Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold78
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: 2238306
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 23262 characters in sequence are not A, C, G, or T
File 3 of 15
Found at i:351178 original size:24 final size:25
Alignment explanation
Indices: 351122--351182 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
351112 TTACTTTGTA
*
351122 TTTGTCAAAAATGATGGTTCCTTTTTG
1 TTTGTCAAAAATGATGG-T-CTTGTTG
*
351149 TTTGTCAAAAATTATGG-CTTGTTG
1 TTTGTCAAAAATGATGGTCTTGTTG
351173 TTTGTCAAAA
1 TTTGTCAAAA
351183 TTGGTGACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 16 0.50
27 16 0.50
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (25 bp):
TTTGTCAAAAATGATGGTCTTGTTG
Found at i:353411 original size:22 final size:19
Alignment explanation
Indices: 353380--353421 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
353370 TATTTTTATT
353380 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAA-ATA
353401 TAAATATTAATATAAAAATA
1 TAAAT-TTAATATAAAAATA
353421 T
1 T
353422 TTTTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATTTAATATAAAAATA
Found at i:354948 original size:16 final size:18
Alignment explanation
Indices: 354920--354956 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
354910 AATACGATTT
354920 TTTAAATAAATAAATA-A
1 TTTAAATAAATAAATATA
354937 TTTAAA-AAATAAATATA
1 TTTAAATAAATAAATATA
354954 TTT
1 TTT
354957 GTATTACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTAAATAAATAAATATA
Found at i:357253 original size:16 final size:16
Alignment explanation
Indices: 357234--357363 Score: 63
Period size: 16 Copynumber: 8.9 Consensus size: 16
357224 AAATAATTAG
357234 AATATAATATAATATA
1 AATATAATATAATATA
*
357250 AATAT-AT-T-TTA-A
1 AATATAATATAATATA
*
357262 AAT-TTATATAATATA
1 AATATAATATAATATA
357277 AAT-T-AT-TAATAT-
1 AATATAATATAATATA
* * *
357289 ATTAAAAT-TTATATA
1 AATATAATATAATATA
* * *
357304 AATATAAAATATTTTA
1 AATATAATATAATATA
*
357320 AATATAATTATGATAT-
1 AATATAA-TATAATATA
357336 AATA-AA-AT-ATATA
1 AATATAATATAATATA
357349 AATATAATACTAATA
1 AATATAATA-TAATA
357364 CAAAAATTAT
Statistics
Matches: 85, Mismatches: 15, Indels: 27
0.67 0.12 0.21
Matches are distributed among these distances:
11 1 0.01
12 12 0.14
13 15 0.18
14 14 0.16
15 15 0.18
16 21 0.25
17 7 0.08
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (16 bp):
AATATAATATAATATA
Found at i:357275 original size:27 final size:27
Alignment explanation
Indices: 357240--357321 Score: 103
Period size: 27 Copynumber: 2.9 Consensus size: 27
357230 TTAGAATATA
357240 ATATAATATAAATATATTTTAAAATTT
1 ATATAATATAAATATATTTTAAAATTT
357267 ATATAATATAAATTATTAATATATTAAAATTT
1 ATATAATATAAA-TA-T-AT-T-TTAAAATTT
357299 ATATAAATATAAA-ATATTTTAAA
1 ATAT-AATATAAATATATTTTAAA
357322 TATAATTATG
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
27 17 0.35
28 3 0.06
29 3 0.06
30 3 0.06
31 2 0.04
32 13 0.27
33 8 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
ATATAATATAAATATATTTTAAAATTT
Found at i:357276 original size:32 final size:31
Alignment explanation
Indices: 357235--357310 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 31
357225 AATAATTAGA
357235 ATATAATATAA-TATAAATATATTTTAAAATTT
1 ATATAATATAATTATAAATATA--TTAAAATTT
*
357267 ATATAATATAAATTATTAATATATTAAAATTT
1 ATATAATAT-AATTATAAATATATTAAAATTT
357299 ATATAAATATAA
1 ATAT-AATATAA
357311 AATATTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
32 24 0.60
33 7 0.17
34 9 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
ATATAATATAATTATAAATATATTAAAATTT
Found at i:357300 original size:18 final size:17
Alignment explanation
Indices: 357259--357326 Score: 67
Period size: 16 Copynumber: 4.2 Consensus size: 17
357249 AAATATATTT
357259 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
357275 T-AAA-TTAT-TAATATA
1 TAAAATTTATATAA-ATA
357290 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
357308 TAAAATATT-T-TAAATA
1 TAAAAT-TTATATAAATA
357324 TAA
1 TAA
357327 TTATGATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.02
14 5 0.11
15 6 0.13
16 11 0.24
17 10 0.22
18 9 0.20
19 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:359502 original size:13 final size:13
Alignment explanation
Indices: 359467--359492 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
359457 CGCTTATATT
359467 ATATATTTTTTAA
1 ATATATTTTTTAA
359480 ATATATTTTTTAA
1 ATATATTTTTTAA
359493 CTTAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATATTTTTTAA
Found at i:359633 original size:20 final size:19
Alignment explanation
Indices: 359610--359660 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
359600 AACTAGTAAA
359610 ATAAAATTATAACTATTATT
1 ATAAAATTATAACTA-TATT
*
359630 ATAAAATATATAATTATATT
1 ATAAAAT-TATAACTATATT
* *
359650 CTAAAAATATA
1 ATAAAATTATA
359661 GATTTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.15
20 16 0.59
21 7 0.26
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAAATTATAACTATATT
Found at i:361698 original size:55 final size:55
Alignment explanation
Indices: 361637--361740 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 55
361627 AAAAATTAGA
*
361637 TCTGAATTTATCACACATTAATATAAATATCATATTCAAAACTTAAATTTAATTT
1 TCTGAATTTAGCACACATTAATATAAATATCATATTCAAAACTTAAATTTAATTT
** * * *
361692 TCTGAATTTAGCGTATATTAATATAAATATCATGTTCAAAATTTAAATT
1 TCTGAATTTAGCACACATTAATATAAATATCATATTCAAAACTTAAATT
361741 CAAATTTCGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (55 bp):
TCTGAATTTAGCACACATTAATATAAATATCATATTCAAAACTTAAATTTAATTT
Found at i:364779 original size:50 final size:50
Alignment explanation
Indices: 364712--364906 Score: 300
Period size: 50 Copynumber: 3.9 Consensus size: 50
364702 ATACTTAGAG
* * * * *
364712 TCAATAATTATGGCCACCTCCCTTTATTGTCAAAGATTGGTAAAGAATCA
1 TCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATCA
* *
364762 TCAACAATTATGACCACCTCCCTCTATTATCAAAGGTTGGTGAAGAATCG
1 TCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATCA
* *
364812 TCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCA
1 TCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATCA
*
364862 TCAACAATTATGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAG
1 TCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTGAAG
364907 GATAGTCAAT
Statistics
Matches: 133, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 133 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (50 bp):
TCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATCA
Found at i:364887 original size:100 final size:100
Alignment explanation
Indices: 364710--364915 Score: 331
Period size: 100 Copynumber: 2.1 Consensus size: 100
364700 ATATACTTAG
* *
364710 AGTCAATAATTATGGCCACCTCCCTTTATTGTCAAAGATTGGTAAAGAATCATCAACAATTATGA
1 AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGATTGGTAAAGAATCATCAACAATTATGA
364775 CCACCTCCCTCTATTATCAAAGGTTGGTGAAGAAT
66 CCACCTCCCTCTATTATCAAAGGTTGGTGAAGAAT
* * * *
364810 CGTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCATCAACAATTATGA
1 AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGATTGGTAAAGAATCATCAACAATTATGA
* * *
364875 CCACCTCTCTCTATTGTCAAAGGTTGGTGAAGGAT
66 CCACCTCCCTCTATTATCAAAGGTTGGTGAAGAAT
364910 AGTCAA
1 AGTCAA
364916 TAATGGCAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (100 bp):
AGTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGATTGGTAAAGAATCATCAACAATTATGA
CCACCTCCCTCTATTATCAAAGGTTGGTGAAGAAT
Found at i:369197 original size:19 final size:19
Alignment explanation
Indices: 369142--369197 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
369132 ACAGTAACCG
* *
369142 TATACGTGAATAGTGCCCA
1 TATACGTGAATAGTACCTA
* *
369161 TATACGTGAACAATACCTA
1 TATACGTGAATAGTACCTA
*
369180 TATACGTAAATAGTACCT
1 TATACGTGAATAGTACCT
369198 CGACAACCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (19 bp):
TATACGTGAATAGTACCTA
Found at i:369511 original size:50 final size:50
Alignment explanation
Indices: 369451--369655 Score: 311
Period size: 50 Copynumber: 4.1 Consensus size: 50
369441 TATACTTAGA
* *
369451 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAATAATC
1 GTCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
369501 GTCAATAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
1 GTCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
369551 GTCAACAATTATGATCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * *
369601 GTCAACAATTATGACCACCTCTCTTTATTGTCAAAGGTTTGTGAAGAATA
1 GTCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
369651 GTCAA
1 GTCAA
369656 TAATGGCAAC
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 143 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (50 bp):
GTCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:369713 original size:22 final size:20
Alignment explanation
Indices: 369683--369722 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
369673 TACCTATTTA
369683 ATTAACAATATTATTATTTGT
