Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold263
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: 1338270
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 4 of 10
Found at i:548184 original size:21 final size:20
Alignment explanation
Indices: 548158--548204 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
548148 TTCAAATTGA
548158 TTTTATTTAATATAAAT-TAT
1 TTTTATTTAATA-AAATATAT
548178 TATTTATTTAATAAAATATAT
1 T-TTTATTTAATAAAATATAT
548199 TTTTAT
1 TTTTAT
548205 ATAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATTTAATAAAATATAT
Found at i:548808 original size:26 final size:27
Alignment explanation
Indices: 548762--548877 Score: 85
Period size: 28 Copynumber: 4.2 Consensus size: 27
548752 TTAAATGATA
**
548762 ATATATTTAAAATTTTAAAATTT-T-T
1 ATATATTTAAAAAATTAAAATTTATAT
548787 ATATATTTAAAAAATTATAAATTTATAT
1 ATATATTTAAAAAATTA-AAATTTATAT
* * *
548815 TTATATTTAAATATATATT-AAATATAAAT
1 ATATATTTAAA-A-A-ATTAAAATTTATAT
* * *
548844 ATATTTTTTAAAAATATAAAATTTAAAT
1 ATATATTTAAAAAAT-TAAAATTTATAT
548872 AATATA
1 -ATATA
548878 ATAACTACGT
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
25 15 0.21
26 8 0.11
27 3 0.04
28 21 0.29
29 21 0.29
30 1 0.01
31 3 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATATATTTAAAAAATTAAAATTTATAT
Found at i:548844 original size:17 final size:18
Alignment explanation
Indices: 548802--548847 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
548792 TTTAAAAAAT
* *
548802 TATAAATTTATATTTATA
1 TATAAATATATATTTAAA
*
548820 TTTAAATATATA-TTAAA
1 TATAAATATATATTTAAA
548837 TATAAATATAT
1 TATAAATATAT
548848 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAAATATATATTTAAA
Found at i:549562 original size:15 final size:15
Alignment explanation
Indices: 549542--549571 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
549532 AAAAAGTTTA
549542 TATATATACACACAT
1 TATATATACACACAT
*
549557 TATATATATACACAT
1 TATATATACACACAT
549572 GATAATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (15 bp):
TATATATACACACAT
Found at i:549682 original size:2 final size:2
Alignment explanation
Indices: 549675--549709 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
549665 CCAAACCCCA
549675 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 A
549710 AACCCCAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:553965 original size:19 final size:20
Alignment explanation
Indices: 553937--553992 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
553927 AATTAAATTT
* *
553937 ATTTTTTTATAT-TTTAATA
1 ATTTTATTATATACTTAATA
553956 ATTTTATTATTATACTTAATA
1 ATTTTATTA-TATACTTAATA
553977 ATTATTATTTATATAC
1 ATT-TTA-TTATATAC
553993 AATAATTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 8 0.26
20 3 0.10
21 9 0.29
22 8 0.26
23 3 0.10
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTATTATATACTTAATA
Found at i:553991 original size:22 final size:21
Alignment explanation
Indices: 553937--553999 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
553927 AATTAAATTT
*
553937 ATTTT-TTTATAT-TTTAATA
1 ATTTTATTTATATACTTAATA
553956 ATTTTA-TTATTATACTTAATA
1 ATTTTATTTA-TATACTTAATA
553977 ATTATTATTTATATAC--AATA
1 ATT-TTATTTATATACTTAATA
553997 ATT
1 ATT
554000 CTTTGGTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
19 8 0.21
20 10 0.26
21 9 0.24
22 8 0.21
23 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTATTTATATACTTAATA
Found at i:553996 original size:20 final size:20
Alignment explanation
Indices: 553951--553999 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
553941 TTTTATATTT
553951 TAATAATTTTATTATTATAC
1 TAATAATTTTATTATTATAC
553971 TTAATAATTATTATT-TATATAC
1 -TAATAATT-TTATTAT-TATAC
553993 -AATAATT
1 TAATAATT
554000 CTTTGGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 7 0.27
21 9 0.35
22 10 0.38
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAATTTTATTATTATAC
Found at i:555353 original size:16 final size:16
Alignment explanation
Indices: 555334--555366 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
555324 TTTTTTTTTA
*
555334 TATTAAAGCTTGGATT
1 TATTAAAGCATGGATT
555350 TATTAAAGCATGGATT
1 TATTAAAGCATGGATT
555366 T
1 T
555367 TTTTTTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (16 bp):
TATTAAAGCATGGATT
Found at i:560314 original size:25 final size:25
Alignment explanation
Indices: 560267--560314 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
560257 TTCTAGAAAA
*
560267 ACCTACAATAATGGAAGTAAATCTT
1 ACCTACAATAATGGAAGCAAATCTT
*
560292 ACCTACAATAATGGAAGCGAATC
1 ACCTACAATAATGGAAGCAAATC
560315 AGTAAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.23
Consensus pattern (25 bp):
ACCTACAATAATGGAAGCAAATCTT
Found at i:563332 original size:18 final size:20
Alignment explanation
Indices: 563287--563332 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
563277 TAAATTTTTT
563287 TAAATAAATTATTTGATACATA
1 TAAATAAATTATTT-ATA-ATA
*
563309 TTAATAAATTATTT-T-ATA
1 TAAATAAATTATTTATAATA
563327 TAAATA
1 TAAATA
563333 TTTATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.36
20 1 0.05
22 13 0.59
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TAAATAAATTATTTATAATA
Found at i:567500 original size:13 final size:14
Alignment explanation
Indices: 567460--567502 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
567450 TTATGATACA
567460 AAATTTAAAAAA-T
1 AAATTTAAAAAATT
567473 AAATTTAAAATAATT
1 AAATTTAAAA-AATT
*
567488 ATA-TTAAAAAATT
1 AAATTTAAAAAATT
567501 AA
1 AA
567503 TATATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 15 0.58
14 8 0.31
15 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATTTAAAAAATT
Found at i:567505 original size:14 final size:14
Alignment explanation
Indices: 567464--567505 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
567454 GATACAAAAT
*
567464 TTAAAAAATAAAT-
1 TTAAAAAATTAATA
567477 TTAAAATAATT-ATA
1 TTAAAA-AATTAATA
567491 TTAAAAAATTAATA
1 TTAAAAAATTAATA
567505 T
1 T
567506 ATTTATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAAAAAATTAATA
Found at i:567927 original size:24 final size:22
Alignment explanation
Indices: 567887--567943 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
567877 AAAAATTTAA
*
567887 ATTTA-TTTTATTTTAAAATATG
1 ATTTATTTTTATTGTAAAAT-TG
*
567909 ATTTATTTTTACTTGTAAAATTT
1 ATTTATTTTTA-TTGTAAAATTG
567932 ATTTAATTTTTA
1 ATTT-ATTTTTA
567944 AGATATTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 5 0.17
23 10 0.33
24 15 0.50
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (22 bp):
ATTTATTTTTATTGTAAAATTG
Found at i:568189 original size:33 final size:33
Alignment explanation
Indices: 568094--568194 Score: 109
Period size: 33 Copynumber: 3.1 Consensus size: 33
568084 AAAGTATAAA
568094 TTATTTTTATTTATAAAAGTTTAAATTTA-TAT
1 TTATTTTTATTTATAAAAGTTTAAATTTATTAT
* **
568126 TTTTTGTTTGA-TTATACGAGTTTAAA-TTATTAT
1 TTATT-TTT-ATTTATAAAAGTTTAAATTTATTAT
* * *
568159 TTATTTTTATTTGTAAAAATTTAAATTTATTTT
1 TTATTTTTATTTATAAAAGTTTAAATTTATTAT
568192 TTA
1 TTA
568195 ATTATGATCA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
31 1 0.02
32 21 0.38
33 32 0.58
34 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (33 bp):
TTATTTTTATTTATAAAAGTTTAAATTTATTAT
Found at i:568223 original size:73 final size:72
Alignment explanation
Indices: 568146--568653 Score: 453
Period size: 73 Copynumber: 7.0 Consensus size: 72
568136 ATTATACGAG
* *
568146 TTTAAATTATTATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTAATTATGATCATATAAA
1 TTTAAA-TATTATTTATTTTTATTTATAAAAATTTAAATTTATTTTTTAATTATGATTATATAAA
568211 TTTAAATT
65 TTTAAATT
* * * * * * ** **
568219 TTTAAGATATAATTTATTTTTATTTGTATAAATTCAAATTTATTTTTTGATT-TGATTGTGCATG
1 TTTAA-ATATTATTTATTTTTATTTATAAAAATTTAAATTTATTTTTTAATTATGATTATATAAA
*
568283 TTTAAAAT
65 TTTAAATT
* * * * * *
568291 TTTAAGTTAGTATTTATTTTTATTTATAAAAATTTAAGTTTGATTTTTT-AGTATGAATATATGA
1 TTTAA-ATATTATTTATTTTTATTTATAAAAATTTAAATTT-ATTTTTTAATTATGATTATATAA
*
568355 GTTTAAAATT
64 ATTT-AAATT
* * * * ** * *
568365 TTGAAGATATAATTTATTTTTATTCATAGAAATTTAAA-TTATTTTTTTGTT-TAATTATATAAG
1 TTTAA-ATATTATTTATTTTTATTTATAAAAATTTAAATTTATTTTTTAATTATGATTATATAAA
568428 TTTAAATT
65 TTTAAATT
* * * *
568436 TTTAAGATATTATTTATTTTTATTTGTAAAAA-TTAAAATT-TTTTCT-A-TATGATTATATGAA
1 TTTAA-ATATTATTTATTTTTATTTATAAAAATTTAAATTTATTTTTTAATTATGATTATATAAA
568497 TTTAAAATT
65 TTT-AAATT
* * *
568506 TTAAAATATAATTTATTTTTATTTATAAAAATTTAAATTTATTTTTTTAATT-TAATTATATAAA
