACCT
66 CATCGGTTAAAATTTAAAATTTAAA-TTATTGAT-ATGACTGCATAAATTAATTGAGTTAAACCT
* *
22144066 TAAATTAATTTAATGAAATTACTTAAATTAAAAGTTTCTTTAGATGAACGATGAAATTGATTATA
129 TAAATTAACTTAATGAAATTACTTAAATTAAAAGTTTATTTAGATGAACGATGAAATTGATTATA
*
22144131 ATAATATTAAAAATAATAATAAAAA
194 ATAAAATTAAAAATAATAATAAAAA
* *
22144156 TTATATATATA-TTTTTAATTTTTTACAATGAGATTGCAATATAAAATGAAAAAA-AAAAAGTTA
1 TTATATATATATTTTTTAATTTTTTACAATGAGATCGCAATATAAAATGAAAAAAGAAAAAGTCA
* * *
22144219 CATCGGTTAAAATTTAAATTTTAAA-T-TT-AT-TGACTGCATAAATTAATTGGGTTAAACTTTA
66 CATCGGTTAAAATTTAAAATTTAAATTATTGATATGACTGCATAAATTAATTGAGTTAAACCTTA
* * * * *
22144280 AATTAGCTTAATGAAATTACTTAAATTAAAAGTTTATTTGGATGGACGATGAGATTGATTGTAAT
131 AATTAACTTAATGAAATTACTTAAATTAAAAGTTTATTTAGATGAACGATGAAATTGATTATAAT
22144345 AAAATTAAAAATAATAATAAAAA
196 AAAATTAAAAATAATAATAAAAA
22144368 TTAT
1 TTAT
22144372 TGTAACTGTG
Statistics
Matches: 198, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
212 111 0.56
214 2 0.01
215 2 0.01
216 1 0.01
218 30 0.15
219 41 0.21
220 11 0.06
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.39
Consensus pattern (218 bp):
TTATATATATATTTTTTAATTTTTTACAATGAGATCGCAATATAAAATGAAAAAAGAAAAAGTCA
CATCGGTTAAAATTTAAAATTTAAATTATTGATATGACTGCATAAATTAATTGAGTTAAACCTTA
AATTAACTTAATGAAATTACTTAAATTAAAAGTTTATTTAGATGAACGATGAAATTGATTATAAT
AAAATTAAAAATAATAATAAAAA
Found at i:22145211 original size:30 final size:31
Alignment explanation
Indices: 22145177--22145240 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
22145167 TCAAATAAAA
*
22145177 TTTTAAATTTTAATATGCATCTAAACAAA-C
1 TTTTAAACTTTAATATGCATCTAAACAAATC
** * *
22145207 TTTTATCCTTTAATTTGTATCTAAACAAATC
1 TTTTAAACTTTAATATGCATCTAAACAAATC
22145238 TTT
1 TTT
22145241 AATATTTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (31 bp):
TTTTAAACTTTAATATGCATCTAAACAAATC
Found at i:22145249 original size:30 final size:30
Alignment explanation
Indices: 22145185--22145255 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
22145175 AATTTTAAAT
* * * *
22145185 TTTAATATGCATCTAAACAAACTTTTATCC
1 TTTAATTTGTATCTAAACAAACTTTAATCA
22145215 TTTAATTTGTATCTAAACAAATCTTTAAT-A
1 TTTAATTTGTATCTAAACAAA-CTTTAATCA
22145245 TTTAATTTGTA
1 TTTAATTTGTA
22145256 CATAAATAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 30 0.83
31 6 0.17
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (30 bp):
TTTAATTTGTATCTAAACAAACTTTAATCA
Found at i:22153685 original size:17 final size:17
Alignment explanation
Indices: 22153646--22153679 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
22153636 TGATAATTAA
22153646 TAATTTAAAATATAATT
1 TAATTTAAAATATAATT
22153663 TAATTT-AAATAT-ATT
1 TAATTTAAAATATAATT
22153678 TA
1 TA
22153680 TTATTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 6 0.35
17 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTTAAAATATAATT
Found at i:22154888 original size:21 final size:21
Alignment explanation
Indices: 22154864--22154909 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
22154854 GTTAATTGTT
22154864 ATAAACTGAGCCAAAAACTTA
1 ATAAACTGAGCCAAAAACTTA
22154885 ATAAACTGAGCCAAAAACTTA
1 ATAAACTGAGCCAAAAACTTA
22154906 ATAA
1 ATAA
22154910 GCTTAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.54, C:0.17, G:0.09, T:0.20
Consensus pattern (21 bp):
ATAAACTGAGCCAAAAACTTA