1 ATTAACAATATTA-TATTTGT
369704 ATTATACAATATTATATTT
1 ATTA-ACAATATTATATTT
369723 AATTATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTAACAATATTATATTTGT
Found at i:370583 original size:16 final size:16
Alignment explanation
Indices: 370564--370618 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
370554 TATGATTATA
*
370564 AAAATTTGTAATTTTT
1 AAAATTTATAATTTTT
*
370580 AAAATTTATAATTGTTAA
1 AAAATTTATAATT-TT-T
*
370598 AAAATTTATTATTTTT
1 AAAATTTATAATTTTT
370614 AAAAT
1 AAAAT
370619 CTGTGATTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 17 0.52
17 4 0.12
18 12 0.36
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
AAAATTTATAATTTTT
Found at i:370603 original size:18 final size:17
Alignment explanation
Indices: 370563--370617 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
370553 CTATGATTAT
*
370563 AAAAATTTGTAATTTT-
1 AAAAATTTATAATTTTA
*
370579 TAAAATTTATAATTGTTA
1 AAAAATTTATAATT-TTA
*
370597 AAAAATTTATTATTTTTA
1 AAAAATTTA-TAATTTTA
370615 AAA
1 AAA
370618 TCTGTGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.38
17 2 0.06
18 14 0.44
19 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
AAAAATTTATAATTTTA
Found at i:371789 original size:27 final size:27
Alignment explanation
Indices: 371759--371811 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
371749 CTGTGCCGTC
* *
371759 AATTTTGACATTCAATTTGAAATAGTA
1 AATTATGAAATTCAATTTGAAATAGTA
371786 AATTATGAAATTCAATTTGAAATAGT
1 AATTATGAAATTCAATTTGAAATAGT
371812 GAAAGTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (27 bp):
AATTATGAAATTCAATTTGAAATAGTA
Found at i:371808 original size:12 final size:12
Alignment explanation
Indices: 371757--371808 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
371747 AACTGTGCCG
*
371757 TCAATTTTGACAT
1 TCAA-TTTGAAAT
371770 TCAATTTGAAAT
1 TCAATTTGAAAT
*
371782 AGTAAATTATGAAAT
1 --TCAATT-TGAAAT
371797 TCAATTTGAAAT
1 TCAATTTGAAAT
371809 AGTGAAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 13 0.39
13 9 0.27
14 5 0.15
15 6 0.18
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (12 bp):
TCAATTTGAAAT
Found at i:376492 original size:12 final size:12
Alignment explanation
Indices: 376475--376506 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
376465 GAAAACAAAG
376475 GCTGCCAACTGT
1 GCTGCCAACTGT
376487 GCTGCCAACTGT
1 GCTGCCAACTGT
*
376499 GCCGCCAA
1 GCTGCCAA
376507 TTTTGACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.38, G:0.25, T:0.19
Consensus pattern (12 bp):
GCTGCCAACTGT
Found at i:376544 original size:27 final size:27
Alignment explanation
Indices: 376505--376557 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
376495 CTGTGCCGCC
* *
376505 AATTTTGACATTCAATTTGAAATAGTA
1 AATTATGAAATTCAATTTGAAATAGTA
376532 AATTATGAAATTCAATTTGAAATAGT
1 AATTATGAAATTCAATTTGAAATAGT
376558 GAAGGTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (27 bp):
AATTATGAAATTCAATTTGAAATAGTA
Found at i:378998 original size:2 final size:2
Alignment explanation
Indices: 378991--379020 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
378981 TTCACAGTAC
378991 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
379021 GGAGGTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:382589 original size:12 final size:13
Alignment explanation
Indices: 382574--382623 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
382564 ACTGTGCAGC
382574 CAATTTTG-AATT
1 CAATTTTGAAATT
382586 CAA-TTTGAAATAGT
1 CAATTTTGAAAT--T
*
382600 TAATTTTGAAATT
1 CAATTTTGAAATT
382613 CAA-TTTGAAAT
1 CAATTTTGAAAT
382624 AGTAAAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 4 0.12
12 14 0.44
13 3 0.09
14 3 0.09
15 8 0.25
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (13 bp):
CAATTTTGAAATT
Found at i:382617 original size:27 final size:26
Alignment explanation
Indices: 382575--382626 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
382565 CTGTGCAGCC
382575 AATTTTGAATTCAATTTGAAATAGTT
1 AATTTTGAATTCAATTTGAAATAGTT
382601 AATTTTGAAATTCAATTTGAAATAGT
1 AATTTTG-AATTCAATTTGAAATAGT
382627 AAAAGTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (26 bp):
AATTTTGAATTCAATTTGAAATAGTT
Found at i:382699 original size:9 final size:9
Alignment explanation
Indices: 382685--382717 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
382675 AGAAGGCTCA
382685 AGCAGAGAC
1 AGCAGAGAC
382694 AGCAGAGAC
1 AGCAGAGAC
*
382703 AGCAGAGAT
1 AGCAGAGAC
382712 AGCAGA
1 AGCAGA
382718 AAGAGAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.33, T:0.03
Consensus pattern (9 bp):
AGCAGAGAC
Found at i:386022 original size:12 final size:13
Alignment explanation
Indices: 386007--386056 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
385997 ACTGTGCAGC
386007 CAATTTTG-AATT
1 CAATTTTGAAATT
386019 CAA-TTTGAAATAGT
1 CAATTTTGAAAT--T
*
386033 TAATTTTGAAATT
1 CAATTTTGAAATT
386046 CAA-TTTGAAAT
1 CAATTTTGAAAT
386057 AGTAAAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 4 0.12
12 14 0.44
13 3 0.09
14 3 0.09
15 8 0.25
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (13 bp):
CAATTTTGAAATT
Found at i:386050 original size:27 final size:26
Alignment explanation
Indices: 386008--386059 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
385998 CTGTGCAGCC
386008 AATTTTGAATTCAATTTGAAATAGTT
1 AATTTTGAATTCAATTTGAAATAGTT
386034 AATTTTGAAATTCAATTTGAAATAGT
1 AATTTTG-AATTCAATTTGAAATAGT
386060 AAAAGTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (26 bp):
AATTTTGAATTCAATTTGAAATAGTT
Found at i:386132 original size:9 final size:9
Alignment explanation
Indices: 386118--386150 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
386108 AGAAGGCTCA
386118 AGCAGAGAC
1 AGCAGAGAC
386127 AGCAGAGAC
1 AGCAGAGAC
*
386136 AGCAGAGAT
1 AGCAGAGAC
386145 AGCAGA
1 AGCAGA
386151 AAGAGAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.33, T:0.03
Consensus pattern (9 bp):
AGCAGAGAC
Found at i:389064 original size:20 final size:17
Alignment explanation
Indices: 389041--389087 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
389031 TTATGACTAT
389041 TATTATAATATATATAATTA
1 TATTATAATAT-TATAA--A
*
389061 TATTATAAAATTATAAA
1 TATTATAATATTATAAA
389078 TATTATAATA
1 TATTATAATA
389088 AAAAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.40
19 5 0.20
20 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTATAATATTATAAA
Found at i:389090 original size:20 final size:20
Alignment explanation
Indices: 389013--389090 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
389003 CAACTAGTTA
* *
389013 ATAAATAGTAAAATAAAATT
1 ATAAATATTATAATAAAATT
* * * *
389033 ATGACTATTATTATAATATAT
1 ATAAATATTATAATAAAAT-T
* *
389054 ATAATTA-TATTATAAAATT
1 ATAAATATTATAATAAAATT
389073 ATAAATATTATAATAAAA
1 ATAAATATTATAATAAAA
389091 AAATAATTCG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 7 0.16
20 32 0.71
21 6 0.13
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (20 bp):
ATAAATATTATAATAAAATT
Found at i:390869 original size:23 final size:23
Alignment explanation
Indices: 390817--390869 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
390807 ACTTGCCACT
390817 TATTT-ATTATTTTTAAAGAGTA
1 TATTTAATTATTTTTAAAGAGTA
*
390839 TTTGTTAATTATTTTTAAAGA-TAA
1 TAT-TTAATTATTTTTAAAGAGT-A
390863 TATTTAA
1 TATTTAA
390870 ATAAATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.08
23 7 0.27
24 17 0.65
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (23 bp):
TATTTAATTATTTTTAAAGAGTA
Found at i:390975 original size:4 final size:4
Alignment explanation
Indices: 390966--390990 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
390956 TGGCATAAAA
390966 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
390991 GTTAAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:397937 original size:44 final size:45
Alignment explanation
Indices: 397887--398001 Score: 108
Period size: 44 Copynumber: 2.6 Consensus size: 45
397877 CGAAAAATTA
*
397887 TAATTTAAAAATAAAAAAAATTATAAATATTAAAATTTAAATTTT
1 TAATTTAAAAATAAAAAAAATTATAAATATTAAAATTAAAATTTT
* * * * * *
397932 T-ATTTATCAAACACATAAAA-TATAAATATTTATATTAAAATTTT
1 TAATTTA-AAAATAAAAAAAATTATAAATATTAAAATTAAAATTTT
* **
397976 TAATTCAAATTTAAAAAATAATTATA
1 TAATTTAAAAATAAAAAA-AATTATA
398002 TTTTAAACCC
Statistics
Matches: 52, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
44 32 0.62
45 16 0.31
46 4 0.08
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (45 bp):
TAATTTAAAAATAAAAAAAATTATAAATATTAAAATTAAAATTTT
Found at i:400702 original size:27 final size:28
Alignment explanation
Indices: 400669--400739 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 28
400659 GCTACTCATT
400669 TGTTTGTCAAAAATGGTGGTTAT-TTTA
1 TGTTTGTCAAAAATGGTGGTTATCTTTA
* *
400696 TGTTTGTCAAAAATGGTGGTTTTCTTTG
1 TGTTTGTCAAAAATGGTGGTTATCTTTA
* *
400724 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
400740 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.24, C:0.06, G:0.23, T:0.48
