Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold73
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: 1308442
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.31
Warning! 157727 characters in sequence are not A, C, G, or T
File 6 of 9
Found at i:731705 original size:62 final size:62
Alignment explanation
Indices: 731619--731810 Score: 190
Period size: 62 Copynumber: 3.0 Consensus size: 62
731609 AGGTCTGATA
* * *
731619 AAAACTACTAAATCACCTATTTAATCAACAATGACAAACTATCAAATTTCTCATTTAGTCAAGC
1 AAAACCACCAAATCACCT-TTTAATCAACAATGACAAACTATCAAATCTCTCATTTAGTCAA-C
* * *
731683 -AAACCATCAAATCACCTTTTAATTAATAAT-AGCAAACTATCAAATCTCTCATTTAGTCAAC
1 AAAACCACCAAATCACCTTTTAATCAACAATGA-CAAACTATCAAATCTCTCATTTAGTCAAC
* * * * *
731744 AATAATAAACCACCAAATCACCCATTAAATCAACAATGACAAACTATTAAATCTCTCGTTTAATC
1 ----A-AAACCACCAAATCA-CCTTTTAATCAACAATGACAAACTATCAAATCTCTCATTTAGTC
731809 AA
60 AA
731811 TAATAACAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
61 2 0.02
62 38 0.36
63 14 0.13
67 13 0.12
68 37 0.35
69 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.29
Consensus pattern (62 bp):
AAAACCACCAAATCACCTTTTAATCAACAATGACAAACTATCAAATCTCTCATTTAGTCAAC
Found at i:731798 original size:68 final size:67
Alignment explanation
Indices: 731616--731828 Score: 224
Period size: 68 Copynumber: 3.2 Consensus size: 67
731606 TAAAGGTCTG
* * * *
731616 ATAAAAACTACTAAATCACCTATTTAATCAACAATGACAAACTATCAAATTTCTCATTTAGTCAA
1 ATAAAAACCACCAAATCACCCATTTAATCAACAATGACAAACTATCAAATCTCTCATTTAGTCAA
731681 GC-
66 -CA
* * * *
731683 ----AAACCATCAAATCA-CCTTTTAATTAATAAT-AGCAAACTATCAAATCTCTCATTTAGTCA
1 ATAAAAACCACCAAATCACCCATTTAATCAACAATGA-CAAACTATCAAATCTCTCATTTAGTCA
731742 ACA
65 ACA
* * * *
731745 ATAATAAACCACCAAATCACCCATTAAATCAACAATGACAAACTATTAAATCTCTCGTTTAATCA
1 ATAA-AAACCACCAAATCACCCATTTAATCAACAATGACAAACTATCAAATCTCTCATTTAGTCA
*
731810 ATA
65 ACA
731813 ATAACAAACCACCAAA
1 ATAA-AAACCACCAAA
731829 CCAATAACAA
Statistics
Matches: 119, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
61 2 0.02
62 39 0.33
63 11 0.09
67 13 0.11
68 53 0.45
69 1 0.01
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.27
Consensus pattern (67 bp):
ATAAAAACCACCAAATCACCCATTTAATCAACAATGACAAACTATCAAATCTCTCATTTAGTCAA
CA
Found at i:734839 original size:18 final size:18
Alignment explanation
Indices: 734818--734867 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
734808 ATATATTAAA
734818 AATAAAATAAATTAATTG
1 AATAAAATAAATTAATTG
*
734836 AAT-AAATAATATT-ATTT
1 AATAAAATAA-ATTAATTG
734853 AATAAAATTAAATTA
1 AATAAAA-TAAATTA
734868 GATAAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 12 0.44
18 12 0.44
19 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATAAAATAAATTAATTG
Found at i:735051 original size:23 final size:22
Alignment explanation
Indices: 735001--735073 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 22
734991 ATTTTGGTAT
*
735001 AAATTAT-TA-TTTAAAATATAA
1 AAATTATATATTTTATAAT-TAA
* *
735022 AAAATATATTTTTTAT-ATTAA
1 AAATTATATATTTTATAATTAA
* *
735043 TATTTATATATTTTATAATTAA
1 AAATTATATATTTTATAATTAA
735065 AAATTATAT
1 AAATTATAT
735074 TATAAAATGA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 21 0.52
22 15 0.38
23 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATTATATATTTTATAATTAA
Found at i:737463 original size:2 final size:2
Alignment explanation
Indices: 737458--737496 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
737448 TTTTTCTTTT
737458 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
737497 AGGAAAGGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:739174 original size:51 final size:51
Alignment explanation
Indices: 739119--739216 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
739109 TTCTTCCACA
* * *
739119 AATTGCACATGCAGTAATTTTATTAGCAACACAGATAGTCATGGTTTGGCT
1 AATTGAACATGCAGTAATTCTATTAGCAACACAAATAGTCATGGTTTGGCT
* * * *
739170 AATTGAAGATGCAGTAGTTCTATTAGCAACATAAATATTCATGGTTT
1 AATTGAACATGCAGTAATTCTATTAGCAACACAAATAGTCATGGTTT
739217 CTTTCCAGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (51 bp):
AATTGAACATGCAGTAATTCTATTAGCAACACAAATAGTCATGGTTTGGCT
Found at i:741267 original size:14 final size:15
Alignment explanation
Indices: 741244--741280 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
741234 AGACGTGATA
741244 ATAT-TAAATATAA-
1 ATATATAAATATAAC
*
741257 TTATATAAATATAAC
1 ATATATAAATATAAC
741272 ATATATAAA
1 ATATATAAA
741281 ACAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 3 0.15
14 9 0.45
15 8 0.40
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATATAAATATAAC
Found at i:741330 original size:17 final size:16
Alignment explanation
Indices: 741302--741344 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
741292 ATGATAAAAT
*
741302 AAATACATATTTCAAA
1 AAATATATATTTCAAA
741318 AAATATTATATTTCAAA
1 AAATA-TATATTTCAAA
741335 AAATATATAT
1 AAATATATAT
741345 AATAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATATATATTTCAAA
Found at i:741631 original size:18 final size:19
Alignment explanation
Indices: 741610--741656 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
741600 TTGTATTTTT
*
741610 TTAATTATTTTTA-AAATA
1 TTAATTATTTATATAAATA
* *
741628 TTAAATATTTATATAAATT
1 TTAATTATTTATATAAATA
741647 TTAATATATT
1 TTAAT-TATT
741657 AATAATTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 11 0.48
19 8 0.35
20 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATTATTTATATAAATA
Found at i:741649 original size:27 final size:28
Alignment explanation
Indices: 741618--741702 Score: 95
Period size: 32 Copynumber: 3.0 Consensus size: 28
741608 TTTTAATTAT
*
741618 TTTTAAAATATTAAAT-ATTTATATAAA
1 TTTTAATATATTAAATAATTTATATAAA
741645 TTTTAATATATT-AATAATTGATATAATATAAA
1 TTTTAATATATTAAATAA-T--T-T-ATATAAA
741677 TTTTAATATATT-AATAATTTATATAA
1 TTTTAATATATTAAATAATTTATATAA
741703 TATAAATTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
26 3 0.06
27 18 0.35
28 2 0.04
29 1 0.02
30 1 0.02
31 2 0.04
32 24 0.47
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
TTTTAATATATTAAATAATTTATATAAA
Found at i:741674 original size:32 final size:32
Alignment explanation
Indices: 741638--741720 Score: 157
Period size: 32 Copynumber: 2.6 Consensus size: 32
741628 TTAAATATTT
741638 ATATAAATTTTAATATATTAATAATTGATATA
1 ATATAAATTTTAATATATTAATAATTGATATA
*
741670 ATATAAATTTTAATATATTAATAATTTATATA
1 ATATAAATTTTAATATATTAATAATTGATATA
741702 ATATAAATTTTAATATATT
1 ATATAAATTTTAATATATT
741721 TATTTTAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (32 bp):
ATATAAATTTTAATATATTAATAATTGATATA
Found at i:741695 original size:17 final size:17
Alignment explanation
Indices: 741639--741720 Score: 77
Period size: 17 Copynumber: 5.1 Consensus size: 17
741629 TAAATATTTA
741639 TATAAATTTTAATATAT
1 TATAAATTTTAATATAT
* *
741656 TA-ATAA--TTGATATAA
1 TATA-AATTTTAATATAT
741671 TATAAATTTTAATATAT
1 TATAAATTTTAATATAT
*
741688 TA-ATAA-TTT-ATATAA
1 TATA-AATTTTAATATAT
741703 TATAAATTTTAATATAT
1 TATAAATTTTAATATAT
741720 T
1 T
741721 TATTTTAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
15 20 0.39
16 10 0.20
17 21 0.41
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (17 bp):
TATAAATTTTAATATAT
Found at i:741733 original size:15 final size:14
Alignment explanation
Indices: 741676--741738 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
741666 TATAATATAA
741676 ATTTTAATATATTAAT
1 ATTTTAATATATT--T
* **
741692 AATTTATATAATATAA
1 ATTTTA-AT-ATATTT
741708 ATTTTAATATATTT
1 ATTTTAATATATTT
741722 ATTTTAAATATATTT
1 ATTTT-AATATATTT
741737 AT
1 AT
741739 ATGTGTTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
14 9 0.24
15 13 0.34
16 10 0.26
17 2 0.05
18 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTAATATATTT
Found at i:741733 original size:32 final size:31
Alignment explanation
Indices: 741638--741733 Score: 113
Period size: 32 Copynumber: 3.0 Consensus size: 31
