Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold19
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: 2266706
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17655 characters in sequence are not A, C, G, or T
File 6 of 15
Found at i:731327 original size:8 final size:8
Alignment explanation
Indices: 731314--731343 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
731304 TATATATAAA
731314 ATAATTTT
1 ATAATTTT
731322 ATAATTTT
1 ATAATTTT
731330 ATAATTTT
1 ATAATTTT
731338 ATAATT
1 ATAATT
731344 ACTTATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATAATTTT
Found at i:736289 original size:16 final size:17
Alignment explanation
Indices: 736252--736291 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
736242 AAAAGTTAAA
* *
736252 AAATTATTTTAGATTTT
1 AAATTTTTTTAAATTTT
736269 AAATTTTTTTAAATTTT
1 AAATTTTTTTAAATTTT
736286 -AATTTT
1 AAATTTT
736292 AAATGACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
AAATTTTTTTAAATTTT
Found at i:736791 original size:12 final size:12
Alignment explanation
Indices: 736750--736801 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
736740 AATTCATGAG
736750 TTAATTTAAAAT
1 TTAATTTAAAAT
**
736762 TTATATTTAATTT
1 TTA-ATTTAAAAT
*
736775 TTAATATAAAAT
1 TTAATTTAAAAT
*
736787 TTAATTAAAAAT
1 TTAATTTAAAAT
736799 TTA
1 TTA
736802 TTTTTATTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
12 22 0.69
13 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAATTTAAAAT
Found at i:736824 original size:36 final size:37
Alignment explanation
Indices: 736750--736833 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 37
736740 AATTCATGAG
* *
736750 TTAATTTAAAATTTATATTTAATTTTTAATATAAAAT
1 TTAATTAAAAATTTATATTTAATTATTAATATAAAAT
*
736787 TTAATTAAAAATTTAT-TTTTATTAATT-AT-TAATAAT
1 TTAATTAAAAATTTATATTTAATT-ATTAATATAA-AAT
*
736823 TTATTTAAAAA
1 TTAATTAAAAA
736834 AAAAAGGGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 3 0.07
36 21 0.51
37 17 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (37 bp):
TTAATTAAAAATTTATATTTAATTATTAATATAAAAT
Found at i:737270 original size:2 final size:2
Alignment explanation
Indices: 737263--737338 Score: 134
Period size: 2 Copynumber: 38.0 Consensus size: 2
737253 CATATACCAC
737263 TA TA TA 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 TA TA TA
* *
737305 TA TA TA TA TA TA TA TA TA TA TG TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
737339 AAATTAATTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:737711 original size:25 final size:24
Alignment explanation
Indices: 737683--737733 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
737673 TTAAAAAAAT
* *
737683 TTATATTAATAAATTAAAATATTAA
1 TTAT-TTAATAAAATAAAAAATTAA
**
737708 TTATTTTTTAAAATAAAAAATTAA
1 TTATTTAATAAAATAAAAAATTAA
737732 TT
1 TT
737734 TAAAAAGTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATTTAATAAAATAAAAAATTAA
Found at i:737777 original size:116 final size:117
Alignment explanation
Indices: 737651--737886 Score: 420
Period size: 116 Copynumber: 2.0 Consensus size: 117
737641 TCATTTTTAA
*
737651 TAAAAATAATATTTAATTAACTTTAAAAAAATTTATATTAATAAATTAAAATATTAATTATTTTT
1 TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATTAATAAATTAAAATATTAATTATTTTT
* *
737716 T-AAAATAAAAAATTAATTTAAAAAGTGTTTATTATTATTTTTTGATAAAAT
66 TAAAAATAAAAAATTAAATTAAAAAGTGTTTATTATTATTTTTTAATAAAAT
* *
737767 TAAAAATAATATTTAATTAACTTTAAAAAAATTTCCATTCATAAATTAAAATATTAATTATTTTT
1 TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATTAATAAATTAAAATATTAATTATTTTT
737832 TAAAAATAAAAAATTAAATTAAAAAGTGTTTATTATTATTTTTTAATAAAAT
66 TAAAAATAAAAAATTAAATTAAAAAGTGTTTATTATTATTTTTTAATAAAAT
737884 TAA
1 TAA
737887 TTAAATTTAA
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
116 63 0.55
117 51 0.45
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (117 bp):
TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATTAATAAATTAAAATATTAATTATTTTT
TAAAAATAAAAAATTAAATTAAAAAGTGTTTATTATTATTTTTTAATAAAAT
Found at i:737891 original size:56 final size:56
Alignment explanation
Indices: 737831--737942 Score: 140
Period size: 56 Copynumber: 2.0 Consensus size: 56
737821 TAATTATTTT
*
737831 TTAAAAATAAAAAATTAAATTAAA-AAGTGT-TT-ATTATTATTTTTTAATAAAATTAA
1 TTAAAAATAAAAAATTAAA-TAAATAA-TATATTAATTATTATTTTTT-ATAAAATTAA
** *
737887 TTAAATTTAAAAAATTTAATAAATAATATATTAATTATTATTTTTTATAAAATTAA
1 TTAAAAATAAAAAATTAAATAAATAATATATTAATTATTATTTTTTATAAAATTAA
737943 AAATAATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
55 6 0.12
56 30 0.61
57 13 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (56 bp):
TTAAAAATAAAAAATTAAATAAATAATATATTAATTATTATTTTTTATAAAATTAA
Found at i:737905 original size:19 final size:18
Alignment explanation
Indices: 737873--737910 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
737863 ATTATTATTT
737873 TTTAATAAAATTAATTAAA
1 TTTAATAAAATTAA-TAAA
737892 TTTAA-AAAATTTAATAAA
1 TTTAATAAAA-TTAATAAA
737910 T
1 T
737911 AATATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTAATAAAATTAATAAA
Found at i:738271 original size:11 final size:11
Alignment explanation
Indices: 738255--738291 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
738245 TTATTACTTT
738255 TTATTTATAAA
1 TTATTTATAAA
* *
738266 TTATTTTTAAT
1 TTATTTATAAA
738277 TTATTTATAAA
1 TTATTTATAAA
738288 TTAT
1 TTAT
738292 ACAAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:738566 original size:11 final size:11
Alignment explanation
Indices: 738550--738586 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
738540 ATTATTACTT
738550 TTATTTATAAA
1 TTATTTATAAA
* *
738561 TTATTTTTAAT
1 TTATTTATAAA
738572 TTATTTATAAA
1 TTATTTATAAA
738583 TTAT
1 TTAT
738587 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:738703 original size:287 final size:290
Alignment explanation
Indices: 738133--738781 Score: 973
Period size: 287 Copynumber: 2.2 Consensus size: 290
738123 TTACATGTAC
* * * * *
738133 TATTTTTCAGTAACAACTTAAATACAAGTTTTTCTTTATCTGTAAAATGACCAAGAAAAAATTTA
1 TATTTTTCGGTAACGACTTAAATACGAGCTTTT-TTTATCTGTAAAATGATC-A-AAAAAATTTA
*
738198 TTATACATGTATTATTTTTATTAAAATTAATTAATATTATACATGTATTATTACTTTTTATTTAT
63 TTATACATGTATTATTTTTATTAAAATTAATTAATATTATACATGAATTATTACTTTTTATTTAT
738263 AAATTATTTTTAATTTATTTATAAATTATACAAATTTAATTTTTATTAAAATTAATTAATATTAT
128 AAATTATTTTTAATTTATTTATAAATTATACAAATTTAATTTTTATTAAAATTAATTAATATTAT
** *
738328 ACATGTATTATTTTTATAATTGATAGAACTTAAATTTATATTAGCCAACAATATTTTACTTTTTT
193 ACATG------TTTTATAATTGATAGAACTTAAATTTATATTAGCCAACAATAAATTACTTCTTT
* * * * *
738393 TGATAATGACTTATTTTGGATTTACAGATGTATACATTT
252 TGATAACGACTTATTTCGGATTTACAGACGCACACATTT
*
738432 TATTTTTTGGTAACGACTTAAATACGAGCTTTTTTTATCTGTAAAATGATCAAAAAAATTTATTA
1 TATTTTTCGGTAACGACTTAAATACGAGCTTTTTTTATCTGTAAAATGATCAAAAAAATTTATTA
*
738497 TACATGTATTATTTTTATTAAAATTAATTAATATTATGCATGAATTATTAC-TTTTATTTATAAA
66 TACATGTATTATTTTTATTAAAATTAATTAATATTATACATGAATTATTACTTTTTATTTATAAA
*
738561 TTATTTTTAATTTATTTATAAATTATACAAATTT-ATTTTT-TTAAAAATTAATTAATATTGTAC
131 TTATTTTTAATTTATTTATAAATTATACAAATTTAATTTTTATT-AAAATTAATTAATATTATAC
*
738624 ATG-TTTATAATTGATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTCTTTTGATAACG
195 ATGTTTTATAATTGATAGAACTTAAATTTATATTAGCCAACAATAAATTACTTCTTTTGATAACG
738688 ACTTATTTCGGATTTACAGACGCACACATTT
260 ACTTATTTCGGATTTACAGACGCACACATTT
* * *
738719 TATTCTTCGGTGATGACTTAAATACGAGCTTTATTTTATCTGTAAAATGATCAAGAAAAATTT
1 TATTTTTCGGTAACGACTTAAATACGAGCTTT-TTTTATCTGTAAAATGATCAA-AAAAATTT
738782 TCCTAACTTT
Statistics
Matches: 325, Mismatches: 22, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
287 111 0.34
288 21 0.06
289 8 0.02
293 2 0.01
294 28 0.09
295 47 0.14
296 62 0.19
297 1 0.00
298 17 0.05
299 28 0.09
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.47
Consensus pattern (290 bp):
TATTTTTCGGTAACGACTTAAATACGAGCTTTTTTTATCTGTAAAATGATCAAAAAAATTTATTA
TACATGTATTATTTTTATTAAAATTAATTAATATTATACATGAATTATTACTTTTTATTTATAAA
TTATTTTTAATTTATTTATAAATTATACAAATTTAATTTTTATTAAAATTAATTAATATTATACA
TGTTTTATAATTGATAGAACTTAAATTTATATTAGCCAACAATAAATTACTTCTTTTGATAACGA