Consensus pattern (28 bp):
TGTTTGTCAAAAATGGTGGTTATCTTTA
Found at i:400730 original size:28 final size:27
Alignment explanation
Indices: 400671--400760 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
400661 TACTCATTTG
*
400671 TTTGTCAAAAATGGTGGTTATTTTATG
1 TTTGTCAAAAATGGTGGTTATTTTATA
* *
400698 TTTGTCAAAAATGGTGGTTTTCTTTGTA
1 TTTGTCAAAAATGGTGGTTAT-TTTATA
* * * *
400726 TTTGTCAAATATGGAGGCT-TGTT-TA
1 TTTGTCAAAAATGGTGGTTATTTTATA
400751 TTTGTCAAAA
1 TTTGTCAAAA
400761 TTTGTGGCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
25 11 0.20
26 2 0.04
27 21 0.39
28 20 0.37
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTATA
Found at i:403341 original size:21 final size:22
Alignment explanation
Indices: 403312--403357 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
403302 TGTTCAGACA
** *
403312 AGTAGTACTCCGTAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
403334 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
403355 AGT
1 AGT
403358 TTCAACAGAT
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:0.30, C:0.17, G:0.30, T:0.22
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:412894 original size:6 final size:5
Alignment explanation
Indices: 412885--412981 Score: 53
Period size: 5 Copynumber: 19.8 Consensus size: 5
412875 TTTTTTTTTA
* *
412885 ATATT CATATT ATATT -TATAT ATTTT ATATT ATATTT ATATT -TAAT
1 ATATT -ATATT ATATT ATAT-T ATATT ATATT ATA-TT ATATT ATATT
* * * * *
412931 ATATT CTA-T ATATT -TATAT AAATT TTAAT ATATT A-ATA AT-TT ATATT
1 ATATT ATATT ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT
412978 ATAT
1 ATAT
412982 AAATTTTAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 19
0.67 0.14 0.19
Matches are distributed among these distances:
4 18 0.26
5 36 0.53
6 14 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:412899 original size:11 final size:11
Alignment explanation
Indices: 412885--412981 Score: 68
Period size: 10 Copynumber: 9.4 Consensus size: 11
412875 TTTTTTTTTA
*
412885 ATATTCATATT
1 ATATTTATATT
412896 ATATTTATA-T
1 ATATTTATATT
412906 AT-TTTATATT
1 ATATTTATATT
412916 ATATTTATATTT
1 ATATTTATA-TT
*
412928 AATATATTCTA-T
1 -ATAT-TTATATT
412940 ATATTTATA-T
1 ATATTTATATT
* *
412950 AAATTT-TAAT
1 ATATTTATATT
412960 ATA-TTA-A-T
1 ATATTTATATT
412968 A-ATTTATATT
1 ATATTTATATT
412978 ATAT
1 ATAT
412982 AAATTTTAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
7 1 0.01
8 5 0.07
9 12 0.17
10 21 0.30
11 20 0.29
12 3 0.04
13 4 0.06
14 4 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
ATATTTATATT
Found at i:412926 original size:18 final size:19
Alignment explanation
Indices: 412891--412949 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
412881 TTTAATATTC
412891 ATATTATATTTATATATTTT
1 ATATTATA-TTATATATTTT
412911 ATATTATATT-TATA-TTT
1 ATATTATATTATATATTTT
*
412928 A-A-TATATTCTATATATTT
1 ATATTATATTATATAT-TTT
412946 ATAT
1 ATAT
412950 AAATTTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
15 6 0.18
16 5 0.15
17 4 0.12
18 8 0.24
19 3 0.09
20 8 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTATATTATATATTTT
Found at i:412961 original size:18 final size:17
Alignment explanation
Indices: 412922--412990 Score: 56
Period size: 18 Copynumber: 4.1 Consensus size: 17
412912 TATTATATTT
* *
412922 ATATTTAATATATTCTA
1 ATATTTAATAAATTTTA
412939 TATATTTATATAAATTTTA
1 -ATATTTA-ATAAATTTTA
412958 ATATATTAAT-AA-TTT-
1 ATAT-TTAATAAATTTTA
412973 ATA-TTATATAAATTTTA
1 ATATTTA-ATAAATTTTA
412990 A
1 A
412991 AATATATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
13 3 0.07
14 2 0.05
15 5 0.12
16 6 0.14
17 3 0.07
18 13 0.30
19 11 0.26
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTAATAAATTTTA
Found at i:412963 original size:44 final size:47
Alignment explanation
Indices: 412885--412973 Score: 116
Period size: 44 Copynumber: 2.0 Consensus size: 47
412875 TTTTTTTTTA
*
412885 ATATTCATATTATATTTATATATTTTATATTATATTTAT-ATTTAAT
1 ATATTCATATTATATTTATATATTTTATATTATATTAATAATTTAAT
412931 ATATTC-TA-TATATTTATATAAATTTTA-A-TATATTAATAATTTA
1 ATATTCATATTATATTTATAT--ATTTTATATTATATTAATAATTTA
412974 TATTATATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
44 19 0.49
45 8 0.21
46 12 0.31
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (47 bp):
ATATTCATATTATATTTATATATTTTATATTATATTAATAATTTAAT
Found at i:412985 original size:32 final size:31
Alignment explanation
Indices: 412903--413007 Score: 108
Period size: 30 Copynumber: 3.4 Consensus size: 31
412893 ATTATATTTA
* **
412903 TATATTTTATATTATATTTATATTTAATATAT
1 TATAATTTATATTATATAAAT-TTTAATATAT
* *
412935 TCT-ATATAT-TTATATAAATTTTAATATAT
1 TATAATTTATATTATATAAATTTTAATATAT
*
412964 TAATAATTTATATTATATAAATTTTAAAATA-
1 T-ATAATTTATATTATATAAATTTTAATATAT
*
412995 TATATTTTATATT
1 TATAATTTATATT
413008 TTTAATTATT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 11 0.18
30 20 0.33
31 10 0.16
32 20 0.33
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
TATAATTTATATTATATAAATTTTAATATAT
Found at i:413263 original size:25 final size:26
Alignment explanation
Indices: 413233--413286 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 26
413223 AATTTACCAC
413233 TTATTATATT-ATTTTCAAA-G-AATAT
1 TTATTA-ATTAATTTT-AAAGGTAATAT
413258 TTATTAATTAATTTTAAAGGTAATAT
1 TTATTAATTAATTTTAAAGGTAATAT
413284 TTA
1 TTA
413287 AATAAGTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.23
25 12 0.46
26 8 0.31
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (26 bp):
TTATTAATTAATTTTAAAGGTAATAT
Found at i:413270 original size:107 final size:108
Alignment explanation
Indices: 413096--413300 Score: 349
Period size: 107 Copynumber: 1.9 Consensus size: 108
413086 ATTCACTAAC
* * **
413096 CTTACCCTCTTCAAATGCAAAATTTGTCACTTATTACATTATTTTCAAAAAATATTTATTAATTA
1 CTTACCCTCTCCAAATACAAAATTTACCACTTATTACATTATTTTCAAAAAATATTTATTAATTA
413161 ATTTTAAAGGTAATATTTAAATAAGTCTTTCAAATTCGTTGGT
66 ATTTTAAAGGTAATATTTAAATAAGTCTTTCAAATTCGTTGGT
* *
413204 CTTACCCTC-CCAAATACAAAATTTACCACTTATTATATTATTTTCAAAGAATATTTATTAATTA
1 CTTACCCTCTCCAAATACAAAATTTACCACTTATTACATTATTTTCAAAAAATATTTATTAATTA
413268 ATTTTAAAGGTAATATTTAAATAAGTCTTTCAA
66 ATTTTAAAGGTAATATTTAAATAAGTCTTTCAA
413301 CTTTAAAAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
107 82 0.90
108 9 0.10
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (108 bp):
CTTACCCTCTCCAAATACAAAATTTACCACTTATTACATTATTTTCAAAAAATATTTATTAATTA
ATTTTAAAGGTAATATTTAAATAAGTCTTTCAAATTCGTTGGT
Found at i:414318 original size:23 final size:23
Alignment explanation
Indices: 414298--414343 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
414288 TTTGTAATCA
414298 GATTT-TT-TAAAAATTATTAAT
1 GATTTATTATAAAAATTATTAAT
*
414319 TATTTATTATAAAAATTATTAAT
1 GATTTATTATAAAAATTATTAAT
414342 GA
1 GA
414344 ATTGTAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 2 0.10
23 15 0.71
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
GATTTATTATAAAAATTATTAAT
Found at i:414691 original size:13 final size:13
Alignment explanation
Indices: 414675--414699 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
414665 TTTTTTAAAA
414675 ATATTTATATTTT
1 ATATTTATATTTT
414688 ATATTTATATTT
1 ATATTTATATTT
414700 ATTACATATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTTATATTTT
Found at i:415373 original size:17 final size:17
Alignment explanation
Indices: 415353--415386 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
415343 TAATTTTATT
*
415353 TTTAAAATTTAAATTAA
1 TTTAAAATATAAATTAA
415370 TTTAAAATATAAATTAA
1 TTTAAAATATAAATTAA
415387 ATTATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAAAATATAAATTAA
Found at i:415409 original size:14 final size:14
Alignment explanation
Indices: 415392--415430 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
415382 ATTAAATTAT
*
415392 TTAAATTTATTCAA
1 TTAAATTCATTCAA
415406 TTAAATTCATTCAA
1 TTAAATTCATTCAA
415420 TTAAATTCATT
1 TTAAATTCATT
415431 TTACATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAAATTCATTCAA
Found at i:415457 original size:24 final size:24
Alignment explanation
Indices: 415430--415500 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
415420 TTAAATTCAT
415430 TTTACATAATAAAAAATAAGTTAA
1 TTTACATAATAAAAAATAAGTTAA
* * *
415454 TTTA-TTCAAT--TAAAT---TTAT
1 TTTACAT-AATAAAAAATAAGTTAA
415473 TTTACATAATAAAAAATAAGTTAA
1 TTTACATAATAAAAAATAAGTTAA
415497 TTTA
1 TTTA
415501 TTTTTCTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 10 0.29
20 1 0.03
21 4 0.12
22 4 0.12
23 1 0.03
24 14 0.41
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (24 bp):
TTTACATAATAAAAAATAAGTTAA
Found at i:415462 original size:43 final size:43
Alignment explanation
Indices: 415409--415502 Score: 170
Period size: 43 Copynumber: 2.2 Consensus size: 43
415399 TATTCAATTA
*
415409 AATTCATTCAATTAAATTCATTTTACATAATAAAAAATAAGTT
1 AATTTATTCAATTAAATTCATTTTACATAATAAAAAATAAGTT
*
415452 AATTTATTCAATTAAATTTATTTTACATAATAAAAAATAAGTT
