Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 30 of 295
Found at i:8984831 original size:18 final size:18
Alignment explanation
Indices: 8984771--8984843 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
8984761 ACTAAACCAT
8984771 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* * *
8984789 CCAC-ACC-CTACTAAACCAT
1 CCACTACCTCCA-T-CACC-C
8984808 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
*
8984826 CCACTAACTCCATCACCC
1 CCACTACCTCCATCACCC
8984844 TACTTGTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
16 2 0.05
17 4 0.09
18 24 0.56
19 7 0.16
20 4 0.09
21 2 0.05
ACGTcount: A:0.27, C:0.56, G:0.00, T:0.16
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:8985242 original size:62 final size:61
Alignment explanation
Indices: 8985120--8985252 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 61
8985110 CCCTTTTTTA
*
8985120 TTTTTATTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTG
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTTTATATTTG
* * * * *
8985182 TTTTTTTTATTTT-CTATTAAGTTAATTAGTTTGAG-TTATGTTTCA-TATTATTATATTAT-
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTTTTATATT-TG
8985241 TTATTTATTATT
1 TT-TTTATTATT
8985253 ATATATTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
59 17 0.28
60 13 0.21
61 19 0.31
62 12 0.20
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.63
Consensus pattern (61 bp):
TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTTTATATTTG
Found at i:8985251 original size:19 final size:18
Alignment explanation
Indices: 8985227--8985263 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
8985217 TTATGTTTCA
8985227 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
8985246 TATTATTATATATTTATT
1 TATTATTATATATTTATT
8985264 ATGTAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:8985254 original size:14 final size:14
Alignment explanation
Indices: 8985235--8985265 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8985225 CATATTATTA
*
8985235 TATTATTTATTTAT
1 TATTATATATTTAT
8985249 TATTATATATTTAT
1 TATTATATATTTAT
8985263 TAT
1 TAT
8985266 GTAAATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:8985495 original size:21 final size:21
Alignment explanation
Indices: 8985471--8985512 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8985461 CCAAATTTAA
8985471 TGTTATCATCAACATATTTTT
1 TGTTATCATCAACATATTTTT
* * *
8985492 TGTTATTATCATCATGTTTTT
1 TGTTATCATCAACATATTTTT
8985513 AATATTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.57
Consensus pattern (21 bp):
TGTTATCATCAACATATTTTT
Found at i:8990714 original size:9 final size:9
Alignment explanation
Indices: 8990700--8990750 Score: 84
Period size: 9 Copynumber: 5.7 Consensus size: 9
8990690 TTTGGTTAAA
8990700 AATTAACTG
1 AATTAACTG
8990709 AATTAACTG
1 AATTAACTG
*
8990718 AATTAACTT
1 AATTAACTG
*
8990727 AATTAACCG
1 AATTAACTG
8990736 AATTAACTG
1 AATTAACTG
8990745 AATTAA
1 AATTAA
8990751 ATCACTACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (9 bp):
AATTAACTG
Found at i:8990874 original size:37 final size:37
Alignment explanation
Indices: 8990750--8990857 Score: 191
Period size: 36 Copynumber: 2.9 Consensus size: 37
8990740 AACTGAATTA
*
8990750 AATCACTACATAATTAAAAACATTACACAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
8990787 AATCACTATATAA-TAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
8990823 AATCACTACATAATTAAAAACATTACATAAGTCTT
1 AATCACTACATAATTAAAAACATTACATAAGTCTT
8990858 GAAATTAACA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 34 0.51
37 33 0.49
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:8994514 original size:13 final size:13
Alignment explanation
Indices: 8994496--8994532 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
8994486 AATAAAAATT
8994496 ATTAGGTTGGGAA
1 ATTAGGTTGGGAA
*
8994509 ATTAGGTTGGGTA
1 ATTAGGTTGGGAA
*
8994522 ATTGGGTTGGG
1 ATTAGGTTGGG
8994533 TTGGGTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (13 bp):
ATTAGGTTGGGAA
Found at i:8994533 original size:5 final size:5
Alignment explanation
Indices: 8994523--8994548 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8994513 GGTTGGGTAA
