Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold221
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: 2539808
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 6 of 19
Found at i:713586 original size:20 final size:22
Alignment explanation
Indices: 713543--713592 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
713533 TAAATTTTGA
713543 TTAAA-TTTATTTAGATTAATT
1 TTAAATTTTATTTAGATTAATT
*
713564 TTAAATTTTATTT-TATT-ATT
1 TTAAATTTTATTTAGATTAATT
713584 TTAAATTTT
1 TTAAATTTT
713593 TATTATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 12 0.44
21 8 0.30
22 7 0.26
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTAAATTTTATTTAGATTAATT
Found at i:713601 original size:15 final size:16
Alignment explanation
Indices: 713574--713605 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
713564 TTAAATTTTA
713574 TTTTATTATTTTAAAT
1 TTTTATTATTTTAAAT
713590 TTTTATTA-TTTAAAT
1 TTTTATTATTTTAAAT
713605 T
1 T
713606 ATAATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTATTTTAAAT
Found at i:713618 original size:12 final size:12
Alignment explanation
Indices: 713592--713658 Score: 58
Period size: 12 Copynumber: 6.1 Consensus size: 12
713582 TTTTAAATTT
*
713592 TTATTATTTAAA
1 TTATAATTTAAA
713604 TTATAATTTAAA
1 TTATAATTTAAA
713616 TTATAA---AAA
1 TTATAATTTAAA
713625 TT-TATATTTAAA
1 TTATA-ATTTAAA
713637 TT-TAATTT-AA
1 TTATAATTTAAA
*
713647 -TATAAATTAAA
1 TTATAATTTAAA
713658 T
1 T
713659 CTTTTGAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
8 2 0.04
9 7 0.15
10 7 0.15
11 6 0.13
12 24 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TTATAATTTAAA
Found at i:713627 original size:27 final size:28
Alignment explanation
Indices: 713597--713658 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
713587 AATTTTTATT
713597 ATTTAAA-TTATAATTTAAATT-ATAAAA
1 ATTTAAATTTA-AATTTAAATTAATAAAA
* * *
713624 ATTTATATTTAAATTTAATTTAATATAA
1 ATTTAAATTTAAATTTAAATTAATAAAA
713652 A-TTAAAT
1 ATTTAAAT
713659 CTTTTGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTAAATTTAAATTTAAATTAATAAAA
Found at i:715412 original size:2 final size:2
Alignment explanation
Indices: 715400--715439 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
715390 TTGAAATGAA
715400 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
715440 AAATATGTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:716191 original size:13 final size:14
Alignment explanation
Indices: 716170--716206 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
716160 AAATTTTTTT
716170 TTTATTAATAAAAA
1 TTTATTAATAAAAA
*
716184 TTTA-TAAT-ATAA
1 TTTATTAATAAAAA
716196 TTTATTAATAA
1 TTTATTAATAA
716207 TATATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.35
13 8 0.40
14 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTATTAATAAAAA
Found at i:721896 original size:14 final size:14
Alignment explanation
Indices: 721872--721918 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
721862 AATATTAGCT
721872 ATAAT-TATATAAA
1 ATAATATATATAAA
721885 ATAATATATATAAA
1 ATAATATATATAAA
* * *
721899 ATAAAAAATATAAT
1 ATAATATATATAAA
721913 ATAATA
1 ATAATA
721919 CAAATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.17
14 24 0.83
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATATATATAAA
Found at i:721904 original size:19 final size:19
Alignment explanation
Indices: 721880--721916 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
721870 CTATAATTAT
721880 ATAAAATAATAT-ATATAAA
1 ATAAAA-AATATAATATAAA
721899 ATAAAAAATATAATATAA
1 ATAAAAAATATAATATAA
721917 TACAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAAAATATAATATAAA
Found at i:721927 original size:18 final size:16
Alignment explanation
Indices: 721877--721927 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 16
721867 TAGCTATAAT
721877 TATATAAAAT--AATA
1 TATATAAAATAAAATA
*
721891 TATATAAAATAAAAAA
1 TATATAAAATAAAATA
*
721907 TATAATATAATACAAATA
1 TAT-ATAAAATA-AAATA
721925 TAT
1 TAT
721928 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 10 0.33
16 6 0.20
17 7 0.23
18 7 0.23
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
TATATAAAATAAAATA
Found at i:723077 original size:18 final size:18
Alignment explanation
Indices: 723034--723084 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
723024 AATTATAATA
*
723034 AAAAATAATATGAATATAT
1 AAAAAT-ATATAAATATAT
**
723053 ACGAATATATAAATATAT
1 AAAAATATATAAATATAT
*
723071 AAAAATATAAAAAT
1 AAAAATATATAAAT
723085 TTTATATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AAAAATATATAAATATAT
Found at i:723189 original size:13 final size:13
Alignment explanation
Indices: 723153--723178 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
723143 TTATGTATAA
723153 TAAAAATAAAATT
1 TAAAAATAAAATT
723166 TAAAAATAAAATT
1 TAAAAATAAAATT
723179 ATAATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAATAAAATT
Found at i:723575 original size:11 final size:13
Alignment explanation
Indices: 723549--723580 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
723539 AAAATTTATT
723549 ATTAATATATATA
1 ATTAATATATATA
723562 ATTAATA-A-ATA
1 ATTAATATATATA
723573 ATTAATAT
1 ATTAATAT
723581 TTTAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.56
12 1 0.06
13 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAATATATATA
Found at i:732542 original size:2 final size:2
Alignment explanation
Indices: 732535--732570 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
732525 GGAATTCACA
732535 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
732571 TTCCTTTATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:735399 original size:15 final size:15
Alignment explanation
Indices: 735366--735399 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
735356 GGTTGAATCC
**
735366 AATCCAATCCAATCC
1 AATCCAATCCAATAA
735381 AATCCAATCCAATAA
1 AATCCAATCCAATAA
735396 AATC
1 AATC
735400 AAATGAAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (15 bp):
AATCCAATCCAATAA
Found at i:735403 original size:5 final size:5
Alignment explanation
Indices: 735361--735393 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
735351 GGTTGGGTTG
735361 AATCC AATCC AATCC AATCC AATCC AATCC AAT
1 AATCC AATCC AATCC AATCC AATCC AATCC AAT
735394 AAAATCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.21
Consensus pattern (5 bp):
AATCC
Found at i:735811 original size:22 final size:22
Alignment explanation
Indices: 735786--735843 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
735776 TTAATATATG
*
735786 AAAAAATTAATTTTAAATTTTT
1 AAAAAATTAATTTTAAATTTAT
*
735808 AAAAAATT-A-TTTATATTTAT
1 AAAAAATTAATTTTAAATTTAT
* *
735828 AAATAATTAGTTTTAA
1 AAAAAATTAATTTTAA
735844 CTCGTTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 16 0.55
21 1 0.03
22 12 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAAAATTAATTTTAAATTTAT
Found at i:735820 original size:42 final size:42
Alignment explanation
Indices: 735774--735860 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
735764 TTCAAATTTA
*
735774 ATTTA-ATATATGAAAAAATTAATTTTAAAT-TTTTAAAAAATT
1 ATTTATATATAT-AAAAAATTAATTTTAAATCGTTT-AAAAATT
* * * *
735816 ATTTATATTTATAAATAATTAGTTTTAACTCGTTTAAAAATT