1 AATTTATTCAATTAAATTCATTTTACATAATAAAAAATAAGTT
415495 AATTTATT
1 AATTTATT
415503 TTTCTTGACT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (43 bp):
AATTTATTCAATTAAATTCATTTTACATAATAAAAAATAAGTT
Found at i:415544 original size:12 final size:12
Alignment explanation
Indices: 415529--415588 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
415519 TTTATGCTTG
*
415529 AATTTAAATTTA
1 AATTAAAATTTA
*
415541 AATTAAAATTTTT
1 AATTAAAA-TTTA
415554 AA-TAATAATTTAA
1 AATTAA-AATTT-A
* *
415567 AATAAAAAATTA
1 AATTAAAATTTA
415579 AATTAAAATT
1 AATTAAAATT
415589 ATTTAATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
12 22 0.59
13 13 0.35
14 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTAAAATTTA
Found at i:415588 original size:25 final size:25
Alignment explanation
Indices: 415529--415588 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
415519 TTTATGCTTG
* * ** *
415529 AATTTAAATTTAAATTAAAATTTTT
1 AATTAAAATTTAAAATAAAAAATTA
415554 AA-TAATAATTTAAAATAAAAAATTA
1 AATTAA-AATTTAAAATAAAAAATTA
415579 AATTAAAATT
1 AATTAAAATT
415589 ATTTAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
24 2 0.07
25 23 0.82
26 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTAAAATTTAAAATAAAAAATTA
Found at i:415610 original size:33 final size:36
Alignment explanation
Indices: 415533--415607 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 36
415523 TGCTTGAATT
415533 TAAATTTAAATTAAAATTTTTAATAATAATTTAAAATAA
1 TAAA-TTAAATTAAAATTTTTAAT-ATAA-TTAAAATAA
* *
415572 AAAATTAAATTAAAATTATTTAAT-TAATAAAAATAA
1 TAAATTAAATTAAAATT-TTTAATATAATTAAAATAA
415608 ATTTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 8 0.24
37 3 0.09
38 13 0.39
39 9 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (36 bp):
TAAATTAAATTAAAATTTTTAATATAATTAAAATAA
Found at i:415970 original size:24 final size:23
Alignment explanation
Indices: 415938--415984 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
415928 TATTTTTAAA
415938 AAATTTAATTTAACTAAATATTT
1 AAATTTAATTTAACTAAATATTT
* *
415961 AAATTATAATTTTATTAAATATTT
1 AAATT-TAATTTAACTAAATATTT
415985 CAGTTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AAATTTAATTTAACTAAATATTT
Found at i:416109 original size:9 final size:9
Alignment explanation
Indices: 416097--416133 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
416087 TAAAAACTCC
416097 AAAAAAA-T
1 AAAAAAATT
416105 -AAAAAATT
1 AAAAAAATT
416113 AAAAAAATT
1 AAAAAAATT
416122 -AAAAAATT
1 AAAAAAATT
416130 AAAA
1 AAAA
416134 TTAAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.23
8 9 0.35
9 11 0.42
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAAAATT
Found at i:416116 original size:6 final size:6
Alignment explanation
Indices: 416116--416158 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
416106 AAAAATTAAA
416116 AAAATT AAAAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT -AA-AATT AAAATT AAAATT AAAATT AAAATT AAAAT
416159 GTTTATCAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 27 0.77
7 4 0.11
8 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:417194 original size:19 final size:18
Alignment explanation
Indices: 417172--417236 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
417162 ATTTATATTT
417172 AATATATATTTAAATATAA
1 AATATAT-TTTAAATATAA
417191 AATATAATTTTATAAATATATA
1 AATAT-A-TTT-TAAATATA-A
* *
417213 AAAATATTTTAAAAAT-A
1 AATATATTTTAAATATAA
417230 AATATAT
1 AATATAT
417237 GTATAATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 7 0.18
19 11 0.28
20 6 0.15
21 10 0.26
22 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATATTTTAAATATAA
Found at i:417206 original size:21 final size:20
Alignment explanation
Indices: 417172--417250 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 20
417162 ATTTATATTT
*
417172 AATATATATT-TAAATATAA
1 AATATATTTTATAAATATAA
417191 AATATAATTTTATAAATATATA
1 AATAT-ATTTTATAAATATA-A
*
417213 AAAATATTTTA-AAA-AT-A
1 AATATATTTTATAAATATAA
*
417230 AATATATGTATAATAAATATA
1 AATATAT-T-TTATAAATATA
417251 TTGATAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
17 7 0.15
18 1 0.02
19 9 0.19
20 10 0.21
21 16 0.33
22 5 0.10
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (20 bp):
AATATATTTTATAAATATAA
Found at i:417261 original size:19 final size:19
Alignment explanation
Indices: 417202--417263 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 19
417192 ATATAATTTT
*
417202 ATAAATATATAAAAATATT-
1 ATAAATA-ATAAATATATTG
*
417221 TTAAA-AATAAATATA-TG
1 ATAAATAATAAATATATTG
417238 -T--ATAATAAATATATTG
1 ATAAATAATAAATATATTG
417254 ATAAATAATA
1 ATAAATAATA
417264 TTTATCTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
14 1 0.03
15 10 0.29
16 4 0.11
17 9 0.26
18 1 0.03
19 10 0.29
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
ATAAATAATAAATATATTG
Found at i:417651 original size:12 final size:12
Alignment explanation
Indices: 417630--417664 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
417620 AAAAAGTTTG
*
417630 AATTTGATTTAA
1 AATTTAATTTAA
417642 AATTTAATTT-A
1 AATTTAATTTAA
417653 AATTTAATTTAA
1 AATTTAATTTAA
417665 TTTTACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (12 bp):
AATTTAATTTAA
Found at i:417657 original size:11 final size:11
Alignment explanation
Indices: 417630--417669 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
417620 AAAAAGTTTG
*
417630 AATTTGATTTAA
1 AATTTAATTT-A
417642 AATTTAATTTA
1 AATTTAATTTA
417653 AATTTAATTTA
1 AATTTAATTTA
*
417664 ATTTTA
1 AATTTA
417670 CTTTTAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:429112 original size:193 final size:193
Alignment explanation
Indices: 428781--429130 Score: 655
Period size: 193 Copynumber: 1.8 Consensus size: 193
428771 AACTGAGATC
*
428781 AAGGCCGATCACCTTCCTTTTCTTGTTATCACACATGACCCCTTCTCATCTGCAACAGTCAGTAG
1 AAGGCCGATCACCTTCCTTTTCTTGTTATCACACATGACCCCCTCTCATCTGCAACAGTCAGTAG
*
428846 TTTCATCCCAAGTATCCATCTTAAGAGAAGAATCAGTTATGTGAATAGTATCTTAAGTATCCATA
66 TTTCATCCCAAGTATCCATCTTAAGAGAAGAATCAGTTATGTGAATAGTATCTCAAGTATCCATA
* *
428911 TAATAATGAGTGTTGGATATGAATATAGACTGAATATGAATATACTCAATTTGTTCTAAGTTT
131 TAATAATGAGTATTAGATATGAATATAGACTGAATATGAATATACTCAATTTGTTCTAAGTTT
428974 AAGGCCGATCACCTTCCTTTTCTTGTTATCACACATGACCCCCTCTCATCTGCAACAGTCAGTAG
1 AAGGCCGATCACCTTCCTTTTCTTGTTATCACACATGACCCCCTCTCATCTGCAACAGTCAGTAG
429039 TTTCATCCCAAGTATCCATCTTAAGAGAAGAATCAGTTATGTGAATAGTATCTCAAGTATCCATA
66 TTTCATCCCAAGTATCCATCTTAAGAGAAGAATCAGTTATGTGAATAGTATCTCAAGTATCCATA
*
429104 TGATAATGAGTATTAGATATGAATATA
131 TAATAATGAGTATTAGATATGAATATA
429131 ATACCAAATA
Statistics
Matches: 152, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 152 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (193 bp):
AAGGCCGATCACCTTCCTTTTCTTGTTATCACACATGACCCCCTCTCATCTGCAACAGTCAGTAG
TTTCATCCCAAGTATCCATCTTAAGAGAAGAATCAGTTATGTGAATAGTATCTCAAGTATCCATA
TAATAATGAGTATTAGATATGAATATAGACTGAATATGAATATACTCAATTTGTTCTAAGTTT
Found at i:433843 original size:21 final size:23
Alignment explanation
Indices: 433800--433849 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
433790 TTATCGTTAT
* *
433800 TATAATATAATTATATTATAAAA
1 TATAATATAATTATAATAAAAAA
433823 TATAA-AT-ATTATAATAAAAAA
1 TATAATATAATTATAATAAAAAA
*
433844 CATAAT
1 TATAAT
433850 TCGGCTCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 16 0.70
22 2 0.09
23 5 0.22
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TATAATATAATTATAATAAAAAA
Found at i:433942 original size:17 final size:17
Alignment explanation
Indices: 433903--433949 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
433893 AAGATTCGGC
*
433903 TATTTTTTAAATAAGTT
1 TATTTTTTAAATAAATT
**
433920 TAATTTTTTATTTAAATT
1 T-ATTTTTTAAATAAATT
433938 TATTTTTTAAAT
1 TATTTTTTAAAT
433950 TTAATATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TATTTTTTAAATAAATT
Found at i:433946 original size:13 final size:14
Alignment explanation
Indices: 433921--433952 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
433911 AAATAAGTTT
433921 AATTT-TTTATTTA
1 AATTTATTTATTTA
433934 AATTTATTT-TTTA
1 AATTTATTTATTTA
433947 AATTTA
1 AATTTA
433953 ATATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
AATTTATTTATTTA
Found at i:435303 original size:8 final size:8
Alignment explanation
Indices: 435290--435374 Score: 61
Period size: 8 Copynumber: 10.4 Consensus size: 8
435280 ACGTTAATAT
435290 TATATTTA
1 TATATTTA
435298 TATATTT-
1 TATATTTA
435305 TATA-TTA
1 TATATTTA
*
435312 TTATATTCA
1 -TATATTTA
*
435321 TAT-TTAA
1 TATATTTA
435328 TATATTTTA
1 TATA-TTTA
435337 TATATTTA
1 TATATTTA
435345 TATTAATTTTAA
1 TA-T-A-TTT-A
*
435357 TATATTAA
1 TATATTTA
435365 TA-ATTTA
1 TATATTTA
435372 TAT
1 TAT
435375 TATATAAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
6 2 0.03
7 16 0.26
8 23 0.37
9 12 0.19
10 2 0.03
11 4 0.06
12 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (8 bp):
TATATTTA
Found at i:435309 original size:15 final size:15
Alignment explanation
