Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold382
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: 2572505
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 9 of 16
Found at i:1431128 original size:28 final size:28
Alignment explanation
Indices: 1431011--1431915 Score: 997
Period size: 28 Copynumber: 31.5 Consensus size: 28
1431001 TACTAACTTG
* * *
1431011 TGTGGGCTTTGAAAAAAGTTGCCACTAACT
1 TGTGGGCTTTG--AAAGGGTGCCACTGACT
* * *
1431041 CGTGTGGGCTTTGAAAAGAGTTACCACTGGCT
1 --TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
1431073 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1431102 TGTGGGCATTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1431130 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1431158 TGTGGGCTTTG-AAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1431185 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1431213 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
*
1431243 CGTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1431274 TGTGGGCATTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1431302 TGTGGGCTTTGAAAGGATGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1431330 TGTGGACTTTGAAAAGAGTTGCCA-TAGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACT-GACT
* *
1431360 CGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** *
1431388 CATGGGCTTTGAAAAGGGTGGCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1431417 CGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1431445 CGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1431473 CGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1431502 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1431530 TGCGTGGGCTTTAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
*
1431560 TGCGTGGGCTTTGAAAGGGTGCCATTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
*
1431590 TGTGGGCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1431618 GGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1431646 CGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
** *
1431675 TGTGGGCTTTGAAAAAAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
1431704 TGTGGGCTTTAAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1431732 TGTGGGCTTTGAAAAGAGTATGCCACTGACT
1 TGTGGGCTTTG-AAAG-G-GTGCCACTGACT
*
1431763 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** *
1431791 TGTGGGCTTTGAAAAAAGTACCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * *
1431820 TATGGGTTTTGAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1431848 TGTGTGCTTTGAAAGAGTGCCACAGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
1431876 TGTGGAC-TTAAAAGGATGTCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1431903 TGTGGACTTTGAA
1 TGTGGGCTTTGAA
1431916 GAGGTCACAG
Statistics
Matches: 760, Mismatches: 93, Indels: 44
0.85 0.10 0.05
Matches are distributed among these distances:
27 45 0.06
28 368 0.48
29 168 0.22
30 106 0.14
31 36 0.05
32 37 0.05
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1431367 original size:202 final size:202
Alignment explanation
Indices: 1431011--1431880 Score: 1113
Period size: 202 Copynumber: 4.3 Consensus size: 202
1431001 TACTAACTTG
* * * * *
1431011 TGTGGGCTTTGAAAAAAGTTGCCACTAACTCGTGTGGGCTTTGAAAAGAGTTACCACTGGCTTGT
1 TGTGGGCTTTG-AAAAGGGTGCCACTGACTC-TGTGGGCTTTGAAAAGAG-TGCCACTGACTTGT
* *
1431076 GGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCATTGAAAGGGTGCCACTGACTTGTGGGCTTTG
63 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * *
1431141 -AAAGGATGCCACTAACTTGTGGGCTTTG-AAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGT
128 AAAAGGTTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGGGT
1431203 GCCACTGACT
193 GCCACTGACT
* *
1431213 TGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
1 TGTGGGCTTTGAAAAG-GGTGCCACTGACTC-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
* * * * *
1431278 GGCATTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGTCACTGACTTGTGGACTTTGA
64 GGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGA
**
1431342 AAAGAGTTGCCA-TAGACTCGTGGGCTTTGAAAGGGTGCCACTAACTCATGGGCTTTGAAAAGGG
129 AAAG-GTTGCCACT-GACTCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGGG
*
1431406 TGGCACTGACT
192 TGCCACTGACT
* * *
1431417 CGTGGGCTTTG-AAAGGGTGCCACTGACTC-GTGGGCTTTG-AAAGGGTGCCACTGACTCGTGGG
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTCTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
*
1431479 CTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTT-A
66 CTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGA
* * *
1431543 AAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTG-AAAGGG
129 AAAGGTTGCCACTGAC-T-CGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGGG
*
1431607 TGTCACTGACT
192 TGCCACTGACT
* *
1431618 GGTGGGCTTT-AAAAGGGTGCCACTGACTC-GTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGG
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTCTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
* * * *
1431681 CTTTGAAAAAAGTGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAA
66 CTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
* ** *
1431746 AGAGTATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAAAGTA
131 AG-GT-TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGGGTG
1431811 CCACTGACT
194 CCACTGACT
* * * * *
1431820 TATGGGTTTTG-AAGGGGTGCCACTGACT-TGTGTGCTTTG-AAAGAGTGCCACAGACTTGTGG
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTCTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
1431881 ACTTAAAAGG
Statistics
Matches: 589, Mismatches: 59, Indels: 41
0.85 0.09 0.06
Matches are distributed among these distances:
199 25 0.04
200 120 0.20
201 149 0.25
202 232 0.39
203 37 0.06
204 26 0.04
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.28
Consensus pattern (202 bp):
TGTGGGCTTTGAAAAGGGTGCCACTGACTCTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
CTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
AGGTTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGGGTGCC
ACTGACT
Found at i:1431846 original size:230 final size:228
Alignment explanation
Indices: 1430997--1431915 Score: 1057
Period size: 230 Copynumber: 4.0 Consensus size: 228
1430987 AAAAAAAATG
* *
1430997 GTGCTACTAACTTGTGTGGGCTTTGAAAAA-AGTTGCCACTAACTCGTGTGGGCTTTGAAAAGAG
1 GTGCCACTAAC-TGTGTGGGCTTT-AAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAAG-G
* * * * * * *
1431061 TTACCACTGGCTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCATTGAAAGGGTGCCACT
60 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACT
* * *
1431126 GACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT-GAAGAGTGCCACTGACTTGTGG
124 GACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAAGAGTGCCACTGACTCGTGG
1431190 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
189 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
** * *
1431230 GTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCATTG-AAAGGGTGC
1 G-TGCCACTAACT-GTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGC
* * *
1431294 CACTGACTTGTGGGCTTTGAAAGGATGTCACTGACTTGTGGACTTTGAAAAGAGTTGCCA-TAGA
64 CACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAG-TGCCACT-GA
* ** * *
1431358 CTCGTGGGCTTTGAAAGGGTGCCACTAACTCATGGGCTTTGAAAAGGGTGGCACTGACTCGTGGG
126 CTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTT-AAAAGAGTGCCACTGACTCGTGGG
* *
1431423 CTTTGAAAGGGTGCCACTGACTCGTGGGCTTTG-AAAGG
190 CTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1431461 GTGCCACTGACT-CGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCA
1 GTGCCACTAACTGTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCA
* * *
1431524 CTGACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGGTGCCATTGAC
66 CTGACTT--GTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAGAGTGCCACTGAC
* * * *
1431589 TTGTGGGCTTTGAAAGGGTGTCACTGACTGGTGGGCTTTAAAAGGGTGCCACTGACTCGTGGGCT
127 TTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAAGAGTGCCACTGACTCGTGGGCT
* * *
1431654 TTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAAAA
192 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1431692 GTGCCACTAACT-TGTGGGCTTTAAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTATGC
1 GTGCCACTAACTGTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-G-GTGC
* * *
1431755 CACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAAAGTACCACTGACT
64 CACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACT
* * * * * * * * *
1431820 TATGGGTTTTGAAGGGGTGCCACTGACTTGTGTGCTTTGAAAGAGTGCCACAGACTTGTGGAC-T
128 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAAGAGTGCCACTGACTCGTGGGCTT
* * * * * *
1431884 TAAAAGGATGTCACGGAGTTGTGGACTTTGAA
193 TGAAAGGGTGCCACTGACTTGTGGGCTTTGAA
1431916 GAGGTCACAG
Statistics
Matches: 592, Mismatches: 74, Indels: 45
0.83 0.10 0.06
Matches are distributed among these distances:
228 100 0.17
229 67 0.11
230 236 0.40
231 80 0.14
232 61 0.10
233 28 0.05
234 20 0.03
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (228 bp):
GTGCCACTAACTGTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCA
CTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGT
GGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAAGAGTGCCACTGACTCGTGGGCTTTGA
AAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:1440314 original size:20 final size:20
Alignment explanation
Indices: 1440289--1440361 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
1440279 GTAAAAAGAT
1440289 AGAATGTATCAATACATTGA
1 AGAATGTATCAATACATTGA
* *
1440309 AGAATGTATCGATACATTCA
1 AGAATGTATCAATACATTGA
* * *
1440329 TA-CATGTATCGATATATTGA
1 -AGAATGTATCAATACATTGA
*
1440349 AAAATGTATCAAT
1 AGAATGTATCAAT
1440362 GCATCTAGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (20 bp):
AGAATGTATCAATACATTGA
Found at i:1447708 original size:19 final size:19
Alignment explanation
Indices: 1447675--1447786 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 19
1447665 TTCATACACA
* *
1447675 AAAAAAAAATAAAAAGAAAC
1 AAAAAAACAGAAAAA-AAAC
* *
1447695 AAGAAAACAGAAAAAAACC
1 AAAAAAACAGAAAAAAAAC
* *
1447714 AAAAAAATA-ATAAAAAAC
1 AAAAAAACAGAAAAAAAAC
1447732 AAAAAAAACAAGAAAACAAAA-
1 -AAAAAAAC-AGAAAA-AAAAC
*
1447753 AAAAAACCAAGAAAAAATAAC
1 AAAAAAAC-AGAAAAAA-AAC
1447774 AAAAAAACAGAAA
1 AAAAAAACAGAAA
1447787 GAGGTCCAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.09
19 19 0.26
20 34 0.46
21 10 0.14
22 4 0.05
ACGTcount: A:0.81, C:0.10, G:0.05, T:0.04
Consensus pattern (19 bp):
AAAAAAACAGAAAAAAAAC
Found at i:1447717 original size:9 final size:8
Alignment explanation
Indices: 1447674--1447782 Score: 55
Period size: 8 Copynumber: 13.0 Consensus size: 8
1447664 CTTCATACAC
1447674 AAAAAA-A
1 AAAAAACA
*
1447681 AAATAA-A
1 AAAAAACA
*
1447688 AAGAAACA
1 AAAAAACA
*
1447696 AGAAAACAGA
1 A-AAAA-ACA
1447706 AAAAAACCA
1 AAAAAA-CA
*
1447715 AAAAAATAA
1 AAAAAA-CA
1447724 TAAAAAACAA
1 -AAAAAAC-A
1447734 AAAAAACA
1 AAAAAACA
*
1447742 AGAAAACA
1 AAAAAACA
1447750 AAAAAA-A
1 AAAAAACA
1447757 AACCAAGAA-A
1 AA--AA-AACA
*
1447767 AAATAACA
1 AAAAAACA
1447775 AAAAAACA
1 AAAAAACA
1447783 GAAAGAGGTC
Statistics
Matches: 79, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
7 15 0.19
8 25 0.32
9 24 0.30
10 15 0.19
ACGTcount: A:0.82, C:0.10, G:0.05, T:0.04
Consensus pattern (8 bp):
AAAAAACA
Found at i:1447720 original size:37 final size:36
Alignment explanation