8994523 TTGGG TTGGG TTGGG TTGGG TTGGG T
1 TTGGG TTGGG TTGGG TTGGG TTGGG T
8994549 AGTTGGGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (5 bp):
TTGGG
Found at i:8994533 original size:13 final size:13
Alignment explanation
Indices: 8994500--8994556 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
8994490 AAAATTATTA
* *
8994500 GGTTGGGAAATTA
1 GGTTGGGTAATTG
8994513 GGTTGGGTAATTG
1 GGTTGGGTAATTG
**
8994526 GGTTGGGTTGGGTTG
1 GGTTGGG-T-AATTG
*
8994541 GGTTGGGTAGTTG
1 GGTTGGGTAATTG
8994554 GGT
1 GGT
8994557 AGTTGGGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 25 0.68
14 2 0.05
15 10 0.27
ACGTcount: A:0.12, C:0.00, G:0.51, T:0.37
Consensus pattern (13 bp):
GGTTGGGTAATTG
Found at i:8997170 original size:15 final size:15
Alignment explanation
Indices: 8997150--8997180 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8997140 TATGGTAACT
*
8997150 AATCTTAGAAGATAG
1 AATCTTAAAAGATAG
8997165 AATCTTAAAAGATAG
1 AATCTTAAAAGATAG
8997180 A
1 A
8997181 GGGAATCATA
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:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (15 bp):
AATCTTAAAAGATAG
Found at i:9002192 original size:19 final size:19
Alignment explanation
Indices: 9002136--9002202 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
9002126 TTATCAAATA
*
9002136 AAAATATTAATAAATCTTT
1 AAAATATTGATAAATCTTT
9002155 -AAATATTCTGATAAAATCTTT
1 AAAATA-T-TGAT-AAATCTTT
*
9002176 AAAATATTGATAAATCTTA
1 AAAATATTGATAAATCTTT
9002195 AAAATATT
1 AAAATATT
9002203 AATATTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.12
19 16 0.38
20 7 0.17
21 9 0.21
22 5 0.12
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (19 bp):
AAAATATTGATAAATCTTT
Found at i:9015616 original size:21 final size:21
Alignment explanation
Indices: 9015576--9015643 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 21
9015566 AAAATATTTA
*
9015576 AATATTTTATATTATTAAAAAAT
1 AATATTTAATA-T-TTAAAAAAT
9015599 -ATATTTAATATTTAAAAAAT
1 AATATTTAATATTTAAAAAAT
*
9015619 AATATTTAAAATTTAAAAAAGT
1 AATATTTAATATTTAAAAAA-T
9015641 AAT
1 AAT
9015644 TTCTAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
20 9 0.22
21 19 0.46
22 13 0.32
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:9015675 original size:23 final size:24
Alignment explanation
Indices: 9015648--9015710 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 24
9015638 AGTAATTTCT
9015648 AAATATATATTTAAAAT-TTACAA
1 AAATATATATTTAAAATATTACAA
*
9015671 AAATATATATTAATAAAATATTTCAA
1 AAATATATATT--TAAAATATTACAA
*
9015697 ATATATAT-TTTAAA
1 AAATATATATTTAAA
9015711 TTTTTTAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 15 0.43
25 8 0.23
26 12 0.34
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATATATATTTAAAATATTACAA
Found at i:9015692 original size:34 final size:34
Alignment explanation
Indices: 9015615--9015698 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 34
9015605 AATATTTAAA
*
9015615 AAAT-AATATTTAAAATTTAAAAAAGTAATTTCT
1 AAATAAATATTTAAAATTTAAAAAAGTAATATCT
*
9015648 AAATATATATTTAAAATTTACAAAAA-TATATAT-T
1 AAATAAATATTTAAAATTTA-AAAAAGTA-ATATCT
*
9015682 -AATAAAATATTTCAAAT
1 AAAT-AAATATTTAAAAT
9015699 ATATATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 7 0.16
34 28 0.65
35 8 0.19
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (34 bp):
AAATAAATATTTAAAATTTAAAAAAGTAATATCT
Found at i:9015709 original size:26 final size:25
Alignment explanation
Indices: 9015648--9015709 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
9015638 AGTAATTTCT
9015648 AAATATATATT--TAAAATTTACAA
1 AAATATATATTAATAAAATTTACAA
*
9015671 AAATATATATTAATAAAATATTTCAA
1 AAATATATATTAATAAAAT-TTACAA
* *
9015697 ATATATATTTTAA
1 AAATATATATTAA
9015710 ATTTTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.33
25 6 0.18
26 16 0.48
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATATATATTAATAAAATTTACAA
Found at i:9015741 original size:15 final size:15
Alignment explanation
Indices: 9015730--9015759 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
9015720 GTTAATAATA
9015730 ATAAATAAAATAAAC
1 ATAAATAAAATAAAC
9015745 ATAAATAAACATAAA
1 ATAAATAAA-ATAAA