Found at i:22162696 original size:55 final size:56
Alignment explanation
Indices: 22162590--22162699 Score: 159
Period size: 56 Copynumber: 2.0 Consensus size: 56
22162580 TATTACTTTG
* * *
22162590 AGATTTTTTTCAAGGTAATATGGTCATGTTACGTCTTGATCTCGAGGCGTGACAAT
1 AGATTTTTTTCAAGGTAATACGGTCATATTACGTCTCGATCTCGAGGCGTGACAAT
** *
22162646 AGATTTTTTTCAAGGTAATACGGTTGTATTATGTCTCGAT-TCGAGGCGTGACAA
1 AGATTTTTTTCAAGGTAATACGGTCATATTACGTCTCGATCTCGAGGCGTGACAA
22162700 AAATTGTATC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 14 0.29
56 34 0.71
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (56 bp):
AGATTTTTTTCAAGGTAATACGGTCATATTACGTCTCGATCTCGAGGCGTGACAAT
Found at i:22163533 original size:37 final size:37
Alignment explanation
Indices: 22163470--22163543 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
22163460 TAAGTAGAAT
* * *
22163470 CTCACACACTTTGTTTGTTTTTGAATCTATGTATATA
1 CTCACACACTTTGCTTATTTTCGAATCTATGTATATA
22163507 CTCACACACTTTGCTTATTTTCGAATCTATGTATATA
1 CTCACACACTTTGCTTATTTTCGAATCTATGTATATA
22163544 TATATATATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (37 bp):
CTCACACACTTTGCTTATTTTCGAATCTATGTATATA
Found at i:22163974 original size:16 final size:16
Alignment explanation
Indices: 22163955--22163986 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22163945 TAATGATAAC
*
22163955 GATGATTTATGATGAT
1 GATGATTTACGATGAT
22163971 GATGATTTACGATGAT
1 GATGATTTACGATGAT
22163987 TTTTAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.25, T:0.41
Consensus pattern (16 bp):
GATGATTTACGATGAT
Found at i:22164052 original size:29 final size:27
Alignment explanation
Indices: 22164034--22164087 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
22164024 ATTTGAATGA
22164034 TAGCATATTTTGCAATGATTTATGAAG
1 TAGCATATTTTGCAATGATTTATGAAG
* *
22164061 TGGCATATTTTGACATTGATTTATGAA
1 TAGCATATTTTG-CAATGATTTATGAA
22164088 TTTATGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (27 bp):
TAGCATATTTTGCAATGATTTATGAAG
Found at i:22164738 original size:32 final size:32
Alignment explanation
Indices: 22164700--22164761 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
22164690 TATTTTTACA
22164700 ATTTTATGTGCTTTG-TTATGTTTTATTAGTAT
1 ATTTTATGTG-TTTGATTATGTTTTATTAGTAT
*
22164732 ATTTTATGTGTTTGATTATTTTTTATTAGT
1 ATTTTATGTGTTTGATTATGTTTTATTAGT
22164762 GTATATATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.19, C:0.02, G:0.15, T:0.65
Consensus pattern (32 bp):
ATTTTATGTGTTTGATTATGTTTTATTAGTAT
Found at i:22165523 original size:27 final size:27
Alignment explanation
Indices: 22165470--22165526 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
22165460 AAAAAATAAT
*
22165470 AAAAATTATTGTGATTGTAATTGAAAA
1 AAAAATTATTGTGATTGTAATTAAAAA
22165497 AAAAATTATTGT-ATT-TACGATTAAAAA
1 AAAAATTATTGTGATTGTA--ATTAAAAA
22165524 AAA
1 AAA
22165527 TTTTAATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 2 0.07
26 3 0.11
27 22 0.81
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.35
Consensus pattern (27 bp):
AAAAATTATTGTGATTGTAATTAAAAA
Found at i:22177070 original size:14 final size:14
Alignment explanation
Indices: 22177053--22177086 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22177043 AAATAATATT
* *
22177053 TTTAAATTTAATAA
1 TTTAAATTCAAAAA
22177067 TTTAAATTCAAAAA