1 ATTTATATATATAAAAAATTAATTTTAAATCGTTTAAAAATT
735858 ATT
1 ATT
735861 CATAATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
42 30 0.79
43 8 0.21
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (42 bp):
ATTTATATATATAAAAAATTAATTTTAAATCGTTTAAAAATT
Found at i:736470 original size:22 final size:24
Alignment explanation
Indices: 736424--736475 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
736414 ATTGGTTTGT
736424 ATAAATTTTTTAATTATCAAAATTA
1 ATAAATTTTTTAA-TATCAAAATTA
736449 ATAAATTTTTTAA-AT-AAAATTA
1 ATAAATTTTTTAATATCAAAATTA
*
736471 CTAAA
1 ATAAA
736476 ACACATTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.42
23 2 0.08
25 13 0.50
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAAATTTTTTAATATCAAAATTA
Found at i:736569 original size:26 final size:26
Alignment explanation
Indices: 736530--736581 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
736520 CAAAGTTCGA
736530 TTGCCCATACAACACTCCAAAGTAGT
1 TTGCCCATACAACACTCCAAAGTAGT
* * *
736556 TTGCCTATATAACATTCCAAAGTAGT
1 TTGCCCATACAACACTCCAAAGTAGT
736582 CACATTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.29
Consensus pattern (26 bp):
TTGCCCATACAACACTCCAAAGTAGT
Found at i:738384 original size:29 final size:30
Alignment explanation
Indices: 738352--738418 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
738342 AATAAAATCT
738352 ATTTAAAAGTTAT-AATCG-ATAAATATAAA
1 ATTTAAAAGTTATAAAT-GAATAAATATAAA
*
738381 ATTTAAAAGTTATAAATGAATAAATATAAC
1 ATTTAAAAGTTATAAATGAATAAATATAAA
*
738411 TTTTAAAA
1 ATTTAAAA
738419 AAATAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (30 bp):
ATTTAAAAGTTATAAATGAATAAATATAAA
Found at i:753620 original size:20 final size:19
Alignment explanation
Indices: 753561--753645 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 19
753551 CTGGAACGTA
*
753561 TTTTAT-AAATATTGATCT
1 TTTTATAAAATATTGATAT
* *
753579 TTTTATAAAATATTTATTT
1 TTTTATAAAATATTGATAT
**
753598 TTTTACTAATTTATTGATAT
1 TTTTA-TAAAATATTGATAT
* *
753618 TTTAAATAAAATATTTA-AT
1 TTT-TATAAAATATTGATAT
*
753637 ATTTATAAA
1 TTTTATAAA
753646 TCTATAATCT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
18 11 0.21
19 19 0.37
20 21 0.40
21 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTATAAAATATTGATAT
Found at i:753660 original size:15 final size:15
Alignment explanation
Indices: 753640--753695 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
753630 ATTTAATATT
753640 TATAAATCTATAATC
1 TATAAATCTATAATC
* *
753655 TATAAA-ATAT-ATT
1 TATAAATCTATAATC
753668 TATAAATCTATAATC
1 TATAAATCTATAATC
*
753683 TATAAATTTATAA
1 TATAAATCTATAA
753696 ATTATATTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
13 8 0.24
14 6 0.18
15 20 0.59
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAAATCTATAATC
Found at i:753671 original size:28 final size:28
Alignment explanation
Indices: 753635--753688 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
753625 AAAATATTTA
753635 ATATTTATAAATCTATAATCTATAAAAT
1 ATATTTATAAATCTATAATCTATAAAAT
753663 ATATTTATAAATCTATAATCTATAAA
1 ATATTTATAAATCTATAATCTATAAA
753689 TTTATAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (28 bp):
ATATTTATAAATCTATAATCTATAAAAT
Found at i:753694 original size:8 final size:8
Alignment explanation
Indices: 753640--753701 Score: 55
Period size: 8 Copynumber: 8.5 Consensus size: 8
753630 ATTTAATATT
753640 TATAAATC
1 TATAAATC
753648 TAT-AATC
1 TATAAATC
753655 TATAAA--
1 TATAAATC
* *
753661 -ATATATT
1 TATAAATC
753668 TATAAATC
1 TATAAATC
753676 TAT-AATC
1 TATAAATC
*
753683 TATAAATT
1 TATAAATC
753691 TATAAAT-
1 TATAAATC
753698 TATA
1 TATA
753702 TTGAAAGAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
5 4 0.09
7 18 0.40
8 23 0.51
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (8 bp):
TATAAATC
Found at i:753701 original size:15 final size:14
Alignment explanation
Indices: 753639--753701 Score: 65
Period size: 15 Copynumber: 4.4 Consensus size: 14
753629 TATTTAATAT
753639 TTATAAATCTATAA
1 TTATAAATCTATAA
* *
753653 TCTATAAA-ATATAT
1 T-TATAAATCTATAA
753667 TTATAAATCTATAA
1 TTATAAATCTATAA
*
753681 TCTATAAATTTATAAA
1 T-TATAAATCTAT-AA
753697 TTATA
1 TTATA
753702 TTGAAAGAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.15
14 11 0.28
15 20 0.50
16 3 0.08
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (14 bp):
TTATAAATCTATAA
Found at i:753949 original size:19 final size:18
Alignment explanation
Indices: 753879--753966 Score: 55
Period size: 19 Copynumber: 5.1 Consensus size: 18
753869 AAAAAAATTG
*
753879 TATTGTTATATATATAT-
1 TATTGTTATATATTTATA
753896 TATT-TT-TATA--TA-A
1 TATTGTTATATATTTATA
* *
753909 AATT-TTATATATTAATAAA
1 TATTGTTATATATT--TATA
753928 TATGTGTTATATATTTATA
1 TAT-TGTTATATATTTATA
*
753947 TATTTTTATTATATTTATA
1 TATTGTTA-TATATTTATA
753966 T
1 T
753967 TATTTTTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
13 7 0.12
14 4 0.07
15 4 0.07
16 2 0.04
17 4 0.07
18 6 0.11
19 20 0.35
20 1 0.02
21 9 0.16
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TATTGTTATATATTTATA
Found at i:753958 original size:21 final size:22
Alignment explanation
Indices: 753934--753991 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 22
753924 TAAATATGTG
753934 TTATATATTTATATATTTTT-A
1 TTATATATTTATATATTTTTAA
753955 -T-TATATTTATATTATTTTTAA
1 TTATATATTTATA-TATTTTTAA
* *
753976 TTA-ATTTTTTTATATT
1 TTATATATTTATATATT
753992 ACATTTGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 10 0.32
20 8 0.26
21 5 0.16
22 8 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TTATATATTTATATATTTTTAA
Found at i:753959 original size:11 final size:11
Alignment explanation
Indices: 753934--753991 Score: 61
Period size: 10 Copynumber: 5.6 Consensus size: 11
753924 TAAATATGTG
*
753934 TTATATATTTA
1 TTATATTTTTA
753945 -TATATTTTTA
1 TTATATTTTTA
*
753955 TTATATTTATA
1 TTATATTTTTA
*
753966 TTAT-TTTTAA
1 TTATATTTTTA
753976 TTA-ATTTTT-
1 TTATATTTTTA
753985 TTATATT
1 TTATATT
753992 ACATTTGTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 3 0.08
10 23 0.59
11 13 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATATTTTTA
Found at i:753987 original size:13 final size:15
Alignment explanation
Indices: 753948--753997 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
753938 ATATTTATAT
*
753948 ATTTTTATTATATTTAT
1 ATTTTT-TTATA-TTAC
753965 ATTATTTTTA-ATTA-
1 ATT-TTTTTATATTAC
753979 ATTTTTTTATATTAC
1 ATTTTTTTATATTAC
753994 ATTT
1 ATTT
753998 GTAGATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 6 0.20
14 7 0.23
15 7 0.23
16 1 0.03
17 6 0.20
18 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTATATTAC
Found at i:756478 original size:2 final size:2
Alignment explanation
Indices: 756473--756497 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
756463 TTTTACTGTT
756473 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 T
756498 CATTTAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:758140 original size:27 final size:26
Alignment explanation
Indices: 758086--758147 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
758076 ATCATGTGTG
758086 ATATATATATTTAAATATAAAAATAA
1 ATATATATATTTAAATATAAAAATAA
* *
758112 ATATATAATTTTTAAATAT-ATAATAA
