Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold192
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: 2196177
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 12544 characters in sequence are not A, C, G, or T
File 5 of 14
Found at i:733421 original size:34 final size:34
Alignment explanation
Indices: 733375--733942 Score: 276
Period size: 34 Copynumber: 17.1 Consensus size: 34
733365 CTTTAAAGAG
* * **
733375 GGTGCCATAGAGTGGTGAACTTAAAAGGAAAAAA
1 GGTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAA
* * **
733409 GGTGCCACAGAGTTGTAGACTTTGAAGAGAAAAAA
1 GGTGCCACAGAGTTGTGGGCTTAAAAG-GAAAAAA
* * *
733444 -ATGCCACGGAGGAGTTATGGGCTTAAAAAGAAAAAA
1 GGTGCCAC--A-GAGTTGTGGGCTTAAAAGGAAAAAA
* * *
733480 TGTGCCACAGAGTTATGGGCTTTAAAAAG-AAAAA
1 GGTGCCACAGAGTTGTGGGC-TTAAAAGGAAAAAA
* * * * * *
733514 GGTACCATAGGGTTGTGGACTTAAACGGAAAAAG
1 GGTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAA
** * * *
733548 GGTGCCATGGAGTTGTAGGCTTTGAAAGGAAAAAG
1 GGTGCCACAGAGTTGTGGGC-TTAAAAGGAAAAAA
733583 GGTGCCACAGAGTTGTGGGCTTTGAAAA-G-AAAAA
1 GGTGCCACAGAGTTGTGGGC-TT-AAAAGGAAAAAA
* *
733617 GGTGCCACAGAATTGTGGGCTTTAAAAAG-AAAAA
1 GGTGCCACAGAGTTGTGGGC-TTAAAAGGAAAAAA
* * *
733651 GGTGCCATAGAGTTGTGGACTTAAAAGTAAAAAA
1 GGTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAA
* * * *
733685 AGTGTCATAGAGTTGTGTGCTTTGAAAA-G-AAAAA
1 GGTGCCACAGAGTTGTGGGC-TT-AAAAGGAAAAAA
* * *
733719 TGTGCCACGGAGTTGTGGAC-T-------AAAAA
1 GGTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAA
* * *
733745 GGTGTCATAGAGTTGTGGACTTAAACA-G-AAAAA
1 GGTGCCACAGAGTTGTGGGCTTAAA-AGGAAAAAA
* * *
733778 GGTGCCACGGAATTGTGTGCTTTGAAAA--AAAAAA
1 GGTGCCACAGAGTTGTGGGC-TT-AAAAGGAAAAAA
* *
733812 GGTGCCA-TGAAGTTGTGGACTTAAAA-G------
1 GGTGCCACAG-AGTTGTGGGCTTAAAAGGAAAAAA
* * *
733839 GGTGTCAC-GAAGTTGTGGACTTAAAAGGAAAAAG
1 GGTGCCACAG-AGTTGTGGGCTTAAAAGGAAAAAA
* * * **
733873 GGTACCACAGAATTATGGGCTTTGAA-GAGAAAAA
1 GGTGCCACAGAGTTGTGGGCTTAAAAGGA-AAAAA
* * *
733907 GGTGCCACAAAGTTGTGGACTTAAAATGAAAAAA
1 GGTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAA
733941 GG
1 GG
733943 ATTTGAAAGA
Statistics
Matches: 416, Mismatches: 82, Indels: 72
0.73 0.14 0.13
Matches are distributed among these distances:
26 21 0.05
27 25 0.06
28 1 0.00
32 5 0.01
33 40 0.10
34 234 0.56
35 57 0.14
36 15 0.04
37 18 0.04
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.22
Consensus pattern (34 bp):
GGTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAA
Found at i:733561 original size:68 final size:66
Alignment explanation
Indices: 733375--733931 Score: 320
Period size: 68 Copynumber: 8.4 Consensus size: 66
733365 CTTTAAAGAG
* * * * * * *
733375 GGTGCCATAGAGTGGTGAACTTAAAAGGAAAAAAGGTGCCACAGAGTTGTAGACTTTGAAGAGAA
1 GGTGCCATAGAGTTGTGGACTT-AAAGG-AAAAAGGTGCCATAGAGTTGTGGGCTTTAAAAAGAA
733440 AAA
64 AAA
** * * * * * * *
733443 AATGCCACGGAGGAGTTATGGGCTTAAAAAGAAAAAATGTGCCACAGAGTTATGGGCTTTAAAAA
1 GGTGCCA--TA-GAGTTGTGGACTT--AAAGGAAAAAGGTGCCATAGAGTTGTGGGCTTTAAAAA
733508 GAAAAA
61 GAAAAA
* * * * * *
733514 GGTACCATAGGGTTGTGGACTTAAACGGAAAAAGGGTGCCATGGAGTTGTAGGCTTTGAAAGGAA
1 GGTGCCATAGAGTTGTGGACTTAAA-GGAAAAA-GGTGCCATAGAGTTGTGGGCTTTAAAAAGAA
733579 AAA
64 AAA
* * * * *
733582 GGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAATTGTGGGCTTTAAAAAGA
1 -GGTGCCATAGAGTTGTGGAC-TT-AAAGGAAAAAGGTGCCATAGAGTTGTGGGCTTTAAAAAGA
733647 AAAA
63 AAAA
* * * * *
733651 GGTGCCATAGAGTTGTGGACTTAAAAGTAAAAAAAGTGTCATAGAGTTGTGTGCTTTGAAAAGAA
1 GGTGCCATAGAGTTGTGGACTT-AAAG-GAAAAAGGTGCCATAGAGTTGTGGGCTTTAAAAAGAA
733716 AAA
64 AAA
* ** * * *
733719 TGTGCCACGGAGTTGTGGAC-T-----AAAAAGGTGTCATAGAGTTGTGGAC-TTAAACAGAAAA
1 GGTGCCATAGAGTTGTGGACTTAAAGGAAAAAGGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAA
733777 A
66 A
** * ** *
733778 GGTGCCACGGAATTGTGTG-CTTTGAAAAAAAAAAGGTGCCAT-GAAGTTGTGGAC-TT-AAAAG
1 GGTGCCATAGAGTTGTG-GAC-TT-AAAGGAAAAAGGTGCCATAG-AGTTGTGGGCTTTAAAAAG
733839 -----
62 AAAAA
* * * * * * * *
733839 GGTGTCA-CGAAGTTGTGGACTTAAAAGGAAAAAGGGTACCACAGAATTATGGGCTTTGAAGAGA
1 GGTGCCATAG-AGTTGTGGACTT-AAAGGAAAAA-GGTGCCATAGAGTTGTGGGCTTTAAAAAGA
733903 AAAA
63 AAAA
* *
733907 GGTGCCACAAAGTTGTGGACTTAAA
1 GGTGCCATAGAGTTGTGGACTTAAA
733932 ATGAAAAAAG
Statistics
Matches: 379, Mismatches: 78, Indels: 65
0.73 0.15 0.12
Matches are distributed among these distances:
59 27 0.07
60 35 0.09
61 27 0.07
62 3 0.01
63 4 0.01
66 8 0.02
67 39 0.10
68 128 0.34
69 45 0.12
70 9 0.02
71 49 0.13
72 5 0.01
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (66 bp):
GGTGCCATAGAGTTGTGGACTTAAAGGAAAAAGGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAA
A
Found at i:733648 original size:137 final size:136
Alignment explanation
Indices: 733379--733745 Score: 436
Period size: 137 Copynumber: 2.7 Consensus size: 136
733369 AAAGAGGGTG
* * * *
733379 CCATAGAGTGGTGAACTTAAAAGGAAAAAAGGTGCCACAGAGTTGTAGACTTTG-AAGAGAAAAA
1 CCATAGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCATAGAGTTGTAGGCTTTGAAAG-GAAAAA
* * * *
733443 AATGCCACGGAGGAGTTATGGGCTTAAAAAGAAAAAATGTGCCACAGAGTTATGGGCTTTAAAAA
65 AGTGCCAC--A-GAGTTGTGGGCTTAAAAAGAAAAAAGGTGCCACAGAATTATGGGCTTTAAAAA
733508 GAAAAAGGTA
127 GAAAAAGGTA
* * * *
733518 CCATAGGGTTGTGGACTTAAACGGAAAAAGGGTGCCATGGAGTTGTAGGCTTTGAAAGGAAAAAG
1 CCATAGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCATAGAGTTGTAGGCTTTGAAAGGAAAAA-
* * *
733583 GGTGCCACAGAGTTGTGGGCTTTGAAAAG-AAAAAGGTGCCACAGAATTGTGGGCTTTAAAAAGA
65 AGTGCCACAGAGTTGTGGGC-TTAAAAAGAAAAAAGGTGCCACAGAATTATGGGCTTTAAAAAGA
*
733647 AAAAGGTG
129 AAAAGGTA
* * * *
733655 CCATAGAGTTGTGGACTTAAAAGTAAAAAAAGTGTCATAGAGTTGT-GTGCTTTGAAAAGAAAAA
1 CCATAGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCATAGAGTTGTAG-GCTTTGAAAGGAAAAA
* * *
733719 TGTGCCACGGAGTTGTGGAC-TAAAAAG
65 AGTGCCACAGAGTTGTGGGCTTAAAAAG
733746 GTGTCATAGA
Statistics
Matches: 196, Mismatches: 28, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
134 6 0.03
136 18 0.09
137 103 0.53
138 8 0.04
139 52 0.27
140 9 0.05
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.22
Consensus pattern (136 bp):
CCATAGAGTTGTGGACTTAAAAGGAAAAAAGGTGCCATAGAGTTGTAGGCTTTGAAAGGAAAAAA
GTGCCACAGAGTTGTGGGCTTAAAAAGAAAAAAGGTGCCACAGAATTATGGGCTTTAAAAAGAAA
AAGGTA
Found at i:733744 original size:60 final size:59
Alignment explanation
Indices: 733680--733794 Score: 162
Period size: 59 Copynumber: 1.9 Consensus size: 59
733670 CTTAAAAGTA
* *
733680 AAAAAAGTGTCATAGAGTTGTGTG-CTTTGAAA-AGAAAAATGTGCCACGGAGTTGTGGACT
1 AAAAAAGTGTCATAGAGTTGTG-GAC-TT-AAACAGAAAAAGGTGCCACGGAATTGTGGACT
*
733740 AAAAAGGTGTCATAGAGTTGTGGACTTAAACAGAAAAAGGTGCCACGGAATTGTG
1 AAAAAAGTGTCATAGAGTTGTGGACTTAAACAGAAAAAGGTGCCACGGAATTGTG
733795 TGCTTTGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
58 3 0.06
59 25 0.50
60 22 0.44
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (59 bp):
AAAAAAGTGTCATAGAGTTGTGGACTTAAACAGAAAAAGGTGCCACGGAATTGTGGACT
Found at i:733925 original size:95 final size:94
Alignment explanation
Indices: 733572--733932 Score: 379
Period size: 94 Copynumber: 3.7 Consensus size: 94
733562 GTAGGCTTTG
* * *
733572 AAAGGAAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAA-TTGTGGG
1 AAAGGAAAAA-GGTGCCACAGAATTGTGTGCTTTGAAAAGAAAAAGGTGCCAC-GAAGTTGTGGA
* *
733636 CTTTAAAAAGAAAAAGGTGCCATAGAGTTGTGGACTTA
64 C-TT------AAAAAGGTGTCAGAGAGTTGTGGACTTA
* * * * * * *
733674 AAAGTAAAAAAAGTGTCATAGAGTTGTGTGCTTTGAAAAGAAAAATGTGCCACGGAGTTGTGGAC
1 AAAG-GAAAAAGGTGCCACAGAATTGTGTGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGAC
*
733739 -TAAAAAGGTGTCATAGAGTTGTGGACTTA
65 TTAAAAAGGTGTCAGAGAGTTGTGGACTTA
* * *
733768 AACA-GAAAAAGGTGCCACGGAATTGTGTGCTTTGAAAAAAAAAAGGTGCCATGAAGTTGTGGAC
1 AA-AGGAAAAAGGTGCCACAGAATTGTGTGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGAC
*
733832 TTAAAAGGGTGTCACGA-AGTTGTGGACTTA
65 TTAAAAAGGTGTCA-GAGAGTTGTGGACTTA
* * * * *
733862 AAAGGAAAAAGGGTACCACAGAATTATGGGCTTTGAAGAGAAAAAGGTGCCACAAAGTTGTGGAC
1 AAAGGAAAAA-GGTGCCACAGAATTGTGTGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGAC
733927 TTAAAA
65 TTAAAA
733933 TGAAAAAAGG
Statistics
Matches: 223, Mismatches: 29, Indels: 21
0.82 0.11 0.08
Matches are distributed among these distances:
93 51 0.23
94 62 0.28
95 54 0.24
100 1 0.00
101 2 0.01
102 48 0.22
103 5 0.02
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.22
Consensus pattern (94 bp):
AAAGGAAAAAGGTGCCACAGAATTGTGTGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGACT
TAAAAAGGTGTCAGAGAGTTGTGGACTTA
Found at i:734997 original size:19 final size:18
Alignment explanation
Indices: 734973--735035 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
734963 AAACCGTAAC
734973 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
734992 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
735005 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
735024 TGTATCGATACA
1 TGTATCGATACA
735036 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:735010 original size:13 final size:13
Alignment explanation
Indices: 734992--735016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
734982 ACATAAGTGT
734992 TGTATCGATACAA
1 TGTATCGATACAA
735005 TGTATCGATACA
1 TGTATCGATACA
735017 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:735014 original size:32 final size:32
Alignment explanation
Indices: 734973--735043 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
734963 AAACCGTAAC
734973 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
735005 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
735037 TGTATCG
1 TGTATCG
735044 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:735106 original size:13 final size:13
Alignment explanation
Indices: 735088--735115 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
735078 ATTACTCAAA
735088 TGTATCGATACAT
1 TGTATCGATACAT
735101 TGTATCGATACAT
1 TGTATCGATACAT
735114 TG
1 TG
735116 ATCTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:738739 original size:22 final size:23
