Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold311
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: 800152
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 6 of 7
Found at i:673886 original size:32 final size:34
Alignment explanation
Indices: 673778--673892 Score: 86
Period size: 32 Copynumber: 3.5 Consensus size: 34
673768 AATTTGAATA
*
673778 TAAAATAAATA-AA-ATAAT-TAAAATAAA-AT-T
1 TAAAATAAATATAATATAATAT-ATATAAACATAT
673808 TAAAATATAAATATAA-A-AATATATATAAACATAT
1 T-AAA-ATAAATATAATATAATATATATAAACATAT
* ** *
673842 TAAATTTTATATAATATAA-AT-TATTAACATAT
1 TAAAATAAATATAATATAATATATATAAACATAT
673874 TAAAATAAATATAAATATA
1 TAAAATAAATAT-AATATA
673893 TAATATTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
30 1 0.01
31 3 0.04
32 42 0.62
33 18 0.26
34 4 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (34 bp):
TAAAATAAATATAATATAATATATATAAACATAT
Found at i:673886 original size:52 final size:48
Alignment explanation
Indices: 673813--673957 Score: 136
Period size: 52 Copynumber: 2.9 Consensus size: 48
673803 AAATTTAAAA
* *
673813 TATAA-ATATAAAAATATATATAAACATATTAAATTTTATATAATATAAAT
1 TATAACATATTAAAATAAATATAAA-ATATTAAATTTTATAT-ATAT-AAT
*
673863 TATTAACATATTAAAATAAATAT-AAATATATAATATTTTAAATATATAAT
1 TA-TAACATATTAAAATAAATATAAAATAT-TAA-ATTTTATATATATAAT
* * *
673913 TATAATATA-T-AAATATAATATAAATTATTATATTTTATTATATAT
1 TATAACATATTAAAATA-AATATAAAATATTAAATTTTA-TATATAT
673958 TTAAAATTTA
Statistics
Matches: 81, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
47 11 0.14
48 14 0.17
49 11 0.14
50 11 0.14
51 12 0.15
52 22 0.27
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (48 bp):
TATAACATATTAAAATAAATATAAAATATTAAATTTTATATATATAAT
Found at i:673893 original size:8 final size:8
Alignment explanation
Indices: 673808--673929 Score: 53
Period size: 8 Copynumber: 15.0 Consensus size: 8
673798 AAATAAAATT
673808 TAAA-ATA
1 TAAATATA
673815 TAAATATAA
1 TAAATAT-A
*
673824 AAATATATA
1 TAA-ATATA
*
673833 TAAACATA
1 TAAATATA
*
673841 TTAAAT-TT
1 -TAAATATA
*
673849 TATATAATA
1 TAAAT-ATA
673858 TAAAT-TA
1 TAAATATA
673865 TTAACATAT-
1 -TAA-ATATA
673874 TAAAATAAATA
1 T-AAAT--ATA
673885 TAAATATA
1 TAAATATA
*
673893 T-AATATTT
1 TAAATA-TA
673901 TAAATATA
1 TAAATATA
673909 T-AAT-TA
1 TAAATATA
673915 T-AATATA
1 TAAATATA
673922 TAAATATA
1 TAAATATA
673930 ATATAAATTA
Statistics
Matches: 88, Mismatches: 10, Indels: 33
0.67 0.08 0.25
Matches are distributed among these distances:
6 6 0.07
7 20 0.23
8 27 0.31
9 23 0.26
10 11 0.12
11 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:673905 original size:22 final size:21
Alignment explanation
Indices: 673775--673934 Score: 87
Period size: 20 Copynumber: 7.8 Consensus size: 21
673765 TTAAATTTGA
673775 ATATAAA-ATAAATA-A-AAT
1 ATATAAATATAAATATATAAT
* *
673793 A-ATTAAA-ATAAA-ATTTAAA
1 ATA-TAAATATAAATATATAAT
*
673812 ATATAAATATAAAAATAT-AT
1 ATATAAATATAAATATATAAT
673832 ATA-AACATATTAAATTTTATATAAT
1 ATATAA-ATA-TAAA---TATATAAT
*
673857 ATA-AATTATTAACATAT-TAA-
1 ATATAAATA-TAA-ATATATAAT
673877 A-ATAAATATAAATATATAAT
1 ATATAAATATAAATATATAAT
*
673897 ATTTTAAATATATAAT-TATAAT
1 A-TATAAATATA-AATATATAAT
673919 ATATAAATAT-AATATA
1 ATATAAATATAAATATA
673935 AATTATTATA
Statistics
Matches: 113, Mismatches: 9, Indels: 38
0.71 0.06 0.24
Matches are distributed among these distances:
17 2 0.02
18 14 0.12
19 19 0.17
20 21 0.19
21 18 0.16
22 18 0.16
23 3 0.03
24 10 0.09
25 8 0.07
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAAATATAAATATATAAT
Found at i:674921 original size:17 final size:16
Alignment explanation
Indices: 674901--674942 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
674891 TTATATTTTT
674901 TATTTAAAAATATTAAA
1 TATTTAAAAATATT-AA
*
674918 TATTTAATAAATATTAT
1 TATTTAA-AAATATTAA
674935 TATTTAAA
1 TATTTAAA
674943 TTAAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 15 0.65
18 7 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAAAAATATTAA
Found at i:674949 original size:19 final size:18
Alignment explanation
Indices: 674872--674960 Score: 67
Period size: 19 Copynumber: 4.8 Consensus size: 18
674862 AAAAATTTTG
674872 AAATATTTATTATTTAAAT
1 AAATA-TTATTATTTAAAT
** *
674891 TTATATTTTTTATTT-AA-
1 AAATA-TTATTATTTAAAT
*
674908 AAATATTAAATATTT-AAT
1 AAATATT-ATTATTTAAAT
674926 AAATATTATTATTTAAATT
1 AAATATTATTATTTAAA-T
*
674945 AAATAATTTTTATTTA
1 AAAT-ATTATTATTTA
674961 TTAAATTGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.04
17 16 0.29
18 11 0.20
19 17 0.30
20 10 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATATTATTATTTAAAT
Found at i:675333 original size:19 final size:19
Alignment explanation
Indices: 675305--675349 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
675295 ATATTTTAAG
*
675305 TATAATTATGATATA-AAAA
1 TATAAATATGATA-AGAAAA
*
675324 TATAAATATGATAAGAATA
1 TATAAATATGATAAGAAAA
675343 TATAAAT
1 TATAAAT
675350 TATTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
TATAAATATGATAAGAAAA
Found at i:676184 original size:23 final size:23
Alignment explanation
Indices: 676139--676183 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
676129 AAATATATTT
* *
676139 TTATTTAAATTTTAATTATAAAA
1 TTATATAAATATTAATTATAAAA
676162 TTATATAAATATTAA-TATAAAA
1 TTATATAAATATTAATTATAAAA
676184 AATATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTATATAAATATTAATTATAAAA
Found at i:676208 original size:10 final size:11
Alignment explanation
Indices: 676182--676206 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
676172 ATTAATATAA
676182 AAAATATTTTT
1 AAAATATTTTT
676193 AAAATATTTTT
1 AAAATATTTTT
676204 AAA
1 AAA
676207 TAATAAAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:677237 original size:22 final size:22
Alignment explanation
Indices: 677211--677253 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
677201 AATAAATATT
* *
677211 TATATAAATTTAATTATAAAAA
1 TATATAAATATAAATATAAAAA
677233 TATATAAATATAAATATAAAA
1 TATATAAATATAAATATAAAA
677254 TTTTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TATATAAATATAAATATAAAAA
Found at i:677300 original size:13 final size:13
Alignment explanation
Indices: 677282--677316 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
677272 TTTTAAATAA
677282 TAAATTAATATTT
1 TAAATTAATATTT
677295 TAAATTAA-ATTT
1 TAAATTAATATTT
*
677307 TAAATAAATA
1 TAAATTAATA
677317 AAAATTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATTAATATTT
Found at i:677309 original size:20 final size:19
Alignment explanation
Indices: 677237--677305 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 19
677227 TAAAAATATA
*
677237 TAAATATAAATATAAAATTT
1 TAAATATAAAT-TAATATTT
* *
677257 TAATTATTTAA-T-ATATTT
1 TAAATA-TAAATTAATATTT
677275 TAAATAATAAATTAATATTT
1 TAAAT-ATAAATTAATATTT
677295 TAAAT-TAAATT
1 TAAATATAAATT
677306 TTAAATAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 18 0.45
19 3 0.08
20 16 0.40
21 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAATATAAATTAATATTT
Found at i:678084 original size:18 final size:17
Alignment explanation
Indices: 678061--678095 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
678051 TTTTTTTATT
*
678061 ATTTTTATTTTATTTTTA
1 ATTTTT-TTTTAATTTTA
678079 ATTTTTTTTTAATTTTA
1 ATTTTTTTTTAATTTTA
678096 CAGTGCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTTTTTAATTTTA
Found at i:678090 original size:11 final size:12
Alignment explanation
Indices: 678059--678095 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
678049 AATTTTTTTA
678059 TTATTTTT-ATT
1 TTATTTTTAATT
678070 TTATTTTTAATT
1 TTATTTTTAATT
678082 TT-TTTTTAATT
1 TTATTTTTAATT
678093 TTA
1 TTA
678096 CAGTGCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTTTTAATT
Found at i:678620 original size:21 final size:20
Alignment explanation
Indices: 678578--678625 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
678568 TTTTTAGATT
678578 TAAATTTTAAATAATTAAATA
1 TAAATTTTAAATAATT-AATA
*
678599 TTAATTTTAAACATAATT-ATA
1 TAAATTTT-AA-ATAATTAATA
678620 TAAATT
1 TAAATT
678626 AATTGAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.65
22 2 0.09
23 6 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATTTTAAATAATTAATA
Found at i:679069 original size:18 final size:20
Alignment explanation
Indices: 679035--679079 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
679025 TTTATTTTGT
*
679035 AAAAAATTAATTGATTA-AC
1 AAAAAATAAATTGATTAGAC
679054 AAAAAATAAATT-ATTAGAC
1 AAAAAATAAATTGATTAGAC
679073 AACAAAA
1 AA-AAAA
679080 ATATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 15 0.65
20 4 0.17
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAAAATAAATTGATTAGAC
Found at i:680023 original size:15 final size:16
Alignment explanation
Indices: 679992--680031 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
679982 GTTAAATATT
679992 TTTTAAAAATATCTAA
1 TTTTAAAAATATCTAA
*
680008 TTTTATAAAT-TCTAA
1 TTTTAAAAATATCTAA
*
680023 TTTGAAAAA
1 TTTTAAAAA
680032 ACTGAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (16 bp):
TTTTAAAAATATCTAA
Found at i:681301 original size:26 final size:27
Alignment explanation
Indices: 681256--681306 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
681246 AAACATTTTA
* *
681256 ATATAAAAATAGATTTA-TTTATATTT
1 ATATAAAAATAAATTAATTTTATATTT
*
681282 ATATAAAATTAAATTAATTTTATAT
1 ATATAAAAATAAATTAATTTTATAT
681307 ATTTTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATAAAAATAAATTAATTTTATATTT
Found at i:684608 original size:20 final size:20
Alignment explanation
Indices: 684580--684628 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
684570 AGAAAGAATT
684580 GAAGAGGGATACAAGAGAGG
1 GAAGAGGGATACAAGAGAGG
* * **
684600 GATGAGGGATTCTTGAGAGG
1 GAAGAGGGATACAAGAGAGG
684620 GAAGAGGGA
1 GAAGAGGGA
684629 GCCTCTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.47, T:0.12
Consensus pattern (20 bp):
GAAGAGGGATACAAGAGAGG
Found at i:684773 original size:24 final size:26
Alignment explanation
Indices: 684728--684776 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
684718 ATCCAAAGGA
684728 AACCACCATTTTTGACAAAAACAAAAT
1 AACCACCATTTTTGAC-AAAACAAAAT
684755 AACCACCA-TTTTGAC-AAACAAA
1 AACCACCATTTTTGACAAAACAAA
684777 TGGGTGGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.51, C:0.24, G:0.04, T:0.20
Consensus pattern (26 bp):
AACCACCATTTTTGACAAAACAAAAT
Found at i:686692 original size:21 final size:22
Alignment explanation
Indices: 686654--686699 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
686644 ATCTGTTGAA
* **
686654 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
686675 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
686697 ACT
1 ACT
686700 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:689177 original size:20 final size:20
Alignment explanation
Indices: 689152--689196 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
689142 AGAATTGAAA
*
689152 AGGGATACAAGAGAGGGATG
1 AGGGATACAAGAGAGGGAAG
* **
689172 AGGGATTCTTGAGAGGGAAG
1 AGGGATACAAGAGAGGGAAG
689192 AGGGA
1 AGGGA
689197 GCCTCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.04, G:0.47, T:0.13
Consensus pattern (20 bp):
AGGGATACAAGAGAGGGAAG
Found at i:689341 original size:24 final size:26
Alignment explanation
Indices: 689296--689344 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
689286 ATCCAAAGGA
689296 AACCACCATTTTTGACAAAAACAAAAT
1 AACCACCATTTTTGAC-AAAACAAAAT
689323 AACCACCA-TTTTGAC-AAACAAA
1 AACCACCATTTTTGACAAAACAAA
689345 TGGGTGGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.51, C:0.24, G:0.04, T:0.20
Consensus pattern (26 bp):
AACCACCATTTTTGACAAAACAAAAT
Found at i:690125 original size:20 final size:20
Alignment explanation
Indices: 690079--690117 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
690069 ATTAATGTTC
*
690079 AAGAAGATTTTGTGAAAATT
1 AAGAAGACTTTGTGAAAATT
690099 AAGAAGACTTTGT-AAAATT
1 AAGAAGACTTTGTGAAAATT
690118 TAGTAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.46, C:0.03, G:0.18, T:0.33
Consensus pattern (20 bp):
AAGAAGACTTTGTGAAAATT
Found at i:690552 original size:16 final size:17
Alignment explanation
Indices: 690531--690564 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
690521 TGAAAAATTT
*
690531 ATATTACAAT-TTAAAA
1 ATATTAAAATATTAAAA
690547 ATATTAAAATATTAAAA
1 ATATTAAAATATTAAAA
690564 A
1 A
690565 ATTTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATTAAAATATTAAAA
Found at i:692287 original size:3 final size:3
Alignment explanation
Indices: 692279--692358 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
692269 TTCTCTATCT
692279 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
692327 TTA TTA TTG TTA TTG TTA TTG TTA TAA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
692359 TATTTTTTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:694776 original size:17 final size:18
Alignment explanation
Indices: 694751--694790 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
694741 TTTATTAGAT
* *
694751 TAAATAAATATAAAT-TA
1 TAAAAAAATAAAAATATA
694768 TAAAAAAATAAAAATATA
1 TAAAAAAATAAAAATATA
694786 TAAAA
1 TAAAA
694791 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAAAAATAAAAATATA
Found at i:696935 original size:24 final size:24
Alignment explanation
Indices: 696907--696953 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
696897 AAAATTAAGA
696907 TAGTGATAGTTTCATTAAATGATT
1 TAGTGATAGTTTCATTAAATGATT
696931 TAGTGATAGTTTCATTAAATGAT
1 TAGTGATAGTTTCATTAAATGAT
696954 AGTTCAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (24 bp):
TAGTGATAGTTTCATTAAATGATT
Found at i:697795 original size:12 final size:12
Alignment explanation
Indices: 697732--697797 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 12
697722 ATAAAACATG
*
697732 ATATGAAAATTT
1 ATATAAAAATTT
**
697744 A-ATAAAAATAA
1 ATATAAAAATTT
* *
697755 ATATACAAATTA
1 ATATAAAAATTT
*
697767 AT-TAAAATTTAT
1 ATATAAAAATT-T
697779 ATATAAAAATTT
1 ATATAAAAATTT
697791 ATATAAA
1 ATATAAA
697798 TATATAATAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
11 14 0.33
12 21 0.50
13 7 0.17
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (12 bp):
ATATAAAAATTT
Found at i:697798 original size:24 final size:24
Alignment explanation
Indices: 697732--697803 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
697722 ATAAAACATG
* * *
697732 ATATGAAAATTTA-ATAAAAATAA
1 ATATAAAAATTTATATAAATATAT
* * *
697755 ATATACAAATTAAT-TAAAATTTAT
1 ATATAAAAATTTATAT-AAATATAT
697779 ATATAAAAATTTATATAAATATAT
1 ATATAAAAATTTATATAAATATAT
697803 A
1 A
697804 ATATTTTAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
23 11 0.30