Indices: 435289--435387 Score: 69
Period size: 18 Copynumber: 6.2 Consensus size: 15
435279 CACGTTAATA
435289 TTATATTTATATATT
1 TTATATTTATATATT
435304 TTATA-TTAT-TATAT
1 TTATATTTATATAT-T
*
435318 TCATATTTAATATATTT
1 TTATATTT-ATATA-TT
435335 TATATATTTATATTAATT
1 T-TATATTTATA-T-ATT
*
435353 TTAATATATTA-ATAAT
1 TT-ATAT-TTATATATT
*
435369 TTATATTATATAAATT
1 TTATATT-TATATATT
435385 TTA
1 TTA
435388 AAATATGTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
13 3 0.04
14 10 0.15
15 13 0.19
16 12 0.18
17 9 0.13
18 16 0.24
19 4 0.06
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATATTTATATATT
Found at i:435333 original size:30 final size:29
Alignment explanation
Indices: 435286--435379 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 29
435276 TCCCACGTTA
435286 ATATTATATTT-ATATATTTTATAT-TATT
1 ATATTATATTTAATATATTTTATATAT-TT
435314 ATATTCATATTTAATATATTTTATATATTT
1 ATATT-ATATTTAATATATTTTATATATTT
*
435344 ATATTA-ATTTTAATATA-TTAATA-ATTT
1 ATATTATA-TTTAATATATTTTATATATTT
435371 ATATTATAT
1 ATATTATAT
435380 AAATTTTAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
27 11 0.18
28 12 0.20
29 16 0.27
30 20 0.33
31 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (29 bp):
ATATTATATTTAATATATTTTATATATTT
Found at i:435379 original size:20 final size:21
Alignment explanation
Indices: 435289--435380 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 21
435279 CACGTTAATA
*
435289 TTATAT-TTATATATTTTATA
1 TTATATATTATATAATTTATA
* *
435309 TTATTATATTCATATTTAATATATT
1 TTA-TATATT-ATA--TAATTTATA
435334 TTATATATTTATATTAATTT-TA
1 TTATATA-TTATA-TAATTTATA
435356 --ATATATTA-ATAATTTATA
1 TTATATATTATATAATTTATA
435374 TTATATA
1 TTATATA
435381 AATTTTAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
17 6 0.10
18 3 0.05
19 3 0.05
20 13 0.22
21 3 0.05
22 3 0.05
23 9 0.16
24 7 0.12
25 11 0.19
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATATATTATATAATTTATA
Found at i:435379 original size:38 final size:37
Alignment explanation
Indices: 435286--435379 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 37
435276 TCCCACGTTA
*
435286 ATATT-AT-ATTTATATAT-TTTATATTATTATATTC
1 ATATTAATAATTTATATATATTTATATTATTATAATC
*
435320 ATATTTAATATATTT-TATATATTTATATTAATTTTAAT-
1 ATA-TTAATA-ATTTATATATATTTATATT-ATTATAATC
435358 ATATTAATAATTTATATTATAT
1 ATATTAATAATTTATA-TATAT
435380 AAATTTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
34 3 0.06
35 2 0.04
36 6 0.12
37 13 0.26
38 20 0.40
39 6 0.12
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (37 bp):
ATATTAATAATTTATATATATTTATATTATTATAATC
Found at i:435407 original size:34 final size:32
Alignment explanation
Indices: 435337--435408 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
435327 ATATATTTTA
* * *
435337 TATATTTATATTAATTTTAATATATTAATAATT
1 TATA-TTATATAAATTTTAAAATATTAATAAGT
*
435370 TATATTATATAAATTTTAAAATATGTATTTAAGT
1 TATATTATATAAATTTTAAAATAT-TA-ATAAGT
435404 TATAT
1 TATAT
435409 CATTTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 18 0.55
33 6 0.18
34 9 0.27
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (32 bp):
TATATTATATAAATTTTAAAATATTAATAAGT
Found at i:437002 original size:39 final size:38
Alignment explanation
Indices: 436958--437057 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 38
436948 TAATTGTTGC
* * *
436958 ATAAATTTTTTTAT-TTTTTAAAATATTTATATATGATAT
1 ATAAATTTTTTTATATATTT-AAATA-TAATATATAATAT
* *
436997 TTAAA-TTTATTATATATTTAAATATAATATATAATAT
1 ATAAATTTTTTTATATATTTAAATATAATATATAATAT
437034 AT-AATTTTTTTAAATATATTTAAA
1 ATAAATTTTTTT--ATATATTTAAA
437058 ATTTTAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
36 2 0.04
37 17 0.34
38 12 0.24
39 19 0.38
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (38 bp):
ATAAATTTTTTTATATATTTAAATATAATATATAATAT
Found at i:437015 original size:17 final size:17
Alignment explanation
Indices: 436982--437029 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
436972 TTTTTAAAAT
436982 ATTTATATATGATATTTAA
1 ATTTAT-TAT-ATATTTAA
437001 ATTTATTATATATTTAA
1 ATTTATTATATATTTAA
* *
437018 ATATAATATATA
1 ATTTATTATATA
437030 ATATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 18 0.67
18 3 0.11
19 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTATTATATATTTAA
Found at i:438945 original size:32 final size:32
Alignment explanation
Indices: 438899--438965 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
438889 TAAAAATATC
*
438899 AACAAAATAATAAAATTAAAAATATAATTAAA
1 AACAAAATAATAAAATTAAAAATAGAATTAAA
* * * *
438931 AACATAATAGTAAAATTAACAATGGAATTAAA
1 AACAAAATAATAAAATTAAAAATAGAATTAAA
438963 AAC
1 AAC
438966 CACGTTGACG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.24
Consensus pattern (32 bp):
AACAAAATAATAAAATTAAAAATAGAATTAAA
Found at i:439874 original size:34 final size:34
Alignment explanation
Indices: 439808--439992 Score: 273
Period size: 34 Copynumber: 5.5 Consensus size: 34
439798 AATTGAAAAA
* *
439808 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
439841 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
439875 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
439909 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
439943 ATTGTTGACTAAATGGGAGATTTGGTAGGTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
439977 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
439993 TGGTTTTTAC
Statistics
Matches: 135, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 122 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:444472 original size:34 final size:34
Alignment explanation
Indices: 444406--444590 Score: 273
Period size: 34 Copynumber: 5.5 Consensus size: 34
444396 AAGTGGGAGA
* *
444406 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
444439 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
444473 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
444507 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
444541 ATTGTTGACTAAATGGGAGATTTGGTAGGTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
444575 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
444591 TGGTTTTTAC
Statistics
Matches: 135, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 122 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:445022 original size:13 final size:14
Alignment explanation
Indices: 444996--445025 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
444986 TTATTTATAA
444996 ATATTTTATATTTG
1 ATATTTTATATTTG
445010 ATATTTT-TATTTG
1 ATATTTTATATTTG
445023 ATA
1 ATA
445026 CGTAATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
ATATTTTATATTTG
Found at i:445735 original size:21 final size:21
Alignment explanation
Indices: 445701--445742 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
445691 TAATACTAAT
*
445701 TAAAAATAATATATATTTAAAA
1 TAAAAATAAGATAT-TTTAAAA
445723 TAAAAAT-AGATATTTTAAAA
1 TAAAAATAAGATATTTTAAAA
445743 AATAAGCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 5 0.26
22 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAATAAGATATTTTAAAA
Found at i:445743 original size:21 final size:22
Alignment explanation
Indices: 445701--445743 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
445691 TAATACTAAT
*
445701 TAAAAATAATATATATTTAAAA
1 TAAAAATAATATATATTAAAAA
445723 TAAAAATAGATAT-T-TTAAAAA
1 TAAAAATA-ATATATATTAAAAA
445744 ATAAGCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAAAATAATATATATTAAAAA
Found at i:446164 original size:21 final size:20
Alignment explanation
Indices: 446134--446198 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
446124 TTCACAAAAA
446134 AAAAAG-GAAGTGCGTTAGAC
1 AAAAAGAGAAGTGC-TTAGAC
** *
446154 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAG-TGCTTAGAC
*
446175 AAAAAGAGAAGTGACTTAAAC
1 AAAAAGAGAAGTG-CTTAGAC
446196 AAA
1 AAA
446199 TCTTTTTTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 6 0.17
21 28 0.80
22 1 0.03
ACGTcount: A:0.54, C:0.11, G:0.23, T:0.12
Consensus pattern (20 bp):
AAAAAGAGAAGTGCTTAGAC
Found at i:450216 original size:14 final size:14
Alignment explanation
Indices: 450194--450223 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
450184 TATTTAACAT
*
450194 ATATTAAAATATAA
1 ATATAAAAATATAA
450208 ATATAAAAATATAA
1 ATATAAAAATATAA
450222 AT
1 AT
450224 TATCTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATAAAAATATAA
Found at i:450775 original size:22 final size:22
Alignment explanation
Indices: 450748--450795 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
450738 TCTTTCAGAA
*
450748 ATAAGCTTTTCTGTAGTATTGT
1 ATAAGCTTTTCTCTAGTATTGT
450770 ATAAGCTTTTCTCTAGTATTGT
1 ATAAGCTTTTCTCTAGTATTGT
450792 ATAA
1 ATAA
450796 ATATAGATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (22 bp):
ATAAGCTTTTCTCTAGTATTGT
Found at i:450921 original size:2 final size:2
Alignment explanation
Indices: 450914--450950 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
450904 AAAACCGTTC