Alignment explanation
Indices: 738714--738776 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
738704 TTGTTGTTCC
738714 TTTTTTATTTTTCCTTTGCATTT
1 TTTTTTATTTTTCCTTTGCATTT
* *
738737 TTTTTCT-TTTTT-TTTTTCATTT
1 TTTTT-TATTTTTCCTTTGCATTT
*
738759 TTTGTTTATTTTTGCTTT
1 TTT-TTTATTTTTCCTTT
738777 TTTCTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 12 0.36
23 17 0.52
24 4 0.12
ACGTcount: A:0.06, C:0.10, G:0.05, T:0.79
Consensus pattern (23 bp):
TTTTTTATTTTTCCTTTGCATTT
Found at i:738750 original size:11 final size:12
Alignment explanation
Indices: 738734--738790 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
738724 TTCCTTTGCA
*
738734 TTTTTTTTCTTT
1 TTTTTTTTCATT
738746 TTTTTTTTCATT
1 TTTTTTTTCATT
*
738758 TTTTGTTT-ATTT
1 TTTTTTTTCA-TT
738770 TTGCTTTTTTC-TT
1 TT--TTTTTTCATT
738783 TTTTTTTT
1 TTTTTTTT
738791 TTGACTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 7 0.18
12 22 0.58
13 4 0.11
14 5 0.13
ACGTcount: A:0.04, C:0.07, G:0.04, T:0.86
Consensus pattern (12 bp):
TTTTTTTTCATT
Found at i:738760 original size:42 final size:39
Alignment explanation
Indices: 738693--738792 Score: 103
Period size: 42 Copynumber: 2.5 Consensus size: 39
738683 TATGTCCTTG
* * * *
738693 TTTTTTTATTTTTGTTGTTCCTTTTTTATTT-TTCCTTTGC
1 TTTTTTTTTTTTTTTTTTTCATTTTTTATTTATT--TTTGC
*
738733 ATTTTTTTTCTTTTTTTTTTTCATTTTTTGTTTATTTTTGC
1 -TTTTTTTT-TTTTTTTTTTTCATTTTTTATTTATTTTTGC
*
738774 TTTTTTCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTT
738793 GACTTTTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
39 11 0.22
40 7 0.14
41 12 0.24
42 19 0.37
43 2 0.04
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.81
Consensus pattern (39 bp):
TTTTTTTTTTTTTTTTTTTCATTTTTTATTTATTTTTGC
Found at i:738770 original size:18 final size:17
Alignment explanation
Indices: 738745--738788 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
738735 TTTTTTTCTT
* *
738745 TTTTTTTTTCATTTTTTG
1 TTTTTTTTGC-TTTTTTC
738763 TTTATTTTTGCTTTTTTC
1 TTT-TTTTTGCTTTTTTC
738781 TTTTTTTT
1 TTTTTTTT
738789 TTTTGACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 12 0.52
19 6 0.26
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.84
Consensus pattern (17 bp):
TTTTTTTTGCTTTTTTC
Found at i:738810 original size:38 final size:38
Alignment explanation
Indices: 738736--738809 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 38
738726 CCTTTGCATT
* ** *
738736 TTTTTTCTTTTTTTTTTTCATTTTTTGTTTATTTTTGC
1 TTTTTTCTTTTTTTTTTTCACTTTTTCATCATTTTTGC
*
738774 TTTTTTCTTTTTTTTTTTTGACTTTTTCATCATTTT
1 TTTTTTC-TTTTTTTTTTTCACTTTTTCATCATTTT
738810 GAATGGAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 7 0.23
39 23 0.77
ACGTcount: A:0.07, C:0.09, G:0.04, T:0.80
Consensus pattern (38 bp):
TTTTTTCTTTTTTTTTTTCACTTTTTCATCATTTTTGC
Found at i:745717 original size:20 final size:20
Alignment explanation
Indices: 745671--745728 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
745661 ACAATGAGAA
745671 ATGTATCGATACAATTGTAAAC
1 ATGTATCGATAC-ATT-TAAAC
**
745693 ATGTATCGATACATTTAGTC
1 ATGTATCGATACATTTAAAC
745713 ATGTATCGATACATTT
1 ATGTATCGATACATTT
745729 CCTTGGTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 19 0.56
21 3 0.09
22 12 0.35
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTAAAC
Found at i:747901 original size:20 final size:20
Alignment explanation
Indices: 747876--747914 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
747866 TTTAGATTTT
747876 ATTAATTTTAATTT-TTTTCA
1 ATTAATTTT-ATTTATTTTCA
747896 ATTAATTTTATTTATTTTC
1 ATTAATTTTATTTATTTTC
747915 TTTGCGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTAATTTTATTTATTTTCA
Found at i:748040 original size:41 final size:41
Alignment explanation
Indices: 747995--748075 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
747985 AAGTGTGATA
747995 ACACAATTAAAGTAACAAAATGAACCTAACATAGCAACTTC
1 ACACAATTAAAGTAACAAAATGAACCTAACATAGCAACTTC
748036 ACACAATTAAAGTAACAAAATGAACCTAACATAGCAACTT
1 ACACAATTAAAGTAACAAAATGAACCTAACATAGCAACTT
748076 TAGAAAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.20
Consensus pattern (41 bp):
ACACAATTAAAGTAACAAAATGAACCTAACATAGCAACTTC
Found at i:748996 original size:23 final size:24
Alignment explanation
Indices: 748964--749009 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
748954 TTTCTCTATT
**
748964 TATTCAATTTTTTTTTGTTTGTGC
1 TATTCAATTTTTTCATGTTTGTGC
748988 TATTC-ATTTTTTCATGTTTGTG
1 TATTCAATTTTTTCATGTTTGTG
749010 TTGAGAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.13, C:0.09, G:0.13, T:0.65
Consensus pattern (24 bp):
TATTCAATTTTTTCATGTTTGTGC
Found at i:750245 original size:73 final size:73
Alignment explanation
Indices: 750161--750302 Score: 266
Period size: 73 Copynumber: 1.9 Consensus size: 73
750151 CGATATAAGG
*
750161 TGCCAACAATCAAAATTTCAAATTTCTACGACTTGTATCGATACAATAGGTTAATATATTGATAC
1 TGCCAACAATCAAAATTTCAAATTTCTACAACTTGTATCGATACAATAGGTTAATATATTGATAC
750226 ATGCTTGC
66 ATGCTTGC
*
750234 TGCCAACAATCAAAATTTCAAATTTCTACAACTTGTATCGATATAATAGGTTAATATATTGATAC
1 TGCCAACAATCAAAATTTCAAATTTCTACAACTTGTATCGATACAATAGGTTAATATATTGATAC
750299 ATGC
66 ATGC
750303 CTGCAATGTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (73 bp):
TGCCAACAATCAAAATTTCAAATTTCTACAACTTGTATCGATACAATAGGTTAATATATTGATAC
ATGCTTGC
Found at i:752942 original size:103 final size:103
Alignment explanation
Indices: 752802--753032 Score: 329
Period size: 103 Copynumber: 2.3 Consensus size: 103
752792 CAACCCTGAC
* ****
752802 CTTT-CGAGAGGATACTCCAACCTTGCTCTTCGAAATTTGTCAAGGTTTAAACTCTTCCTTTGTC
1 CTTTCCGAGGGGATACTCCAACCCCATTCTTCGAAATTTGTCAAGGTTTAAACTCTTCCTTTGTC
* * * *
752866 AAAATTATTTGTCACCAATAGGGATACTCCAACCTCAT
66 AAAATTATTTGTCAACAACAGAGATACTCCAACCCCAT
* * * *
752904 CTTTCCGAGGGGATAGTCCAACCCCATTCTTTGAAATTTGTCCAGGTTTGAACTCTTCCTTTGTC
1 CTTTCCGAGGGGATACTCCAACCCCATTCTTCGAAATTTGTCAAGGTTTAAACTCTTCCTTTGTC
752969 AAAATTATTTGTCAACAACAGAGATACTCCAACCCCAT
66 AAAATTATTTGTCAACAACAGAGATACTCCAACCCCAT
*
753007 CTTTTCGAGGGGATACTCCAACCCCA
1 CTTTCCGAGGGGATACTCCAACCCCA
753033 CTTTTCAACT
Statistics
Matches: 113, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
102 4 0.04
103 109 0.96
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (103 bp):
CTTTCCGAGGGGATACTCCAACCCCATTCTTCGAAATTTGTCAAGGTTTAAACTCTTCCTTTGTC
AAAATTATTTGTCAACAACAGAGATACTCCAACCCCAT
Found at i:756892 original size:34 final size:34
Alignment explanation
Indices: 756848--756946 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 34
756838 CCTTGGTCAG
756848 CCTTAGTTGACTCTACTAGTTTAGCCCTGGTCAAC
1 CCTTAGTTGACTCTACTAGTTTA-CCCTGGTCAAC
* *
756883 CCTT-TTTGACT-TA--GGTTTCACCCTGGTC-AC
1 CCTTAGTTGACTCTACTAGTTT-ACCCTGGTCAAC
*
756913 CCTTAGTTGACTAC-ACTAGTTTATCCCTTGTCAA
1 CCTTAGTTGACT-CTACTAGTTTA-CCCTGGTCAA
756947 ATCTTTTCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
30 6 0.12
31 18 0.35
32 2 0.04
33 3 0.06
34 17 0.33
35 5 0.10
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.37
Consensus pattern (34 bp):
CCTTAGTTGACTCTACTAGTTTACCCTGGTCAAC
Found at i:756895 original size:65 final size:65
Alignment explanation
Indices: 756820--757338 Score: 342
Period size: 65 Copynumber: 8.1 Consensus size: 65
756810 AACCTTTTTT
* * *
756820 TTTTTAACTTAGGTTTCACCTTGGTCAGCCTTAGTTGACTCTACTAGTTTAGCCCTGGTCAACCC
1 TTTTTAACTTAGGTTTCACCTTGGTCACCCTTAGTTGACTATACTAGTTTAGCCCTAGTCAACCC
* * * * * **
756885 TTTTTGACTTAGGTTTCACCCTGGTCACCCTTAGTTGACTACACTAGTTTATCCCTTGTCAAATC
1 TTTTTAACTTAGGTTTCACCTTGGTCACCCTTAGTTGACTATACTAGTTTAGCCCTAGTCAACCC
* * * * * * * *
756950 TTTTCAACGTAGATTTCACCTTGATCACCCTTAATTGATTATACTGGTTTAG-CCTAGGTTAACC
1 TTTTTAACTTAGGTTTCACCTTGGTCACCCTTAGTTGACTATACTAGTTTAGCCCTA-GTCAACC
*
757014 G
65 C
* * * * * * * *
757015 TTTTTAAC-T---TTTCTCCATGGTTACCCTTAGTTAACTGTACTGGTTTAGCCTTAGTAAACCC
1 TTTTTAACTTAGGTTTCACCTTGGTCACCCTTAGTTGACTATACTAGTTTAGCCCTAGTCAACCC
* ** ** * * * * * * *
757076 TTTTTAACTTAAGTTTTGTCC-TAATCACTCTTAGTTGATTATA-TGGGTTTAACCTTGGTTAA-
1 TTTTTAACTT-AGGTTTCACCTTGGTCACCCTTAGTTGACTATACT-AGTTTAGCCCTAGTCAAC
757138 CC
64 CC
* * * ** * * * * *
757140 TTTTCTGACTCAAGTTTTGCCTTGGTCATCCTTAGTTGACTGTACTAGTTTAGCCTTAGTCTACT
1 TTTT-TAACTTAGGTTTCACCTTGGTCACCCTTAGTTGACTATACTAGTTTAGCCCTAGTCAACC
*
757205 T
65 C
* * * * * * *
757206 TTTTTTACCTAGGTTTCATCC-TAGTCATCTTTAGTTAAACTATACTGGTTTAGCCCTAGT-AAC
1 TTTTTAACTTAGGTTTCA-CCTTGGTCACCCTTAGTT-GACTATACTAGTTTAGCCCTAGTCAAC
757269 CC
64 CC
* * * *
757271 TTTTTTGACTTAAGTTTCACCTT-GTCATCTTTAGTTGACT-TACTAGTTTAGCCCTAGTCAACC
1 -TTTTTAACTTAGGTTTCACCTTGGTCACCCTTAGTTGACTATACTAGTTTAGCCCTAGTCAACC
757334 C
65 C
757335 TTTT
1 TTTT
757339 CGACTAAAGT
Statistics
Matches: 350, Mismatches: 87, Indels: 36
0.74 0.18 0.08
Matches are distributed among these distances:
61 45 0.13
62 4 0.01
63 21 0.06
64 25 0.07
65 207 0.59
66 48 0.14
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (65 bp):
TTTTTAACTTAGGTTTCACCTTGGTCACCCTTAGTTGACTATACTAGTTTAGCCCTAGTCAACCC
Found at i:756923 original size:31 final size:31
Alignment explanation
Indices: 756826--756924 Score: 103
Period size: 31 Copynumber: 3.1 Consensus size: 31
756816 TTTTTTTTTA
* *
756826 ACTTAGGTTTCACCTTGGTCAGCCTTAGTTG
1 ACTTAGGTTTCACCCTGGTCACCCTTAGTTG
* *
756857 ACTCTACTAGTTT-AGCCCTGGTCAACCCTT-TTTG
1 ACT-TA--GGTTTCA-CCCTGGTC-ACCCTTAGTTG
756891 ACTTAGGTTTCACCCTGGTCACCCTTAGTTG
1 ACTTAGGTTTCACCCTGGTCACCCTTAGTTG
756922 ACT
1 ACT
756925 ACACTAGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
30 6 0.11
31 21 0.38
32 3 0.05
33 3 0.05
34 17 0.31
35 5 0.09
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.37
Consensus pattern (31 bp):
ACTTAGGTTTCACCCTGGTCACCCTTAGTTG
Found at i:763252 original size:9 final size:9
Alignment explanation
Indices: 763238--763268 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
763228 CCATTTCATA
763238 TTTTTTTTC
1 TTTTTTTTC
763247 TTTTTTTTC
1 TTTTTTTTC
763256 TTTTTCTTTC