1 TTTAAATTCAAAAA
22177081 TTTAAA
1 TTTAAA
22177087 CAAATTAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTAAATTCAAAAA
Found at i:22179810 original size:10 final size:11
Alignment explanation
Indices: 22179782--22179809 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
22179772 AATATGAATA
22179782 TAAAAAATTAT
1 TAAAAAATTAT
22179793 TAAAAAATTAT
1 TAAAAAATTAT
22179804 TAAAAA
1 TAAAAA
22179810 TATTGTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAAATTAT
Found at i:22179985 original size:13 final size:13
Alignment explanation
Indices: 22179967--22179991 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22179957 TAATCTATCG
22179967 ATTTTAATTTTTT
1 ATTTTAATTTTTT
22179980 ATTTTAATTTTT
1 ATTTTAATTTTT
22179992 ACTTTATCAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:22180351 original size:15 final size:15
Alignment explanation
Indices: 22180313--22180347 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22180303 GCATTTATAT
*
22180313 AATTTTAAAAATTTA
1 AATTTTAAAAATTAA
22180328 AATTTTAAAAA-TAA
1 AATTTTAAAAATTAA
22180342 AATTTT
1 AATTTT
22180348 TAAATACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTTTAAAAATTAA
Found at i:22182506 original size:23 final size:24
Alignment explanation
Indices: 22182476--22182530 Score: 103
Period size: 23 Copynumber: 2.3 Consensus size: 24
22182466 TCTTAGCCGT
22182476 AATAACCTGAAAATACTAACCAA-
1 AATAACCTGAAAATACTAACCAAG
22182499 AATAACCTGAAAATACTAACCAAG
1 AATAACCTGAAAATACTAACCAAG
22182523 AATAACCT
1 AATAACCT
22182531 CTGGAGCACG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 23 0.74
24 8 0.26
ACGTcount: A:0.55, C:0.22, G:0.05, T:0.18
Consensus pattern (24 bp):
AATAACCTGAAAATACTAACCAAG
Found at i:22184917 original size:71 final size:71
Alignment explanation
Indices: 22184834--22184970 Score: 220
Period size: 71 Copynumber: 1.9 Consensus size: 71
22184824 CCATTGAAAA
*
22184834 AGAAAAAAAAATTCCAGATCTGAGCCAAAAGAAGTGAAAATATGCTAACTTTGCAAAACAGGATC
1 AGAAAAAAAAATTCCAGATCTGAGCCAAAAGAAGTGAAAATATGCTAACTTTGCAAAACAGAATC
22184899 ATTAAT
66 ATTAAT
* ** * *
22184905 AGAAAAAAAAATTGCAGATCTGAGCCAAAAGGCGTGAAATTATGCTAACTTTGCATAACAGAATC
1 AGAAAAAAAAATTCCAGATCTGAGCCAAAAGAAGTGAAAATATGCTAACTTTGCAAAACAGAATC
22184970 A
66 A
22184971 CAAATTGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (71 bp):
AGAAAAAAAAATTCCAGATCTGAGCCAAAAGAAGTGAAAATATGCTAACTTTGCAAAACAGAATC
ATTAAT
Found at i:22190956 original size:20 final size:20
Alignment explanation
Indices: 22190930--22190975 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
22190920 TATAAAATAT
22190930 AATTTTT-TAATT-TTATTAA
1 AATTTTTATAATTCTT-TTAA
22190949 ATATTTTTATAATTCTTTTAA
1 A-ATTTTTATAATTCTTTTAA
22190970 AATTTT
1 AATTTT
22190976 AAGTTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 11 0.46
21 10 0.42
22 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
AATTTTTATAATTCTTTTAA
Found at i:22198221 original size:27 final size:27
Alignment explanation
Indices: 22198183--22198243 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
22198173 AATCTGAAGG
22198183 TGAAGAAGGAGAATCAACATGGGAAAA
1 TGAAGAAGGAGAATCAACATGGGAAAA
22198210 TGAAGAAGGAGAATCAACATGGGAAAA
1 TGAAGAAGGAGAATCAACATGGGAAAA
22198237 TGAAGAA
1 TGAAGAA
22198244 AGTGATGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.52, C:0.07, G:0.30, T:0.11
