Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold94
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: 2274668
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 33727 characters in sequence are not A, C, G, or T
File 5 of 13
Found at i:690625 original size:18 final size:18
Alignment explanation
Indices: 690599--690646 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
690589 GTTTTATATA
*
690599 ATTTCATATAAAAATAAT
1 ATTTTATATAAAAATAAT
* *
690617 ATTTTATATAACATTAAT
1 ATTTTATATAAAAATAAT
*
690635 GTTTATATATAA
1 ATTT-TATATAA
690647 CTGGTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTTTATATAAAAATAAT
Found at i:690659 original size:20 final size:17
Alignment explanation
Indices: 690613--690685 Score: 56
Period size: 20 Copynumber: 3.9 Consensus size: 17
690603 CATATAAAAA
690613 TAATATTTTATATAACAT
1 TAATATTTTATATAAC-T
*
690631 TAATGTTTATATATAACT
1 TAATATTT-TATATAACT
* *
690649 GGTAATATTTATATGTAATTT
1 --TAATATTT-TATATAA-CT
690670 ATAATATTTTATATAA
1 -TAATATTTTATATAA
690686 TTACATATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 8 0.18
19 14 0.31
20 22 0.49
21 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATATTTTATATAACT
Found at i:690732 original size:20 final size:19
Alignment explanation
Indices: 690703--690754 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
690693 TAAAAGTAAC
690703 GTTTTATGTAACTT-ATAAT
1 GTTTTATGTAA-TTGATAAT
690722 GTTTATATGTAATTGATAAT
1 GTTT-TATGTAATTGATAAT
*
690742 ATTTTATGTAATT
1 GTTTTATGTAATT
690755 ACGTGTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.54
Consensus pattern (19 bp):
GTTTTATGTAATTGATAAT
Found at i:690735 original size:154 final size:153
Alignment explanation
Indices: 690474--690821 Score: 393
Period size: 154 Copynumber: 2.3 Consensus size: 153
690464 ATATGTAATT
* * * * *
690474 TCTAATGTTTATATGTATTTGAGTAATGTTTGTATGTAA-CTAGTAAATTTTATGTAATTACACA
1 TCTAATGTTTATATGTAATTG-GTAATATTTATATGTAATTTAGTAAATTTTATATAATTA-ACA
* * ** * *
690538 TGTAAAAGTAATTTTTATGTAATTGATAATGTCTATATATAATTTTTAATTGTTTTATATAATTT
64 TATAAAAGTAAGTTTTATGTAATTGATAATGTCTATATATAATTGATAA-TATTTTATATAATTA
690603 CATATAAAAATAATATTTTATATAAC
128 CATATAAAAATAATATTTTATATAAC
* *
690629 AT-TAATGTTTATATATAACTGGTAATATTTATATGTAATTTA-TAATATTTTATATAATT-ACA
1 -TCTAATGTTTATATGTAATTGGTAATATTTATATGTAATTTAGTAA-ATTTTATATAATTAACA
* * *
690691 TATAAAAGTAACGTTTTATGTAACTT-ATAATGTTTATATGTAATTGATAATATTTTATGTAATT
64 TATAAAAGTAA-GTTTTATGTAA-TTGATAATGTCTATATATAATTGATAATATTTTATATAATT
* * *
690755 ACGTGTAAAAGTAATATTTTATATAAC
127 ACATATAAAAATAATATTTTATATAAC
* *
690782 TCGAAATGTTTATATGTAATTGATAATATTTA-ATGTAATT
1 TC-TAATGTTTATATGTAATTGGTAATATTTATATGTAATT
690822 ATATGTAAGG
Statistics
Matches: 163, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
152 1 0.01
153 56 0.34
154 73 0.45
155 32 0.20
156 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.48
Consensus pattern (153 bp):
TCTAATGTTTATATGTAATTGGTAATATTTATATGTAATTTAGTAAATTTTATATAATTAACATA
TAAAAGTAAGTTTTATGTAATTGATAATGTCTATATATAATTGATAATATTTTATATAATTACAT
ATAAAAATAATATTTTATATAAC
Found at i:690742 original size:87 final size:87
Alignment explanation
Indices: 690546--690754 Score: 255
Period size: 87 Copynumber: 2.4 Consensus size: 87
690536 CATGTAAAAG
* * * * * *
690546 TAAT-TTT-TATGTAATTGATAATGTCTATATATAATTTTTAATTGTTTTATATAATTTCATATA
1 TAATGTTTATATGTAATTGATAATATTTATATGTAATTTATAATTATTTTATATAATTACATATA
*
690609 AAAATAATATTTTATATAACAT
66 AAAATAACATTTTATATAACAT
* * *
690631 TAATGTTTATATATAACTGGTAATATTTATATGTAATTTATAA-TATTTTATATAATTACATATA
1 TAATGTTTATATGTAATTGATAATATTTATATGTAATTTATAATTATTTTATATAATTACATATA
* * * *
690695 AAAGTAACGTTTTATGTAACTT
66 AAAATAACATTTTATATAACAT
690717 ATAATGTTTATATGTAATTGATAATATTT-TATGTAATT
1 -TAATGTTTATATGTAATTGATAATATTTATATGTAATT
690755 ACGTGTAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
85 4 0.04
86 48 0.46
87 52 0.50
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.50
Consensus pattern (87 bp):
TAATGTTTATATGTAATTGATAATATTTATATGTAATTTATAATTATTTTATATAATTACATATA
AAAATAACATTTTATATAACAT
Found at i:690751 original size:19 final size:18
Alignment explanation
Indices: 690704--690755 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 18
690694 AAAAGTAACG
*
690704 TTTTATGTAACTTATAATG
1 TTTTATGTAA-TTATAATA
690723 TTTATATGTAATTGATAATA
1 TTT-TATGTAATT-ATAATA
690743 TTTTATGTAATTA
1 TTTTATGTAATTA
690756 CGTGTAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 15 0.50
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.54
Consensus pattern (18 bp):
TTTTATGTAATTATAATA
Found at i:690886 original size:67 final size:67
Alignment explanation
Indices: 690631--690861 Score: 300
Period size: 67 Copynumber: 3.4 Consensus size: 67
690621 TATATAACAT
* * * * * *
690631 TAATGTTTATATATAACTGGTAATATTTATATGTAATTTATAATATTTTATATAATTACATATAA
1 TAATATTT-TATATAACTTGTAATGTTTATATGTAATTGATAATATTTTATGTAATTACATGTAA
690696 AAG
65 AAG
** * * *
690699 TAACGTTTTATGTAACTTATAATGTTTATATGTAATTGATAATATTTTATGTAATTACGTGTAAA
1 TAATATTTTATATAACTTGTAATGTTTATATGTAATTGATAATATTTTATGTAATTACATGTAAA
690764 AG
66 AG
* * * * *
690766 TAATATTTTATATAACTCGAAATGTTTATATGTAATTGATAATATTTAATGTAATTATATGTAAG
1 TAATATTTTATATAACTTGTAATGTTTATATGTAATTGATAATATTTTATGTAATTACATGTAAA
*
690831 GG
66 AG
690833 TAATATTTTATATAACTTGTAATGTTTAT
1 TAATATTTTATATAACTTGTAATGTTTAT
690862 CTCTAAAAAT
Statistics
Matches: 141, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
67 134 0.95
68 7 0.05
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (67 bp):
TAATATTTTATATAACTTGTAATGTTTATATGTAATTGATAATATTTTATGTAATTACATGTAAA
AG
Found at i:692592 original size:41 final size:43
Alignment explanation
Indices: 692517--692597 Score: 114
Period size: 42 Copynumber: 1.9 Consensus size: 43
692507 TAGTATTTTT
692517 TTAATTTTTTATAATTATATAATTAAAAATAAA-TTAAAAGAA
1 TTAATTTTTTATAATTATATAATTAAAAATAAATTTAAAAGAA
* *
692559 TTAATTTTTTA-ATTTTTATAATTAAAAGA-AAATTTAAAA
1 TTAATTTTTTATAATTATATAATTAAAA-ATAAATTTAAAA
692598 AATAAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 17 0.49
42 18 0.51
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (43 bp):
TTAATTTTTTATAATTATATAATTAAAAATAAATTTAAAAGAA
Found at i:696651 original size:18 final size:18
Alignment explanation
Indices: 696610--696665 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
696600 AATAAAACAT
*
696610 AAATATTAAAAAATAT--
1 AAATTTTAAAAAATATAA
*
696626 ATATTTT-AAAAATATCAA
1 AAATTTTAAAAAATAT-AA
696644 AAATTTTAAAAAATATAA
1 AAATTTTAAAAAATATAA
696662 AAAT
1 AAAT
696666 AAAAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.24
16 5 0.15
18 12 0.36
19 8 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTTTAAAAAATATAA
Found at i:703589 original size:58 final size:58
Alignment explanation
Indices: 703508--703622 Score: 187
Period size: 58 Copynumber: 2.0 Consensus size: 58
703498 AGCAATTTTA
*
703508 ATAAAGAACATAGAATTGTAAGTTAGTGAATAAATAAACAAATAAAGTGTACGAAAAG
1 ATAAAGAACATAGAATTGCAAGTTAGTGAATAAATAAACAAATAAAGTGTACGAAAAG
* *
703566 ATAAAGAACTTA-AAGTTGCAAGTTAGTGAATAAATAAACAAATAAAGTGTATGAAAA
1 ATAAAGAACATAGAA-TTGCAAGTTAGTGAATAAATAAACAAATAAAGTGTACGAAAA
703623 AAGAAGCAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
57 2 0.04
58 51 0.96
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.23
Consensus pattern (58 bp):
ATAAAGAACATAGAATTGCAAGTTAGTGAATAAATAAACAAATAAAGTGTACGAAAAG
Found at i:708279 original size:15 final size:15
Alignment explanation
Indices: 708239--708288 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
708229 TTTGGACGAG
708239 AAAATCTAAAATTTT
1 AAAATCTAAAATTTT
* *
708254 -GAATTTGAAAATTTT
1 AAAATCT-AAAATTTT
708269 AAAATCTAAAATTTT
1 AAAATCTAAAATTTT
708284 AAAAT
1 AAAAT
708289 ACATCAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.14
15 21 0.72
16 4 0.14
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (15 bp):
AAAATCTAAAATTTT
Found at i:708435 original size:20 final size:20
Alignment explanation
Indices: 708396--708432 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
708386 TATAATGCAG
*
708396 AAATAATAATATTAGAAATA
1 AAATAAAAATATTAGAAATA
708416 AAATAAAAATATT-GAAA
1 AAATAAAAATATTAGAAA
708433 ATATGAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
AAATAAAAATATTAGAAATA