1 TTTTT-TTTC
763266 TTT
1 TTT
763269 CTTCTTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:763261 original size:15 final size:17
Alignment explanation
Indices: 763241--763291 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 17
763231 TTTCATATTT
763241 TTTTTCTTT-TTT-TTC
1 TTTTTCTTTCTTTCTTC
763256 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
763273 TTCATCTTCTTTCTTTCTT
1 TT--T-TTCTTTCTTTCTT
763292 TCTTACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.29
16 3 0.10
17 5 0.16
19 1 0.03
20 13 0.42
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:766558 original size:76 final size:76
Alignment explanation
Indices: 766424--766566 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 76
766414 TACTGTACAG
* * * * *
766424 TTGCTTTTGTATGGAGATGACCAAATATTTCCTTCAACCAAATCAATTTAATTGTTGAGCCTTGT
1 TTGCTTTTGTAGGGAGATGACCAAACATTTCATGCAACCAAATCAATTTAATTATTGAGCCTTGT
766489 TTGACATGCAA
66 TTGACATGCAA
* * * *
766500 TTGCTTTTGTAGGGAGATGATCAAACATTTCATGCAACCAAGTCAATTTGATTATTGAGTCTTGT
1 TTGCTTTTGTAGGGAGATGACCAAACATTTCATGCAACCAAATCAATTTAATTATTGAGCCTTGT
766565 TT
66 TT
766567 ATAATTAGGT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (76 bp):
TTGCTTTTGTAGGGAGATGACCAAACATTTCATGCAACCAAATCAATTTAATTATTGAGCCTTGT
TTGACATGCAA
Found at i:767865 original size:72 final size:69
Alignment explanation
Indices: 767687--767873 Score: 207
Period size: 72 Copynumber: 2.7 Consensus size: 69
767677 AAATTAATCT
* * * *
767687 TACAAATAAAAATAAATTATACTTTAAAAATTTAAACTCA-ATAATCAAACCCAAAAAAATTTAA
1 TACAAATAAAAATAAATCATACTTTAAAAAATTAAAATCATATAATTAAACCCAAAAAAATTTAA
* *
767751 CTTC
66 CCTA
* * * *
767755 TACAAATAAAAATAAATCACACTTTAAAAAAATT-AAATCCATATAATTATATCTAAAACAAATT
1 TACAAATAAAAATAAATCATACTTT-AAAAAATTAAAAT-CATATAATTAAACCCAAAA-AAATT
767819 TAAACCTA
63 T-AACCTA
* * *
767827 TGCAAATAAAAATAAATCATACCTTAAAAAATTAAAATCTTATAATT
1 TACAAATAAAAATAAATCATACTTTAAAAAATTAAAATCATATAATT
767874 TTTTCAAACT
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
68 26 0.26
69 9 0.09
70 12 0.12
71 22 0.22
72 30 0.30
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.30
Consensus pattern (69 bp):
TACAAATAAAAATAAATCATACTTTAAAAAATTAAAATCATATAATTAAACCCAAAAAAATTTAA
CCTA
Found at i:767988 original size:17 final size:16
Alignment explanation
Indices: 767946--767989 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
767936 GTAGAAGATG
*
767946 AGCTATTTATACAAAA
1 AGCTCTTTATACAAAA
* *
767962 AGCTCTTTATATAAAG
1 AGCTCTTTATACAAAA
767978 AGCTCCTTTATA
1 AGCT-CTTTATA
767990 GGGAGAGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (16 bp):
AGCTCTTTATACAAAA
Found at i:768060 original size:24 final size:24
Alignment explanation
Indices: 768024--768072 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
768014 GTCCCTCCTT
*
768024 ACAATTATATTTGCCTTAGAGGCA
1 ACAATTATATTTGCCTTAAAGGCA
*
768048 ACAATTATTTTTGCCTTAAAGGCA
1 ACAATTATATTTGCCTTAAAGGCA
768072 A
1 A
768073 AAATATGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (24 bp):
ACAATTATATTTGCCTTAAAGGCA
Found at i:771107 original size:13 final size:13
Alignment explanation
Indices: 771089--771115 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
771079 ACATATTACT
771089 TTGTATCGATACA
1 TTGTATCGATACA
771102 TTGTATCGATACA
1 TTGTATCGATACA
771115 T
1 T
771116 GAAGAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:775284 original size:24 final size:20
Alignment explanation
Indices: 775150--775274 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
775140 AAAAAGACAG
775150 AATGTATCGATACATT-AAA
1 AATGTATCGATACATTGAAA
* *
775169 GAATGTATCGATACATTCATA
1 -AATGTATCGATACATTGAAA
* * *
775190 CATGTATCAAAACATTGAAA
1 AATGTATCGATACATTGAAA
*
775210 AATGTATCGATACATCCGGGTAAAAGATAG
1 AATGTATCGATACAT-----T----GA-AA
775240 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
775260 AATGTATCGATACAT
1 AATGTATCGATACAT
775275 CTGGTTAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 59 0.71
21 4 0.05
25 2 0.02
29 2 0.02
30 16 0.19
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:776552 original size:3 final size:3
Alignment explanation
Indices: 776546--776571 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
776536 AGATAATAAA
776546 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
776572 AGTTGACTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:779850 original size:19 final size:19
Alignment explanation
Indices: 779805--779961 Score: 131
Period size: 19 Copynumber: 8.7 Consensus size: 19
779795 TTTCAACAAT
* *
779805 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACATA-AGT-G
779826 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
* *
779845 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACATA-AGT-G
* *
779866 CTGTATCAATACATAAGTG
1 TTGTATCGATACATAAGTG
779885 TTGTATCGAT--ATAA---
1 TTGTATCGATACATAAGTG
779899 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
779917 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
779931 -TATATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
779949 TTGTATCGATACA
1 TTGTATCGATACA
779962 ATGTATTGCT
Statistics
Matches: 110, Mismatches: 12, Indels: 30
0.72 0.08 0.20
Matches are distributed among these distances:
13 19 0.17
15 6 0.05
17 6 0.05
19 44 0.40
20 9 0.08
21 26 0.24
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:779865 original size:40 final size:37
Alignment explanation
Indices: 779805--779962 Score: 183
Period size: 32 Copynumber: 4.4 Consensus size: 37
779795 TTTCAACAAT
779805 TTGTATCGATACAAATAGTAATTGTATCGATACATAAGTG
1 TTGTATCGATACAAA-A-TAA-TGTATCGATACATAAGTG
*
779845 TTGTATCGATACAAACAGTAACTGTATCAATACATAAGTG
1 TTGTATCGATACAAA-A-TAA-TGTATCGATACATAAGTG
779885 TTGTATCGAT-----ATAATGTATCGATACATAAGTG
1 TTGTATCGATACAAAATAATGTATCGATACATAAGTG
779917 TTGTATCGATAC--AAT-A--TATCGATACATAAGTG
1 TTGTATCGATACAAAATAATGTATCGATACATAAGTG
779949 TTGTATCGATACAA
1 TTGTATCGATACAA
779963 TGTATTGCTA
Statistics
Matches: 109, Mismatches: 4, Indels: 16
0.84 0.03 0.12
Matches are distributed among these distances:
32 55 0.50
33 3 0.03
34 2 0.02
35 2 0.02
40 47 0.43
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (37 bp):
TTGTATCGATACAAAATAATGTATCGATACATAAGTG
Found at i:785752 original size:13 final size:13
Alignment explanation
Indices: 785734--785760 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
785724 CATTTTGGGA
785734 TGTATCGATACAT
1 TGTATCGATACAT
785747 TGTATCGATACAT
1 TGTATCGATACAT
785760 T
1 T
785761 TTGTGTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:785775 original size:32 final size:33
Alignment explanation
Indices: 785714--785777 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
785704 TACAAGCCAA
785714 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATTTTGGGATGTATCGATACAT
*
785747 TGTATCGATACATTTTGTG-TGTATCGATACA
1 TGTATCGATACATTTTGGGATGTATCGATACA
785778 AACAATTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTTTGGGATGTATCGATACAT
Found at i:785877 original size:13 final size:13
Alignment explanation
Indices: 785859--785883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
785849 ACATTTGGTC
785859 ATGTATCGATACA
1 ATGTATCGATACA
785872 ATGTATCGATAC
1 ATGTATCGATAC
785884 TGTACAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:788341 original size:13 final size:13
Alignment explanation
Indices: 788323--788357 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
788313 AACCCTTTGT
*
788323 ATCGATACACTGC
1 ATCGATACAATGC
*
788336 ATCGATACAATGT
1 ATCGATACAATGC
788349 ATCGATACA
1 ATCGATACA
788358 GACAATGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:794235 original size:52 final size:52
Alignment explanation
Indices: 794087--794215 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
794077 CGAAATATGA
794087 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTACGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTACGC
* * **
794139 AAATTTGCCTGCATGTATCAATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTACGC
*
794191 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
794216 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTACGC
Found at i:794242 original size:13 final size:13
Alignment explanation
Indices: 794224--794248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
794214 CAAAGATCAG
794224 TGTATCGATACAA
1 TGTATCGATACAA
794237 TGTATCGATACA
1 TGTATCGATACA
794249 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:794315 original size:19 final size:20
Alignment explanation
Indices: 794291--794339 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
794281 TAGCTTAAAT
794291 TGTATCGATAAAAAAC-TTA
1 TGTATCGATAAAAAACTTTA
* *
794310 TGTATCGATACAATACTTTA
1 TGTATCGATAAAAAACTTTA
794330 TGTATCGATA
1 TGTATCGATA
794340 CAAATCGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTATCGATAAAAAACTTTA
Found at i:794332 original size:20 final size:19
Alignment explanation
Indices: 794291--794343 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
794281 TAGCTTAAAT
*
794291 TGTATCGATAAAAAACTTA
1 TGTATCGATACAAAACTTA
*
794310 TGTATCGATACAATACTTTA
1 TGTATCGATACAAAAC-TTA
794330 TGTATCGATACAAA
1 TGTATCGATACAAA
794344 TCGTTGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:797782 original size:20 final size:20
Alignment explanation
Indices: 797757--797811 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
797747 TTACAAGCCA
797757 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
797777 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
797797 ATGTATCGATACATT
1 ATGTATCGATACATT
797812 GTATCGATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTGGG
Found at i:797816 original size:13 final size:13
Alignment explanation
Indices: 797798--797824 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
797788 CATTTTGGGA
797798 TGTATCGATACAT
1 TGTATCGATACAT
797811 TGTATCGATACAT
1 TGTATCGATACAT
797824 T
1 T