Indices: 1447676--1447756 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
1447666 TCATACACAA
* *
1447676 AAAAAAAATAA-AAAGAAACAAGAAAACAGAAAAAAAC
1 AAAAAAAATAATAAA-AAACAA-AAAAAACAAAAAAAC
* *
1447713 CAAAAAAATAATAAAAAACAAAAAAAACAAGAAAAC
1 AAAAAAAATAATAAAAAACAAAAAAAACAAAAAAAC
1447749 AAAAAAAA
1 AAAAAAAA
1447757 AACCAAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 19 0.50
37 16 0.42
38 3 0.08
ACGTcount: A:0.83, C:0.09, G:0.05, T:0.04
Consensus pattern (36 bp):
AAAAAAAATAATAAAAAACAAAAAAAACAAAAAAAC
Found at i:1447728 original size:40 final size:39
Alignment explanation
Indices: 1447672--1447786 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 39
1447662 TCCTTCATAC
1447672 ACAAAAAAAAAATAAAAAGA-AACAAGAAAACAGAAAA-AA
1 ACAAAAAAAAAATAAAAA-ACAACAA-AAAACAGAAAACAA
*
1447711 ACCAAAAAAATAATAAAAAACAA-AAAAAACAAGAAAACAA
1 A-CAAAAAAAAAATAAAAAACAACAAAAAAC-AGAAAACAA
* * *
1447751 A-AAAAAAACCAAGAAAAAATAACAAAAAAACAGAAA
1 ACAAAAAAA-AAATAAAAAACAAC-AAAAAACAGAAA
1447787 GAGGTCCAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
38 12 0.18
39 20 0.31
40 26 0.40
41 7 0.11
ACGTcount: A:0.81, C:0.10, G:0.05, T:0.03
Consensus pattern (39 bp):
ACAAAAAAAAAATAAAAAACAACAAAAAACAGAAAACAA
Found at i:1447742 original size:46 final size:50
Alignment explanation
Indices: 1447678--1447788 Score: 149
Period size: 47 Copynumber: 2.3 Consensus size: 50
1447668 ATACACAAAA
* * *
1447678 AAAAAATAAAAAGAAACAAGAAAAC-AGAAAAAAACC-A-AAAAAATAAT
1 AAAAAACAAAAAGAAACAAGAAAACAAAAAAAAAACCAAGAAAAAATAAC
1447725 AAAAAACAAAAA-AAACAAGAAAACAAAAAAAAAACCAAGAAAAAATAAC
1 AAAAAACAAAAAGAAACAAGAAAACAAAAAAAAAACCAAGAAAAAATAAC
*
1447774 AAAAAAACAGAAAGA
1 -AAAAAACAAAAAGA
1447789 GGTCCAGATG
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
46 12 0.22
47 21 0.38
48 1 0.02
49 9 0.16
50 11 0.20
51 1 0.02
ACGTcount: A:0.80, C:0.10, G:0.06, T:0.04
Consensus pattern (50 bp):
AAAAAACAAAAAGAAACAAGAAAACAAAAAAAAAACCAAGAAAAAATAAC
Found at i:1447769 original size:17 final size:18
Alignment explanation
Indices: 1447674--1447779 Score: 81
Period size: 19 Copynumber: 5.6 Consensus size: 18
1447664 CTTCATACAC
*
1447674 AAAAAAAAAATAA-AAAGA
1 AAAAAAAAAACAAGAAA-A
* *
1447692 AACAAGAAAAC-AGAAAA
1 AAAAAAAAAACAAGAAAA
* *
1447709 AAACCAAAAAAATAATAAAA
1 AAA--AAAAAAACAAGAAAA
1447729 AACAAAAAAAACAAGAAAA
1 AA-AAAAAAAACAAGAAAA
1447748 CAAAAAAAAAACCAAGAAAA
1 -AAAAAAAAAA-CAAGAAAA
1447768 AATAACAAAAAA
1 AA-AA-AAAAAA
1447780 ACAGAAAGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
17 4 0.06
18 11 0.16
19 29 0.41
20 19 0.27
21 7 0.10
ACGTcount: A:0.82, C:0.09, G:0.05, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAACAAGAAAA
Found at i:1448807 original size:19 final size:19
Alignment explanation
Indices: 1448783--1448822 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
1448773 TAGAATTCCA
1448783 CATCATACATTCA-TAATAT
1 CATCATACA-TCATTAATAT
1448802 CATCATACATCATTAATAT
1 CATCATACATCATTAATAT
1448821 CA
1 CA
1448823 CTTCAGACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (19 bp):
CATCATACATCATTAATAT
Found at i:1451859 original size:13 final size:13
Alignment explanation
Indices: 1451841--1451865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1451831 CAAAGATTAG
1451841 TGTATCGATACAA
1 TGTATCGATACAA
1451854 TGTATCGATACA
1 TGTATCGATACA
1451866 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:1451942 original size:19 final size:19
Alignment explanation
Indices: 1451914--1451969 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
1451904 TCGTAGTGAT
1451914 ACAT-TGTATCGATACAAA
1 ACATATGTATCGATACAAA
*
1451932 ACATATGTATCGATACAAC
1 ACATATGTATCGATACAAA
*
1451951 ACTTATGTATCGATACAAA
1 ACATATGTATCGATACAAA
1451970 TAGTTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 4 0.12
19 30 0.88
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.29
Consensus pattern (19 bp):
ACATATGTATCGATACAAA
Found at i:1452929 original size:102 final size:102
Alignment explanation
Indices: 1452811--1453638 Score: 1001
Period size: 102 Copynumber: 8.5 Consensus size: 102
1452801 CTTAGGAATG
* *
1452811 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAAATGACAAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG
**
1452876 GCACCAATATGCTGATTCAAGGCCAGCGATATTGGAC
66 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
1452913 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAAAAAA
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG
1452978 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
66 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
1453015 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGGCATTGGGCTTAAAAGATGACAAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG
* *
1453080 GCGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC
66 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
1453117 TTAGAGATGAAGGTGCCACTGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGACAAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG
*
1453182 GCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
66 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
1453219 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--AA-A-GACAAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG
* *
1453274 GTGCCAATATGCTGATTCAAGGTCAGCAATATTGGAC
66 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1453311 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGAT---AAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG
*
1453366 GTGCCAATATGCTGATTCAAGGACAGCGATATTGGAC
66 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1453403 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATG---AAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG
* * * *
1453458 GTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGGC
66 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * *
1453495 TTAAAAGATGACAAAGGCGCCAATATACTGATTCAAGGCCAGCTATATTGGAC-T------T---
1 TT-AAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAC
* * * *
1453550 AAAGGTGCCAATGTGCTGATTCAAGGCCACCTACATTGGAC
62 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
1453591 TT-AA-A-G-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
1453639 GGTACCAATG
Statistics
Matches: 663, Mismatches: 44, Indels: 50
0.88 0.06 0.07
Matches are distributed among these distances:
86 32 0.05
87 1 0.00
88 1 0.00
92 213 0.32
93 4 0.01
94 5 0.01
96 79 0.12
97 1 0.00
98 1 0.00
101 1 0.00
102 325 0.49
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (102 bp):
TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:1452951 original size:49 final size:49
Alignment explanation
Indices: 1452811--1453692 Score: 909
Period size: 49 Copynumber: 18.3 Consensus size: 49
1452801 CTTAGGAATG
*
1452811 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* ** * *
1452860 TTAAAAAATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1452913 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1452962 TTAAAAGATGAAAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1453015 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGGCATTGGGC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
1453064 TTAAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1453117 TTAGAGATGAAGGTGCCACTGTGCTGATTCAAGGCCAGCGACATTGGGC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1453166 TTAAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
*
1453219 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
** * * * *
1453262 TTAAAGACAAAGGTGCCAATATGCTGATTCAAGGTCAGCAATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1453311 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
1453354 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGACAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1453403 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* *
1453446 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGGC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * * * *
1453495 TTAAAAGATGACAAAGGCGCCAATATACTGATTCAAGGCCAGCTATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* *
1453548 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCACCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
*
1453591 TT-AA-A-G-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1453634 TT----A--AAGGTACCAATGTGCTGATTCGAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
*
1453677 TTAAAGATAAAGGTGC
1 TTAAAGATGAAGGTGC
1453693 TGTTAGGATC
Statistics
Matches: 710, Mismatches: 73, Indels: 100
0.80 0.08 0.11
Matches are distributed among these distances:
41 2 0.00
43 225 0.32
45 4 0.01
47 4 0.01
48 2 0.00
49 236 0.33
50 33 0.05
52 19 0.03
53 185 0.26
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.23
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:1453239 original size:43 final size:43
Alignment explanation
Indices: 1453178--1453682 Score: 533
Period size: 43 Copynumber: 11.1 Consensus size: 43
1453168 AAAAGATGAC
* * *
1453178 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
*
1453221 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * * *
1453264 AAAGACAAAGGTGCCAATATGCTGATTCAAGGTCAGCAATATTGGACTT
1 ------AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
1453313 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC-T-----T
* * *
1453362 AAAGGTGCCAATATGCTGATTCAAGGACAGCGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
1453405 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* *
1453448 AAAGATGAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGGCTTAAAAGAT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC-T------T
* * * * *
1453504 GACAAAGGCGCCAATATACTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* *
1453550 AAAGGTGCCAATGTGCTGATTCAAGGCCACCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* *
1453593 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
1453636 AAAGGTACCAATGTGCTGATTCGAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
1453679 AAAG
1 AAAG
1453683 ATAAAGGTGC
Statistics
Matches: 397, Mismatches: 40, Indels: 50
0.82 0.08 0.10
Matches are distributed among these distances:
43 240 0.60
44 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 115 0.29
50 1 0.00
52 1 0.00
53 33 0.08
55 2 0.01
56 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
Found at i:1453338 original size:21 final size:21
Alignment explanation
Indices: 1453271--1453338 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
1453261 CTTAAAGACA
1453271 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
*
1453292 AAGGT-CAGCAATAT--TGGACTTA
1 AAGGTGC--CAATATGCT-GA-TTC
*
1453314 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATATGCTGATTC
1453335 AAGG
1 AAGG
1453339 CCAGCGACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
20 2 0.05
21 18 0.49
22 15 0.41
23 2 0.05
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:1454093 original size:13 final size:13
Alignment explanation
Indices: 1454075--1454100 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1454065 TACAGCAAGT
1454075 ATGTATCGATACA
1 ATGTATCGATACA
1454088 ATGTATCGATACA
1 ATGTATCGATACA
1454101 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1456351 original size:21 final size:21
Alignment explanation
Indices: 1456318--1456362 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1456308 TTGCGAGTTG
*
1456318 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1456340 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1456360 AAA