Found at i:712652 original size:19 final size:18
Alignment explanation
Indices: 712615--712659 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
712605 AGATAATATA
* *
712615 TTTGATTTAAATTTTAATT
1 TTTGATTTAAA-TTAAAAT
*
712634 TTTGATTTATATTAAAAT
1 TTTGATTTAAATTAAAAT
712652 TTTGATTT
1 TTTGATTT
712660 GCTTTTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (18 bp):
TTTGATTTAAATTAAAAT
Found at i:712717 original size:11 final size:11
Alignment explanation
Indices: 712701--712735 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
712691 TAAGATAAAG
712701 TAATTTTTATT
1 TAATTTTTATT
*
712712 TAATTTTTAAT
1 TAATTTTTATT
*
712723 TATTTTTTATT
1 TAATTTTTATT
712734 TA
1 TA
712736 TTATCAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TAATTTTTATT
Found at i:714028 original size:2 final size:2
Alignment explanation
Indices: 714021--714053 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
714011 TTTGTACCTT
714021 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 T
714054 TAGCATATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:716868 original size:2 final size:2
Alignment explanation
Indices: 716861--716889 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
716851 TGACCTATGA
716861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
716890 AATTCCAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:718529 original size:6 final size:6
Alignment explanation
Indices: 718520--718568 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
718510 AATTTATAAA
*
718520 TATATT TATATT TGATA-- TATATT TATATT TAATATT TAT-TT TAAATT
1 TATATT TATATT T-ATATT TATATT TATATT T-ATATT TATATT TATATT
718567 TA
1 TA
718569 AATAATATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
4 3 0.08
5 5 0.14
6 20 0.54
7 9 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (6 bp):
TATATT
Found at i:718541 original size:17 final size:17
Alignment explanation
Indices: 718519--718560 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
718509 AAATTTATAA
*
718519 ATATATTTATATTTGAT
1 ATATATTTATATTTAAT
718536 ATATATTTATATTTAAT
1 ATATATTTATATTTAAT
*
718553 ATTTATTT
1 ATATATTT
718561 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
ATATATTTATATTTAAT
Found at i:718656 original size:22 final size:22
Alignment explanation
Indices: 718622--718663 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
718612 ACACTAGATA
718622 AATTTAAAAAAATAATATTTATT
1 AATTTAAAAAAATAAT-TTTATT
718645 AATTT-AAAAAATAATTTTA
1 AATTTAAAAAAATAATTTTA
718664 AAGCCGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTTAAAAAAATAATTTTATT
Found at i:720999 original size:2 final size:2
Alignment explanation
Indices: 720992--721025 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
720982 TACATACAAT
720992 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
721026 AAACTTCTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:723199 original size:76 final size:76
Alignment explanation
Indices: 723073--723226 Score: 281
Period size: 76 Copynumber: 2.0 Consensus size: 76
723063 ATATATGGCT
*
723073 CATGCAAACGCTATCAAAGTAGAGACTAGGGCTTAGGACTGAATTTGAGAATTCAAGGCAGGTTT
1 CATGCAAACACTATCAAAGTAGAGACTAGGGCTTAGGACTGAATTTGAGAATTCAAGGCAGGTTT
723138 TTAACCTAGGA
66 TTAACCTAGGA
* *
723149 CATGCAAACACTATCAAAGTAGAGACTAGGGCTTAGGACTGAGTTTGAGAATTCAAGGCTGGTTT
1 CATGCAAACACTATCAAAGTAGAGACTAGGGCTTAGGACTGAATTTGAGAATTCAAGGCAGGTTT
723214 TTAACCTAGGA
66 TTAACCTAGGA
723225 CA
1 CA
723227 GGCCTCAATT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (76 bp):
CATGCAAACACTATCAAAGTAGAGACTAGGGCTTAGGACTGAATTTGAGAATTCAAGGCAGGTTT
TTAACCTAGGA
Found at i:724498 original size:2 final size:2
Alignment explanation
Indices: 724487--724534 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
724477 ATATATGTAC
* *
724487 AG AG AA AG AG AG AG AG AG AG AG AG CG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
724529 AG AG AG
1 AG AG AG
724535 TGCCTTAGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:725542 original size:18 final size:18
Alignment explanation
Indices: 725514--725548 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
725504 AATATTTATG
*
725514 AAATTAATAAATAATTAA
1 AAATTAATAAAAAATTAA
725532 AAATTAATAAAAAATTA
1 AAATTAATAAAAAATTA
725549 TATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATTAATAAAAAATTAA
Found at i:725563 original size:21 final size:23
Alignment explanation
Indices: 725539--725583 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
725529 TAAAAATTAA
725539 TAAAAAA-TTATATA-ATATTTT
1 TAAAAAATTTATATATATATTTT
725560 TAAAAAATTTATATATATATTTT
1 TAAAAAATTTATATATATATTTT
725583 T
1 T
725584 TATTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAAAAATTTATATATATATTTT
Found at i:728646 original size:127 final size:127
Alignment explanation
Indices: 728456--728853 Score: 305
Period size: 127 Copynumber: 3.1 Consensus size: 127
728446 TATTTTATTA
* * * * *
728456 ATTAGTTATTTTTATTTTCTATTTTTAAAATAATATATTTAAATGAATTAATTTGCATGTTAACT
1 ATTAATTATTTTTA-TTT-TA-TTTT-AAATAATATATTTAAAAGAATTAAATCGCATATTAACT
* * * * ** *
728521 TGCTAG-TCAATTTAAAATTTATACCTAA-AATTTATGGAAAAAATTTTTAAA-AA-AAATTATA
62 T-ATAGATCAATTTAAAATTCATACCTAACAATTGA-AGAAAAAAAGTTAAAATAATAAATT-TA
728582 TTTT
124 TTTT
* * *
728586 ATTAATTATTTTTATTTTATTATTAAATTATATATTTAAAAGAGTTAAATCGTATATTAACTTAT
1 ATTAATTATTTTTATTTTATT-TTAAATAATATATTTAAAAGAATTAAATCGCATATTAACTTAT
* *
728651 AGATCAATTTAAAATTCATACTTAATCCATTGAAGAAAAAAAGTTAAAATAATAAATTTATTTT
65 AGATCAATTTAAAATTCATACCTAA-CAATTGAAGAAAAAAAGTTAAAATAATAAATTTATTTT
* * * * * * ** *
728715 ATTAATTATTTATATATTTGTTTTAAAGAATATATTTAAAAAAATT-ATTCACACGTTAACTCAT
1 ATTAATTATTTTTAT-TTTATTTTAAATAATATATTTAAAAGAATTAAATCGCATATTAACTTAT
* * * * * * **
728779 A-ATTAATTTAAAATTTATA-TTCAACTCACT-AA-AAAAAAA-TTAAAAT-TTAAACATATTTT
65 AGATCAATTTAAAATTCATACCT-AAC-AATTGAAGAAAAAAAGTTAAAATAATAAATTTATTTT
728838 ATTAATTATTTTTATT
1 ATTAATTATTTTTATT
728854 ACATATTTAA
Statistics
Matches: 223, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
122 1 0.00
123 24 0.11
124 7 0.03
125 7 0.03
126 8 0.04
127 75 0.34
128 29 0.13
129 49 0.22
130 23 0.10
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.46
Consensus pattern (127 bp):
ATTAATTATTTTTATTTTATTTTAAATAATATATTTAAAAGAATTAAATCGCATATTAACTTATA
GATCAATTTAAAATTCATACCTAACAATTGAAGAAAAAAAGTTAAAATAATAAATTTATTTT
Found at i:733145 original size:15 final size:16
Alignment explanation
Indices: 733104--733143 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
733094 ACCACTTCTC
*
733104 TCTATCCCCTTTCACA
1 TCTACCCCCTTTCACA
733120 TCTACCCCCTTTCACA
1 TCTACCCCCTTTCACA
733136 TCTACCCC
1 TCTACCCC
733144 TTCTGCTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.17, C:0.50, G:0.00, T:0.33
Consensus pattern (16 bp):
TCTACCCCCTTTCACA
Found at i:735677 original size:16 final size:16
Alignment explanation
Indices: 735658--735691 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
735648 ATTCGGGTTC
735658 AGAT-AATTTCGAGTTT
1 AGATCAATTTCGA-TTT
735674 AGATCAATTTCGATTT
1 AGATCAATTTCGATTT
735690 AG
1 AG
735692 TTATTTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (16 bp):
AGATCAATTTCGATTT
Found at i:743273 original size:28 final size:30
Alignment explanation
Indices: 743241--743337 Score: 73
Period size: 28 Copynumber: 3.4 Consensus size: 30
743231 TAATTCTTAC
*
743241 TATATAATAAATTTTATTAT-GTAAT-AAA
1 TATATAATAAATTTTATTATAATAATCAAA
* * * *
743269 TATATATTTACTTTTA-TATAATAATCTAA
1 TATATAATAAATTTTATTATAATAATCAAA
* *
743298 TAAATATATAAATTTTATTATTATAA--AAA
1 TATATA-ATAAATTTTATTATAATAATCAAA
743327 T-TAT-ATAAATT
1 TATATAATAAATT
743338 AATTAAAAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
26 7 0.13
27 3 0.06
28 19 0.36
29 10 0.19
30 7 0.13
31 7 0.13
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (30 bp):
TATATAATAAATTTTATTATAATAATCAAA
Found at i:743349 original size:26 final size:28
Alignment explanation
Indices: 743320--743387 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
743310 TTTTATTATT
*
743320 ATAAAAATTATATAAAT-TAATTAA-AA
1 ATAAAAATTATATAAATATAATAAATAA
* *
743346 ATAAATAGTTACATAAATAATAATAAATAA
1 ATAAA-AATTATATAAAT-ATAATAAATAA
743376 ATATAAAATTAT
1 ATA-AAAATTAT
743388 TAATTGATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
26 5 0.16
27 10 0.31
29 6 0.19