CTTATTTCGGATTTACAGACGCACACATTT
Found at i:742416 original size:88 final size:88
Alignment explanation
Indices: 742286--742454 Score: 275
Period size: 88 Copynumber: 1.9 Consensus size: 88
742276 TCCTTGCAGT
* *
742286 TTTTTTTTCTATAAAAAAGAATCCGATTATCAGATATAATTCATGCATTAGTCTAATCCTTGCAG
1 TTTTTTTTCCATAAAAAAGAATCCGATTATCAAATATAATTCATGCATTAGTCTAATCCTTGCAG
742351 TCTGACATTTACAATTAATCAAC
66 TCTGACATTTACAATTAATCAAC
* * * *
742374 TTTTTTTTCCATAAGAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCTTTGCAG
1 TTTTTTTTCCATAAAAAAGAATCCGATTATCAAATATAATTCATGCATTAGTCTAATCCTTGCAG
*
742439 TCTGACATTTATAATT
66 TCTGACATTTACAATT
742455 GTAGACACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 74 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (88 bp):
TTTTTTTTCCATAAAAAAGAATCCGATTATCAAATATAATTCATGCATTAGTCTAATCCTTGCAG
TCTGACATTTACAATTAATCAAC
Found at i:742684 original size:20 final size:20
Alignment explanation
Indices: 742653--742727 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
742643 TCATACCCTG
*
742653 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
742673 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
742693 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
742713 ATGTATCGATACATT
1 ATGTATCGATACATT
742728 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:742720 original size:40 final size:39
Alignment explanation
Indices: 742653--742730 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
742643 TCATACCCTG
* *
742653 ATGTATCAATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCAATACATTCTACAATATATCGATACAT-TATGA
* * *
742693 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCAATACATTCTACAATATATCGATACATTATG
742731 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (39 bp):
ATGTATCAATACATTCTACAATATATCGATACATTATGA
Found at i:743700 original size:20 final size:21
Alignment explanation
Indices: 743641--743693 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
743631 AGCCTTTGAC
743641 CATGCATTTTTTATTATGTTT
1 CATGCATTTTTTATTATGTTT
743662 CATGCATTTTTTATTATGTTT
1 CATGCATTTTTTATTATGTTT
743683 CATGCATTTTT
1 CATGCATTTTT
743694 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.60
Consensus pattern (21 bp):
CATGCATTTTTTATTATGTTT
Found at i:754485 original size:16 final size:17
Alignment explanation
Indices: 754464--754496 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
754454 TATTTGTCAA
754464 ACCCGCCAGTG-TTGGT
1 ACCCGCCAGTGCTTGGT
*
754480 ACCCGCCGGTGCTTGGT
1 ACCCGCCAGTGCTTGGT
754497 CGTCCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.33, G:0.33, T:0.24
Consensus pattern (17 bp):
ACCCGCCAGTGCTTGGT
Found at i:756744 original size:10 final size:10
Alignment explanation
Indices: 756729--756793 Score: 71
Period size: 10 Copynumber: 6.5 Consensus size: 10
756719 ATTTACACCC
756729 AAAAAAAACA
1 AAAAAAAACA
756739 AAAAAAAACA
1 AAAAAAAACA
756749 AAAAAAAA-A
1 AAAAAAAACA
*
756758 ACAAAACAA-A
1 A-AAAAAAACA
*
756768 AAAAAAAAGA
1 AAAAAAAACA
*
756778 AAAAAATAGCA
1 AAAAAA-AACA
756789 AAAAA
1 AAAAA
756794 TAGAAGGGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
9 8 0.17
10 33 0.69
11 7 0.15
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.02
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:756753 original size:17 final size:17
Alignment explanation
Indices: 756730--756780 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
756720 TTTACACCCA
*
756730 AAAAAAACAAAAAAAAAC
1 AAAAAAA-AAAACAAAAC
756748 AAAAAAAAAAACAAAAC
1 AAAAAAAAAAACAAAAC
*
756765 AAAAAAAAAAAGAAAA
1 AAAAAAAAAAACAAAA
756781 AAATAGCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 24 0.77
18 7 0.23
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAACAAAAC
Found at i:756793 original size:1 final size:1
Alignment explanation
Indices: 756729--756783 Score: 65
Period size: 1 Copynumber: 55.0 Consensus size: 1
756719 ATTTACACCC
* * * * *
756729 AAAAAAAACAAAAAAAAACAAAAAAAAAAACAAAACAAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
756784 TAGCAAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:758053 original size:29 final size:29
Alignment explanation
Indices: 758011--758785 Score: 1117
Period size: 29 Copynumber: 27.0 Consensus size: 29
758001 AATGTTCATC
758011 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
758040 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
758069 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
758097 CCTTTCAAAGCCCACAAATCAGTGGCATT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
758126 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
758154 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
758183 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
758211 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
758239 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
758268 CCTTTCAAATCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
758297 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
758325 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
758354 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
758383 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
758412 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
758440 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
758469 CCTTTCAAAGCCCACAAGTCAGTGGCATT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
758498 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
758527 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
758555 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
758583 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
758611 CTTTTCGAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * *
758640 -ATTGCGAAGCCCATAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
758668 -CTTTTAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
758695 CCTTTTAAAGCCCACACAAGTCAATGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * *
758726 CCTTTTAAAGCTCACGCAAGTCAGTGGTAC-
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACT
*
758756 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
758785 C
1 C
758786 TTNNNNNNNN
Statistics
Matches: 678, Mismatches: 56, Indels: 24
0.89 0.07 0.03
Matches are distributed among these distances:
28 304 0.45
29 324 0.48
30 25 0.04
31 25 0.04
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:758187 original size:86 final size:86
Alignment explanation
Indices: 758011--758785 Score: 1107
Period size: 86 Copynumber: 9.0 Consensus size: 86
758001 AATGTTCATC
* * *
758011 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
758076 AAGCCCACAAGTCAGTGGCAC-
65 AAGCCCACAAGTCAGTGGCACT
* *
758097 CCTTTCAAAGCCCACAAATCAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
758162 AGCCCACAAGTCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
* *
758183 CCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
758247 AGCCCACAAGTCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
* * *
758268 CCTTTCAAATCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
758333 AGCCCACAAGTCAGTGGCACT
66 AGCCCACAAGTCAGTGGCACT
* *
758354 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
*
758419 AAGCCCACAAGTTAGTGGCAC-
65 AAGCCCACAAGTCAGTGGCACT
* * *
758440 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCA
*
758505 AAGCCCACAAATCAGTGGCACT
65 AAGCCCACAAGTCAGTGGCACT
* * * *
758527 CTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAG
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
758591 AGCCCACAAGTCAGTGGCAC-
66 AGCCCACAAGTCAGTGGCACT
* * * * * * * * *
758611 CTTTTCGAAGCCCACAAGTCAGTGGCACT-ATTGCGAAGCCCATAATTCAGTGGCACTCTTTTAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
758675 AGCCCACAAGTCAGTGGCAC-
66 AGCCCACAAGTCAGTGGCACT
* * * * *
758695 CCTTTTAAAGCCCACACAAGTCAATGGCACTCCTTTT-AAAGCTCACGCAAGTCAGTGGTACCTT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT-CTTTTCAAAGC-C-CACAAGTCAGTGGCACCCT
758759 TTCAAAGCCCACAAGTCAGTGGCACT
61 TTCAAAGCCCACAAGTCAGTGGCACT
758785 C
1 C
758786 TTNNNNNNNN
Statistics