1 AAA
1456363 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1458185 original size:15 final size:15
Alignment explanation
Indices: 1458165--1458195 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1458155 TAAAAATGTC
*
1458165 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1458180 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1458195 C
1 C
1458196 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1460288 original size:20 final size:20
Alignment explanation
Indices: 1460209--1460288 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
1460199 AATGTCCAAA
*
1460209 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
1460229 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
1460254 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
1460274 TTGTATCGATACATT
1 ATGTATCGATACATT
1460289 GTATCGATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:1460292 original size:13 final size:13
Alignment explanation
Indices: 1460274--1460312 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1460264 ACATTTTTCT
1460274 TTGTATCGATACA
1 TTGTATCGATACA
*
1460287 TTGTATCGATAAA
1 TTGTATCGATACA
*
1460300 CTGTATCGATACA
1 TTGTATCGATACA
1460313 GGGTGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1460457 original size:21 final size:21
Alignment explanation
Indices: 1460433--1460479 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1460423 AAATCTTTTG
1460433 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
1460454 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
1460474 CAAAAT
1 CAAAAT
1460480 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:1460476 original size:20 final size:19
Alignment explanation
Indices: 1460435--1460477 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1460425 ATCTTTTGCA
1460435 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
1460455 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
1460475 AAA
1 AAA
1460478 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:1462871 original size:13 final size:13
Alignment explanation
Indices: 1462853--1462878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1462843 TACAGCAAGT
1462853 ATGTATCGATACA
1 ATGTATCGATACA
1462866 ATGTATCGATACA
1 ATGTATCGATACA
1462879 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1463715 original size:33 final size:32
Alignment explanation
Indices: 1463664--1463748 Score: 122
Period size: 33 Copynumber: 2.7 Consensus size: 32
1463654 GCAGCGATAT
1463664 TGGGC-TTAGA-AGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCAACTTGTG
*
1463694 TGGGCTTTAGAGAGTGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAG-GGTTGCCACCAACTTGTG
*
1463727 TGGGCTTTAGAG-GGGGTGCCAC
1 TGGGCTTTAGAGAGGGTTGCCAC
1463749 GGAGTTGTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
30 5 0.10
31 13 0.26
32 3 0.06
33 29 0.58
ACGTcount: A:0.16, C:0.19, G:0.38, T:0.27
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCAACTTGTG
Found at i:1463781 original size:35 final size:35
Alignment explanation
Indices: 1463742--1463964 Score: 232
Period size: 35 Copynumber: 6.6 Consensus size: 35
1463732 TTTAGAGGGG
1463742 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
*
1463777 GTGCCACGGAGTTGAGGACTTTAAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
* *
1463812 GTGCCACGGAGTGGTGGGCTTTAAAAAGAAAAATG-
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAA-GA
* * * *
1463847 GTGCCACGGAATTATGGGCTTTGAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
* * *
1463882 -TGCCACGAAGTTGTGGGCTTT--GAAG-AAAAGA
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
* * *
1463913 -TGCCACTGAGTCGTGGACTTTGAAAAG----AGA
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
* *
1463943 TTGCCACTGAGTTGTGGACTTT
1 GTGCCACGGAGTTGTGGACTTT
1463965 GGAGAAAAAA
Statistics
Matches: 165, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
30 3 0.02
31 43 0.26
32 3 0.02
33 3 0.02
34 19 0.12
35 93 0.56
36 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (35 bp):
GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
Found at i:1463914 original size:31 final size:33
Alignment explanation
Indices: 1463742--1463996 Score: 193
Period size: 35 Copynumber: 7.7 Consensus size: 33
1463732 TTTAGAGGGG
*
1463742 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTT--GAAGAAAAAGA
* *
1463777 GTGCCACGGAGTTGAGGACTTTAAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTT--GAAGAAAAAGA
* * *
1463812 GTGCCACGGAGTGGTGGGCTTTAAAAAGAAAAATG-
1 GTGCCACGGAGTTGTGGACTTT--GAAGAAAAA-GA
* * *
1463847 GTGCCACGGAATTATGGGCTTTGAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTG--AAGAAAAAGA
* *
1463882 -TGCCACGAAGTTGTGGGCTTTGAAG-AAAAGA
1 GTGCCACGGAGTTGTGGACTTTGAAGAAAAAGA
* * *
1463913 -TGCCACTGAGTCGTGGACTTTG-A-AAAGAGA
1 GTGCCACGGAGTTGTGGACTTTGAAGAAAAAGA
* * *
1463943 TTGCCACTGAGTTGTGGACTTTGGAGAAAAA-A
1 GTGCCACGGAGTTGTGGACTTTGAAGAAAAAGA
* * *
1463975 -AGCCACTGAGTCGTGGACTTTG
1 GTGCCACGGAGTTGTGGACTTTG
1463997 GGACAAAATG
Statistics
Matches: 192, Mismatches: 20, Indels: 20
0.83 0.09 0.09
Matches are distributed among these distances:
30 6 0.03
31 65 0.34
32 5 0.03
33 4 0.02
34 20 0.10
35 91 0.47
36 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (33 bp):
GTGCCACGGAGTTGTGGACTTTGAAGAAAAAGA
Found at i:1463997 original size:31 final size:31
Alignment explanation
Indices: 1463873--1464025 Score: 161
Period size: 31 Copynumber: 4.9 Consensus size: 31
1463863 GGCTTTGAAA
* * *
1463873 AGAAAAAGATGCCAC-GAAGTTGTGGGCTTTGA
1 AGAAAAA-ATGCCACTG-AGTCGTGGACTTTGG
*
1463905 AGAAAAGATGCCACTGAGTCGTGGACTTT-G
1 AGAAAAAATGCCACTGAGTCGTGGACTTTGG
* *
1463935 A-AAAGAGATTGCCACTGAGTTGTGGACTTTGG
1 AGAAA-A-AATGCCACTGAGTCGTGGACTTTGG
*
1463967 AGAAAAAAAGCCACTGAGTCGTGGACTTTGG
1 AGAAAAAATGCCACTGAGTCGTGGACTTTGG
* *
1463998 -GACAAAATGCCACTGAGTCATGGACTTT
1 AGAAAAAATGCCACTGAGTCGTGGACTTT
1464026 AAGAAGGTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
29 3 0.03
30 27 0.26
31 60 0.58
32 10 0.10
33 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (31 bp):
AGAAAAAATGCCACTGAGTCGTGGACTTTGG
Found at i:1465354 original size:14 final size:12
Alignment explanation
Indices: 1465309--1465348 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
1465299 TTTACACTCC
1465309 TTTTTTTTGTGTG
1 TTTTTTTT-TGTG
1465322 TTTTTTTTTGT-
1 TTTTTTTTTGTG
1465333 TTTGTTTTTTGTG
1 TTT-TTTTTTGTG
1465346 TTT
1 TTT
1465349 ACTTTTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 11 0.44
13 11 0.44
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:1472361 original size:52 final size:52
Alignment explanation
Indices: 1472213--1472341 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1472203 CGAAATATGA
*
1472213 AAATTTGCCTGCATGTATCGATACATTTCATAGCGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
** *
1472265 AAATTCACCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1472317 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1472342 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1472368 original size:13 final size:13
Alignment explanation
Indices: 1472350--1472374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1472340 CAAAGATCAG
1472350 TGTATCGATACAA
1 TGTATCGATACAA
1472363 TGTATCGATACA
1 TGTATCGATACA
1472375 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:1472464 original size:13 final size:13
Alignment explanation
Indices: 1472446--1472470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1472436 ACAAAACTTA
1472446 TGTATCGATACAT
1 TGTATCGATACAT
1472459 TGTATCGATACA
1 TGTATCGATACA
1472471 AATCGTTGAA
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:1475001 original size:28 final size:28
Alignment explanation
Indices: 1474969--1475039 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
1474959 CTACCTAAGA
* * *
1474969 AAAAATTTAAAAAGTTTTAAAAAAAATT
1 AAAAATTTAAAAAATTATAAAAAAAACT
**
1474997 AAAAAACTAAAAAATTATAAAAAAAACT
1 AAAAATTTAAAAAATTATAAAAAAAACT
1475025 AAAAATTTGAAAAAA
1 AAAAATTT-AAAAAA
1475040 AAATGAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (28 bp):
AAAAATTTAAAAAATTATAAAAAAAACT
Found at i:1475042 original size:20 final size:20
Alignment explanation
Indices: 1474997--1475041 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
1474987 AAAAAAAATT
1474997 AAAAAACTAAAAAATTATAA
1 AAAAAACTAAAAAATTATAA
1475017 AAAAAACT-AAAAATT-TGAA
1 AAAAAACTAAAAAATTAT-AA
1475036 AAAAAA
1 AAAAAA
1475042 ATGAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.04
19 15 0.62
20 8 0.33
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAAACTAAAAAATTATAA
Found at i:1475048 original size:20 final size:19
Alignment explanation
Indices: 1475006--1475049 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1474996 TAAAAAACTA
*
1475006 AAAAATTATAAAAAAAACT
1 AAAAATTATAAAAAAAAAT
1475025 AAAAATT-TGAAAAAAAAAT
1 AAAAATTAT-AAAAAAAAAT
1475044 GAAAAA
1 -AAAAA
1475050 AAAAAACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 16 0.73
20 5 0.23
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAAATTATAAAAAAAAAT
Found at i:1475649 original size:29 final size:30
Alignment explanation
Indices: 1475604--1475668 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
1475594 TTTACGTAAC
* *
1475604 TTATTTTCTTACAATTTATATATATATAAT
1 TTATTTTCTTACAATTTAAATATATACAAT
* *
1475634 TTATTTT-TTATAATTTAAATTTATACAAT
1 TTATTTTCTTACAATTTAAATATATACAAT
1475663 TTATTT
1 TTATTT
1475669 CCTTCTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (30 bp):
TTATTTTCTTACAATTTAAATATATACAAT
Found at i:1475663 original size:44 final size:45
Alignment explanation
Indices: 1475613--1475702 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 45
1475603 CTTATTTTCT
*
1475613 TACAATTTATAT-ATATATAATTTATTTT-TTATAATTTAAATTTA
1 TACAATTTATATCAT-TATAATTTATTTTCTTACAATTTAAATTTA
* * *
1475657 TACAATTTATTTCCTTCTAATTTATTTTCTTACAATTTAAATTTA
1 TACAATTTATATCATTATAATTTATTTTCTTACAATTTAAATTTA
1475702 T
1 T
1475703 GCATACTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 23 0.57
45 17 0.43
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (45 bp):
TACAATTTATATCATTATAATTTATTTTCTTACAATTTAAATTTA
Found at i:1475693 original size:15 final size:14
Alignment explanation
Indices: 1475604--1475695 Score: 60
Period size: 15 Copynumber: 6.2 Consensus size: 14
1475594 TTTACGTAAC
1475604 TTATTTTCTTACAAT
1 TTATTTT-TTACAAT
* * *
1475619 TTATATATATATAAT
1 TTAT-TTTTTACAAT
*
1475634 TTATTTTTTATAAT
1 TTATTTTTTACAAT
* *
1475648 TTAAATTTATACAAT
1 TT-ATTTTTTACAAT
*
1475663 TTATTTCCTT-CTAAT
1 TTATTT-TTTAC-AAT
1475678 TTATTTTCTTACAAT
1 TTATTTT-TTACAAT
1475693 TTA
1 TTA
1475696 AATTTATGCA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
14 14 0.24
15 42 0.71
16 3 0.05
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTTTTACAAT
Found at i:1478168 original size:83 final size:83
Alignment explanation
Indices: 1478033--1478433 Score: 485
Period size: 83 Copynumber: 4.8 Consensus size: 83
1478023 TTAAACTGTA
* * *
1478033 TTCCAAAACACAACCCT-TAATC-AA-AAGCTACGTTCTAGACAAGTCAAAAACCAACATACTCT
1 TTCCAAAACACAA--CTATAATCAAACAAGCTACTTTCTAGACATGTCAACAACCAACATACTCT
1478095 -AACCCAAAATTTTAACCAT
64 AAACCCAAAATTTTAACCAT
* * * *
1478114 TTCCAAACACACAACTAGAATCAAACAAGCTACTTTCTAGACATGTGAACAACCAACATACACAA
1 TTCCAAA-ACACAACTATAATCAAACAAGCTACTTTCTAGACATGTCAACAACCAACATACTCTA
*
1478179 AACCCAAAATTTTAAACA-
65 AACCCAAAATTTTAACCAT
* * * * *