30 9 0.28
31 2 0.06
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (28 bp):
ATAAAAATTATATAAATATAATAAATAA
Found at i:743391 original size:22 final size:23
Alignment explanation
Indices: 743314--743391 Score: 56
Period size: 22 Copynumber: 3.4 Consensus size: 23
743304 TATAAATTTT
* *
743314 ATTATT-ATAAA-AATTATATAA
1 ATTATTAATAAATAAATATACAA
743335 ATTAATTAA-AAATAAATAGTTACATA
1 ATT-ATTAATAAATAAATA--TACA-A
* *
743361 AATAATAATAAATAAATATA-AA
1 ATTATTAATAAATAAATATACAA
743383 ATTATTAAT
1 ATTATTAAT
743392 TGATATATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
21 3 0.07
22 14 0.32
23 6 0.14
24 2 0.05
25 7 0.16
26 12 0.27
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (23 bp):
ATTATTAATAAATAAATATACAA
Found at i:744647 original size:5 final size:5
Alignment explanation
Indices: 744636--744674 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
744626 AGTAGTCATG
* *
744636 AAAAGC AAAGC AAAAC AAAGC AAAAC AAAAC AAAAC AAA
1 AAAA-C AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAA
744675 TGTAACATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
5 26 0.90
6 3 0.10
ACGTcount: A:0.74, C:0.18, G:0.08, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:744656 original size:10 final size:10
Alignment explanation
Indices: 744636--744674 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
744626 AGTAGTCATG
744636 AAAAGCAAAGC
1 AAAA-CAAAGC
744647 AAAACAAAGC
1 AAAACAAAGC
*
744657 AAAACAAAAC
1 AAAACAAAGC
744667 AAAACAAA
1 AAAACAAA
744675 TGTAACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.74, C:0.18, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAACAAAGC
Found at i:744657 original size:15 final size:15
Alignment explanation
Indices: 744637--744674 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
744627 GTAGTCATGA
*
744637 AAAGCAAAGCAAAAC
1 AAAGCAAAACAAAAC
744652 AAAGCAAAACAAAAC
1 AAAGCAAAACAAAAC
*
744667 AAAACAAA
1 AAAGCAAA
744675 TGTAACATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.74, C:0.18, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAGCAAAACAAAAC
Found at i:747975 original size:6 final size:7
Alignment explanation
Indices: 747949--747984 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
747939 ATTTGTGTTT
747949 TATAAAA
1 TATAAAA
747956 TATAAAA
1 TATAAAA
747963 TATAAAA
1 TATAAAA
747970 -ATAAAA
1 TATAAAA
747976 -ATAAAA
1 TATAAAA
747982 TAT
1 TAT
747985 GTGTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
TATAAAA
Found at i:749066 original size:90 final size:91
Alignment explanation
Indices: 748906--749078 Score: 330
Period size: 91 Copynumber: 1.9 Consensus size: 91
748896 TTTAAGCAAA
748906 AAAAAAAAAGGCGGTTTATGATTCATGGAGGATGCAACCAAACTTTTTTTTGAAAATTTTCAAGT
1 AAAAAAAAAGGCGGTTTATGATTCATGGAGGATGCAACCAAACTTTTTTTTGAAAATTTTCAAGT
748971 AATTATATTAGATTTGATCATTTGTG
66 AATTATATTAGATTTGATCATTTGTG
*
748997 AAAAAAAAAGGCGGTTTATGATTCATGGAGGATGCAACCAAAC-TTTTTTTGCAAATTTTCAAGT
1 AAAAAAAAAGGCGGTTTATGATTCATGGAGGATGCAACCAAACTTTTTTTTGAAAATTTTCAAGT
749061 AATTATATTAGATTTGAT
66 AATTATATTAGATTTGAT
749079 AATTCATGTC
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 38 0.47
91 43 0.53
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.36
Consensus pattern (91 bp):
AAAAAAAAAGGCGGTTTATGATTCATGGAGGATGCAACCAAACTTTTTTTTGAAAATTTTCAAGT
AATTATATTAGATTTGATCATTTGTG
Found at i:749324 original size:18 final size:17
Alignment explanation
Indices: 749303--749336 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
749293 GTATTAAATC
749303 TTAAATATTATATTTTAA
1 TTAAATATT-TATTTTAA
749321 TTAAATATTTATTTTA
1 TTAAATATTTATTTTA
749337 TAATTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAAATATTTATTTTAA
Found at i:749332 original size:19 final size:18
Alignment explanation
Indices: 749303--749341 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
749293 GTATTAAATC
749303 TTAAATATTATATTT-TAA
1 TTAAATATTAT-TTTATAA
749321 TTAAATATTTATTTTATAA
1 TTAAATA-TTATTTTATAA
749340 TT
1 TT
749342 TGTTAGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATATTATTTTATAA
Found at i:751328 original size:20 final size:20
Alignment explanation
Indices: 751303--751340 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
751293 TAAATAGTAA
751303 ATTGTATCAATACATTTTTC
1 ATTGTATCAATACATTTTTC
*
751323 ATTGTATCGATACATTTT
1 ATTGTATCAATACATTTT
751341 GGGTTTTTGA
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:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (20 bp):
ATTGTATCAATACATTTTTC
Found at i:766962 original size:33 final size:33
Alignment explanation
Indices: 766900--766962 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
766890 TCTTCCTTCT
**
766900 AAGCCCAAACAAGTTGGTGGCATTTTTTCTCAA
1 AAGCCCAAACAAGTTGGTGGCATCCTTTCTCAA
*
766933 AAGCCCACACAAGTTGGTGGCATCCTTTCT
1 AAGCCCAAACAAGTTGGTGGCATCCTTTCT
766963 TTCAAAGCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (33 bp):
AAGCCCAAACAAGTTGGTGGCATCCTTTCTCAA
Found at i:767063 original size:130 final size:128
Alignment explanation
Indices: 766893--767350 Score: 540
Period size: 130 Copynumber: 3.5 Consensus size: 128
766883 ACGCTCATCT
* * ** *
766893 TCCTTCTAAGCCCAAACAAGTTGGTGGCATTTTTTCTCAAAAGCCCACACAAGTTGGTGGCATCC
1 TCCTTTTAAGCCCACACAAGTTGGTGGCATCCTTTCTCAAAAGCCCACACAAGTTGGTGACA-CC
* *
766958 TTTCTTTCAAAGCCCATAACTCCTTGGCACCTTCTTTTCATAGTCCATGACTCCATGGCATCTCA
65 TTTCTTTCAAAGCCCATAACT-CTTGGCACATTCTTTTCAAAGTCCATGACTCCATGGCATCTCA
* * * * *
767023 TCCTTTTAAGCCCACATAAATTGGTGGCATCCTTTCTCAAAAGCCCACATAAGTTGGTCAAATCC
1 TCCTTTTAAGCCCACACAAGTTGGTGGCATCCTTTCTCAAAAGCCCACACAAGTTGGTGACA-CC
* * * * ** * * *
767088 TTTCTTTCAAAGCCCACAACTCTGTGGCACTTTCCTTTCAAAGCCCATGACTTTATAGCACCTTA
65 TTTCTTTCAAAGCCCATAACTCT-TGGCACATTCTTTTCAAAGTCCATGACTCCATGGCATCTCA
* * *
767153 TCCTTTTAAGCCCACACAAGTTGGTGGCATCATTTCTCAAAAGCCCACACAAATCGGTGACACCT
1 TCCTTTTAAGCCCACACAAGTTGGTGGCATCCTTTCTCAAAAGCCCACACAAGTTGGTGACACC-
* * * * ** *
767218 TTTTCTTTTAAAGTCCATAACTTCGTGGCATATTCCTTTT-AAAGTCCACAACTCCATGGCATTT
65 -TTTCTTTCAAAGCCCATAAC-TCTTGGCACATT-CTTTTCAAAGTCCATGACTCCATGGCATCT
767282 CA
127 CA
* *
767284 TCCTTTTAAGCCCACATAAGTTGGTGGCATCCTTTCTCAAAAGCCCACACAAGTTGGTGGCACCT
1 TCCTTTTAAGCCCACACAAGTTGGTGGCATCCTTTCTCAAAAGCCCACACAAGTTGGTGACACCT
767349 TT
66 TT
767351 GCGAAGTCCA
Statistics
Matches: 274, Mismatches: 49, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
129 7 0.03
130 161 0.59
131 100 0.36
132 6 0.02
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (128 bp):
TCCTTTTAAGCCCACACAAGTTGGTGGCATCCTTTCTCAAAAGCCCACACAAGTTGGTGACACCT
TTCTTTCAAAGCCCATAACTCTTGGCACATTCTTTTCAAAGTCCATGACTCCATGGCATCTCA
Found at i:767105 original size:34 final size:33
Alignment explanation
Indices: 767030--767105 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
767020 TCATCCTTTT
***
767030 AAGCCCACATAAATTGGTGGCATCCTTTCTCAA
1 AAGCCCACATAAATTGGTCAAATCCTTTCTCAA
*
767063 AAGCCCACATAAGTTGGTCAAATCCTTTCTTTC-A
1 AAGCCCACATAAATTGGTCAAATCCTTTC--TCAA
767097 AAGCCCACA
1 AAGCCCACA
767106 ACTCTGTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 25 0.68
34 10 0.27
35 2 0.05
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (33 bp):
AAGCCCACATAAATTGGTCAAATCCTTTCTCAA
Found at i:767315 original size:29 final size:31
Alignment explanation
Indices: 767282--767350 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 31
767272 CATGGCATTT
*
767282 CATCCTTT-T-AAGCCCACATAAGTTGGTGG
1 CATCCTTTCTAAAGCCCACACAAGTTGGTGG
767311 CATCCTTTCTCAAAAGCCCACACAAGTTGGTGG
1 CATCCTTTCT--AAAGCCCACACAAGTTGGTGG
767344 CA-CCTTT
1 CATCCTTT
767351 GCGAAGTCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
29 8 0.23
30 1 0.03
32 5 0.14
33 21 0.60
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (31 bp):
CATCCTTTCTAAAGCCCACACAAGTTGGTGG
Found at i:767529 original size:32 final size:32
Alignment explanation
Indices: 767473--767537 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
767463 CATAAGCCAA
* * *
767473 TGGCAACCTTCCTCAAAGCTCACACAAGTTGG
1 TGGCAACCTTCCTCAAAACCCACACAAATTGG
767505 TGGCAACCTT-CTCAAAAACCCACACAAATTGG
1 TGGCAACCTTCCTC-AAAACCCACACAAATTGG
767537 T
1 T
767538 AGCATCCCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 3 0.10
32 26 0.90
ACGTcount: A:0.32, C:0.31, G:0.15, T:0.22
Consensus pattern (32 bp):