741628 TTAAATATTT
* * *
741638 ATATAAATTTTAATATATTAATAATTGATATA
1 ATATAAATTTTAATATATTTAT-TTTAATATA
*
741670 ATATAAATTTTAATATATTAATAATTT-ATATA
1 ATATAAATTTTAATATATT--TATTTTAATATA
741702 ATATAAATTTTAATATATTTATTTTAAATATA
1 ATATAAATTTTAATATATTTATTTT-AATATA
741734 TTTATATGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
30 5 0.09
32 48 0.86
33 2 0.04
34 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (31 bp):
ATATAAATTTTAATATATTTATTTTAATATA
Found at i:743325 original size:2 final size:2
Alignment explanation
Indices: 743318--743342 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
743308 AGCATACATT
743318 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
743343 GTGTGTGTGT
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:745641 original size:24 final size:24
Alignment explanation
Indices: 745592--745641 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
745582 TGATACAAAA
* * *
745592 TATTTATTTTTTTATATGTTTATT
1 TATTTAATTTTTTAAATATTTATT
745616 TATTTAATTTTTTAAATCATTT-TT
1 TATTTAATTTTTTAAAT-ATTTATT
745640 TA
1 TA
745642 ATATTTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TATTTAATTTTTTAAATATTTATT
Found at i:746363 original size:18 final size:19
Alignment explanation
Indices: 746335--746372 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
746325 AGGAATTTAA
*
746335 TTAATAATATTTTTATATT
1 TTAATAATATTTTAATATT
746354 TTAA-AATATTTTAATATT
1 TTAATAATATTTTAATATT
746372 T
1 T
746373 ATTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTAATAATATTTTAATATT
Found at i:746633 original size:2 final size:2
Alignment explanation
Indices: 746626--746678 Score: 72
Period size: 2 Copynumber: 26.5 Consensus size: 2
746616 CATGGCACAT
* *
746626 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGC TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
746669 TA TA TA -A TA T
1 TA TA TA TA TA T
746679 TTTAAAAGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 43 0.96
3 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:747296 original size:21 final size:22
Alignment explanation
Indices: 747232--747312 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 22
747222 ATTATATTTT
*
747232 ACATAAAAATTAAT-AAATTTAT
1 ACAT-AAAATTAATCAAATTTAC
* * *
747254 ACATATTATTTAAACAAATTTA-
1 ACATA-AAATTAATCAAATTTAC
747276 ACATAAAATTAATCAAATTTAC
1 ACATAAAATTAATCAAATTTAC
747298 ACATAATAATATAAT
1 ACATAA-AAT-TAAT
747313 TTAAAATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 14 0.29
22 20 0.42
23 10 0.21
24 4 0.08
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (22 bp):
ACATAAAATTAATCAAATTTAC
Found at i:748560 original size:14 final size:14
Alignment explanation
Indices: 748538--748570 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
748528 TATATTTTTT
*
748538 TATATTTTATATAA
1 TATAATTTATATAA
748552 TATAATTTATATAA
1 TATAATTTATATAA
748566 TATAA
1 TATAA
748571 AAAAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATAATTTATATAA
Found at i:748585 original size:38 final size:38
Alignment explanation
Indices: 748541--748615 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
748531 ATTTTTTTAT
*
748541 ATTTTATATAATATAAT-TTATATAATATAAAAAAATAA
1 ATTTTATATAATATAATAATATA-AATATAAAAAAATAA
* *
748579 ATTTTATATAATATTATAATATAAATATTAAAAAATA
1 ATTTTATATAATATAATAATATAAATATAAAAAAATA
748616 TTTTAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 29 0.88
39 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (38 bp):
ATTTTATATAATATAATAATATAAATATAAAAAAATAA
Found at i:748602 original size:24 final size:24
Alignment explanation
Indices: 748547--748604 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
748537 TTATATTTTA
748547 TATAATAT-AA-TTTATATAATAT
1 TATAATATAAATTTTATATAATAT
* * *
748569 AAAAAAATAAATTTTATATAATAT
1 TATAATATAAATTTTATATAATAT
748593 TATAATATAAAT
1 TATAATATAAAT
748605 ATTAAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 5 0.18
23 2 0.07
24 21 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TATAATATAAATTTTATATAATAT
Found at i:748752 original size:42 final size:42
Alignment explanation
Indices: 748698--748779 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
748688 AAAAAATAAA
748698 AAATTAATATAAAATTTAAATAA-ATTT-AAACTATTTATTTAT
1 AAATTAATATAAAATTT-AATAACATTTAAAACT-TTTATTTAT
*
748740 AAATATAA-ATAAACTTTAATAACATTTAAAACTTTTATTT
1 AAAT-TAATATAAAATTTAATAACATTTAAAACTTTTATTT
748780 CAAGTTACAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
41 5 0.14
42 23 0.64
43 8 0.22
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (42 bp):
AAATTAATATAAAATTTAATAACATTTAAAACTTTTATTTAT
Found at i:748850 original size:16 final size:17
Alignment explanation
Indices: 748792--748854 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 17
748782 AGTTACACTA
*
748792 AATTTAAATAATTATATAT
1 AATTT-AATAA-TATATTT
*
748811 AATATTAATATTATATTT
1 AAT-TTAATAATATATTT
748829 AAATTTAATAATATATTT
1 -AATTTAATAATATATTT
748847 -ATTTAATA
1 AATTTAATA
748855 TATCCTATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 8 0.21
18 19 0.49
19 10 0.26
20 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTTAATAATATATTT
Found at i:749107 original size:18 final size:18
Alignment explanation
Indices: 749081--749126 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
749071 TATTAATATT
* *
749081 TTTAATATATTATTTTAA
1 TTTATTATATTATTTAAA
749099 TTTATTATATTATTTAAA
1 TTTATTATATTATTTAAA
749117 TATT-TTATAT
1 T-TTATTATAT
749127 ATAAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATTATATTATTTAAA
Found at i:749137 original size:35 final size:31
Alignment explanation
Indices: 749098--749176 Score: 86
Period size: 35 Copynumber: 2.4 Consensus size: 31
749088 TATTATTTTA
749098 ATTTATTATATTATTTAAATATTTTATATATAAAT
1 ATTTATTATATT-TTTAAAT-TTTTA-ATA-AAAT
*
749133 ATTTATAATATATTTTTAAGTTTTTAATAAAAT
1 ATTTAT--TATATTTTTAAATTTTTAATAAAAT
*
749166 ATATATTATAT
1 ATTTATTATAT
749177 AAACATGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
31 5 0.12
33 9 0.22
34 3 0.08
35 11 0.28
36 6 0.15
37 6 0.15
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (31 bp):
ATTTATTATATTTTTAAATTTTTAATAAAAT
Found at i:749177 original size:33 final size:37
Alignment explanation
Indices: 749104--749219 Score: 98
Period size: 33 Copynumber: 3.2 Consensus size: 37
749094 TTTAATTTAT
*
749104 TATATTATTTAAATATTTTATATATAAATATTTATAA
1 TATATTATTTAAATATTTTATATATAAATATATATAA
* *
749141 TATATT-TTTAAGT-TTTTA-ATA-AAATATATATTA
1 TATATTATTTAAATATTTTATATATAAATATATATAA
** * *
749174 TATAAACATGTAAATATATTT-TATCATATATATATATATA
1 TAT-ATTATTTAAATAT-TTTATAT-ATAAATATATATA-A
749214 TATATT
1 TATATT
749220 TATATGTAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
33 13 0.22
34 4 0.07
35 10 0.17
36 7 0.12
37 11 0.18
38 1 0.02
39 10 0.17
40 4 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (37 bp):
TATATTATTTAAATATTTTATATATAAATATATATAA
Found at i:749204 original size:12 final size:12
Alignment explanation
Indices: 749164--749224 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
749154 TTTTAATAAA
749164 ATATATA-TTAT
1 ATATATATTTAT
* * * *
749175 ATAAACATGTAA
1 ATATATATTTAT
749187 ATATAT-TTTAT
1 ATATATATTTAT
*
749198 CATATATATATAT
1 -ATATATATTTAT
749211 ATATATATTTAT
1 ATATATATTTAT
749223 AT
1 AT
749225 GTAAATATAA
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
11 8 0.22
12 25 0.68
13 4 0.11
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (12 bp):
ATATATATTTAT
Found at i:749313 original size:30 final size:30
Alignment explanation
Indices: 749233--749321 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 30
749223 ATGTAAATAT
749233 AATTTTAAAAT-T-ATAAATAATTAATATTTAA
1 AATTTTAAAATATAATAAATAATT-ATA--TAA
*
749264 AATTTTTAAATATCAAATAAATAATTATA-AA
1 AATTTTAAAATAT--AATAAATAATTATATAA
*
749295 AATATTTAAAATATAATAAATTATTAT
1 AAT-TTTAAAATATAATAAATAATTAT
749322 TGATTAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