1 TTTAAATATTATTTATTTTTATTTATAAAAATTTAAATTTA-TTTTTTAATTATGATTATATAAA
*
568570 TTTAAAAAT
65 TTT-AAATT
* * * * *
568579 TTAAAATATTATTTATTATTATTTATAAAAATATAAATTT-TTTATTTAAATA-GAATTATATGA
1 TTTAAATATTATTTATTTTTATTTATAAAAATTTAAATTTATTT-TTTAATTATG-ATTATATAA
*
568642 ATTTAATTT
64 ATTTAAATT
568651 TTT
1 TTT
568654 TTAGAATATG
Statistics
Matches: 354, Mismatches: 65, Indels: 33
0.78 0.14 0.07
Matches are distributed among these distances:
68 1 0.00
69 36 0.10
70 26 0.07
71 37 0.10
72 84 0.24
73 133 0.38
74 37 0.10
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (72 bp):
TTTAAATATTATTTATTTTTATTTATAAAAATTTAAATTTATTTTTTAATTATGATTATATAAAT
TTAAATT
Found at i:568346 original size:145 final size:141
Alignment explanation
Indices: 568077--568653 Score: 559
Period size: 145 Copynumber: 4.1 Consensus size: 141
568067 ATAAAAGTTA
* * * *
568077 AAATTTTAAAG-TATAAATTATTTTTATTTATAAAAGTTTAAATTTATATTTTTTGTTTGATTAT
1 AAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAA-TT-TATTTTTTGTTTAATTAT
*
568141 ACGAGTTT---A----AA-TTATTATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTAATT
64 ACAAGTTTAAAATTTTAAGTTATTATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTT-A-T
*
568198 ATGATCATATAAATTT
127 ATGAT-ATATGAATTT
* * * * * *
568214 AAATTTTTAAGATATAATTTATTTTTATTTGTATAAATTCAAATTTATTTTTTGATTTGATTGTG
1 AAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTTATTTTTTG-TTTAATTATA
* * * *
568279 CATGTTTAAAATTTTAAGTTAGTATTTATTTTTATTTATAAAAATTTAAGTTTGATTTTTTAGTA
65 CAAGTTTAAAATTTTAAGTTATTATTTATTTTTATTTGTAAAAATTTAAATTT-ATTTTTTA-TA
*
568344 TGAATATATGAGTTT
128 TG-ATATATGAATTT
* * *
568359 AAAATTTTGAAGATATAATTTATTTTTATTCATAGAAATTTAAA-TTATTTTTTTGTTTAATTAT
1 -AAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTTA-TTTTTTGTTTAATTAT
* * * * *
568423 ATAAGTTTAAATTTTTAAGATATTATTTATTTTTATTTGTAAAAA-TTAAAATT-TTTTCTATAT
64 ACAAGTTTAAAATTTTAAGTTATTATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTATAT
568486 GATTATATGAATTT
129 GA-TATATGAATTT
* * *
568500 AAAATTTTAAAATATAATTTATTTTTATTTATAAAAATTTAAATTTATTTTTTTAATTTAATTAT
1 AAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTTA-TTTTTT-GTTTAATTAT
* * * ** * * * *
568565 ATAAATTTAAAAATTTAAAATATTATTTATTATTATTTATAAAAATATAAATTT-TTTATTTAAA
64 ACAAGTTTAAAATTTTAAGTTATTATTTATTTTTATTTGTAAAAATTTAAATTTATTT-TTTATA
568629 TAGAATTATATGAATTT
128 T-G-A-TATATGAATTT
*
568646 AATTTTTT
1 AAATTTTT
568654 TTAGAATATG
Statistics
Matches: 367, Mismatches: 52, Indels: 33
0.81 0.12 0.07
Matches are distributed among these distances:
136 9 0.02
137 25 0.07
138 26 0.07
140 40 0.11
141 24 0.07
142 54 0.15
143 9 0.02
144 13 0.04
145 94 0.26
146 73 0.20
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (141 bp):
AAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTTATTTTTTGTTTAATTATAC
AAGTTTAAAATTTTAAGTTATTATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTATATGA
TATATGAATTT
Found at i:568539 original size:40 final size:40
Alignment explanation
Indices: 568495--568620 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 40
568485 TGATTATATG
*
568495 AATTTAAAATTTTAAAATATAATTTATTTTTATTTATAAA
1 AATTTAAAATTTTAAAATATTATTTATTTTTATTTATAAA
* * * *
568535 AATTT-AAA-TTT---AT-TTTTTTA-ATTTAATTATATA
1 AATTTAAAATTTTAAAATATTATTTATTTTTATTTATAAA
* *
568568 AATTTAAAAATTTAAAATATTATTTATTATTATTTATAAA
1 AATTTAAAATTTTAAAATATTATTTATTTTTATTTATAAA
* *
568608 AATATAAATTTTT
1 AATTTAAAATTTT
568621 TATTTAAATA
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
33 15 0.23
34 8 0.12
35 5 0.08
38 5 0.08
39 9 0.14
40 24 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (40 bp):
AATTTAAAATTTTAAAATATTATTTATTTTTATTTATAAA
Found at i:569232 original size:20 final size:19
Alignment explanation
Indices: 569189--569233 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
569179 AATAAAAATT
569189 TTTTAATTTAAATTATAAA
1 TTTTAATTTAAATTATAAA
* * *
569208 ATTTATTTTAAATATATATA
1 TTTTAATTTAAAT-TATAAA
569228 TTTTAA
1 TTTTAA
569234 AGTGTACATC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAAATTATAAA
Found at i:569657 original size:20 final size:21
Alignment explanation
Indices: 569612--569658 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
569602 ATAGACGTCT
569612 ATTATATATAAAAAATAATTA
1 ATTATATATAAAAAATAATTA
*
569633 A-TATAT-TAAAAAA-ATTTAA
1 ATTATATATAAAAAATAATT-A
569652 ATTATAT
1 ATTATAT
569659 CATTTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 3 0.13
19 9 0.39
20 10 0.43
21 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTATATATAAAAAATAATTA
Found at i:572097 original size:21 final size:21
Alignment explanation
Indices: 572071--572111 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
572061 TTATGACTTG
*
572071 TGAATACTCTATTGTAGGCTT
1 TGAATACCCTATTGTAGGCTT
572092 TGAATACCCTATTGTAGGCT
1 TGAATACCCTATTGTAGGCT
572112 GAGGCTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (21 bp):
TGAATACCCTATTGTAGGCTT
Found at i:572628 original size:134 final size:132
Alignment explanation
Indices: 572489--572972 Score: 414
Period size: 134 Copynumber: 3.5 Consensus size: 132
572479 TAAAGGTATA
* * *
572489 ATTTATTTTTATTTATAAAAGTTTAAATTTTTTTAGTTTGATTATACAAGTTTAAATTTTTTAAG
1 ATTTATTTTTATTTATAAAAATTTAAATTTTTTTAGTATGATTATATAAGTTTAAATTTTTTAAG
*
572554 ATATAATTTATTTTTATTTATATAAGTTCAAATTTATTTTTGATTTGATTATACAAGTTTAAATA
66 ATATAATTTATTTTTATTTATAAAAGTT-AAATTTATTTTTGATTTGATTATA-AAGTTT-AA-A
572619 TTTAATTTATT
127 --T--TTTA-T
* *
572630 ATTTATTTTTATTTATAAAAATTTAAGTTTGGTTTTTGAGTATGGTTATATAAG--T---TTTTT
1 ATTTATTTTTATTTATAAAAATTTAA-ATT--TTTTT-AGTATGATTATATAAGTTTAAATTTTT
*
572690 TAAGATATAATTTATTTTTATTCATAAAAGTT-AA-TT-TTTTTG-TTTGATTATATGAA-TTTA
62 TAAGATATAATTTATTTTTATTTATAAAAGTTAAATTTATTTTTGATTTGATTATA--AAGTTTA
572750 AATTTTAAGAGAT
125 AATTTT-----AT
* *
572763 CATTTATTTTTATTTATAAAAATTTAAATTTTTTTAGTATGATTATATGAGTTTAAA-ATTTTAA
1 -ATTTATTTTTATTTATAAAAATTTAAATTTTTTTAGTATGATTATATAAGTTTAAATTTTTTAA
* * *
572827 AATATAATTTATTTTTATTTATAAAATTTTAAATTTATTTTTTAATTTGATTATAAGAGTTTAAA
65 GATATAATTTATTTTTATTTATAAAA-GTTAAATTTA-TTTTTGATTTGATTATAA-AGTTTAAA
*
572892 TTTTTAAA
127 -TTTT-AT
* * * * *
572900 ATATTATTTATCATTATTTATAAAAATATAAATTTATTATTTAAATAGGATTAAATAAATTTAAA
1 AT-TTA-TT-T--TTATTTATAAAAATTTAAA-TT-TT-TTT-AGTATGATTATATAAGTTTAAA
572965 TTTTTTAA
57 TTTTTTAA
572973 AGTGTAACTC
Statistics
Matches: 283, Mismatches: 25, Indels: 65
0.76 0.07 0.17
Matches are distributed among these distances:
129 3 0.01
130 14 0.05
131 6 0.02
132 1 0.00
133 4 0.01
134 59 0.21
135 15 0.05
136 12 0.04
137 8 0.03
138 5 0.02
139 7 0.02
140 51 0.18
141 47 0.17
142 4 0.01
143 3 0.01
144 8 0.03
145 30 0.11
146 6 0.02
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (132 bp):
ATTTATTTTTATTTATAAAAATTTAAATTTTTTTAGTATGATTATATAAGTTTAAATTTTTTAAG
ATATAATTTATTTTTATTTATAAAAGTTAAATTTATTTTTGATTTGATTATAAAGTTTAAATTTT
AT
Found at i:572706 original size:140 final size:133
Alignment explanation
Indices: 572470--572934 Score: 492
Period size: 141 Copynumber: 3.4 Consensus size: 133
572460 ATAACTATAG
* * * *
572470 GTTTAAA-TTTAAAGGTATAATTTATTTTTATTTATAAAAGTTTAAATTTTTTTAGTTTGATTAT
1 GTTTAAATTTTAAA-ATATTATTTATTTTTATTTATAAAAATTTAAATTTTTTTAGTATGATTAT
* *
572534 ACAAGTTTAAATTTTTTAAGATATAATTTATTTTTATTTATATAAGTTCAAATTTATTTTTGATT
65 ATAAG--T---TTTTTTAAGATATAATTTATTTTTATTTATAAAAGTT-AAATTTATTTTTGATT
572599 TGATTATACAA
124 TGATTATA-AA
** * *
572610 GTTTAAATATTTAATTTATTATTTATTTTTATTTATAAAAATTTAAGTTTGGTTTTTGAGTATGG
1 GTTTAAAT-TTTAAAATATTATTTATTTTTATTTATAAAAATTTAA-ATT--TTTTT-AGTATGA
*
572675 TTATATAAGTTTTTTTAAGATATAATTTATTTTTATTCATAAAAGTT-AA-TT-TTTTTG-TTTG
61 TTATATAAGTTTTTTTAAGATATAATTTATTTTTATTTATAAAAGTTAAATTTATTTTTGATTTG
572736 ATTATATGAA
126 ATTATA--AA
* * *
572746 -TTTAAATTTTAAGAGATCATTTATTTTTATTTATAAAAATTTAAATTTTTTTAGTATGATTATA
1 GTTTAAATTTTAAAATATTATTTATTTTTATTTATAAAAATTTAAATTTTTTTAGTATGATTATA
* * * *
572810 TGAGTTTAAAATTTTAAAATATAATTTATTTTTATTTATAAAATTTTAAATTTATTTTTTAATTT
66 TAAGTTT----TTTTAAGATATAATTTATTTTTATTTATAAAA-GTTAAATTTA-TTTTTGATTT
572875 GATTATAAGA
125 GATTATAA-A
** *
572885 GTTTAAATTTTTAAAATATTATTTATCATTATTTATAAAAATATAAATTT
1 GTTTAAA-TTTTAAAATATTATTTATTTTTATTTATAAAAATTTAAATTT
572935 ATTATTTAAA
Statistics
Matches: 277, Mismatches: 28, Indels: 39
0.81 0.08 0.11
Matches are distributed among these distances:
130 17 0.06
131 5 0.02
133 2 0.01
134 63 0.23
135 19 0.07
136 10 0.04
137 4 0.01
138 3 0.01
139 6 0.02
140 58 0.21
141 64 0.23