Matches: 621, Mismatches: 55, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
84 80 0.13
85 135 0.22
86 308 0.50
87 57 0.09
88 3 0.00
89 37 0.06
90 1 0.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (86 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
AGCCCACAAGTCAGTGGCACT
Found at i:776802 original size:34 final size:35
Alignment explanation
Indices: 776746--776814 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
776736 TTCACTTGAC
*
776746 CGTTTCCTTCTCCTTGCAAAACCAATTTACTTAAA
1 CGTTACCTTCTCCTTGCAAAACCAATTTACTTAAA
* *
776781 CGTTACCTTCT-CTTGCGAAACCATTTTACTTAAA
1 CGTTACCTTCTCCTTGCAAAACCAATTTACTTAAA
776815 AGATTGACGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 21 0.68
35 10 0.32
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (35 bp):
CGTTACCTTCTCCTTGCAAAACCAATTTACTTAAA
Found at i:783207 original size:24 final size:25
Alignment explanation
Indices: 783156--783213 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 25
783146 TGGGTGGCTA
*
783156 GTCAACAAAAACCACCCTTTGTGTTT
1 GTCAACAAAAACCA-CCTATGTGTTT
*
783182 GTCAACAAAAGCCA-CTATGTGTTT
1 GTCAACAAAAACCACCTATGTGTTT
783206 GTCAACAA
1 GTCAACAA
783214 TGGTGGTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 17 0.57
26 13 0.43
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (25 bp):
GTCAACAAAAACCACCTATGTGTTT
Found at i:783242 original size:27 final size:27
Alignment explanation
Indices: 783203--783268 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
783193 CCACTATGTG
*
783203 TTTGTCAACAATGGTGGTTACTTTGTA
1 TTTGTCAAAAATGGTGGTTACTTTGTA
* * *
783230 TTTGTCAAAAATGGTGGTTTCTTTTTG
1 TTTGTCAAAAATGGTGGTTACTTTGTA
783257 TTTGTCAAAAAT
1 TTTGTCAAAAAT
783269 TATGGCTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTACTTTGTA
Found at i:783298 original size:24 final size:24
Alignment explanation
Indices: 783230--783299 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
783220 TTACTTTGTA
* *
783230 TTTGTCAAAAATGGTGGTTTCTTTTTG
1 TTTGTCAAAATTGGTGG---CTTGTTG
*
783257 TTTGTCAAAAATT-ATGGCTTGTTG
1 TTTGTC-AAAATTGGTGGCTTGTTG
783281 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAATTGGTGGCT
783300 AATTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.16
24 17 0.46
27 9 0.24
28 5 0.14
ACGTcount: A:0.21, C:0.09, G:0.23, T:0.47
Consensus pattern (24 bp):
TTTGTCAAAATTGGTGGCTTGTTG
Found at i:785873 original size:21 final size:22
Alignment explanation
Indices: 785844--785889 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
785834 TGTTCAGACA
* *
785844 AGTAGTACTCCACAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
785866 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
785887 AGT
1 AGT
785890 TTCAACAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:787798 original size:27 final size:27
Alignment explanation
Indices: 787761--787833 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
787751 AAAAACCACC
*
787761 CTTTGTGTTTGTCAACAATGGTGGTTA
1 CTTTGTGTTTGTCAAAAATGGTGGTTA
* *
787788 CTTTGTATTTGTCAAAAATGGTGGTTC
1 CTTTGTGTTTGTCAAAAATGGTGGTTA
*
787815 CTTTTTGTTTGTCAAAAAT
1 CTTTGTGTTTGTCAAAAAT
787834 TATGGCTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.47
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAATGGTGGTTA
Found at i:787863 original size:24 final size:24
Alignment explanation
Indices: 787795--787864 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
787785 TTACTTTGTA
* *
787795 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAATTGGTGG---CTTGTTG
*
787822 TTTGTCAAAAATT-ATGGCTTGTTG
1 TTTGTC-AAAATTGGTGGCTTGTTG
787846 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAATTGGTGGCT
787865 AATTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.16
24 17 0.46
27 9 0.24
28 5 0.14
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAATTGGTGGCTTGTTG
Found at i:795878 original size:25 final size:25
Alignment explanation
Indices: 795850--795897 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
795840 TCAACAATAG
*
795850 TTGATAAAGTCTGTATTCAAGGGGC
1 TTGATAAAGTCCGTATTCAAGGGGC
*
795875 TTGATAAAGTCCGTATTCGAGGG
1 TTGATAAAGTCCGTATTCAAGGG
795898 CCATAATAAC
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:0.27, C:0.12, G:0.29, T:0.31
Consensus pattern (25 bp):
TTGATAAAGTCCGTATTCAAGGGGC
Found at i:795906 original size:25 final size:25
Alignment explanation
Indices: 795853--795906 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
795843 ACAATAGTTG
* * * *
795853 ATAAAGTCTGTATTCAAGGGGCTTG
1 ATAAAGTCCGTATTCAAGGGCCATA
*
795878 ATAAAGTCCGTATTCGAGGGCCATA
1 ATAAAGTCCGTATTCAAGGGCCATA
795903 ATAA
1 ATAA
795907 CTACACCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (25 bp):
ATAAAGTCCGTATTCAAGGGCCATA
Found at i:797034 original size:141 final size:140
Alignment explanation
Indices: 796775--797035 Score: 355
Period size: 141 Copynumber: 1.9 Consensus size: 140
796765 ATTGGGCTAC
* * * *
796775 GACCACTTTCACCCTAGTGGCAAGGTTTATATTTATAATGTAACCTTAAAAAGGATATAAAAATG
1 GACCACTTTCACCCTAGTGGCAAGGTCTATATTCATAACGTAACCTCAAAAAGGATATAAAAAT-
* * *
796840 CTAGCATATAATACCATTGTATTTATCCCTAATGGTAGGGTCCAGAACATAGCCAGGTCAAATAA
65 CTAGCATACAATACCATTGTATTTATCCCCAATGGTAAGGTCCAGAACATAGCCAGGTCAAATAA
796905 CACTAGACTAT
130 CACTAGACTAT
* *
796916 GACCACTTTCACCCTAGTGGCAAGGTCTATATTCATAACGTGACCTCAGAAAA-GATACGTAAAT
1 GACCACTTTCACCCTAGTGGCAAGGTCTATATTCATAACGTAACCTCA-AAAAGGATA--TAAAA
* * * *
796980 AT-TAGTATACAGTACCATTGTATTTATCCCCAATGGTAAGGTCTAGAACGTAGCCA
63 ATCTAGCATACAATACCATTGTATTTATCCCCAATGGTAAGGTCCAGAACATAGCCA
797036 AATTCAAAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
141 94 0.90
142 4 0.04
143 6 0.06
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (140 bp):
GACCACTTTCACCCTAGTGGCAAGGTCTATATTCATAACGTAACCTCAAAAAGGATATAAAAATC
TAGCATACAATACCATTGTATTTATCCCCAATGGTAAGGTCCAGAACATAGCCAGGTCAAATAAC
ACTAGACTAT
Found at i:797608 original size:3 final size:3
Alignment explanation
Indices: 797597--797633 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
797587 AAAAAAAATC
*
797597 ATT AGT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
797634 AAATAGAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:798962 original size:16 final size:16
Alignment explanation
Indices: 798935--799029 Score: 59
Period size: 16 Copynumber: 5.9 Consensus size: 16
798925 AAAATTTTCG
*
798935 AGTCATTTTTGGGTTCA
1 AGTCA-TTTTAGGTTCA
*
798952 AGTCATTTTGGGTTC-
1 AGTCATTTTAGGTTCA
* *
798967 GGATCATTTCAGGTTCA
1 AG-TCATTTTAGGTTCA
*
798984 AGTTATTTTAGGTTCGA
1 AGTCATTTTAGGTTC-A
** *
799001 A-TTGTTTCAGGTTCA
1 AGTCATTTTAGGTTCA
* *
799016 GGTCATTTTGGGTT
1 AGTCATTTTAGGTT
799030 TAGGTAATCA
Statistics
Matches: 61, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
15 2 0.03
16 51 0.84
17 8 0.13
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.45
Consensus pattern (16 bp):
AGTCATTTTAGGTTCA
Found at i:798983 original size:32 final size:32
Alignment explanation
Indices: 798946--799029 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
798936 GTCATTTTTG
*
798946 GGTTCAAGTCATTTTGGGTTCGGATCATTTCA
1 GGTTCAAGTCATTTTGGGTTCGAATCATTTCA
* * **
798978 GGTTCAAGTTATTTTAGGTTCGAATTGTTTCA
1 GGTTCAAGTCATTTTGGGTTCGAATCATTTCA
*
799010 GGTTCAGGTCATTTTGGGTT
1 GGTTCAAGTCATTTTGGGTT
799030 TAGGTAATCA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.44
Consensus pattern (32 bp):
GGTTCAAGTCATTTTGGGTTCGAATCATTTCA
Found at i:799911 original size:16 final size:15
Alignment explanation
Indices: 799882--799944 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 15
799872 TAATTGTTTG
**
799882 GGTCATTTCAGGTTC
1 GGTCATTTTGGGTTC
*
799897 GGATCATTTTGGGTTTG
1 GG-TCATTTTGGG-TTC
*
799914 GGTCATTTTGGATTC
1 GGTCATTTTGGGTTC
799929 TGGTCATTTTCGGGTT
1 -GGTCATTTT-GGGTT
799945 TACATCGGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 4 0.11
16 26 0.68
17 8 0.21
ACGTcount: A:0.11, C:0.13, G:0.30, T:0.46
Consensus pattern (15 bp):
GGTCATTTTGGGTTC
Found at i:799936 original size:32 final size:33
Alignment explanation
Indices: 799877--799945 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 33