450914 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 T
450951 TTAATAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:453305 original size:20 final size:20
Alignment explanation
Indices: 453280--453322 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
453270 GAGCCATGAG
453280 CTAGAGTTTGCTCTGGTTTT
1 CTAGAGTTTGCTCTGGTTTT
453300 CTAGAGTTTGCTCTGGTTTT
1 CTAGAGTTTGCTCTGGTTTT
453320 CTA
1 CTA
453323 TCTTGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.12, C:0.16, G:0.23, T:0.49
Consensus pattern (20 bp):
CTAGAGTTTGCTCTGGTTTT
Found at i:459745 original size:20 final size:20
Alignment explanation
Indices: 459720--459799 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
459710 AATTCATGCA
*
459720 TATAAAAATTATTTATAAAT
1 TATAAAAATTATTAATAAAT
*
459740 TATAAAAATTATGAAT-AAT
1 TATAAAAATTATTAATAAAT
* *
459759 AATTAAAATTATATCAA-AAAT
1 TATAAAAATTAT-T-AATAAAT
*
459780 TATAAAAATTATAAATAAAT
1 TATAAAAATTATTAATAAAT
459800 AATTAAGTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 15 0.31
20 18 0.38
21 15 0.31
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (20 bp):
TATAAAAATTATTAATAAAT
Found at i:459750 original size:9 final size:9
Alignment explanation
Indices: 459720--459794 Score: 60
Period size: 9 Copynumber: 7.7 Consensus size: 9
459710 AATTCATGCA
459720 TATAAAAAT
1 TATAAAAAT
*
459729 TATTTATAAAT
1 TA--TAAAAAT
459740 TATAAAAAT
1 TATAAAAAT
*
459749 TATGAATAAT
1 TAT-AAAAAT
* *
459759 AATTAAAATT
1 TA-TAAAAAT
459769 ATATCAAAAAT
1 -TAT-AAAAAT
459780 TATAAAAAT
1 TATAAAAAT
459789 TATAAA
1 TATAAA
459795 TAAATAATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.44
10 14 0.27
11 15 0.29
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (9 bp):
TATAAAAAT
Found at i:489307 original size:8 final size:8
Alignment explanation
Indices: 489288--489322 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
489278 TGAACACTAT
489288 AAAAATTAA
1 AAAAATT-A
489297 AAAAATTA
1 AAAAATTA
489305 AAAAATTA
1 AAAAATTA
489313 AAAAATTA
1 AAAAATTA
489321 AA
1 AA
489323 GTTAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATTA
Found at i:489367 original size:13 final size:13
Alignment explanation
Indices: 489349--489423 Score: 50
Period size: 15 Copynumber: 5.8 Consensus size: 13
489339 TTTTAAAAAA
489349 TAAAAATTATTTT
1 TAAAAATTATTTT
489362 T-AAAA--A-TTT
1 TAAAAATTATTTT
*
489371 TAAAAATAAATTTTT
1 TAAAAAT-TA-TTTT
*
489386 TAATAATTATTTT
1 TAAAAATTATTTT
*
489399 TTAAAATTATGTTT
1 TAAAAATTAT-TTT
*
489413 GTAAAACTTAT
1 -TAAAAATTAT
489424 AAAATTTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
9 4 0.08
10 5 0.10
12 4 0.08
13 14 0.29
14 4 0.08
15 17 0.35
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (13 bp):
TAAAAATTATTTT
Found at i:491214 original size:16 final size:16
Alignment explanation
Indices: 491193--491225 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
491183 AAATTTCACT
491193 TAAAATATATTATAAA
1 TAAAATATATTATAAA
*
491209 TAAAATATTTTATAAA
1 TAAAATATATTATAAA
491225 T
1 T
491226 TTATAACTTA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATATATTATAAA
Found at i:491224 original size:28 final size:24
Alignment explanation
Indices: 491163--491224 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 24
491153 TCGTAACCTA
491163 TTTATAAAATATAAAAATAAAAAT
1 TTTATAAAATATAAAAATAAAAAT
*
491187 TTCACTTAAAATATATTATAAATAAAATAT
1 TTTA--TAAAATATA--A-AAATAAAA-AT
491217 TTTATAAA
1 TTTATAAA
491225 TTTATAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
24 3 0.10
26 9 0.30
28 5 0.17
29 8 0.27
30 5 0.17
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (24 bp):
TTTATAAAATATAAAAATAAAAAT
Found at i:492045 original size:18 final size:17
Alignment explanation
Indices: 491996--492050 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
491986 AATTTACTTT
*
491996 TAAAATTTTTAT-AATA
1 TAAAATTTATATAAATA
492012 T-AAA-TTAT-TAACATA
1 TAAAATTTATATAA-ATA
492027 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
492045 TAAAAT
1 TAAAAT
492051 ACATTAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
13 1 0.03
14 4 0.12
15 6 0.19
16 2 0.06
17 9 0.28
18 7 0.22
19 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:492697 original size:25 final size:26
Alignment explanation
Indices: 492669--492738 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 26
492659 TGATGAATTT
492669 ATATTATATATTTATATATT-TTAAA
1 ATATTATATATTTATATATTATTAAA
* *
492694 ATATTA-ATAATTA-ATTTTAATTAAA
1 ATATTATATATTTATATATT-ATTAAA
*
492719 AT-TTAATATATTTATTTATT
1 ATATT-ATATATTTATATATT
492739 CATATTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
23 4 0.11
24 8 0.23
25 14 0.40
26 6 0.17
27 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATATTATATATTTATATATTATTAAA
Found at i:497413 original size:28 final size:28
Alignment explanation
Indices: 497354--497423 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
497344 CCACCCATTT
*
497354 ATTTGTCAAAAATGATGGTTATTTTGTG
1 ATTTGTCAAAAATGGTGGTTATTTTGTG
497382 -TTTGTCAAAAATGGTGGTT-TCCTTTG-G
1 ATTTGTCAAAAATGGTGGTTAT--TTTGTG
*
497409 ATTTGTCAAATATGG
1 ATTTGTCAAAAATGG
497424 AGGCTTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 1 0.03
27 19 0.51
28 17 0.46
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (28 bp):
ATTTGTCAAAAATGGTGGTTATTTTGTG
Found at i:500027 original size:21 final size:22
Alignment explanation
Indices: 499998--500043 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
499988 TGTTCAGACA
** *
499998 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
500020 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
500041 AGT
1 AGT
500044 TTTAACAAAT
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:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:503570 original size:17 final size:16
Alignment explanation
Indices: 503537--503589 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
503527 TATTTAACGT
503537 ATTTTATATTTATATA
1 ATTTTATATTTATATA
503553 ATTTTAATATATTA-ATA
1 ATTTT-ATAT-TTATATA
503570 A-TTTATA-TTATATAA
1 ATTTTATATTTATAT-A
503585 ATTTT
1 ATTTT
503590 GAGACATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.09
14 2 0.06
15 5 0.16
16 11 0.34
17 8 0.25
18 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTATATTTATATA
Found at i:503599 original size:32 final size:33
Alignment explanation
Indices: 503539--503611 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
503529 TTTAACGTAT
* *
503539 TTTATATTTATATAATTTTAATATATTAATA-A
1 TTTATATTTATATAATTTTAAGACATTAATATA
*
503571 TTTATA-TTATATAAATTTTGAGACATTAATATA
1 TTTATATTTATAT-AATTTTAAGACATTAATATA
*
503604 TTTGTATT
1 TTTATATT
503612 GTATTTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 6 0.18
32 21 0.62
33 6 0.18
34 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (33 bp):
TTTATATTTATATAATTTTAAGACATTAATATA
Found at i:503822 original size:32 final size:32
Alignment explanation
Indices: 503769--503829 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
503759 TTTTTTGTAT
*
503769 TTATATAATTTTAATATATTAATA-ATTTATA
1 TTATATAATTTTAATACATTAATATATTTATA
503800 TTATATAAATTTTGAA-ACATTAATATATTT
1 TTATAT-AATTTT-AATACATTAATATATTT
503830 GTGTTGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 6 0.23
32 14 0.54
33 6 0.23
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (32 bp):
TTATATAATTTTAATACATTAATATATTTATA
Found at i:503931 original size:223 final size:223
Alignment explanation
Indices: 503538--504212 Score: 1314
Period size: 223 Copynumber: 3.0 Consensus size: 223
503528 ATTTAACGTA
*
503538 TTTTATATTTATATAATTTTAATATATTAATAATTTATATTATATAAATTTTGAGACATTAATAT
1 TTTTGTATTTATATAATTTTAATATATTAATAATTTATATTATATAAATTTTGAGACATTAATAT
*
503603 ATTTGTATTGTATTTATATTATTTTTTGTATCGTATTTTTTCATAATATGTTCGTGTGTAATTGT
66 ATTTGTGTTGTATTTATATTATTTTTTGTATCGTATTTTTTCATAATATGTTCGTGTGTAATTGT
503668 GTTGTGGTTAATATTTTCAAATACTTTTTTATTAAGATAAAAAAATTTGAATTCAACTCGTTTAC
131 GTTGTGGTTAATATTTTCAAATACTTTTTTATTAAGATAAAAAAATTTGAATTCAACTCGTTTAC
503733 TAGAAGTAATTTATTTTATTAGTAAATT
196 TAGAAGTAATTTATTTTATTAGTAAATT
*
503761 TTTTGTATTTATATAATTTTAATATATTAATAATTTATATTATATAAATTTTGAAACATTAATAT
1 TTTTGTATTTATATAATTTTAATATATTAATAATTTATATTATATAAATTTTGAGACATTAATAT
*
503826 ATTTGTGTTGTATTTATATTATTTTTTGTATCGTATTTTTTTATAATATGTTCGTGTGTAATTGT
66 ATTTGTGTTGTATTTATATTATTTTTTGTATCGTATTTTTTCATAATATGTTCGTGTGTAATTGT
503891 GTTGTGGTTAATATTTTCAAATACTTTTTTATTAAGATAAAAAAATTTGAATTCAACTCGTTTAC
131 GTTGTGGTTAATATTTTCAAATACTTTTTTATTAAGATAAAAAAATTTGAATTCAACTCGTTTAC
503956 TAGAAGTAATTTATTTTATTAGTAAATT
196 TAGAAGTAATTTATTTTATTAGTAAATT
503984 TTTTGTATTTATATAATTTTAATATATTAATAATTTATATTATATAAATTTTGAGACATTAATAT
1 TTTTGTATTTATATAATTTTAATATATTAATAATTTATATTATATAAATTTTGAGACATTAATAT
504049 ATTTGTGTTGTATTTATATTATTTTTTGTATCGTATTTTTTCATAATATGTTCGTGTGTAATTGT
66 ATTTGTGTTGTATTTATATTATTTTTTGTATCGTATTTTTTCATAATATGTTCGTGTGTAATTGT
504114 GTTGTGGTTAATATTTTCAAATACTTTTTTATTAAGATAAAAAAATTTGAATTCAACTCGTTTAC