142 7 0.03
143 1 0.00
144 5 0.02
145 13 0.05
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (133 bp):
GTTTAAATTTTAAAATATTATTTATTTTTATTTATAAAAATTTAAATTTTTTTAGTATGATTATA
TAAGTTTTTTTAAGATATAATTTATTTTTATTTATAAAAGTTAAATTTATTTTTGATTTGATTAT
AAA
Found at i:572943 original size:72 final size:70
Alignment explanation
Indices: 572470--572934 Score: 456
Period size: 72 Copynumber: 6.7 Consensus size: 70
572460 ATAACTATAG
* * *
572470 GTTTAAA-TTTAAAGGTATAATTTATTTTTATTTATAAAAGTTTAAA-TTTTTTTAGTTTGATTA
1 GTTTAAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTTTTTTTAGTTTGATTA
572533 TACAA
66 TACAA
* * *
572538 GTTTAAATTTTTTAAGATATAATTTATTTTTATTTATATAAGTTCAAATTTATTTTT-GATTTGA
1 GTTTAAA-TTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTT-TTTTTAG-TTTGA
572602 TTATACAA
63 TTATACAA
* ** * * * *
572610 GTTTAAATATTTAATTTATTATTTATTTTTATTTATAAAAATTTAAGTTTGGTTTTTGAGTATGG
1 GTTTAAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTT--TTTTT-AGTTTGA
*
572675 TTATATAA
63 TTATACAA
* *
572683 G-TT---TTTTTAAGATATAATTTATTTTTATTCAT-AAAAGTT-AA-TTTTTTT-GTTTGATTA
1 GTTTAAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTTTTTTTAGTTTGATTA
*
572740 TATGAA
66 TA-CAA
* * *
572746 -TTTAAA-TTTTAAGAGATCATTTATTTTTATTTATAAAAATTTAAA-TTTTTTTAGTATGATTA
1 GTTTAAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTTTTTTTAGTTTGATTA
**
572808 TATGA
66 TACAA
* * * *
572813 GTTTAAAATTTTAAAATATAATTTATTTTTATTTATAAAATTTTAAATTTATTTTTTAATTTGAT
1 GTTTAAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAA-TT-TTTTTTAGTTTGAT
572878 TATA-AGA
64 TATACA-A
* * ** *
572885 GTTTAAATTTTTAAAATATTATTTATCATTATTTATAAAAATATAAATTT
1 GTTTAAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTT
572935 ATTATTTAAA
Statistics
Matches: 329, Mismatches: 46, Indels: 42
0.79 0.11 0.10
Matches are distributed among these distances:
62 9 0.03
63 4 0.01
64 5 0.02
65 25 0.08
66 8 0.02
67 11 0.03
68 29 0.09
69 59 0.18
70 36 0.11
71 41 0.12
72 90 0.27
73 11 0.03
74 1 0.00
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (70 bp):
GTTTAAATTTTTAAGATATAATTTATTTTTATTTATAAAAATTTAAATTTTTTTTAGTTTGATTA
TACAA
Found at i:573945 original size:13 final size:14
Alignment explanation
Indices: 573914--573946 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
573904 TAATCTTTTA
573914 ATAAAATTAAAATT
1 ATAAAATTAAAATT
*
573928 TTAAAATT-AAATT
1 ATAAAATTAAAATT
573941 ATAAAA
1 ATAAAA
573947 AATTATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAAAATTAAAATT
Found at i:574644 original size:65 final size:65
Alignment explanation
Indices: 574510--574645 Score: 143
Period size: 65 Copynumber: 2.1 Consensus size: 65
574500 AGTTTAAATT
* * ** * *
574510 TTTAAAGTATAATTTACTTTTTATTTACAAAAATTTAAATTTACTTTTTGATTTTATTATAAGAG
1 TTTAAAGTATAATTTACTTTTTATTTACAAAAATTGAAATTTACTTTTTAAAATGATTATAAGAA
* **
574575 TTTAAAGTATTATTTA-TTTTTATTTGTAAAAATTGAAATTTA-TTTTTCAACAATGATTAT-AG
1 TTTAAAGTATAATTTACTTTTTATTTACAAAAATTGAAATTTACTTTTT-AA-AATGATTATAAG
574637 AAA
64 -AA
574640 TTTAAA
1 TTTAAA
574646 TTTTAAAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
63 5 0.08
64 26 0.44
65 28 0.47
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.51
Consensus pattern (65 bp):
TTTAAAGTATAATTTACTTTTTATTTACAAAAATTGAAATTTACTTTTTAAAATGATTATAAGAA
Found at i:574836 original size:18 final size:18
Alignment explanation
Indices: 574810--574863 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
574800 AAAATATATA
*
574810 ATTATAAAATTTATGATT
1 ATTAAAAAATTTATGATT
**
574828 ATTAAAAAATTTAAAATT
1 ATTAAAAAATTTATGATT
* *
574846 TTTAAAAATTTTATGATT
1 ATTAAAAAATTTATGATT
574864 CCTAAAATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (18 bp):
ATTAAAAAATTTATGATT
Found at i:575666 original size:4 final size:4
Alignment explanation
Indices: 575657--575685 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
575647 AAAAAATAAC
575657 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
575686 GCTCTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:576556 original size:22 final size:22
Alignment explanation
Indices: 576528--576569 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
576518 ATTATAAAAT
* *
576528 TATTTTTATATTAATATTTATA
1 TATTTTTATAATAAAATTTATA
576550 TATTTTTATAATAAAATTTA
1 TATTTTTATAATAAAATTTA
576570 AATCATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTATAATAAAATTTATA
Found at i:578712 original size:22 final size:22
Alignment explanation
Indices: 578687--578729 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
578677 AAATGAAAGA
*
578687 TTAAAT-TATGTTAAATGTTTAT
1 TTAAATATAAGTTAAA-GTTTAT
578709 TTAAATATAAGTTAAAGTTTA
1 TTAAATATAAGTTAAAGTTTA
578730 AGAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
TTAAATATAAGTTAAAGTTTAT
Found at i:578738 original size:30 final size:30
Alignment explanation
Indices: 578704--578812 Score: 103
Period size: 30 Copynumber: 3.5 Consensus size: 30
578694 ATGTTAAATG
*
578704 TTTATTTAAATATAAGTTAAAGTTTAAGAA
1 TTTATTTAAATATAAATTAAAGTTTAAGAA
* * *
578734 TTTATTTAGATATAAATTAAAATTGAA-AA
1 TTTATTTAAATATAAATTAAAGTTTAAGAA
* * **
578763 GTTTATTTAAATGTAAATTAAAAGATTAAGGG
1 -TTTATTTAAATATAAATT-AAAGTTTAAGAA
578795 TTTATTTGAAATAATAAA
1 TTTATTT-AAAT-ATAAA
578813 AGTATAAAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
29 2 0.03
30 39 0.63
31 13 0.21
32 4 0.06
33 4 0.06
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (30 bp):
TTTATTTAAATATAAATTAAAGTTTAAGAA
Found at i:578966 original size:40 final size:40
Alignment explanation
Indices: 578915--578995 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
578905 TTGCAAAATC
*
578915 TATCACCTTCAAGTTCGAATAAATATCAGCTGAGTTTACA
1 TATCACCTTCAAGTTCGAATAAATATCAGCTAAGTTTACA
* *
578955 TATCACGTTCAAGTTCGAATAAATATTAGCTAAGTTTACA
1 TATCACCTTCAAGTTCGAATAAATATCAGCTAAGTTTACA
578995 T
1 T
578996 TGAATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (40 bp):
TATCACCTTCAAGTTCGAATAAATATCAGCTAAGTTTACA
Found at i:582486 original size:8 final size:8
Alignment explanation
Indices: 582469--582506 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
582459 TGGTCATCAT
582469 ATATATAC
1 ATATATAC
*
582477 ATACATAC
1 ATATATAC
*
582485 ATATATAT
1 ATATATAC
582493 ATATATAC
1 ATATATAC
582501 ATATAT
1 ATATAT
582507 GCATGAAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:582983 original size:6 final size:7
Alignment explanation
Indices: 582966--582990 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
582956 AAATCTTCCA
582966 AAAAAAT
1 AAAAAAT
582973 AAAAAAT
1 AAAAAAT
582980 AAAAAAT
1 AAAAAAT
582987 AAAA
1 AAAA
582991 TATTCTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:585412 original size:19 final size:19
Alignment explanation
Indices: 585375--585419 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
585365 AATTTAAAAT
*
585375 AAATTTAAATTAATATATC
1 AAATTTAAATGAATATATC
585394 AAATTATAAATGAAT-TATC
1 AAATT-TAAATGAATATATC
*
585413 ATATTTA
1 AAATTTA
585420 CATTATACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 8 0.35
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (19 bp):
AAATTTAAATGAATATATC
Found at i:586102 original size:27 final size:27
Alignment explanation
Indices: 586053--586104 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
586043 TGGGTTTATA
* *
586053 TATTTTTTTAATAAAACATAATTAACT
1 TATTTTTATAATAAAACAAAATTAACT
586080 TATTTTTATAA-AAAATCAAAATTAA
1 TATTTTTATAATAAAA-CAAAATTAA
586105 AAATATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (27 bp):
TATTTTTATAATAAAACAAAATTAACT
Found at i:589301 original size:3 final size:3
Alignment explanation
Indices: 589293--589322 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
589283 TTACCAATTA
*
589293 AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
589323 TTATAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:590681 original size:21 final size:21
Alignment explanation
Indices: 590649--590693 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
590639 TGAGGAGAGG
*
590649 GAATGAAAAGATTGTGAGGGA
1 GAATGAAAAGATTGAGAGGGA
*
590670 GAAT-AAAGAGATTGAGATGGA
1 GAATGAAA-AGATTGAGAGGGA
590691 GAA
1 GAA
590694 AAATGAGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.18
Consensus pattern (21 bp):
GAATGAAAAGATTGAGAGGGA
Found at i:593580 original size:1 final size:1
Alignment explanation
Indices: 593574--593599 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
593564 TCATCCAACA