797825 TTGTGTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:797820 original size:33 final size:32
Alignment explanation
Indices: 797778--797839 Score: 106
Period size: 33 Copynumber: 1.9 Consensus size: 32
797768 CATTTTGGGA
797778 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATTTTGGG-TGTATCGATACAT
*
797811 TGTATCGATACATTTTGTGTGTATCGATA
1 TGTATCGATACATTTTGGGTGTATCGATA
797840 TAAACAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATTTTGGGTGTATCGATACAT
Found at i:797941 original size:13 final size:13
Alignment explanation
Indices: 797923--797947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
797913 ACATTTGGTC
797923 ATGTATCGATACA
1 ATGTATCGATACA
797936 ATGTATCGATAC
1 ATGTATCGATAC
797948 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:800448 original size:20 final size:20
Alignment explanation
Indices: 800423--800461 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
800413 CTATATGTTC
800423 ATTGTATCGATACATGAAAA
1 ATTGTATCGATACATGAAAA
800443 ATTGTATCGATACATGAAA
1 ATTGTATCGATACATGAAA
800462 TTGACAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (20 bp):
ATTGTATCGATACATGAAAA
Found at i:800590 original size:43 final size:43
Alignment explanation
Indices: 800542--800644 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
800532 ATAGAGAAAA
800542 GTATCGATACATTATGCTCAACGGCTATAAATTTCAAATACAT
1 GTATCGATACATTATGCTCAACGGCTATAAATTTCAAATACAT
800585 GTATCGATACATTATGCTCAACGGCTATAAATTTCAAATACAT
1 GTATCGATACATTATGCTCAACGGCTATAAATTTCAAATACAT
800628 GTATCGATACATTATGC
1 GTATCGATACATTATGC
800645 AAAGTATCGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (43 bp):
GTATCGATACATTATGCTCAACGGCTATAAATTTCAAATACAT
Found at i:801716 original size:21 final size:20
Alignment explanation
Indices: 801692--801731 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
801682 TAACATTTTG
801692 TATCAATACAATAAGTGAATC
1 TATCAATAC-ATAAGTGAATC
* *
801713 TATCGATACATGAGTGAAT
1 TATCAATACATAAGTGAAT
801732 GCATCATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (20 bp):
TATCAATACATAAGTGAATC
Found at i:801834 original size:20 final size:19
Alignment explanation
Indices: 801811--801869 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
801801 ACAAAAGTAA
801811 ATGTATCGATACATTCTTGG
1 ATGTATCGATACATT-TTGG
* *
801831 ATGTATCGATACAATTTGC
1 ATGTATCGATACATTTTGG
*
801850 TTGCTATCGATACATTTTGG
1 ATG-TATCGATACATTTTGG
801870 GTTTTTGATC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTTGG
Found at i:806379 original size:29 final size:29
Alignment explanation
Indices: 806307--806428 Score: 91
Period size: 30 Copynumber: 4.1 Consensus size: 29
806297 AATGGAGTAA
* * *
806307 CTTTCATAAAGTCTACGACTCAATGGCAT
1 CTTTCTTAAAGTCCACGACTCAATGGCAC
* * *
806336 ATCTTCTTAAAGTCCACGGCTCAGTGGCAC
1 CT-TTCTTAAAGTCCACGACTCAATGGCAC
* * * *
806366 CTTTCTTAAAGTCCATGACTTAGTGGCATT
1 CTTTCTTAAAGTCCACGACTCAATGGCA-C
* * * * *
806396 CTTCCTCAAGGTCCATGACTCTATGGCAC
1 CTTTCTTAAAGTCCACGACTCAATGGCAC
806425 CTTT
1 CTTT
806429 TTTTTTTCAA
Statistics
Matches: 72, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
29 27 0.38
30 45 0.62
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (29 bp):
CTTTCTTAAAGTCCACGACTCAATGGCAC
Found at i:806410 original size:59 final size:59
Alignment explanation
Indices: 806307--806428 Score: 131
Period size: 59 Copynumber: 2.1 Consensus size: 59
806297 AATGGAGTAA
* * *
806307 CTTTCATAAAGTCTACGACTCAATGGCATATCTTCTTAAAGTCCACGGCTC-AGTGGCAC
1 CTTTCATAAAGTCCACGACTCAATGGCATATCTTCTCAAAGTCCACGACTCTA-TGGCAC
* * * * * *
806366 CTTTCTTAAAGTCCATGACTTAGTGGCAT-TCTTCCTCAAGGTCCATGACTCTATGGCAC
1 CTTTCATAAAGTCCACGACTCAATGGCATATCTT-CTCAAAGTCCACGACTCTATGGCAC
806425 CTTT
1 CTTT
806429 TTTTTTTCAA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 4 0.08
59 47 0.90
60 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (59 bp):
CTTTCATAAAGTCCACGACTCAATGGCATATCTTCTCAAAGTCCACGACTCTATGGCAC
Found at i:806454 original size:64 final size:65
Alignment explanation
Indices: 806373--806493 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 65
806363 CACCTTTCTT
*
806373 AAAGTCCATGACTTAGTGGCAT-TCTTC-CTCAAGGTCCATGACTCTATGGCAC-CTTTTTTTTT
1 AAAGTCCACGACTTAGTGGCATCTCTTCTC-CAA-GTCCATGACTCTATGGCACTCTTTTTTTTT
806435 TC
64 TC
* *
806437 AAAGTCTACGACTTAGTGGCATCTCTTCTCCAAGTCCATGATTCTATGGCACTCTTT
1 AAAGTCCACGACTTAGTGGCATCTCTTCTCCAAGTCCATGACTCTATGGCACTCTTT
806494 CAAAGCCCAC
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
64 38 0.75
65 12 0.24
66 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (65 bp):
AAAGTCCACGACTTAGTGGCATCTCTTCTCCAAGTCCATGACTCTATGGCACTCTTTTTTTTTTC
Found at i:806537 original size:31 final size:31
Alignment explanation
Indices: 806500--806835 Score: 192
Period size: 31 Copynumber: 10.8 Consensus size: 31
806490 CTTTCAAAGC
806500 CCACAACTCCATGGCACCTTTTTTTTTAAGT
1 CCACAACTCCATGGCACCTTTTTTTTTAAGT
* * *
806531 CCACAACTCCGTAGCACCTTTTTTTTAAAGT
1 CCACAACTCCATGGCACCTTTTTTTTTAAGT
** * *
806562 CCACAACTTTATAGTACCTTTTTTCTCTTTAAGT
1 CCACAACTCCATGGCACC-TTTTT-T-TTTAAGT
* * * * *
806596 CCACAACTTCGTTGCGCC----CTTTTAAGT
1 CCACAACTCCATGGCACCTTTTTTTTTAAGT
* * ** *
806623 CCATAACTCTATGGCACCTTTCCCCTTTTAATT
1 CCACAACTCCATGGCACCTTT--TTTTTTAAGT
* * *
806656 CCACAACTCTATGGAACCTTTATCTTTTAAAGT
1 CCACAACTCCATGGCACCTTT-T-TTTTTAAGT
* * *
806689 CCACAACTCCGTGGCACATTTTCCTTTTTAAAT
1 CCACAACTCCATGGCACCTTTT--TTTTTAAGT
*
806722 CCACAACT--GTGGCACCTTTTTCTTTTAAAGT
1 CCACAACTCCATGGCACCTTTTT-TTTT-AAGT
* *
806753 CCATAACTTCATGGCATCC-----TTTTAAGT
1 CCACAACTCCATGGCA-CCTTTTTTTTTAAGT
* *
806780 CCACAACTCCGTGGTACCTTTTTTTTTAAAGT
1 CCACAACTCCATGGCACCTTTTTTTTT-AAGT
* * *
806812 CCATAACTCTATTGC-CCTTTTTTT
1 CCACAACTCCATGGCACCTTTTTTT
806836 AAGCCCACAC
Statistics
Matches: 236, Mismatches: 47, Indels: 44
0.72 0.14 0.13
Matches are distributed among these distances:
26 2 0.01
27 35 0.15
28 5 0.02
29 1 0.00
30 4 0.02
31 76 0.32
32 20 0.08
33 72 0.31
34 21 0.09
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.39
Consensus pattern (31 bp):
CCACAACTCCATGGCACCTTTTTTTTTAAGT
Found at i:806650 original size:33 final size:32
Alignment explanation
Indices: 806612--806831 Score: 127
Period size: 33 Copynumber: 7.0 Consensus size: 32
806602 CTTCGTTGCG
*
806612 CCCTTTTAAGTCCATAACTCTATGGCACCTTT
1 CCCTTTTAAGTCCACAACTCTATGGCACCTTT
* *
806644 CCCCTTTTAATTCCACAACTCTATGGAACCTTT
1 -CCCTTTTAAGTCCACAACTCTATGGCACCTTT
** ** *
806677 ATCTTTTAAAGTCCACAACTCCGTGGCACATTTT
1 CCCTTTT-AAGTCCACAACTCTATGGCAC-CTTT
* * *
806711 CCTTTTTAAATCCACAA--CTGTGGCACCTTT
1 CCCTTTTAAGTCCACAACTCTATGGCACCTTT
** *
806741 TTCTTTTAAAGTCCATAACT-TCATGGCA----T
1 CCCTTTT-AAGTCCACAACTCT-ATGGCACCTTT
** *
806770 -CCTTTTAAGTCCACAACTCCGTGGTACCTTT
1 CCCTTTTAAGTCCACAACTCTATGGCACCTTT
** * *
806801 -TTTTTTAAAGTCCATAACTCTATTGC-CCTTT
1 CCCTTTT-AAGTCCACAACTCTATGGCACCTTT
806832 TTTTAAGCCC
Statistics
Matches: 141, Mismatches: 34, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
27 15 0.11
28 5 0.04
29 1 0.01
30 7 0.05
31 26 0.18
32 20 0.14
33 60 0.43
34 7 0.05
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.39
Consensus pattern (32 bp):
CCCTTTTAAGTCCACAACTCTATGGCACCTTT
Found at i:806697 original size:66 final size:64
Alignment explanation
Indices: 806614--806831 Score: 204
Period size: 66 Copynumber: 3.5 Consensus size: 64
806604 TCGTTGCGCC
* *
806614 CTTTT-AAGTCCATAACTCTATGGCACCTTTCCCCTTTTAATTCCACAACTCTATGGAACCTTTA
1 CTTTTAAAGTCCATAACTCTATGGCACCTTT-CCCTTTTAAATCCACAACTCTGTGGAACCTTT-
806678 T
64 T
* ** * * *
806679 CTTTTAAAGTCCACAACTCCGTGGCACATTTTCCTTTTTAAATCCACAA--CTGTGGCACCTTTT
1 CTTTTAAAGTCCATAACTCTATGGCAC-CTTTCCCTTTTAAATCCACAACTCTGTGGAACC-TTT
806742 T
64 T
* * *
806743 CTTTTAAAGTCCATAACT-TCATGGCA----T-CCTTTTAAGTCCACAACTCCGTGGTACCTTTT
1 CTTTTAAAGTCCATAACTCT-ATGGCACCTTTCCCTTTTAAATCCACAACTCTGTGGAACCTTTT
* *
806802 TTTTTAAAGTCCATAACTCTATTGC-CCTTT
1 CTTTTAAAGTCCATAACTCTATGGCACCTTT
806832 TTTTAAGCCC
Statistics
Matches: 125, Mismatches: 17, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
58 14 0.11
59 26 0.21
60 9 0.07
62 1 0.01
64 31 0.25
65 8 0.06
66 33 0.26
67 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.39
Consensus pattern (64 bp):
CTTTTAAAGTCCATAACTCTATGGCACCTTTCCCTTTTAAATCCACAACTCTGTGGAACCTTTT
Found at i:806761 original size:157 final size:155
Alignment explanation
Indices: 806500--806788 Score: 361
Period size: 157 Copynumber: 1.8 Consensus size: 155
806490 CTTTCAAAGC
* *
806500 CCACAACTCCATGGCACCTTTTTTTTTAAGTCCACAACTCCGTAGCACCTTTTTTTTAAAGTCCA
1 CCACAACTCCATGGAACCTTTTTTTTAAAGTCCACAACTCCGTAGCACCTTTTTTTTAAAGTCCA
* * * * *
806565 CAACTTTATAGTACCTTTTTTCTCTTTAAGTCCACAACTTCGTTGCGCCCTTTTAAGTCCATAAC
66 CAAC-TTATAGCACCTTTTTTCTCTTTAAGTCCACAACTTCATGGCACCCTTTTAAGTCCACAAC
806630 TCTATGGCACCTTTCCCCTTTTAATT
130 TCTATGGCACCTTTCCCCTTTTAATT
* * *
806656 CCACAACTCTATGGAACCTTTATCTTTTAAAGTCCACAACTCCGTGGCACATTTTCCTTTTTAAA
1 CCACAACTCCATGGAACCTTT-T-TTTTAAAGTCCACAACTCCGTAGCAC-CTTT--TTTTTAAA
* * * *
806721 -TCCACAAC-TGTGGCACC-TTTTTCT-TTTAAAGTCCATAACTTCATGGCATCCTTTTAAGTCC
61 GTCCACAACTTATAGCACCTTTTTTCTCTTT-AAGTCCACAACTTCATGGCACCCTTTTAAGTCC
806782 ACAACTC
125 ACAACTC
806789 CGTGGTACCT
Statistics
Matches: 113, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
156 22 0.19
157 42 0.37
158 30 0.27
159 3 0.03
160 8 0.07
161 8 0.07
ACGTcount: A:0.24, C:0.29, G:0.09, T:0.37
Consensus pattern (155 bp):
CCACAACTCCATGGAACCTTTTTTTTAAAGTCCACAACTCCGTAGCACCTTTTTTTTAAAGTCCA
CAACTTATAGCACCTTTTTTCTCTTTAAGTCCACAACTTCATGGCACCCTTTTAAGTCCACAACT
CTATGGCACCTTTCCCCTTTTAATT
Found at i:806905 original size:64 final size:63
Alignment explanation
Indices: 806836--807240 Score: 377
Period size: 64 Copynumber: 6.3 Consensus size: 63
806826 CCCTTTTTTT
* * * * **
806836 AAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCAATGATAACCTTTCTCTG
1 AAGCCCACACAAGTCGATGGCAACCCTTCTAAAGCCCACACAAGTCGATGACAACC-CTCTCAA
*