1478197 TTCGC-AAACAGAACACATAATCAAACGAGCTACTTTCTAGACATGTCAACAACCATCATCCTCT
1 TTC-CAAAACACAAC-TATAATCAAACAAGCTACTTTCTAGACATGTCAACAACCAACATACTCT
1478261 AAACCCAAAATTTTAACCAT
64 AAACCCAAAATTTTAACCAT
* * *
1478281 TTCCCAAAA-ACAACCTCTAATCAAACAATCTAC-TTCTAGACATGTCAACAACCAACATACCCT
1 TT-CCAAAACACAA-CTATAATCAAACAAGCTACTTTCTAGACATGTCAACAACCAACATACTCT
1478344 AAACCCAAAATTTTAACCAT
64 AAACCCAAAATTTTAACCAT
* * * * * *
1478364 TTCCAAAGCACAACCATAATCGAACAAGCTACTTTCCAGACAAGTCAACAACCAAAATACTCTAA
1 TTCCAAAACACAACTATAATCAAACAAGCTACTTTCTAGACATGTCAACAACCAACATACTCTAA
1478429 ACCCA
66 ACCCA
1478434 TGTTACTCAG
Statistics
Matches: 272, Mismatches: 35, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
80 2 0.01
81 11 0.04
82 34 0.12
83 182 0.67
84 38 0.14
85 5 0.02
ACGTcount: A:0.44, C:0.29, G:0.05, T:0.21
Consensus pattern (83 bp):
TTCCAAAACACAACTATAATCAAACAAGCTACTTTCTAGACATGTCAACAACCAACATACTCTAA
ACCCAAAATTTTAACCAT
Found at i:1480292 original size:2 final size:2
Alignment explanation
Indices: 1480245--1480283 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1480235 AAACAATTTC
1480245 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1480284 CACATATATG
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:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1481572 original size:111 final size:111
Alignment explanation
Indices: 1481378--1481582 Score: 297
Period size: 111 Copynumber: 1.8 Consensus size: 111
1481368 CAAAGTGCAT
* *
1481378 TCAAAATTATTAGGATCTTAGTTTTAATATAACAAAGTATGAATAAAATCAAAAAATGATTTGAA
1 TCAAAATTATTAGGATCTTAGTTTTAATATAACAAAATATGAATAAAACCAAAAAATGATTTGAA
* *
1481443 AAACCATAATAAGTTTTATTCACTTAAAATCACTCTTAAACCTTGC
66 AAACCATAACAAGTTTTATTCACTCAAAATCACTCTTAAACCTTGC
* * * *
1481489 TCAAAATTGTTAGGATCTTGGTTTTGATATAACAAAA-ATTGAATAAAACCGAAAAATG-TTTGA
1 TCAAAATTATTAGGATCTTAGTTTTAATATAACAAAATA-TGAATAAAACCAAAAAATGATTTGA
*
1481552 AAAACCGTAAACAAGTTTTATTCACTCAAAA
65 AAAACCAT-AACAAGTTTTATTCACTCAAAA
1481583 ACTCTCTAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
110 13 0.16
111 70 0.84
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (111 bp):
TCAAAATTATTAGGATCTTAGTTTTAATATAACAAAATATGAATAAAACCAAAAAATGATTTGAA
AAACCATAACAAGTTTTATTCACTCAAAATCACTCTTAAACCTTGC
Found at i:1481839 original size:32 final size:33
Alignment explanation
Indices: 1481803--1481880 Score: 117
Period size: 32 Copynumber: 2.4 Consensus size: 33
1481793 ACATTATGCT
*
1481803 TTGTATCGATACATTGTATCGATGCAT-G-CTCA
1 TTGTATCGATACATTGTATCGATACATGGACT-A
1481835 TTGTATCGATAC-TTGTATCGATACATGGACTA
1 TTGTATCGATACATTGTATCGATACATGGACTA
1481867 TTGTATCGATACAT
1 TTGTATCGATACAT
1481881 GAGATTGGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
31 13 0.31
32 26 0.62
33 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATTGTATCGATACATGGACTA
Found at i:1485464 original size:52 final size:51
Alignment explanation
Indices: 1485386--1485513 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 51
1485376 CCCGAAATAT
* *
1485386 GAAAAGTTGCTTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGG
1 GAAAA-TTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGG
1485438 GAAAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
1 GAAAA-TTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
*
1485490 GCAAATTGCCTGCATGTATCGATA
1 GAAAATTGCCTGCATGTATCGATA
1485514 TAAAGATCAG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.27
52 47 0.66
53 5 0.07
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (51 bp):
GAAAATTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
Found at i:1485528 original size:51 final size:52
Alignment explanation
Indices: 1485386--1485535 Score: 153
Period size: 52 Copynumber: 2.9 Consensus size: 52
1485376 CCCGAAATAT
* * * **
1485386 GAAAAGTTGCTTGCATGTATCGAT-ACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATAAAAGATAA-AGTGTATCGATACATCTGG
* *** *
1485438 GAAAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATAAAAGATAAAGTGTATCGATACATCTGG
* *
1485490 GCAAA-TTGCCTGCATGTATCGATATAAAGAT-CAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATA-AAAGATAAAGTGTATCGATACA
1485536 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
51 32 0.39
52 46 0.55
53 5 0.06
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATAAAAGATAAAGTGTATCGATACATCTGG
Found at i:1485542 original size:13 final size:13
Alignment explanation
Indices: 1485524--1485548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1485514 TAAAGATCAG
1485524 TGTATCGATACAA
1 TGTATCGATACAA
1485537 TGTATCGATACA
1 TGTATCGATACA
1485549 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:1485626 original size:33 final size:33
Alignment explanation
Indices: 1485589--1485655 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1485579 AGTAGCTTAA
1485589 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1485622 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1485655 A
1 A
1485656 AATCGTTGAA
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:1485629 original size:13 final size:13
Alignment explanation
Indices: 1485611--1485635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1485601 CAAAAAAATA
1485611 TGTATCGATACAT
1 TGTATCGATACAT
1485624 TGTATCGATACA
1 TGTATCGATACA
1485636 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:1488586 original size:79 final size:78
Alignment explanation
Indices: 1488435--1488653 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 78
1488425 AACGGGGCTA
* *
1488435 GAGTATCCCTGATTAT-GAAAAATTGGTGTTCTAGAAATAAAAATCGGGGTTGGAGTATCCCTTT
1 GAGTATCCCTGATTATAG-AAAATTGGTGTT-TTGAAAT-AAAATCGGGGTTGGAGTATCCCTTC
1488499 GAAAATAACAGGGTTG
63 GAAAATAACAGGGTTG
* * * *
1488515 GAGTATCCCTGATTATAGAAAATCGATATTTTGAAACTAAAATCGGGGTTAGAGTATCTCC-TCG
1 GAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAA-TAAAATCGGGGTTGGAGTATC-CCTTCG
*
1488579 GAAATAACAGGGTTG
64 AAAATAACAGGGTTG
* *
1488594 GAGTATCCCTGATTATAAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCC
1 GAGTATCCCTGATTATAGAAAATTGGTGTTTTG-AAATAAAATCGGGGTTGGAGTATCCC
1488654 CGATTATGAA
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 88 0.72
80 31 0.25
81 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.30
Consensus pattern (78 bp):
GAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAATAAAATCGGGGTTGGAGTATCCCTTCGAA
AATAACAGGGTTG
Found at i:1488653 original size:51 final size:51
Alignment explanation
Indices: 1488586--1488705 Score: 172
Period size: 51 Copynumber: 2.4 Consensus size: 51
1488576 TCGGAAATAA
* *
1488586 CAGGGTTGGAGTATCCCTGATTATAAAAAATTGGTGTTTT-GAAAATAAAAT
1 CAGGGTTGGAGTATCCCCGATTATAAAAAATTGGTATTTTAG-AAATAAAAT
* *
1488637 C-GGAGTTGGAGTATCCCCGATTATGAAAATTTGGTATTTTAGAAATAAAAT
1 CAGG-GTTGGAGTATCCCCGATTATAAAAAATTGGTATTTTAGAAATAAAAT
1488688 CAGGGTTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
1488706 TCGGAAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
50 2 0.03
51 57 0.92
52 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCGATTATAAAAAATTGGTATTTTAGAAATAAAAT
Found at i:1488675 original size:130 final size:127
Alignment explanation
Indices: 1488496--1488732 Score: 334
Period size: 130 Copynumber: 1.8 Consensus size: 127
1488486 GGAGTATCCC
* * *
1488496 TTTGAAAATAACAGGGTTGGAGTATCCCTGATTATAGAAAATCGATATTTT-GAAACTAAAATCG
1 TTTGAAAATAAAAGGGTTGGAGTATCCCCGATTATAGAAAATCGATATTTTAGAAA-TAAAATCA
* * *
1488560 GGGTTAGAGTATCTCCTCGGAAATAACAGGGTTGGAGTATCCCTGATTATAAAAAATTGGTGT
65 GGGTTAGAGTATCCCCTCGGAAATAACAAGGTTGCAGTATCCCTGATTATAAAAAATTGGTGT
* *
1488623 TTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAT-GAAAATTTGGTATTTTAGAAATAAAA
1 TTTGAAAATAAAA--GG-GTTGGAGTATCCCCGATTATAGAAAA-TCGATATTTTAGAAATAAAA
*
1488687 TCAGGGTTGGAGTATCCCCTCGGAAATAACAAGGTTGCAGTATCCC
62 TCAGGGTTAGAGTATCCCCTCGGAAATAACAAGGTTGCAGTATCCC
1488733 CGATAACATA
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
127 12 0.12
129 7 0.07
130 73 0.76
131 4 0.04
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (127 bp):
TTTGAAAATAAAAGGGTTGGAGTATCCCCGATTATAGAAAATCGATATTTTAGAAATAAAATCAG
GGTTAGAGTATCCCCTCGGAAATAACAAGGTTGCAGTATCCCTGATTATAAAAAATTGGTGT
Found at i:1488768 original size:107 final size:107
Alignment explanation
Indices: 1488641--1488840 Score: 301
Period size: 107 Copynumber: 1.9 Consensus size: 107
1488631 TAAAATCGGA
* * *** *
1488641 GTTGGAGTATCCCCGATTATGAAAATTTGGTATTTTAGAAATAAAATCAGGGTTGGAGTATCCCC
1 GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
*
1488706 TCGGAAATAACAAGGTTGCAGTATCCCCGATAACATAACTGG
66 TCGAAAATAACAAGGTTGCAGTATCCCCGATAACATAACTGG
*
1488748 GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGATATAAAACCAGGGTTGGAGTATCCCC
1 GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
** *
1488813 TCGAAAATAACGGGGTTGGAGTATCCCC
66 TCGAAAATAACAAGGTTGCAGTATCCCC
1488841 AATTATGAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
107 82 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (107 bp):
GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
TCGAAAATAACAAGGTTGCAGTATCCCCGATAACATAACTGG
Found at i:1488871 original size:79 final size:79
Alignment explanation
Indices: 1488719--1488891 Score: 199
Period size: 79 Copynumber: 2.2 Consensus size: 79
1488709 GAAATAACAA
* * *
1488719 GGTTGCAGTAT-CCCCGATAACATAACTGGGTTGGAGTACCCCCGATTATGAAAAATCAATATTT
1 GGTTGGAGTATCCCCCGATAACATAACGGGGTTGGAGTACCCCCAATTATGAAAAATCAATATTT
*
1488783 TAGATATAAAACCAG
66 TAGAAATAAAACC-G
* *** *
1488798 GGTTGGAGTATCCCCTCGA-AA-ATAACGGGGTTGGAGTATCCCCAATTATGAAAAATTGGTGTT
1 GGTTGGAGTATCCCC-CGATAACATAACGGGGTTGGAGTACCCCCAATTATGAAAAATCAATATT
* *
1488861 TTGGAAATAAAATCG
65 TTAGAAATAAAACCG
1488876 GAGTTGGAGTATCCCC
1 G-GTTGGAGTATCCCC
1488892 GATTAAGAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
78 2 0.03
79 70 0.88
80 5 0.06
81 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (79 bp):
GGTTGGAGTATCCCCCGATAACATAACGGGGTTGGAGTACCCCCAATTATGAAAAATCAATATTT
TAGAAATAAAACCG
Found at i:1488918 original size:50 final size:50
Alignment explanation
Indices: 1488825--1488943 Score: 159
Period size: 50 Copynumber: 2.4 Consensus size: 50
1488815 GAAAATAACG
* * * *
1488825 GGGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTGGAAATAAAATC
1 GGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACC
**
1488875 GGAGTTGGAGTATCCCCGATTAAG-AAAATTGATGTTTTGGAAATGGAACC
1 GG-GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACC
1488925 GGGATTGGAGTATCCCCGA
1 GGG-TTGGAGTATCCCCGA
1488944 GATGAAAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
49 1 0.02
50 41 0.67
51 19 0.31
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACC
Found at i:1491544 original size:41 final size:41
Alignment explanation
Indices: 1491485--1491591 Score: 160
Period size: 42 Copynumber: 2.6 Consensus size: 41
1491475 AAATAGGCTT
*
1491485 TACTTCTTGAGGACAAAGGAAAAAAGAAAAGGAAAATGTCC
1 TACTTCTTGAGGACAAAGGAAAAAAGAAAAGGAAAATGTCA
* * *
1491526 TGCTTCTTGAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCA
1 TACTTCTTGAGGACAAAGGAA-AAAAGAAAAGGAAAATGTCA
1491568 TACTTCTTGAGGACAAAGTGAAAA
1 TACTTCTTGAGGACAAAG-GAAAA
1491592 GAAGTACATC
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 20 0.34
42 35 0.60
43 3 0.05
ACGTcount: A:0.45, C:0.11, G:0.25, T:0.19
Consensus pattern (41 bp):
TACTTCTTGAGGACAAAGGAAAAAAGAAAAGGAAAATGTCA
Found at i:1491687 original size:42 final size:43
Alignment explanation
Indices: 1491582--1491701 Score: 111
Period size: 43 Copynumber: 2.8 Consensus size: 43