593574 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
593600 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:593854 original size:16 final size:16
Alignment explanation
Indices: 593827--593869 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
593817 TTTTTTAAAA
593827 ATATTTATATTT-AATAT
1 ATATTTA-ATTTGAA-AT
593844 ATATTTAATTTGAAAT
1 ATATTTAATTTGAAAT
*
593860 ATAATTAATT
1 ATATTTAATT
593870 AAAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATTTAATTTGAAAT
Found at i:594375 original size:23 final size:24
Alignment explanation
Indices: 594349--594395 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
594339 TTCGAAGGTA
594349 AAAAAATAAAAATATTAAA-ATTT
1 AAAAAATAAAAATATTAAATATTT
** *
594372 AAAATTTAAAATTATTAAATATTT
1 AAAAAATAAAAATATTAAATATTT
594396 TATGTGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAAATAAAAATATTAAATATTT
Found at i:594380 original size:14 final size:15
Alignment explanation
Indices: 594357--594394 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
594347 TAAAAAAATA
594357 AAAATATTAAAATTT
1 AAAATATTAAAATTT
594372 AAAAT-TTAAAATTAT
1 AAAATATTAAAATT-T
*
594387 TAAATATT
1 AAAATATT
594395 TTATGTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 10 0.50
16 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATATTAAAATTT
Found at i:595117 original size:50 final size:50
Alignment explanation
Indices: 595033--595136 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
595023 CAGTTTGTGA
* * * *
595033 TATATATTTTTTAATTTTTAAATATTAATAAAAA-TTAAATTTGATTTAAT
1 TATATAATTTTTAATTTTAAAATATAAATAAAAATTTAAATTTCA-TTAAT
595083 TATATAATTTTTAA-TTTAAAATA-AAATTATAAAATTTAAATTTCATTAAT
1 TATATAATTTTTAATTTTAAAATATAAA-TA-AAAATTTAAATTTCATTAAT
595133 TATA
1 TATA
595137 AATAAAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
48 2 0.04
49 10 0.21
50 26 0.55
51 9 0.19
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (50 bp):
TATATAATTTTTAATTTTAAAATATAAATAAAAATTTAAATTTCATTAAT
Found at i:595366 original size:2 final size:2
Alignment explanation
Indices: 595359--595385 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
595349 GATATTTGGC
595359 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
595386 TGATTATCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:596684 original size:14 final size:14
Alignment explanation
Indices: 596665--596696 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
596655 TATTCAATGC
*
596665 ATATTTAAATTTGA
1 ATATTTAAATTTAA
596679 ATATTTAAATTTAA
1 ATATTTAAATTTAA
596693 ATAT
1 ATAT
596697 GAAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
ATATTTAAATTTAA
Found at i:596838 original size:47 final size:47
Alignment explanation
Indices: 596768--596859 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
596758 CTCTTGTTGA
*
596768 ATATATACCTTTATTCAACATTCATATCCGAATCCAAGTAACAAAGG
1 ATATATACCTTTATTCAACATTCATATCCGAATCCAAATAACAAAGG
*
596815 ATATATACCTTTATTCAATATTCATATCCGAATCCAAATAACAAA
1 ATATATACCTTTATTCAACATTCATATCCGAATCCAAATAACAAA
596860 ACAATGGGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (47 bp):
ATATATACCTTTATTCAACATTCATATCCGAATCCAAATAACAAAGG
Found at i:597060 original size:2 final size:2
Alignment explanation
Indices: 597053--597088 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
597043 CAAACATCTT
597053 TA TA TA 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
597089 CACACACACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:600608 original size:21 final size:21
Alignment explanation
Indices: 600527--600642 Score: 80
Period size: 21 Copynumber: 5.5 Consensus size: 21
600517 TCATATTTTT
* *
600527 TATATTAATTATATGAATATA
1 TATATTAATTATATTATTATA
* *
600548 AATA-TAATAAATATTATTATA
1 TATATTAAT-TATATTATTATA
*
600569 TATATTTTAAATATAATTATTATA
1 TATA--TTAATTAT-ATTATTATA
600593 TATATTAATTATATTA--AT-
1 TATATTAATTATATTATTATA
* *
600611 TTTATTATATTATATTTATTAAA
1 TATATTA-ATTATA-TTATTATA
600634 TATA-TAATT
1 TATATTAATT
600643 TTATGTCATA
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
18 6 0.08
19 8 0.11
20 7 0.09
21 22 0.30
22 10 0.14
23 5 0.07
24 16 0.22
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.53
Consensus pattern (21 bp):
TATATTAATTATATTATTATA
Found at i:600619 original size:14 final size:14
Alignment explanation
Indices: 600600--600646 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
600590 ATATATATTA
600600 ATTATATTAATTTT
1 ATTATATTAATTTT
600614 ATTATATT-ATATTT
1 ATTATATTAAT-TTT
600628 ATTAAATATATAATTTT
1 ATT--ATAT-TAATTTT
600645 AT
1 AT
600647 GTCATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.07
14 14 0.50
16 4 0.14
17 6 0.21
18 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTATATTAATTTT
Found at i:600631 original size:32 final size:31
Alignment explanation
Indices: 600586--600646 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
600576 TAAATATAAT
*
600586 TATTATATATATTAATTATATTAATTTTATTA
1 TATTATATATATTAAATATA-TAATTTTATTA
*
600618 TATTATATTTATTAAATATATAATTTTAT
1 TATTATATATATTAAATATATAATTTTAT
600647 GTCATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
TATTATATATATTAAATATATAATTTTATTA
Found at i:600663 original size:31 final size:32
Alignment explanation
Indices: 600586--600678 Score: 86
Period size: 32 Copynumber: 2.9 Consensus size: 32
600576 TAAATATAAT
*
600586 TATTATA-TATATTAATTATATTAATTTTATTA
1 TATTATATTA-ATTAAATATATTAATTTTATTA
*
600618 TATTATATTTATTAAATATA-TAATTTTATGTCA
1 TATTATATTAATTAAATATATTAATTTTAT-T-A
* *
600651 TATT-T-TTAATTAAAAAATATTAAATTTA
1 TATTATATTAATT-AAATATATTAATTTTA
600679 ACTTCAAACC
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
31 14 0.27
32 24 0.47
33 13 0.25
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (32 bp):
TATTATATTAATTAAATATATTAATTTTATTA
Found at i:600663 original size:54 final size:50
Alignment explanation
Indices: 600534--600637 Score: 118
Period size: 51 Copynumber: 1.9 Consensus size: 50
600524 TTTTATATTA
* *
600534 ATTATATGAATATAAATATAATAAATATTATTATATATATTTTAAATATAATT
1 ATTATAT--ATATTAAT-TAATTAATATTATTATATATATTTTAAATATAATT
*
600587 ATTATATATATTAATTATATTAATTTTATTATATTATATTTATTAAATATA
1 ATTATATATATTAATTA-ATTAATATTATTATA-TATA-TT-TTAAATATA
600638 TAATTTTATG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
50 2 0.05
51 20 0.45
52 4 0.09
53 9 0.20
54 9 0.20
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (50 bp):
ATTATATATATTAATTAATTAATATTATTATATATATTTTAAATATAATT
Found at i:601059 original size:21 final size:22
Alignment explanation
Indices: 601035--601092 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
601025 GATTTAATTA
601035 TAAAATAATATTT-TGATATTT
1 TAAAATAATATTTATGATATTT
* *
601056 T-AAATAATTTTTATTATATTT
1 TAAAATAATATTTATGATATTT
*
601077 TAAATAAAATATTTAT
1 TAAA-ATAATATTTAT
601093 TTAATTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 10 0.33
21 9 0.30
22 2 0.07
23 9 0.30
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TAAAATAATATTTATGATATTT
Found at i:601062 original size:20 final size:21
Alignment explanation
Indices: 601037--601092 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
601027 TTTAATTATA
601037 AAATAATATTT-TGATATTTT
1 AAATAATATTTATGATATTTT
* *
601057 AAATAATTTTTATTATATTTT
1 AAATAATATTTATGATATTTT
601078 AAATAAAATATTTAT
1 AAAT--AATATTTAT
601093 TTAATTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.33
21 12 0.40
23 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AAATAATATTTATGATATTTT
Found at i:601118 original size:17 final size:18
Alignment explanation
Indices: 601067--601119 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
601057 AAATAATTTT
*
601067 TATTATATTTTAAATAAAA
1 TATTATATTTTATA-AAAA
*
601086 TATT-TATTTAATTAAAAA
1 TATTATATTTTA-TAAAAA
601104 TATTAT-TTTTATAAAA
1 TATTATATTTTATAAAA
601120 TTTTTAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 5 0.17
18 18 0.62
19 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTATATTTTATAAAAA
Found at i:601876 original size:13 final size:13
Alignment explanation
Indices: 601860--601884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
601850 AGTTTTAAAT
601860 AAAATAAAATTTA
1 AAAATAAAATTTA
601873 AAAATAAAATTT
1 AAAATAAAATTT
601885 TATTTTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATAAAATTTA
Found at i:602433 original size:22 final size:20
Alignment explanation
Indices: 602408--602447 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
602398 GATAATTTCA