799867 CAGGTTAATT
799877 GTTTGGGTCATTTCAGGTTCGGATCATTTT-GG
1 GTTTGGGTCATTTCAGGTTCGGATCATTTTCGG
*
799909 GTTTGGGTCATTT-TGGATTCTGG-TCATTTTCGG
1 GTTTGGGTCATTTCAGG-TTC-GGATCATTTTCGG
799942 GTTT
1 GTTT
799946 ACATCGGTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
31 2 0.06
32 23 0.70
33 8 0.24
ACGTcount: A:0.10, C:0.12, G:0.30, T:0.48
Consensus pattern (33 bp):
GTTTGGGTCATTTCAGGTTCGGATCATTTTCGG
Found at i:804741 original size:2 final size:2
Alignment explanation
Indices: 804734--804793 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
804724 ATGTCCACAT
804734 TA TA TA 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 TA TA TA
804776 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
804794 GAGGATGATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:806317 original size:17 final size:18
Alignment explanation
Indices: 806292--806328 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
806282 TGGAAAAAAG
806292 TTAAATA-TTTTATTTTA
1 TTAAATATTTTTATTTTA
*
806309 TTAATTATTTTTATTTTA
1 TTAAATATTTTTATTTTA
806327 TT
1 TT
806329 TTAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTAAATATTTTTATTTTA
Found at i:806344 original size:23 final size:23
Alignment explanation
Indices: 806297--806344 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
806287 AAAAGTTAAA
* *
806297 TATTTTATTTTATTAATTATTTT
1 TATTTTATTTTAATAATTATATT
806320 TATTTTATTTTAAATAA-TATATT
1 TATTTTATTTT-AATAATTATATT
806343 TA
1 TA
806345 AAATATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTTATTTTAATAATTATATT
Found at i:806449 original size:13 final size:13
Alignment explanation
Indices: 806407--806454 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
806397 TGTTTGGAAA
806407 AAATAATTTA-TT
1 AAATAATTTATTT
* *
806419 AATTATTTTAATTTT
1 AAATAATTT-A-TTT
806434 AAATAATTTATTT
1 AAATAATTTATTT
806447 AAATAATT
1 AAATAATT
806455 GATCTGTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 7 0.24
13 12 0.41
14 1 0.03
15 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATAATTTATTT
Found at i:806619 original size:15 final size:15
Alignment explanation
Indices: 806599--806628 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
806589 ATTTAATTTT
*
806599 ATATATAAATTTTAA
1 ATATATAAAATTTAA
806614 ATATATAAAATTTAA
1 ATATATAAAATTTAA
806629 TTAAAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATAAAATTTAA
Found at i:806650 original size:10 final size:10
Alignment explanation
Indices: 806637--806671 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
806627 AATTAAAAAT
* *
806637 TAATTTTTAT
1 TAATTATTAA
806647 TAATTATTAA
1 TAATTATTAA
806657 TAATTATTAA
1 TAATTATTAA
806667 TAATT
1 TAATT
806672 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TAATTATTAA
Found at i:807146 original size:2 final size:2
Alignment explanation
Indices: 807141--807184 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
807131 GTGTGTGTCG
807141 CT CT CT CT CT 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 CT CT CT CT CT
807183 CT
1 CT
807185 ACATATATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:807228 original size:26 final size:29
Alignment explanation
Indices: 807190--807252 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
807180 TCTCTACATA
*
807190 TATATATATATATATAAA-TAAATTTA-TT
1 TATATATATATATA-AAATTAAATTAATTT
807218 TATAT-TA-ATATAAAATTAAATTAATTT
1 TATATATATATATAAAATTAAATTAATTT
807245 TATATATA
1 TATATATA
807253 AATTTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 3 0.10
26 12 0.39
27 9 0.29
28 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TATATATATATATAAAATTAAATTAATTT
Found at i:807262 original size:22 final size:22
Alignment explanation
Indices: 807197--807270 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
807187 ATATATATAT
* *
807197 ATATATATAAATAAA-TTTATTT
1 ATAT-TATATATAAATTTTATTA
**
807219 ATATTA-ATATAAAATTAAATTA
1 ATATTATATAT-AAATTTTATTA
*
807241 ATTTTATATATAAATTTTATTA
1 ATATTATATATAAATTTTATTA
807263 ATA-TATAT
1 ATATTATAT
807271 TTTAAATATA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
20 3 0.07
21 10 0.24
22 24 0.59
23 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTATATATAAATTTTATTA
Found at i:807272 original size:15 final size:15
Alignment explanation
Indices: 807248--807290 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
807238 TTAATTTTAT
*
807248 ATATAAATTTTATTA
1 ATATATATTTTATTA
807263 ATATATATTTTA--A
1 ATATATATTTTATTA
807276 ATATAT-TTTTATTA
1 ATATATATTTTATTA
807290 A
1 A
807291 ATAAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 5 0.20
13 7 0.28
14 2 0.08
15 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATATATTTTATTA
Found at i:807291 original size:15 final size:14
Alignment explanation
Indices: 807232--807293 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 14
807222 TTAATATAAA
807232 ATTAAAT-TAATTTT
1 ATTAAATAT-ATTTT
* *
807246 A-TATATAAATTTT
1 ATTAAATATATTTT
*
807259 ATT-AATATATATT
1 ATTAAATATATTTT
807272 -TTAAATATATTTTT
1 ATTAAATATA-TTTT
807286 ATTAAATA
1 ATTAAATA
807294 AATTAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
12 2 0.05
13 23 0.62
14 5 0.14
15 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTAAATATATTTT
Found at i:808680 original size:13 final size:13
Alignment explanation
Indices: 808662--808688 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
808652 ACATTATGCT
808662 TTGTATCGATACA
1 TTGTATCGATACA
808675 TTGTATCGATACA
1 TTGTATCGATACA
808688 T
1 T
808689 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:808783 original size:20 final size:20
Alignment explanation
Indices: 808733--808806 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
808723 CTACCACTAT
*
808733 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
* *
808753 TTATATTGATACATGATGAA
1 TTGTATCGATACATGATGAA
808773 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
808793 TTGTATCGATACAT
1 TTGTATCGATACAT
808807 TGCTTGTAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 47 0.98
21 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:815121 original size:20 final size:22
Alignment explanation
Indices: 815087--815127 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
815077 ACAAATTTCC
*
815087 TCATTTTTACTTC-AAATCACT
1 TCATTTTTACATCAAAATCACT
815108 TCATTTTT-CATCAAAATCAC
1 TCATTTTTACATCAAAATCAC
815128 CAACAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (22 bp):
TCATTTTTACATCAAAATCACT
Found at i:817490 original size:13 final size:13
Alignment explanation
Indices: 817472--817498 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
817462 ACATTATGCT
817472 TTGTATCAATACA
1 TTGTATCAATACA
817485 TTGTATCAATACA
1 TTGTATCAATACA
817498 T
1 T
817499 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:817513 original size:32 final size:33
Alignment explanation
Indices: 817453--817517 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
817443 CATACCCAGA
* * *
817453 TGTATCGATACATTATGCTTTGTATCAATACAT
1 TGTATCAATACATGATGCATTGTATCAATACAT
817486 TGTATCAATACATGAT-CATTGTATCAATACAT
1 TGTATCAATACATGATGCATTGTATCAATACAT
817518 GGACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (33 bp):
TGTATCAATACATGATGCATTGTATCAATACAT
Found at i:817528 original size:20 final size:20
Alignment explanation
Indices: 817483--817538 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
817473 TGTATCAATA
817483 CATTGTATCAATACAT-GAT
1 CATTGTATCAATACATGGAT
817502 CATTGTATCAATACATGGA-
1 CATTGTATCAATACATGGAT
*
817521 CAATTGTATCGATACATG
1 C-ATTGTATCAATACATG
817539 AAACTAGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
CATTGTATCAATACATGGAT
Found at i:818926 original size:71 final size:75
Alignment explanation
Indices: 818796--818939 Score: 190
Period size: 71 Copynumber: 2.0 Consensus size: 75
818786 TATTTTTAAA
* * *
818796 TTATTATAAAATAATATCTTAATTGAATACATTAAAAATAATAAATAAAATTATTTATTTTTATA
1 TTATTATAAAATAATATCTTAACT-AATACATTAAAAATAATAAATAAAATTATCTATTTCTAT-
818861 ATTAATATAATT
64 ATTAATATAATT
* *
818873 TTATTAT-AAATAATATCTTAACT-A-AC-TTTAAAA-AATAAATAAAATTATCTATTTCTATTT