1491572 TCTTGAGGAC
* * * * *
1491582 AAAGTGAAAAGAAGTACATCCTGC-CTTTGGAGGACAAAGGAAA
1 AAAGGGAAAAGAAATACGTCCTACTCTTT-GAGGACAAAAGAAA
*
1491625 AAAGGGAAACGAAATACGTCCTACTCTTTGAGGACAAAAG-AA
1 AAAGGGAAAAGAAATACGTCCTACTCTTTGAGGACAAAAGAAA
* * * *
1491667 AAA-GGAAAATAAAGTGCGTCCTGCTTTTTGAGGAC
1 AAAGGGAAAAGAAA-TACGTCCTACTCTTTGAGGAC
1491702 TGAAAAGTGC
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 8 0.12
42 23 0.36
43 29 0.45
44 4 0.06
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (43 bp):
AAAGGGAAAAGAAATACGTCCTACTCTTTGAGGACAAAAGAAA
Found at i:1491927 original size:61 final size:60
Alignment explanation
Indices: 1491825--1492084 Score: 222
Period size: 61 Copynumber: 4.5 Consensus size: 60
1491815 ACAAAAAGGC
* * * * *
1491825 AAAAGGAGAGAGCATCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAG-GCGTCCTGCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * **
1491886 AAAAGGAGAAGGTGTCCTGCTCTTTGAGGATTGAAAGGTGCCATCGGCTTGTGTGGGCTTT
1 AAAAGGA-AAGGCGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * * **
1491947 AAAAGAAAAAGGCGTTCTGCTCTTTGAGAACTGGAGGGTGCCACCAACTCATGTGGGCTTT
1 AAAAG-GAAAGGCGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT
*
1492008 -----GAAAGGCATCCTG--CTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAGGCGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT
*
1492061 -----GAAAGGCGTCCTACTCTTTGAGGA
1 AAAAGGAAAGGCGTCCTGCTCTTTGAGGA
1492085 CTAAAGGGTG
Statistics
Matches: 162, Mismatches: 32, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
53 45 0.28
55 19 0.12
60 4 0.02
61 91 0.56
62 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (60 bp):
AAAAGGAAAGGCGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:1492109 original size:42 final size:42
Alignment explanation
Indices: 1492050--1492136 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
1492040 CCACCAACTT
*
1492050 GTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAGG
1 GTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAGG
*
1492092 GTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
1 GTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAGG
1492134 GTG
1 GTG
1492137 AAAGGAAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (42 bp):
GTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAGG
Found at i:1493213 original size:1 final size:1
Alignment explanation
Indices: 1493207--1493276 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
1493197 CAGATTCTTC
* * * * * * * * * *
1493207 TTTTTTTTTTCTCTTTTTTCTTTGTTTTGTTTTTTGTTTTTTTGTTTTTTTGTTGTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1493272 TTTTT
1 TTTTT
1493277 GAAAAAGAAT
Statistics
Matches: 49, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:1493239 original size:16 final size:15
Alignment explanation
Indices: 1493207--1493277 Score: 74
Period size: 15 Copynumber: 4.6 Consensus size: 15
1493197 CAGATTCTTC
* *
1493207 TTTTTTTT-TTCTCT
1 TTTTTTTTGTTTTGT
1493221 TTTTTCTTTGTTTTGT
1 TTTTT-TTTGTTTTGT
1493237 TTTTTGTTT-TTTTGT
1 TTTTT-TTTGTTTTGT
1493252 TTTTTTGTTGTTTTTGT
1 TTTTTT-TTG-TTTTGT
1493269 TTTTTTTTG
1 TTTTTTTTG
1493278 AAAAAGAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.12
15 16 0.33
16 15 0.31
17 12 0.24
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (15 bp):
TTTTTTTTGTTTTGT
Found at i:1493248 original size:25 final size:24
Alignment explanation
Indices: 1493201--1493275 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
1493191 CTTAAGCAGA
* * *
1493201 TTCTTCTTTT-TTTTTTCTCTTTT
1 TTCTTTTTTTGTTTTTTGTTTTTT
1493224 TTCTTTGTTTTGTTTTTTG-TTTTT
1 TTCTTT-TTTTGTTTTTTGTTTTTT
*
1493248 TTGTTTTTTTGTTGTTTTTGTTTTTT
1 TTCTTTTTTTG-T-TTTTTGTTTTTT
1493274 TT
1 TT
1493276 TGAAAAAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
23 10 0.23
24 14 0.33
25 12 0.28
26 7 0.16
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (24 bp):
TTCTTTTTTTGTTTTTTGTTTTTT
Found at i:1493248 original size:32 final size:31
Alignment explanation
Indices: 1493208--1493276 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
1493198 AGATTCTTCT
*
1493208 TTTTTTTTTCTCTTTTTTCT-TTG-TTTTGTT
1 TTTTTTTTTTTCTTTTTT-TGTTGTTTTTGTT
*
1493238 TTTTGTTTTTTTGTTTTTTTGTTGTTTTTGTT
1 TTTT-TTTTTTTCTTTTTTTGTTGTTTTTGTT
1493270 TTTTTTT
1 TTTTTTT
1493277 GAAAAAGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 5 0.15
31 18 0.53
32 11 0.32
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (31 bp):
TTTTTTTTTTTCTTTTTTTGTTGTTTTTGTT
Found at i:1493249 original size:8 final size:8
Alignment explanation
Indices: 1493210--1493274 Score: 78
Period size: 8 Copynumber: 7.9 Consensus size: 8
1493200 ATTCTTCTTT
*
1493210 TTTTTTTC
1 TTTTTTTG
*
1493218 TCTTTTTTC
1 T-TTTTTTG
1493227 TTTGTTTTG
1 TTT-TTTTG
1493236 -TTTTTTG
1 TTTTTTTG
1493243 TTTTTTTG
1 TTTTTTTG
1493251 TTTTTTTG
1 TTTTTTTG
1493259 TTGTTTTTG
1 TT-TTTTTG
1493268 TTTTTTT
1 TTTTTTT
1493275 TTGAAAAAGA
Statistics
Matches: 52, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
7 5 0.10
8 27 0.52
9 20 0.38
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:1493274 original size:9 final size:9
Alignment explanation
Indices: 1493209--1493275 Score: 61
Period size: 9 Copynumber: 7.9 Consensus size: 9
1493199 GATTCTTCTT
*
1493209 TTTTTTTTC
1 TTTTTTTTG
* *
1493218 TCTTTTTTC
1 TTTTTTTTG
*
1493227 TTTGTTTTG
1 TTTTTTTTG
1493236 --TTTTTTG
1 TTTTTTTTG
1493243 -TTTTTTTG
1 TTTTTTTTG
1493251 -TTTTTTTG
1 TTTTTTTTG
*
1493259 TTGTTTTTG
1 TTTTTTTTG
1493268 TTTTTTTT
1 TTTTTTTT
1493276 TGAAAAAGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
7 6 0.12
8 15 0.31
9 28 0.57
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1494004 original size:13 final size:13
Alignment explanation
Indices: 1493986--1494011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1493976 TACACAAAGT
1493986 ATGTATCGATACA
1 ATGTATCGATACA
1493999 ATGTATCGATACA
1 ATGTATCGATACA
1494012 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1494009 original size:32 final size:33
Alignment explanation
Indices: 1493968--1494031 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1493958 TAGCCAAACT
*
1493968 TGTATCGATACA-C-AAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAT-TGTATCGATACAA
1494000 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1494032 TTGTCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 13 0.45
34 4 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1494086 original size:20 final size:22
Alignment explanation
Indices: 1494055--1494098 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1494045 GCTATATTTT
1494055 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
1494076 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
1494097 CA
1 CA
1494099 TGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:1505110 original size:4 final size:4
Alignment explanation
Indices: 1505103--1505127 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1505093 CAAAACAAAC
1505103 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
1505128 CCTCAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1507339 original size:78 final size:78
Alignment explanation
Indices: 1507207--1507423 Score: 319
Period size: 78 Copynumber: 2.7 Consensus size: 78
1507197 AACGGGGCTA
* * * *
1507207 GAGTATCCCCGATTATGGAAAATCGGTGTTCTAGAAATAAAAATTGGGGTTGGAGTATCCCCTCG
1 GAGTATCCCTGATTATAGAAAATCGGTGTT-TTGAAAT-AAAATCGGGGTTGGAGTATCCCCTCG
1507272 AAAATAACAGGGTTG
64 AAAATAACAGGGTTG
* *
1507287 GAGTATCCCTGATTATAG-AAATCGGTATTTTGAAACTAAAATCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCTGATTATAGAAAATCGGTGTTTTGAAA-TAAAATCGGGGTTGGAGTATCCCCTCGA
1507351 AAATAACAGGGTTG
65 AAATAACAGGGTTG
* *
1507365 GAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCC
1 GAGTATCCCTGATTATAGAAAATCGGTGTTTTG-AAATAAAATCGGGGTTGGAGTATCC
1507424 TCGATTATGA
Statistics
Matches: 125, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
78 62 0.50
79 44 0.35
80 19 0.15
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (78 bp):
GAGTATCCCTGATTATAGAAAATCGGTGTTTTGAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
AATAACAGGGTTG
Found at i:1507439 original size:130 final size:129
Alignment explanation
Indices: 1507283--1507604 Score: 391
Period size: 130 Copynumber: 2.5 Consensus size: 129
1507273 AAATAACAGG
* ** * *
1507283 GTTGGAGTATCCCTGATTAT-AGAAATCGGTATTTT-GAAACTAAAATCGGGGTTGGAGTATCCC
1 GTTGGAGTATCCC-GATTATGAAAAATCAATATTTTAGAAA-TAAAACCAGGGTTGGAGTATCCC
* **
1507346 CTCGGAAATAACAGGGTTGGAGTATCCCTGATTAT-AGAAAATTGGTGTTTTGAAAATAAAATCG
64 CTAGGAAATAACAGGGTTGGAGTATCCCCAATTATGA-AAAATTGGTGTTTTGAAAATAAAATCG
1507410 GA
128 GA
*
1507412 GTTGGAGTATCCTCGATTATGAAAAATCAATATTTTAGATATAAAACCAGGGTTGGAGTATCCCC
1 GTTGGAGTATCC-CGATTATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
* * *
1507477 TAGGAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
65 TAGGAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGA
* ** * * **
1507542 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGGAACC-GGGATTGGAGTATCC
1 GTTGGAGTAT-CCCGATTATGAAAAATCAATATTTTAGAAATAAAACCAGGG-TTGGAGTATCC
1507605 TCGAGATGAA
Statistics
Matches: 167, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
129 21 0.13
130 140 0.84
131 6 0.04
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (129 bp):
GTTGGAGTATCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
AGGAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:1507598 original size:51 final size:51
Alignment explanation
Indices: 1507487--1507604 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
1507477 TAGGAAATAA
* ** * *
1507487 CGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAAT
1 CGGGATTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATAAAAC
* **
1507538 C-GGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGGAAC
1 CGGGA-TTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATAAAAC
1507589 CGGGATTGGAGTATCC
1 CGGGATTGGAGTATCC
1507605 TCGAGATGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
50 2 0.04
51 52 0.91
52 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (51 bp):
CGGGATTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATAAAAC
Found at i:1509944 original size:20 final size:20
Alignment explanation
Indices: 1509921--1509995 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
1509911 TACATTGTAA
1509921 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
*
1509941 AATGTATCGATACAAGGAGC
1 AATGTATCGATACAATGAGC
*
1509961 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGC
1509981 AATGTATCGATACAA
1 AATGTATCGATACAA
1509996 ATTGTGAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 50 0.98
21 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:1512157 original size:25 final size:25
Alignment explanation
Indices: 1512123--1512195 Score: 146
Period size: 25 Copynumber: 2.9 Consensus size: 25
1512113 TAGGACTAAG
1512123 CACATTGAAATTAGACATCACTTCC
1 CACATTGAAATTAGACATCACTTCC
1512148 CACATTGAAATTAGACATCACTTCC
1 CACATTGAAATTAGACATCACTTCC
1512173 CACATTGAAATTAGACATCACTT
1 CACATTGAAATTAGACATCACTT
1512196 TATTAGAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (25 bp):
CACATTGAAATTAGACATCACTTCC
Found at i:1512739 original size:13 final size:13
Alignment explanation
Indices: 1512721--1512746 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1512711 TACAACATTC
1512721 TTGTATCGATACA
1 TTGTATCGATACA
1512734 TTGTATCGATACA