602408 AATATAATATAAATATATATTT
1 AATAT-ATATAAA-ATATATTT
*
602430 AATATATTTAAAATATAT
1 AATATATATAAAATATAT
602448 GTTGTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATATATAAAATATATTT
Found at i:602462 original size:22 final size:22
Alignment explanation
Indices: 602418--602468 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
602408 AATATAATAT
602418 AAATATATATTTAATATATTTA
1 AAATATATATTTAATATATTTA
* * *
602440 AAATATATGTTGTATTATATTAA
1 AAATATATATT-TAATATATTTA
602463 AAATAT
1 AAATAT
602469 TTAAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
AAATATATATTTAATATATTTA
Found at i:602757 original size:28 final size:27
Alignment explanation
Indices: 602705--602797 Score: 81
Period size: 28 Copynumber: 3.6 Consensus size: 27
602695 TTCTTATAAA
602705 TATGA-ATAT-TATATAAAT-TATATAT
1 TATGATATATATAT-TAAATATATATAT
602730 GTAT-ATATATATATTAAATATATAATAT
1 -TATGATATATATATTAAATATAT-ATAT
* *
602758 TATGTTATATTTATTAAATATAT-TAT
1 TATGATATATATATTAAATATATATAT
* *
602784 TTTTATAT-TATATT
1 TATGATATATATATT
602798 TTTTTATACT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
25 6 0.11
26 20 0.36
27 9 0.16
28 21 0.38
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (27 bp):
TATGATATATATATTAAATATATATAT
Found at i:602767 original size:30 final size:29
Alignment explanation
Indices: 602710--602780 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
602700 ATAAATATGA
* * *
602710 ATATTATATAAATTATATATGTATATATAT
1 ATATTAAATATATAATATATGTATATAT-T
602740 ATATTAAATATATAATATTATGT-TATATT
1 ATATTAAATATATAATA-TATGTATATATT
602769 -TATTAAATATAT
1 ATATTAAATATAT
602781 TATTTTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.32
29 1 0.03
30 19 0.51
31 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
ATATTAAATATATAATATATGTATATATT
Found at i:602791 original size:13 final size:14
Alignment explanation
Indices: 602731--602813 Score: 55
Period size: 13 Copynumber: 5.9 Consensus size: 14
602721 ATTATATATG
*
602731 TATATATATA-TAT
1 TATATATATATTTT
* * *
602744 TAAATATATAATAT
1 TATATATATATTTT
*
602758 TATGT-TATATTTAT
1 TATATATATATTT-T
*
602772 TAAATATATTATTTT
1 TATATATA-TATTTT
602787 TATAT-TATATTTT
1 TATATATATATTTT
*
602800 TTTATACTATATTT
1 TATATA-TATATTT
602814 GAAACTATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
13 24 0.44
14 12 0.22
15 14 0.25
16 5 0.09
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (14 bp):
TATATATATATTTT
Found at i:602803 original size:15 final size:15
Alignment explanation
Indices: 602776--602813 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
602766 ATTTATTAAA
*
602776 TATATTATTTTTATAT
1 TATATT-TTTTTATAC
602792 TATATTTTTTTATAC
1 TATATTTTTTTATAC
602807 TATATTT
1 TATATTT
602814 GAAACTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TATATTTTTTTATAC
Found at i:603429 original size:17 final size:17
Alignment explanation
Indices: 603409--603453 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 17
603399 ATAAAGAAAT
603409 ATATTAAAATTTATTTA
1 ATATTAAAATTTATTTA
603426 ATA-T-AAA-TTA-TTA
1 ATATTAAAATTTATTTA
603439 ATATATAAAATTTAT
1 ATAT-TAAAATTTAT
603454 ATAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 9
0.72 0.00 0.28
Matches are distributed among these distances:
13 6 0.26
14 3 0.13
15 4 0.17
16 4 0.17
17 6 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTAAAATTTATTTA
Found at i:603475 original size:26 final size:27
Alignment explanation
Indices: 603421--603515 Score: 83
Period size: 26 Copynumber: 3.6 Consensus size: 27
603411 ATTAAAATTT
603421 ATTTAATATAAATTATTAATATATAAA
1 ATTTAATATAAATTATTAATATATAAA
* *
603448 ATTT-ATATAAA-TATATAATATTTTAA
1 ATTTAATATAAATTAT-TAATATATAAA
* *
603474 ATATAAT-T--ATTATATAAAATATATAA
1 ATTTAATATAAATTAT-TAATATATA-AA
*
603500 ATATAATATAAATTAT
1 ATTTAATATAAATTAT
603516 AAAATTTACC
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
24 1 0.02
25 13 0.24
26 29 0.53
27 7 0.13
29 5 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
ATTTAATATAAATTATTAATATATAAA
Found at i:603495 original size:18 final size:17
Alignment explanation
Indices: 603425--603496 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 17
603415 AAATTTATTT
603425 AATATAA-ATTAT-TAA
1 AATATAATATTATATAA
* *
603440 TATATAAAATTTATATAA
1 AATATAATA-TTATATAA
603458 ATATATAATATT-T-T-A
1 A-ATATAATATTATATAA
603473 AATATAATTATTATATAA
1 AATATAA-TATTATATAA
603491 AATATA
1 AATATA
603497 TAAATATAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
14 6 0.13
15 12 0.26
16 3 0.07
17 6 0.13
18 12 0.26
19 7 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATAATATTATATAA
Found at i:603497 original size:20 final size:20
Alignment explanation
Indices: 603474--603521 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
603464 AATATTTTAA
*
603474 ATATAATTATTATATAAAAT
1 ATATAATTATAATATAAAAT
* *
603494 ATATAAATATAATATAAATT
1 ATATAATTATAATATAAAAT
*
603514 ATAAAATT
1 ATATAATT
603522 TACCTCGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATAATTATAATATAAAAT
Found at i:605057 original size:24 final size:25
Alignment explanation
Indices: 605030--605076 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
605020 TTATAAAAAT
*
605030 TAAAATATAATATAAA-ATATGACC
1 TAAAAAATAATATAAATATATGACC
605054 TAAAAAATAATATAAATATATGA
1 TAAAAAATAATATAAATATATGA
605077 ATATTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (25 bp):
TAAAAAATAATATAAATATATGACC
Found at i:605472 original size:20 final size:22
Alignment explanation
Indices: 605444--605488 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
605434 AGCTTTATGG
*
605444 TTTAGATTGC-TAAATTATAAT
1 TTTAGATTGCATAAATTAAAAT
*
605465 TTTA-ATTGCATAATTTAAAAT
1 TTTAGATTGCATAAATTAAAAT
605486 TTT
1 TTT
605489 TTACTTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTAGATTGCATAAATTAAAAT
Found at i:606375 original size:32 final size:33
Alignment explanation
Indices: 606315--606377 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
606305 AAATTTTATA
606315 ATTTTAAATATTATATAAATATAATTAAAATAAT
1 ATTTTAAATATTATAT-AATATAATTAAAATAAT
* * *
606349 ATTTTATATATTATAT-TTATATTTAAAAT
1 ATTTTAAATATTATATAATATAATTAAAAT
606378 TTTAATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 11 0.42
34 15 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
ATTTTAAATATTATATAATATAATTAAAATAAT
Found at i:606388 original size:17 final size:19
Alignment explanation
Indices: 606366--606408 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
606356 ATATTATATT
606366 TATATTT-A-AAATTTTAA
1 TATATTTAATAAATTTTAA
*
606383 TATATTTAATAAATTTTAT
1 TATATTTAATAAATTTTAA
606402 TATATTT
1 TATATTT
606409 CTATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 1 0.04
19 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTTAATAAATTTTAA
Found at i:606425 original size:42 final size:40
Alignment explanation
Indices: 606357--606436 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 40
606347 ATATTTTATA
*
606357 TATTATATTTATATTTAAAATTTTAATATATTTAATAAATTT
1 TATTATATTTATATTTAAAA-TTTAATA-ATATAATAAATTT
*
606399 TATTATATTTCTATTTATATAA-TTAATAATATAATAAA
1 TATTATATTTATATTTA-A-AATTTAATAATATAATAAA
606437 ATAAAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 9 0.26
42 22 0.65
43 1 0.03
44 2 0.06
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (40 bp):
TATTATATTTATATTTAAAATTTAATAATATAATAAATTT
Found at i:610298 original size:115 final size:115
Alignment explanation
Indices: 610096--610545 Score: 512
Period size: 115 Copynumber: 3.9 Consensus size: 115
610086 GACCGAACAT
* * * * * *
610096 ATAAACCGGGAAATAGTTGACAATGCTGGTTATTAAGTTGTTAATGAAACCATGAAACTAAAATC
1 ATAAACCCGGAAATACTTGGCTATGCTGATTATTAAGTTGTTAATGAAACCATGAAACTAAAATA
* *
610161 AAATGTTGTCATCTTTCTGAAAATGCAGGCATTCAAGTGGCAAGATGAAC
66 AAATGTTGTCATCTGTCTGAAAATGCAGACATTCAAGTGGCAAGATGAAC
* * * ** *
610211 ATAAACCTGGAAATACTTGGCTATGCTGGTTATTAAGTTGTAAATGAAACCATGAAACTTTAATT
1 ATAAACCCGGAAATACTTGGCTATGCTGATTATTAAGTTGTTAATGAAACCATGAAACTAAAATA
* * * * *
610276 AGATGTTGTAATCTGTCTGAAAATGCCGACATTCAAGTGGCAAGACGAAT
66 AAATGTTGTCATCTGTCTGAAAATGCAGACATTCAAGTGGCAAGATGAAC
* *** *
610326 ATAAACCCGGAAATACTTGGCTATGCTGATTATTACGTTGTTAATGGCCCCATGAAACTAGAATA
1 ATAAACCCGGAAATACTTGGCTATGCTGATTATTAAGTTGTTAATGAAACCATGAAACTAAAATA
* * **
610391 AAATGTTGTCATCTGTCTGAAAATATACAGACGTTCAAGTGGTGAGACT-AAC
66 AAATGTTGTCATCTGTCTG-AAA-ATGCAGACATTCAAGTGGCAAGA-TGAAC
* * ** *
610443 ATAAACCCGGAAATACTTGGCTATGCTGATTATTATGTTGTTGATGAAACCATGAAACTCGAATC