1 ATATAT-ATATTTAAATATAAAAATAA
*
758138 A-ATATGTATT
1 ATATATATATT
758148 AACTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 3 0.10
25 4 0.13
26 13 0.42
27 11 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
ATATATATATTTAAATATAAAAATAA
Found at i:760172 original size:29 final size:28
Alignment explanation
Indices: 760139--760232 Score: 109
Period size: 30 Copynumber: 3.2 Consensus size: 28
760129 AAGTTTTTAT
760139 TTAAAATTAAAGATTTATTTAAATATAAA
1 TTAAAATTAAA-ATTTATTTAAATATAAA
760168 TTAAAATTTAAAATTTATTT-AATATAAA
1 TTAAAA-TTAAAATTTATTTAAATATAAA
* * *
760196 TAAAAAATAAAAAAAATTATTTAAATATAAA
1 T-TAAAAT--TAAAATTTATTTAAATATAAA
760227 TTAAAA
1 TTAAAA
760233 ATTATTTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
28 10 0.18
29 18 0.32
30 19 0.34
31 9 0.16
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (28 bp):
TTAAAATTAAAATTTATTTAAATATAAA
Found at i:760218 original size:30 final size:31
Alignment explanation
Indices: 760177--760234 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
760167 ATTAAAATTT
*
760177 AAAATTTATTT-AATATAAATAAAAAATAAA
1 AAAAATTATTTAAATATAAATAAAAAATAAA
*
760207 AAAAATTATTTAAATATAAATTAAAAAT
1 AAAAATTATTTAAATATAAATAAAAAAT
760235 TATTTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAAATTATTTAAATATAAATAAAAAATAAA
Found at i:760253 original size:20 final size:20
Alignment explanation
Indices: 760202--760255 Score: 81
Period size: 22 Copynumber: 2.6 Consensus size: 20
760192 TAAATAAAAA
*
760202 ATAAAAAAAATTATTTAAAT
1 ATAATAAAAATTATTTAAAT
760222 ATAAATTAAAAATTATTTAAAT
1 AT-AA-TAAAAATTATTTAAAT
760244 ATAATAAAAATT
1 ATAATAAAAATT
760256 TAAAACTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 10 0.32
21 4 0.13
22 17 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAATAAAAATTATTTAAAT
Found at i:761295 original size:28 final size:28
Alignment explanation
Indices: 761264--761318 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
761254 ATTCATATAT
761264 TAATATCATATTTATATTAT-TTTTAATA
1 TAATAT-ATATTTATATTATATTTTAATA
* *
761292 TAATATATTTTTTTATTATATTTTAAT
1 TAATATATATTTATATTATATTTTAAT
761319 TTTTTATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
TAATATATATTTATATTATATTTTAATA
Found at i:761304 original size:18 final size:18
Alignment explanation
Indices: 761276--761333 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
761266 ATATCATATT
761276 TATATTATTTTTAATATAA
1 TATATT-TTTTTAATATAA
* *
761295 TATATTTTTTTATTATAT
1 TATATTTTTTTAATATAA
* * *
761313 TTTAATTTTTT-ATATCA
1 TATATTTTTTTAATATAA
761330 TATA
1 TATA
761334 ATTATATTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
17 6 0.19
18 19 0.61
19 6 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTTTTTTAATATAA
Found at i:761335 original size:17 final size:16
Alignment explanation
Indices: 761276--761336 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
761266 ATATCATATT
* *
761276 TATATTATTTTTAATA
1 TATATAATTTTTTATA
*
761292 TAATATATTTTTTTATTA
1 T-ATATAATTTTTTA-TA
*
761310 TATTTTAATTTTTTATA
1 TA-TATAATTTTTTATA
761327 TCATATAATT
1 T-ATATAATT
761337 ATATTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
16 1 0.03
17 20 0.57
18 14 0.40
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATAATTTTTTATA
Found at i:761828 original size:32 final size:33
Alignment explanation
Indices: 761773--761837 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
761763 TTAATATTAT
*
761773 ATAAATATATTAATATATTAAAATTTATATAAA
1 ATAAATATACTAATATATTAAAATTTATATAAA
*
761806 ATAAAT-TACTAATGTATTAAAATTTATATAAA
1 ATAAATATACTAATATATTAAAATTTATATAAA
761838 TATATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 24 0.80
33 6 0.20
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (33 bp):
ATAAATATACTAATATATTAAAATTTATATAAA
Found at i:762138 original size:25 final size:24
Alignment explanation
Indices: 762109--762174 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
762099 AAAAAATATT
762109 TTTATAATTAAATTTAAATAAAAA
1 TTTATAATTAAATTTAAATAAAAA
* *
762133 TCTTAT--TTTAATTAATAAATAATAA
1 T-TTATAATTAAATT--TAAATAAAAA
762158 TTTA-AATTAAA-TTAAAT
1 TTTATAATTAAATTTAAAT
762175 CAATCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
22 5 0.15
23 6 0.18
24 5 0.15
25 18 0.53
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTATAATTAAATTTAAATAAAAA
Found at i:762425 original size:2 final size:2
Alignment explanation
Indices: 762415--762446 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
762405 GAGATTCGAT
*
762415 TA TA AA 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
762447 AACTCTGCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:763243 original size:24 final size:26
Alignment explanation
Indices: 763211--763263 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
763201 CGAGTAATAA
*
763211 AAATAAAATAATTATTTTA-CTTT-T
1 AAATAAAATAATAATTTTATCTTTAT
* *
763235 AAATTAAATAGTAATTTTATCTTTAT
1 AAATAAAATAATAATTTTATCTTTAT
763261 AAA
1 AAA
763264 AATTAAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.67
25 4 0.17
26 4 0.17
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
AAATAAAATAATAATTTTATCTTTAT
Found at i:763859 original size:70 final size:71
Alignment explanation
Indices: 763730--763869 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 71
763720 AATTAATGCT
* * *
763730 AAATTATCACAAAATAAAAAAATTAAATTTTTAAAAAATATTACCCCTACATTTATATTATTATT
1 AAATAATCACAAAACAAAAAAATTAAAATTTTAAAAAATATTACCCCTACATTTATATTATTATT
763795 AATATC
66 AATATC
* *
763801 AAATAATCACAAAACAAAAAAATTAAAATTTTAAAATA-ATTACCCCTATATTTATATTATTATT
1 AAATAATCACAAAACAAAAAAATTAAAATTTTAAAAAATATTACCCCTACATTTATATTATTATT
763865 AATAT
66 AATAT
763870 TTTTAAATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
70 30 0.47
71 34 0.53
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (71 bp):
AAATAATCACAAAACAAAAAAATTAAAATTTTAAAAAATATTACCCCTACATTTATATTATTATT
AATATC
Found at i:763871 original size:18 final size:18
Alignment explanation
Indices: 763848--763922 Score: 50
Period size: 18 Copynumber: 4.3 Consensus size: 18
763838 AATTACCCCT
*
763848 ATATTTATATTATTATTA
1 ATATTTATATTATTATAA
* *
763866 ATATTTTTA-AATTA-AA
1 ATATTTATATTATTATAA
* *
763882 AGATATA-ATTATCT-TAA
1 ATATTTATATTAT-TATAA
* *
763899 AAATTTATATTATTATTA
1 ATATTTATATTATTATAA
763917 ATATTT
1 ATATTT
763923 TTAAAAATTT
Statistics
Matches: 41, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
15 1 0.02
16 7 0.17
17 13 0.32
18 20 0.49
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (18 bp):
ATATTTATATTATTATAA
Found at i:764218 original size:53 final size:52
Alignment explanation
Indices: 764139--764239 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 52
764129 TTGTGCGAGG
764139 AAGGGATTGATTTGCGTTATTCGTGGAAGGAAGAG-GAAAGGGAAAACGTTAA
1 AAGGGATTGATTTGCGTTATTCGTGGAAGGAAGAGAG-AAGGGAAAACGTTAA
* *
764191 AAGGGATTGATTTTGCGTTATTTGTGGACGGAAGAGAGAAGGGAAAACG
1 AAGGGATTGA-TTTGCGTTATTCGTGGAAGGAAGAGAGAAGGGAAAACG
764240 AGAAAGGAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
52 10 0.22
53 34 0.76
54 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.36, T:0.24
Consensus pattern (52 bp):
AAGGGATTGATTTGCGTTATTCGTGGAAGGAAGAGAGAAGGGAAAACGTTAA