TGGCAACCTTCCTCAAAACCCACACAAATTGG
Found at i:767732 original size:50 final size:52
Alignment explanation
Indices: 767678--767793 Score: 137
Period size: 52 Copynumber: 2.3 Consensus size: 52
767668 GATGTTGCTA
* *
767678 GCCTTGAATCAGCACATT-G-TCCTTCACCATCTCTAAGTCCAATATCGTTG
1 GCCTTGAATCAGCACATTGGCACCTTCACCATCTCTAAGTCCAATATCGCTG
* * * *** *
767728 GCCTTAAATCAACATATTGGCACCTTTGTCATCTTTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCACCATCTCTAAGTCCAATATCGCTG
767780 GCCTTGAATCAGCA
1 GCCTTGAATCAGCA
767794 TATTAGCATC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 15 0.28
51 1 0.02
52 37 0.70
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (52 bp):
GCCTTGAATCAGCACATTGGCACCTTCACCATCTCTAAGTCCAATATCGCTG
Found at i:767767 original size:52 final size:52
Alignment explanation
Indices: 767705--767806 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
767695 TGTCCTTCAC
* *
767705 CATCTCTAAGTCCAATATCGTTGGCCTTAAATCAACATATTGGCACCTTTGT
1 CATCTCTAAGTCCAATATCGCTGGCCTTAAATCAACATATTAGCACCTTTGT
* * * *
767757 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCATCTTT
1 CATCTCTAAGTCCAATATCGCTGGCCTTAAATCAACATATTAGCACCTTT
767807 AACATTCCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (52 bp):
CATCTCTAAGTCCAATATCGCTGGCCTTAAATCAACATATTAGCACCTTTGT
Found at i:768005 original size:61 final size:61
Alignment explanation
Indices: 767917--768032 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
767907 TCTTCATATT
* * *
767917 TTTAAGCCCAATATTGCTAGCCTTGAATCAACATATTGGCACCTTTATCATTCTTTTCATA
1 TTTAAACCCAATATCGCTAGCCGTGAATCAACATATTGGCACCTTTATCATTCTTTTCATA
* * * *
767978 TTTAAACCCAATATCGTTGGCCGTGAATTAGCATATTGGCACCTTTATCATTCTT
1 TTTAAACCCAATATCGCTAGCCGTGAATCAACATATTGGCACCTTTATCATTCTT
768033 CGCATCCTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (61 bp):
TTTAAACCCAATATCGCTAGCCGTGAATCAACATATTGGCACCTTTATCATTCTTTTCATA
Found at i:768731 original size:21 final size:20
Alignment explanation
Indices: 768701--768777 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 20
768691 TTTTATAATT
*
768701 TGTATTGATACAAATAGTAAA
1 TGTATCGATACAAA-AGTAAA
* *
768722 TGTATCGATACATAAGTGAA
1 TGTATCGATACAAAAGTAAA
****
768742 TGTATCGATACATGCCTAAAA
1 TGTATCGATACAAAAGT-AAA
768763 TGTATCGATACAAAA
1 TGTATCGATACAAAA
768778 TCACCCTGCA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 19 0.42
21 26 0.58
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:768745 original size:20 final size:21
Alignment explanation
Indices: 768701--768754 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
768691 TTTTATAATT
* *
768701 TGTATTGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
768722 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
768742 TGTATCGATACAT
1 TGTATCGATACAT
768755 GCCTAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:768850 original size:22 final size:20
Alignment explanation
Indices: 768822--768877 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
768812 ATTTAATAAA
768822 TGTATCGATACATGCTTAC-AAT
1 TGTATCGATACAT--TT-CTAAT
*
768844 TGTATCGATACATTTCTTAT
1 TGTATCGATACATTTCTAAT
768864 TGTATCGATACATT
1 TGTATCGATACATT
768878 CTGAGTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 18 0.56
22 13 0.41
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTCTAAT
Found at i:771391 original size:98 final size:96
Alignment explanation
Indices: 771231--771534 Score: 369
Period size: 98 Copynumber: 3.1 Consensus size: 96
771221 AAAATTTCCT
* * *
771231 TCATTGGGAATACTCCAACCCTATTTTTTTGAGGGGATACTCTAACCCCGTTTTTAAAAATTATT
1 TCATTGGGGATACT-CAACCCTATTTTTTTGAGGGGATACTCCAACCCCATTTTT-AAAATTATT
771296 AAGATTTAAATCTTAATTTTGCTTAAATTATCA
64 AAGATTTAAATCTTAATTTTGCTTAAATTATCA
* *
771329 TCATTGGGGATACTCTAACCCTATTTTTTTGAGGGGATACTCCAACTCCATTTTTACAAATTATC
1 TCATTGGGGATACTC-AACCCTATTTTTTTGAGGGGATACTCCAACCCCATTTTTA-AAATTATT
* * *
771394 AAGATTTAAACCTTAATTTTGCCTAAATTATCG
64 AAGATTTAAATCTTAATTTTGCTTAAATTATCA
* * * * * * *
771427 TCATTGAGGATACTCAACCCCATTATTCTAAGGGGATACTCCAACCCCATTTTTAAACTCATTAA
1 TCATTGGGGATACTCAACCCTATTTTTTTGAGGGGATACTCCAACCCCATTTTTAAAATTATTAA
* * * *
771492 GA--TAATTCTTATTTTTGCTTAAAATGTCA
66 GATTTAAATCTTAATTTTGCTTAAATTATCA
* *
771521 TCGTCGGGGATACT
1 TCATTGGGGATACT
771535 GGAGCCTCGT
Statistics
Matches: 177, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
94 31 0.18
96 9 0.05
97 37 0.21
98 100 0.56
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (96 bp):
TCATTGGGGATACTCAACCCTATTTTTTTGAGGGGATACTCCAACCCCATTTTTAAAATTATTAA
GATTTAAATCTTAATTTTGCTTAAATTATCA
Found at i:776494 original size:51 final size:51
Alignment explanation
Indices: 776376--776503 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
776366 AGATGTATTA
* * * * *
776376 ATACATTGAAAAATATATCGATATATCTGGGCAAAAGGATAGAATGTATCG
1 ATACATTGCAGAATGTATCGATACATCTGGGCAAAAAGATAGAATGTATCG
*
776427 ATACATTGCAGAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCG
1 ATACATTGCAGAATGTATCGATACATCTGGGCAAAAAGATAGAATGTATCG
* *
776478 ATACATT-CATACATGTATTGATACAT
1 ATACATTGCAGA-ATGTATCGATACAT
776504 TTTTCAATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 3 0.04
51 65 0.96
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.30
Consensus pattern (51 bp):
ATACATTGCAGAATGTATCGATACATCTGGGCAAAAAGATAGAATGTATCG
Found at i:776495 original size:20 final size:20
Alignment explanation
Indices: 776469--776523 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
776459 AAAAAGATAG
776469 AATGTATCGATACATTCATAC
1 AATGTATCGATACATT-ATAC
* * *
776490 -ATGTATTGATACATTTTTC
1 AATGTATCGATACATTATAC
776509 AATGTATCGATACAT
1 AATGTATCGATACAT
776524 CTAGGTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTATAC
Found at i:780541 original size:78 final size:77
Alignment explanation
Indices: 780259--780755 Score: 399
Period size: 78 Copynumber: 6.4 Consensus size: 77
780249 TTCAAGTATG
* * * * * *
780259 AAAAGACGAGATGATCAAAATATGGACCTTTAGGAAGGTCAATGCCTTTAGGAAGGCATAG-AAA
1 AAAAGATGAGATGATCAAAGTCTAGACCTTTGGGAA-GTCAATGCCTTTAGGAAGGCATAGCAAT
* *
780323 CGTCTCGAGCCT-
65 TGTCTCAAGCCTA
** * * * * *
780335 AAAAGACAAGATGATCAAAGTTTAGACTTTTAGGAACGTCAAAGTCTTTAGGAAGGCATAGCAAT
1 AAAAGATGAGATGATCAAAGTCTAGACCTTTGGGAA-GTCAATGCCTTTAGGAAGGCATAGCAAT
* *
780400 TGTCTCGAGCTTGA
65 TGTCTCAAGCCT-A
* * * * * * * * **
780414 AAATG-CGAGATAATTAAGGTTTGGACCCTTGAAAAAGTCAATGCCTTTAGGAAGGCATAGCAAT
1 AAAAGATGAGATGATCAAAGTCTAGACCTTTG-GGAAGTCAATGCCTTTAGGAAGGCATAGCAAT
*
780478 TGTTTCAAGCCTA
65 TGTCTCAAGCCTA
* * * * * *
780491 AAAAAATGATATGGTCAAAGTCTAGACCTTTGGGAAGGTCCATGCTTTTAGGAAGGCATAGTAAT
1 AAAAGATGAGATGATCAAAGTCTAGACCTTTGGGAA-GTCAATGCCTTTAGGAAGGCATAGCAAT
* **
780556 TATCTTGAGCCTA
65 TGTCTCAAGCCTA
* ** * * * * * *
780569 AAATGACAAGATGATGAAAGTCTAGACCTTTGGGAAGTTTAGTGCCTATAGAAAGGCGTAGCAAT
1 AAAAGATGAGATGATCAAAGTCTAGACCTTTGGGAAG-TCAATGCCTTTAGGAAGGCATAGCAAT
*
780634 TGTCTCAAGCCTG
65 TGTCTCAAGCCTA
* * * *
780647 AAAAGCTGAGATGATCAAGGTCTAGACCTTTAGGAAAG-CTAATGCCTTTGGGAAGGCATAGCAA
1 AAAAGATGAGATGATCAAAGTCTAGACCTTT-GGGAAGTC-AATGCCTTTAGGAAGGCATAGCAA
*
780711 TTGTCTCGAGCCTA
64 TTGTCTCAAGCCTA
* * *
780725 AAAGGATGAGATGATCAAAGTTTGGACCTTT
1 AAAAGATGAGATGATCAAAGTCTAGACCTTT
780756 TAGGAAGACA
Statistics
Matches: 326, Mismatches: 86, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
76 53 0.16
77 19 0.06
78 243 0.75
79 11 0.03
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (77 bp):
AAAAGATGAGATGATCAAAGTCTAGACCTTTGGGAAGTCAATGCCTTTAGGAAGGCATAGCAATT
GTCTCAAGCCTA
Found at i:780703 original size:234 final size:232
Alignment explanation
Indices: 780266--780762 Score: 563
Period size: 234 Copynumber: 2.1 Consensus size: 232
780256 ATGAAAAGAC
* * * *
780266 GAGATGATCAAAATATGGACCTTTAGGAAGGTCAATGCCTTTAGGAAGGCATAGAAACGTCTCGA
1 GAGATGATCAAAGTCTAGACCTTTAGGAAGGTCAATGCCTTTAGGAAGGCATAGAAACATCTCGA
* * * *
780331 GCCTAAAAGACAAGATGATCAAAGTTTAGACTTTTAGGAACGTCAAAGTCTTTAGGAAGGCATAG
66 GCCTAAAAGACAAGATGATCAAAGTCTAGACCTTTAGGAACGTCAAAGTCTATAGAAAGGCATAG
* * * * *
780396 CAATTGTCTCGAGCTTGAAAATGCGAGATAATTAAGGTTTGGACCCTTGAAAAAGTCAATGCCTT
131 CAATTGTCTCAAGCCTGAAAATGCGAGATAATCAAGGTCTAGACCCTTGAAAAAGTCAATGCCTT
*
780461 TAGGAAGGCATAGCAATTGTTTCAAGCCTAAAAAAAT
196 TAGGAAGGCATAGCAATTGTCTCAAGCCTAAAAAAAT
* * * * * ** *
780498 GATATGGTCAAAGTCTAGACCTTTGGGAAGGTCCATGCTTTTAGGAAGGCATAGTAATTATCTTG