1 ATAAACCCGGAAATACTTGGCTATGCTGATTATTAAGTTGTTAATGAAACCATGAAACTAAAATA
* * * *
610508 AAA---CGTCATCTGTCTGACAATGCAGACACTCAGGTGGC
66 AAATGTTGTCATCTGTCTGAAAATGCAGACATTCAAGTGGC
610546 TTGACTTCAT
Statistics
Matches: 284, Mismatches: 48, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
112 14 0.05
113 2 0.01
114 12 0.04
115 172 0.61
116 3 0.01
117 81 0.29
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (115 bp):
ATAAACCCGGAAATACTTGGCTATGCTGATTATTAAGTTGTTAATGAAACCATGAAACTAAAATA
AAATGTTGTCATCTGTCTGAAAATGCAGACATTCAAGTGGCAAGATGAAC
Found at i:610882 original size:16 final size:17
Alignment explanation
Indices: 610849--610883 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
610839 TTATGTGTTA
610849 TAAATTATAATGATATT
1 TAAATTATAATGATATT
*
610866 TAAATTATTAT-ATATT
1 TAAATTATAATGATATT
610882 TA
1 TA
610884 TATAAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TAAATTATAATGATATT
Found at i:611792 original size:14 final size:14
Alignment explanation
Indices: 611754--611794 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
611744 ATGTTATTTC
*
611754 TATATATTATA-AT
1 TATATATTAAATAT
611767 TATA-ATTAAAATAT
1 TATATATT-AAATAT
611781 TATATATTAAATAT
1 TATATATTAAATAT
611795 AAATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 3 0.12
13 6 0.25
14 12 0.50
15 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATATTAAATAT
Found at i:611798 original size:20 final size:20
Alignment explanation
Indices: 611757--611811 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
611747 TTATTTCTAT
611757 ATATTATA-ATTATAATTAAA
1 ATATTATATATTA-AATTAAA
611777 ATATTATATATTAAA-TATAA
1 ATATTATATATTAAATTA-AA
*
611797 ATTTTAATATATTAA
1 ATATT-ATATATTAA
611812 TAATTTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 2 0.06
20 16 0.52
21 13 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTATATATTAAATTAAA
Found at i:612305 original size:16 final size:16
Alignment explanation
Indices: 612279--612315 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
612269 TTTTATATAT
*
612279 ATTATAAATAAAAAAA
1 ATTAAAAATAAAAAAA
*
612295 TTTAAAAATAAAAAAA
1 ATTAAAAATAAAAAAA
612311 ATTAA
1 ATTAA
612316 TTTTTAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATTAAAAATAAAAAAA
Found at i:612351 original size:39 final size:37
Alignment explanation
Indices: 612297--612382 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 37
612287 TAAAAAAATT
* * *
612297 TAAAAATAAAAAAAATT-AATTTTTAATATTTTTAATTTA
1 TAAAAATTATAAAATTTAAATTTTTAAT-TTTTT-A-TTA
612336 TAAAATATTATAAAATTTAAATTTTTAATTTTTTATTA
1 TAAAA-ATTATAAAATTTAAATTTTTAATTTTTTATTA
612374 TAAAAATTA
1 TAAAAATTA
612383 CTTATTTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
37 4 0.10
38 8 0.19
39 6 0.14
40 14 0.33
41 10 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
TAAAAATTATAAAATTTAAATTTTTAATTTTTTATTA
Found at i:616128 original size:21 final size:21
Alignment explanation
Indices: 616104--616146 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
616094 TATATTATTA
*
616104 ATTAAATA-AATTTAAAAATAT
1 ATTAAATATAA-TAAAAAATAT
*
616125 ATTATATATAATAAAAAATAT
1 ATTAAATATAATAAAAAATAT
616146 A
1 A
616147 AATATAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTAAATATAATAAAAAATAT
Found at i:616358 original size:22 final size:21
Alignment explanation
Indices: 616333--616396 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
616323 ATATCATATT
616333 AAATATAATTATTAATATAAAA
1 AAATATAA-TATTAATATAAAA
*
616355 AAAT-TAA-AATAATATAAATA
1 AAATATAATATTAATATAAA-A
* *
616375 AAAAATAATATAAATATAAAA
1 AAATATAATATTAATATAAAA
616396 A
1 A
616397 TTATATATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 10 0.29
20 4 0.11
21 8 0.23
22 13 0.37
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATATAATATTAATATAAAA
Found at i:616367 original size:19 final size:19
Alignment explanation
Indices: 616345--616396 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
616335 ATATAATTAT
*
616345 TAATATAAAAAAATTAAAA
1 TAATATAAAAAAAATAAAA
*
616364 TAATATAAATAAAAAATAATA
1 TAATAT-AA-AAAAAATAAAA
616385 TAAATATAAAAA
1 T-AATATAAAAA
616397 TTATATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 5 0.18
21 12 0.43
22 5 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
TAATATAAAAAAAATAAAA
Found at i:616435 original size:18 final size:18
Alignment explanation
Indices: 616366--616464 Score: 84
Period size: 16 Copynumber: 5.6 Consensus size: 18
616356 AATTAAAATA
*
616366 ATATAAATA-AAAAA-TA
1 ATATAAATATAAAAATTT
616382 ATATAAATATAAAAATTAT
1 ATATAAATATAAAAATT-T
*
616401 ATATAAATTTATCAAAATTT
1 ATATAAA--TATAAAAATTT
616421 ATATAACATA-AAAAA-TT
1 ATATAA-ATATAAAAATTT
* *
616438 A-AT-TATATTAAAATTT
1 ATATAAATATAAAAATTT
616454 ATATAAATATA
1 ATATAAATATA
616465 TTATTTTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
14 3 0.05
15 4 0.06
16 14 0.21
17 10 0.15
18 9 0.14
19 9 0.14
20 7 0.11
21 10 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAATATAAAAATTT
Found at i:621594 original size:36 final size:37
Alignment explanation
Indices: 621554--621626 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 37
621544 ACTAAACTAT
621554 TTATTTTTATATTATAAAAATTAAAAA-TATTGAAAA
1 TTATTTTTATATTATAAAAATTAAAAACTATTGAAAA
*
621590 TTATTTTTATATTATAAAAATTAAAAACTTTTGAAAA
1 TTATTTTTATATTATAAAAATTAAAAACTATTGAAAA
621627 AAAAATCTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 27 0.77
37 8 0.23
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (37 bp):
TTATTTTTATATTATAAAAATTAAAAACTATTGAAAA
Found at i:622170 original size:15 final size:15
Alignment explanation
Indices: 622152--622197 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
622142 TCCACGAAAA
*
622152 CCACCACCACTACCT
1 CCACCACCACCACCT
*
622167 CCACGACCACCACCT
1 CCACCACCACCACCT
* *
622182 CTACCGCCACCACCT
1 CCACCACCACCACCT
622197 C
1 C
622198 TGCCTCCTCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.24, C:0.61, G:0.04, T:0.11
Consensus pattern (15 bp):
CCACCACCACCACCT
Found at i:622175 original size:21 final size:21
Alignment explanation
Indices: 622151--622191 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
622141 TTCCACGAAA
*
622151 ACCACCACCACTACCTCCACG
1 ACCACCACCACTACCGCCACG
*
622172 ACCACCACCTCTACCGCCAC
1 ACCACCACCACTACCGCCAC
622192 CACCTCTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.59, G:0.05, T:0.10
Consensus pattern (21 bp):
ACCACCACCACTACCGCCACG
Found at i:622393 original size:27 final size:28
Alignment explanation
Indices: 622353--622409 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
622343 AAATGATTCC
*
622353 AAAACATAACGCTAAACATCGGGAAAAA
1 AAAACATAACGCTAAACATCCGGAAAAA
*
622381 AAAACAT-ATGCTAAACATCCGGAAAAA
1 AAAACATAACGCTAAACATCCGGAAAAA
622408 AA
1 AA
622410 TGCTAAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (28 bp):
AAAACATAACGCTAAACATCCGGAAAAA
Found at i:622407 original size:28 final size:28
Alignment explanation
Indices: 622353--622409 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
622343 AAATGATTCC
*
622353 AAAACATAACGCTAAACATCGGGAAAAA
1 AAAACATAACGCTAAACATCGGAAAAAA
*
622381 AAAACAT-ATGCTAAACATCCGGAAAAAA
1 AAAACATAACGCTAAACAT-CGGAAAAAA
622409 A
1 A
622410 TGCTAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (28 bp):
AAAACATAACGCTAAACATCGGAAAAAA
Found at i:624108 original size:29 final size:29
Alignment explanation
Indices: 624076--624153 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
624066 ACTCTAATCA
624076 AATTTAAATTAATATTTAATAAT-AAATAT
1 AATTTAAATTAA-ATTTAATAATAAAATAT
* * *
624105 AATTTTATTTAAATTTAATTATAAAATAT
1 AATTTAAATTAAATTTAATAATAAAATAT
*
624134 -ATAATAAATATAAATTTAAT
1 AAT-TTAAAT-TAAATTTAAT
624154 TTTTATTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 11 0.28
29 19 0.47
30 10 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AATTTAAATTAAATTTAATAATAAAATAT
Found at i:624120 original size:40 final size:40
Alignment explanation
Indices: 624075--624151 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
624065 TACTCTAATC
* * *
624075 AAATTTAAAT-TAATATTTAATAATAAATATAATTTTATTT
1 AAATTTAAATATAAAATAT-ATAATAAATATAAATTTATTT
*
624115 AAATTTAATTATAAAATATATAATAAATATAAATTTA
1 AAATTTAAATATAAAATATATAATAAATATAAATTTA
624152 ATTTTTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 26 0.81
41 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (40 bp):
AAATTTAAATATAAAATATATAATAAATATAAATTTATTT
Found at i:624244 original size:18 final size:18