1 TTGTATCGATACA
1512747 GTGGGTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1515234 original size:32 final size:32
Alignment explanation
Indices: 1515176--1515239 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1515166 CACACCCAGA
* *
1515176 TGTATCGATACATTATGCTTTGATCGATACAT
1 TGTATCGATACATGATGCATTGATCGATACAT
*
1515208 TGTATCGATACATGCT-CATTGTATCGATACAT
1 TGTATCGATACATGATGCATTG-ATCGATACAT
1515240 GGACAATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATGATGCATTGATCGATACAT
Found at i:1515250 original size:20 final size:19
Alignment explanation
Indices: 1515204--1515260 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
1515194 TTTGATCGAT
1515204 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
1515223 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
1515242 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1515261 AGATCGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1516642 original size:13 final size:13
Alignment explanation
Indices: 1516624--1516648 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1516614 TACATAATCA
1516624 TTGTATCGATACC
1 TTGTATCGATACC
1516637 TTGTATCGATAC
1 TTGTATCGATAC
1516649 ATAATCATTG
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:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACC
Found at i:1516645 original size:32 final size:32
Alignment explanation
Indices: 1516604--1516667 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1516594 ATATGTTATG
1516604 CTTGTATCGATACATAATCATTGTATCGATAC
1 CTTGTATCGATACATAATCATTGTATCGATAC
1516636 CTTGTATCGATACATAATCATTGTATCGATAC
1 CTTGTATCGATACATAATCATTGTATCGATAC
1516668 ATAGACAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (32 bp):
CTTGTATCGATACATAATCATTGTATCGATAC
Found at i:1516680 original size:20 final size:19
Alignment explanation
Indices: 1516605--1516689 Score: 103
Period size: 19 Copynumber: 4.7 Consensus size: 19
1516595 TATGTTATGC
1516605 TTGTATCGATACATAATCA
1 TTGTATCGATACATAATCA
1516624 TTGTATCGATAC-----C-
1 TTGTATCGATACATAATCA
1516637 TTGTATCGATACATAATCA
1 TTGTATCGATACATAATCA
1516656 TTGTATCGATACATAGA-CAA
1 TTGTATCGATACATA-ATC-A
1516676 TTGTATCGATACAT
1 TTGTATCGATACAT
1516690 GAAATTGGCA
Statistics
Matches: 58, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
13 12 0.21
14 1 0.02
18 1 0.02
19 28 0.48
20 16 0.28
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAATCA
Found at i:1516757 original size:13 final size:13
Alignment explanation
Indices: 1516739--1516763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1516729 ACATGGACAT
1516739 TGTATCGATACAA
1 TGTATCGATACAA
1516752 TGTATCGATACA
1 TGTATCGATACA
1516764 TGATGAATTG
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:1516761 original size:32 final size:32
Alignment explanation
Indices: 1516720--1516782 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
1516710 TACCACTGTT
1516720 TGTATCGATACATG-GACATTGTATCGATACAA
1 TGTATCGATACATGAGA-ATTGTATCGATACAA
*
1516752 TGTATCGATACATGATGAATTGTATTGATAC
1 TGTATCGATACATGA-GAATTGTATCGATAC
1516783 GTTGCTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.50
33 12 0.43
34 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:1524013 original size:13 final size:13
Alignment explanation
Indices: 1523995--1524022 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1523985 CATTATTCAA
1523995 TGTATCGATACAT
1 TGTATCGATACAT
1524008 TGTATCGATACAT
1 TGTATCGATACAT
1524021 TG
1 TG
1524023 ATCTTTGTAT
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:1524017 original size:33 final size:33
Alignment explanation
Indices: 1523975--1524040 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1523965 GCCAAGGAAA
1523975 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
1524008 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
1524041 CTTGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:1532332 original size:64 final size:62
Alignment explanation
Indices: 1532230--1532422 Score: 275
Period size: 64 Copynumber: 3.1 Consensus size: 62
1532220 ATCTCTCTTC
* * * *
1532230 TCAAAGTCCATGACTCAATGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCTTCTTTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCTTCTTTTCT
1532291 TCCACAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGG-TATCTTTTC
1 T---CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCT-TCTTTTC
1532355 T
62 T
* *
1532356 TCAAAGTCCACGACTCAGTGGCATCTCTT-TCCAAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCTTCTTTTCT
1532417 TCAAAG
1 TCAAAG
1532423 CCCCAACTTC
Statistics
Matches: 120, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
61 36 0.30
62 28 0.23
63 1 0.01
64 53 0.44
65 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.32
Consensus pattern (62 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTCAGTGGCTTCTTTTCT
Found at i:1532418 original size:95 final size:94
Alignment explanation
Indices: 1532223--1532422 Score: 298
Period size: 95 Copynumber: 2.1 Consensus size: 94
1532213 TCTTCAAATC
* * *
1532223 TCTCTTCTCAAAGTCCATGACTCAATGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCTTCTT
1 TCTCTTCTCAAAGTCCACGACTCAATGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTT
*
1532288 TTTTCCACAAAGTCCACGACTCAGTGGCA
66 CTTTCCACAAAGTCCACGACTCAGTGGCA
* *
1532317 TCTCTTCTTCAAAGTCCACGACTCAGTGGTATCTTTTCTTCAAAGTCCACGACTCAGTGGCATC-
1 TCTCTTC-TCAAAGTCCACGACTCAATGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCT
1532381 TCTTT-C-CAAAGTCCACGACTCAGTGGCA
65 TCTTTCCACAAAGTCCACGACTCAGTGGCA
*
1532409 TCTTTTCTTCAAAG
1 TCTCTTC-TCAAAG
1532423 CCCCAACTTC
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
92 35 0.36
93 1 0.01
94 11 0.11
95 51 0.52
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (94 bp):
TCTCTTCTCAAAGTCCACGACTCAATGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTT
CTTTCCACAAAGTCCACGACTCAGTGGCA
Found at i:1532437 original size:30 final size:31
Alignment explanation
Indices: 1532230--1532494 Score: 279
Period size: 31 Copynumber: 8.4 Consensus size: 31
1532220 ATCTCTCTTC
* *
1532230 TCAAAGTCCATGACTCAATGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
1532261 TCCAAGTCCACGACTCAGTGGCTTCTTTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
1532291 TCCACAAAGTCCACGACTCAGTGGCATCTCTTCT
1 T---CAAAGTCCACGACTCAGTGGCATCTTTTCT
*
1532325 TCAAAGTCCACGACTCAGTGGTATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
1532356 TCAAAGTCCACGACTCAGTGGCATCTCTTTC-
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTCT
1532387 -CAAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
1532417 TCAAAG-CCCCAACTTC-GTGGCACCTTTTTCTTT
1 TCAAAGTCCACGAC-TCAGTGGCATC-TTTTC--T
* * * *
1532450 TCAAAGCCCACCACTCCGTGGCACCTTTTTCTTT
1 TCAAAGTCCACGACTCAGTGGCATC-TTTTC--T
1532484 TCAAAGTCCAC
1 TCAAAGTCCAC
1532495 AAATCTGTGG
Statistics
Matches: 205, Mismatches: 16, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
29 4 0.02
30 39 0.19
31 90 0.44
32 4 0.02
33 34 0.17
34 34 0.17
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:1532446 original size:92 final size:95
Alignment explanation
Indices: 1532223--1532540 Score: 289
Period size: 95 Copynumber: 3.4 Consensus size: 95
1532213 TCTTCAAATC
** * * * *
1532223 TCTCTTC-TCAAAGTCCATGACTCAATGGCATCTTTTCTTCCAAGTCCACGACTCAGTGGCTTCT
1 TCTCTTCTTCAAAGTCCACAACTCAGTGGCACCTTTTCTTCAAAGTCCACGACTCAGTGGCATCT
*
1532287 TTTTTCCACAAAGTCCACGACTCAGTGGCA
66 TCTTTCCACAAAGTCCACGACTCAGTGGCA
* * *
1532317 TCTCTTCTTCAAAGTCCACGACTCAGTGGTATCTTTTCTTCAAAGTCCACGACTCAGTGGCATC-
1 TCTCTTCTTCAAAGTCCACAACTCAGTGGCACCTTTTCTTCAAAGTCCACGACTCAGTGGCATCT
1532381 TCTTT-C-CAAAGTCCACGACTCAGTGGCA
66 TCTTTCCACAAAGTCCACGACTCAGTGGCA
* * * * *
1532409 TCTTTTCTTCAAAG-CCCCAACTTC-GTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGC
1 TCTCTTCTTCAAAGTCCACAAC-TCAGTGGCACC-TTTTC--TTCAAAGTCCACGACTCAGTGGC
* ** * * *
1532472 ACCTT-TTTCTTTTCAAAGTCCACAAATCTGTGGCA
62 ATCTTCTTTC--CACAAAGTCCACGACTCAGTGGCA
* *
1532507 -CCCTT-TT--AAGTCCACAACTCCGTGGCACCCTTTT
1 TCTCTTCTTCAAAGTCCACAACTCAGTGGCA-CCTTTT
1532541 AAGTACACAA
Statistics
Matches: 189, Mismatches: 22, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
91 11 0.06
92 42 0.22
93 1 0.01
94 41 0.22
95 68 0.36
96 4 0.02
97 3 0.02
98 19 0.10
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.32
Consensus pattern (95 bp):
TCTCTTCTTCAAAGTCCACAACTCAGTGGCACCTTTTCTTCAAAGTCCACGACTCAGTGGCATCT
TCTTTCCACAAAGTCCACGACTCAGTGGCA
Found at i:1532475 original size:34 final size:33
Alignment explanation
Indices: 1532296--1533031 Score: 524
Period size: 34 Copynumber: 22.8 Consensus size: 33
1532286 TTTTTTCCAC
* * * * *
1532296 AAAGTCCACGACTCAGTGGCATC-TCTTC-TTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * * * *
1532327 AAAGTCCACGACTCAGTGGTATC-TTTTC-TTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * * * *
1532358 AAAGTCCACGACTCAGTGGCATCTCTTTC---C
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* * * *
1532388 AAAGTCCACGACTCAGTGGCATC-TTTTC-TTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
1532419 AAAG-CCCCAACTTCGTGGCACCTTTTTCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
1532451 CAAAGCCCACCACTCCGTGGCACCTTTTTCTTTT
1 -AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
1532485 CAAAGTCCACAAATCTGTGGCACC-----CTTTT
1 -AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1532514 -AAGTCCACAACTCCGTGGCACC-----CTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* ** *
1532541 -AAGTACACAACTCCGTGGCATATTTTCCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTT-TCTTTT
* * *
1532574 AAAGTCCACAACTCTGTGTCATCTTTTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
*
1532608 -AAGTCCACAACTCCATGGCACCTTTTTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACC----TTTTTC-TTTT
* * *
1532645 AAAGCCCACAACTCCGTGGCA-CATTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
1532677 AAAGTCTACAACTCCGTGGCATCTTTTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
*
1532711 -AAGTCCACGACTCCGTGGCACCTTTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACC--TTTTTC-TTTT
*
1532746 AAA-TCCCACAACTCCGTGGCACC-TTTCCTTTT
1 AAAGT-CCACAACTCCGTGGCACCTTTTTCTTTT
*
1532778 AAAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
*
1532812 -AAGTCCACAACTCTGTGGCACCTTTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACC--TTTTTC-TTTT
*
1532847 AAAGCCCACAACTCCGTGGCACC--TTTCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
1532878 TAAGTCCACAACTCCGTGGCACC-----CTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
*
1532906 -AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTT-CTTTT
** * *
1532939 -AAGTCCATGACTCTGTGGCACCCTTTTCCCTTTT
1 AAAGTCCACAACTCCGTGGCA-CCTTTT-TCTTTT
* *
1532973 -AAGTCCACAACTCCATAGCACTCTTTTTCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTT
*
1533007 -AAGTCCACAACTCCGTGGCAACTTT
1 AAAGTCCACAACTCCGTGGCACCTTT
1533032 AAGTCCAATA
Statistics
Matches: 592, Mismatches: 68, Indels: 88
0.79 0.09 0.12
Matches are distributed among these distances:
27 65 0.11
28 5 0.01
29 9 0.02
30 37 0.06
31 86 0.15
32 57 0.10
33 109 0.18
34 137 0.23
35 19 0.03
36 40 0.07
37 10 0.02
38 18 0.03
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (33 bp):
AAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:1532520 original size:27 final size:27
Alignment explanation
Indices: 1532487--1532560 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
1532477 TTTCTTTTCA
* *