Consensus pattern (27 bp):
TGAAGAAGGAGAATCAACATGGGAAAA
Found at i:22198287 original size:105 final size:105
Alignment explanation
Indices: 22198100--22198290 Score: 294
Period size: 105 Copynumber: 1.8 Consensus size: 105
22198090 AGAAGAAACT
* **
22198100 GAAAGTGAAGAAGGAGAATCAACAGGGGAAAACGAAGAAAGTGATGGGGCTGAAGCAAGGTTGTC
1 GAAAATGAAGAAGGAGAATCAACAGGGGAAAACGAAGAAAGTGATGAAGCTGAAGCAAGGTTGTC
*
22198165 CGATTGGGAATCTGAAGGTGAAGAAGGAGAATCAACATGG
66 CGATTGGGAACCTGAAGGTGAAGAAGGAGAATCAACATGG
* * *
22198205 GAAAATGAAGAAGGAGAATCAACATGGGAAAATGAAGAAAGTGATGAAGCTGAAGCAAGTTTGT-
1 GAAAATGAAGAAGGAGAATCAACAGGGGAAAACGAAGAAAGTGATGAAGCTGAAGCAAGGTTGTC
*
22198269 CTACTTGGGAACCTGAAGGTGA
66 CGA-TTGGGAACCTGAAGGTGA
22198291 GGATTCACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
104 2 0.03
105 75 0.97
ACGTcount: A:0.41, C:0.09, G:0.34, T:0.16
Consensus pattern (105 bp):
GAAAATGAAGAAGGAGAATCAACAGGGGAAAACGAAGAAAGTGATGAAGCTGAAGCAAGGTTGTC
CGATTGGGAACCTGAAGGTGAAGAAGGAGAATCAACATGG
Found at i:22203439 original size:2 final size:2
Alignment explanation
Indices: 22203432--22203460 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22203422 AGCCAAGCCT
22203432 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
22203461 GGAAAGAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22204001 original size:21 final size:20
Alignment explanation
Indices: 22203935--22204009 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
22203925 AATTTTATTT
22203935 TTTATTTTTATATTATATTAA
1 TTTATTTTTATA-TATATTAA
**
22203956 TAAATTTTTA-ATATATTTAAA
1 TTTATTTTTATATATA-TT-AA
*
22203977 TTTATTTTTATATAATATTAT
1 TTTATTTTTATAT-ATATTAA
*
22203998 TTTAATTTTATA
1 TTTATTTTTATA
22204010 AAAATTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.09
20 3 0.07
21 30 0.68
22 4 0.09
23 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTATTTTTATATATATTAA
Found at i:22204431 original size:14 final size:14
Alignment explanation
Indices: 22204410--22204447 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
22204400 TTAAATATAA
22204410 TATAATATTTAAAT
1 TATAATATTTAAAT
* *
22204424 TTTAATATTTGAAT
1 TATAATATTTAAAT
22204438 TATAA-ATTTA
1 TATAATATTTA
22204448 TTAATTAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TATAATATTTAAAT
Found at i:22204556 original size:19 final size:19
Alignment explanation
Indices: 22204532--22204568 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22204522 ATATTATATT
* *
22204532 AATATTAATTTATAATTTA
1 AATATTAAATTAAAATTTA
22204551 AATATTAAATTAAAATTT
1 AATATTAAATTAAAATTT
22204569 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATTAAATTAAAATTTA
Found at i:22204579 original size:30 final size:30
Alignment explanation
Indices: 22204519--22204580 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
22204509 ACATTAAAAA
* * *
22204519 TAAATATTATATTAATATTAATTTATAATT
1 TAAATATTAAATTAAAATTAATTTAAAATT
**
22204549 TAAATATTAAATTAAAATTTTTTTAAAATT
1 TAAATATTAAATTAAAATTAATTTAAAATT
22204579 TA
1 TA
22204581 GATGTTACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TAAATATTAAATTAAAATTAATTTAAAATT
Found at i:22204956 original size:73 final size:73
Alignment explanation
Indices: 22204870--22205014 Score: 245
Period size: 73 Copynumber: 2.0 Consensus size: 73