1 TTATTATAAAATAATATCTTAACTAATACATTAAAAATAATAAATAAAATTATCTATTTCTATAT
818933 TAATATA
66 TAATATA
818940 TAGTATAGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
70 8 0.13
71 23 0.37
72 6 0.10
73 2 0.03
74 1 0.02
76 15 0.24
77 7 0.11
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (75 bp):
TTATTATAAAATAATATCTTAACTAATACATTAAAAATAATAAATAAAATTATCTATTTCTATAT
TAATATAATT
Found at i:819001 original size:18 final size:18
Alignment explanation
Indices: 818978--819022 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
818968 ATAATTCAAT
*
818978 TAATTTTAAATATTTTTA
1 TAATTTTAAATATTATTA
*
818996 TAATTTTATATATTATTA
1 TAATTTTAAATATTATTA
819014 -ATATTTTAA
1 TA-ATTTTAA
819023 CAAATCAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATTTTAAATATTATTA
Found at i:820510 original size:20 final size:19
Alignment explanation
Indices: 820487--820547 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
820477 CAAATTATGA
820487 AAATAATTTAAATATTAAAT
1 AAATAATTTAAAT-TTAAAT
*
820507 AAATAATTTTAATGTTAAAT
1 AAATAATTTAAAT-TTAAAT
820527 AAAT-A-TTAAATTT-AAT
1 AAATAATTTAAATTTAAAT
820543 AAATA
1 AAATA
820548 TCTAATAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.19
17 2 0.05
18 5 0.14
19 1 0.03
20 22 0.59
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAATAATTTAAATTTAAAT
Found at i:820543 original size:16 final size:16
Alignment explanation
Indices: 820495--820548 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
820485 GAAAATAATT
*
820495 TAAATATTAAA-TAAA
1 TAAATATTAAATTTAA
*
820510 T-AAT-TTTAATGTTAAA
1 TAAATATTAAAT-TT-AA
820526 TAAATATTAAATTTAA
1 TAAATATTAAATTTAA
820542 TAAATAT
1 TAAATAT
820549 CTAATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
13 4 0.13
14 3 0.10
15 2 0.06
16 12 0.39
17 5 0.16
18 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TAAATATTAAATTTAA
Found at i:821489 original size:2 final size:2
Alignment explanation
Indices: 821482--821522 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
821472 CTTAATTATT
821482 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
821523 ATATATATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:821527 original size:2 final size:2
Alignment explanation
Indices: 821522--821556 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
821512 TCTCTCTCTC
821522 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 T
821557 GGTGAATAGG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:822378 original size:18 final size:18
Alignment explanation
Indices: 822357--822410 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 18
822347 TATATTTTTA
822357 TAAATACATATTTCAAAT
1 TAAATACATATTTCAAAT
* ***
822375 TAAA-ATAT-TTTTTTA-
1 TAAATACATATTTCAAAT
822390 TAAATACATATTTCAAAT
1 TAAATACATATTTCAAAT
822408 TAA
1 TAA
822411 GTAGCTTATT
Statistics
Matches: 25, Mismatches: 8, Indels: 6
0.64 0.21 0.15
Matches are distributed among these distances:
15 4 0.16
16 7 0.28
17 7 0.28
18 7 0.28
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATACATATTTCAAAT
Found at i:822382 original size:33 final size:33
Alignment explanation
Indices: 822344--822410 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
822334 TTTTAGTAAC
822344 AAATATATTTTTATAAATACATATTTCAAATTA
1 AAATATATTTTTATAAATACATATTTCAAATTA
*
822377 AAATATTTTTTTATAAATACATATTTCAAATTA
1 AAATATATTTTTATAAATACATATTTCAAATTA
822410 A
1 A
822411 GTAGCTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (33 bp):
AAATATATTTTTATAAATACATATTTCAAATTA
Found at i:822598 original size:2 final size:2
Alignment explanation
Indices: 822591--822645 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
822581 AAGAAGAAGC
* *
822591 TA TA TA TA TA T- TA TA TA TA T- TT TA TG 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 TA TA TA
*
822631 TA CA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
822646 TTCAAGTCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:825038 original size:24 final size:24
Alignment explanation
Indices: 825011--825058 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
825001 AATCTATGGA
825011 AGCTTCATTCTACAGACCATCTGC
1 AGCTTCATTCTACAGACCATCTGC
*
825035 AGCTTCATTCTACAGACTATCTGC
1 AGCTTCATTCTACAGACCATCTGC
825059 TTTATTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.31
Consensus pattern (24 bp):
AGCTTCATTCTACAGACCATCTGC
Found at i:825065 original size:21 final size:22
Alignment explanation
Indices: 825011--825066 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
825001 AATCTATGGA
825011 AGCTTCATTCTACAGACCATCT
1 AGCTTCATTCTACAGACCATCT
*
825033 GCAGCTTCATTCTACAGACTATCT
1 --AGCTTCATTCTACAGACCATCT
*
825057 -GCTTTATTCT
1 AGCTTCATTCT
825067 CTAATTCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 9 0.30
24 21 0.70
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.38
Consensus pattern (22 bp):
AGCTTCATTCTACAGACCATCT
Found at i:830016 original size:34 final size:35
Alignment explanation
Indices: 829950--830018 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
829940 AACGCTTATC
* *
829950 ACTTCACCGTTACCTTCTCCTTGCAAAGCCAATTT
1 ACTTAACCGTTACCTTCTCCTTGCAAAACCAATTT
829985 ACTTAACCGTTACCTTCT-CTTGCAAAACCAATTT
1 ACTTAACCGTTACCTTCTCCTTGCAAAACCAATTT
830019 CCTTGAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 15 0.47
35 17 0.53
ACGTcount: A:0.26, C:0.32, G:0.07, T:0.35
Consensus pattern (35 bp):
ACTTAACCGTTACCTTCTCCTTGCAAAACCAATTT
Found at i:843814 original size:2 final size:2
Alignment explanation
Indices: 843807--843844 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
843797 GGTCACAGAC
843807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
843845 GTAATGCAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:851588 original size:7 final size:7
Alignment explanation
Indices: 851576--851659 Score: 50
Period size: 7 Copynumber: 12.1 Consensus size: 7
851566 TATGAAAATA
851576 ATTATAT
1 ATTATAT
851583 ATTATAT
1 ATTATAT
*
851590 AATATAT
1 ATTATAT
*
851597 AATT-TAA
1 -ATTATAT
*
851604 ATGATAT
1 ATTATAT
851611 ATTATAT
1 ATTATAT
* *
851618 AATTTTAA
1 -ATTATAT
851626 ATTAT-T
1 ATTATAT
851632 A-TATA-
1 ATTATAT
*
851637 AATATAT
1 ATTATAT
*
851644 TTTATGAT
1 ATTAT-AT
851652 ATTATAT
1 ATTATAT
851659 A
1 A
851660 AAATAAAATT
Statistics
Matches: 57, Mismatches: 13, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
5 4 0.07
6 7 0.12
7 33 0.58
8 13 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (7 bp):
ATTATAT
Found at i:851595 original size:28 final size:28
Alignment explanation
Indices: 851564--851620 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
851554 TCAATATTAT
*
851564 TATATGAAAAT-AATTATATATTATATAA
1 TATAT-AAAATAAATGATATATTATATAA
**
851592 TATATAATTTAAATGATATATTATATAA
1 TATATAAAATAAATGATATATTATATAA
851620 T
1 T
851621 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TATATAAAATAAATGATATATTATATAA
Found at i:851611 original size:23 final size:24
Alignment explanation
Indices: 851583--851669 Score: 76
Period size: 23 Copynumber: 3.8 Consensus size: 24
851573 ATAATTATAT
851583 ATTATATAATATATAATTTAAATG
1 ATTATATAATATATAATTTAAATG
*
851607 A-TATAT--TATATAATTTTAAATT
1 ATTATATAATATATAA-TTTAAATG
* *
851629 ATTATATAA-ATATATTTTATGAT-
1 ATTATATAATATATAATTTA-AATG
* *
851652 ATTATATAAAATAAAATT
1 ATTATATAATATATAATT
851670 AATATAGTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
21 7 0.13
22 8 0.15
23 23 0.44
24 14 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTATATAATATATAATTTAAATG
Found at i:851616 original size:21 final size:22
Alignment explanation
Indices: 851586--851627 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
851576 ATTATATATT
851586 ATATAATATATAA-TTTAAATG
1 ATATAATATATAATTTTAAATG
*
851607 ATATATTATATAATTTTAAAT
1 ATATAATATATAATTTTAAAT
851628 TATTATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATAATATATAATTTTAAATG
Found at i:856463 original size:28 final size:28
Alignment explanation
Indices: 856423--856478 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
856413 CAAAGGCATA
856423 AATCAAAATATTGAATTTCCTTGAAACT