Found at i:764246 original size:52 final size:51
Alignment explanation
Indices: 764134--764246 Score: 149
Period size: 53 Copynumber: 2.2 Consensus size: 51
764124 TTGTATTGTG
*
764134 CGAGGAAGGGATTGATTTGCGTTATTCGTGGAAGGAAGAGGAAAGGGAAAA
1 CGAGAAAGGGATTGATTTGCGTTATTCGTGGAAGGAAGAGGAAAGGGAAAA
* *
764185 CGTTA-AAAGGGATTGATTTTGCGTTATTTGTGGACGGAAGA-GAGAAGGGAAAA
1 CG--AGAAAGGGATTGA-TTTGCGTTATTCGTGGAAGGAAGAGGA-AAGGGAAAA
764238 CGAGAAAGG
1 CGAGAAAGG
764247 AGAAATCGGC
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
51 3 0.06
52 17 0.31
53 34 0.63
ACGTcount: A:0.35, C:0.06, G:0.37, T:0.21
Consensus pattern (51 bp):
CGAGAAAGGGATTGATTTGCGTTATTCGTGGAAGGAAGAGGAAAGGGAAAA
Found at i:781638 original size:22 final size:19
Alignment explanation
Indices: 781613--781660 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
781603 AATCATAAAA
781613 AATTATTATATATTATACATTT
1 AATTATTATA-ATT-TA-ATTT
*
781635 AATTATTTTAATTTAATTT
1 AATTATTATAATTTAATTT
781654 AA-TATTA
1 AATTATTA
781661 AAATAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 6 0.25
20 2 0.08
21 3 0.12
22 9 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTATTATAATTTAATTT
Found at i:781876 original size:18 final size:19
Alignment explanation
Indices: 781853--781893 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
781843 TAGATTCATT
*
781853 TAAATTTAATTTTAAA-AA
1 TAAATTTAAATTTAAATAA
781871 TAAA-TTAAATTTAAATAA
1 TAAATTTAAATTTAAATAA
781889 TAAAT
1 TAAAT
781894 AATAACTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAATTTAAATTTAAATAA
Found at i:782265 original size:10 final size:10
Alignment explanation
Indices: 782252--782287 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
782242 ATTAAGTTTA
*
782252 AATAATTAAC
1 AATAATTGAC
782262 AATAATTGAC
1 AATAATTGAC
782272 AAATAATTGAC
1 -AATAATTGAC
782283 AATAA
1 AATAA
782288 CCTATTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (10 bp):
AATAATTGAC
Found at i:782278 original size:11 final size:11
Alignment explanation
Indices: 782251--782284 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
782241 AATTAAGTTT
*
782251 AAATAATTAAC
1 AAATAATTGAC
782262 -AATAATTGAC
1 AAATAATTGAC
782272 AAATAATTGAC
1 AAATAATTGAC
782283 AA
1 AA
782285 TAACCTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (11 bp):
AAATAATTGAC
Found at i:783191 original size:23 final size:23
Alignment explanation
Indices: 783145--783187 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
783135 ATTATTTTAT
*
783145 TAAAATTTAATTATTAAAATATA
1 TAAAATTTAATTATAAAAATATA
*
783168 TAAATTTTAA-TATAAAAATA
1 TAAAATTTAATTATAAAAATA
783188 ATATTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAAATTTAATTATAAAAATATA
Found at i:790467 original size:20 final size:19
Alignment explanation
Indices: 790444--790482 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
790434 TTAATTTAAA
790444 TTAAAATAATTTTAAATATT
1 TTAAAAT-ATTTTAAATATT
*
790464 TTAAAATATTTTTAATATT
1 TTAAAATATTTTAAATATT
790483 AAATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAAAATATTTTAAATATT
Found at i:792943 original size:30 final size:30
Alignment explanation
Indices: 792907--792965 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
792897 TGATAACTTT
792907 TTACAAGTGAAAGATTCAATTTTAAAATTG
1 TTACAAGTGAAAGATTCAATTTTAAAATTG
* *
792937 TTACAAGTGCAAGATTTAATTTTAAAATT
1 TTACAAGTGAAAGATTCAATTTTAAAATT
792966 ATATGAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (30 bp):
TTACAAGTGAAAGATTCAATTTTAAAATTG
Found at i:793045 original size:22 final size:21
Alignment explanation
Indices: 793011--793056 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
793001 AATAAATTTA
* *
793011 TCAAAATTTAAATTAAAATAT
1 TCAAAATTTAAATAAAAAAAT
*
793032 TCAAATTTTAAAATAAAAAAAT
1 TCAAAATTT-AAATAAAAAAAT
793054 TCA
1 TCA
793057 TATTACTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
TCAAAATTTAAATAAAAAAAT
Found at i:793543 original size:2 final size:2
Alignment explanation
Indices: 793536--793562 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
793526 AGATTCAAAC
793536 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 A
793563 AATTTACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:796695 original size:2 final size:2
Alignment explanation
Indices: 796683--796714 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
796673 TTATTAGCAT
796683 AC AC A- AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
796715 ACCACATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:797185 original size:2 final size:2
Alignment explanation
Indices: 797178--797209 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
797168 TTAGAGTTTC
797178 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
797210 CCATTGATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:799402 original size:4 final size:4
Alignment explanation
Indices: 799393--799419 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
799383 TACACGCCCT
799393 CTCC CTCC CTCC CTCC CTCC CTCC CTC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTC
799420 TCTCTCTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (4 bp):
CTCC
Found at i:799424 original size:2 final size:2
Alignment explanation
Indices: 799417--799454 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
799407 CCCTCCCTCC
799417 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
799455 TCTTGTGCGT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:800401 original size:24 final size:25
Alignment explanation
Indices: 800371--800420 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
800361 GAAAATTCAT
800371 TTTTGACTT-GTTATACATCAAACA
1 TTTTGACTTGGTTATACATCAAACA
800395 TTTTGACTTGGTTATACATCAAACA
1 TTTTGACTTGGTTATACATCAAACA
800420 T
1 T
800421 GACCCAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (25 bp):
TTTTGACTTGGTTATACATCAAACA
Found at i:800874 original size:22 final size:23
Alignment explanation
Indices: 800831--800874 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
800821 AAAAAATTAA
* *
800831 TTTATTATTAATATTTATATATT
1 TTTATAATTAATATTTAAATATT
800854 TTTATAATTAA-ATTTAAATAT
1 TTTATAATTAATATTTAAATAT
800875 AAAAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTATAATTAATATTTAAATATT
Found at i:802049 original size:2 final size:2
Alignment explanation
Indices: 802044--802079 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
802034 TCTCTCTCTC
*
802044 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
802080 ATCAACCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:804774 original size:9 final size:9
Alignment explanation
Indices: 804760--804798 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
804750 TATGAAAAAA
804760 AAATGTATT
1 AAATGTATT
*
804769 AAATGTAAT
1 AAATGTATT
804778 AAATGTATT
1 AAATGTATT
804787 ACACATGTATT
1 A-A-ATGTATT
804798 A
1 A
804799 CACATATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 17 0.65
10 1 0.04
11 8 0.31
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (9 bp):
AAATGTATT
Found at i:809253 original size:20 final size:20
Alignment explanation
Indices: 809230--809268 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
809220 TTTTCTATAT
* *
809230 TAATTATATTATTTTTTAAA