22204860 TTTTATAGGA
* *
22204870 CTAAACGACGCAGTTTCGAAAACAGTTTCTCTCTTGCACGGGTATTAATCCTCGGAAGTTGGAAC
1 CTAAACGACGCAGTTTCGAAAACAGTTTCCCTCTTGCACGGGTATTAAACCTCGGAAGTTGGAAC
*
22204935 TTGGAACT
66 TTAGAACT
* *
22204943 CTAAACGACGCAGTTTCGAAAACAGTTTCCCTCTTGCACGGGTGTTAAACCTCTGAAGTTGGAAC
1 CTAAACGACGCAGTTTCGAAAACAGTTTCCCTCTTGCACGGGTATTAAACCTCGGAAGTTGGAAC
22205008 TTAGAAC
66 TTAGAAC
22205015 GCTTACTCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (73 bp):
CTAAACGACGCAGTTTCGAAAACAGTTTCCCTCTTGCACGGGTATTAAACCTCGGAAGTTGGAAC
TTAGAACT
Found at i:22213097 original size:20 final size:18
Alignment explanation
Indices: 22213071--22213122 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 18
22213061 ATTTTAATAT
22213071 AAATTTTAATATATATAA
1 AAATTTTAATATATATAA
*
22213089 ATTAATTTT-AT-TTTAT-A
1 A--AATTTTAATATATATAA
22213106 AAATTTTAATATATATA
1 AAATTTTAATATATATA
22213123 TATAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
15 6 0.22
16 2 0.07
17 6 0.22
18 5 0.19
19 2 0.07
20 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AAATTTTAATATATATAA
Found at i:22213134 original size:18 final size:18
Alignment explanation
Indices: 22213067--22213151 Score: 59
Period size: 18 Copynumber: 4.7 Consensus size: 18
22213057 TATTATTTTA
*
22213067 ATATAAATT-TTA-ATAT
1 ATATAAATTAATATATAT
*
22213083 ATATAAATTAAT-TTTATT
1 ATATAAATTAATATATA-T
*
22213101 TTATAAAATTTTAATATATAT
1 ATAT-AAA--TTAATATATAT
* *
22213122 ATATAAATTAATAAAAAT
1 ATATAAATTAATATATAT
*
22213140 ATATAATTTAAT
1 ATATAAATTAAT
22213152 TCAATTTATA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
16 9 0.17
17 3 0.06
18 24 0.44
19 3 0.06
20 3 0.06
21 9 0.17
22 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATAAATTAATATATAT
Found at i:22216037 original size:30 final size:30
Alignment explanation
Indices: 22215993--22216080 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
22215983 ACAGACTGCT
* *
22215993 GGGACAAA-CCAAGGAAAAGCATTGATAGCA
1 GGGA-AAAGCCAAGGAAAAGCACTGATAGAA
22216023 GGGAAAAGCCAAGGAAAAGCACTGATAGAA
1 GGGAAAAGCCAAGGAAAAGCACTGATAGAA
* * * *
22216053 GAGACAAGCCACGGAAGAGCACTGATAG
1 GGGAAAAGCCAAGGAAAAGCACTGATAG
22216081 GCCAGAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
29 3 0.06
30 48 0.94
ACGTcount: A:0.45, C:0.17, G:0.30, T:0.08
Consensus pattern (30 bp):
GGGAAAAGCCAAGGAAAAGCACTGATAGAA
Found at i:22216511 original size:55 final size:54
Alignment explanation
Indices: 22216402--22216514 Score: 131
Period size: 55 Copynumber: 2.1 Consensus size: 54
22216392 TTCAGAATTT
* * ** *
22216402 GTAT-TTTGGTCTTCAAAGCTGCACGATAACGGTGTCATGAATTTTAGAGTTTG
1 GTATATTTGGTCCTCAAAGCTGCACAATAACGGTGTCATGAATTCAAGAGCTTG
* *
22216455 GTATATTTGAGTCCTCAAAGCTGCACAATAAGGGTGTCATGGATTGCAAG-GCTTG
1 GTATATTTG-GTCCTCAAAGCTGCACAATAACGGTGTCATGAATT-CAAGAGCTTG
22216510 GTATA
1 GTATA
22216515 ATTTTGAGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 4 0.08
54 4 0.08
55 40 0.80
56 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (54 bp):
GTATATTTGGTCCTCAAAGCTGCACAATAACGGTGTCATGAATTCAAGAGCTTG
Found at i:22217126 original size:37 final size:36
Alignment explanation
Indices: 22217054--22217144 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 36
22217044 GGATATGATG
22217054 ATATGATTAAAAAATTAAAAAAAATTGATAAAAGTT