806900 AAGCCCACACAAGTCGATGGCAACCCTTCTAAAGCCCACACAAGTCGATG-CTAACCCT-TCCA
1 AAGCCCACACAAGTCGATGGCAACCCTTCTAAAGCCCACACAAGTCGATGAC-AACCCTCTCAA
* * * * *
806962 AATCCCACACAAGTCAATGGCAACCCTTTTAAAGCCCACACAAGTCGGTGGA-AACCCTCTCCA
1 AAGCCCACACAAGTCGATGGCAACCCTTCTAAAGCCCACACAAGTCGAT-GACAACCCTCTCAA
* * * * *
807025 AAGCCCACACAAGTCGGTGGCAACCCTACTCTAAAGCCTACATAAGTCGGTGGCAACCCCTCTCC
1 AAGCCCACACAAGTCGATGGCAACCCT--TCTAAAGCCCACACAAGTCGATGACAA-CCCTCT-C
807090 AA
62 AA
* * * * * * * *
807092 AAGCCCATACAAGTCGAAGGTAACCCTTCAAAAGCCCACGCAAGCCGATGGCAACCCTCCCAA
1 AAGCCCACACAAGTCGATGGCAACCCTTCTAAAGCCCACACAAGTCGATGACAACCCTCTCAA
* * * * * * *
807155 AAGCCTATACAAGTCGGTGGCAACCCTTTTCAAAGCCCACATAAGTC-AGTGGCAACCTTCTCAA
1 AAGCCCACACAAGTCGATGGCAACCCTTCT-AAAGCCCACACAAGTCGA-TGACAACCCTCTCAA
** * *
807219 AAATCCACATAAGTCGGTGGCA
1 AAGCCCACACAAGTCGATGGCA
807241 TCTCTTTCTT
Statistics
Matches: 285, Mismatches: 45, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
62 53 0.19
63 58 0.20
64 101 0.35
65 42 0.15
66 6 0.02
67 25 0.09
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.17
Consensus pattern (63 bp):
AAGCCCACACAAGTCGATGGCAACCCTTCTAAAGCCCACACAAGTCGATGACAACCCTCTCAA
Found at i:807033 original size:32 final size:32
Alignment explanation
Indices: 806836--807240 Score: 356
Period size: 31 Copynumber: 12.7 Consensus size: 32
806826 CCCTTTTTTT
*
806836 AAGCCCACACAAGTCGGTGGCAACCCT-TCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTCTCCA
** ** * **
806867 AAGCCCACACAAGTCAATGATAACCTTTCTCTG
1 AAGCCCACACAAGTCGGTGGCAACC-CTCTCCA
* *
806900 AAGCCCACACAAGTCGATGGCAACCCT-TCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTCTCCA
*
806931 AAGCCCACACAAGTCGAT-GCTAACCCT-TCCA
1 AAGCCCACACAAGTCGGTGGC-AACCCTCTCCA
* ** **
806962 AATCCCACACAAGTCAATGGCAACCCT-TTTA
1 AAGCCCACACAAGTCGGTGGCAACCCTCTCCA
*
806993 AAGCCCACACAAGTCGGTGGAAACCCTCTCCA
1 AAGCCCACACAAGTCGGTGGCAACCCTCTCCA
*
807025 AAGCCCACACAAGTCGGTGGCAACCCTACTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCT-CTCCA
* *
807058 AAGCCTACATAAGTCGGTGGCAACCCCTCTCCAA
1 AAGCCCACACAAGTCGGTGGCAA-CCCTCTCC-A
* ** * *
807092 AAGCCCATACAAGTCGAAGGTAACCCT-TCAA
1 AAGCCCACACAAGTCGGTGGCAACCCTCTCCA
* * *
807123 AAGCCCACGCAAGCCGATGGCAACCCTC-CCAA
1 AAGCCCACACAAGTCGGTGGCAACCCTCTCC-A
* * * *
807155 AAGCCTATACAAGTCGGTGGCAACCCTTTTCA
1 AAGCCCACACAAGTCGGTGGCAACCCTCTCCA
* * * *
807187 AAGCCCACATAAGTCAGTGGCAACCTTCTCAA
1 AAGCCCACACAAGTCGGTGGCAACCCTCTCCA
** *
807219 AAATCCACATAAGTCGGTGGCA
1 AAGCCCACACAAGTCGGTGGCA
807241 TCTCTTTCTT
Statistics
Matches: 305, Mismatches: 58, Indels: 21
0.79 0.15 0.05
Matches are distributed among these distances:
30 2 0.01
31 122 0.40
32 101 0.33
33 58 0.19
34 22 0.07
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.17
Consensus pattern (32 bp):
AAGCCCACACAAGTCGGTGGCAACCCTCTCCA
Found at i:808231 original size:20 final size:20
Alignment explanation
Indices: 808194--808247 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
808184 TTCAACAATT
808194 TGTATTGATACAATAAGTGAA
1 TGTATTGATAC-ATAAGTGAA
808215 TGTATTGATACATAAGTGAA
1 TGTATTGATACATAAGTGAA
*
808235 TGTATTAATACAT
1 TGTATTGATACAT
808248 GTTTGAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.37
Consensus pattern (20 bp):
TGTATTGATACATAAGTGAA
Found at i:810778 original size:52 final size:52
Alignment explanation
Indices: 810708--810826 Score: 202
Period size: 52 Copynumber: 2.3 Consensus size: 52
810698 GAAAATTTAT
*
810708 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
**
810760 CTGCATGTATCGATACATTTTCTAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
810812 CTGCATTTATCGATA
1 CTGCATGTATCGATA
810827 TAAAGATCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:810841 original size:52 final size:52
Alignment explanation
Indices: 810730--810848 Score: 168
Period size: 52 Copynumber: 2.3 Consensus size: 52
810720 ATACATTTAA
* ***
810730 TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTTC
1 TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATAAAAGATC
* *
810782 TAATGTATCGATACATCTGGGCAAATTTGCCTGCATTTATCGATATAAAGATC
1 TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATA-AAAGATC
810835 -AGTGTATCGATACA
1 TAGTGTATCGATACA
810849 ATGTATCGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 56 0.95
53 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATAAAAGATC
Found at i:810855 original size:13 final size:13
Alignment explanation
Indices: 810837--810861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
810827 TAAAGATCAG
810837 TGTATCGATACAA
1 TGTATCGATACAA
810850 TGTATCGATACA
1 TGTATCGATACA
810862 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:810945 original size:13 final size:13
Alignment explanation
Indices: 810927--810951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
810917 CAAAAAAATA
810927 TGTATCGATACAT
1 TGTATCGATACAT
810940 TGTATCGATACA
1 TGTATCGATACA
810952 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:810947 original size:33 final size:33
Alignment explanation
Indices: 810905--810971 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
810895 AGTAGCTTAA
810905 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
810938 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
810971 A
1 A
810972 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:812287 original size:21 final size:20
Alignment explanation
Indices: 812255--812293 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
812245 TCTTAGTAGC
812255 CCATATTTATGCATTTTATG
1 CCATATTTATGCATTTTATG
*
812275 CCATGTTTCATGCATTTTA
1 CCATATTT-ATGCATTTTA
812294 GCATGTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (20 bp):
CCATATTTATGCATTTTATG
Found at i:814963 original size:79 final size:80
Alignment explanation
Indices: 814832--814995 Score: 240
Period size: 79 Copynumber: 2.1 Consensus size: 80
814822 CATATTCTAA
* ** * * *
814832 TTTTAGGTTAAATTTATGATCTCACTTTAAATTTTGAAACAACTAAAAAATATTTAATAAA-AAA
1 TTTTAGGGTAAATTTACAATCTCACTCTAAATTTTGAAACAACTAAAAAATATTCAACAAATAAA
*
814896 ACGTGTTAAAAATTG
66 ACATGTTAAAAATTG
* *
814911 TTTTAGGGTAAATTTACAATCTCACTCTAAATTTTGAAACAATTAAAGAATATTCAACAAATAAA
1 TTTTAGGGTAAATTTACAATCTCACTCTAAATTTTGAAACAACTAAAAAATATTCAACAAATAAA
814976 ACATGTTAAAAATTG
66 ACATGTTAAAAATTG
814991 TTTTA
1 TTTTA
814996 CTATTAAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 53 0.71
80 22 0.29
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (80 bp):
TTTTAGGGTAAATTTACAATCTCACTCTAAATTTTGAAACAACTAAAAAATATTCAACAAATAAA
ACATGTTAAAAATTG
Found at i:816016 original size:22 final size:22
Alignment explanation
Indices: 815973--816016 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
815963 TTTATTAATT
* *
815973 TTATTTATTTATAAAAATATAA
1 TTATATATTTATAAAAAGATAA
815995 TTATATATTTA-AAAATAGATAA
1 TTATATATTTATAAAA-AGATAA
816017 AATAAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TTATATATTTATAAAAAGATAA
Found at i:820979 original size:10 final size:8
Alignment explanation
Indices: 820938--820970 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
820928 ATATTATTTA
820938 AAAATATT
1 AAAATATT
820946 AAAATATT
1 AAAATATT
820954 AAAATATT
1 AAAATATT
820962 AAAATATT
1 AAAATATT
820970 A
1 A
820971 TAAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAATATT
Found at i:821001 original size:26 final size:23
Alignment explanation
Indices: 820972--821021 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 23
820962 AAAATATTAT
820972 AAAATATTTATAATTAAATTTAAATA
1 AAAATATTT-TAATT-AA-TTAAATA
*
820998 AAAATATTTTTATTAATTAAATA
1 AAAATATTTTAATTAATTAAATA
821021 A
1 A
821022 TAATTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 2 0.09
25 4 0.17
26 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATATTTTAATTAATTAAATA
Found at i:821038 original size:5 final size:5
Alignment explanation
Indices: 821012--821055 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
821002 TATTTTTATT
* *
821012 AATTA AATAA TAATTAA AATTA AATTA AATTA ACTTA AATTA AA
1 AATTA AATTA -AATT-A AATTA AATTA AATTA AATTA AATTA AA
821056 AAATTACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 25 0.76
6 7 0.21
7 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (5 bp):
AATTA
Found at i:825317 original size:19 final size:20
Alignment explanation
Indices: 825293--825338 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
825283 TCGGTTGAAT
*
825293 TTTAAATAAATT-TTTTTAA
1 TTTAAATAAATTATATTTAA
* *
825312 TTTAAATTAATTATATTTAT
1 TTTAAATAAATTATATTTAA
825332 TTTAAAT
1 TTTAAAT
825339 TATTATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAAATAAATTATATTTAA
Found at i:825343 original size:19 final size:20
Alignment explanation
Indices: 825293--825346 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
825283 TCGGTTGAAT
* *
825293 TTTAAATAAATT-TTTTTAA
1 TTTAAATTAATTATATTTAA
*
825312 TTTAAATTAATTATATTTAT
1 TTTAAATTAATTATATTTAA
825332 TTTAAATT-ATTATAT
1 TTTAAATTAATTATAT
825347 AATAATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAAATTAATTATATTTAA
Found at i:825396 original size:20 final size:22
Alignment explanation
Indices: 825371--825415 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
825361 ATTTTTATTA
825371 AATTTAAT-TATAA-AAATAAT
1 AATTTAATATATAATAAATAAT
825391 AATTTAATGATATAATAAATAAT
1 AATTTAAT-ATATAATAAATAAT
825414 AA
1 AA
825416 AATTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
22 5 0.23
23 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AATTTAATATATAATAAATAAT
Found at i:825965 original size:17 final size:18
Alignment explanation
Indices: 825935--825977 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
825925 GCACACAAAA
825935 TTTTTCTC--TTCTTT-T
1 TTTTTCTCTTTTCTTTCT
825950 TTTTTCTCTTTTCTTTCT
1 TTTTTCTCTTTTCTTTCT
*
825968 TTTTTTTCTT
1 TTTTTCTCTT
825978 CATTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
17 6 0.25
18 10 0.42
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTCTCTTTTCTTTCT
Found at i:826348 original size:21 final size:21
Alignment explanation
Indices: 826323--826362 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
826313 TTAAAAAAAT
826323 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
826344 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
826363 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:828398 original size:20 final size:20
Alignment explanation
Indices: 828373--828431 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
828363 TAAAAAAAAA
828373 CAATCATTTTTTATAAAG-AT
1 CAATCATTTTTTA-AAAGAAT
* *
828393 CAATCATCTTTCAAAAGTAAT
1 CAATCATTTTTTAAAAG-AAT
828414 -AATCATTTTTTAACAAGA
1 CAATCATTTTTTAA-AAGA
828432 TTCAGTCATC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.12
20 23 0.72
21 5 0.16
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (20 bp):
CAATCATTTTTTAAAAGAAT
Found at i:829637 original size:13 final size:13
Alignment explanation
Indices: 829619--829645 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
829609 TGTATATATA
829619 TGTATATATCATC
1 TGTATATATCATC
829632 TGTATATATCATC
1 TGTATATATCATC
829645 T
1 T
829646 TATTCAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (13 bp):
TGTATATATCATC
Found at i:829640 original size:2 final size:2
Alignment explanation
Indices: 829589--829627 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
829579 TATAGTCTTT
* * *
829589 TA TA TA TA TA TA TA TA TG TA TG TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
829628 CATCTGTATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (2 bp):
TA
Found at i:829907 original size:7 final size:7
Alignment explanation
Indices: 829886--829939 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
829876 AAAATTATTA
*
829886 TAAATAT
1 TAAATTT
829893 TAAA-TT
1 TAAATTT
829899 TAAATTT
1 TAAATTT
829906 TAAATTT
1 TAAATTT
829913 TAAATTTAT
1 TAAA-TT-T
*
829922 TAAATAT
1 TAAATTT
*
829929 TATATTT
1 TAAATTT
829936 TAAA
1 TAAA
829940 ATTAATTGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 5 0.13
7 26 0.67
8 3 0.08
9 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:829908 original size:13 final size:13
Alignment explanation
Indices: 829886--829944 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
829876 AAAATTATTA
*
829886 TAAATATTAAATT
1 TAAATTTTAAATT
829899 TAAATTTTAAATTT
1 TAAATTTTAAA-TT
829913 TAAATTTATTAAATAT
1 TAAA-TT-TTAAAT-T
* *
829929 TATATTTTAAAAT
1 TAAATTTTAAATT
829942 TAA
1 TAA
829945 TTGAGTTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 13 0.34
14 11 0.29
15 5 0.13
16 9 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAAATTTTAAATT
Found at i:829935 original size:16 final size:16
Alignment explanation
Indices: 829890--829935 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
829880 TTATTATAAA
829890 TATTAAAT-TTAAA-T
1 TATTAAATATTAAATT
*
829904 T-TTAAATTTTAAATT
1 TATTAAATATTAAATT
*
829919 TATTAAATATTATATT
1 TATTAAATATTAAATT
829935 T
1 T
829936 TAAAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.22
14 6 0.22
15 2 0.07
16 13 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAAATATTAAATT
Found at i:832512 original size:2 final size:2
Alignment explanation
Indices: 832505--832542 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
832495 GTTTCTCATG
832505 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
832543 TTTTGCGCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:834045 original size:24 final size:24
Alignment explanation
Indices: 833983--834047 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 24
833973 AAATATTTAT
* *
833983 TAATTTAATAAATACTAAAATTAA
1 TAATTTAATATATAATAAAATTAA
* *
834007 T-A-TTAATATAAAATAAAATTAG
1 TAATTTAATATATAATAAAATTAA
*
834029 TAATTTAATATTTAATAAA
1 TAATTTAATATATAATAAA
834048 CAGTAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 17 0.52
23 2 0.06
24 14 0.42
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TAATTTAATATATAATAAAATTAA
Found at i:834336 original size:2 final size:2
Alignment explanation
Indices: 834329--834373 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
834319 ATAAAATTAA
834329 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
834371 AT A
1 AT A
834374 ATGGAGAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:835811 original size:18 final size:20
Alignment explanation
Indices: 835780--835819 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
835770 GAAAATAAAA
835780 AAAAATATTAATTTAAATAT
1 AAAAATATTAATTTAAATAT
*
835800 AAAAAT-TT-ATTTGAATAT
1 AAAAATATTAATTTAAATAT
835818 AA
1 AA
835820 CCTAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 2 0.11
20 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
AAAAATATTAATTTAAATAT
Found at i:835852 original size:22 final size:19
Alignment explanation
Indices: 835836--835876 Score: 55
Period size: 22 Copynumber: 2.0 Consensus size: 19
835826 TATTAAGAAT
835836 ATATTAATTATAAATTATAAAA
1 ATATTAATT-T-AATTA-AAAA
835858 ATATTAATTTAATTAAAAA
1 ATATTAATTTAATTAAAAA
835877 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 1 0.05
22 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATTAATTTAATTAAAAA
Found at i:835889 original size:27 final size:27
Alignment explanation
Indices: 835839--835916 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
835829 TAAGAATATA
*
835839 TTAATTATAAATTATAAAAATATTA-AT
1 TTAATTAAAAATTA-AAAAATATTACAT
*
835866 TTAATTAAAAATTAAAAATTTATTACAT
1 TTAATTAAAAATTAAAAA-ATATTACAT
* *
835894 ATAA-TAAAAA-TAAAAAAAATTAC
1 TTAATTAAAAATTAAAAAATATTAC
835917 CTGCAAAAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
25 5 0.11
26 10 0.23
27 24 0.55
28 5 0.11
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
TTAATTAAAAATTAAAAAATATTACAT
Found at i:843089 original size:22 final size:20
Alignment explanation
Indices: 843059--843114 Score: 53
Period size: 22 Copynumber: 2.8 Consensus size: 20
843049 ACCCAGGCTA
*
843059 CCTTTTTCTTTTTTTTCCCTTT
1 CCTTCTTCTTTTTTTT--CTTT
**
843081 CCTTCTTCTTTCCTTTCTTT
1 CCTTCTTCTTTTTTTTCTTT
843101 --TTCTTCTTTTTTTT
1 CCTTCTTCTTTTTTTT
843115 TCTTCTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 12 0.41
20 4 0.14
22 13 0.45
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (20 bp):
CCTTCTTCTTTTTTTTCTTT
Found at i:844198 original size:28 final size:28
Alignment explanation
Indices: 844132--844200 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
844122 AGCTAGTGTA
* * * *
844132 GGCTTAGACTTAAATGCCAGCTAATATG
1 GGCTTAGACTTATATGCAAACGAATATG
* *
844160 GGTTTTA-ACTTATATGCAAACGAATGTG
1 GG-CTTAGACTTATATGCAAACGAATATG
844188 GGCTTAGACTTAT
1 GGCTTAGACTTAT
844201 GTGCCAAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
27 3 0.09
28 26 0.81
29 3 0.09
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (28 bp):
GGCTTAGACTTATATGCAAACGAATATG
Found at i:846849 original size:17 final size:18
Alignment explanation
Indices: 846829--846866 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
846819 AATATGTATC
*
846829 TAAAAAAAATTATTT-AA
1 TAAAAAAAATAATTTGAA
*
846846 TAAAAATAATAATTTGAA
1 TAAAAAAAATAATTTGAA
846864 TAA
1 TAA
846867 CTATTTGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
TAAAAAAAATAATTTGAA
Found at i:847539 original size:27 final size:27
Alignment explanation
Indices: 847451--847526 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
847441 TAAACTTGAC
* *
847451 ATAAATATATAAAAGTATT-AAATT-TT
1 ATAAATATATAATA-TATTAAAATTAAT
*
847477 ATAACATAAATTAATATATTAAAATTAAT
1 ATAA-ATATA-TAATATATTAAAATTAAT
*
847506 ATAAATATATAATATTTTAAA
1 ATAAATATATAATATATTAAA
847527 TATAATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
26 4 0.10
27 19 0.46
28 13 0.32
29 5 0.12
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (27 bp):
ATAAATATATAATATATTAAAATTAAT
Found at i:848025 original size:27 final size:27
Alignment explanation
Indices: 847957--848028 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
847947 GTTTGTTTTT
847957 TAAAATAATAATT-AATTTATTTTAAA
1 TAAAATAATAATTAAATTTATTTTAAA
*
847983 TCAAAATAATTATTAAATTTATTTTAAA
1 T-AAAATAATAATTAAATTTATTTTAAA
*
848011 -ATTAATAATAATTAAATT
1 TA-AAATAATAATTAAATT
848029 AAAAATAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 25 0.62
28 13 0.32
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAAATAATAATTAAATTTATTTTAAA
Found at i:849018 original size:35 final size:35
Alignment explanation
Indices: 848969--849038 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
848959 TTATTTAACC
*
848969 AAACAATGGTAGTTAGAATTTTTTTCTTTTCAATT
1 AAACAATGGCAGTTAGAATTTTTTTCTTTTCAATT
849004 AAACAATGGCAGTTAGAATTTTTTTCTTTTCAATT
1 AAACAATGGCAGTTAGAATTTTTTTCTTTTCAATT
849039 CCTTTATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.47
Consensus pattern (35 bp):
AAACAATGGCAGTTAGAATTTTTTTCTTTTCAATT
Found at i:854244 original size:2 final size:2
Alignment explanation
Indices: 854237--854268 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
854227 GGCTATTACA
854237 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
854269 TACCGGCACA
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:855984 original size:20 final size:22
Alignment explanation
Indices: 855938--855994 Score: 84
Period size: 20 Copynumber: 2.7 Consensus size: 22
855928 ACAATCCTGT
*
855938 ATTGTATCGATAC-TTATTTAG
1 ATTGTATCGATACATTATTGAG
855959 ATTGTATCGATACATTA-TGA-
1 ATTGTATCGATACATTATTGAG
855979 ATTGTATCGATACATT
1 ATTGTATCGATACATT
855995 TGGCCCAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 16 0.47
21 15 0.44
22 3 0.09
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (22 bp):
ATTGTATCGATACATTATTGAG
Found at i:856079 original size:15 final size:15
Alignment explanation
Indices: 856059--856087 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
856049 CGATACATTG
856059 GAGCATGAATGTGCA
1 GAGCATGAATGTGCA
856074 GAGCATGAATGTGC
1 GAGCATGAATGTGC