24 25 0.68
25 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (24 bp):
ATATAAAAATTTATATAAATATAT
Found at i:699022 original size:169 final size:168
Alignment explanation
Indices: 698731--699064 Score: 623
Period size: 169 Copynumber: 2.0 Consensus size: 168
698721 AATCTAAAAC
698731 AAATCTATCTGGCCCTCCTTAATATATAATATTGGTTTTTGAAATAGCCAAGAATTCTTATGATA
1 AAATCTATCTGGCCCTCCTTAATATATAATATTGGTTTTTGAAATAGCCAAGAATTCTTATGATA
698796 TCATCGACTTTGAGTCCTCTTCTTCACTTCTTTCTTTGCCAAAACGAAATATATATTTAATTATA
66 TCATCGACTTTGAGTCCTCTTCTTCACTTCTTTCTTTGCCAAAACGAAATATATATTTAATTA-A
*
698861 TCCTAAGAATTCTTTTATATATATATATATATATATATA
130 TCCTAAGAATTCTATTATATATATATATATATATATATA
* *
698900 AAATCTGTCTGGCCCTTCTTAATATATAATATTGGTTTTTGAAATAGCCAAGAATTCTTATGATA
1 AAATCTATCTGGCCCTCCTTAATATATAATATTGGTTTTTGAAATAGCCAAGAATTCTTATGATA
*
698965 TCATCGACTTTGAGTCCTCTTCTTCACTTCTTTCTTTGCCAAAACGAAATTTATATTTAATTAAT
66 TCATCGACTTTGAGTCCTCTTCTTCACTTCTTTCTTTGCCAAAACGAAATATATATTTAATTAAT
699030 CCTAAGAATTCTATTATATATATATATATATATAT
131 CCTAAGAATTCTATTATATATATATATATATATAT
699065 TTACCTTTCT
Statistics
Matches: 161, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
168 36 0.22
169 125 0.78
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (168 bp):
AAATCTATCTGGCCCTCCTTAATATATAATATTGGTTTTTGAAATAGCCAAGAATTCTTATGATA
TCATCGACTTTGAGTCCTCTTCTTCACTTCTTTCTTTGCCAAAACGAAATATATATTTAATTAAT
CCTAAGAATTCTATTATATATATATATATATATATATA
Found at i:699294 original size:49 final size:49
Alignment explanation
Indices: 699202--699298 Score: 110
Period size: 50 Copynumber: 2.0 Consensus size: 49
699192 AAATATTAAT
* * *
699202 AAAATTATTTTTCATTAATATTAATATAATTTTATAATTAAATTTAAATA
1 AAAATAATTTTTCATTAATATAAATATAATTTTATAATCAAA-TTAAATA
*
699252 AAAATAATTTTT-ATTATTAATAAATAATAA-TTTA-AATCAAATTAAAT
1 AAAATAATTTTTCATTAAT-ATAAAT-ATAATTTTATAATCAAATTAAAT
699299 TGAATAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
48 6 0.15
49 11 0.27
50 20 0.49
51 4 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (49 bp):
AAAATAATTTTTCATTAATATAAATATAATTTTATAATCAAATTAAATA
Found at i:699585 original size:24 final size:24
Alignment explanation
Indices: 699525--699621 Score: 61
Period size: 24 Copynumber: 4.2 Consensus size: 24
699515 TTTGTACTAT
*
699525 TTAAATTATAAA-AATTATTTTATA
1 TTAAATT-TAAATAAATATTTTATA
699549 TTAATATTT--ATAAAT-TTTTATAA
1 TTAA-ATTTAAATAAATATTTTAT-A
*
699572 TTAAATTTAAATAAAAATATTTAT-
1 TTAAATTTAAATAAATAT-TTTATA
699596 TT-AA--TAAAT-AATAATTTTA-A
1 TTAAATTTAAATAAAT-ATTTTATA
699616 TTAAAT
1 TTAAAT
699622 CGAACTGACC
Statistics
Matches: 59, Mismatches: 3, Indels: 24
0.69 0.03 0.28
Matches are distributed among these distances:
20 8 0.14
21 9 0.15
22 11 0.19
23 10 0.17
24 12 0.20
25 4 0.07
26 5 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAAATTTAAATAAATATTTTATA
Found at i:699605 original size:21 final size:20
Alignment explanation
Indices: 699579--699619 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
699569 TAATTAAATT
*
699579 TAAATAAAAATATTTATTTAA
1 TAAATAAAAAT-TTTAATTAA
*
699600 TAAATAATAATTTTAATTAA
1 TAAATAAAAATTTTAATTAA
699620 ATCGAACTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATAAAAATTTTAATTAA
Found at i:700297 original size:14 final size:14
Alignment explanation
Indices: 700280--700341 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
700270 TCTAAAGATA
*
700280 AAATTTTAAATTAT
1 AAATATTAAATTAT
*
700294 AAATATTAAATTTT
1 AAATATTAAATTAT
700308 AAA-ATTTAAAATTATTT
1 AAATA-TT-AAATTA--T
*
700325 AAATATTATATTAT
1 AAATATTAAATTAT
700339 AAA
1 AAA
700342 AGATAATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
13 1 0.03
14 21 0.54
15 5 0.13
16 5 0.13
17 6 0.15
18 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATATTAAATTAT
Found at i:700313 original size:29 final size:30
Alignment explanation
Indices: 700277--700342 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
700267 AGATCTAAAG
*
700277 ATAAAATTTTAAATTA-TAAATATTAAATT
1 ATAAAATTTAAAATTATTAAATATTAAATT
* *
700306 TTAAAATTTAAAATTATTTAAATATTATATT
1 ATAAAATTTAAAATTA-TTAAATATTAAATT
700337 ATAAAA
1 ATAAAA
700343 GATAATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 14 0.45
31 17 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
ATAAAATTTAAAATTATTAAATATTAAATT
Found at i:700530 original size:2 final size:2
Alignment explanation
Indices: 700523--700550 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
700513 GATTGAATGC
700523 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
700551 GCATGCACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:700888 original size:31 final size:29
Alignment explanation
Indices: 700810--700888 Score: 81
Period size: 34 Copynumber: 2.6 Consensus size: 29
700800 AATTGATTTA
700810 AATTAAAAAAA-TAATA-TTTAATAAAAT
1 AATTAAAAAAATTAATATTTTAATAAAAT
* *
700837 AATTAACAAAATCTAAAATATTTTAAATTTAAAT
1 AATTAAAAAAAT-T--AATATTTT-AA-TAAAAT
700871 AATTAAAAAAATTAATAT
1 AATTAAAAAAATTAATAT
700889 AAAATAATCC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
27 10 0.24
29 1 0.02
31 9 0.21
32 3 0.07
33 3 0.07
34 16 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (29 bp):
AATTAAAAAAATTAATATTTTAATAAAAT
Found at i:701377 original size:2 final size:2
Alignment explanation
Indices: 701372--701412 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
701362 GCTTTTTTTA
701372 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
701413 GCCTACCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:701619 original size:16 final size:16
Alignment explanation
Indices: 701600--701652 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
701590 AATATAAATT
701600 TATATATAAATTTTAA
1 TATATATAAATTTTAA
* *
701616 TATAT-TAATAATTTAT
1 TATATATAA-ATTTTAA
* *
701632 TTTATAAAAATTTTAA
1 TATATATAAATTTTAA
701648 TATAT
1 TATAT
701653 TCATATATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 3 0.11
16 23 0.82
17 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATATAAATTTTAA
Found at i:702277 original size:21 final size:20
Alignment explanation
Indices: 702253--702291 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
702243 ACATTCGTGT
702253 TAAATTATAAAACTTTAACAA
1 TAAATTAT-AAACTTTAACAA
*
702274 TAAATTCTAAACTTTAAC
1 TAAATTATAAACTTTAAC
702292 TGAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATTATAAACTTTAACAA
Found at i:705070 original size:22 final size:21
Alignment explanation
Indices: 705044--705084 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
705034 TTTTTTTATT
705044 TAAAT-TTAATTATGAAAATATA
1 TAAATATTAA-TAT-AAAATATA
705066 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
705085 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:706074 original size:16 final size:16
Alignment explanation
Indices: 706053--706083 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
706043 AACCGAACAT
706053 GCTGTTAGTTATTGAA
1 GCTGTTAGTTATTGAA
*
706069 GCTGTTAGTTGTTGA
1 GCTGTTAGTTATTGA
706084 GCATGCTACT
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:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (16 bp):
GCTGTTAGTTATTGAA
Found at i:706504 original size:22 final size:22
Alignment explanation
Indices: 706481--706523 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
706471 TGTAATGCTT
706481 AATGAAAAAATTATTAAAAATTA