1 ATATGATTAAAAAATTAAAAAAAATTGATAAAAGTT
* ** *
22217090 ATATGATTTAAATGTTAATAAAAATT-ATATATAAG-T
1 ATATGATTAAAAAATTAAAAAAAATTGATA-A-AAGTT
22217126 -T-TGA-TAAAAAATTAAAAAA
1 ATATGATTAAAAAATTAAAAAA
22217145 TATGTTTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
33 11 0.24
34 3 0.07
35 4 0.09
36 24 0.53
37 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (36 bp):
ATATGATTAAAAAATTAAAAAAAATTGATAAAAGTT
Found at i:22223657 original size:22 final size:22
Alignment explanation
Indices: 22223625--22223676 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
22223615 TGATTTATAT
22223625 CTAA-AAAAAAAAATAATCGAA
1 CTAATAAAAAAAAATAATCGAA
22223646 CTAATAAAAAAAAATAATCGAA
1 CTAATAAAAAAAAATAATCGAA
*
22223668 GTAATAAAA
1 CTAATAAAA
22223677 TCGATCAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.69, C:0.08, G:0.06, T:0.17
Consensus pattern (22 bp):
CTAATAAAAAAAAATAATCGAA
Found at i:22224435 original size:289 final size:288
Alignment explanation
Indices: 22223932--22224463 Score: 762
Period size: 289 Copynumber: 1.8 Consensus size: 288
22223922 TTAACTAACG
* * * * *
22223932 ATTATCGAAATTAAATTAATCAAACCAATTTGATTAAATTTATTCAGTTTTGATCGATCAAATCA
1 ATTATCGAAACTAAACTAATCAAACCAATTTGATTAAATTTAATCAATTTTAATCGATCAAATCA
* * ** *
22223997 TTTAAAATCAACTTATGTTCACTCCTAAAAAAAATTGAATCGAGCTTTAAGAAATGGAGTTGAAT
66 TTTAAAATCAACTTATATTCACTCCAAAAAAAAATCAAATCGAACTTTAAGAAATGGAGTTGAAT
* * * * *
22224062 TGAGTTTGTATAAGCAATTCGATTTGGAGACCTAATGGCTTTGCATTACATTATTAATTAAACTT
131 TGAG-TTGTACAAGAAATTCGATTTCGAGACCTAATGGCTGTGCATTACATCATTAATTAAACTT
22224127 TGATCACTGCGGGATGGTGAAGAAACACTACATCAATCATCTTTCTTAATAAGGTGGGTTCAATT
195 TGATCACTGCGGGATGGTGAAGAAACACTACATCAATCATCTTTCTTAATAAGGTGGGTTCAATT
22224192 TTTAATTAACTCAAATTATTTAATCAATA
260 TTTAATTAACTCAAATTATTTAATCAATA
* * * *
22224221 ATTATCGAAACTGAACTAATCGAACTAATTTTG-TTAAATTTAATCAATTTTAATGGATCAAATC
1 ATTATCGAAACTAAACTAATCAAACCAA-TTTGATTAAATTTAATCAATTTTAATCGATCAAATC
* * * * * *
22224285 GTTTGAAATCAACTTATATTCACTCCAAAAAAAAAAATCAAATTGAATTTTGAGAGATGGAGTTG
65 ATTTAAAATCAACTTATATTCACTCC--AAAAAAAAATCAAATCGAACTTTAAGAAATGGAGTTG
* *
22224350 AATTGAG-TGTGCAAGAAATTCGTTTTCGAGACCTAATGGCTGTGCATTACATCATTAATTAAAC
128 AATTGAGTTGTACAAGAAATTCGATTTCGAGACCTAATGGCTGTGCATTACATCATTAATTAAAC
*
22224414 TTTGATCATTGCGGGATGGTGAAGAAACACTACATCAATCATCTTTCTTA
193 TTTGATCACTGCGGGATGGTGAAGAAACACTACATCAATCATCTTTCTTA
22224464 GTATAAAGCC
Statistics
Matches: 212, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
289 172 0.81
290 4 0.02
291 36 0.17
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (288 bp):
ATTATCGAAACTAAACTAATCAAACCAATTTGATTAAATTTAATCAATTTTAATCGATCAAATCA
TTTAAAATCAACTTATATTCACTCCAAAAAAAAATCAAATCGAACTTTAAGAAATGGAGTTGAAT
TGAGTTGTACAAGAAATTCGATTTCGAGACCTAATGGCTGTGCATTACATCATTAATTAAACTTT
GATCACTGCGGGATGGTGAAGAAACACTACATCAATCATCTTTCTTAATAAGGTGGGTTCAATTT
TTAATTAACTCAAATTATTTAATCAATA
Found at i:22224687 original size:21 final size:21
Alignment explanation
Indices: 22224663--22224713 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
22224653 CTCAAAATTA
22224663 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
22224684 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
22224705 AT-AAATATT
1 ATAAAATATT
22224714 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:22229671 original size:12 final size:12