856088 GGAAACAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (15 bp):
GAGCATGAATGTGCA
Found at i:865607 original size:20 final size:20
Alignment explanation
Indices: 865579--865653 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
865569 TTTTACCTTG
865579 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
865599 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
865619 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
*
865639 ATGTATAGATACATT
1 ATGTATCGATACATT
865654 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:865650 original size:40 final size:39
Alignment explanation
Indices: 865579--865656 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
865569 TTTTACCTTG
* * *
865579 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATAGATACAT-TATGA
* *
865619 ATGTATCGATATATTCTACAATGTATAGATACATTATG
1 ATGTATCGATACATTCTACAATATATAGATACATTATG
865657 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATAGATACATTATGA
Found at i:866594 original size:23 final size:23
Alignment explanation
Indices: 866567--866623 Score: 107
Period size: 22 Copynumber: 2.5 Consensus size: 23
866557 AGCCTTGGAC
866567 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
866590 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
866612 CATGCATTTTTT
1 CATGCATTTTTT
866624 ACATGTCCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.63
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:875216 original size:52 final size:52
Alignment explanation
Indices: 875138--875266 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
875128 CGGAATATGA
875138 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
875190 AAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
875242 AAATTTGCCTACATGTAACGATACA
1 AAATTTGCTTGCATGTATCGATACA
875267 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:875277 original size:52 final size:52
Alignment explanation
Indices: 875138--875287 Score: 176
Period size: 52 Copynumber: 2.9 Consensus size: 52
875128 CGGAATATGA
* * * **
875138 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTAACGATACATAACATAGTGTATCGATACATCTGGGC
* ** * **
875190 AAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTAACGATACATAACATAGTGTATCGATACATCTGGGC
*
875242 AAATTTGCCTACATGTAACGATACA-AAGATCAGTGTATCGATACAT
1 AAATTTGCCTACATGTAACGATACATAACAT-AGTGTATCGATACAT
875288 TTGAGTAATG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTACATGTAACGATACATAACATAGTGTATCGATACATCTGGGC
Found at i:875376 original size:13 final size:14
Alignment explanation
Indices: 875353--875381 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
875343 TCAATACAAA
875353 ACTTATGTATCGAT
1 ACTTATGTATCGAT
875367 ACTT-TGTATCGAT
1 ACTTATGTATCGAT
875380 AC
1 AC
875382 AAATCTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (14 bp):
ACTTATGTATCGAT
Found at i:876205 original size:49 final size:49
Alignment explanation
Indices: 876085--876953 Score: 1019
Period size: 49 Copynumber: 17.8 Consensus size: 49
876075 AAAATGATGT
* * ** *
876085 CAATGTGCTGATTCACGGTTAGCGACATTGGACTTAAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATG---AAGGTGC
* * *
876138 TAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * **
876187 TAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
876236 TAATATGCTGA-TCAAGGCCAACGATATTGGACTTAAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATG---AAGGTGC
* *
876288 CAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
876337 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* *
876389 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
876438 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* **
876487 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
876536 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * **
876585 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
876634 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * ** *
876683 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAATGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
876732 TAATATGTTGATTCAAGGCTAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
876775 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GGTGC
*
876824 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * ** * *
876867 CAATGTGCTGATTCAAGGCCAGTGACATTGGTTTTAAAGAAGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
876916 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
876954 AGAAGATGCC
Statistics
Matches: 708, Mismatches: 88, Indels: 44
0.84 0.10 0.05
Matches are distributed among these distances:
43 70 0.10
44 2 0.00
45 2 0.00
47 2 0.00
48 22 0.03
49 485 0.69
52 74 0.10
53 51 0.07
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:876550 original size:98 final size:98
Alignment explanation
Indices: 876085--876953 Score: 1145
Period size: 98 Copynumber: 8.9 Consensus size: 98
876075 AAAATGATGT
* ** * * *
876085 CAATGTGCTGATTCACGGTTAGCGACATTGGACTTAAAAGATGACAAAGGCGCTAATATGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--AA-A-GACAAAGGTGCCAATATGCTGAT
* *
876150 TCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGC
62 TCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGC
* * *
876187 TAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAAGGTGCTAATATGCTGA-TCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
* *
876251 GGCCAACGATATTGGACTTAAAAGATGACAAAGGCGC
66 GGCCAGCGATATTGGACTT-AAAGAT---AAAGGTGC
* * * * ** *
876288 CAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
* * *
876353 GGCCAGCAACATTGGACTTAAAGATGAAAAAGGCGC
66 GGCCAGCGATATTGGACTTAAAGAT---AAAGGTGC
* * * * ** *
876389 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
*
876454 GGCCAGCGACATTGGACTTAAAGATAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGATAAAGGTGC
*
876487 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
*
876552 GGCCAGCGATATTGGACTTAAAGATGAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGATAAAGGTGC
876585 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
*
876650 GGCCAGCGATATTGGACTTAAAGATGAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGATAAAGGTGC
* * * *
876683 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAATGTGCTAATATGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
*
876748 GGCTAGCGATATTGGAC-T-----TAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGATAAAGGTGC
*
876775 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
876840 GGCCAGCGATATTGGAC-T-----TAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGATAAAGGTGC
* * *
876867 CAATGTGCTGATTCAAGGCCAGTGACATTGGTTTTAAAGA-AGAAGATGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA-AAGGTGCCAATATGCTGATTCA
876931 AGGCCAGCGATATTGGACTTAAA
65 AGGCCAGCGATATTGGACTTAAA
876954 AGAAGATGCC
Statistics
Matches: 703, Mismatches: 54, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
91 1 0.00
92 170 0.24
93 1 0.00
97 22 0.03
98 297 0.42
99 1 0.00
100 2 0.00
101 159 0.23
102 50 0.07
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (98 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGATAAAGGTGC
Found at i:877085 original size:34 final size:34
Alignment explanation
Indices: 876985--877335 Score: 303
Period size: 34 Copynumber: 9.8 Consensus size: 34
876975 TGGGCTTTTG
* * *
876985 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGAGA
1 AAGG-TGCCACGGAGTTGTGGGC-TTTGAAAA-GAAA
* * * *
877022 AAGATGCCATGGAGTTGTGGAC-TT-AAAAGGAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
** *
877054 AAGGTGCCAAAGAGTGGTGGGCTTTGAAAAGGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAA
* *
877089 AGGTGCCACGGAGTTGCCACGGAGTTATGGGCTTTAAAAAG-AA
1 A------A--G-G-TGCCACGGAGTTGTGGGCTTTGAAAAGAAA
*
877132 AAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* * *
877166 AATGTGCCACGGAGTTGTGGGATTTAAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* * *
877200 AAGGTGCCACAGAATGGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
*
877234 AAGGTGCCACGGAGTTATGGGCTTTGAAAAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTG---AAAAGAAA
*
877271 AAGGTGCCACGGAGTTATGGGCTTTGAAAAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTG---AAAAGAAA
*
877308 AAGGTGCCACGAAGTTGTGGGCTTTGAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAA
877336 GAAAAGATGC
Statistics
Matches: 260, Mismatches: 37, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
32 19 0.07
33 30 0.12
34 91 0.35
35 5 0.02
36 14 0.05
37 73 0.28
41 1 0.00
43 4 0.02
44 2 0.01
45 21 0.08
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.21
Consensus pattern (34 bp):
AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
Found at i:877174 original size:112 final size:113
Alignment explanation
Indices: 876988--877209 Score: 261
Period size: 112 Copynumber: 2.0 Consensus size: 113
876978 GCTTTTGAAG
* * * * * *
876988 GTTGCCACTGACTTGTGGGCTTTTGAAAAGGAGAAAGATGCCATGGAGTTGTGGACTTAAAAGGA
1 GTTGCCACGGACTTATGGGCTTTTGAAAAAGAGAAAGATGCCACGGAGTGGTGGACTTAAAAGAA
* * *
877053 AAAGGTGCCAAAGAGTGGTGGGCTTTGAAAAGGAAAAGGTGCCACGGA
66 AAAGGTGCCAAAGAGTGGTGGGATTTAAAAAGAAAAAGGTGCCACGGA
* * *
877101 GTTGCCACGGAGTTATGGGC-TTT-AAAAAGA-AAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
1 GTTGCCACGGACTTATGGGCTTTTGAAAAAGAGAAAGATGCCACGGAGTGGTGGAC-TT-AAAAG
* ** *
877163 AAAAATGTGCCACGGAGTTGTGGGATTTAAAAAGAAAAAGGTGCCAC
64 AAAAAGGTGCCAAAGAGTGGTGGGATTTAAAAAGAAAAAGGTGCCAC
877210 AGAATGGTGG
Statistics
Matches: 91, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
110 19 0.21
111 8 0.09
112 47 0.52
113 17 0.19
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (113 bp):
GTTGCCACGGACTTATGGGCTTTTGAAAAAGAGAAAGATGCCACGGAGTGGTGGACTTAAAAGAA
AAAGGTGCCAAAGAGTGGTGGGATTTAAAAAGAAAAAGGTGCCACGGA
Found at i:877268 original size:37 final size:35
Alignment explanation
Indices: 877103--877335 Score: 305
Period size: 34 Copynumber: 6.7 Consensus size: 35
877093 GCCACGGAGT
*