Alignment explanation
Indices: 624221--624255 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
624211 AAATAAAAAA
624221 AAATTTTAAATTTTAATC
1 AAATTTTAAATTTTAATC
624239 AAATTTTAAATTTTAAT
1 AAATTTTAAATTTTAAT
624256 TTAACTCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATTTTAAATTTTAATC
Found at i:624272 original size:24 final size:25
Alignment explanation
Indices: 624221--624273 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
624211 AAATAAAAAA
*
624221 AAATTTTAAATTTTAATCAAATTTT
1 AAATTTTAAATTTTAATCAAATTAT
*
624246 AAATTTT-AA-TTTAACTCAACTTAT
1 AAATTTTAAATTTTAA-TCAAATTAT
624270 AAAT
1 AAAT
624274 ATTTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 13 0.52
25 7 0.28
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATTTTAAATTTTAATCAAATTAT
Found at i:624732 original size:19 final size:20
Alignment explanation
Indices: 624698--624741 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
624688 TTTTTATATT
624698 TAAAAAATAAATAAATCATA
1 TAAAAAATAAATAAATCATA
* *
624718 TAAAAAATTAA-AAATTATA
1 TAAAAAATAAATAAATCATA
624737 TAAAA
1 TAAAA
624742 TTTAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAAAATAAATAAATCATA
Found at i:628842 original size:15 final size:16
Alignment explanation
Indices: 628819--628851 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
628809 AATAATTAAA
628819 ATAAATTTTT-ATTTG
1 ATAAATTTTTAATTTG
*
628834 ATAATTTTTTAATTTG
1 ATAAATTTTTAATTTG
628850 AT
1 AT
628852 TATGGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
ATAAATTTTTAATTTG
Found at i:633998 original size:2 final size:2
Alignment explanation
Indices: 633991--634018 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
633981 ATTTAGTTTC
633991 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
634019 TAAAAATAAA
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:634039 original size:194 final size:191
Alignment explanation
Indices: 633644--633997 Score: 453
Period size: 194 Copynumber: 1.8 Consensus size: 191
633634 GATTCAGTAC
* * * * *
633644 TAATGTTTTATGGTATTGAATCAACAGGGCTAAGATCTGAAAAGTGAAGTTAATAAGCATTGGTT
1 TAATTTTTTACGGTACTGAATCAACAGAGCTAAGATCTGAAAACTGAAGTTAATAAGCATTGGTT
* * * *
633709 GGCACCCTTAGTTGCATATGCTTGTCCGAGTTCATGTAGTTGAATATTAATTAAAAAATAATGTC
66 GACACCCTTAGCTACATATGCTTGTCCGAGTTCATGTAGTTGAATATTAATTAAAAAACAATGTC
* *
633774 AACCCAAGATTTAGTTTCATATGTACATTAAAAATAAAAAAAATAAAAAAATAATTTAATTTAAT
131 AACCCAAGATTTAGTTTCATATATACATTAAAAATAAAAAAAATAAAAAAATAA--TAA--TAAA
* *
633839 TAATTTTTTACGGTACTGAATCAA-TGAGCTAAGATCTGAAAACTGAAGTTAATGAGCATT-GTT
1 TAATTTTTTACGGTACTGAATCAACAGAGCTAAGATCTGAAAACTGAAGTTAATAAGCATTGGTT
* *
633902 CGACACCCTTTGCTACATATGCTTGTCCGAGTTCATGTAG-TGAATATTAGTTAAAAAAACAAAA
66 -GACACCCTTAGCTACATATGCTTGTCCGAGTTCATGTAGTTGAATATTAATT-----AA-AAAA
633966 CAATGTCAACCCAAGATTTAGTTTCATATATA
124 CAATGTCAACCCAAGATTTAGTTTCATATATA
633998 TATATATATA
Statistics
Matches: 138, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
193 14 0.10
194 67 0.49
195 21 0.15
198 2 0.01
199 34 0.25
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (191 bp):
TAATTTTTTACGGTACTGAATCAACAGAGCTAAGATCTGAAAACTGAAGTTAATAAGCATTGGTT
GACACCCTTAGCTACATATGCTTGTCCGAGTTCATGTAGTTGAATATTAATTAAAAAACAATGTC
AACCCAAGATTTAGTTTCATATATACATTAAAAATAAAAAAAATAAAAAAATAATAATAAA
Found at i:634073 original size:23 final size:22
Alignment explanation
Indices: 634047--634100 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
634037 TTTAAATTTA
634047 ATTTAATTAATTTATATAATTAT
1 ATTTAATTAATTTA-ATAATTAT
** *
634070 ATTTAAAAAATTTAATATTTAT
1 ATTTAATTAATTTAATAATTAT
634092 ATTTTAATT
1 A-TTTAATT
634101 CGTAATGGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTAATTAATTTAATAATTAT
Found at i:634449 original size:11 final size:11
Alignment explanation
Indices: 634410--634435 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
634400 ATTAAAAATT
634410 ATATATATTTA
1 ATATATATTTA
634421 ATATATATTTA
1 ATATATATTTA
634432 ATAT
1 ATAT
634436 TAATATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATATATTTA
Found at i:634464 original size:21 final size:21
Alignment explanation
Indices: 634431--634472 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
634421 ATATATATTT
*
634431 AATATTAATA-TTTATTTAAA
1 AATATTAAAATTTTATTTAAA
634451 AATATTTAAAATTTTATTTAAA
1 AATA-TTAAAATTTTATTTAAA
634473 TAAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 5 0.26
22 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTAAAATTTTATTTAAA
Found at i:634524 original size:7 final size:7
Alignment explanation
Indices: 634514--634541 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
634504 AATTTCATAA
634514 TTTAATT
1 TTTAATT
634521 TTTAATT
1 TTTAATT
634528 TTTAATT
1 TTTAATT
634535 TTTAATT
1 TTTAATT
634542 CGGTTATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTAATT
Found at i:639014 original size:28 final size:28
Alignment explanation
Indices: 638940--639029 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 28
638930 GTATACGTTA
*
638940 ATATTATTTAAATTC-AGATTTAAATATG
1 ATATTATTTAGATTCGA-ATTTAAATATG
638968 ATATTATTTGGATTTGATTCGAATTTAAATATG
1 ATATTATTT--A---GATTCGAATTTAAATATG
* *
639001 ATATTATTTAGATTCGGATTCAAATATG
1 ATATTATTTAGATTCGAATTTAAATATG
639029 A
1 A
639030 ATAGTCTATG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
28 26 0.49
30 1 0.02
31 1 0.02
33 24 0.45
34 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (28 bp):
ATATTATTTAGATTCGAATTTAAATATG
Found at i:645036 original size:2 final size:2
Alignment explanation
Indices: 645029--645060 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
645019 TTAAACATCC
645029 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
645061 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:645711 original size:2 final size:2
Alignment explanation
Indices: 645704--645748 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
645694 AACTATATTT
*
645704 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
645746 TA T
1 TA T
645749 CTCGTGAGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:646989 original size:48 final size:51
Alignment explanation
Indices: 646915--647031 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 51
646905 CCTGATAAAA
*
646915 AATT-AAATAATTTATTCTATTCAAA-TTAATT-TAAAT-T-TAAATATTATT
1 AATTAAAATAATTT-TTCTATTCAAATTTAATTAAAAATATATAAATA-TATT
*
646963 AATTAAAATAATATTTT-TATTTAAATTTAATTAAAAATATATAAATATATT
1 AATTAAAATAAT-TTTTCTATTCAAATTTAATTAAAAATATATAAATATATT
647014 AATATAAAAATAATTTTT
1 AAT-T-AAAATAATTTTT
647032 AAATATTTCA
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
48 11 0.19
49 15 0.25
50 6 0.10
51 8 0.14
52 11 0.19
53 8 0.14
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (51 bp):
AATTAAAATAATTTTTCTATTCAAATTTAATTAAAAATATATAAATATATT
Found at i:647256 original size:11 final size:11
Alignment explanation
Indices: 647240--647384 Score: 60
Period size: 11 Copynumber: 13.9 Consensus size: 11
647230 AACAATTTAT
*
647240 ATATTTATATC
1 ATATTTATATA
*
647251 ATATTTATATT
1 ATATTTATATA
*
647262 ATTTTTATATA
1 ATATTTATATA
647273 ATA---AT-T-
1 ATATTTATATA
*
647279 ATATTTAAATA
1 ATATTTATATA
* *
647290 TTATATATATA
1 ATATTTATATA
*
647301 AAATTTGATATA
1 ATATTT-ATATA
* * * *
647313 ATAATAATTTG
1 ATATTTATATA
647324 A-A-TTATATA
1 ATATTTATATA
647333 A-ATTT-TA-A
1 ATATTTATATA
*
647341 TATATTTATATT
1 -ATATTTATATA
647353 ATATTTATATA
1 ATATTTATATA
*
647364 AT-TTTTTATA
1 ATATTTATATA
*
647374 TTATATTATAT
1 ATAT-TTATAT
647385 TTTAATTTTT
Statistics
Matches: 97, Mismatches: 24, Indels: 25
0.66 0.16 0.17
Matches are distributed among these distances:
6 3 0.03
7 1 0.01
8 3 0.03
9 10 0.10
10 16 0.16
11 51 0.53
12 13 0.13
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
ATATTTATATA
Found at i:647330 original size:18 final size:16
Alignment explanation
Indices: 647292--647345 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
647282 TTTAAATATT
647292 ATATATATAAAATTTG
1 ATATATATAAAATTTG
647308 ATATA-ATAATAATTTG
1 ATATATATAA-AATTTG
* *
647324 A-ATTATATAAATTTTA
1 ATA-TATATAAAATTTG
647340 ATATAT
1 ATATAT
647346 TTATATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 5 0.16
16 22 0.69
17 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (16 bp):
ATATATATAAAATTTG
Found at i:647353 original size:25 final size:23
Alignment explanation
Indices: 647325--647404 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