1 GAGATGATCAAAGTCTAGACCTTTAGGAAGGTCAATGCCTTTAGGAAGGCATAG-AAACATCTCG
* * **
780563 AGCCTAAAATGACAAGATGATGAAAGTCTAGACCTTTGGGAA-GT-TTAGTGCCTATAGAAAGGC
65 AGCCTAAAA-GACAAGATGATCAAAGTCTAGACCTTTAGGAACGTCAAAGT--CTATAGAAAGGC
* * * *
780626 GTAGCAATTGTCTCAAGCCTGAAAA-GCTGAGATGATCAAGGTCTAGA-CCTTTAGGAAAG-CTA
127 ATAGCAATTGTCTCAAGCCTGAAAATGC-GAGATAATCAAGGTCTAGACCCTTGA-AAAAGTC-A
* * **
780688 ATGCCTTTGGGAAGGCATAGCAATTGTCTCGAGCCTAAAAGGAT
189 ATGCCTTTAGGAAGGCATAGCAATTGTCTCAAGCCTAAAAAAAT
* *
780732 GAGATGATCAAAGTTTGGACCTTTTAGGAAG
1 GAGATGATCAAAGTCTAGACC-TTTAGGAAG
780763 ACATAGCAAC
Statistics
Matches: 218, Mismatches: 39, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
232 49 0.22
233 25 0.11
234 136 0.62
235 8 0.04
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (232 bp):
GAGATGATCAAAGTCTAGACCTTTAGGAAGGTCAATGCCTTTAGGAAGGCATAGAAACATCTCGA
GCCTAAAAGACAAGATGATCAAAGTCTAGACCTTTAGGAACGTCAAAGTCTATAGAAAGGCATAG
CAATTGTCTCAAGCCTGAAAATGCGAGATAATCAAGGTCTAGACCCTTGAAAAAGTCAATGCCTT
TAGGAAGGCATAGCAATTGTCTCAAGCCTAAAAAAAT
Found at i:780801 original size:139 final size:139
Alignment explanation
Indices: 780627--780884 Score: 342
Period size: 139 Copynumber: 1.9 Consensus size: 139
780617 TAGAAAGGCG
* * * * * *
780627 TAGCAATTGTCTCAAGCCTGAAAAGCTGAGATGATCAAGGTCTAGACCTTTAGGAAAGCT-AATG
1 TAGCAACTGTCTCAAGCCTGAAAAGCTGAGATGATCAAAGTCTAAACC-TTAGCAAAGATCAATA
* * *
780691 CCTTTGGGAAGGCATAGCAATTGTCTCGAGCCT-AAAAGGATGAGATGATCAAAGTTTGGACCTT
65 CCTTTGGGAAGACATAACAATTGTCTCAAGCCTGAAAA-GATGAGATGATCAAAGTTTGGACCTT
780755 TTAGGAAGACA
129 TTAGGAAGACA
*
780766 TAGCAACTGTCTCAAGCCTGAAAAAG-TGAGATGATCAAAGTTTAAACCTTAGCAAAGATCAATA
1 TAGCAACTGTCTCAAGCCTG-AAAAGCTGAGATGATCAAAGTCTAAACCTTAGCAAAGATCAATA
* * * *
780830 CCTTTGGGAAGACTTAACAATTGTTTCAAGGCTGAAAATATGAGATGATCAAAGT
65 CCTTTGGGAAGACATAACAATTGTCTCAAGCCTGAAAAGATGAGATGATCAAAGT
780885 CTAAACCTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
138 9 0.09
139 84 0.82
140 9 0.09
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (139 bp):
TAGCAACTGTCTCAAGCCTGAAAAGCTGAGATGATCAAAGTCTAAACCTTAGCAAAGATCAATAC
CTTTGGGAAGACATAACAATTGTCTCAAGCCTGAAAAGATGAGATGATCAAAGTTTGGACCTTTT
AGGAAGACA
Found at i:780815 original size:61 final size:61
Alignment explanation
Indices: 780697--780815 Score: 168
Period size: 61 Copynumber: 2.0 Consensus size: 61
780687 AATGCCTTTG
* * * * **
780697 GGAAGGCATAGCAATTGTCTCGAGCCTAAAAGGATGAGATGATCAAAGTTTGGACCTTTTA
1 GGAAGACATAGCAACTGTCTCAAGCCTAAAAAGATGAGATGATCAAAGTTTAAACCTTTTA
780758 GGAAGACATAGCAACTGTCTCAAGCCTGAAAAAG-TGAGATGATCAAAGTTTAAACCTT
1 GGAAGACATAGCAACTGTCTCAAGCCT-AAAAAGATGAGATGATCAAAGTTTAAACCTT
780816 AGCAAAGATC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
61 46 0.90
62 5 0.10
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (61 bp):
GGAAGACATAGCAACTGTCTCAAGCCTAAAAAGATGAGATGATCAAAGTTTAAACCTTTTA
Found at i:783558 original size:20 final size:21
Alignment explanation
Indices: 783533--783572 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
783523 ATGATATTTG
*
783533 TATATACAGCT-AGGTTTTTA
1 TATATACAACTAAGGTTTTTA
*
783553 TATATATAACTAAGGTTTTT
1 TATATACAACTAAGGTTTTT
783573 GCATATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (21 bp):
TATATACAACTAAGGTTTTTA
Found at i:791023 original size:13 final size:13
Alignment explanation
Indices: 791005--791035 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
790995 ACATTTCTTC
791005 ATGTATCGATACA
1 ATGTATCGATACA
791018 ATGTATCGATACA
1 ATGTATCGATACA
*
791031 TTGTA
1 ATGTA
791036 CCATGTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:791041 original size:33 final size:32
Alignment explanation
Indices: 790985--791051 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
790975 GTTACAAGCT
790985 ATGTATCGATACATTTCTTCATGTATCGATACA
1 ATGTATCGATACATTTC-TCATGTATCGATACA
*
791018 ATGTATCGATACATTGTAC-CATGTATTGATACA
1 ATGTATCGATACATT-T-CTCATGTATCGATACA
791051 A
1 A
791052 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (32 bp):
ATGTATCGATACATTTCTCATGTATCGATACA
Found at i:791106 original size:21 final size:21
Alignment explanation
Indices: 791080--791135 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
791070 CTGCCAATTT
**
791080 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGAA
791101 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGAA
791120 CATGTATCGATACAAT
1 CATGTATCGATACAAT
791136 GTATCGATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 16 0.52
20 2 0.06
21 13 0.42
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:791139 original size:13 final size:13
Alignment explanation
Indices: 791121--791147 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
791111 TACATTGAAC
791121 ATGTATCGATACA
1 ATGTATCGATACA
791134 ATGTATCGATACA
1 ATGTATCGATACA
791147 A
1 A
791148 AGCGGCATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:791707 original size:15 final size:17
Alignment explanation
Indices: 791687--791720 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
791677 GTTTTCGTTT
791687 TTCT-CCCCTTAAA-AA
1 TTCTCCCCCTTAAACAA
791702 TTCTCCCCCTTAAACAA
1 TTCTCCCCCTTAAACAA
791719 TT
1 TT
791721 ATCTTCTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (17 bp):
TTCTCCCCCTTAAACAA
Found at i:791730 original size:22 final size:22
Alignment explanation
Indices: 791702--791771 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
791692 CCCTTAAAAA
791702 TTCTCCCCCTTAAACAATTATC
1 TTCTCCCCCTTAAACAATTATC
*** **
791724 TTCTCCCCCTTTATGTAA--AAA
1 TTCTCCCCC-TTAAACAATTATC
791745 TTCTCCCCCTTAAACAATTATC
1 TTCTCCCCCTTAAACAATTATC
791767 TTCTC
1 TTCTC
791772 AATAAATTTA
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
20 5 0.14
21 10 0.29
22 15 0.43
23 5 0.14
ACGTcount: A:0.26, C:0.34, G:0.01, T:0.39
Consensus pattern (22 bp):
TTCTCCCCCTTAAACAATTATC
Found at i:793629 original size:13 final size:13
Alignment explanation
Indices: 793611--793652 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
793601 AAATAGTACT
793611 CAATGTATCGATA
1 CAATGTATCGATA
793624 CAATGTATCGATA
1 CAATGTATCGATA
793637 CAATGTATCGATA
1 CAATGTATCGATA
793650 CAA
1 CAA
793653 GGAATGTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:799816 original size:33 final size:33
Alignment explanation
Indices: 799778--799844 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
799768 GTTACAAGCT
799778 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
*
799811 ATGTATTGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
799844 A
1 A
799845 ATAGTGATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:799900 original size:21 final size:21
Alignment explanation
Indices: 799874--799929 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
799864 CTGCCAATTT
**
799874 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGAA
799895 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGAA
799914 CATGTATCGATACAAT
1 CATGTATCGATACAAT
799930 GTATCAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 16 0.52
20 2 0.06
21 13 0.42
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:802443 original size:20 final size:20
Alignment explanation
Indices: 802418--802494 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
802408 GTAAAAAGAC
*
802418 AGAATGTATCTATACATTGA
1 AGAATGTATCGATACATTGA
**
802438 AGAATGTATCGATACATTCCT
1 AGAATGTATCGATACATT-GA
* *
802459 A-CATGTATTGATACATTGA
1 AGAATGTATCGATACATTGA
*
802478 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
802495 CTAGGCAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:802545 original size:90 final size:91
Alignment explanation
Indices: 802378--802545 Score: 284
Period size: 90 Copynumber: 1.9 Consensus size: 91
802368 AGATGTATCA
* * *
802378 ATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCTATACATTGAAGAAT
1 ATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACATTGAAAAAT
*
802443 GTATCGATACATTCCTACATGTATTG
66 GTATCGACACATTCCTACATGTATTG
*
802469 ATACATTGAAAAATGTATCGATACATCTAGG-CAAAAGACAAAATGTATCGATACATTGAAAAAT
1 ATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACATTGAAAAAT
802533 GTATCGACACATT
66 GTATCGACACATT
802546 TAGGTAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
90 41 0.57
91 31 0.43
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.29