30 12 0.24
31 15 0.30
32 10 0.20
34 3 0.06
35 10 0.20
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
AATTTTAAAATATAATAAATAATTATATAA
Found at i:749474 original size:21 final size:21
Alignment explanation
Indices: 749423--749474 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
749413 AAATTAATTT
749423 AAAAA-CAAAATATATAAGTA
1 AAAAATCAAAATATATAAGTA
** *
749443 AAATTTAAAAATATATATA-TA
1 AAAAATCAAAATATATA-AGTA
749464 AAAAATCAAAA
1 AAAAATCAAAA
749475 CCTTGACCCA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 3 0.12
21 20 0.83
22 1 0.04
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAAATCAAAATATATAAGTA
Found at i:753488 original size:5 final size:5
Alignment explanation
Indices: 753478--753502 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
753468 AATCAGTTAA
753478 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
753503 TTTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:753729 original size:22 final size:19
Alignment explanation
Indices: 753701--753742 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
753691 TTGATTTAAT
753701 ATGAATTTAATAAAAATATTTA
1 ATGAATTT--TAAAAA-ATTTA
753723 ATGAATTTTAAAAAATTTA
1 ATGAATTTTAAAAAATTTA
753742 A
1 A
753743 ACTGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
22 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
ATGAATTTTAAAAAATTTA
Found at i:753896 original size:143 final size:146
Alignment explanation
Indices: 753678--753951 Score: 314
Period size: 143 Copynumber: 1.9 Consensus size: 146
753668 AAAATAAATT
* *
753678 AAATTTTTAAAAATTGATTTAATATGAATTTAATAAAAATATTTAATGAATTTTAAAAAATTTAA
1 AAATTTTTAAAAATTGATTTAATATGAATTTAATAAAAACATTTAATGAATTTT-AAAAATTAAA
* * *
753743 ACTGAAAAAATTCAACTAGAAA-ATTTACA-A-AGTAGAAAA-CTCATATTTTGAAAACGA-AAA
65 ACTCAAAAAATTCAACCA-AAATATTTACAGATA-AAGAAAAGCTCATATTTTGAAAACGAGAAA
753803 AAATCTACAAAATGAATCG
128 AAATCTACAAAATGAATCG
** * *
753822 AAATTTTT-AAAATTGATTTTGTGAT-AATTTAATGATAACATTTAGA-GAATTTT-AAAATTCA
1 AAATTTTTAAAAATTGATTTAAT-ATGAATTTAATAAAAACATTTA-ATGAATTTTAAAAATT-A
* * *
753883 AAACTCAAGAAAATTCTACCAAAATTTTTACAGATAAAGAAAAGCTCATATTTTGAAATCGAGAA
63 AAACTCAA-AAAATTCAACCAAAATATTTACAGATAAAGAAAAGCTCATATTTTGAAAACGAGAA
753948 AAAA
127 AAAA
753952 ATAAAGAAAT
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
141 6 0.06
142 10 0.09
143 51 0.47
144 18 0.17
145 18 0.17
146 6 0.06
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.33
Consensus pattern (146 bp):
AAATTTTTAAAAATTGATTTAATATGAATTTAATAAAAACATTTAATGAATTTTAAAAATTAAAA
CTCAAAAAATTCAACCAAAATATTTACAGATAAAGAAAAGCTCATATTTTGAAAACGAGAAAAAA
TCTACAAAATGAATCG
Found at i:756337 original size:22 final size:23
Alignment explanation
Indices: 756297--756341 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
756287 TAATAAATTT
*
756297 AATAATATTAAATACGATATAAA
1 AATAATATAAAATACGATATAAA
*
756320 AATAAT-TAAAATATGATATAAA
1 AATAATATAAAATACGATATAAA
756342 TATATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (23 bp):
AATAATATAAAATACGATATAAA
Found at i:756348 original size:8 final size:8
Alignment explanation
Indices: 756335--756475 Score: 58
Period size: 8 Copynumber: 16.2 Consensus size: 8
756325 TTAAAATATG
756335 ATATAAAT
1 ATATAAAT
756343 ATATAAAT
1 ATATAAAT
756351 ATATTTAAAT
1 ATA--TAAAT
* *
756361 TTATATA-
1 ATATAAAT
756368 ATATAAAT
1 ATATAAAT
*
756376 -TAT-TAT
1 ATATAAAT
756382 ATTATTAAATTTT
1 A-TA-TAAA---T
756395 ATATAAAT
1 ATATAAAT
*
756403 ATA-AAAA
1 ATATAAAT
*
756410 ATTTAAAT
1 ATATAAAT
756418 ATAATTATAAT
1 AT-A-TA-AAT
756429 ATAATAAAAT
1 AT-AT-AAAT
756439 ATATAAAT
1 ATATAAAT
756447 ATTAAATAAAT
1 A-T--ATAAAT
756458 ATATAAAT
1 ATATAAAT
756466 -TATTAAAT
1 ATA-TAAAT
756474 AT
1 AT
756476 CGTATTTAAT
Statistics
Matches: 103, Mismatches: 10, Indels: 39
0.68 0.07 0.26
Matches are distributed among these distances:
6 2 0.02
7 15 0.15
8 41 0.40
9 5 0.05
10 17 0.17
11 19 0.18
12 2 0.02
13 2 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:756376 original size:15 final size:15
Alignment explanation
Indices: 756356--756407 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
756346 TAAATATATT
756356 TAAATTTATATAATA
1 TAAATTTATATAATA
*
756371 TAAA-TTATTATATTA
1 TAAATTTA-TATAATA
756386 TTAAATTTTATATAAATA
1 -TAAA-TTTATAT-AATA
756404 TAAA
1 TAAA
756408 AAATTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
16 4 0.13
17 7 0.23
18 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAATTTATATAATA
Found at i:756426 original size:27 final size:27
Alignment explanation
Indices: 756384--756475 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 27
756374 ATTATTATAT
* *
756384 TATTAAATTTTATATAAATATAAAAAA
1 TATTAAATATAATATAAATATAAAAAA
756411 T-TTAAATATAAT-TATAATATAATAAAA
1 TATTAAATATAATATA-AATATAA-AAAA
* *
756438 TATATAAATATTAA-ATAAATATATAAAT
1 TAT-TAAATA-TAATATAAATATAAAAAA
756466 TATTAAATAT
1 TATTAAATAT
756476 CGTATTTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
25 2 0.04
26 17 0.31
27 12 0.22
28 7 0.13
29 12 0.22
30 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
TATTAAATATAATATAAATATAAAAAA
Found at i:757015 original size:36 final size:36
Alignment explanation
Indices: 756929--757023 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 36
756919 ATATTTTTAA
*
756929 ATTTTTATGTAAATAT-TTATA-AGATATTTAAAAGT
1 ATTTTTAT-TAAATATATTATATAGATATATAAAAGT
*
756964 -TTTTTAATAAAATATATTATATAGATATATAAATA-T
1 ATTTTT-ATTAAATATATTATATAGATATATAAA-AGT
*
757000 ATTTTTATTATATATATTCATATA
1 ATTTTTATTAAATATATT-ATATA
757024 TTTATATGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
34 11 0.22
35 7 0.14
36 21 0.42
37 11 0.22
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
ATTTTTATTAAATATATTATATAGATATATAAAAGT
Found at i:757082 original size:17 final size:17
Alignment explanation
Indices: 757036--757083 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
757026 TATATGTAAA
*
757036 TAAAAATTTTAAA-A-T
1 TAAAATTTTTAAATATT
757051 TATAAATTTTT-AATATT
1 TA-AAATTTTTAAATATT
757068 TAAAATTTTTAAATAT
1 TAAAATTTTTAAATAT
757084 CAAATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 16 0.57
17 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAATTTTTAAATATT
Found at i:757170 original size:4 final size:4
Alignment explanation
Indices: 757161--757196 Score: 63
Period size: 4 Copynumber: 8.8 Consensus size: 4
757151 TTTTAACCTC
757161 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTT
757197 TTGTGGCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:757457 original size:27 final size:29
Alignment explanation
Indices: 757417--757471 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
757407 ATAAGTTCGT
757417 ATTACTTTTCATTC-TTTATAAATTTATTA
1 ATTACTTTTCATTCGTTT-TAAATTTATTA
*
757446 ATTA-TTTT-ATTCGTTTTATATTTATT
1 ATTACTTTTCATTCGTTTTAAATTTATT
757472 TATTTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 13 0.54
28 7 0.29
29 4 0.17
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (29 bp):
ATTACTTTTCATTCGTTTTAAATTTATTA
Found at i:757602 original size:27 final size:28
Alignment explanation
Indices: 757572--757632 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
757562 TTTGTGTTAA
757572 TATATC-GTGTTAA-TATTATTTTTATAT
1 TATATCAGTGTTAATTATTATTTTT-TAT
*
757599 TATATCATGTTTTAATTATTATTTTTTAT
1 TATATCA-GTGTTAATTATTATTTTTTAT
757628 TATAT
1 TATAT
757633 TTAATATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 6 0.20
29 14 0.47
30 10 0.33
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (28 bp):
TATATCAGTGTTAATTATTATTTTTTAT
Found at i:757788 original size:21 final size:21
Alignment explanation
Indices: 757774--757822 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 21
757764 AAAATTCAAA
757774 TAAAATTATATAAAAATAAAT
1 TAAAATTATATAAAAATAAAT
757795 TAAAATTATAATAATAAGATAAAAT
1 TAAAATTAT-ATAA-AA-AT-AAAT
757820 TAA
1 TAA
757823 GATATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 4 0.17