1 AATGAAAAAATT-TTAAAAATTA
*
706504 AATTAAAAAATTTTAAAAAT
1 AATGAAAAAATTTTAAAAAT
706524 AAAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AATGAAAAAATTTTAAAAATTA
Found at i:706839 original size:19 final size:19
Alignment explanation
Indices: 706815--706854 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
706805 AATTTATATT
*
706815 AAATATAATTATAATATAA
1 AAATATAAATATAATATAA
*
706834 AAATATAAATATAATGTAA
1 AAATATAAATATAATATAA
706853 AA
1 AA
706855 CCTATAAAAT
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:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATATAAATATAATATAA
Found at i:708205 original size:21 final size:24
Alignment explanation
Indices: 708181--708271 Score: 62
Period size: 25 Copynumber: 3.7 Consensus size: 24
708171 TTATTGCAAT
708181 TATTTATTTT-CAAT-T-AATTTA
1 TATTTATTTTACAATATAAATTTA
* *
708202 TATTAATTTTATAATAATAAATTTA
1 TATTTATTTTACAAT-ATAAATTTA
* *
708227 TATTTATTATATAATAATAAAATTTATTA
1 TATTTATTTTACAAT-AT-AAA--T-TTA
*
708256 TATTTATTTGACAATA
1 TATTTATTTTACAATA
708272 AGAAACCCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
21 9 0.16
22 3 0.05
24 1 0.02
25 22 0.40
26 3 0.05
28 2 0.04
29 15 0.27
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (24 bp):
TATTTATTTTACAATATAAATTTA
Found at i:708224 original size:25 final size:26
Alignment explanation
Indices: 708196--708253 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
708186 ATTTTCAATT
*
708196 AATTTATATTAATTTTATAATAAT-A
1 AATTTATATTAATTATATAATAATAA
*
708221 AATTTATATTTATTATATAATAATAA
1 AATTTATATTAATTATATAATAATAA
708247 AATTTAT
1 AATTTAT
708254 TATATTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
AATTTATATTAATTATATAATAATAA
Found at i:708259 original size:25 final size:24
Alignment explanation
Indices: 708202--708259 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
708192 AATTAATTTA
*
708202 TATTA-ATTTTATAATAATAAATT
1 TATTATATTATATAATAATAAATT
*
708225 TATATTTATTATATAATAATAAAATT
1 TAT-TATATTATATAATAAT-AAATT
708251 TATTATATT
1 TATTATATT
708260 TATTTGACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 1 0.03
25 17 0.59
26 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TATTATATTATATAATAATAAATT
Found at i:708640 original size:24 final size:25
Alignment explanation
Indices: 708604--708651 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
708594 CTAAAGAATC
* *
708604 AGATAATATTATAAATAAAATTAAG
1 AGATAATAATATAAAGAAAATTAAG
*
708629 AGATAA-AATATAAAGATAATTAA
1 AGATAATAATATAAAGAAAATTAA
708652 AAGAATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (25 bp):
AGATAATAATATAAAGAAAATTAAG
Found at i:711600 original size:17 final size:17
Alignment explanation
Indices: 711578--711619 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
711568 TTAAAATATT
711578 TAAATTTACATTCACTC
1 TAAATTTACATTCACTC
711595 TAAATTTACATTCACTC
1 TAAATTTACATTCACTC
*
711612 TAGATTTA
1 TAAATTTA
711620 AAAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATTTACATTCACTC
Found at i:713024 original size:17 final size:18
Alignment explanation
Indices: 713002--713039 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
712992 TATATATTTA
713002 ATATTTAAAT-CAAATAT
1 ATATTTAAATACAAATAT
*
713019 ATATTTAAATATAAATAT
1 ATATTTAAATACAAATAT
713037 ATA
1 ATA
713040 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTTAAATACAAATAT
Found at i:713275 original size:3 final size:3
Alignment explanation
Indices: 713269--713302 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
713259 GAATAATACC
713269 ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
713303 TTCTAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:713585 original size:14 final size:14
Alignment explanation
Indices: 713536--713579 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
713526 ATTTAAATAA
*
713536 TATAATAATATAATAT
1 TATAATTAT-TAAT-T
713552 TATAATTATTAATT
1 TATAATTATTAATT
713566 TATAATT-TTAATT
1 TATAATTATTAATT
713579 T
1 T
713580 TTTAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 7 0.26
14 8 0.30
15 4 0.15
16 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATAATTATTAATT
Found at i:713596 original size:13 final size:13
Alignment explanation
Indices: 713580--713673 Score: 56
Period size: 13 Copynumber: 7.7 Consensus size: 13
713570 ATTTTAATTT
713580 TTTAATATAAATA
1 TTTAATATAAATA
*
713593 TTTAATATAATTA
1 TTTAATATAAATA
* *
713606 ATTAAAAT-AAT-
1 TTTAATATAAATA
*
713617 TTTAAT-T---TT
1 TTTAATATAAATA
* *
713626 TTTATTATTAATA
1 TTTAATATAAATA
*
713639 TTTAATATAATTA
1 TTTAATATAAATA
* *
713652 ATTAAAATAAATA
1 TTTAATATAAATA
*
713665 TTTATTATA
1 TTTAATATA
713674 TTTATAATAA
Statistics
Matches: 59, Mismatches: 17, Indels: 10
0.69 0.20 0.12
Matches are distributed among these distances:
8 1 0.02
9 5 0.08
10 2 0.03
11 4 0.07
12 2 0.03
13 45 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAATATAAATA
Found at i:713627 original size:46 final size:45
Alignment explanation
Indices: 713567--713661 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 45
713557 TTATTAATTT
713567 ATAATTTTAATTTTTTAATATAAATATTTAATATAATTAATTAAA
1 ATAATTTTAATTTTTTAATATAAATATTTAATATAATTAATTAAA
* *
713612 ATAATTTTAATTTTTTTATTATTAATATTTAATATAATTAATTAAA
1 ATAATTTTAA-TTTTTTAATATAAATATTTAATATAATTAATTAAA
713658 ATAA
1 ATAA
713662 ATATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 10 0.21
46 37 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (45 bp):
ATAATTTTAATTTTTTAATATAAATATTTAATATAATTAATTAAA
Found at i:714051 original size:15 final size:15
Alignment explanation
Indices: 714012--714089 Score: 68
Period size: 15 Copynumber: 5.2 Consensus size: 15
714002 ATAAGATATA
* *
714012 ATTATTGTTATTTTT
1 ATTATTATTAATTTT
*
714027 ATAATT-TTAATTTT
1 ATTATTATTAATTTT
*
714041 TTTATTATTAATATTT
1 ATTATTATTAAT-TTT
* *
714057 ATTATAATTAATTAT
1 ATTATTATTAATTTT
* *
714072 AATATTATTAATTAT
1 ATTATTATTAATTTT
714087 ATT
1 ATT
714090 TATAATTATA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
14 11 0.22
15 27 0.53
16 13 0.25
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (15 bp):
ATTATTATTAATTTT
Found at i:714066 original size:6 final size:6
Alignment explanation
Indices: 714057--714140 Score: 50
Period size: 6 Copynumber: 13.5 Consensus size: 6
714047 ATTAATATTT
* *
714057 ATTATA A-T-TA ATTATAA TATTATTA ATTATA TTTATA ATTATA A-TAAA
1 ATTATA ATTATA ATTAT-A -ATTA-TA ATTATA ATTATA ATTATA ATTATA
*
714105 TATTACATA ATTAAA ATTAT- ATCTATA ATTATA ATT
1 -ATT--ATA ATTATA ATTATA AT-TATA ATTATA ATT
714141 TAAATCTCTG
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
4 3 0.05
5 7 0.11
6 32 0.52
7 8 0.13
8 8 0.13
9 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (6 bp):
ATTATA
Found at i:714092 original size:21 final size:18
Alignment explanation
Indices: 714056--714095 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 18
714046 TATTAATATT
714056 TATTATAATTAATTATAA
1 TATTATAATTAATTATAA
714074 TATTATTAATTATATTTATAA
1 TATTA-TAATTA-A-TTATAA
714095 T
1 T
714096 TATAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 6 0.32
20 1 0.05
21 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTATAATTAATTATAA
Found at i:714107 original size:31 final size:31
Alignment explanation
Indices: 714043--714109 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