1532487 AAGTCCACAAATCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
1532514 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
1532541 AAGTACACAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
1532561 TATTTTCCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:1532789 original size:101 final size:101
Alignment explanation
Indices: 1532546--1533031 Score: 643
Period size: 101 Copynumber: 4.8 Consensus size: 101
1532536 CTTTTAAGTA
** * *
1532546 CACAACTCCGTGGCATATTTTCCCTTTTAAAGTCCACAACTCTGTGTCATCTTTTTCCTTTTAAG
1 CACAACTCCGTGGCA-CCTTT-CCTTTTAAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAG
*
1532611 TCCACAACTCCATGGCACCTTTTTTTTTCTTTTTAAAGCC
64 TCCACAACTCCGTGGCACC--TTTTTTTCTTTTTAAAGCC
* *
1532651 CACAACTCCGTGGCACATTTCCTTTTAAAGTCTACAACTCCGTGGCATCTTTTTCCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTCCTTTTAAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTC
* *
1532716 CACGACTCCGTGGCACCTTTTTTTCTTTTTAAATCC
66 CACAACTCCGTGGCACCTTTTTTTCTTTTTAAAGCC
1532752 CACAACTCCGTGGCACCTTTCCTTTTAAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTCCTTTTAAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTC
*
1532817 CACAACTCTGTGGCACCTTTTTTTCTTTTTAAAGCC
66 CACAACTCCGTGGCACCTTTTTTTCTTTTTAAAGCC
*
1532853 CACAACTCCGTGGCACCTTT-CTTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTCCTTTTAAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTC
* * *
1532911 CACAACTCCGTGGCA--TCTTTTTCCTTTT-AAGTC
66 CACAACTCCGTGGCACCTTTTTTTCTTTTTAAAGCC
** * * *
1532944 CATGACTCTGTGGCACCCTTTTCCCTTTT-AAGTCCACAACTCCATAGCACTCTTTTTCCTTTTA
1 CACAACTCCGTGGCA-CC-TTT-CCTTTTAAAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTA
*
1533008 AGTCCACAACTCCGTGGCAACTTT
62 AGTCCACAACTCCGTGGCACCTTT
1533032 AAGTCCAATA
Statistics
Matches: 344, Mismatches: 24, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
91 16 0.05
92 13 0.04
93 3 0.01
94 43 0.12
95 5 0.01
96 1 0.00
99 1 0.00
100 25 0.07
101 160 0.47
103 59 0.17
104 3 0.01
105 15 0.04
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (101 bp):
CACAACTCCGTGGCACCTTTCCTTTTAAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTC
CACAACTCCGTGGCACCTTTTTTTCTTTTTAAAGCC
Found at i:1532912 original size:27 final size:29
Alignment explanation
Indices: 1532638--1532932 Score: 166
Period size: 33 Copynumber: 9.2 Consensus size: 29
1532628 CCTTTTTTTT
* *
1532638 TCTTTTTAAAGCCCACAACTCCGTGGCACATT
1 TCTTTTT-AAGTCCACAACTCCGTGGCAC--C
* * *
1532670 TCCTTTTAAAGTCTACAACTCCGTGGCATCTTTT
1 T-CTTTTTAAGTCCACAACTCCGTGGCA-C---C
* *
1532704 TCCTTTTAAGTCCACGACTCCGTGGCACC
1 TCTTTTTAAGTCCACAACTCCGTGGCACC
*
1532733 TTTTTTTCTTTTTAAATCCCACAACTCCGTGGCACC
1 ------TCTTTTTAAGT-CCACAACTCCGTGGCACC
* *
1532769 TTTCCTTTTAAAGTCCACAACTCCGTGGCATCTTTT
1 --T-CTTTTTAAGTCCACAACTCCGTGGCA-C---C
* *
1532805 TCCTTTTAAGTCCACAACTCTGTGGCACC
1 TCTTTTTAAGTCCACAACTCCGTGGCACC
*
1532834 TTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
1 ------TCTTTTT-AAGTCCACAACTCCGTGGCACC
1532870 TTTCTTTTTAAGTCCACAACTCCGTGGCACC
1 --TCTTTTTAAGTCCACAACTCCGTGGCACC
1532901 -C-TTTTAAGTCCACAACTCCGTGGCA--
1 TCTTTTTAAGTCCACAACTCCGTGGCACC
1532926 TCTTTTT
1 TCTTTTT
1532933 CCTTTTAAGT
Statistics
Matches: 216, Mismatches: 23, Indels: 53
0.74 0.08 0.18
Matches are distributed among these distances:
26 1 0.00
27 28 0.13
28 1 0.00
31 21 0.10
32 49 0.23
33 60 0.28
34 4 0.02
35 15 0.07
36 37 0.17
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (29 bp):
TCTTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1533100 original size:49 final size:49
Alignment explanation
Indices: 1533028--1533590 Score: 631
Period size: 49 Copynumber: 11.9 Consensus size: 49
1533018 TCCGTGGCAA
1533028 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * *
1533077 CTTTAAGACCGATGTCGCTGGCCTTAAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
*
1533120 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CAT
1533172 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
1533221 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
1533263 ---TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
1533308 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGG------CA-
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
*
1533350 ---TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCAT
* * *
1533399 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1533448 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCAT
* * * *
1533500 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCAG
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
1533549 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1533591 TCTTTAACAT
Statistics
Matches: 436, Mismatches: 42, Indels: 72
0.79 0.08 0.13
Matches are distributed among these distances:
39 67 0.15
43 39 0.09
45 1 0.00
48 35 0.08
49 162 0.37
50 5 0.01
51 1 0.00
52 126 0.29
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (49 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
Found at i:1533253 original size:101 final size:95
Alignment explanation
Indices: 1533028--1533686 Score: 631
Period size: 101 Copynumber: 6.9 Consensus size: 95
1533018 TCCGTGGCAA
* * * * * *
1533028 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTC
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TTCA-CTTTAAGTCCAATATC
* *
1533093 GCTGGCCTTAAATCAGCACATTGGCA----C--
63 GCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
1533120 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTTAAGTCCAAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----TT-CA-CTTTAAGTCCAAT
1533185 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
60 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
*
1533221 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG----CA---TAAGCCCAATATCGCT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCACTTTAAGTCCAATATCGCT
*
1533279 GGCCTTGAATCAGCATATTGGCACCTT-GT
66 GGCCTTGAATCAGCATATTGGCACCTTCAT
*
1533308 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGG----CA---TAAGTCCAATATCGCT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCACTTTAAGTCCAATATCGCT
*
1533366 GGCCTTGAATCAGCATATTGGCTCCTTTGTCAT
66 GGCCTTGAATCAGCATATTGGCACC--T-TCAT
* *
1533399 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCATCTTTAAGTCCAATATC
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TTCA-CTTTAAGTCCAATATC
1533464 GCTGGCCTTGAATCAGCATATTGGCACCTTCGTCAT
63 GCTGGCCTTGAATCAGCATATTGGCACC-T--TCAT
*
1533500 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCAGCTTTAAGTCCAATATC
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--TTCA-CTTTAAGTCCAATATC
* * * * *
1533565 GTTGGCCTTGAATCAGCGTATTGGCATCTTTAA
63 GCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * ** * ** * *
1533598 CATTCCTAAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGGCATTCTTCTGCAAGTCTAATGT
1 C-TT--TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTC-ACTTTAAGTCCAATAT
* * *
1533663 CGCTAGCCATGAATCAGCACATTG
62 CGCTGGCCTTGAATCAGCATATTG
1533687 TCATTCTTCA
Statistics
Matches: 493, Mismatches: 46, Indels: 49
0.84 0.08 0.08
Matches are distributed among these distances:
87 81 0.16
88 42 0.09
89 1 0.00
90 1 0.00
91 38 0.08
92 44 0.09
94 2 0.00
95 39 0.08
97 2 0.00
98 3 0.01
99 36 0.07
100 3 0.01
101 201 0.41
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (95 bp):
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCACTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCATATTGGCACCTTCAT
Found at i:1533283 original size:39 final size:39
Alignment explanation
Indices: 1533224--1533387 Score: 184
Period size: 39 Copynumber: 4.0 Consensus size: 39
1533214 CCTTCATCTT
*
1533224 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
1533263 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
1533302 CCTTGTCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 ---------TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
1533350 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGC
1533388 TCCTTTGTCA
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
39 70 0.67
48 35 0.33
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1533440 original size:227 final size:229
Alignment explanation
Indices: 1533031--1533489 Score: 744
Period size: 227 Copynumber: 2.0 Consensus size: 229
1533021 GTGGCAACTT
* *
1533031 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
1533096 GGCCTTAAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTAAATCAGCACATTGGCA-C--TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
*
1533161 ACCTTTTCCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTA
128 ACCTTTTCCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTA
*
1533226 AGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
193 AGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
1533263 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
* *
1533327 GGCCTTGAATCAGCACATTGGCA-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCC
66 GGCCTTAAATCAGCACATTGGCACTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * *
1533391 TTTGT-CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCATCTTTAAG
131 TTT-TCCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAG
* *
1533455 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
195 ACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1533490 CCTTCGTCAT
Statistics
Matches: 213, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
227 130 0.61
228 1 0.00
231 40 0.19
232 42 0.20
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (229 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
GGCCTTAAATCAGCACATTGGCACTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
TTTTCCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGA
CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1533591 original size:49 final size:49
Alignment explanation
Indices: 1533350--1533696 Score: 331
Period size: 52 Copynumber: 6.9 Consensus size: 49
1533340 CACATTGGCA
1533350 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-TCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C--T-TCATCTT
* * * *
1533402 TAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
*
1533451 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA---TCTTCATCTT
* * *
1533503 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCAGCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * * *
1533552 TAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC-TT
* * * ** * * *
1533602 CCTAAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTG
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * * * * * *
1533651 CAAGTCTAATGTCGCTAGCCATGAATCAGCACATTGTCATTCTTCA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTCA
1533697 CATCTTCGAG
Statistics
Matches: 246, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
47 30 0.12
49 93 0.38
50 9 0.04
52 114 0.46
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
Found at i:1534506 original size:20 final size:20
Alignment explanation
Indices: 1534481--1534518 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1534471 CTGCCAAGGA
1534481 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
1534501 AATGTATCGATACATTAT
1 AATGTATCGATACATTAT
1534519 ATCGATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:1534523 original size:13 final size:13
Alignment explanation
Indices: 1534505--1534529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1534495 TTATTCAATG