23 2 0.08
24 2 0.08
25 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAAATTATATAAAAATAAAT
Found at i:757810 original size:19 final size:19
Alignment explanation
Indices: 757782--757821 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
757772 AATAAAATTA
757782 TATAAAAATAA-ATTAAAAT
1 TATAAAAATAAGA-TAAAAT
*
757801 TATAATAATAAGATAAAAT
1 TATAAAAATAAGATAAAAT
757820 TA
1 TA
757822 AGATATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TATAAAAATAAGATAAAAT
Found at i:758505 original size:27 final size:25
Alignment explanation
Indices: 758452--758514 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 25
758442 CGAAGTCTAA
*
758452 ATTAGTTTGATTTATAAGTTAAGTT
1 ATTAGTTTGATTTATAAATTAAGTT
*
758477 ATTTA-TTTGATTTGATAAAATTAATTT
1 A-TTAGTTTGATTT-AT-AAATTAAGTT
758504 ATTAGTTTGAT
1 ATTAGTTTGAT
758515 CTTTTGATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 9 0.28
26 8 0.25
27 15 0.47
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (25 bp):
ATTAGTTTGATTTATAAATTAAGTT
Found at i:758651 original size:30 final size:32
Alignment explanation
Indices: 758606--758666 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
758596 TTATTTTAAA
**
758606 ATTAATTGTAAAAAT-ATTTTTTAAATTTTTG
1 ATTAATTGTAAAAATAATAATTTAAATTTTTG
*
758637 ATTAA-TGTATAAATAATAATTTAAATTTTT
1 ATTAATTGTAAAAATAATAATTTAAATTTTT
758667 TAAGTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (32 bp):
ATTAATTGTAAAAATAATAATTTAAATTTTTG
Found at i:758868 original size:21 final size:20
Alignment explanation
Indices: 758815--758869 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
758805 CTTGATTATC
*
758815 AAATTTAAATTATTATTTTT
1 AAATTTAAATTATTATATTT
**
758835 ATAATAAAAATTATTATATTT
1 A-AATTTAAATTATTATATTT
758856 AAATTTAATATTAT
1 AAATTTAA-ATTAT
758870 ACTAACATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTTAAATTATTATATTT
Found at i:764821 original size:56 final size:60
Alignment explanation
Indices: 764748--764873 Score: 156
Period size: 60 Copynumber: 2.2 Consensus size: 60
764738 TTTTATTTTT
* *
764748 TTATAATTATA-TAAAAATATAT-TATAT-TTATAT-AAATTTTAA-TATTTTAATAAT-
1 TTATATTTATATTTAAAATATATATATATATTATATAAAATTTTAATTATTTTAATAATA
* * *
764802 TTATATTATATATTTAAAATATATATTTATATTATATAAAATTTTAATTATTTTATTTATA
1 TTATATT-TATATTTAAAATATATATATATATTATATAAAATTTTAATTATTTTAATAATA
764863 TTATATTTATA
1 TTATATTTATA
764874 AATTATATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
54 6 0.10
55 4 0.07
56 10 0.17
57 4 0.07
58 6 0.10
59 9 0.15
60 14 0.23
61 7 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (60 bp):
TTATATTTATATTTAAAATATATATATATATTATATAAAATTTTAATTATTTTAATAATA
Found at i:764852 original size:21 final size:21
Alignment explanation
Indices: 764748--764857 Score: 65
Period size: 21 Copynumber: 5.4 Consensus size: 21
764738 TTTTATTTTT
* *
764748 TTATAATTATATAAAAATAT-A
1 TTAT-ATTATATAAAATTTTAA
764769 TTATATT-TATATAAATTTTAA
1 TTATATTATATA-AAATTTTAA
*
764790 -TAT-TT-TA-ATAA-TTTATA
1 TTATATTATATAAAATTTTA-A
* * *
764807 TTATA-TATTTAAAATATATAT
1 TTATATTATATAAAAT-TTTAA
764828 TTATATTATATAAAATTTTAA
1 TTATATTATATAAAATTTTAA
*
764849 TTATTTTAT
1 TTATATTAT
764858 TTATATTATA
Statistics
Matches: 68, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
16 4 0.06
17 3 0.04
18 5 0.07
19 9 0.13
20 14 0.21
21 21 0.31
22 12 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATATTATATAAAATTTTAA
Found at i:764859 original size:30 final size:29
Alignment explanation
Indices: 764769--764868 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 29
764759 TAAAAATATA
*
764769 TTATATT-TATATAAATTTTAATATTTTAA
1 TTATATTATATA-AAATTTTAATATTTTAT
* * * * *
764798 TAAT-TTATATTATATATTTAAAATATATAT
1 TTATATTATATAAAAT-TTTAATAT-TTTAT
764828 TTATATTATATAAAATTTTAATTATTTTAT
1 TTATATTATATAAAATTTTAA-TATTTTAT
764858 TTATATTATAT
1 TTATATTATAT
764869 TTATAAATTA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
28 5 0.09
29 13 0.24
30 26 0.47
31 11 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TTATATTATATAAAATTTTAATATTTTAT
Found at i:765074 original size:32 final size:32
Alignment explanation
Indices: 765031--765092 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
765021 GTTGAGAATA
*
765031 ATATTTTTTAAAAAATTA-AATAAATAATTATC
1 ATATATTTT-AAAAATTATAATAAATAATTATC
*
765063 ATATATTTTAAAATTTATAATAAATAATTA
1 ATATATTTTAAAAATTATAATAAATAATTA
765093 ATTTTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (32 bp):
ATATATTTTAAAAATTATAATAAATAATTATC
Found at i:768876 original size:25 final size:26
Alignment explanation
Indices: 768825--768877 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
768815 CTAATCAAAT
* *
768825 TTTTTGATTTATAATTAGTATAAAAA
1 TTTTTGATTTAAAATTAGAATAAAAA
*
768851 TTTTTGATTTAAAATTA-AATATAAA
1 TTTTTGATTTAAAATTAGAATAAAAA
768876 TT
1 TT
768878 GAGTAAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (26 bp):
TTTTTGATTTAAAATTAGAATAAAAA
Found at i:770571 original size:17 final size:17
Alignment explanation
Indices: 770521--770640 Score: 76
Period size: 16 Copynumber: 7.0 Consensus size: 17
770511 TTTGTAATTA
770521 ATATTTTATATTATATTT
1 ATATTTTATATTATA-TT
*
770539 ATATGTTTTATTATATTAAATT
1 ATA----TT-TTATATTATATT
770561 ATATTTTATATT-TATAT
1 ATATTTTATATTATAT-T
*
770578 AAATTTTA-A-TA-AGTT
1 ATATTTTATATTATA-TT
*
770593 AATAATTTATATTATA-T
1 -ATATTTTATATTATATT
770610 AT-TTTTATA-TATATT
1 ATATTTTATATTATATT
770625 -TATTTTATATTATATT
1 ATATTTTATATTATATT
770641 TAATTATTTA
Statistics
Matches: 81, Mismatches: 6, Indels: 32
0.68 0.05 0.27
Matches are distributed among these distances:
14 5 0.06
15 17 0.21
16 18 0.22
17 17 0.21
18 7 0.09
19 1 0.01
22 7 0.09
23 9 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
ATATTTTATATTATATT
Found at i:770578 original size:15 final size:15
Alignment explanation
Indices: 770531--770639 Score: 62
Period size: 15 Copynumber: 6.8 Consensus size: 15
770521 ATATTTTATA
*
770531 TTATATTTATATGTT
1 TTATATTTATATATT
770546 TTATTATATTAAATTATATT
1 TTA-TAT-TT--A-TATATT
770566 TTATATTTATATAAATT
1 TTATATTTATAT--ATT
* *
770583 TTAATAAGTTA-ATAAT
1 TT-AT-ATTTATATATT
770599 TTATA-TTATATATTT
1 TTATATTTATATA-TT
* *
770614 TTATATATATTTATT
1 TTATATTTATATATT
770629 TTATA-TTATAT
1 TTATATTTATAT
770640 TTAATTATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
13 3 0.04
14 8 0.11
15 21 0.28
16 13 0.18
17 7 0.09
18 6 0.08
19 8 0.11
20 8 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TTATATTTATATATT
Found at i:770625 original size:25 final size:27
Alignment explanation
Indices: 770546--770676 Score: 81
Period size: 28 Copynumber: 4.7 Consensus size: 27
770536 TTTATATGTT
*
770546 TTAT-TATATTAAATTATAT-TTTATA
1 TTATATATATTTAATTATATATTTATA
* *
770571 TTTATATAAATTTTAATAAGTTAATAATTTATA
1 -TTATATATA-TTTAATTA--T-AT-ATTTATA
* *
770604 TTATATAT-TTTTA-TATATATTTATT
1 TTATATATATTTAATTATATATTTATA
* *
770629 TTATATTATATTTAATTATTTATTTTTA
1 TTATA-TATATTTAATTATATATTTATA
* **
770657 TTATATTTAAATAATTATAT
1 TTATATATATTTAATTATAT
770677 CTAATATCAA
Statistics
Matches: 80, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
25 11 0.14
26 9 0.11
27 19 0.24
28 20 0.25
29 1 0.01
30 5 0.06
31 2 0.03
32 7 0.09
33 6 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (27 bp):
TTATATATATTTAATTATATATTTATA
Found at i:770647 original size:40 final size:40
Alignment explanation
Indices: 770515--770665 Score: 130
Period size: 41 Copynumber: 3.6 Consensus size: 40
770505 TTTTATTTTG
*
770515 TAATTA-ATA-TTTTATATTATATTTATATGTTTTATTATATT
1 TAATTATATATTTTTATA-TATATTTAT-T-TTATATTATATT
* * * **
770556 AAATTATAT-TTTATATTTATATAAATTTTAATAAGTTAATAATT
1 TAATTATATATTTTTATATATATTTATTTT-AT-A-TT-AT-ATT
770600 TATATTATATATTTTTATATATATTTATTTTATATTATATT
1 TA-ATTATATATTTTTATATATATTTATTTTATATTATATT
*
770641 TAATTATTTATTTTTAT-TATATTTA
1 TAATTATATATTTTTATATATATTTA
770666 AATAATTATA
Statistics
Matches: 89, Mismatches: 12, Indels: 20