Alignment explanation
Indices: 22229637--22229671 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
22229627 ATCGAACTGA
22229637 TTAAATTAATTT
1 TTAAATTAATTT
22229649 TTATCAATTAATTT
1 TTA--AATTAATTT
22229663 TTAAATTAA
1 TTAAATTAA
22229672 AAAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.43
14 12 0.57
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAAATTAATTT
Found at i:22231006 original size:23 final size:22
Alignment explanation
Indices: 22230958--22231008 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
22230948 ATATTTTTTA
*
22230958 AATT-TTATTAAATTTATATAT
1 AATTATTATTAAATTTAAATAT
22230979 AATTATTATTAAAATTTTAAATAT
1 AATTATTATT-AAA-TTTAAATAT
22231003 -ATTATT
1 AATTATT
22231009 TTCGTATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 9 0.35
24 8 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTATTATTAAATTTAAATAT
Found at i:22231706 original size:26 final size:27
Alignment explanation
Indices: 22231654--22231709 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
22231644 CAATTAGATG
22231654 AAAATTTTTAATATAAACGATTAAATT
1 AAAATTTTTAATATAAACGATTAAATT
22231681 AAAA-TTTTAATA-AAACTGA-TATAATT
1 AAAATTTTTAATATAAAC-GATTA-AATT
22231707 AAA
1 AAA
22231710 TAAAAGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 6 0.22
26 17 0.63
27 4 0.15
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (27 bp):
AAAATTTTTAATATAAACGATTAAATT
Found at i:22232149 original size:16 final size:16
Alignment explanation
Indices: 22232131--22232160 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22232121 AATTTTATAT
22232131 TTTTTAT-TTATATTA
1 TTTTTATATTATATTA
22232146 TTTTTATATTATATT
1 TTTTTATATTATATT
22232161 TAAAATTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTATATTATATTA
Found at i:22232347 original size:1 final size:1
Alignment explanation
Indices: 22232341--22232368 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
22232331 ACTTGGGCAC
22232341 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
22232369 CGCTAGAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:22236705 original size:31 final size:30
Alignment explanation
Indices: 22236670--22236754 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 30
22236660 ATAATATTTT
22236670 ATATAAAAATTATGTATTATAATTTATATTA
1 ATATAAAAATTAT-TATTATAATTTATATTA
**
22236701 ATATAAAATAATT-TT-TTATTTTATTATATTA
1 ATAT-AAA-AATTATTATTATAAT-TTATATTA
* *
22236732 ATAT-ATAATTATTATTAAAATTT
1 ATATAAAAATTATTATTATAATTT
22236755 TAAATTATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
28 4 0.09
29 5 0.12
30 9 0.21
31 17 0.40
32 4 0.09
33 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (30 bp):
ATATAAAAATTATTATTATAATTTATATTA
Found at i:22238193 original size:24 final size:24
Alignment explanation
Indices: 22238161--22238225 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
22238151 TGATACGACA
22238161 TAAAAATAATATAAATAAAAAATT
1 TAAAAATAATATAAATAAAAAATT
** **
22238185 TAAAAATAATA-CGATTTAAAATT
1 TAAAAATAATATAAATAAAAAATT
22238208 TAAAAA-AATCATAAATAA
1 TAAAAATAAT-ATAAATAA
22238226 TTTTAACAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
22 3 0.10
23 15 0.48
24 13 0.42
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (24 bp):
TAAAAATAATATAAATAAAAAATT
Done.