1534505 TATCGATACATTA
1 TATCGATACATTA
1534518 TATCGATACATT
1 TATCGATACATT
1534530 GATCTTTGTA
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:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:1534527 original size:33 final size:33
Alignment explanation
Indices: 1534485--1534548 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
1534475 CAAGGAAATG
1534485 TATCGATACATT-ATTCAATGTATCGATACATTA
1 TATCGATACATTGA-TCAATGTATCGATACATTA
**
1534518 TATCGATACATTGATCTTTGTATCGATACAT
1 TATCGATACATTGATCAATGTATCGATACAT
1534549 CTTGGAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (33 bp):
TATCGATACATTGATCAATGTATCGATACATTA
Found at i:1538974 original size:21 final size:21
Alignment explanation
Indices: 1538950--1538989 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1538940 ATGATTGCAT
1538950 ACAAGAGCCTTAACTATTTCA
1 ACAAGAGCCTTAACTATTTCA
1538971 ACAAGAGCCTTAACTATTT
1 ACAAGAGCCTTAACTATTT
1538990 TATAAAGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (21 bp):
ACAAGAGCCTTAACTATTTCA
Found at i:1539016 original size:155 final size:155
Alignment explanation
Indices: 1538809--1539109 Score: 503
Period size: 155 Copynumber: 1.9 Consensus size: 155
1538799 TTTATGAAAA
*
1538809 TATTTCAACAAGAGCCTTAACTATTTTATAAAGAAGGAGAAAAACAAAACTTTGATATCTGAACT
1 TATTTCAACAAGAGCCTTAACTATTTTATAAAGAAGGAAAAAAACAAAACTTTGATATCTGAACT
* * * * *
1538874 TTTTTAATGTGTTTCTTGAAGTTGTGTATCAGATTACAGGTTATGAATTCTGTTGATACAAAGAT
66 TTTCTAATGCGTTTCTTGAAGTTGTGTATCAGAGTACAGGTTATAAATTCTGTTGATACAAAGAG
1538939 AATGATTGCATACAAGAGCCTTAAC
131 AATGATTGCATACAAGAGCCTTAAC
* ** *
1538964 TATTTCAACAAGAGCCTTAACTATTTTATAAAGGAGGAAAAAAATGAAACTTTGATATCTGAGCT
1 TATTTCAACAAGAGCCTTAACTATTTTATAAAGAAGGAAAAAAACAAAACTTTGATATCTGAACT
1539029 TTTCTAATGCGTTTCTTGAAGTTGTGTATCAGAGTACAGGTTATAAATTCTGTTGATACAAAGAG
66 TTTCTAATGCGTTTCTTGAAGTTGTGTATCAGAGTACAGGTTATAAATTCTGTTGATACAAAGAG
*
1539094 AATGATTGTATACAAG
131 AATGATTGCATACAAG
1539110 CTTGAACAAA
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
155 135 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (155 bp):
TATTTCAACAAGAGCCTTAACTATTTTATAAAGAAGGAAAAAAACAAAACTTTGATATCTGAACT
TTTCTAATGCGTTTCTTGAAGTTGTGTATCAGAGTACAGGTTATAAATTCTGTTGATACAAAGAG
AATGATTGCATACAAGAGCCTTAAC
Found at i:1539578 original size:19 final size:18
Alignment explanation
Indices: 1539553--1539610 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
1539543 TTGTATCGAT
*
1539553 ACATTGTATCAATACATG
1 ACATTGTATCGATACATG
1539571 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACAT-G
1539591 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1539610 A
1 A
1539611 AACTGGCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.50
20 17 0.47
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:1539599 original size:20 final size:20
Alignment explanation
Indices: 1539554--1539609 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1539544 TGTATCGATA
*
1539554 CATTGTATCAATACAT-GAT
1 CATTGTATCGATACATGGAT
1539573 CATTGTATCGATACATGGA-
1 CATTGTATCGATACATGGAT
1539592 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
1539610 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:1539676 original size:13 final size:13
Alignment explanation
Indices: 1539658--1539682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1539648 ACATGGATAT
1539658 TGTATCGATACAA
1 TGTATCGATACAA
1539671 TGTATCGATACA
1 TGTATCGATACA
1539683 TGATGAATTG
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:1539698 original size:33 final size:32
Alignment explanation
Indices: 1539639--1539702 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
1539629 TACCACTATT
1539639 TGTATCGATACATGGATATTGTATCGATACAA
1 TGTATCGATACATGGATATTGTATCGATACAA
1539671 TGTATCGATACAT-GATGAATTGTATCGATACA
1 TGTATCGATACATGGAT--ATTGTATCGATACA
1539703 TTACTTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 3 0.10
32 13 0.43
33 14 0.47
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATGGATATTGTATCGATACAA
Found at i:1540542 original size:20 final size:21
Alignment explanation
Indices: 1540500--1540554 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
1540490 AAAACTCAAT
1540500 TTGTATCGATACATACCTGAA
1 TTGTATCGATACATACCTGAA
**
1540521 TTGTATCGATACAT-GGTGAA
1 TTGTATCGATACATACCTGAA
1540541 TTGTATCGATACAT
1 TTGTATCGATACAT
1540555 TAAGCCCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (21 bp):
TTGTATCGATACATACCTGAA
Found at i:1541496 original size:34 final size:35
Alignment explanation
Indices: 1541427--1541499 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
1541417 GGTGTTTATG
*
1541427 GAAAGAATAAGCACAAAGGAATACAAATGAGCTTT
1 GAAAGAATAAGCACAAAGGAATACAAAAGAGCTTT
* **
1541462 GAAAGAATAA-CAACAAA-GAATATAAAAGCTCTTT
1 GAAAGAATAAGC-ACAAAGGAATACAAAAGAGCTTT
1541496 GAAA
1 GAAA
1541500 TGTAGAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 18 0.55
35 15 0.45
ACGTcount: A:0.55, C:0.11, G:0.16, T:0.18
Consensus pattern (35 bp):
GAAAGAATAAGCACAAAGGAATACAAAAGAGCTTT
Found at i:1541709 original size:20 final size:20
Alignment explanation
Indices: 1541680--1541717 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1541670 ACGCATTCCC
*
1541680 GTTATTATGTATCGATACTT
1 GTTATAATGTATCGATACTT
1541700 GTTATAATGTATCGATAC
1 GTTATAATGTATCGATAC
1541718 ATGCATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (20 bp):
GTTATAATGTATCGATACTT
Found at i:1541795 original size:20 final size:20
Alignment explanation
Indices: 1541749--1541802 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1541739 GTTAGACATA
** * *
1541749 ATGTATCGATACTTTTTACT
1 ATGTATCGATACAATGTACC
*
1541769 ATATATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1541789 ATGTATCGATACAA
1 ATGTATCGATACAA
1541803 ACAGTGGTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1541862 original size:20 final size:20
Alignment explanation
Indices: 1541837--1541901 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
1541827 GTTTCATGTT
1541837 TCGATACAATTCGCTGTGTA
1 TCGATACAATTCGCTGTGTA
* *
1541857 TCGATACCAA---GATCATGTA
1 TCGATA-CAATTCGCT-GTGTA
*
1541876 TCGATACAATTCACTGTGTA
1 TCGATACAATTCGCTGTGTA
1541896 TCGATA
1 TCGATA
1541902 TCAAGATCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
18 5 0.14
19 10 0.29
20 16 0.46
21 4 0.11
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (20 bp):
TCGATACAATTCGCTGTGTA
Found at i:1541880 original size:39 final size:39
Alignment explanation
Indices: 1541830--1541920 Score: 155
Period size: 39 Copynumber: 2.3 Consensus size: 39
1541820 ACTGCCAGTT
* *
1541830 TCATGTTTCGATACAATTCGCTGTGTATCGATACCAAGA
1 TCATGTATCGATACAATTCACTGTGTATCGATACCAAGA
*
1541869 TCATGTATCGATACAATTCACTGTGTATCGATATCAAGA
1 TCATGTATCGATACAATTCACTGTGTATCGATACCAAGA
1541908 TCATGTATCGATA
1 TCATGTATCGATA
1541921 TAAAGCAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (39 bp):
TCATGTATCGATACAATTCACTGTGTATCGATACCAAGA
Found at i:1541921 original size:19 final size:19
Alignment explanation
Indices: 1541853--1541940 Score: 83
Period size: 19 Copynumber: 4.5 Consensus size: 19
1541843 CAATTCGCTG
*
1541853 TGTATCGATACCAAGATCA
1 TGTATCGATATCAAGATCA
*
1541872 TGTATCGATA-CAA-TTCA
1 TGTATCGATATCAAGATCA
1541889 CTGTGTATCGATATCAAGATCA
1 ---TGTATCGATATCAAGATCA
*
1541911 TGTATCGATATAAAGCAAT-A
1 TGTATCGATATCAAG--ATCA
1541931 TGTATCGATA
1 TGTATCGATA
1541941 CTTCTGGGTC
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
17 3 0.05
18 3 0.05
19 24 0.41
20 21 0.36
21 5 0.08
22 3 0.05
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
TGTATCGATATCAAGATCA
Found at i:1541935 original size:39 final size:39
Alignment explanation
Indices: 1541853--1541941 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
1541843 CAATTCGCTG
** * *
1541853 TGTATCGATACCAAGATCATGTATCGATACAATTCACTG
1 TGTATCGATACCAAGATCATGTATCGATACAAAGCAATA
* *
1541892 TGTATCGATATCAAGATCATGTATCGATATAAAGCAATA
1 TGTATCGATACCAAGATCATGTATCGATACAAAGCAATA
1541931 TGTATCGATAC
1 TGTATCGATAC
1541942 TTCTGGGTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (39 bp):
TGTATCGATACCAAGATCATGTATCGATACAAAGCAATA
Found at i:1542576 original size:19 final size:18
Alignment explanation
Indices: 1542552--1542617 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 18
1542542 ACTCCCCCAT
1542552 TTAAAAAAGTTTCTCCCCC
1 TTAAAAAA-TTTCTCCCCC
*
1542571 TTAAAAATTTTTTTCTCCCCC
1 TTAAAAA---ATTTCTCCCCC
* *
1542592 TTAATAAATTTCT-TCCC
1 TTAAAAAATTTCTCCCCC
1542609 TTGAAAAAA
1 TT-AAAAAA
1542618 AACTCTCCCC
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.13
18 10 0.26
19 7 0.18
21 16 0.42
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.39
Consensus pattern (18 bp):
TTAAAAAATTTCTCCCCC
Found at i:1542591 original size:22 final size:22
Alignment explanation
Indices: 1542561--1542602 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
1542551 TTTAAAAAAG
1542561 TTTCTCCCCCTTAA-AAATTTT
1 TTTCTCCCCCTTAATAAATTTT
1542582 TTTCTCCCCCTTAATAAATTT
1 TTTCTCCCCCTTAATAAATTT
1542603 CTTCCCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTCTCCCCCTTAATAAATTTT
Found at i:1547180 original size:15 final size:16
Alignment explanation
Indices: 1547156--1547227 Score: 98
Period size: 15 Copynumber: 4.8 Consensus size: 16
1547146 CCTTTTCTAG
1547156 TTCAACAATTTTC-TT
1 TTCAACAATTTTCATT
*
1547171 TTCAAGAA-TTTCATT
1 TTCAACAATTTTCATT
1547186 TTCAACAATTTTC-TT
1 TTCAACAATTTTCATT
*
1547201 TTCAAGAA-TTTCATT
1 TTCAACAATTTTCATT
1547216 TTCAACAATTTT
1 TTCAACAATTTT
1547228 TGATTTATTC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
14 8 0.16
15 34 0.69
16 7 0.14
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.50
Consensus pattern (16 bp):
TTCAACAATTTTCATT
Found at i:1547190 original size:30 final size:30
Alignment explanation
Indices: 1547156--1547227 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
1547146 CCTTTTCTAG
1547156 TTCAACAATTTTCTTTTCAAGAATTTCATT
1 TTCAACAATTTTCTTTTCAAGAATTTCATT
1547186 TTCAACAATTTTCTTTTCAAGAATTTCATT
1 TTCAACAATTTTCTTTTCAAGAATTTCATT
1547216 TTCAACAATTTT
1 TTCAACAATTTT
1547228 TGATTTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.50
Consensus pattern (30 bp):
TTCAACAATTTTCTTTTCAAGAATTTCATT
Found at i:1549304 original size:20 final size:20
Alignment explanation
Indices: 1549258--1549311 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1549248 ATTAGGCACA
** * *
1549258 ATATATCGATACTTTTTACT
1 ATATATCGATACAATATACC
*
1549278 ATGTATCGATACAATATACC
1 ATATATCGATACAATATACC
1549298 ATATATCGATACAA
1 ATATATCGATACAA
1549312 ATAGTGGTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (20 bp):
ATATATCGATACAATATACC
Found at i:1549385 original size:19 final size:19
Alignment explanation
Indices: 1549339--1549391 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
1549329 ACTGCCAGTT
**
1549339 TCATGTATCGATA-CAATT
1 TCATGTATCGATACCAAGA
1549357 TGCTATGTATCGATACCAAGA
1 T-C-ATGTATCGATACCAAGA
1549378 TCATGTATCGATAC
1 TCATGTATCGATAC
1549392 AGTGTATCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 13 0.43
20 12 0.40
21 4 0.13
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACCAAGA
Found at i:1549399 original size:13 final size:13
Alignment explanation
Indices: 1549381--1549405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1549371 ACCAAGATCA
1549381 TGTATCGATACAG
1 TGTATCGATACAG
1549394 TGTATCGATACA
1 TGTATCGATACA
1549406 AAGCAATATG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Done.