0.74 0.10 0.17
Matches are distributed among these distances:
39 10 0.11
40 16 0.18
41 18 0.20
42 11 0.12
43 4 0.04
44 5 0.06
45 9 0.10
46 16 0.18
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (40 bp):
TAATTATATATTTTTATATATATTTATTTTATATTATATT
Found at i:770652 original size:28 final size:28
Alignment explanation
Indices: 770506--770663 Score: 76
Period size: 28 Copynumber: 5.5 Consensus size: 28
770496 GATACTCTAT
* *
770506 TTTATTTTGTAATTAATATTTTA-TATTATA
1 TTTATTTTAT-ATT-ATATTTAATTATT-TA
* * *
770536 TTTATATGTTTTATTATATTAAATTATAT-
1 TTTAT-T-TTATATTATATTTAATTATTTA
* * *
770565 TTTATATTTATA-TAAATTTTAATAAGTTA
1 TTTAT-TTTATATTATA-TTTAATTATTTA
* * *
770594 -ATAATTTATATTATATATT-TTTATATATA
1 TTTATTTTATATTATAT-TTAATTAT-T-TA
770623 TTTATTTTATATTATATTTAATTATTTA
1 TTTATTTTATATTATATTTAATTATTTA
770651 TTT-TTATTATATT
1 TTTATT-TTATATT
770664 TAAATAATTA
Statistics
Matches: 97, Mismatches: 19, Indels: 26
0.68 0.13 0.18
Matches are distributed among these distances:
27 14 0.14
28 31 0.32
29 12 0.12
30 30 0.31
31 7 0.07
32 3 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTATTTTATATTATATTTAATTATTTA
Found at i:770662 original size:23 final size:24
Alignment explanation
Indices: 770591--770666 Score: 93
Period size: 23 Copynumber: 3.2 Consensus size: 24
770581 TTTTAATAAG
* * *
770591 TTAATAATTTATATTATA-TATTT
1 TTAATTATTTATTTTATATTATAT
770614 TTATATATATTTATTTTATATTATAT
1 TTA-AT-TATTTATTTTATATTATAT
770640 TTAATTATTTATTTT-TATTATAT
1 TTAATTATTTATTTTATATTATAT
770663 TTAA
1 TTAA
770667 ATAATTATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
23 15 0.32
24 12 0.26
25 13 0.28
26 7 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTAATTATTTATTTTATATTATAT
Found at i:770973 original size:16 final size:16
Alignment explanation
Indices: 770952--770984 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
770942 TTATATAATT
770952 TAAAAATAAAAATTAA
1 TAAAAATAAAAATTAA
*
770968 TAAAAATAAAATTTAA
1 TAAAAATAAAAATTAA
770984 T
1 T
770985 TCAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAAATAAAAATTAA
Found at i:770976 original size:27 final size:28
Alignment explanation
Indices: 770923--770976 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
770913 GTCTCACTAA
* ** *
770923 TTAAAAATAAAATATTTATTTATATAAT
1 TTAAAAATAAAATATTAATAAAAATAAT
770951 TTAAAAATAAAA-ATTAATAAAAATAA
1 TTAAAAATAAAATATTAATAAAAATAA
770977 AATTTAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
TTAAAAATAAAATATTAATAAAAATAAT
Found at i:771531 original size:22 final size:23
Alignment explanation
Indices: 771489--771532 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
771479 TTGAGTAGAT
*
771489 AAAAAATTAGTTTAATTTATAAAA
1 AAAAAATAAGTTTAA-TTATAAAA
771513 AAAAAATAAGTTTAA-TATAA
1 AAAAAATAAGTTTAATTATAA
771533 TTTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
24 14 0.74
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (23 bp):
AAAAAATAAGTTTAATTATAAAA
Found at i:771647 original size:20 final size:22
Alignment explanation
Indices: 771619--771667 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
771609 ATTAATTATT
*
771619 TATTATTTTTAATA-TTAAAAC
1 TATTATTTTAAATATTTAAAAC
771640 TATT-TTTTAAATATTTAAAA-
1 TATTATTTTAAATATTTAAAAC
*
771660 TTTTATTT
1 TATTATTT
771668 AAACAAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTATTTTAAATATTTAAAAC
Found at i:775500 original size:126 final size:126
Alignment explanation
Indices: 775358--775601 Score: 344
Period size: 126 Copynumber: 1.9 Consensus size: 126
775348 ATATAATTAA
* ** *
775358 ATTATTTATAAATAATTTATCAATATTTTTTTAAAATAATATTTTTAATAATAATTTTCATTCTC
1 ATTATATATAAATAATTTATCAATATACTTTTAAAATAATATTCTTAATAATAATTTTCATTCTC
* * * *
775423 ATCGCTATTATTTTATTATCCAAAAACATATTTTATTACTAGATTTAATTTTACTAAATTT
66 ATCACTATTATTTTATTATCCAAAAACACATTCTATTACTAAATTTAATTTTACTAAATTT
* * *
775484 ATTATATATAAATAATTTATCAATATACTTTTAAATTAATATTCTTAATAATTATTTTCATTCTT
1 ATTATATATAAATAATTTATCAATATACTTTTAAAATAATATTCTTAATAATAATTTTCATTCTC
* * * * *
775549 GTCACTGTTATTTTATTATCTAAAAATACATTCTATTATTAAATTTAATTTTA
66 ATCACTATTATTTTATTATCCAAAAACACATTCTATTACTAAATTTAATTTTA
775602 TCCTTTCAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
126 102 1.00
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (126 bp):
ATTATATATAAATAATTTATCAATATACTTTTAAAATAATATTCTTAATAATAATTTTCATTCTC
ATCACTATTATTTTATTATCCAAAAACACATTCTATTACTAAATTTAATTTTACTAAATTT
Found at i:776067 original size:23 final size:24
Alignment explanation
Indices: 776040--776094 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
776030 AAAATATAAA
*
776040 TATTACAAT-TTAAACTTTAAATT
1 TATTACAATATTAAACTTTAAAGT
* *
776063 TATTA-AATATTATATTTTAAAGT
1 TATTACAATATTAAACTTTAAAGT
776086 TATTTACAA
1 TA-TTACAA
776095 AGCACACTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 3 0.12
23 18 0.69
24 3 0.12
25 2 0.08
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (24 bp):
TATTACAATATTAAACTTTAAAGT
Found at i:776215 original size:21 final size:20
Alignment explanation
Indices: 776191--776242 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
776181 ATCAAATTAT
*
776191 TTAATTAAAAAATTTTAAATA
1 TTAAATAAAAAATTTT-AATA
* *
776212 TTAAATAAATAATTTTAATT
1 TTAAATAAAAAATTTTAATA
*
776232 TTAAGTAAAAA
1 TTAAATAAAAA
776243 TTAAAAATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TTAAATAAAAAATTTTAATA
Found at i:779321 original size:27 final size:26
Alignment explanation
Indices: 779284--779335 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
779274 AATTATTACA
779284 AAAATTAATATAATACATAAATATTTT
1 AAAATTAATATAATACA-AAATATTTT
* *
779311 AAAATTTATATAATATAAAATATTT
1 AAAATTAATATAATACAAAATATTT
779336 ATATATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
AAAATTAATATAATACAAAATATTTT
Found at i:779328 original size:25 final size:27
Alignment explanation
Indices: 779284--779385 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
779274 AATTATTACA
779284 AAAATTAATATAATACAT-AAATATTTT
1 AAAATTAATATAATA-ATAAAATATTTT
*
779311 AAAATTTATATAAT-ATAAAATA-TTT
1 AAAATTAATATAATAATAAAATATTTT
* * *
779336 ATATATTAA-AAAATATATAAATATATATT
1 A-AAATTAATATAATA-ATAAA-ATATTTT
779365 -AAATATAAT-T-ATAATAAAATA
1 AAAAT-TAATATAATAATAAAATA
779386 AAATATATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
25 13 0.22
26 15 0.25
27 24 0.40
28 6 0.10
29 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (27 bp):
AAAATTAATATAATAATAAAATATTTT
Found at i:779340 original size:20 final size:20
Alignment explanation
Indices: 779317--779407 Score: 73
Period size: 18 Copynumber: 4.7 Consensus size: 20
779307 TTTTAAAATT
779317 TATATAATATAAAATAT-T-
1 TATATAATATAAAATATATA
* *
779335 TATATATTAAAAAATATATA
1 TATATAATATAAAATATATA
* *
779355 AATAT-ATATTAAATATA-A
1 TATATAATATAAAATATATA
*
779373 TTATAATAAAATAAAATATATA
1 -TAT-ATAATATAAAATATATA
* *
779395 AATACAATATAAA
1 TATATAATATAAA
779408 TAGATAAATT
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
18 16 0.29
19 12 0.22
20 14 0.25
21 12 0.22
22 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (20 bp):
TATATAATATAAAATATATA
Found at i:779370 original size:19 final size:19
Alignment explanation
Indices: 779346--779420 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
779336 ATATATTAAA
779346 AAATATATAAATATATATT
1 AAATATATAAATATATATT
* *
779365 AAATATAATTATAATA-AAATA
1 AAATAT-A-TA-AATATATATT
*
779386 AAATATATAAATACA-ATAT
1 AAATATATAAATATATAT-T
*
779405 AAATAGATAAAT-TATA
1 AAATATATAAATATATA
779421 AATATAATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
18 7 0.16
19 21 0.47
20 2 0.04
21 11 0.24
22 4 0.09
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (19 bp):
AAATATATAAATATATATT
Found at i:779422 original size:40 final size:40
Alignment explanation
Indices: 779345--779427 Score: 91
Period size: 40 Copynumber: 2.0 Consensus size: 40
779335 TATATATTAA
*
779345 AAAATATATAAATATATATTAAATATAATTATAATAAA-AT