877103 TGCCACGGAGTTATGGGCTTT-AAAAAG-AAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAGG
* *
877136 TGCCACGGAGTGGTGGGCTTTG-AAAAGAAAAATG
1 TGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAGG
*
877170 TGCCACGGAGTTGTGGGATTT-AAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAGG
* * *
877204 TGCCACAGAATGGTGGGCTTTG-AAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAGG
*
877238 TGCCACGGAGTTATGGGCTTTGAAAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTG--AAAAAGAAAAAGG
*
877275 TGCCACGGAGTTATGGGCTTTGAAAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTG--AAAAAGAAAAAGG
*
877312 TGCCACGAAGTTGTGGGCTTTGAA
1 TGCCACGGAGTTGTGGGCTTTGAA
877336 GAAAAGATGC
Statistics
Matches: 177, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
33 24 0.14
34 82 0.46
35 2 0.01
37 69 0.39
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.21
Consensus pattern (35 bp):
TGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAGG
Found at i:877347 original size:31 final size:30
Alignment explanation
Indices: 877306--877612 Score: 222
Period size: 31 Copynumber: 10.1 Consensus size: 30
877296 GAAAAAAAGA
* *
877306 AAAAGGTGCCACGAAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACG-AGTCGTGGGCTTTGAAG
* *
877337 AAAAGATGCCACTAAGTCGTGGACTTTG--G
1 AAAAGATGCCAC-GAGTCGTGGGCTTTGAAG
*
877366 AAAGAGATGCCACTGAGTCGTGGACTTTGAAG
1 AAA-AGATGCCAC-GAGTCGTGGGCTTTGAAG
* * *
877398 AAAAGATGCCACTAAGTCGTGGACTTTG-GG
1 AAAAGATGCCAC-GAGTCGTGGGCTTTGAAG
*
877428 ACAAA-ATGCCACTGAGTCGTGGACTTTGAAG
1 A-AAAGATGCCAC-GAGTCGTGGGCTTTGAAG
* * *
877459 AAAAGATGCCACTGAGTCATGGACTTTG-GG
1 AAAAGATGCCAC-GAGTCGTGGGCTTTGAAG
877489 ACAAA-ATGCCACTGAGTCGTGGGCTTTG-AG
1 A-AAAGATGCCAC-GAGTCGTGGGCTTTGAAG
* * * *
877519 AAGAGATTGCCACTGAGTTGTGGACTTT-AGG
1 AAAAGA-TGCCAC-GAGTCGTGGGCTTTGAAG
*
877550 ACAAA-ACGCCACTGAGTCGTGGGCTTTG-AG
1 A-AAAGATGCCAC-GAGTCGTGGGCTTTGAAG
* *
877580 AATAGATTGCCACTGAGTCGTGGACTTT-AAG
1 AAAAGA-TGCCAC-GAGTCGTGGGCTTTGAAG
877611 AA
1 AA
877613 GGTATTTGAA
Statistics
Matches: 234, Mismatches: 26, Indels: 32
0.80 0.09 0.11
Matches are distributed among these distances:
29 8 0.03
30 98 0.42
31 122 0.52
32 6 0.03
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACGAGTCGTGGGCTTTGAAG
Found at i:877400 original size:61 final size:61
Alignment explanation
Indices: 877324--877607 Score: 414
Period size: 61 Copynumber: 4.7 Consensus size: 61
877314 CCACGAAGTT
*
877324 GTGGGCTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTT-GGA-AAGAGATGCCACTGAGTC
1 GTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAA-A-ATGCCACTGAGTC
* *
877385 GTGGACTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTTGGGACAAAATGCCACTGAGTC
1 GTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTC
* *
877446 GTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGGGACAAAATGCCACTGAGTC
1 GTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTC
* * * *
877507 GTGGGCTTTG-AGAAGAGATTGCCACTGAGTTGTGGACTTTAGGACAAAACGCCACTGAGTC
1 GTGGGCTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTC
*
877568 GTGGGCTTTG-AGAATAGATTGCCACTGAGTCGTGGACTTT
1 GTGGGCTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
877608 AAGAAGGTAT
Statistics
Matches: 209, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
60 7 0.03
61 196 0.94
62 4 0.02
63 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (61 bp):
GTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTC
Found at i:885954 original size:52 final size:52
Alignment explanation
Indices: 885876--886004 Score: 188
Period size: 52 Copynumber: 2.5 Consensus size: 52
885866 CGAACTATGA
*
885876 AAATTTGCCTACATGTATCGATACATTTCATAGTGCATCGATACATCCAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGCATCGATACATCCAGGC
* * * **
885928 AAATTTGCCTGTATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGCATCGATACATCCAGGC
885980 AAATTT-CCTTGCATGTATCGATACA
1 AAATTTGCC-TGCATGTATCGATACA
886005 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 2 0.03
52 66 0.97
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGCATCGATACATCCAGGC
Found at i:886015 original size:52 final size:52
Alignment explanation
Indices: 885876--886024 Score: 158
Period size: 52 Copynumber: 2.9 Consensus size: 52
885866 CGAACTATGA
* ** *
885876 AAATTTGCCTACATGTATCGATACATTTCATAGTGCATCGATACATCCAGGC
1 AAATTTGCCTGCATGTATCGATACATAACATAGTGTATCGATACATCCAGGC
* * ** **
885928 AAATTTGCCTGTATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATAACATAGTGTATCGATACATCCAGGC
* *
885980 AAATTT-CCTTGCATGTATCGATACA-AAGATCAGTGTATCAATACA
1 AAATTTGCC-TGCATGTATCGATACATAACAT-AGTGTATCGATACA
886025 ATGTATCAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 4 0.05
52 79 0.95
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATAACATAGTGTATCGATACATCCAGGC
Found at i:886031 original size:13 final size:13
Alignment explanation
Indices: 886013--886037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
886003 CAAAGATCAG
886013 TGTATCAATACAA
1 TGTATCAATACAA
886026 TGTATCAATACA
1 TGTATCAATACA
886038 TTGGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:886212 original size:21 final size:22
Alignment explanation
Indices: 886165--886212 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
886155 TTGACTGTTG
*
886165 GGACCATGTATCGATACATTCT
1 GGACAATGTATCGATACATTCT
*
886187 -AACAATGTATCGATACATT-T
1 GGACAATGTATCGATACATTCT
886207 GGACAA
1 GGACAA
886213 AAATGTGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (22 bp):
GGACAATGTATCGATACATTCT
Found at i:886954 original size:51 final size:51
Alignment explanation
Indices: 886841--886956 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
886831 AAATAATGGG
* ** *
886841 GTTGGAGTATCCCCGATTGTGAAAAATTAATGATTTAGAAATAAGGCCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAAACCGGA
* * * *
886892 GTTGAAATATCCCCGATTGTGAGAAATCAAT-ATTTTGGAAATAAAACCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATCAATGA-TTTAGAAATAAAACCGGA
*
886943 GTTGGTGTATCCCC
1 GTTGGAGTATCCCC
886957 TTAGAAATAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 1 0.02
51 52 0.98
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAAACCGGA
Found at i:886980 original size:28 final size:28
Alignment explanation
Indices: 886962--887017 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
886952 TCCCCTTAGA
*
886962 AATAATGGGGTTGGAGTATCCACGATTG
1 AATAACGGGGTTGGAGTATCCACGATTG
886990 AATAACGGGGTTGGAGTATCTC-CGATTG
1 AATAACGGGGTTGGAGTATC-CACGATTG
887018 TGAAAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCACGATTG
Found at i:887052 original size:158 final size:158
Alignment explanation
Indices: 886832--887140 Score: 413
Period size: 158 Copynumber: 2.0 Consensus size: 158
886822 TCTCCTCGAA
* **
886832 AATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGATTTAGAAATAAGGCCGGGGTTGA
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGATTTAGAAATAAAACCGGGGTTGA
* * * *
886897 AATATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAACC-GGAGTTGGTGTATCCCCTTAG
66 AATATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCGGGA-TTGGAGTATCCCCTCAG
* *
886961 AAATAATGGGGTTGGAGTATCCACGATTG
130 AAATAACGGGATTGGAGTATCCACGATTG
* ** * * * *
886990 AATAACGGGGTTGGAGTATCTCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGATTTAGAAATAAAACCGGGGTTGA
* ***
887055 AGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCGGGATTGGAGTATCCCCTCAGA
66 AATATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCGGGATTGGAGTATCCCCTCAGA
*
887120 AATGACGGGATTGGAGTATCC
131 AATAACGGGATTGGAGTATCC
887141 CTAATTGTGA
Statistics
Matches: 129, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
158 126 0.98
159 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (158 bp):
AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGATTTAGAAATAAAACCGGGGTTGA
AATATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCGGGATTGGAGTATCCCCTCAGA
AATAACGGGATTGGAGTATCCACGATTG
Found at i:887055 original size:51 final size:51
Alignment explanation
Indices: 886995--887114 Score: 195
Period size: 51 Copynumber: 2.4 Consensus size: 51
886985 GATTGAATAA
* * * *
886995 CGGGGTTGGAGTATCTCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAAC
887046 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAAC
*
887097 CGGGATTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
887115 TCAGAAATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAAC
Found at i:887134 original size:79 final size:77
Alignment explanation
Indices: 887046--887266 Score: 228
Period size: 79 Copynumber: 2.8 Consensus size: 77
887036 GAAATAAAAT
* *
887046 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAACCGGGATTGGAGTAT
1 CGGGATTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-GAAATAAAACCGGG-TTGGAGTAT
*
887111 CCCCTCAGAAATGA
64 CCCCTCAGAAATAA
** * * *
887125 CGGGATTGGAGTATCCCTAATTGTG-AAAATCTGGTGTTTTGGGAATAAAATCGGGGTTGAAGTA
1 CGGGATTGGAGTATCCCCGATTGTGAAAAAT-TGGTGTTTT-GAAATAAAA-CCGGGTTGGAGTA
*
887189 TCCCCTCGGAAATAA
63 TCCCCTCAGAAATAA
*** * * * *
887204 CCATATTGGAGTATTCTCGATTATGAAAAATTGATGTTTTGAAAATAAAACCAGGGTTGGAGT
1 CGGGATTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTG-AAATAAAACC-GGGTTGGAGT
887267 TTCTCTGAGA
Statistics
Matches: 115, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
78 7 0.06
79 99 0.86
80 9 0.08
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (77 bp):
CGGGATTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAATAAAACCGGGTTGGAGTATCC
CCTCAGAAATAA
Found at i:889585 original size:20 final size:19
Alignment explanation
Indices: 889560--889633 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
889550 AAAATGCCTG
*
889560 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
889580 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
* *
889600 AATGTATCAATACAATGCAG
1 AATGTATCGATACAATG-AA
889620 AATGTATCGATACA
1 AATGTATCGATACA
889634 TCTGGGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Done.