1 AATCAAAATATTGAATTTCCTTGAAACT
856451 AATCAAAATATTGAATTTCCTTGAAACT
1 AATCAAAATATTGAATTTCCTTGAAACT
856479 GTTAAGACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (28 bp):
AATCAAAATATTGAATTTCCTTGAAACT
Found at i:858054 original size:20 final size:20
Alignment explanation
Indices: 857991--858055 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
857981 TGATTTAATG
*
857991 ATTTATTATATATCAATT-TA
1 ATTTTTTATATAT-AATTATA
* * * *
858011 ATTATTAAAATATGATTATA
1 ATTTTTTATATATAATTATA
858031 ATTTTTTATATATAATTATA
1 ATTTTTTATATATAATTATA
858051 ATTTT
1 ATTTT
858056 ATCAAAAAGT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 3 0.09
20 32 0.91
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTTTTATATATAATTATA
Found at i:860100 original size:18 final size:17
Alignment explanation
Indices: 860078--860157 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 17
860068 ATTTTAATTT
860078 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
*
860095 TAAATATATTTTAA-AAA
1 -AAATATAATTTAATAAA
*
860112 AAA-ATTATTT-ATAAA
1 AAATATAATTTAATAAA
860127 AATATATAAATATTAATATAA
1 AA-ATAT-AAT-TTAATA-AA
860148 AAATA-AATTT
1 AAATATAATTT
860158 TAAAATAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
14 1 0.02
15 10 0.20
16 4 0.08
17 7 0.14
18 17 0.33
19 2 0.04
20 6 0.12
21 4 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:860122 original size:15 final size:16
Alignment explanation
Indices: 860078--860134 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
860068 ATTTTAATTT
*
860078 AAATATAATTTAATAAAT
1 AAATAT-ATTTAA-AAAA
860096 AAATATATTTTAAAAAA
1 AAATATA-TTTAAAAAA
*
860113 AAAT-TATTTATAAAA
1 AAATATATTTAAAAAA
*
860128 ATATATA
1 AAATATA
860135 AATATTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 11 0.32
16 4 0.12
17 8 0.24
18 11 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATATTTAAAAAA
Found at i:860628 original size:2 final size:2
Alignment explanation
Indices: 860621--860648 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
860611 TGAAAGGGTG
860621 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
860649 CTGATAAGCT
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:863757 original size:26 final size:26
Alignment explanation
Indices: 863728--863798 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 26
863718 AGAAAAAAAA
863728 TTAATAAAA-T-TATTTATCAAAATATT
1 TTAATAAAATTATATTTAT--AAATATT
863754 TTAATAAAAATTAATATTTATAAATATT
1 TTAAT-AAAATT-ATATTTATAAATATT
863782 TTAAT-AAATTATATTTA
1 TTAATAAAATTATATTTA
863799 AACTATTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
25 7 0.17
26 10 0.24
27 4 0.10
28 13 0.32
30 7 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (26 bp):
TTAATAAAATTATATTTATAAATATT
Found at i:863917 original size:15 final size:16
Alignment explanation
Indices: 863871--863917 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
863861 TAATAAATAG
863871 TATATTAAATATAATT-
1 TATATTAAATAT-ATTA
863887 T-TATTAAATATATTA
1 TATATTAAATATATTA
863902 TATATTAAATAT-TTA
1 TATATTAAATATATTA
863917 T
1 T
863918 TTTATACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.10
15 15 0.52
16 11 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATTAAATATATTA
Found at i:863922 original size:20 final size:20
Alignment explanation
Indices: 863899--863936 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
863889 ATTAAATATA
*
863899 TTATATATTAAATATTTATT
1 TTATACATTAAATATTTATT
863919 TTATACATTAAATATTTA
1 TTATACATTAAATATTTA
863937 ATGTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATACATTAAATATTTATT
Found at i:863943 original size:20 final size:20
Alignment explanation
Indices: 863900--863956 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
863890 TTAAATATAT
* * *
863900 TATATATTAAATATTTATTT
1 TATAAATTAAATATTTAATG
*
863920 TATACATTAAATATTTAATG
1 TATAAATTAAATATTTAATG
*
863940 TATAAAAT-AATATTTAA
1 TATAAATTAAATATTTAA
863957 ATATAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 9 0.28
20 23 0.72
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TATAAATTAAATATTTAATG
Found at i:863965 original size:19 final size:19
Alignment explanation
Indices: 863929--863986 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
863919 TTATACATTA
*
863929 AATATTT-AATGTATAAAAT
1 AATATTTAAATATA-AAAAT
863948 AATATTTAAATATAAAAAT
1 AATATTTAAATATAAAAAT
* *
863967 ATTTATATAAAATATAAAAA
1 A-ATAT-TTAAATATAAAAA
863987 AATTTATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 13 0.39
20 8 0.24
21 12 0.36
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATATTTAAATATAAAAAT
Found at i:863967 original size:16 final size:18
Alignment explanation
Indices: 863928--863975 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
863918 TTTATACATT
*
863928 AAATATTTAATGTATAAA
1 AAATATTTAATATATAAA
863946 ATAATATTTAA-ATAT-AA
1 A-AATATTTAATATATAAA
863963 AAATATTT-ATATA
1 AAATATTTAATATA
863976 AAATATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 1 0.04
16 10 0.37
17 3 0.11
18 4 0.15
19 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
AAATATTTAATATATAAA
Found at i:863981 original size:21 final size:21
Alignment explanation
Indices: 863955--863994 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
863945 AATAATATTT
*
863955 AAATATAAAAATATTTATATA
1 AAATATAAAAAAATTTATATA
863976 AAATATAAAAAAATTTATA
1 AAATATAAAAAAATTTATA
863995 CAATTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATATAAAAAAATTTATATA
Found at i:865691 original size:15 final size:16
Alignment explanation
Indices: 865661--865698 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
865651 TTTAATAAAA
*
865661 ATTTTAAAATATTTAT
1 ATTTTATAATATTTAT
865677 ATTTTATAA-ATTTAT
1 ATTTTATAATATTTAT
*
865692 ATATTAT
1 ATTTTAT
865699 TATTGAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTATAATATTTAT
Found at i:865694 original size:17 final size:17
Alignment explanation
Indices: 865661--865701 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
865651 TTTAATAAAA
865661 ATTTTA-AAATATTTAT
1 ATTTTATAAATATTTAT
865677 ATTTTATAAAT-TTATAT
1 ATTTTATAAATATT-TAT
865694 ATTATTAT
1 ATT-TTAT
865702 TGAATAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.36
17 10 0.45
18 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATAAATATTTAT
Found at i:870464 original size:21 final size:20
Alignment explanation
Indices: 870435--870480 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
870425 TATATTTTTT
870435 ATTATAATAAATTTATTATA
1 ATTATAATAAATTTATTATA
*
870455 ATTATGAATATAA-TAATTATA
1 ATTAT-AATA-AATTTATTATA
870476 ATTAT
1 ATTAT
870481 TATGATCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTATAATAAATTTATTATA
Found at i:870466 original size:26 final size:26
Alignment explanation
Indices: 870437--870496 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
870427 TATTTTTTAT
*
870437 TATAATAAATTTATTATAATTATGA-A
1 TATAATAAA-TTATAATAATTATGACA
*
870463 TATAAT-AATTATAATTATTATGATCA
1 TATAATAAATTATAATAATTATGA-CA
870489 TATAATAA
1 TATAATAA
870497 TAAATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 13 0.45
25 2 0.07
26 13 0.45
27 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (26 bp):
TATAATAAATTATAATAATTATGACA
Found at i:870502 original size:24 final size:24
Alignment explanation
Indices: 870437--870497 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
870427 TATTTTTTAT
* *
870437 TATAATAAATTTATTATAATTATGAA
1 TATAAT-AA-TTATAATTATTATGAA
870463 TATAATAATTATAATTATTATGATCA
1 TATAATAATTATAATTATTATGA--A
870489 TATAATAAT
1 TATAATAAT
870498 AAATTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 13 0.42
25 2 0.06
26 16 0.52
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (24 bp):
TATAATAATTATAATTATTATGAA
Found at i:877257 original size:12 final size:14
Alignment explanation
Indices: 877222--877250 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
877212 ACACGATAAA
877222 ATAATTATTTTATT
1 ATAATTATTTTATT
877236 ATAATTATTTTATT
1 ATAATTATTTTATT
877250 A
1 A
877251 ATTATTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATAATTATTTTATT
Found at i:878685 original size:86 final size:82
Alignment explanation
Indices: 878572--878813 Score: 241
Period size: 86 Copynumber: 2.9 Consensus size: 82
878562 GATTATTTTT
* *
878572 AAAAGAAATTTATTTCATCAA-TA----ATTTTGTTTTTTTAATTTTTAATTTTAAATGATGTAT
1 AAAAGAAATTTGTTTCATCAATTATTTTATTTT-TTTTTTTAATTTTTAATTTTAAATGATATAT
878632 TTAAAGAGTTAAAAAAGTTA
65 TTAAAGAGTTAAAAAA--TA
* * * *
878652 AAAAGAAATATAT-TTTTATTAATTATTTTATTTTTTAAATTTT-A-TTTTAATTTTAAATAATA
1 AAAAGAAAT-T-TGTTTCATCAATTATTTTATTTTTT--TTTTTAATTTTTAATTTTAAATGATA
878714 TATTTAAA-AGATTGAAAAAATA
62 TATTTAAAGAG-TT-AAAAAATA
*
878736 AAAAGAAATTTGTTTCATCAATTATTTTATTTTTTTAATTTTAATTTTTTAATTTTAAAAGATAT
1 AAAAGAAATTTGTTTCATCAATTATTTTATTTTTTT--TTTTAA-TTTTTAATTTTAAATGATAT
*
878801 ATTTAAAGGGTTA
63 ATTTAAAGAGTTA
878814 GACTCGCGTC
Statistics
Matches: 133, Mismatches: 11, Indels: 31
0.76 0.06 0.18
Matches are distributed among these distances:
80 9 0.07
81 8 0.06
82 4 0.03
83 26 0.20
84 14 0.11
85 29 0.22
86 38 0.29
87 5 0.04
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (82 bp):
AAAAGAAATTTGTTTCATCAATTATTTTATTTTTTTTTTTAATTTTTAATTTTAAATGATATATT
TAAAGAGTTAAAAAATA
Found at i:878705 original size:18 final size:19
Alignment explanation
Indices: 878674--878709 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
878664 TTTTTATTAA
*
878674 TTATTTTATTTTTTAAATT
1 TTATTTTATATTTTAAATT
878693 TTATTTTA-ATTTTAAAT
1 TTATTTTATATTTTAAAT
878710 AATATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATTTTATATTTTAAATT
Found at i:878732 original size:85 final size:86
Alignment explanation
Indices: 878604--878807 Score: 258
Period size: 86 Copynumber: 2.4 Consensus size: 86
878594 AATTTTGTTT
* * *
878604 TTTTAATTTTTAATTTTAAATGATGTATTT-AAAGAGTTAAAAAAGTTAAAAAGAAATATAT-TT
1 TTTTAATTTTTAATTTTAAATAATATATTTAAAAGAGTTAAAAAA-ATAAAAAGAAAT-T-TGTT
* *
878667 TTATTAATTATTTTATTTTTTAAA
63 TCATCAATTATTTTATTTTTTAAA
*
878691 TTTT-A-TTTTAATTTTAAATAATATATTTAAAAGA-TTGAAAAAATAAAAAGAAATTTGTTTCA
1 TTTTAATTTTTAATTTTAAATAATATATTTAAAAGAGTTAAAAAAATAAAAAGAAATTTGTTTCA
*
878753 TCAATTATTTTATTTTTTTAA
66 TCAATTATTTTATTTTTTAAA
878774 TTTTAATTTTTTAATTTTAAA-AGATATATTTAAA
1 TTTTAA-TTTTTAATTTTAAATA-ATATATTTAAA
878808 GGGTTAGACT
Statistics
Matches: 104, Mismatches: 7, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
82 1 0.01
83 28 0.27
84 12 0.12
85 29 0.28
86 30 0.29
87 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (86 bp):
TTTTAATTTTTAATTTTAAATAATATATTTAAAAGAGTTAAAAAAATAAAAAGAAATTTGTTTCA
TCAATTATTTTATTTTTTAAA
Found at i:878778 original size:14 final size:14
Alignment explanation
Indices: 878759--878793 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
878749 TTCATCAATT
*
878759 ATTTTATTTTTTTA
1 ATTTTAATTTTTTA
878773 ATTTTAATTTTTTA
1 ATTTTAATTTTTTA
878787 ATTTTAA
1 ATTTTAA
878794 AAGATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTAATTTTTTA
Found at i:879989 original size:16 final size:16
Alignment explanation
Indices: 879968--880011 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
879958 AATGATGTAG
879968 ATATTTTTTTAAAAAA
1 ATATTTTTTTAAAAAA
* * * *
879984 ATATTTATATAATAAT
1 ATATTTTTTTAAAAAA
880000 ATATTTTTTTAA
1 ATATTTTTTTAA
880012 GAGCGATAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTTTTTTAAAAAA
Found at i:880696 original size:10 final size:10
Alignment explanation
Indices: 880678--880723 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
880668 TATCTTTCGT
*
880678 ATTTGAATAA
1 ATTTAAATAA
880688 ATTTAAATAA
1 ATTTAAATAA
*
880698 A--AAAATAA
1 ATTTAAATAA
880706 ATTTAAATAAA
1 ATTTAAAT-AA
880717 ATTTAAA
1 ATTTAAA
880724 ATTTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
8 7 0.23
10 14 0.47
11 9 0.30
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
ATTTAAATAA
Found at i:880728 original size:18 final size:18
Alignment explanation
Indices: 880683--880717 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
880673 TTCGTATTTG
880683 AATAAATTTAAATAAAAA
1 AATAAATTTAAATAAAAA
880701 AATAAATTTAAATAAAA
1 AATAAATTTAAATAAAA
880718 TTTAAAATTT
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAAATTTAAATAAAAA
Found at i:883541 original size:12 final size:12
Alignment explanation
Indices: 883524--883548 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
883514 AATAATCATC
883524 ATAATGACAAGT
1 ATAATGACAAGT
883536 ATAATGACAAGT
1 ATAATGACAAGT
883548 A
1 A
883549 AAAGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAATGACAAGT
Found at i:885049 original size:7 final size:7
Alignment explanation
Indices: 885039--885077 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
885029 CCATTTCATA
885039 TTTTTTC
1 TTTTTTC
*
885046 TTTTTTT
1 TTTTTTC
885053 TTTCTTTC
1 TTT-TTTC
*
885061 TTTCTTC
1 TTTTTTC
885068 TTTTTTC
1 TTTTTTC
885075 TTT
1 TTT
885078 CTTTTTTACC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:885055 original size:11 final size:11
Alignment explanation
Indices: 885039--885084 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
885029 CCATTTCATA
885039 TTTTTTCTTTT
1 TTTTTTCTTTT
*
885050 TTTTTTCTTTC
1 TTTTTTCTTTT
*
885061 TTTCTTCTTTT
1 TTTTTTCTTTT
*
885072 TTCTTTCTTTT
1 TTTTTTCTTTT
885083 TT
1 TT
885085 ACCTAACTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:889882 original size:15 final size:15
Alignment explanation
Indices: 889862--889891 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
889852 AATATTTATT
889862 TAAAAATTAATTTTA
1 TAAAAATTAATTTTA
*
889877 TAAAAATTATTTTTA
1 TAAAAATTAATTTTA
889892 ATTTTTTTGT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAAAATTAATTTTA
Found at i:890151 original size:19 final size:19
Alignment explanation
Indices: 890106--890163 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
890096 AAGCAATAAA
*
890106 TAATAATTATATTACAAT-T
1 TAATAATT-TATTAAAATAT
890125 TAAATAATTT-TTATAAATAT
1 T-AATAATTTATTA-AAATAT
890145 TAATAATTTATTAAAATAT
1 TAATAATTTATTAAAATAT
890164 AAAGTATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 3 0.09
19 19 0.56
20 12 0.35
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAATTTATTAAAATAT
Found at i:891161 original size:22 final size:22
Alignment explanation
Indices: 891136--891196 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
891126 AGATAAGTTC
891136 ACTTAACACACATAATATGTTT
1 ACTTAACACACATAATATGTTT
891158 ACTTAACACACATAATATGTTT
1 ACTTAACACACATAATATGTTT
* * *
891180 ACCTAATACACTTAATA
1 ACTTAACACACATAATA
891197 AAGATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (22 bp):
ACTTAACACACATAATATGTTT
Found at i:895762 original size:22 final size:22
Alignment explanation
Indices: 895734--895794 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
895724 AGATAAGATC
* * *
895734 ACCTAACATACCTAATATGTTT
1 ACCTAACACACTTAATATATTT
*
895756 ACGTAACACACTTAATATATTT
1 ACCTAACACACTTAATATATTT
895778 ACCTAACACACTTAATA
1 ACCTAACACACTTAATA
895795 AAGATATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (22 bp):
ACCTAACACACTTAATATATTT
Found at i:897414 original size:178 final size:184
Alignment explanation
Indices: 897067--897428 Score: 422
Period size: 178 Copynumber: 2.0 Consensus size: 184
897057 ATTATTCTTT
* * *
897067 TAAAAATATATTTTTTAAAATTTTAATATTTAGTAATTTAATATTTTTTTATTAAGTTTTAATAT
1 TAAAAATATATTTTTTAAAATTTTAATATTTAATAATTTAATATTTTTTTATTAAGTCTTAAAAT
* * * * *
897132 TTAAATAAATTAATGTATTTTTTAATATTTACGCTATAATATTATATATATATATGTATTCTTTA
66 TTAAATAAATTAATGTATTTTTTAATATTTACACTACAATATTATACACACATA-GTATTCTTTA
* * *
897197 TATAGATAAAATTGCCTAGCATATAAAAATATAAAATTAATATATATTATATAATTG
130 TATAGAAAAAATTACCTAACATATAAAAATATAAAATT-A-ATATATTATATAATTG
*
897254 TAAAAATAT-TTTTTTGAAAA-TTTAATCTTTAATAATTT-A-A-TTTTTTATTAAGTCTTAAAA
1 TAAAAATATATTTTTT-AAAATTTTAATATTTAATAATTTAATATTTTTTTATTAAGTCTTAAAA
** * *
897314 TTTAAATAGCTTAACATGTA-TTTTTAATGTTTACACTACAATA-T-TACGCACATA-TATT-TT
65 TTTAAATAAATT-A-ATGTATTTTTTAATATTTACACTACAATATTATACACACATAGTATTCTT
* * *
897374 TATCT-GAAAAAATTACTTAATATATAAAAATATAAAATTAATATATTATATAATT
128 TATATAGAAAAAATTACCTAACATATAAAAATATAAAATTAATATATTATATAATT
897429 ATACAATGGG