1 AAAATATATAAATAAATATTAAATATAA-TATAATAAATAT
*
779385 AAAATATATAAATACAATA-TAAATAGATAA-ATTATAAATAT
1 AAAATATATAAATA-AATATTAAAT--ATAATATAATAAATAT
779426 AA
1 AA
779428 TGTAACGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
40 26 0.70
41 7 0.19
42 4 0.11
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (40 bp):
AAAATATATAAATAAATATTAAATATAATATAATAAATAT
Found at i:779424 original size:34 final size:32
Alignment explanation
Indices: 779346--779426 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 32
779336 ATATATTAAA
*
779346 AAATATATAAATATATATTAAATATAATTATAAT
1 AAAT-TATAAATATATAATAAATATAA-TATAAT
*
779380 AAAATA-AAATATATAAATACAATATAA-ATAGAT
1 AAATTATAAATATAT-AATA-AATATAATATA-AT
779413 AAATTATAAATATA
1 AAATTATAAATATA
779427 ATGTAACGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
32 11 0.28
33 12 0.30
34 17 0.43
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (32 bp):
AAATTATAAATATATAATAAATATAATATAAT
Found at i:780993 original size:25 final size:26
Alignment explanation
Indices: 780938--780994 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
780928 TTTTTTATTT
* *
780938 TATTTAAAATAATCATATTAAATTTA
1 TATTTAAAATAATCATATAAAATATA
*
780964 TATTTAAATATAATTATA-AAAATATA
1 TATTTAAA-ATAATCATATAAAATATA
780990 -ATTTA
1 TATTTA
780995 TTAAACAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.19
26 14 0.52
27 8 0.30
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
TATTTAAAATAATCATATAAAATATA
Found at i:781527 original size:13 final size:14
Alignment explanation
Indices: 781494--781536 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
781484 TTATATATTT
781494 TATTTTTAAAAGTTA
1 TATTTTTAAAAG-TA
*
781509 TTTTTTTAAAA-TA
1 TATTTTTAAAAGTA
781522 TA-TTTTAAAAGTA
1 TATTTTTAAAAGTA
781535 TA
1 TA
781537 AATTTATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 7 0.28
15 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (14 bp):
TATTTTTAAAAGTA
Found at i:781745 original size:15 final size:15
Alignment explanation
Indices: 781721--781759 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
781711 TTATTTTATT
*
781721 ATATATTAATATTAA
1 ATATAATAATATTAA
* *
781736 ATTTAATAATTTTAA
1 ATATAATAATATTAA
781751 ATATAATAA
1 ATATAATAA
781760 AATACACATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATAATAATATTAA
Found at i:781783 original size:17 final size:17
Alignment explanation
Indices: 781750--781793 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
781740 AATAATTTTA
*
781750 AATATAATAAAATACAC
1 AATAAAATAAAATACAC
*
781767 ATTATAAATAAAA-ACAC
1 AATA-AAATAAAATACAC
781784 AATAAAATAA
1 AATAAAATAA
781794 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 6 0.26
17 10 0.43
18 7 0.30
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAAAATAAAATACAC
Found at i:781868 original size:19 final size:18
Alignment explanation
Indices: 781798--781868 Score: 53
Period size: 19 Copynumber: 3.9 Consensus size: 18
781788 AAATAATTTA
781798 AATAAAAT-TTAAAATAC
1 AATAAAATATTAAAATAC
*
781815 TACTAAAAATAATT-AAA-AC
1 -AAT-AAAAT-ATTAAAATAC
781834 AGATAAAATA--AAAATAC
1 A-ATAAAATATTAAAATAC
781851 AATAAAATAATTAAAATA
1 AATAAAAT-ATTAAAATA
781869 TATATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 17
0.69 0.03 0.28
Matches are distributed among these distances:
16 10 0.24
17 5 0.12
18 8 0.19
19 14 0.33
20 3 0.07
21 2 0.05
ACGTcount: A:0.68, C:0.06, G:0.01, T:0.25
Consensus pattern (18 bp):
AATAAAATATTAAAATAC
Found at i:781873 original size:2 final size:2
Alignment explanation
Indices: 781866--781909 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
781856 AATAATTAAA
781866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
781908 AT
1 AT
781910 CAACAACTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:786965 original size:45 final size:46
Alignment explanation
Indices: 786879--786970 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
786869 TGATAGCTTG
*
786879 ATTTGATAATTGATTGAATTAATGTGATTTTCTTAAGTTGAATTTA
1 ATTTGATAATTAATTGAATTAATGTGATTTTCTTAAGTTGAATTTA
* *
786925 ATTTGATAA-TAATTGAATTCAATTTGATTTTTTTAA-TTGAATTTA
1 ATTTGATAATTAATTGAATT-AATGTGATTTTCTTAAGTTGAATTTA
786970 A
1 A
786971 ATATTTCACG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
45 19 0.45
46 23 0.55
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (46 bp):
ATTTGATAATTAATTGAATTAATGTGATTTTCTTAAGTTGAATTTA
Found at i:788028 original size:14 final size:14
Alignment explanation
Indices: 788009--788035 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
787999 TCTTGTTCAT
788009 AACTTTTTTTTTTG
1 AACTTTTTTTTTTG
788023 AACTTTTTTTTTT
1 AACTTTTTTTTTT
788036 CTTTTTGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (14 bp):
AACTTTTTTTTTTG
Found at i:788472 original size:16 final size:16
Alignment explanation
Indices: 788406--788473 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 16
788396 ATAATATTTT
*
788406 TTAATTTTTTTTAAAA
1 TTAATTTTTTATAAAA
*
788422 -TATATTTTTTCCTAAAA
1 TTA-ATTTTTT-ATAAAA
*
788439 TTTAATTTTTTAAAAAA
1 -TTAATTTTTTATAAAA
*
788456 TTAATTTTTTATTAAA
1 TTAATTTTTTATAAAA
788472 TT
1 TT
788474 TCAAAATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
15 2 0.05
16 23 0.53
17 9 0.21
18 7 0.16
19 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTTTTTATAAAA
Found at i:790073 original size:31 final size:31
Alignment explanation
Indices: 790035--790093 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
790025 ATTTAATATC
*
790035 ATTTAAATTATAACT-TAATAATAAAAAAATT
1 ATTTAAATTA-AACTATAAAAATAAAAAAATT
*
790066 ATTTAAATTAAATTATAAAAATAAAAAA
1 ATTTAAATTAAACTATAAAAATAAAAAA
790094 TAAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (31 bp):
ATTTAAATTAAACTATAAAAATAAAAAAATT
Found at i:791041 original size:25 final size:26
Alignment explanation
Indices: 790983--791042 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
790973 TTTATTTTTA
790983 AATTAA-T-AAAAAATTTAAAAATAT
1 AATTAATTAAAAAAATTTAAAAATAT
* **
791007 TATTTTTTAAAAAAATTTAAAAAT-T
1 AATTAATTAAAAAAATTTAAAAATAT
791032 AATTAATTAAA
1 AATTAATTAAA
791043 CACATCAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 3 0.11
25 10 0.36
26 15 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTAATTAAAAAAATTTAAAAATAT
Found at i:793040 original size:4 final size:4
Alignment explanation
Indices: 793031--793059 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
793021 ACGGTAAATA
793031 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
793060 TTATAACACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:793952 original size:3 final size:3
Alignment explanation
Indices: 793946--793974 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
793936 TTATTAATTT
793946 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
793975 TGGTCTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:798328 original size:2 final size:2
Alignment explanation
Indices: 798317--798357 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
798307 GGAGTATTGT
798317 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
798358 GAGAGAGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:805245 original size:8 final size:8
Alignment explanation
Indices: 805232--805257 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
805222 ATAAATTAAT
805232 TTTTAAAA
1 TTTTAAAA
805240 TTTTAAAA
1 TTTTAAAA
805248 TTTTAAAA
1 TTTTAAAA
805256 TT
1 TT
805258 AATTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTTAAAA
Found at i:806191 original size:17 final size:18
Alignment explanation
Indices: 806155--806193 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
806145 AATATTTTAT
806155 TTTTAAATTAATAAAAAA
1 TTTTAAATTAATAAAAAA
* *
806173 TTTTAAA-TACTATAAAA
1 TTTTAAATTAATAAAAAA
806190 TTTT
1 TTTT
806194 TTTAACTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTTAAATTAATAAAAAA
Found at i:806194 original size:18 final size:18