714033 TTAATTTTTT
* *
714043 TATTATTAATATTTATTATAATTAATTATAA
1 TATTATTAATATATATTATAATTAAATATAA
714074 TATTATTAAT-TATATTTATAATTATAATA-AA
1 TATTATTAATATATA-TTATAATTA-AATATAA
714105 TATTA
1 TATTA
714110 CATAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 3 0.09
31 26 0.81
32 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TATTATTAATATATATTATAATTAAATATAA
Found at i:715591 original size:12 final size:12
Alignment explanation
Indices: 715569--715608 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
715559 ATTTTTTTAC
715569 ATTTAAATATTAA
1 ATTT-AATATTAA
715582 ATTTAATATTAA
1 ATTTAATATTAA
**
715594 ATAAAATATTAA
1 ATTTAATATTAA
715606 ATT
1 ATT
715609 AAGTTGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:716029 original size:28 final size:25
Alignment explanation
Indices: 715997--716050 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 25
715987 CTTAAAATGA
*
715997 TAATAATAATAAATATATTAAAAATAAT
1 TAATAAAAAT-AATATA-TAAAAA-AAT
716025 TAATAAAAATAATATATAAAAAAAT
1 TAATAAAAATAATATATAAAAAAAT
716050 T
1 T
716051 CTATTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 4 0.16
26 6 0.24
27 6 0.24
28 9 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
TAATAAAAATAATATATAAAAAAAT
Found at i:716033 original size:13 final size:14
Alignment explanation
Indices: 715999--716050 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
715989 TAAAATGATA
* *
715999 ATAATAATAAATAT
1 ATAAAAATAATTAT
716013 ATTAAAAATAATTA-
1 A-TAAAAATAATTAT
716027 ATAAAAATAA-TAT
1 ATAAAAATAATTAT
716040 ATAAAAA-AATT
1 ATAAAAATAATT
716051 CTATTTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 4 0.12
13 17 0.52
14 2 0.06
15 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAAAATAATTAT
Found at i:716039 original size:25 final size:26
Alignment explanation
Indices: 715996--716050 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
715986 TCTTAAAATG
715996 ATAA-TAATAATAAATATAT-TAAAA
1 ATAATTAATAATAAATATATATAAAA
716020 ATAATTAATAA-AAATAATATATAAAA
1 ATAATTAATAATAAAT-ATATATAAAA
716046 A-AATT
1 ATAATT
716051 CTATTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.29
25 14 0.50
26 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAATTAATAATAAATATATATAAAA
Found at i:717164 original size:17 final size:17
Alignment explanation
Indices: 717144--717179 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
717134 ATGTTTAATT
*
717144 TTGATATATGTCAAATA
1 TTGATATACGTCAAATA
*
717161 TTGATATACGTCTAATA
1 TTGATATACGTCAAATA
717178 TT
1 TT
717180 AATGTGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (17 bp):
TTGATATACGTCAAATA
Found at i:717382 original size:289 final size:289
Alignment explanation
Indices: 716863--717419 Score: 857
Period size: 289 Copynumber: 1.9 Consensus size: 289
716853 CAGATGTGAG
* * * * * *
716863 TGTCAAATATTGGTATATGTTTAATATTACTATGTTTAATTTTTTTTAAATTCTTTCATATATTT
1 TGTCAAATATTGATATACGTCTAATATTAATATGATTAATTTTTTTAAAATTCTTTCATATATTT
* *
716928 GGAAAGTCCTTGGCATATCTCTATACCTAAATATGAAAATATATTAAATACGAATGTCAAATATG
66 GGAAAGTCCTTGACATATCTCTATACCTAAATATGAAAATATATTAAATACGAATATCAAATATG
* * * **
716993 AATTTTTTTTTTAAAAACAAATATTCAAAACATCGTAAAATAATATCCCGAGTTCAATCTTGTGA
131 AATTTTTTTTTAAAAAAAAAATATTCAAAACATCATAAAATAATATCCCGAGTTCAATCCCGTGA
*
717058 TCATAGTTACAAAACTTTACCGAACATTATTAAATTCGCAGCCGATATAAATTAATATATAAACT
196 TCATAGTTACAAAACTTTACCGAACATTATTAAATTCGCAGCCGATATAAATTAATACATAAACT
717123 TTGAACTTAGTATGTTTAATTTTGATATA
261 TTGAACTTAGTATGTTTAATTTTGATATA
* *
717152 TGTCAAATATTGATATACGTCTAATATTAATGTGATTAA-TTTTTTAAAATTCTTTCATGTATTT
1 TGTCAAATATTGATATACGTCTAATATTAATATGATTAATTTTTTTAAAATTCTTTCATATATTT
* * *
717216 GGAAAGTCCTTGACATATCTCTATACTTAAATCTGAAAATATATTAAATACGTATATCAAATATG
66 GGAAAGTCCTTGACATATCTCTATACCTAAATATGAAAATATATTAAATACGAATATCAAATATG
* *
717281 AA-TTTTTTTTAAAAAAAATGAATATTCAAAATATCATAAAATAATATCTCGAGTTCAATCCCGT
131 AATTTTTTTTTAAAAAAAA--AATATTCAAAACATCATAAAATAATATCCCGAGTTCAATCCCGT
* * * *
717345 GATCATAGTTACAGAACTTTACCGAACGTTATTAAATTCGCAGCCTATATAAATTAGTACATAAA
194 GATCATAGTTACAAAACTTTACCGAACATTATTAAATTCGCAGCCGATATAAATTAATACATAAA
717410 CTTTGAACTT
259 CTTTGAACTT
717420 TTCTTTTCTT
Statistics
Matches: 241, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
287 14 0.06
288 85 0.35
289 142 0.59
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (289 bp):
TGTCAAATATTGATATACGTCTAATATTAATATGATTAATTTTTTTAAAATTCTTTCATATATTT
GGAAAGTCCTTGACATATCTCTATACCTAAATATGAAAATATATTAAATACGAATATCAAATATG
AATTTTTTTTTAAAAAAAAAATATTCAAAACATCATAAAATAATATCCCGAGTTCAATCCCGTGA
TCATAGTTACAAAACTTTACCGAACATTATTAAATTCGCAGCCGATATAAATTAATACATAAACT
TTGAACTTAGTATGTTTAATTTTGATATA
Found at i:717655 original size:13 final size:14
Alignment explanation
Indices: 717630--717663 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
717620 AAAGAGAAAC
717630 TGCATGCATGTCCA
1 TGCATGCATGTCCA
717644 TGCATG-ATGTCCA
1 TGCATGCATGTCCA
717657 TGCATGC
1 TGCATGC
717664 TTATTACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (14 bp):
TGCATGCATGTCCA
Found at i:720249 original size:22 final size:22
Alignment explanation
Indices: 720218--720262 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
720208 GTTGGTTATT
* * *
720218 AAAAATTACATTTTTTTATCCA
1 AAAAAATACATTCTTTCATCCA
720240 AAAAAATACATTCTTTCATCCA
1 AAAAAATACATTCTTTCATCCA
720262 A
1 A
720263 CTAATGCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAAAATACATTCTTTCATCCA
Found at i:723739 original size:17 final size:17
Alignment explanation
Indices: 723717--723754 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
723707 AATATATTTA
723717 ATTTAAAAAAATTATAT
1 ATTTAAAAAAATTATAT
*
723734 ATTT-AAAAATTTATAT
1 ATTTAAAAAAATTATAT
723750 ATTTA
1 ATTTA
723755 TATTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTAAAAAAATTATAT
Found at i:723758 original size:6 final size:6
Alignment explanation
Indices: 723747--723776 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
723737 TAAAAATTTA
723747 TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT
723777 GAATGTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:725119 original size:23 final size:23
Alignment explanation
Indices: 725074--725119 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
725064 ATTAAATAAT
**
725074 TATTATTTATTTAAATATTTTTA
1 TATTATTTATTTAAATAAATTTA
725097 TATT-TTTATCTTAAATAAATTTA
1 TATTATTTAT-TTAAATAAATTTA
725120 AAATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATTTATTTAAATAAATTTA
Found at i:728542 original size:33 final size:32
Alignment explanation
Indices: 728505--728581 Score: 100
Period size: 33 Copynumber: 2.4 Consensus size: 32
728495 AATAAATTTA
*
728505 ATCAAAGTTAACCAAAAGTATATAATATCTAAG
1 ATCAAAGTTAACCAAAAATATATAA-ATCTAAG
* * **
728538 ATCAAAGTAAATCAAAAATATATAAATCTGTG
1 ATCAAAGTTAACCAAAAATATATAAATCTAAG
728570 ATCAAAGTTAAC
1 ATCAAAGTTAAC
728582 AGCTTTAGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 15 0.41
33 22 0.59
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (32 bp):
ATCAAAGTTAACCAAAAATATATAAATCTAAG
Found at i:730218 original size:21 final size:20
Alignment explanation
Indices: 730192--730231 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
730182 TGATAAGATC
730192 AATTTTAGCAATAAGATTAAA
1 AATTTTAGCAA-AAGATTAAA
*
730213 AATTTTAGCAAAATATTAA