1 TAATAATATTAATTTTTAAA
*
809250 TAATAATGTTAATTTTTAA
1 TAATAATATTAATTTTTAA
809269 TTAAATAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TAATAATATTAATTTTTAAA
Found at i:809294 original size:22 final size:24
Alignment explanation
Indices: 809244--809294 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 24
809234 TATATTATTT
*
809244 TTTAAATAATAATGTTAATTTTTA
1 TTTAAATAATAATGTTAATTTATA
*
809268 ATTAAATAA-AAT-TTAATTTATA
1 TTTAAATAATAATGTTAATTTATA
809290 TTTAA
1 TTTAA
809295 TTTAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 13 0.54
23 3 0.12
24 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTAAATAATAATGTTAATTTATA
Found at i:809307 original size:27 final size:27
Alignment explanation
Indices: 809264--809343 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
809254 AATGTTAATT
*
809264 TTTAA-TTAAATAAAATTTAATTTATA
1 TTTAATTTAAATTAAATTTAATTTATA
* *
809290 TTTAATTTAAATTAAATTAAATATATAA
1 TTTAATTTAAATTAAATTTAATTTAT-A
*
809318 TTT--TTAAAATTTAAATTTAATTTATA
1 TTTAATTTAAA-TTAAATTTAATTTATA
809344 AATATTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
26 11 0.24
27 30 0.67
28 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTAATTTAAATTAAATTTAATTTATA
Found at i:809575 original size:17 final size:18
Alignment explanation
Indices: 809553--809586 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
809543 GTAAATCCAG
809553 TTATTATTATTT-TTTTA
1 TTATTATTATTTCTTTTA
809570 TTATTATTATTTCTTTT
1 TTATTATTATTTCTTTT
809587 GTACAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATTATTATTTCTTTTA
Found at i:810636 original size:18 final size:18
Alignment explanation
Indices: 810594--810636 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
810584 GTATATTTGT
* *
810594 ATATTTATTTTATAAAAA
1 ATATTTAATTAATAAAAA
*
810612 ATAATTTAATTAATTAAAA
1 AT-ATTTAATTAATAAAAA
810631 ATATTT
1 ATATTT
810637 TTTTGATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTAATTAATAAAAA
Found at i:810883 original size:15 final size:17
Alignment explanation
Indices: 810865--810900 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
810855 TATTTTTTAT
810865 TTTAATAA-TAA-ATAA
1 TTTAATAATTAATATAA
810880 TTTAATAATTAATATAA
1 TTTAATAATTAATATAA
810897 TTTA
1 TTTA
810901 TTATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 3 0.16
17 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAATAATTAATATAA
Found at i:812582 original size:31 final size:30
Alignment explanation
Indices: 812547--812609 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
812537 TTTAGATAAA
* *
812547 TAAATTTAT-TATTTTAATATTTTTATTATTT
1 TAAATATATATATTTTAA-ACTTTTATT-TTT
*
812578 TAAATATATATATTTTTAACTTTTATTTTT
1 TAAATATATATATTTTAAACTTTTATTTTT
812608 TA
1 TA
812610 TCTTATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 5 0.18
31 16 0.57
32 7 0.25
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (30 bp):
TAAATATATATATTTTAAACTTTTATTTTT
Found at i:813229 original size:17 final size:16
Alignment explanation
Indices: 813207--813275 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 16
813197 AAATAAAAAG
* *
813207 TAAAATTTATTATGAAA
1 TAAAATATAATAT-AAA
*
813224 TAAAATATAATATGATA
1 TAAAATATAATAT-AAA
813241 TAAAA-ATAATATAAA
1 TAAAATATAATATAAA
813256 TAAAATAT-ATATAATA
1 TAAAATATAATATAA-A
813272 TAAA
1 TAAA
813276 TTTATTTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
15 13 0.28
16 14 0.30
17 19 0.41
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
TAAAATATAATATAAA
Found at i:813475 original size:36 final size:36
Alignment explanation
Indices: 813419--813502 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
813409 TTTATATTTA
* * *
813419 AAAAATAATATATAAGTAGATAATGATAAATTAATCT
1 AAAAAT-ATATATAAATAGATAATAATAAAGTAATCT
*
813456 AAAAATATATATAAATAGATAGTAATAAAGTAATCT
1 AAAAATATATATAAATAGATAATAATAAAGTAATCT
*
813492 AAACATA-ATAT
1 AAAAATATATAT
813503 TTTCTTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 4 0.10
36 32 0.76
37 6 0.14
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (36 bp):
AAAAATATATATAAATAGATAATAATAAAGTAATCT
Found at i:814635 original size:18 final size:19
Alignment explanation
Indices: 814614--814660 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
814604 TGAATTATAA
814614 ATTTATTTTAAAT-TTTTT
1 ATTTATTTTAAATATTTTT
*
814632 ATTT-TTATAAAATATTTTT
1 ATTTATT-TTAAATATTTTT
814651 ATATTATTTT
1 AT-TTATTTT
814661 TATAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
17 2 0.09
18 9 0.39
19 7 0.30
20 3 0.13
21 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTATTTTAAATATTTTT
Found at i:814660 original size:11 final size:12
Alignment explanation
Indices: 814630--814669 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
814620 TTTAAATTTT
814630 TTATTTTTATAAA
1 TTATTTTTAT-AA
*
814643 ATATTTTTAT-A
1 TTATTTTTATAA
814654 TTATTTTTATAA
1 TTATTTTTATAA
814666 TTAT
1 TTAT
814670 AATTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 5 0.21
13 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATTTTTATAA
Found at i:814670 original size:30 final size:30
Alignment explanation
Indices: 814606--814688 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
814596 TATTTTATTG
814606 AATTATAAAT-TTATTTTAAA-T-TTTTTAT
1 AATTATAAATATT-TTTTAAATTATTTTTAT
** *
814634 TTTTATAAA-ATATTTTTATATTATTTTTAT
1 AATTATAAATAT-TTTTTAAATTATTTTTAT
*
814664 AATTATAATTATTTTTTAAATTATT
1 AATTATAAATATTTTTTAAATTATT
814689 AAATATGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
28 14 0.33
29 2 0.05
30 25 0.58
31 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
AATTATAAATATTTTTTAAATTATTTTTAT
Found at i:815126 original size:20 final size:21
Alignment explanation
Indices: 815103--815142 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
815093 TCCAAAAATT
*
815103 AATGCAAAA-GAACAAAACAC
1 AATGAAAAATGAACAAAACAC
*
815123 AATGAAAAATGAAGAAAACA
1 AATGAAAAATGAACAAAACA
815143 TGTTTCAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.07
Consensus pattern (21 bp):
AATGAAAAATGAACAAAACAC
Found at i:818771 original size:18 final size:19
Alignment explanation
Indices: 818731--818771 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
818721 ATTCTAATTT
*
818731 TTTTATATTTTTTAAAGTA
1 TTTTATATTTTATAAAGTA
*
818750 -TTTATATTTTATATA-TA
1 TTTTATATTTTATAAAGTA
818767 TTTTA
1 TTTTA
818772 ATATAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTATATTTTATAAAGTA
Found at i:819422 original size:16 final size:15
Alignment explanation
Indices: 819401--819445 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
819391 CGTGAGTTTA
*
819401 AAAAAATTTGAATAT
1 AAAAAATTTAAATAT
819416 GAAAAAATTTAAATAT
1 -AAAAAATTTAAATAT
*
819432 AAAATATATTAAAT
1 AAAAAAT-TTAAAT
819446 TTTATACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
AAAAAATTTAAATAT
Found at i:819595 original size:18 final size:18
Alignment explanation
Indices: 819569--819610 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
819559 TTATAATAAA
* *
819569 TTATTTAATAAATTGATT
1 TTATATAATAAATTAATT
819587 TTATATAATAAATTAATT
1 TTATATAATAAATTAATT
819605 TTATAT
1 TTATAT
819611 CATTTTAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTATATAATAAATTAATT
Found at i:819895 original size:2 final size:2
Alignment explanation
Indices: 819888--819931 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
819878 TCTAACCATG
*
819888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT CT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
819928 AT AT
1 AT AT
819932 TTTGTGTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:819972 original size:15 final size:16
Alignment explanation
Indices: 819952--819987 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
819942 TTAGATATCA
819952 TATTATATTTA-AAAT
1 TATTATATTTATAAAT
*
819967 TATTATATTTATAAGT
1 TATTATATTTATAAAT
819983 TATTA
1 TATTA
819988 AACATCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TATTATATTTATAAAT
Found at i:821019 original size:2 final size:2
Alignment explanation
Indices: 821002--821046 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
820992 ACTTCCATCC
* * *
821002 AT AT AC AT AC AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
821044 AT A
1 AT A
821047 ATGGTCACCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:822498 original size:28 final size:29
Alignment explanation
Indices: 822426--822498 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 29
822416 AAAATTATAA
* *
822426 TTAATTTAATTAAAAAAAATTATTTTAATT
1 TTAAATTAA-TAAAAATAATTATTTTAATT
** *
822456 TTTCA-TAATTAAAATAATTATTTT-ATT
1 TTAAATTAATAAAAATAATTATTTTAATT
822483 TTAAATTAATAAAAAT
1 TTAAATTAATAAAAAT
822499 TTAAAAATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
27 6 0.18
28 23 0.68
29 3 0.09
30 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TTAAATTAATAAAAATAATTATTTTAATT
Found at i:825235 original size:31 final size:31
Alignment explanation
Indices: 825194--825275 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
825184 AAGTAAAGAC
*
825194 TATATATAATATTTATTTAATATTAAAATTA
1 TATATTTAATATTTATTTAATATTAAAATTA
* *
825225 TATATTTAATATTTCATTT-ATTTTTAAATTA
1 TATATTTAATATTT-ATTTAATATTAAAATTA
* * *
825256 AATATTTTA-ATTTAATTAAT
1 TATATTTAATATTTATTTAAT
825276 TAAATCAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 3 0.07
30 6 0.14
31 30 0.70
32 4 0.09
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (31 bp):
TATATTTAATATTTATTTAATATTAAAATTA
Found at i:825760 original size:14 final size:14
Alignment explanation
Indices: 825736--825799 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 14
825726 TGTAAGTTAA
825736 TTATATAATAATATT
1 TTATATAATAA-ATT
825751 TTAT-TAATAAATT
1 TTATATAATAAATT
* *
825764 TTA-AAAATAAATA
1 TTATATAATAAATT
*
825777 TTA-ATAA-ATATT
1 TTATATAATAAATT
825789 TT-T-TAATAAAT
1 TTATATAATAAAT
825800 AATATCACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 3 0.08
12 8 0.20
13 19 0.47
14 6 0.15
15 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATATAATAAATT
Found at i:825766 original size:13 final size:13
Alignment explanation
Indices: 825736--825799 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 13
825726 TGTAAGTTAA
825736 TTATATAATAATATT
1 TTAT-TAATAA-ATT
825751 TTATTAATAAATT
1 TTATTAATAAATT
**
825764 TTAAAAATAAA--
1 TTATTAATAAATT
825775 -TATTAATAAATAT
1 TTATTAATAAAT-T
*
825788 TTTTTAATAAAT
1 TTATTAATAAAT
825800 AATATCACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
10 8 0.20
13 12 0.30
14 16 0.40
15 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTATTAATAAATT
Found at i:825772 original size:27 final size:29
Alignment explanation
Indices: 825742--825804 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 29
825732 TTAATTATAT
* *
825742 AATAATAT-TTTATTAATAAATTTTAA-A
1 AATAATATATTAATAAATAAATTTTAATA
**
825769 AATAA-ATATTAATAAATATTTTTTAATA
1 AATAATATATTAATAAATAAATTTTAATA
825797 AATAATAT
1 AATAATAT
825805 CACATAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 6 0.21
29 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AATAATATATTAATAAATAAATTTTAATA
Found at i:826380 original size:10 final size:10
Alignment explanation
Indices: 826349--826495 Score: 51
Period size: 10 Copynumber: 14.6 Consensus size: 10
826339 TATTAATTTA
826349 TTTATTTATAT
1 TTTA-TTATAT
826360 TTT-TTACATAT
1 TTTATT--ATAT
826371 TTTATTATAT
1 TTTATTATAT
* *
826381 TATAATCATA-
1 T-TTATTATAT
**
826391 TTTAAAATAT
1 TTTATTATAT
826401 TTTA-TATA-
1 TTTATTATAT
* *
826409 TTTATAAAAAT
1 TTTAT-TATAT
826420 TTTA-TATAT
1 TTTATTATAT
*
826429 TAATAATTTATAT
1 T--TTA-TTATAT
*
826442 TATATTA-A-
1 TTTATTATAT
*
826450 TTTA-TAAAT
1 TTTATTATAT
826459 ATTTA-TATTAT
1 -TTTATTA-TAT
826470 TTTATTATAT
1 TTTATTATAT
*
826480 TTTATTTTAT
1 TTTATTATAT
826490 TTTATT
1 TTTATT
826496 TCGTATTTTA
Statistics
Matches: 103, Mismatches: 16, Indels: 35
0.67 0.10 0.23
Matches are distributed among these distances:
7 2 0.02
8 8 0.08
9 15 0.15
10 43 0.42
11 27 0.26
12 2 0.02
13 6 0.06
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTATTATAT
Found at i:826440 original size:15 final size:15
Alignment explanation
Indices: 826405--826455 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
826395 AAATATTTTA
*
826405 TATATTTATAAAAATT
1 TATA-TTATAATAATT
826421 T-TATATATTAATAATT
1 TATAT-TA-TAATAATT
*
826437 TATATTATATTAATT
1 TATATTATAATAATT
826452 TATA
1 TATA
826456 AATATTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 1 0.03
15 15 0.50
16 11 0.37
17 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTATAATAATT
Found at i:826447 original size:18 final size:18
Alignment explanation
Indices: 826352--826450 Score: 56
Period size: 16 Copynumber: 5.9 Consensus size: 18
826342 TAATTTATTT
*
826352 ATTTATATT-TTTTACAT-
1 ATTTATATTATATTA-ATA
826369 ATTT-TATTATATT-ATA
1 ATTTATATTATATTAATA
* *
826385 A-TCATATT-TA-AAATA
1 ATTTATATTATATTAATA
* * *
826400 TTTTATA-TATTTATAAAA
1 ATTTATATTATAT-TAATA
826418 ATTT-TA-TATATTAATA
1 ATTTATATTATATTAATA
826434 ATTTATATTATATTAAT
1 ATTTATATTATATTAAT
826451 TTATAAATAT
Statistics
Matches: 61, Mismatches: 11, Indels: 19
0.67 0.12 0.21
Matches are distributed among these distances:
15 9 0.15
16 22 0.36
17 15 0.25
18 15 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTATATTAATA
Found at i:826471 original size:19 final size:19
Alignment explanation
Indices: 826388--826484 Score: 83
Period size: 19 Copynumber: 5.0 Consensus size: 19
826378 TATTATAATC
826388 ATATTTA-AAATATTTTAT
1 ATATTTATAAATATTTTAT
*
826406 ATATTTATAAAAATTTTAT
1 ATATTTATAAATATTTTAT
* * *
826425 ATATTAATAATTTATATTAT
1 ATATTTATAA-ATATTTTAT
826445 ATTAATTTATAAATA-TTTAT
1 A-T-ATTTATAAATATTTTAT
*
826465 ATTATTT-TATTATATTTTAT
1 A-TATTTATA-AATATTTTAT
826485 TTTATTTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
18 9 0.14
19 26 0.41
20 19 0.30
21 3 0.05
22 7 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTTATAAATATTTTAT
Found at i:826484 original size:30 final size:29
Alignment explanation
Indices: 826349--826484 Score: 75
Period size: 30 Copynumber: 4.5 Consensus size: 29
826339 TATTAATTTA
* *
826349 TTTATTTATATTTTTTACATATTTTATTAT
1 TTTA-TTATATTTTATAAATATTTTATTAT
* *
826379 ATTATAATCATATTTA-AAATATTTTA-TAT
1 TTTATTAT-AT-TTTATAAATATTTTATTAT
* * * *
826408 ATTTATAAAAATTTTAT--ATA-TTAATAAT
1 -TTTAT-TATATTTTATAAATATTTTATTAT
826436 TTATATTATATTAATTTATAAATATTTATATTAT
1 TT-TATTATA-T--TTTATAAATATTT-TATTAT