Consensus pattern (91 bp):
ATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACATTGAAAAAT
GTATCGACACATTCCTACATGTATTG
Found at i:802556 original size:24 final size:20
Alignment explanation
Indices: 802508--802545 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
802498 GGCAAAAGAC
*
802508 AAAATGTATCGATACATTGA
1 AAAATGTATCGACACATTGA
802528 AAAATGTATCGACACATT
1 AAAATGTATCGACACATT
802546 TAGGTAAAAA
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:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (20 bp):
AAAATGTATCGACACATTGA
Found at i:803167 original size:63 final size:63
Alignment explanation
Indices: 803064--803185 Score: 181
Period size: 63 Copynumber: 1.9 Consensus size: 63
803054 AGTTTAGCTC
**
803064 GGACATTCTTGTTCTTGTTCTGACAACAATCTCTAACATGACATCTAGACGTGTTCCATGCCT
1 GGACATTCTTGTTCTCATTCTGACAACAATCTCTAACATGACATCTAGACGTGTTCCATGCCT
* * * * *
803127 GGACATTCTTGTTCTCATTTTGACAACAATCTCTAGCATGATATTTGGACGTGTTCCAT
1 GGACATTCTTGTTCTCATTCTGACAACAATCTCTAACATGACATCTAGACGTGTTCCAT
803186 AAAAAATAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (63 bp):
GGACATTCTTGTTCTCATTCTGACAACAATCTCTAACATGACATCTAGACGTGTTCCATGCCT
Found at i:808164 original size:23 final size:24
Alignment explanation
Indices: 808138--808183 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
808128 TTAAAATAAT
*
808138 CTTTTT-AAATTAATCATCTAAAG
1 CTTTTTAAAAATAATCATCTAAAG
*
808161 CTTTTTAAAAATAATCGTCTAAA
1 CTTTTTAAAAATAATCATCTAAA
808184 ATGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.41
Consensus pattern (24 bp):
CTTTTTAAAAATAATCATCTAAAG
Found at i:834219 original size:2 final size:2
Alignment explanation
Indices: 834212--834237 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
834202 CAGTACGTGC
834212 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
834238 TGTCAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:838390 original size:12 final size:12
Alignment explanation
Indices: 838373--838398 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
838363 AGTGTATATC
838373 TTCTACAACCAA
1 TTCTACAACCAA
838385 TTCTACAACCAA
1 TTCTACAACCAA
838397 TT
1 TT
838399 ACAGCTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (12 bp):
TTCTACAACCAA
Found at i:843546 original size:53 final size:54
Alignment explanation
Indices: 843487--843599 Score: 137
Period size: 53 Copynumber: 2.1 Consensus size: 54
843477 ATTAAATACA
**
843487 TAAATAAAT-AATATCAAATATTTAAATTTTTATTCAAA-T-AAA-TAAAATAAATT
1 TAAATAAATAAAT-TCAAATATTT-AA-TACTATTCAAATTAAAATTAAAATAAATT
*
843540 TAAAT-AATAAATTTAAATATTTAATACTATTCAAATTAAAATTAAAATAAATT
1 TAAATAAATAAATTCAAATATTTAATACTATTCAAATTAAAATTAAAATAAATT
843593 TAAATAA
1 TAAATAA
843600 TGAATATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
50 9 0.17
51 3 0.06
52 15 0.29
53 24 0.46
54 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (54 bp):
TAAATAAATAAATTCAAATATTTAATACTATTCAAATTAAAATTAAAATAAATT
Found at i:843548 original size:13 final size:13
Alignment explanation
Indices: 843532--843558 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
843522 AAATAAATAA
843532 AATAAATTTAAAT
1 AATAAATTTAAAT
843545 AATAAATTTAAAT
1 AATAAATTTAAAT
843558 A
1 A
843559 TTTAATACTA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATAAATTTAAAT
Found at i:844295 original size:11 final size:11
Alignment explanation
Indices: 844272--844325 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
844262 GTAAATTTCT
*
844272 TAATTTAAATA
1 TAATATAAATA
844283 TAATATAATTATA
1 TAATATAA--ATA
*
844296 TGATATAAATA
1 TAATATAAATA
*
844307 TAATATAAAAA
1 TAATATAAATA
844318 TAAT-TAAA
1 TAATATAAA
844326 ATTTTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 4 0.11
11 23 0.62
13 10 0.27
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TAATATAAATA
Found at i:844512 original size:5 final size:5
Alignment explanation
Indices: 844504--844554 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
844494 ATGATATAAT
** *
844504 TAAAA TAAAA TAAAA T-ATT TAAAA T-AAA TATAA TAAAA TAAAA TAATAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA
844553 TA
1 TA
844555 TCAGGTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
4 6 0.16
5 27 0.73
6 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (5 bp):
TAAAA
Found at i:844526 original size:14 final size:15
Alignment explanation
Indices: 844507--844554 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
844497 ATATAATTAA
844507 AATAAAATAAAATAT
1 AATAAAATAAAATAT
*
844522 -TTAAAAT-AAATAT
1 AATAAAATAAAATAT
844535 AATAAAATAAAATAAT
1 AATAAAATAAAAT-AT
844551 AATA
1 AATA
844555 TCAGGTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 6 0.21
14 12 0.43
15 4 0.14
16 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAAATAAAATAT
Found at i:856448 original size:21 final size:21
Alignment explanation
Indices: 856400--856450 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
856390 TTTTATAATT
*
856400 TTAAATTTTAAATATATTTTAA
1 TTAAATTTT-AATATATATTAA
856422 TT-AATTTT-ATATCATATTAA
1 TTAAATTTTAATAT-ATATTAA
856442 TTAAATTTT
1 TTAAATTTT
856451 TTTATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 8 0.31
21 12 0.46
22 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAATTTTAATATATATTAA
Found at i:864703 original size:2 final size:2
Alignment explanation
Indices: 864696--864736 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
864686 TGAAGATGCG
864696 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
864737 CATACAAACA
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:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:870820 original size:19 final size:16
Alignment explanation
Indices: 870796--870906 Score: 83
Period size: 19 Copynumber: 6.8 Consensus size: 16
870786 ATTCAACGAT
870796 TTGTATCGATACATAA
1 TTGTATCGATACATAA
870812 GTGTTGTATCGATAC--AA
1 ---TTGTATCGATACATAA
*
870829 -TGTATCGATATATAA
1 TTGTATCGATACATAA
870844 -TGTATCGATACATAA
1 TTGTATCGATACATAA
870859 GTGTTGTATCGATAC--AA
1 ---TTGTATCGATACATAA
870876 -TGTATCGATACATAA
1 TTGTATCGATACATAA
870891 GTTTTGTATCGATACA
1 ---TTGTATCGATACA
870907 ATGTATCGCT
Statistics
Matches: 78, Mismatches: 2, Indels: 24
0.75 0.02 0.23
Matches are distributed among these distances:
13 21 0.27
15 18 0.23
17 4 0.05
19 35 0.45
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (16 bp):
TTGTATCGATACATAA
Found at i:870834 original size:13 final size:13
Alignment explanation
Indices: 870816--870887 Score: 63
Period size: 13 Copynumber: 4.9 Consensus size: 13
870806 ACATAAGTGT
870816 TGTATCGATACAA
1 TGTATCGATACAA
*
870829 TGTATCGATATATAA
1 TGTATCG--ATACAA
870844 TGTATCGATACATAA
1 TGTATCGATAC--AA
870859 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
870876 TGTATCGATACA
1 TGTATCGATACA
870888 TAAGTTTTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
13 22 0.45
15 14 0.29
17 2 0.04
19 11 0.22
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:870850 original size:47 final size:47
Alignment explanation
Indices: 870797--870890 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
870787 TTCAACGATT
*
870797 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAA
870844 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAA
870891 GTTTTGTATC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (47 bp):
TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAA
Found at i:870883 original size:32 final size:32
Alignment explanation
Indices: 870842--870914 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
870832 ATCGATATAT
870842 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
870874 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
870906 AATGTATCG
1 AATGTATCG
870915 CTATGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:870977 original size:13 final size:13
Alignment explanation
Indices: 870959--870983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
870949 ATTACTCAAA
870959 TGTATCGATACAT
1 TGTATCGATACAT
870972 TGTATCGATACA
1 TGTATCGATACA
870984 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:871037 original size:52 final size:52
Alignment explanation
Indices: 870992--871120 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
870982 CACTGATCTT
*