647315 AATAATTTGA
*
647325 ATTATATAAATTTTAATATATTTAT
1 ATTATATATATTTTAAT-T-TTTAT
* *
647350 ATTATATTTA-TATAATTTTTTAT
1 ATTATATATATTTTAA-TTTTTAT
647373 ATTATATTATATTTTAATTTTT-T
1 ATTATA-TATATTTTAATTTTTAT
647396 ATTATATAT
1 ATTATATAT
647405 TTATATTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
22 3 0.06
23 18 0.38
24 13 0.28
25 13 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTATATATATTTTAATTTTTAT
Found at i:647371 original size:23 final size:23
Alignment explanation
Indices: 647345--647410 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 23
647335 TTTTAATATA
647345 TTTATATTATATTTATATAATTT
1 TTTATATTATATTTATATAATTT
*
647368 TTTATATTATATTATATTTTAATTT
1 TTTATATTATATT-TA-TATAATTT
647393 TTTAT-TATATATTTATAT
1 TTTATAT-TATATTTATAT
647411 TTAAAATTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 15 0.39
24 5 0.13
25 18 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTATATTATATTTATATAATTT
Found at i:647405 original size:25 final size:26
Alignment explanation
Indices: 647343--647418 Score: 86
Period size: 25 Copynumber: 2.9 Consensus size: 26
647333 AATTTTAATA
647343 TATT-TATATTATATTTATATAATTTTT
1 TATTATATATTATA-TT-TATAATTTTT
647370 TA-TATTATATTATATTT-TAATTTTT
1 TATTA-TATATTATATTTATAATTTTT
*
647395 TATTATATATTTATATTTAAAATT
1 TATTATATA-TTATATTTATAATT
647419 ACAAAATTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
25 14 0.33
26 12 0.28
27 8 0.19
28 9 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTATATATTATATTTATAATTTTT
Found at i:647698 original size:13 final size:13
Alignment explanation
Indices: 647680--647704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
647670 ATTAAAATTA
647680 ATATTAATAATAT
1 ATATTAATAATAT
647693 ATATTAATAATA
1 ATATTAATAATA
647705 AATAAAATTA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTAATAATAT
Found at i:647698 original size:35 final size:36
Alignment explanation
Indices: 647650--647732 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 36
647640 TATAAAATAC
* *
647650 AATAAGTAT-TATTATAT-TTAATTAAAATTAATATT
1 AATAA-TATATATTATATAATAAATAAAATTAATATT
647685 AATAATATATATTA-ATAATAAATAAAATTAATATT
1 AATAATATATATTATATAATAAATAAAATTAATATT
*
647720 -ATAAAATA-ATTAT
1 AATAATATATATTAT
647733 TATCATATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 4 0.10
34 12 0.29
35 26 0.62
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (36 bp):
AATAATATATATTATATAATAAATAAAATTAATATT
Found at i:647700 original size:29 final size:30
Alignment explanation
Indices: 647662--647731 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
647652 TAAGTATTAT
* *
647662 TATAT-TTAATTAA-AATTAATATTAATAA
1 TATATATTAATTAATAAATAAAATTAATAA
*
647690 TATATATTAA-TAATAAATAAAATTAATAT
1 TATATATTAATTAATAAATAAAATTAATAA
* *
647719 TATAAAATAATTA
1 TATATATTAATTA
647732 TTATCATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 8 0.24
29 24 0.71
30 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
TATATATTAATTAATAAATAAAATTAATAA
Found at i:648195 original size:19 final size:21
Alignment explanation
Indices: 648157--648206 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 21
648147 TATGTGTTAT
*
648157 AAATATGATATTAAAAAAATTA
1 AAATATGATATT-AAAAAATAA
648179 AAATATGATA-T-AAAAATAA
1 AAATATGATATTAAAAAATAA
648198 AAATATGAT
1 AAATATGAT
648207 TAGAGTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.59
21 1 0.04
22 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (21 bp):
AAATATGATATTAAAAAATAA
Found at i:648260 original size:31 final size:30
Alignment explanation
Indices: 648225--648406 Score: 96
Period size: 31 Copynumber: 6.0 Consensus size: 30
648215 ATAAATCTAT
648225 TAAAATTTATAT-AATATAAATTATTAATATA
1 TAAAATTTATATAAATATAAATT-TTAA-ATA
*
648256 TAAAATTTATATAAATATATATTTTAAATA
1 TAAAATTTATATAAATATAAATTTTAAATA
* * *
648286 TAATA-TTATA-AAATACATAAATTAATAAATT
1 TAAAATTTATATAAAT--ATAAATT-TTAAATA
*
648317 TAAAA---A-AT-AATATAAA--TAAAATA
1 TAAAATTTATATAAATATAAATTTTAAATA
* * * *
648340 TCAAATTAATAAATATATATAAATTATAAATA
1 TAAAATT--TATATAAATATAAATTTTAAATA
*
648372 CGTAAAAATTATATAAATATATAATATATTAAATA
1 --TAAAATTTATATAAATATA-AAT-T-TTAAATA
648407 CGATTGTAAT
Statistics
Matches: 114, Mismatches: 18, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
23 8 0.07
26 5 0.04
28 9 0.08
29 8 0.07
30 20 0.18
31 25 0.22
32 24 0.21
33 3 0.03
34 6 0.05
35 6 0.05
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.39
Consensus pattern (30 bp):
TAAAATTTATATAAATATAAATTTTAAATA
Found at i:648273 original size:17 final size:17
Alignment explanation
Indices: 648225--648274 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
648215 ATAAATCTAT
648225 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
648241 T-AAA-TTAT-TAATATA
1 TAAAATTTATATAA-ATA
648256 TAAAATTTATATAAATA
1 TAAAATTTATATAAATA
648273 TA
1 TA
648275 TATTTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.03
14 5 0.17
15 7 0.24
16 4 0.14
17 9 0.31
18 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:648283 original size:13 final size:14
Alignment explanation
Indices: 648265--648297 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
648255 ATAAAATTTA
648265 TATAAATAT-ATAT
1 TATAAATATAATAT
*
648278 TTTAAATATAATAT
1 TATAAATATAATAT
648292 TATAAA
1 TATAAA
648298 ATACATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATAAATATAATAT
Found at i:648286 original size:32 final size:33
Alignment explanation
Indices: 648216--648287 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
648206 TTAGAGTATA
*
648216 TAAATCTATTAAAATTTATATAATATAAATTAT
1 TAAATATATTAAAATTTATATAATATAAATTAT
*
648249 T-AATATA-TAAAATTTATATAAATATATATT-T
1 TAAATATATTAAAATTTATAT-AATATAAATTAT
648280 TAAATATA
1 TAAATATA
648288 ATATTATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 14 0.40
32 20 0.57
33 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (33 bp):
TAAATATATTAAAATTTATATAATATAAATTAT
Found at i:648368 original size:17 final size:17
Alignment explanation
Indices: 648233--648395 Score: 90
Period size: 17 Copynumber: 9.6 Consensus size: 17
648223 ATTAAAATTT
*
648233 ATATAATATAAATTATTA
1 ATAT-ATATAAATTATAA
*
648251 ATATATA-AAATT-TAT
1 ATATATATAAATTATAA
* * *
648266 ATAAATATATATTTTAA
1 ATATATATAAATTATAA
648283 ATATA-AT--ATTATAA
1 ATATATATAAATTATAA
*
648297 A-ATACATAAATTAATAA
1 ATATATATAAATT-ATAA
* *
648314 ATTTA-AAAAATAATATAA
1 ATATATATAAAT--TATAA
*
648332 ATAAAATATCAAATTAATAA
1 AT-ATATAT-AAATT-ATAA
648352 ATATATATAAATTATAA
1 ATATATATAAATTATAA
** *
648369 ATACGTAAAAATTATATA
1 ATATATATAAATTATA-A
648387 A-ATATATAA
1 ATATATATAA
648396 TATATTAAAT
Statistics
Matches: 112, Mismatches: 19, Indels: 29
0.70 0.12 0.18
Matches are distributed among these distances:
13 3 0.03
14 9 0.08
15 7 0.06
16 14 0.12
17 41 0.37
18 19 0.17
19 8 0.07
20 7 0.06
21 4 0.04
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.38
Consensus pattern (17 bp):
ATATATATAAATTATAA
Found at i:648716 original size:27 final size:25
Alignment explanation
Indices: 648663--648719 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 25
648653 TATTTATCAT
* *
648663 TAATATTTATTGTAATTAATTATGA
1 TAATATTTATTATAAATAATTATGA
648688 TAATATTTATTATATTAATAATTATGA
1 TAATATTTATTATA--AATAATTATGA
648715 TAATA
1 TAATA
648720 ATGATATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 13 0.46
27 15 0.54
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (25 bp):
TAATATTTATTATAAATAATTATGA
Found at i:649693 original size:18 final size:17
Alignment explanation
Indices: 649670--649715 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
649660 AAATTATTAA
649670 ATAATAATTATAATATTT
1 ATAATAATTATAATA-TT
* *
649688 ATAATAAATATTATATT
1 ATAATAATTATAATATT
*
649705 ATAATTATTAT
1 ATAATAATTAT
649716 TTAAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAATAATTATAATATT
Found at i:649943 original size:2 final size:2
Alignment explanation
Indices: 649936--649980 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
649926 TTAAATTCTT
649936 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
649978 AC A
1 AC A
649981 TATATATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:649985 original size:2 final size:2
Alignment explanation
Indices: 649980--650008 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
649970 ACACACACAC
649980 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 A
650009 AGCAGTAGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.