131 GTTGTGGTTAATATTTTCAAATACTTTTTTATTAAGATAAAAAAATTTGAATTCAACTCGTTTAC
504179 TAGAAGTAATTTATTTTATTAGTAAATT
196 TAGAAGTAATTTATTTTATTAGTAAATT
504207 TTTTGT
1 TTTTGT
504213 TCTATATTAT
Statistics
Matches: 446, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
223 446 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (223 bp):
TTTTGTATTTATATAATTTTAATATATTAATAATTTATATTATATAAATTTTGAGACATTAATAT
ATTTGTGTTGTATTTATATTATTTTTTGTATCGTATTTTTTCATAATATGTTCGTGTGTAATTGT
GTTGTGGTTAATATTTTCAAATACTTTTTTATTAAGATAAAAAAATTTGAATTCAACTCGTTTAC
TAGAAGTAATTTATTTTATTAGTAAATT
Found at i:504045 original size:32 final size:32
Alignment explanation
Indices: 503992--504052 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
503982 TTTTTTGTAT
* *
503992 TTATATAATTTTAATATATTAATA-ATTTATA
1 TTATATAATTTTAAGACATTAATATATTTATA
*
504023 TTATATAAATTTTGAGACATTAATATATTT
1 TTATAT-AATTTTAAGACATTAATATATTT
504053 GTGTTGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 6 0.24
32 15 0.60
33 4 0.16
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (32 bp):
TTATATAATTTTAAGACATTAATATATTTATA
Found at i:506408 original size:11 final size:11
Alignment explanation
Indices: 506389--506422 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
506379 AATTAACTTA
*
506389 AAATGTTTTTT
1 AAATTTTTTTT
506400 AAATTTTTTTT
1 AAATTTTTTTT
506411 AAATTTCTTTTT
1 AAATTT-TTTTT
506423 TAAGTGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (11 bp):
AAATTTTTTTT
Found at i:507258 original size:13 final size:13
Alignment explanation
Indices: 507240--507269 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
507230 ATATTTTTAA
507240 AATATTCATATCT
1 AATATTCATATCT
*
507253 AATATTTATATCT
1 AATATTCATATCT
507266 AATA
1 AATA
507270 CATATTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATTCATATCT
Found at i:508546 original size:22 final size:22
Alignment explanation
Indices: 508496--508555 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
508486 TTGAGCGTCA
508496 TTTTAAATAATTAAATTTTAATT
1 TTTTAAATAA-TAAATTTTAATT
* * *
508519 TATTAAATAATATATTTTACTT
1 TTTTAAATAATAAATTTTAATT
508541 TTTT-AATAATAAATT
1 TTTTAAATAATAAATT
508556 AATTGATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 10 0.31
22 13 0.41
23 9 0.28
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTAAATAATAAATTTTAATT
Found at i:508579 original size:15 final size:15
Alignment explanation
Indices: 508544--508601 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
508534 TTTACTTTTT
* *
508544 TAATAATAAATTAAT
1 TAATAATAATTTAAA
*
508559 TGATAATAATTTAAA
1 TAATAATAATTTAAA
508574 TAAT-A-AATTT-AA
1 TAATAATAATTTAAA
*
508586 TAATAAATAATATAAA
1 TAAT-AATAATTTAAA
508602 AAATTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
12 6 0.18
13 5 0.15
14 2 0.06
15 19 0.56
16 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TAATAATAATTTAAA
Found at i:508592 original size:12 final size:12
Alignment explanation
Indices: 508542--508593 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
508532 ATTTTACTTT
508542 TTTAATAATAAA
1 TTTAATAATAAA
*
508554 -TTAATTGATAATAA
1 TTTAA-TAAT-A-AA
508568 TTTAAATAATAAA
1 TTT-AATAATAAA
508581 TTTAATAATAAA
1 TTTAATAATAAA
508593 T
1 T
508594 AATATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
11 4 0.12
12 13 0.39
13 6 0.18
14 3 0.09
15 5 0.15
16 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
TTTAATAATAAA
Found at i:508813 original size:20 final size:20
Alignment explanation
Indices: 508775--508811 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
508765 TTTTATAAAA
*
508775 ATTATAACTGAAATATTTAT
1 ATTATAACTGAAAAATTTAT
508795 ATTATAA-TGAAAAATTT
1 ATTATAACTGAAAAATTT
508812 TAAGTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (20 bp):
ATTATAACTGAAAAATTTAT
Found at i:509243 original size:20 final size:20
Alignment explanation
Indices: 509218--509292 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 20
509208 TTAATATTTA
* *
509218 AAAATTTAAATAATTAAAAT
1 AAAATTAAAATAAATAAAAT
509238 AAAATTAAAATAAATAAAATT
1 AAAATTAAAATAAATAAAA-T
*
509259 AATTAATTAAATTAAACTTAAAAT
1 AA--AATTAAAATAAA--TAAAAT
509283 AAAA-TAAAAT
1 AAAATTAAAAT
509293 TAATTAGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
20 17 0.37
21 8 0.17
22 2 0.04
23 11 0.24
24 3 0.07
25 5 0.11
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTAAAATAAATAAAAT
Found at i:509268 original size:34 final size:35
Alignment explanation
Indices: 509218--509298 Score: 119
Period size: 34 Copynumber: 2.3 Consensus size: 35
509208 TTAATATTTA
*
509218 AAAATTTAAATAATTAAAATAAAATTAAAAT-AAAT
1 AAAA-TTAATTAATTAAAATAAAATTAAAATAAAAT
* *
509253 AAAATTAATTAATTAAATTAAACTTAAAATAAAAT
1 AAAATTAATTAATTAAAATAAAATTAAAATAAAAT
509288 AAAATTAATTA
1 AAAATTAATTA
509299 GGTACAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
34 23 0.55
35 19 0.45
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (35 bp):
AAAATTAATTAATTAAAATAAAATTAAAATAAAAT
Found at i:509633 original size:33 final size:35
Alignment explanation
Indices: 509562--509634 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
509552 TAAATTTTGA
***
509562 TAAA-AATTATAATATAATATAAATTTTAATTTTTT
1 TAAATAATTATAATATAATATAAA-TTTAATTGAAT
509597 TAAATAATTATAA-ATAATATAAA-TTAATTGAAT
1 TAAATAATTATAATATAATATAAATTTAATTGAAT
509630 TAAAT
1 TAAAT
509635 TTTAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 12 0.35
35 14 0.41
36 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (35 bp):
TAAATAATTATAATATAATATAAATTTAATTGAAT
Found at i:510488 original size:25 final size:25
Alignment explanation
Indices: 510446--510496 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
510436 AGAAACTCTT
*
510446 AAAAAAAAGTTAACAAAA-TCTAAAA
1 AAAAAAAAGATAACAAAAGT-TAAAA
510471 AAAAAAAAGCATAA-AAAAGTTAAAA
1 AAAAAAAAG-ATAACAAAAGTTAAAA
510496 A
1 A
510497 TAATAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.14
Consensus pattern (25 bp):
AAAAAAAAGATAACAAAAGTTAAAA
Found at i:511604 original size:38 final size:38
Alignment explanation
Indices: 511505--511604 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
511495 TGACGGTTAA
* * * * *
511505 AAAATTCAATTTGAAATTAATTGACGGCTGACGATTAG
1 AAAATTCAATTTGAAATTGATCGGCGACTGACGACTAG
* * *
511543 AAAATTTAATTTAAAATTGATCGGCGACTTACGACTAG
1 AAAATTCAATTTGAAATTGATCGGCGACTGACGACTAG
*
511581 AGAATTCAATTTGAAATTGATCGG
1 AAAATTCAATTTGAAATTGATCGG
511605 TGGCTAGAGA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (38 bp):
AAAATTCAATTTGAAATTGATCGGCGACTGACGACTAG
Found at i:511687 original size:50 final size:50
Alignment explanation
Indices: 511632--511731 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
511622 ATTGAACTCT
511632 CTTTGATTTGTTTTGCCTATAAATATGTTATCTCCCATGAACTTAAGGCA
1 CTTTGATTTGTTTTGCCTATAAATATGTTATCTCCCATGAACTTAAGGCA
511682 CTTTGATTTGTTTTGCCTATAAATATGTTATCTCCCATGAACTTAAGGCA
1 CTTTGATTTGTTTTGCCTATAAATATGTTATCTCCCATGAACTTAAGGCA
511732 ATTAGAATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (50 bp):
CTTTGATTTGTTTTGCCTATAAATATGTTATCTCCCATGAACTTAAGGCA
Found at i:516388 original size:13 final size:13
Alignment explanation
Indices: 516370--516394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
516360 CAAAGATCAG
516370 TGTATCGATACAA
1 TGTATCGATACAA
516383 TGTATCGATACA
1 TGTATCGATACA
516395 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:517453 original size:49 final size:49
Alignment explanation
Indices: 517262--518021 Score: 866
Period size: 49 Copynumber: 16.0 Consensus size: 49
517252 TTAGGAATGC
*
517262 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
** * * * *
517311 TAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCTAGCGATATTGGACT
1 TAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* * * * * * *
517363 TAAAAATGACAAAGGCGCTAATATGCTGATTCAAGGTCAGCGATATTGGACT
1 TAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* * *
517415 TAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* *
517464 T----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
517507 T----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* * *
517550 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
*
517599 T----A--AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
*
517642 TAAAGGTG-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
517690 TAAAGATGAAGGTGCCAATGTGCTGAGTT-AAGGCCAGCTACATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGA-TTCAAGGCCAGCTACATTGGACT
* * *
517739 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* *
517788 T--A-AT---GGTGTCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* *
517831 TCAAGGTG-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* * * * *
517879 TAAAGATGAAGGTGCCAATATGCTGATTCAGGGCTAGCGATATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
517928 T----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
* * * *
517971 TAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCT
1 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
518020 TA
1 TA
518022 GAAGGGTTGC
Statistics
Matches: 631, Mismatches: 50, Indels: 60
0.85 0.07 0.08
Matches are distributed among these distances:
43 194 0.31
45 4 0.01
46 3 0.00
47 3 0.00
48 91 0.14
49 244 0.39
50 2 0.00
52 90 0.14
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
Found at i:517469 original size:22 final size:22
Alignment explanation
Indices: 517444--517512 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
517434 ATGCTGATTC
517444 AAGGCCAGCGATATTGGACTTA
1 AAGGCCAGCGATATTGGACTTA
* * *
517466 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCGATAT-TG--GACTTA
517487 AAGGCCAGCGATATTGGACTTA
1 AAGGCCAGCGATATTGGACTTA
517509 AAGG
1 AAGG
517513 TGCCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (22 bp):
AAGGCCAGCGATATTGGACTTA
Found at i:517490 original size:21 final size:21
Alignment explanation
Indices: 517466--517533 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
517456 ATTGGACTTA
517466 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
517487 AAGGCCAGCGATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
517509 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
517530 AAGG
1 AAGG
517534 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:517517 original size:24 final size:24
Alignment explanation
Indices: 517447--517517 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
517437 CTGATTCAAG
517447 GCCAGCGATATTGGACTTAAAGGT
1 GCCAGCGATATTGGACTTAAAGGT
** ** *
517471 GCCAATG-TGCT-GA-TTCAA-G-
1 GCCAGCGATATTGGACTTAAAGGT
517490 GCCAGCGATATTGGACTTAAAGGT
1 GCCAGCGATATTGGACTTAAAGGT
517514 GCCA
1 GCCA
517518 ATGTGCTGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 5 0.16
20 3 0.09
21 6 0.19
22 6 0.19
23 3 0.09
24 9 0.28
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (24 bp):
GCCAGCGATATTGGACTTAAAGGT
Found at i:517560 original size:92 final size:94
Alignment explanation
Indices: 517262--518021 Score: 761
Period size: 92 Copynumber: 8.0 Consensus size: 94
517252 TTAGGAATGC
* * * **
517262 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAC
1 TAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT--A-A-G---AAGGT
* * *
517327 GCCAATATGCTGATTCAAGGCTAGCGATATTGGACT
59 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACT
* * * * * *
517363 TAAAAATGACAAAGGCGCTAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATGAAGGT
1 T--AAA-GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT--A-A-GAAGGT
* *
517428 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-
59 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACT
* *
517463 T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-A-AAGGTGCCAATG
1 TAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAGAAGGTGCCAATA
517521 TGCTGATTCAAGGCCAGCTACATTGGACT
66 TGCTGATTCAAGGCCAGCTACATTGGACT
* *
517550 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-A-AAGGTGCCAATG
1 TAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAGAAGGTGCCAATA
*
517613 TGCTGAGTCAAGGCCAGCTACATTGGACT
66 TGCTGATTCAAGGCCAGCTACATTGGACT
* * *
517642 TAAAGGT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
1 TAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT--A-A-GAAGGTGCC
*
517706 AATGTGCTGAGTT-AAGGCCAGCTACATTGGACT
62 AATATGCTGA-TTCAAGGCCAGCTACATTGGACT
* * * *
517739 TAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-A-ATGGTGTCAATG
1 TAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAGAAGGTGCCAATA
*
517802 TGCTGAGTCAAGGCCAGCTACATTGGACT
66 TGCTGATTCAAGGCCAGCTACATTGGACT
* * * *
517831 TCAAGGT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
1 TAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT--A-A-GAAGGTGCC
* * * *
517895 AATATGCTGATTCAGGGCTAGCGATATTGGAC-
62 AATATGCTGATTCAAGGCCAGCTACATTGGACT
*
517927 T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCC
1 TAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT----AAGAAGGTGCC
* *
517987 AATATGCTGATTCAAGGCCAGCTATATTGGGCT
62 AATATGCTGATTCAAGGCCAGCTACATTGGACT
518020 TA
1 TA
518022 GAAGGGTTGC
Statistics
Matches: 578, Mismatches: 52, Indels: 65
0.83 0.07 0.09
Matches are distributed among these distances:
86 37 0.06
87 1 0.00
88 1 0.00
91 80 0.14
92 247 0.43
93 2 0.00
94 3 0.01
95 2 0.00
96 1 0.00
97 76 0.13
98 40 0.07
100 1 0.00
101 38 0.07
103 3 0.01
104 46 0.08
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (94 bp):
TAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAGAAGGTGCCAATA
TGCTGATTCAAGGCCAGCTACATTGGACT
Found at i:517742 original size:189 final size:191
Alignment explanation
Indices: 517262--518026 Score: 926
Period size: 189 Copynumber: 4.0 Consensus size: 191
517252 TTAGGAATGC
* **
517262 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAC
1 TAAAGGTG-AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGT
* * * * *
517327 GCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAAATGACAAAGGCGCTAATATGCTGA
62 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--AAA-GATAAAGGTGCCAATATGCTGA
* * * * *
517392 TTCAAGGTCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
124 TTCAAGGCCAGCTATATTGGACTT--A-A-GAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACA
517457 TTGGACT
185 TTGGACT
*
517464 T-AA----AGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCA
1 TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
* *
517518 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGG
66 ATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGG
*
517583 CCAGCTATATTGGACTT-A-AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
131 CCAGCTATATTGGACTTAAGAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACT
*
517642 TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
1 TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
* *
517707 ATGTGCTGAGTT-AAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
66 ATATGCTGA-TTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
* * *
517771 GCCAGCTATATTGGACTT-A-ATGGTGTCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
130 GCCAGCTATATTGGACTTAAGAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACT
* *
517831 TCAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
1 TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
* * * *
517896 ATATGCTGATTCAGGGCTAGCGATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGG
66 ATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGG
* * * *
517955 CCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCT
131 CCAGCTATATTGGACTT----AAGAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACT
518020 TAGAAGG
1 TA-AAGG
518027 GTTGCCATCG
Statistics
Matches: 508, Mismatches: 35, Indels: 52
0.85 0.06 0.09
Matches are distributed among these distances:
178 38 0.07
179 2 0.00
180 1 0.00
183 81 0.16
184 41 0.08
185 3 0.01
187 37 0.07
188 4 0.01
189 251 0.49
190 6 0.01
192 1 0.00
196 40 0.08
201 2 0.00
202 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (191 bp):
TAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCA
ATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGG
CCAGCTATATTGGACTTAAGAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACT
Found at i:518065 original size:33 final size:32
Alignment explanation
Indices: 518014--518181 Score: 225
Period size: 33 Copynumber: 5.2 Consensus size: 32
518004 CCAGCTATAT
*
518014 TGGGC-TTAGA-AGGGTTGCCATCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
*
518044 TGGGCTTTAGAGAGTGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAG-GGTTGCCACCGACTTGTG
*
518077 TGGGCTTTAGAGAGTGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* * *
518109 TAGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
*
518142 TGGGCTTTAG-GAAGAGTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
518174 TGGGCTTT
1 TGGGCTTT
518182 GGGAAGGGTG
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
30 5 0.04
31 6 0.05
32 52 0.43
33 58 0.48
ACGTcount: A:0.17, C:0.18, G:0.35, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:518182 original size:65 final size:64
Alignment explanation
Indices: 518014--518183 Score: 236
Period size: 65 Copynumber: 2.6 Consensus size: 64
518004 CCAGCTATAT
* * * *
518014 TGGGC-TTAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAGAGAGTGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGAGTTGCCACCGACTTGTGTGGGCTTTGGAGAGAGGTTGCCACCAACTTGTG
* * *
518077 TGGGCTTTAGAGAGTGTTGCCACCGACTTGTGTAGGCTTTGGA-AGAAGGTTGCCACCGACTTGT
1 TGGGCTTTAGA-AGAGTTGCCACCGACTTGTGTGGGCTTTGGAGAG-AGGTTGCCACCAACTTGT
518141 G
64 G
518142 TGGGCTTTAGGAAGAGTTGCCACCGACTTGTGTGGGCTTTGG
1 TGGGCTTTA-GAAGAGTTGCCACCGACTTGTGTGGGCTTTGG
518184 GAAGGGTGAA
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
63 5 0.05
64 7 0.07
65 81 0.85
66 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.35, T:0.30
Consensus pattern (64 bp):
TGGGCTTTAGAAGAGTTGCCACCGACTTGTGTGGGCTTTGGAGAGAGGTTGCCACCAACTTGTG
Done.