1 AATTTTAGCAAAAGATTAA
730232 CTAATATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (20 bp):
AATTTTAGCAAAAGATTAAA
Found at i:738505 original size:5 final size:6
Alignment explanation
Indices: 738475--738504 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
738465 AATCGATCAA
*
738475 TATTTT TATTTT TATTTT TGTTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT
738505 AATTGATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:738546 original size:12 final size:13
Alignment explanation
Indices: 738519--738550 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
738509 GATTGAATTA
738519 ATTAAATTTAAAT
1 ATTAAATTTAAAT
738532 ATTAAATTT-AAT
1 ATTAAATTTAAAT
738544 ATTAAAT
1 ATTAAAT
738551 AAGTATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:739110 original size:125 final size:125
Alignment explanation
Indices: 738871--739117 Score: 361
Period size: 125 Copynumber: 2.0 Consensus size: 125
738861 GGTTGGTTTA
* * * *
738871 TGGATCTTGTACTAGAGACTTTAATTTTAATTATTATTTATAAGTATAATTTTTATAATAAATAA
1 TGGATCTTGTACTAAAGACTTTAATTTTAATTATTATTCAGAAGTATAATTTTTACAATAAATAA
* *** * *
738936 TACATCTTAAAATGATAATAATTTGTATATTAAAAATAATTAATCAAAATAATATATTTT
66 TACATCTTAAAACGATAATAATAAATAAATTAAAAATAATTAATAAAAATAATATATTTT
* *
738996 TGGATCTTGTACTAAAGATTTTATTTTTAATTATTATTCAGAAGTATAATTTTTACAATAAATAA
1 TGGATCTTGTACTAAAGACTTTAATTTTAATTATTATTCAGAAGTATAATTTTTACAATAAATAA
*
739061 TACATCTTAAAACGATAAT-ATAAATAAATTAAAAATAATTAATAAAAAATATTATAT
66 TACATCTTAAAACGATAATAATAAATAAATTAAAAATAATTAAT-AAAAATAATATAT
739118 AATTTTTTTT
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
124 20 0.19
125 88 0.81
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (125 bp):
TGGATCTTGTACTAAAGACTTTAATTTTAATTATTATTCAGAAGTATAATTTTTACAATAAATAA
TACATCTTAAAACGATAATAATAAATAAATTAAAAATAATTAATAAAAATAATATATTTT
Found at i:743311 original size:16 final size:16
Alignment explanation
Indices: 743290--743325 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
743280 TATTTAAATT
743290 TTTAAAAAATTATATA
1 TTTAAAAAATTATATA
* *
743306 TTTAAAAATTTATATT
1 TTTAAAAAATTATATA
743322 TTTA
1 TTTA
743326 TATTTATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAAAAATTATATA
Found at i:743319 original size:14 final size:15
Alignment explanation
Indices: 743294--743322 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
743284 TAAATTTTTA
743294 AAAAATTATATATTT
1 AAAAATTATATATTT
743309 AAAAATT-TATATTT
1 AAAAATTATATATTT
743323 TTATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAAATTATATATTT
Found at i:744654 original size:11 final size:11
Alignment explanation
Indices: 744623--744656 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
744613 AAATACTATC
*
744623 TGATATAAAAA
1 TGATATAAATA
*
744634 TAATATAAATA
1 TGATATAAATA
744645 TGATATAAATA
1 TGATATAAATA
744656 T
1 T
744657 ATAAATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (11 bp):
TGATATAAATA
Found at i:744656 original size:28 final size:27
Alignment explanation
Indices: 744592--744662 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 27
744582 CATTACATAA
*
744592 ATATAACATAAAAAAATAATTAAATACT
1 ATATAA-ATATAAAAATAATTAAATACT
* *
744620 ATCT-GATATAAAAATAATATAAATA-T
1 ATATAAATATAAAAATAAT-TAAATACT
*
744646 GATATAAATATATAAAT
1 -ATATAAATATAAAAAT
744663 TTATCAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
26 13 0.38
27 9 0.26
28 12 0.35
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (27 bp):
ATATAAATATAAAAATAATTAAATACT
Found at i:745205 original size:11 final size:11
Alignment explanation
Indices: 745178--745237 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
745168 ATATGTTATG
745178 TATAATATAAAA
1 TATAAT-TAAAA
*
745190 AATAATTAAAA
1 TATAATTAAAA
745201 TATAATATAAAAA
1 TATAAT-T-AAAA
*
745214 AATAA-TATAAA
1 TATAATTA-AAA
*
745225 TATAATAAAAA
1 TATAATTAAAA
745236 TA
1 TA
745238 CACGAATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
10 1 0.03
11 23 0.59
12 7 0.18
13 8 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TATAATTAAAA
Found at i:745218 original size:13 final size:12
Alignment explanation
Indices: 745179--745224 Score: 67
Period size: 13 Copynumber: 3.8 Consensus size: 12
745169 TATGTTATGT
745179 ATAATATAAAAA
1 ATAATATAAAAA
*
745191 ATAAT-TAAAAT
1 ATAATATAAAAA
745202 ATAATATAAAAAA
1 ATAATAT-AAAAA
745215 ATAATATAAA
1 ATAATATAAA
745225 TATAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 10 0.33
12 9 0.30
13 11 0.37
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATATAAAAA
Found at i:745218 original size:24 final size:24
Alignment explanation
Indices: 745178--745235 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
745168 ATATGTTATG
745178 TATAATAT-AAAAAATAAT-TAAAA
1 TATAATATAAAAAAATAATAT-AAA
745201 TATAATATAAAAAAATAATATAAA
1 TATAATATAAAAAAATAATATAAA
745225 TATAATA-AAAA
1 TATAATATAAAA
745236 TACACGAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 12 0.36
24 20 0.61
25 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
TATAATATAAAAAAATAATATAAA
Found at i:745561 original size:26 final size:26
Alignment explanation
Indices: 745532--745597 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
745522 TAGGAGATTT
*
745532 TTAATATT-TATAAATATTTAATTAAA
1 TTAATATTATATAAAT-TTAAATTAAA
745558 TTAATAATTATATAAATTTAAATTAAA
1 TTAAT-ATTATATAAATTTAAATTAAA
*
745585 TT-ATATTAAATAA
1 TTAATATTATATAA
745598 TTATTATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 8 0.22
26 7 0.19
27 14 0.39
28 7 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTAATATTATATAAATTTAAATTAAA
Found at i:745570 original size:22 final size:21
Alignment explanation
Indices: 745545--745595 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
745535 ATATTTATAA
*
745545 ATATTTAA-TTAAATTAATAATT
1 ATATTAAATTTAAATT-A-AATT
745567 ATA-TAAATTTAAATTAAATT
1 ATATTAAATTTAAATTAAATT
745587 ATATTAAAT
1 ATATTAAAT
745596 AATTATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.27
21 9 0.35
22 10 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTAAATTTAAATTAAATT
Found at i:745641 original size:17 final size:18
Alignment explanation
Indices: 745607--745644 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
745597 ATTATTATTT
*
745607 ATTTAAATATTTTTTGTA
1 ATTTAAATATTTTATGTA
745625 ATTTAAA-ATTTTATGTA
1 ATTTAAATATTTTATGTA
745642 ATT
1 ATT
745645 GAATTTGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
ATTTAAATATTTTATGTA
Found at i:746473 original size:31 final size:32
Alignment explanation
Indices: 746413--746477 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 32
746403 AAAAAATGAT
*
746413 ATGAATATATAAATATGTTAAAATATATATAA
1 ATGAATATATAAATATGTAAAAATATATATAA
* * *
746445 ATGAATA-ATTAATGTGTAAAAATTTATATAA
1 ATGAATATATAAATATGTAAAAATATATATAA
746476 AT
1 AT
746478 TTTTAATACT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 22 0.76
32 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (32 bp):
ATGAATATATAAATATGTAAAAATATATATAA
Found at i:746637 original size:24 final size:25
Alignment explanation
Indices: 746595--746644 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
746585 TATATAAATT
*
746595 TATAATATTTTAAATAATAA-AAAA
1 TATAATATATTAAATAATAATAAAA
746619 TATAA-ATATTAAATAAATAATAAAA
1 TATAATATATTAAAT-AATAATAAAA
746644 T
1 T