Alignment explanation
Indices: 806153--806194 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
806143 TAAATATTTT
806153 ATTTTTAAATTAATAAAA
1 ATTTTTAAATTAATAAAA
* *
806171 AATTTTAAA-TACTATAAA
1 ATTTTTAAATTAATA-AAA
806189 ATTTTT
1 ATTTTT
806195 TTAACTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTTTTAAATTAATAAAA
Found at i:806841 original size:16 final size:16
Alignment explanation
Indices: 806820--806867 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
806810 AATATTATAA
806820 TTATATTTAAAATATT
1 TTATATTTAAAATATT
* * *
806836 TTATATTTATATTATA
1 TTATATTTAAAATATT
806852 TTACT-TTTAAAATATT
1 TTA-TATTTAAAATATT
806868 CTCATATTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 24 0.96
17 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATATTTAAAATATT
Found at i:806852 original size:11 final size:11
Alignment explanation
Indices: 806783--806854 Score: 50
Period size: 11 Copynumber: 7.0 Consensus size: 11
806773 ATTATTTATG
*
806783 TATTTATATTG
1 TATTTATATTA
806794 TATTTATA-TA
1 TATTTATATTA
806804 T-TTTATA--A
1 TATTTATATTA
806812 TA-TTATAATTA
1 TATTTAT-ATTA
* *
806823 TATTTAAAATA
1 TATTTATATTA
806834 T-TTTATATT-
1 TATTTATATTA
806843 TATATTATATTA
1 TAT-TTATATTA
806855 CTTTTAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
8 6 0.12
9 8 0.17
10 9 0.19
11 22 0.46
12 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (11 bp):
TATTTATATTA
Found at i:806875 original size:33 final size:33
Alignment explanation
Indices: 806811--806876 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
806801 ATATTTTATA
*
806811 ATATTATAATTATATTTAAAATATTTTATATTT
1 ATATTATAATTATATTTAAAATATTTCATATTT
806844 ATATTAT-ATTACT-TTTAAAATATTCTCATATTT
1 ATATTATAATTA-TATTTAAAATATT-TCATATTT
806877 TTGTGTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (33 bp):
ATATTATAATTATATTTAAAATATTTCATATTT
Found at i:809077 original size:16 final size:17
Alignment explanation
Indices: 809058--809090 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
809048 ATAATTCATG
*
809058 ATATTTTTAATT-TTTT
1 ATATTTTAAATTATTTT
809074 ATATTTTAAATTATTTT
1 ATATTTTAAATTATTTT
809091 TAATAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATATTTTAAATTATTTT
Found at i:809876 original size:21 final size:20
Alignment explanation
Indices: 809834--809878 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
809824 TATACATGAA
*
809834 ATAAAATAAATTATTAATAT
1 ATAAAATAAATTATTAAAAT
809854 ATAAAA-AAATTATATAAAAAT
1 ATAAAATAAATTAT-T-AAAAT
809875 ATAA
1 ATAA
809879 TATTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 7 0.32
21 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAATAAATTATTAAAAT
Found at i:809949 original size:12 final size:11
Alignment explanation
Indices: 809925--809958 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
809915 AATTTATTCT
*
809925 CTTTTTCTTTC
1 CTTTTTTTTTC
809936 CTTTTTTTTATC
1 CTTTTTTTT-TC
809948 CTTTTTTTTTC
1 CTTTTTTTTTC
809959 TTTCTCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (11 bp):
CTTTTTTTTTC
Found at i:810101 original size:11 final size:11
Alignment explanation
Indices: 810061--810105 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
810051 ATAGATAAAT
810061 AAATAGATATAA
1 AAATA-ATATAA
810073 AAA-AAT-TAA
1 AAATAATATAA
810082 AATATAATATAA
1 AA-ATAATATAA
810094 AAATAATATAA
1 AAATAATATAA
810105 A
1 A
810106 CACGATACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 14 0.47
12 8 0.27
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
AAATAATATAA
Found at i:810244 original size:14 final size:15
Alignment explanation
Indices: 810204--810245 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
810194 TAAAAAATAA
*
810204 TATAAACATGATATT
1 TATAAACATAATATT
*
810219 TATAAA-AAAATATT
1 TATAAACATAATATT
810233 TA-AAACATAATAT
1 TATAAACATAATAT
810246 GAAAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 3 0.13
14 14 0.61
15 6 0.26
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAAACATAATATT
Found at i:810395 original size:4 final size:4
Alignment explanation
Indices: 810388--810459 Score: 55
Period size: 4 Copynumber: 18.8 Consensus size: 4
810378 TACAATTTTT
* * *
810388 TTTC TTTC TTCC ATTT- TTTT TTTC -TCC TTTC -TTC TTTTC TTT- TTT-
1 TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC
*
810433 TTTC TTTC TTTC CTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
810460 TTTTTTCACC
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
3 14 0.25
4 36 0.65
5 5 0.09
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:810417 original size:23 final size:19
Alignment explanation
Indices: 810383--810465 Score: 71
Period size: 21 Copynumber: 4.2 Consensus size: 19
810373 CAATATACAA
810383 TTTTTTTTCTTTCTTCCATTT
1 TTTTTTTTCTTTCTT-C-TTT
810404 TTTTTTTCTCCTTTCTTCTTT
1 TTTTTTT-T-CTTTCTTCTTT
*
810425 TCTTTTTT-TTTCTTTCTTT
1 TTTTTTTTCTTTC-TTCTTT
** *
810444 CCTTCTTTCTTTCTT-TTT
1 TTTTTTTTCTTTCTTCTTT
810462 TTTT
1 TTTT
810466 CACCAAACGT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
18 9 0.17
19 14 0.26
20 5 0.09
21 16 0.30
22 2 0.04
23 7 0.13
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTTCTTTCTTCTTT
Found at i:810424 original size:30 final size:26
Alignment explanation
Indices: 810389--810465 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 26
810379 ACAATTTTTT
*
810389 TTCTTTCTTCCATTTTTTTTTTCTCCTTTC
1 TTCTTTCTT-C-TTTTTTTTTTCT--TTCC
810419 TTCTTTTCTT-TTTTTTTCTTTCTTTCC
1 TTC-TTTCTTCTTTTTTT-TTTCTTTCC
810446 TTCTTTCTTTCTTTTTTTTT
1 TTCTTTC-TTCTTTTTTTTT
810466 CACCAAACGT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
26 4 0.10
27 10 0.24
28 14 0.33
29 5 0.12
30 3 0.07
31 6 0.14
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (26 bp):
TTCTTTCTTCTTTTTTTTTTCTTTCC
Found at i:810430 original size:26 final size:27
Alignment explanation
Indices: 810401--810463 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
810391 CTTTCTTCCA
810401 TTTTTTTTTTC-TCCTTT-CTTCTTT-
1 TTTTTTTTTTCTTCCTTTCCTTCTTTC
*
810425 TCTTTTTTTTTCTTTCTTTCCTTCTTTC
1 T-TTTTTTTTTCTTCCTTTCCTTCTTTC
810453 TTTCTTTTTTT
1 TTT-TTTTTTT
810464 TTCACCAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 1 0.03
25 10 0.30
26 5 0.15
27 9 0.27
28 8 0.24
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTTTTTTTCTTCCTTTCCTTCTTTC
Found at i:810449 original size:22 final size:21
Alignment explanation
Indices: 810383--810451 Score: 77
Period size: 23 Copynumber: 3.1 Consensus size: 21
810373 CAATATACAA
810383 TTTTTTTTCTTTCTTCCATT-T
1 TTTTTTTTCTTTCTTCC-TTCT
*
810404 TTTTTTTCTCCTTTCTTCTTTTCT
1 TTTTTTT-T-CTTTCTTC-CTTCT
810428 TTTTTTTTCTTTCTTTCCTTCT
1 TTTTTTTTCTTTC-TTCCTTCT
810450 TT
1 TT
810452 CTTTCTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 7 0.17
22 12 0.29
23 14 0.34
24 8 0.20
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTTTTTCTTTCTTCCTTCT
Found at i:810466 original size:26 final size:27
Alignment explanation
Indices: 810401--810466 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
810391 CTTTCTTCCA
*
810401 TTTTTTTTTTCTCCTTTCTTCTTTTCTT
1 TTTTTTTTTTCT-CTTCCTTCTTTTCTT
810429 TTTTTTTCTTTCT-TTCCTTC-TTTCTT
1 TTTTTTT-TTTCTCTTCCTTCTTTTCTT
810455 TCTTTTTTTTTC
1 T-TTTTTTTTTC
810467 ACCAAACGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
26 11 0.31
27 12 0.34
28 7 0.20
29 5 0.14
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTTTTTTTCTCTTCCTTCTTTTCTT
Found at i:810512 original size:2 final size:2
Alignment explanation
Indices: 810507--810536 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
810497 GTGGTGTGTT
810507 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
810537 GATTCTGGCT
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):
TA
Found at i:812111 original size:22 final size:20
Alignment explanation
Indices: 812083--812134 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 20
812073 AATTAATTTT