826470 TTTATTATATTTTAT
1 TTTATTATATTTTAT
826485 TTTATTTTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
27 7 0.09
28 9 0.11
29 10 0.12
30 30 0.38
31 5 0.06
32 4 0.05
33 9 0.11
34 6 0.08
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTATTATATTTTATAAATATTTTATTAT
Found at i:826489 original size:20 final size:22
Alignment explanation
Indices: 826460--826514 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
826450 TTTATAAATA
*
826460 TTTATATTATTTTA-TT-ATAT
1 TTTATTTTATTTTATTTCATAT
*
826480 TTTATTTTATTTTATTTCGTAT
1 TTTATTTTATTTTATTTCATAT
*
826502 TTTATTTAATTTT
1 TTTATTTTATTTT
826515 TATCTCGCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 13 0.43
21 2 0.07
22 15 0.50
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTATTTTATTTTATTTCATAT
Found at i:826496 original size:5 final size:5
Alignment explanation
Indices: 826460--826514 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
826450 TTTATAAATA
* * *
826460 TTTAT ATTAT TTTAT TATAT TTTAT TTTAT TTTAT TTCGTAT TTTAT TTAAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT--TAT TTTAT TTTAT
826512 TTT
1 TTT
826515 TATCTCGCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
5 37 0.88
7 5 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:826760 original size:18 final size:18
Alignment explanation
Indices: 826737--826784 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
826727 CAGGAAACAA
*
826737 AGGAGAAAGAAAAGGCAG
1 AGGAGAAAGAAAAAGCAG
826755 AGGAGAAAGAAAAAGCAG
1 AGGAGAAAGAAAAAGCAG
826773 AGGAGAAAGAAA
1 AGGAGAAAGAAA
826785 TCAAATCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.60, C:0.04, G:0.35, T:0.00
Consensus pattern (18 bp):
AGGAGAAAGAAAAAGCAG
Found at i:832512 original size:21 final size:21
Alignment explanation
Indices: 832433--832512 Score: 51
Period size: 21 Copynumber: 3.8 Consensus size: 21
832423 ATTCTATTAA
* *
832433 AAAAAATT-ATTTATATTATAT
1 AAAAAATTAAATTAAATTAT-T
** *
832454 AAAAAATTTCATTAATTTAATT
1 AAAAAATTAAATTAAATT-ATT
832476 -AAAAATTGATAA--AAATTATT
1 AAAAAATT-A-AATTAAATTATT
832496 AAAAAATTAAATTAAAT
1 AAAAAATTAAATTAAAT
832513 ATATATATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
19 2 0.04
20 4 0.09
21 30 0.67
22 6 0.13
23 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (21 bp):
AAAAAATTAAATTAAATTATT
Found at i:832615 original size:3 final size:3
Alignment explanation
Indices: 832607--832638 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
832597 GTAACTCCAG
*
832607 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
832639 TCTTTTGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:832957 original size:27 final size:25
Alignment explanation
Indices: 832927--832984 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
832917 TTTAATTTAA
*
832927 ATTTAATTTTTTAATTTAAAAATAAAT
1 ATTTAATTTTTTAAATT-AAAA-AAAT
* *
832954 ATTTTATTTTTTAAATTAATAAAAT
1 ATTTAATTTTTTAAATTAAAAAAAT
832979 ATTTAA
1 ATTTAA
832985 AAAATATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 9 0.33
26 3 0.11
27 15 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTAATTTTTTAAATTAAAAAAAT
Found at i:833146 original size:115 final size:116
Alignment explanation
Indices: 833020--833250 Score: 428
Period size: 115 Copynumber: 2.0 Consensus size: 116
833010 CATTAAAAAT
833020 TAATAAAATAAATCAATTTAAATTAATAAAATTTGATTATAACAAATCTTAGCTTTATATGAAAT
1 TAATAAAATAAATCAATTTAAATTAATAAAATTTGATTATAACAAATCTTAGCTTTATATGAAAT
*
833085 GCCATTTGATTTTACTTCAATTCTTAAAAATTTAAAATATTAC-AAATTAA
66 GCCATTTGATTTTACTTCAATTCTTAAAAATTCAAAATATTACAAAATTAA
*
833135 TAATAAAATAAATCAATTTAAATTAATAAAATTTGATTATAACCAATCTTAGCTTTATATGAAAT
1 TAATAAAATAAATCAATTTAAATTAATAAAATTTGATTATAACAAATCTTAGCTTTATATGAAAT
*
833200 GCCATTTGGTTTTACTTCAATTCTTAAAAATTCAAAATATTACAAAATTAA
66 GCCATTTGATTTTACTTCAATTCTTAAAAATTCAAAATATTACAAAATTAA
833251 ACAATAATAC
Statistics
Matches: 112, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
115 105 0.94
116 7 0.06
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (116 bp):
TAATAAAATAAATCAATTTAAATTAATAAAATTTGATTATAACAAATCTTAGCTTTATATGAAAT
GCCATTTGATTTTACTTCAATTCTTAAAAATTCAAAATATTACAAAATTAA
Found at i:833780 original size:10 final size:10
Alignment explanation
Indices: 833765--833795 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
833755 TATTTAAAAA
833765 ATATTTTTTT
1 ATATTTTTTT
*
833775 ATATTTTTTG
1 ATATTTTTTT
833785 ATATTTTTTT
1 ATATTTTTTT
833795 A
1 A
833796 AAAAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:833838 original size:21 final size:21
Alignment explanation
Indices: 833792--833843 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
833782 TTGATATTTT
*
833792 TTTA-AAAAATAATTTATTTA
1 TTTATAAAAATAATTTATTGA
*
833812 -AT-TAAAAATAATTTATTGA
1 TTTATAAAAATAATTTATTGA
833831 TTTATAAAAATAA
1 TTTATAAAAATAA
833844 GCTTTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 16 0.62
20 1 0.04
21 9 0.35
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTATAAAAATAATTTATTGA
Found at i:834078 original size:18 final size:16
Alignment explanation
Indices: 834055--834090 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
834045 ATATACAATT
834055 TAATATTATTTATTTTAA
1 TAATATTA-TTA-TTTAA
834073 TAATATTATTATTTAA
1 TAATATTATTATTTAA
834089 TA
1 TA
834091 TAAAATTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATATTATTATTTAA
Found at i:834093 original size:18 final size:17
Alignment explanation
Indices: 834055--834103 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
834045 ATATACAATT
*
834055 TAATATTATTTATTTTAA
1 TAATATTA-TTATTTAAA
834073 TAATATTATTATTTAATA
1 TAATATTATTATTTAA-A
* *
834091 TAAAATTAGTATT
1 TAATATTATTATT
834104 ACAACAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TAATATTATTATTTAAA
Found at i:834103 original size:21 final size:21
Alignment explanation
Indices: 834038--834104 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
834028 ATTTTGAATG
* *
834038 TTATTAAATATACAATTTAATA
1 TTATTTAATATA-AAATTAATA
* * *
834060 TTATTTATTTTAATAA-TATTA
1 TTATTTAATATAA-AATTAATA
*
834081 TTATTTAATATAAAATTAGTA
1 TTATTTAATATAAAATTAATA
834102 TTA
1 TTA
834105 CAACAATTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 23 0.66
22 10 0.29
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (21 bp):
TTATTTAATATAAAATTAATA
Found at i:835614 original size:6 final size:6
Alignment explanation
Indices: 835603--835646 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
835593 TATTTAATTT
*
835603 TTAAAA TTAAAA TTAAAA TTAAAA TTTAATAA TTTAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA -TTAA-AA TTAAAA TTAAAA
835647 AATCAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 25 0.74
7 7 0.21
8 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
TTAAAA
Found at i:835737 original size:16 final size:16
Alignment explanation
Indices: 835715--835755 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
835705 TATTTTCATA
835715 TTTTTAAAATA-ATAT
1 TTTTTAAAATATATAT
835730 TATTTT-AAATATATAT
1 T-TTTTAAAATATATAT
*
835746 TTTTAAAAAT
1 TTTTTAAAAT
835756 TTTAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTTAAAATATATAT
Found at i:836409 original size:11 final size:12