746645 TGTCTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 10 0.43
25 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
TATAATATATTAAATAATAATAAAA
Found at i:746757 original size:2 final size:2
Alignment explanation
Indices: 746750--746788 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
746740 TGTAGTCCAT
746750 TA TA TA TA 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 TA TA TA TA T
746789 GTAAGTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:747172 original size:2 final size:2
Alignment explanation
Indices: 747165--747220 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
747155 TGTATTTGAA
* * *
747165 AT AT AT AT AT AT AT AT AT AC AT AT AC AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
747207 AT AT GT AT AT -T AT A
1 AT AT AT AT AT AT AT A
747221 CCACACATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:747678 original size:22 final size:22
Alignment explanation
Indices: 747632--747678 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
747622 TAATACAAGT
*
747632 AATTTAAGTTTAAATTATTTTA
1 AATTTAAGTTTAAATTATTTAA
747654 AATTTAA-TTTATTAATT-TTTAA
1 AATTTAAGTTTA--AATTATTTAA
747676 AAT
1 AAT
747679 CAAATCCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.18
22 14 0.64
23 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTAAGTTTAAATTATTTAA
Found at i:748446 original size:3 final size:3
Alignment explanation
Indices: 748432--748489 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
748422 TTAGGTTGAG
748432 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
748479 ATT ATT ATT AT
1 ATT ATT ATT AT
748490 ATTGTTCTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:748835 original size:23 final size:22
Alignment explanation
Indices: 748809--748851 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
748799 ATATTAATAA
*
748809 AAATATAATTTTAATATTTTATT
1 AAATATAATATTAAT-TTTTATT
748832 AAATATAATATTAATTTTTA
1 AAATATAATATTAATTTTTA
748852 AATTAATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATATAATATTAATTTTTATT
Found at i:750816 original size:2 final size:2
Alignment explanation
Indices: 750809--750838 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
750799 TTGCTGAAGG
750809 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
750839 AGTCACACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:754155 original size:16 final size:16
Alignment explanation
Indices: 754136--754166 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
754126 CGTATGATAA
754136 TTATTTTATTATAATT
1 TTATTTTATTATAATT
*
754152 TTATTTTATTTTAAT
1 TTATTTTATTATAAT
754167 AAACTAAACA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTATTATAATT
Found at i:759248 original size:16 final size:16
Alignment explanation
Indices: 759227--759262 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
759217 AATAGTTTAC
759227 ATTTTAAAATTTTATA
1 ATTTTAAAATTTTATA
**
759243 ATTTTAATTTTTTATA
1 ATTTTAAAATTTTATA
759259 ATTT
1 ATTT
759263 AAATAAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTAAAATTTTATA
Found at i:759365 original size:24 final size:24
Alignment explanation
Indices: 759321--759368 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
759311 AAAGTATATT
759321 TATAATAATTAAAAAAATTAATAA
1 TATAATAATTAAAAAAATTAATAA
* *
759345 TATAATAATTAAAATATTTAATAA
1 TATAATAATTAAAAAAATTAATAA
759369 AGATTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TATAATAATTAAAAAAATTAATAA
Found at i:760493 original size:22 final size:21
Alignment explanation
Indices: 760468--760528 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
760458 TTGATCATTT
760468 AAAAT-TTAATATTTTTAAAATA
1 AAAATATTAATA--TTTAAAATA
760490 AAAATACTTAATATTTAAAAT-
1 AAAATA-TTAATATTTAAAATA
*
760511 -AAATATTAAT-TATAAAAT
1 AAAATATTAATATTTAAAAT
760529 CATTAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 7 0.19
19 5 0.14
20 5 0.14
22 13 0.36
24 6 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAATATTAATATTTAAAATA
Found at i:767705 original size:19 final size:18
Alignment explanation
Indices: 767683--767719 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
767673 AAAACAATCA
767683 TTTTTAAAAAAATATAAAT
1 TTTTTAAAAAAAT-TAAAT
*
767702 TTTTTAAAAGAATTAAAT
1 TTTTTAAAAAAATTAAAT
767720 ACTTTCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTTTAAAAAAATTAAAT
Found at i:768329 original size:11 final size:10
Alignment explanation
Indices: 768305--768337 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
768295 TTATGTAAGA
768305 TTTTAATTTT
1 TTTTAATTTT
768315 TTTTAATTATT
1 TTTTAATT-TT
768326 TTTTAATTTT
1 TTTTAATTTT
768336 TT
1 TT
768338 AAATTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:768330 original size:21 final size:22
Alignment explanation
Indices: 768305--768360 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
768295 TTATGTAAGA
768305 TTTTAATTTTTTTTAATT-ATT
1 TTTTAATTTTTTTTAATTAATT
*
768326 TTTTAA-TTTTTTAAATTAATT
1 TTTTAATTTTTTTTAATTAATT
* *
768347 TTTAAATTTCTTTT
1 TTTTAATTTTTTTT
768361 GTTTTAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.34
21 14 0.48
22 5 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTAATTTTTTTTAATTAATT
Found at i:768335 original size:20 final size:21
Alignment explanation
Indices: 768305--768360 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
768295 TTATGTAAGA
* *
768305 TTTTAATTTTTTTTAATTATT
1 TTTTAATTTTTTTAAATTAAT
768326 TTTTAA-TTTTTTAAATTAAT
1 TTTTAATTTTTTTAAATTAAT
768346 TTTTAAATTTCTTTT
1 TTTT-AATTT-TTTT
768361 GTTTTAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 16 0.53
21 8 0.27
22 2 0.07
23 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTAATTTTTTTAAATTAAT
Found at i:768447 original size:21 final size:21
Alignment explanation
Indices: 768388--768448 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
768378 TTTTTCATAT
**
768388 TTATAT-TTAAAAATAAAATA
1 TTATATATTAAAAATAATTTA
* **
768408 TATAGATATTAAACTTAATTTA
1 T-TATATATTAAAAATAATTTA
768430 TTATATATTAAAAATAATT
1 TTATATATTAAAAATAATT
768449 ATATACTTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 1 0.03
21 19 0.61
22 11 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TTATATATTAAAAATAATTTA
Found at i:768495 original size:14 final size:14
Alignment explanation
Indices: 768466--768522 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
768456 TATTTATTTA
*
768466 ATATTTA-AAATTT
1 ATATTTATAAATAT
768479 ATATTTATATAAATAT
1 ATA-TT-TATAAATAT
*
768495 ATAATTATAAATAT
1 ATATTTATAAATAT
*
768509 ATATTTAAAAATAT
1 ATATTTATAAATAT
768523 TAATAAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 3 0.08
14 23 0.62
15 3 0.08
16 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTTATAAATAT
Found at i:769127 original size:3 final size:3
Alignment explanation
Indices: 769119--769148 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
769109 ATATATTTAA
769119 AAT AAT AAT AAT AAT AA- AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
769149 GTACAATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:769130 original size:6 final size:6
Alignment explanation
Indices: 769085--769148 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
769075 AATATTTATT
* *
769085 TAATAA TATTAA -AATAA -AATAA GTATATATT TAA-AA TAATAA TAATAA
1 TAATAA TAATAA TAATAA TAATAA -TA-ATA-A TAATAA TAATAA TAATAA