870992 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
871044 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
871096 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
871121 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:874398 original size:20 final size:20
Alignment explanation
Indices: 874373--874417 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
874363 AAATTAACAA
*
874373 TCAAAACT-AATCTATCAAAG
1 TCAAAACTCAA-CAATCAAAG
*
874393 TCAAAAGTCAACAATCAAAG
1 TCAAAACTCAACAATCAAAG
874413 TCAAA
1 TCAAA
874418 TTGGGTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (20 bp):
TCAAAACTCAACAATCAAAG
Found at i:875553 original size:3 final size:3
Alignment explanation
Indices: 875545--875611 Score: 73
Period size: 3 Copynumber: 22.3 Consensus size: 3
875535 GCCCTACATA
* *
875545 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAGT TGT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
875590 TGT TAT TGT TTT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
875612 TTGTTGATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.04
3 54 0.95
4 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:877207 original size:32 final size:31
Alignment explanation
Indices: 877171--877264 Score: 82
Period size: 32 Copynumber: 2.9 Consensus size: 31
877161 TTATTTTTAG
877171 GTTCGGATAATTTTGGATTT-AGATCATTTCAA
1 GTTCGGATAATTTTGG-TTTGA-ATCATTTCAA
* * **
877203 GTTCGGGTAATTTCAGGTTTGAATCATTTCGT
1 GTTCGGATAATTT-TGGTTTGAATCATTTCAA
* * *
877235 GTTTGGATAATTTTGAGTTCGGATCATTTC
1 GTTCGGATAATTTTG-GTTTGAATCATTTC
877265 GGGTTCAGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
31 1 0.02
32 46 0.92
33 3 0.06
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.45
Consensus pattern (31 bp):
GTTCGGATAATTTTGGTTTGAATCATTTCAA
Found at i:877270 original size:16 final size:16
Alignment explanation
Indices: 877192--877270 Score: 52
Period size: 16 Copynumber: 4.9 Consensus size: 16
877182 TTTGGATTTA
*
877192 GATCATTTCAAGTTCG
1 GATCATTTCGAGTTCG
* * *
877208 GGTAATTTC-AGGTTTG
1 GATCATTTCGA-GTTCG
* * *
877224 AATCATTTCGTGTTTG
1 GATCATTTCGAGTTCG
* *
877240 GATAATTTTGAGTTCG
1 GATCATTTCGAGTTCG
*
877256 GATCATTTCGGGTTC
1 GATCATTTCGAGTTC
877271 AGGTTAATCG
Statistics
Matches: 46, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
15 1 0.02
16 45 0.98
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (16 bp):
GATCATTTCGAGTTCG
Found at i:877568 original size:16 final size:16
Alignment explanation
Indices: 877536--877570 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
877526 AGTTTTTTTT
*
877536 TTAAATTTTTACCTAA
1 TTAAATTTTTAACTAA
*
877552 TTAAATTTTTAATTAA
1 TTAAATTTTTAACTAA
877568 TTA
1 TTA
877571 CAACTCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAATTTTTAACTAA
Found at i:878285 original size:11 final size:11
Alignment explanation
Indices: 878271--878303 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
878261 TTTTTAATAA
878271 AATATATAAAT
1 AATATATAAAT
878282 AATATATAAAT
1 AATATATAAAT
878293 -ATATATAAAT
1 AATATATAAAT
878303 A
1 A
878304 TGAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATATAAAT
Found at i:878312 original size:10 final size:10
Alignment explanation
Indices: 878267--878304 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
878257 TAATTTTTTA
878267 ATAAA-ATAT
1 ATAAATATAT
878276 ATAAATAATAT
1 ATAAAT-ATAT
878287 ATAAATATAT
1 ATAAATATAT
878297 ATAAATAT
1 ATAAATAT
878305 GAATAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 5 0.19
10 12 0.44
11 10 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATAAATATAT
Found at i:881661 original size:2 final size:2
Alignment explanation
Indices: 881654--881683 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
881644 ATAGTTGACC
881654 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
881684 TAGAGGCTAA
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:885096 original size:1 final size:1
Alignment explanation
Indices: 885090--885121 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
885080 TCTTTCTTTC
885090 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
885122 CATTTCTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:889737 original size:15 final size:16
Alignment explanation
Indices: 889713--889746 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
889703 CATGGAAACC
889713 AAAAGAAAAG-AAGAA
1 AAAAGAAAAGAAAGAA
*
889728 AAAAGGAAAGAAAGAA
1 AAAAGAAAAGAAAGAA
889744 AAA
1 AAA
889747 GGTGTTTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAGAA
Found at i:894098 original size:13 final size:14
Alignment explanation
Indices: 894078--894115 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
894068 AAAAAAAGTT
894078 TGATTTAAAAAA-A
1 TGATTTAAAAAATA
894091 TG-TGTTAAAAAATA
1 TGAT-TTAAAAAATA
894105 TGATTTAAAAA
1 TGATTTAAAAA
894116 TTTATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.05
13 10 0.45
14 10 0.45
15 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (14 bp):
TGATTTAAAAAATA
Found at i:894186 original size:16 final size:16
Alignment explanation
Indices: 894167--894200 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
894157 AAATATATAT
894167 ATTTAAA-ATAATAAAA
1 ATTTAAATAT-ATAAAA
894183 ATTTAAATATATAAAA
1 ATTTAAATATATAAAA
894199 AT
1 AT
894201 AATAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTTAAATATATAAAA
Found at i:894192 original size:24 final size:25
Alignment explanation
Indices: 894149--894207 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
894139 TGAAAAGTTT
* *
894149 AAAT-ATAAAAATATATATAT-TTA
1 AAATAATAAAAATATAAATATATAA
*
894172 AAATAATAAAAATTTAAATATATAA
1 AAATAATAAAAATATAAATATATAA
894197 AAATAATAAAA
1 AAATAATAAAA
894208 TTATTTCATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 4 0.13
24 14 0.45
25 13 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAAAAATATAAATATATAA
Found at i:894599 original size:18 final size:18
Alignment explanation
Indices: 894576--894614 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
894566 GTCATGTAAA
*
894576 TTTAATAAATTTTCTTAT
1 TTTAATAAATTTTATTAT
**
894594 TTTAATTTATTTTATTAT
1 TTTAATAAATTTTATTAT
894612 TTT
1 TTT
894615 TAATTAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAATAAATTTTATTAT
Found at i:894617 original size:19 final size:18
Alignment explanation
Indices: 894584--894619 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
894574 AATTTAATAA
*
894584 ATTTTCTTATTTTAATTT
1 ATTTTATTATTTTAATTT
894602 ATTTTATTATTTTTAATT
1 ATTTTATTA-TTTTAATT
894620 AATATTAAAA
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:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTATTATTTTAATTT
Found at i:895108 original size:16 final size:15
Alignment explanation
Indices: 895067--895112 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
895057 TTATTTGCTT
895067 AATT-TTTTTAACTATA
1 AATTATTTTTAA-T-TA
895083 AATTATTTTTAATTA
1 AATTATTTTTAATTA
895098 AATTATATTTTAATT
1 AATTAT-TTTTAATT
895113 CAAGAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.29
16 13 0.46
17 7 0.25
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTTTTAATTA
Found at i:903449 original size:30 final size:31
Alignment explanation
Indices: 903415--903474 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
903405 TATATGTTTT
*
903415 TATTAATTAA-TTATTATAATATTT-ATTTAA
1 TATTAATTAACATATT-TAATATTTAATTTAA
903445 TATTAATTAACATATTTAATATTTAATTTA
1 TATTAATTAACATATTTAATATTTAATTTA
903475 TTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (31 bp):
TATTAATTAACATATTTAATATTTAATTTAA
Found at i:905073 original size:25 final size:28
Alignment explanation
Indices: 905025--905093 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
905015 GAATTTATTG
905025 ATAT-TTTA-AAATATTTTTATATATAAT
1 ATATATTTATAAAT-TTTTTATATATAAT
905052 -T-TATTCT-TAAATTTTTTA-ATATAAT
1 ATATATT-TATAAATTTTTTATATATAAT
905077 ATATATTTATAAATTTT
1 ATATATTTATAAATTTT
905094 ATTTTCATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
25 8 0.22
26 11 0.31
27 17 0.47
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (28 bp):
ATATATTTATAAATTTTTTATATATAAT
Found at i:905194 original size:13 final size:14
Alignment explanation
Indices: 905173--905214 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
905163 AAAAATTTAA