812083 AATTTAATTATTATTTATATAA
1 AATTTAATTATTATTT-T-TAA
812105 AATTTAA-TA--ATTTTTAA
1 AATTTAATTATTATTTTTAA
812122 AATTTAAATTATT
1 AATTT-AATTATT
812135 CATGTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
17 8 0.31
18 3 0.12
19 6 0.23
21 2 0.08
22 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTTAATTATTATTTTTAA
Found at i:821255 original size:26 final size:28
Alignment explanation
Indices: 821226--821291 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
821216 TTTGAATTCG
* *
821226 AATAATATAAAAA-ATAACT-TTAAAAA
1 AATAATATAAAAACATAAATATAAAAAA
821252 AATAATATAAATAACATAAATATAAAAAA
1 AATAATATAAA-AACATAAATATAAAAAA
821281 AATAAT-TAAAA
1 AATAATATAAAA
821292 CATGTACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 11 0.31
27 3 0.09
28 9 0.26
29 12 0.34
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (28 bp):
AATAATATAAAAACATAAATATAAAAAA
Found at i:821285 original size:15 final size:15
Alignment explanation
Indices: 821234--821285 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
821224 CGAATAATAT
* *
821234 AAAAAATAACT-TTA
1 AAAAAATAAATATAA
821248 AAAAAAT-AATATAA
1 AAAAAATAAATATAA
* *
821262 ATAACATAAATATAA
1 AAAAAATAAATATAA
821277 AAAAAATAA
1 AAAAAATAA
821286 TTAAAACATG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 2 0.07
14 14 0.47
15 14 0.47
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAATAAATATAA
Found at i:824423 original size:81 final size:81
Alignment explanation
Indices: 824266--824423 Score: 262
Period size: 81 Copynumber: 2.0 Consensus size: 81
824256 TTTGATTTGA
* *
824266 TTTGATTATGATCAAAATATAATTAATTTTAATGGCTTAAATCATGCTCAATCGATTTAAGCCTT
1 TTTGATTATGACCAAAATATAATTAATTTTAATGGCTTAAATCATGCTCAATCGATTTAAACCTT
824331 TCAATACTATAAATAT
66 TCAATACTATAAATAT
* *
824347 TTTGATTATGACCAAAATATAATTAATTTTAATGGCTTAAATTATGCTCAATCGATTTAAACTTT
1 TTTGATTATGACCAAAATATAATTAATTTTAATGGCTTAAATCATGCTCAATCGATTTAAACCTT
* *
824412 TTAATAGTATAA
66 TCAATACTATAA
824424 TTTAACACTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (81 bp):
TTTGATTATGACCAAAATATAATTAATTTTAATGGCTTAAATCATGCTCAATCGATTTAAACCTT
TCAATACTATAAATAT
Found at i:826080 original size:24 final size:27
Alignment explanation
Indices: 826039--826091 Score: 76
Period size: 24 Copynumber: 2.1 Consensus size: 27
826029 TATATAAAAA
*
826039 TATTTATTTATAATAATTTA-A-TAAT
1 TATTTATTTATAAAAATTTAGATTAAT
826064 TATTT-TTTATAAAAATTTAGATTAAT
1 TATTTATTTATAAAAATTTAGATTAAT
826090 TA
1 TA
826092 CTATTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 13 0.52
25 6 0.24
26 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTTATTTATAAAAATTTAGATTAAT
Found at i:826708 original size:25 final size:26
Alignment explanation
Indices: 826668--826718 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
826658 TTGAATATAG
826668 TAAAAATAATATATTAAATAATTTTT
1 TAAAAATAATATATTAAATAATTTTT
* *
826694 TAAAATTAATA-ATTAATTAATTTTT
1 TAAAAATAATATATTAAATAATTTTT
826719 AATTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAAAAATAATATATTAAATAATTTTT
Found at i:826730 original size:11 final size:11
Alignment explanation
Indices: 826697--826730 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
826687 AATTTTTTAA
*
826697 AATTAATAATT
1 AATTAATATTT
*
826708 AATTAATTTTT
1 AATTAATATTT
826719 AATTAATATTT
1 AATTAATATTT
826730 A
1 A
826731 TAAATACCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATTAATATTT
Found at i:826800 original size:21 final size:22
Alignment explanation
Indices: 826776--826820 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
826766 CTTATTTATA
826776 TTTT-ATAT-TATAATTTTAAAT
1 TTTTAATATATAT-ATTTTAAAT
826797 TTTTAATATATATATTTTAAAT
1 TTTTAATATATATATTTTAAAT
826819 TT
1 TT
826821 AATTAATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 15 0.68
23 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTAATATATATATTTTAAAT
Found at i:827600 original size:23 final size:23
Alignment explanation
Indices: 827551--827616 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
827541 TAATAAAATA
* * * *
827551 TAAATTTAAACTTAAATCT-ATT
1 TAAATATAAACTAAAAGCTCATC
*
827573 TAAATATAAATTAAAAGCTCATC
1 TAAATATAAACTAAAAGCTCATC
*
827596 TAAATCTAAACTAAAAGCTCA
1 TAAATATAAACTAAAAGCTCA
827617 ATTAAAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 15 0.42
23 21 0.58
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (23 bp):
TAAATATAAACTAAAAGCTCATC
Found at i:827622 original size:23 final size:22
Alignment explanation
Indices: 827572--827627 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
827562 TTAAATCTAT
*
827572 TTAAATATAAATTAAAAGCTCA
1 TTAAATATAAACTAAAAGCTCA
*
827594 TCTAAATCTAAACTAAAAGCTCAA
1 T-TAAATATAAACTAAAAGCTC-A
827618 TTAAA-ATAAA
1 TTAAATATAAA
827628 AAAAGTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 22 0.76
24 2 0.07
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (22 bp):
TTAAATATAAACTAAAAGCTCA
Found at i:828064 original size:18 final size:18
Alignment explanation
Indices: 828041--828075 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
828031 TTTAAAATAA
828041 ATTATTTGTATATTTAAT
1 ATTATTTGTATATTTAAT
* *
828059 ATTATTTTTATTTTTAA
1 ATTATTTGTATATTTAA
828076 ATGTGTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTATTTGTATATTTAAT
Found at i:828284 original size:20 final size:21
Alignment explanation
Indices: 828259--828304 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
828249 ATTTTACAAC
828259 TATTACAAT-ACTAAAT-TTTT
1 TATTACAATAACT-AATCTTTT
828279 TATTACAATAACTAATCTTTT
1 TATTACAATAACTAATCTTTT
828300 TATTA
1 TATTA
828305 TTATTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTACAATAACTAATCTTTT
Found at i:828331 original size:21 final size:21
Alignment explanation
Indices: 828298--828337 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
828288 AACTAATCTT
** *
828298 TTTATTATTATTATTTTTAAC
1 TTTATTAAAATTAATTTTAAC
828319 TTTATTAAAATTAATTTTA
1 TTTATTAAAATTAATTTTA
828338 CCATCATCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTAAAATTAATTTTAAC
Found at i:828620 original size:24 final size:27
Alignment explanation
Indices: 828592--828645 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
828582 TAAATATTAA
828592 TTAAAAA-T-TATTTAAT-TATTATTT
1 TTAAAAATTATATTTAATATATTATTT
828616 TTAAAAATTATATTTAATATATTATTT
1 TTAAAAATTATATTTAATATATTATTT
828643 TTA
1 TTA
828646 TTAAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.26
25 1 0.04
26 8 0.30
27 11 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTAAAAATTATATTTAATATATTATTT
Found at i:828645 original size:14 final size:14
Alignment explanation
Indices: 828602--828645 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
828592 TTAAAAATTA
828602 TTTAAT-TATTATT
1 TTTAATATATTATT
* *
828615 TTTAA-AAATTATA
1 TTTAATATATTATT
828628 TTTAATATATTATT
1 TTTAATATATTATT
828642 TTTA
1 TTTA
828646 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTAATATATTATT
Found at i:828650 original size:30 final size:25
Alignment explanation
Indices: 828586--828642 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
828576 TACACATAAA
*
828586 TATTAATTAAAAATTATTTAATTAT
1 TATTTATTAAAAATTATTTAATTAT
828611 TATTT-TTAAAAATTATATTTAATATAT
1 TATTTATTAAAAA-T-TATTTAAT-TAT
828638 TATTT
1 TATTT
828643 TTATTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 7 0.25
25 5 0.18
26 8 0.29
27 8 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTTATTAAAAATTATTTAATTAT
Found at i:830397 original size:12 final size:13
Alignment explanation
Indices: 830370--830411 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 13
830360 CATATATTTT
830370 TAAAATAATATTAA
1 TAAAA-AATATTAA
830384 TAAAAAAT-TTAA
1 TAAAAAATATTAA
830396 TAAAAATATAGTTAA
1 TAAAAA-ATA-TTAA
830411 T
1 T
830412 TATTAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 10 0.40
13 5 0.20
14 5 0.20
15 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
TAAAAAATATTAA
Done.