Statistics
Matches: 153, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
176 15 0.10
177 1 0.01
178 29 0.19
179 6 0.04
180 4 0.03
182 6 0.04
183 29 0.19
184 22 0.14
185 6 0.04
186 22 0.14
187 13 0.08
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (184 bp):
TAAAAATATATTTTTTAAAATTTTAATATTTAATAATTTAATATTTTTTTATTAAGTCTTAAAAT
TTAAATAAATTAATGTATTTTTTAATATTTACACTACAATATTATACACACATAGTATTCTTTAT
ATAGAAAAAATTACCTAACATATAAAAATATAAAATTAATATATTATATAATTG
Found at i:901427 original size:4 final size:4
Alignment explanation
Indices: 901418--901465 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
901408 TGGTACTACA
* *
901418 AATT AATT AATT AATT AATT AA-T ACTACT AATT AATT AAAT AATT AAT
1 AATT AATT AATT AATT AATT AATT A--ATT AATT AATT AATT AATT AAT
901466 ATATTGGGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
3 2 0.05
4 33 0.87
5 1 0.03
6 2 0.05
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (4 bp):
AATT
Found at i:901725 original size:17 final size:17
Alignment explanation
Indices: 901705--901761 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 17
901695 CCATTTAAAA
901705 ATTAAATAATTTATTTT
1 ATTAAATAATTTATTTT
901722 ATTAAAATTATTATTTATTTT
1 ATT-AAA-TA--ATTTATTTT
*
901743 ATTAAATAATAT-TTTT
1 ATTAAATAATTTATTTT
901759 ATT
1 ATT
901762 TAATTTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 7 0.20
17 6 0.17
18 3 0.09
19 4 0.11
20 3 0.09
21 12 0.34
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTAAATAATTTATTTT
Found at i:901763 original size:25 final size:21
Alignment explanation
Indices: 901713--901762 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
901703 AAATTAAATA
901713 ATTTATTTTATTAAAATTATT
1 ATTTATTTTATTAAAATTATT
*
901734 ATTTATTTTATTAAATAATATT
1 ATTTATTTTATTAAA-ATTATT
901756 -TTTATTT
1 ATTTATTT
901763 AATTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTATTTTATTAAAATTATT
Found at i:901776 original size:25 final size:22
Alignment explanation
Indices: 901713--901777 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 22
901703 AAATTAAATA
901713 ATTTATTTTATTA-AAATTATT
1 ATTTATTTTATTATAAATTATT
*
901734 ATTTATTTTATTAAATAATATTTTT
1 ATTTATTTTATT--ATAA-ATTATT
901759 ATTTAATTTTAATTATAAA
1 ATTT-ATTTT-ATTATAAA
901778 AATTTATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 12 0.32
23 1 0.03
24 3 0.08
25 13 0.35
26 5 0.14
27 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTATTTTATTATAAATTATT
Found at i:906010 original size:2 final size:2
Alignment explanation
Indices: 906003--906030 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
905993 GATATAATTA
906003 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
906031 TACCTTTTTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:908718 original size:20 final size:21
Alignment explanation
Indices: 908689--908729 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
908679 TATTATTTAA
*
908689 TATAATATAA-TAAATAAAAT
1 TATAAAATAATTAAATAAAAT
*
908709 TATAAAATAATTAATTAAAAT
1 TATAAAATAATTAAATAAAAT
908730 ATTTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATAAAATAATTAAATAAAAT
Found at i:909872 original size:33 final size:34
Alignment explanation
Indices: 909835--909912 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 34
909825 TAAAATAAGA
909835 TATATTTATTTAAA-ATTTAACATATTAATA-ATT
1 TATATTTATTTAAATA-TTAACATATTAATATATT
* * * *
909868 TATA-TTATATAAATATTGATATATTTATATATT
1 TATATTTATTTAAATATTAACATATTAATATATT
909901 TATATTATATTT
1 TATATT-TATTT
909913 TTTTTTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
32 19 0.53
33 12 0.33
34 1 0.03
35 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (34 bp):
TATATTTATTTAAATATTAACATATTAATATATT
Found at i:909925 original size:17 final size:18
Alignment explanation
Indices: 909899--909938 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
909889 TATTTATATA
909899 TTTATATTATATT-TTTT
1 TTTATATTATATTATTTT
*
909916 TTTATTTTATATTATTTT
1 TTTATATTATATTATTTT
909934 TTTAT
1 TTTAT
909939 CACGTACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATATTATATTATTTT
Found at i:921768 original size:92 final size:93
Alignment explanation
Indices: 921611--921797 Score: 358
Period size: 92 Copynumber: 2.0 Consensus size: 93
921601 CTGCCATCGT
921611 TTCGGAGAAAATGAATTTGCAACTCGATACAATGCCACATCAAATTTAAGTTGCTTTTAAACC-A
1 TTCGGAGAAAATGAATTTGCAACTCGATACAATGCCACATCAAATTTAAGTTGCTTTTAAACCAA
921675 AAATGTGGAATTCCAATGACCTACAAGC
66 AAATGTGGAATTCCAATGACCTACAAGC
*
921703 TTCGGAGAAAATGAATTTGCAACTCGATGCAATGCCACATCAAATTTAAGTTGCTTTTAAACCAA
1 TTCGGAGAAAATGAATTTGCAACTCGATACAATGCCACATCAAATTTAAGTTGCTTTTAAACCAA
921768 AAATGTGGAATTCCAATGACCTACAAGC
66 AAATGTGGAATTCCAATGACCTACAAGC
921796 TT
1 TT
921798 TGGTTTTGCA
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 62 0.67
93 31 0.33
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (93 bp):
TTCGGAGAAAATGAATTTGCAACTCGATACAATGCCACATCAAATTTAAGTTGCTTTTAAACCAA
AAATGTGGAATTCCAATGACCTACAAGC
Found at i:923057 original size:21 final size:21
Alignment explanation
Indices: 922991--923057 Score: 50
Period size: 20 Copynumber: 3.3 Consensus size: 21
922981 TAACGTATAT
* * *
922991 TATATTATATATTTATTTAAA
1 TATATTTTATAATTATATAAA
* * *
923012 TAT-TTTAATTAGTTA-ATCAA
1 TATATTTTA-TAATTATATAAA
923032 T-TATTTTATAATTATATAAA
1 TATATTTTATAATTATATAAA
923052 TATATT
1 TATATT
923058 ATATTAAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 6 0.18
20 16 0.47
21 12 0.35
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (21 bp):
TATATTTTATAATTATATAAA
Found at i:923096 original size:24 final size:27
Alignment explanation
Indices: 923044--923094 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
923034 ATTTTATAAT
923044 TATATAAATATATTATATTAAATAAAA
1 TATATAAATATATTATATTAAATAAAA
923071 TATA-AAATATA-TAT-TTAAACTAAA
1 TATATAAATATATTATATTAAA-TAAA
923095 TAAATTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.22
25 7 0.30
26 7 0.30
27 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
TATATAAATATATTATATTAAATAAAA
Found at i:923744 original size:11 final size:11
Alignment explanation
Indices: 923725--923757 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
923715 AAAATGAGAC
923725 ATATTTATATT
1 ATATTTATATT
*
923736 ATTTTTATATT
1 ATATTTATATT
923747 ATATTTATATT
1 ATATTTATATT
923758 TAAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATATTTATATT
Found at i:923783 original size:18 final size:19
Alignment explanation
Indices: 923754--923792 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
923744 ATTATATTTA
923754 TATTTAAAAATTAAATATT
1 TATTTAAAAATTAAATATT
*
923773 TATTTAAAATTTAATATATT
1 TATTTAAAAATTAA-ATATT
923793 AATAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTTAAAAATTAAATATT
Found at i:923852 original size:5 final size:5
Alignment explanation
Indices: 923827--923864 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
923817 AATAAAATTA
*
923827 TATAT T-TAT TAT-T TTTAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
923865 ATTTTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 7 0.24
5 22 0.76
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
TATAT
Found at i:925627 original size:15 final size:15
Alignment explanation
Indices: 925607--925636 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
925597 AAATTCTCGT
925607 CCATTTTTCTTCAAA
1 CCATTTTTCTTCAAA
925622 CCATTTTTCTTCAAA
1 CCATTTTTCTTCAAA
925637 AGATATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (15 bp):
CCATTTTTCTTCAAA
Found at i:928090 original size:26 final size:26
Alignment explanation
Indices: 928061--928127 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
928051 TTCGAGTTTG
928061 GCTT-GTTTATTACTAAGTTT-GTTTAA
1 GCTTGGTTTATT--TAAGTTTGGTTTAA
*
928087 GCTTGGTTTGTTTAAGTTTGGTTTAA
1 GCTTGGTTTATTTAAGTTTGGTTTAA
* *
928113 GCTCGGTTAATTTAA
1 GCTTGGTTTATTTAA
928128 ATTAAATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 7 0.20
26 22 0.63
27 6 0.17
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.51
Consensus pattern (26 bp):
GCTTGGTTTATTTAAGTTTGGTTTAA
Done.