905173 AATATTAAATAAAT
1 AATATTAAATAAAT
*
905187 AA-ATTAAATATAAA
1 AATATTAAATA-AAT
905201 AATATTAAA-AAAT
1 AATATTAAATAAAT
905214 A
1 A
905215 GAGTTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 7 0.29
15 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AATATTAAATAAAT
Found at i:905199 original size:15 final size:15
Alignment explanation
Indices: 905171--905209 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
905161 GCAAAAATTT
905171 AAAATATTAAATA-A
1 AAAATATTAAATATA
*
905185 ATAA-ATTAAATATA
1 AAAATATTAAATATA
905199 AAAATATTAAA
1 AAAATATTAAA
905210 AAATAGAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 8 0.38
14 7 0.33
15 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATATTAAATATA
Found at i:905705 original size:16 final size:16
Alignment explanation
Indices: 905684--905770 Score: 52
Period size: 17 Copynumber: 5.2 Consensus size: 16
905674 TTTTTTTATA
905684 TTTTATTATATAATAT
1 TTTTATTATATAATAT
* *
905700 TTTTATATTTAAAATAT
1 TTTTAT-TATATAATAT
*
905717 TTTATATTTATATAAAAT
1 TTT-TA-TTATATAATAT
*
905735 TATTGATT-TAATAATAAT
1 T-TTTATTAT-ATAAT-AT
**
905753 TAATATTATATAA-AT
1 TTTTATTATATAATAT
905768 TTT
1 TTT
905771 AAAATATTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 15
0.66 0.15 0.19
Matches are distributed among these distances:
15 3 0.06
16 7 0.13
17 24 0.46
18 15 0.29
19 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
TTTTATTATATAATAT
Found at i:905762 original size:34 final size:34
Alignment explanation
Indices: 905687--905766 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 34
905677 TTTTATATTT
* * * * *
905687 TATTATATAATATTTTTATATTTAAAATATTTTA
1 TATTATATAAAATTATTAGATTTAAAATAATTAA
905721 TATTTATATAAAATTATT-GATTTAATAATAATTAA
1 TA-TTATATAAAATTATTAGATTTAA-AATAATTAA
905756 TATTATATAAA
1 TATTATATAAA
905767 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 17 0.44
35 22 0.56
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
TATTATATAAAATTATTAGATTTAAAATAATTAA
Found at i:905778 original size:19 final size:20
Alignment explanation
Indices: 905754--905801 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
905744 AATAATAATT
905754 AATATTATATAAATTT-TAA
1 AATATTATATAAATTTATAA
* *
905773 AATATTAT-TATATTTATAT
1 AATATTATATAAATTTATAA
905792 AATATT-TATA
1 AATATTATATA
905802 TTATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATTATATAAATTTATAA
Found at i:905800 original size:17 final size:17
Alignment explanation
Indices: 905681--905803 Score: 65
Period size: 16 Copynumber: 7.6 Consensus size: 17
905671 TGGTTTTTTT
905681 ATATTT-TA-TTATATA
1 ATATTTATATTTATATA
905696 ATATTTTTATATTTA-A-A
1 ATA--TTTATATTTATATA
905713 ATATTTTATATTTATATA
1 ATA-TTTATATTTATATA
*
905731 A-AATTATTGATTTA-ATA
1 ATATTTA-T-ATTTATATA
*
905748 ATAATTA-ATATTATATA
1 ATATTTATAT-TTATATA
*
905765 A-ATTT-TA---AAATA
1 ATATTTATATTTATATA
*
905777 TTA-TTATATTTATATA
1 ATATTTATATTTATATA
905793 ATATTTATATT
1 ATATTTATATT
905804 ATTTTTTTCA
Statistics
Matches: 84, Mismatches: 6, Indels: 34
0.68 0.05 0.27
Matches are distributed among these distances:
12 6 0.07
13 3 0.04
15 5 0.06
16 27 0.32
17 25 0.30
18 15 0.18
19 3 0.04
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (17 bp):
ATATTTATATTTATATA
Found at i:907845 original size:28 final size:28
Alignment explanation
Indices: 907813--907876 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
907803 TTGTCTACCT
* * * *
907813 TTTAATTGCTTTCTTTCTTTATTTTCCA
1 TTTAATTGCTTTATTTATTCATTTGCCA
*
907841 TTTAACTGCTTTATTTATTCATTTGCCA
1 TTTAATTGCTTTATTTATTCATTTGCCA
*
907869 TTTGATTG
1 TTTAATTG
907877 ACGTAATTGC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.17, C:0.16, G:0.08, T:0.59
Consensus pattern (28 bp):
TTTAATTGCTTTATTTATTCATTTGCCA
Found at i:907979 original size:16 final size:16
Alignment explanation
Indices: 907942--907979 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
907932 TTACATGTAC
*
907942 TTTATCTGCCCTTTAT
1 TTTATTTGCCCTTTAT
*
907958 TTTATTTGCTCTTTAT
1 TTTATTTGCCCTTTAT
907974 TTTATT
1 TTTATT
907980 ATATCTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.16, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTATTTGCCCTTTAT
Found at i:908069 original size:18 final size:19
Alignment explanation
Indices: 908030--908074 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
908020 TATTTTTTCG
908030 TTATTTAATATTTTACCTT
1 TTATTTAATATTTTACCTT
*
908049 TTATTTACAT-TTTTAGCTT
1 TTATTTA-ATATTTTACCTT
*
908068 TAATTTA
1 TTATTTA
908075 TTTGTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (19 bp):
TTATTTAATATTTTACCTT
Found at i:911719 original size:25 final size:26
Alignment explanation
Indices: 911691--911739 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
911681 AACAGTTTAT
*
911691 ATATTTTTA-TGATTAAAAAATAAAA
1 ATATTTTTATTAATTAAAAAATAAAA
*
911716 ATATTTTTATTAATTAAATAATAA
1 ATATTTTTATTAATTAAAAAATAA
911740 TTTAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
ATATTTTTATTAATTAAAAAATAAAA
Found at i:912176 original size:23 final size:24
Alignment explanation
Indices: 912146--912227 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 24
912136 TTAACATAGC
*
912146 TATTAAAATACTTATTA-TTC-AAA
1 TATTAAAATA-TTAGTATTTCAAAA
912169 TATTAAAAATATTAGTATTTCAAAA
1 TATT-AAAATATTAGTATTTCAAAA
*
912194 TATTTAAAATAGTATTAGTATTATTAAAA
1 TA-TT-AAA-A-TATTAGTATT-TCAAAA
912223 TATTA
1 TATTA
912228 TTTATGTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
23 9 0.18
24 9 0.18
25 5 0.10
26 6 0.12
27 2 0.04
28 12 0.24
29 7 0.14
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (24 bp):
TATTAAAATATTAGTATTTCAAAA
Found at i:912202 original size:25 final size:24
Alignment explanation
Indices: 912148--912204 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
912138 AACATAGCTA
*
912148 TTAAAATACTTATTATTCAAATAT
1 TTAAAATACTTAGTATTCAAATAT
*
912172 TAAAAATA-TTAGTATTTCAAAATAT
1 TTAAAATACTTAGTA-TTC-AAATAT
912197 TTAAAATA
1 TTAAAATA
912205 GTATTAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.18
24 10 0.36
25 13 0.46
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (24 bp):
TTAAAATACTTAGTATTCAAATAT
Found at i:913512 original size:17 final size:17
Alignment explanation
Indices: 913472--913506 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
913462 TTGAAACTAT
913472 TAATATTTTTAAAATAA
1 TAATATTTTTAAAATAA
913489 TAATATTTTTAAAA-AA
1 TAATATTTTTAAAATAA
913505 TA
1 TA
913507 TTTATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATATTTTTAAAATAA
Found at i:913519 original size:26 final size:27
Alignment explanation
Indices: 913490--913605 Score: 95
Period size: 26 Copynumber: 4.6 Consensus size: 27
913480 TTAAAATAAT
* *
913490 AATATTTTTAAAA-AATATTTATTATA
1 AATATTATTAAAATAATATTTAATATA
*
913516 AATATTATTAAAATAATATATAATATA
1 AATATTATTAAAATAATATTTAATATA
*
913543 AA-A-TACTTAAAATAATATTT--T-TT
1 AATATTA-TTAAAATAATATTTAATATA
** * *
913566 AATATTATTATTATATTATTT-ATATT
1 AATATTATTAAAATAATATTTAATATA
913592 AATATT-TTAAAATA
1 AATATTATTAAAATA
913606 TTTTAAATAT
Statistics
Matches: 74, Mismatches: 10, Indels: 13
0.76 0.10 0.13
Matches are distributed among these distances:
23 3 0.04
24 13 0.18
25 11 0.15
26 34 0.46
27 13 0.18
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (27 bp):
AATATTATTAAAATAATATTTAATATA
Found at i:913536 original size:16 final size:16
Alignment explanation
Indices: 913474--913547 Score: 61
Period size: 17 Copynumber: 4.9 Consensus size: 16
913464 GAAACTATTA
*
913474 ATATTTTTAAAATAAT
1 ATATTATTAAAATAAT
*
913490 AATATTTTTAAAA-AAT
1 -ATATTATTAAAATAAT
913506 AT-TTATT---ATAA-
1 ATATTATTAAAATAAT
913517 ATATTATTAAAATAAT
1 ATATTATTAAAATAAT
*
913533 ATATAATATAAAATA
1 ATATTAT-TAAAATA
913548 CTTAAAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
11 3 0.06
12 7 0.15
14 4 0.08
15 6 0.12
16 9 0.19
17 19 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTATTAAAATAAT
Found at i:913592 original size:20 final size:21
Alignment explanation
Indices: 913557--913597 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
913547 ACTTAAAATA
* *
913557 ATATTTTTTAATATTATTATT
1 ATATTATTTAATATTAATATT
913578 ATATTATTT-ATATTAATATT
1 ATATTATTTAATATTAATATT
913598 TTAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATTATTTAATATTAATATT
Done.