Alignment explanation
Indices: 836378--836413 Score: 56
Period size: 11 Copynumber: 3.0 Consensus size: 12
836368 AATTTTTTAT
836378 ATAATATAATATA
1 ATAATATAA-ATA
836391 ATAATATAAATA
1 ATAATATAAATA
836403 A-AATATAAATA
1 ATAATATAAATA
836414 TAAAACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 10 0.43
12 4 0.17
13 9 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:836417 original size:13 final size:12
Alignment explanation
Indices: 836375--836423 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
836365 TAAAATTTTT
*
836375 TATATAATATAA
1 TATAAAATATAA
836387 TATAATAATATAA
1 TATAA-AATATAA
836400 -ATAAAATATAAA
1 TATAAAATAT-AA
*
836412 TATAAAACATAA
1 TATAAAATATAA
836424 AATTATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 5 0.16
12 12 0.38
13 15 0.47
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
TATAAAATATAA
Found at i:836611 original size:39 final size:38
Alignment explanation
Indices: 836553--836627 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 38
836543 TAATATATTC
*
836553 ATATTAAAAAATATATATAAGTAAATAGTGATAAATCG
1 ATATTAAAAAATATATATAAGTAAATAGTAATAAATCG
**
836591 ATATTAAAAAATAATATATAAGTGGATAGTAATAAAT
1 ATATTAAAAAAT-ATATATAAGTAAATAGTAATAAAT
836628 AATTTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 12 0.36
39 21 0.64
ACGTcount: A:0.56, C:0.01, G:0.11, T:0.32
Consensus pattern (38 bp):
ATATTAAAAAATATATATAAGTAAATAGTAATAAATCG
Found at i:836935 original size:16 final size:16
Alignment explanation
Indices: 836894--836936 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
836884 ATTATATTTA
836894 AATTTAATCATAAAAAT
1 AATTTAAT-ATAAAAAT
* *
836911 AAATAAATATAAAAAT
1 AATTTAATATAAAAAT
*
836927 ATTTTAATAT
1 AATTTAATAT
836937 TTTTAATAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTTAATATAAAAAT
Found at i:837708 original size:14 final size:15
Alignment explanation
Indices: 837689--837717 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
837679 TTTTATTAAA
837689 TCAT-AAATATATTT
1 TCATAAAATATATTT
837703 TCATAAAATATATTT
1 TCATAAAATATATTT
837718 ATATTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
TCATAAAATATATTT
Found at i:837738 original size:11 final size:11
Alignment explanation
Indices: 837715--837745 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
837705 ATAAAATATA
837715 TTTATATTATT
1 TTTATATTATT
837726 TTTA-ATTATT
1 TTTATATTATT
837736 TTTATATTAT
1 TTTATATTAT
837746 ATAATTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATATTATT
Found at i:839843 original size:22 final size:23
Alignment explanation
Indices: 839816--839862 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
839806 AAAAAGTTGA
839816 ATTAATCAAAAT-TACAAATTTT
1 ATTAATCAAAATGTACAAATTTT
* * *
839838 ATTAATTAAATTGTTCAAATTTT
1 ATTAATCAAAATGTACAAATTTT
839861 AT
1 AT
839863 GAATTGATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTAATCAAAATGTACAAATTTT
Found at i:840168 original size:16 final size:16
Alignment explanation
Indices: 840149--840202 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
840139 TTCAAATTTA
840149 AAAAAATTTAAATATG
1 AAAAAATTTAAATATG
840165 AAAAAATTTAAATAT-
1 AAAAAATTTAAATATG
* *
840180 AAAAAGGTTTAATTATG
1 AAAAA-ATTTAAATATG
840197 AAAAAA
1 AAAAAA
840203 ACCTGAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 5 0.15
16 23 0.70
17 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
AAAAAATTTAAATATG
Found at i:840381 original size:18 final size:18
Alignment explanation
Indices: 840341--840381 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
840331 TTTATAATAA
* *
840341 ATTATTTAATAAATTTAT
1 ATTATATAATAAATTAAT
*
840359 TTTATATAATAAATTAAT
1 ATTATATAATAAATTAAT
840377 ATTAT
1 ATTAT
840382 CATTTTACTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATATAATAAATTAAT
Found at i:842966 original size:19 final size:19
Alignment explanation
Indices: 842924--842966 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
842914 TAAATTTATT
842924 TTAATTTTTTATAATTAAA
1 TTAATTTTTTATAATTAAA
* *
842943 ATAATTATTTTAT-TTTAAA
1 TTAATT-TTTTATAATTAAA
842962 TTAAT
1 TTAAT
842967 AAAAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAATTTTTTATAATTAAA
Found at i:842966 original size:28 final size:31
Alignment explanation
Indices: 842901--842972 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 31
842891 AATTATAATT
*
842901 AATTAAATTAAAATAAATTTATTTTAATTTTT
1 AATT-AATTAAAATAAATTTATTTTAATTTTA
*
842933 TA-TAATTAAAAT-AA-TTATTTT-ATTTTA
1 AATTAATTAAAATAAATTTATTTTAATTTTA
*
842960 AATTAATAAAAAT
1 AATTAATTAAAAT
842973 TAAAAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 6 0.17
28 16 0.46
29 2 0.06
30 9 0.26
31 1 0.03
32 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
AATTAATTAAAATAAATTTATTTTAATTTTA
Found at i:843817 original size:3 final size:3
Alignment explanation
Indices: 843809--843842 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
843799 AAGAAAAAAC
*
843809 AAG AAG AAG AAG AAG AAG AAG AAG AAG TAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
843843 TGGATTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:846977 original size:32 final size:32
Alignment explanation
Indices: 846939--847008 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 32
846929 ATTGGTGTAT
* *
846939 TTATATTTTTGATATATTTTATTATATT-ATAA
1 TTATATTTTTAAAATATTTTA-TATATTAATAA
846971 TTATA--TTTAAAATATTTTATATATTAATAA
1 TTATATTTTTAAAATATTTTATATATTAATAA
847001 TTCATATT
1 TT-ATATT
847009 ATATTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
29 6 0.19
30 18 0.56
31 3 0.09
32 5 0.16
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (32 bp):
TTATATTTTTAAAATATTTTATATATTAATAA
Found at i:846986 original size:41 final size:41
Alignment explanation
Indices: 846941--847027 Score: 101
Period size: 41 Copynumber: 2.1 Consensus size: 41
846931 TGGTGTATTT
*
846941 ATATTTTTGATATATT-TTATT-ATATTATAATT-ATATTTAAA
1 ATATTTTT-ATATATTATAATTCATATTAT-ATTAAT-TTTAAA
846982 ATA-TTTTATATATTAATAATTCATATTATATTAATTTTAAA
1 ATATTTTTATATATT-ATAATTCATATTATATTAATTTTAAA
847023 ATATT
1 ATATT
847028 CATATGTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
39 7 0.17
40 4 0.10
41 19 0.47
42 10 0.25
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (41 bp):
ATATTTTTATATATTATAATTCATATTATATTAATTTTAAA
Found at i:847027 original size:100 final size:99
Alignment explanation
Indices: 846887--847066 Score: 213
Period size: 100 Copynumber: 1.8 Consensus size: 99
846877 AAAAAATTGA
* * * * *
846887 TTTATCTATCTAATAATTTATTTATTTTAAGTTAATATATTAATTGGTGTATTTATATT-TTTGA
1 TTTATATATCTAATAATTCATTTATATTAAGTTAAAATATTAA-T-ATGTATTTATATTATTTGA
*
846951 T-ATATTTTATTATATTATAATTATATTTAAAATAT
64 TCATATCTTATTATATTATAATTATATTTAAAATAT
* * *
846986 TTTATATAT-TAATAATTCATATTATATTAATTTTAAAATATTCATATGTATTTATATTATTTTA
1 TTTATATATCTAATAATTCAT-TTATATTAA-GTTAAAATATTAATATGTATTTATATTATTTGA
*
847050 TCATATCTTATTTTATT
64 TCATATCTTATTATATT
847067 TCATATTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
98 22 0.33
99 22 0.33
100 23 0.34
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (99 bp):
TTTATATATCTAATAATTCATTTATATTAAGTTAAAATATTAATATGTATTTATATTATTTGATC
ATATCTTATTATATTATAATTATATTTAAAATAT
Done.