769133 TAA-AA TAATAA TAATA
1 TAATAA TAATAA TAATA
769149 GTACAATGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
5 17 0.35
6 24 0.50
7 2 0.04
8 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (6 bp):
TAATAA
Found at i:769136 original size:17 final size:17
Alignment explanation
Indices: 769086--769148 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
769076 ATATTTATTT
*
769086 AATAATATTAA-AATAA
1 AATAATAATAATAATAA
*
769102 AATAAGT-AT-ATATTTAA
1 AATAA-TAATAATA-ATAA
769119 AATAATAATAATAATAA
1 AATAATAATAATAATAA
769136 AATAATAATAATA
1 AATAATAATAATA
769149 GTACAATGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 1 0.03
16 8 0.21
17 27 0.69
18 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:769141 original size:14 final size:14
Alignment explanation
Indices: 769122--769148 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
769112 TATTTAAAAT
769122 AATAATAATAATAA
1 AATAATAATAATAA
769136 AATAATAATAATA
1 AATAATAATAATA
769149 GTACAATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:769644 original size:17 final size:18
Alignment explanation
Indices: 769622--769666 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
769612 TTTAATTGAT
*
769622 ATTTAAATAAAAACT-TA
1 ATTTAAATAAAAACTCAA
**
769639 ATTTAAATTTAAACTCAA
1 ATTTAAATAAAAACTCAA
769657 ATTTAAATAA
1 ATTTAAATAA
769667 TTAAATATGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTAAATAAAAACTCAA
Found at i:774638 original size:33 final size:32
Alignment explanation
Indices: 774595--774670 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 32
774585 GATTATTAAA
774595 TTTAAT-TTTTA-AAAAATTTATATTTTTATTAT
1 TTTAATATTTTAGAAAAA--TATATTTTTATTAT
774627 TTTAATATTTTATGAAAAATATATTTTTATTAT
1 TTTAATATTTTA-GAAAAATATATTTTTATTAT
*
774660 TTTATTATTTT
1 TTTAATATTTT
774671 TTAATGTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 6 0.15
33 29 0.73
35 5 0.12
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (32 bp):
TTTAATATTTTAGAAAAATATATTTTTATTAT
Found at i:775224 original size:2 final size:2
Alignment explanation
Indices: 775213--775248 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
775203 TTTAATTACT
*
775213 TA TA TT 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 TA TA TA
775249 CAAAAAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:775325 original size:2 final size:2
Alignment explanation
Indices: 775312--775354 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
775302 TTTGCCAATG
*
775312 AT AT AT AC AT AT 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 AT AT AT AT AT AT
775354 A
1 A
775355 CACATATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:775327 original size:10 final size:10
Alignment explanation
Indices: 775312--775362 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
775302 TTTGCCAATG
775312 ATATATACAT
1 ATATATACAT
775322 ATATAT--AT
1 ATATATACAT
*
775330 ATATATATAT
1 ATATATACAT
*
775340 ATATATATAT
1 ATATATACAT
*
775350 ATATACACAT
1 ATATATACAT
775360 ATA
1 ATA
775363 ATGTAACCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 8 0.22
10 29 0.78
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATACAT
Found at i:775417 original size:23 final size:24
Alignment explanation
Indices: 775382--775428 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
775372 AGAAAAGTTC
**
775382 TTTTTATACATTAACGATAAAATT
1 TTTTTATACATTAAAAATAAAATT
*
775406 TTTTTA-ATATTAAAAATAAAATT
1 TTTTTATACATTAAAAATAAAATT
775429 AAAAGTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTTTATACATTAAAAATAAAATT
Found at i:775867 original size:14 final size:14
Alignment explanation
Indices: 775848--775921 Score: 53
Period size: 15 Copynumber: 5.0 Consensus size: 14
775838 ATAATTTGAA
775848 TATATTATTTTTAT
1 TATATTATTTTTAT
*
775862 TATATTTACGTTATTTTT
1 TATA-TTA--TT-TTTAT
**
775880 TATATTATATTAAAT
1 TATATTAT-TTTTAT
775895 TATA-TA-TTTTAT
1 TATATTATTTTTAT
775907 TATAATTATTTTTAT
1 TAT-ATTATTTTTAT
775922 CTTAAATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
12 7 0.15
13 1 0.02
14 8 0.17
15 16 0.35
16 1 0.02
17 5 0.11
18 8 0.17
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (14 bp):
TATATTATTTTTAT
Found at i:775915 original size:51 final size:49
Alignment explanation
Indices: 775804--775920 Score: 119
Period size: 51 Copynumber: 2.3 Consensus size: 49
775794 TTATTTATCA
*
775804 TATTATAATTATTTTTAAAATATTTTATATTTATATAATTTGAATATAT
1 TATTATAATTATTTTTAAAATATTTTATATTTATATAAATTGAATATAT
* * * *** * *
775853 TATTTTTATTATATTTACGTTATTTTTTATATTATATTAAATT-ATATATTT
1 TATTATAATTATTTTTAAAATATTTTATAT-TTATA-TAAATTGA-ATATAT
775904 TATTATAATTATTTTTA
1 TATTATAATTATTTTTA
775921 TCTTAAATTC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
49 23 0.43
50 6 0.11
51 24 0.45
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.62
Consensus pattern (49 bp):
TATTATAATTATTTTTAAAATATTTTATATTTATATAAATTGAATATAT
Found at i:775942 original size:3 final size:3
Alignment explanation
Indices: 775934--775968 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
775924 TAAATTCATG
775934 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
775969 TGGCTTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:776221 original size:43 final size:43
Alignment explanation
Indices: 776173--776260 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 43
776163 ATGTAATTAA
* * *
776173 TTTATATTA-TTTATATATAATTAATAAAAATTTTA-TTAATATT
1 TTTATATTAGTTAAT-TAAAATTAATAAAAAATTTATTTAA-ATT
776216 TTTATATTAGTTAATTAAAATTAATAAAAAATTTATTTAAATT
1 TTTATATTAGTTAATTAAAATTAATAAAAAATTTATTTAAATT
776259 TT
1 TT
776261 AATTAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
43 32 0.80
44 8 0.20
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTATATTAGTTAATTAAAATTAATAAAAAATTTATTTAAATT
Found at i:776320 original size:14 final size:14
Alignment explanation
Indices: 776297--776341 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
776287 TATATAATGG
776297 ATTATTATATAAAT
1 ATTATTATATAAAT
* *
776311 TTTATAATATTAAAT
1 ATTATTATA-TAAAT
*
776326 ATAATTATATAAAT
1 ATTATTATATAAAT
776340 AT
1 AT
776342 CATATAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTATTATATAAAT
Found at i:776341 original size:21 final size:19
Alignment explanation
Indices: 776299--776337 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
776289 TATAATGGAT
* *
776299 TATTATATAAATTTTATAA
1 TATTAAATAAATTATATAA
776318 TATTAAATATAATTATATAA
1 TATTAAATA-AATTATATAA
776338 ATATCATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTAAATAAATTATATAA
Found at i:776353 original size:29 final size:28
Alignment explanation
Indices: 776300--776413 Score: 83
Period size: 29 Copynumber: 3.9 Consensus size: 28
776290 ATAATGGATT
*
776300 ATTATATAAATTTTATAATATTAAATATA
1 ATTATATAAATTATATAATATTAAA-ATA
776329 ATTATATAAATATCATATAA-A-TAAAATA
1 ATTATATAAAT-T-ATATAATATTAAAATA
* *
776357 ATTAAAATAATATAAATATATATATTTAAAATTA
1 ATT-ATATAA-AT-TATATA-ATA-TTAAAA-TA
776391 TATTATATAAATTAT-TAAT-TTAA
1 -ATTATATAAATTATATAATATTAA
776414 TAAAATTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
28 10 0.14
29 25 0.36
30 8 0.11
31 8 0.11
32 2 0.03
33 7 0.10
34 7 0.10
35 3 0.04
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (28 bp):
ATTATATAAATTATATAATATTAAAATA
Done.