9015760 AGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAATAAAATAAAC
Found at i:9015788 original size:14 final size:13
Alignment explanation
Indices: 9015783--9015817 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
9015773 AAAAAAAAGT
9015783 AAAAAAAGTAAAA
1 AAAAAAAGTAAAA
9015796 AAAAAAAGTAAAA
1 AAAAAAAGTAAAA
9015809 AGAAAAAAG
1 A-AAAAAAG
9015818 GAAACTGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (13 bp):
AAAAAAAGTAAAA
Found at i:9015796 original size:22 final size:20
Alignment explanation
Indices: 9015764--9015809 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 20
9015754 CATAAAAGAC
9015764 AAAAAATAAAAAAAAAAGTA
1 AAAAAATAAAAAAAAAAGTA
9015784 AAAAAAGTAAAAAAAAAAAGTA
1 AAAAAA-T-AAAAAAAAAAGTA
9015806 AAAA
1 AAAA
9015810 GAAAAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.09
Consensus pattern (20 bp):
AAAAAATAAAAAAAAAAGTA
Found at i:9015809 original size:9 final size:9
Alignment explanation
Indices: 9015774--9015798 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9015764 AAAAAATAAA
9015774 AAAAAAAGT
1 AAAAAAAGT
9015783 AAAAAAAGT
1 AAAAAAAGT
9015792 AAAAAAA
1 AAAAAAA
9015799 AAAAGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:9018455 original size:21 final size:22
Alignment explanation
Indices: 9018431--9018487 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
9018421 CCATTTGATA
*
9018431 TAATTGATTATA-TATTATTAT
1 TAATTGATTATATTATAATTAT
9018452 TAATTGATTATATTATAATTAT
1 TAATTGATTATATTATAATTAT
*
9018474 AAATT-A-TATATTAT
1 TAATTGATTATATTAT
9018488 GAAACAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 8 0.24
21 13 0.39
22 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
TAATTGATTATATTATAATTAT
Found at i:9018465 original size:19 final size:21
Alignment explanation
Indices: 9018431--9018487 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 21
9018421 CCATTTGATA
*
9018431 TAATTGATTATATATTATTAT
1 TAATTGATTATATATTATAAT
9018452 TAATTGA-T-TATATTATAAT
1 TAATTGATTATATATTATAAT
**
9018471 T-ATAAATTATATATTAT
1 TAATTGATTATATATTAT
9018488 GAAACAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 12 0.39
20 9 0.29
21 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TAATTGATTATATATTATAAT
Found at i:9019063 original size:20 final size:19
Alignment explanation
Indices: 9019022--9019065 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
9019012 AATAGATATT
9019022 TATAAATTAAGTAGTTAATA
1 TATAAATTAAGTAG-TAATA
9019042 TATAAATTAAGTTA-TAAT-
1 TATAAATTAAG-TAGTAATA
9019060 TATAAA
1 TATAAA
9019066 GTAAATAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 11 0.48
21 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
TATAAATTAAGTAGTAATA
Found at i:9019526 original size:22 final size:24
Alignment explanation
Indices: 9019498--9019541 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9019488 TATGGCAAGA
9019498 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
9019520 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
9019542 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:9020039 original size:12 final size:11
Alignment explanation
Indices: 9020024--9020067 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
9020014 TTTAAATGGA
9020024 ATTGATATGAAT
1 ATTGAT-TGAAT
*
9020036 ATTGATTGGA-
1 ATTGATTGAAT
9020046 ATTGATGTGAAT
1 ATTGAT-TGAAT
9020058 ATTGATTGAA
1 ATTGATTGAA
9020068 ACAGAGAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 6 0.21
11 10 0.36
12 12 0.43
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (11 bp):
ATTGATTGAAT
Found at i:9020048 original size:22 final size:22
Alignment explanation
Indices: 9020020--9020065 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
9020010 TTGATTTAAA
9020020 TGGAATTGATATGAATATTGAT
1 TGGAATTGATATGAATATTGAT
*
9020042 TGGAATTGATGTGAATATTGAT
1 TGGAATTGATATGAATATTGAT
9020064 TG
1 TG
9020066 AAACAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (22 bp):
TGGAATTGATATGAATATTGAT
Found at i:9023590 original size:29 final size:30
Alignment explanation
Indices: 9023553--9023620 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
9023543 AGAAAACAAC
* *
9023553 AAAAAGAAAATCTATTTTAAAAA-GAAAAA
1 AAAAAGAAAATCTAATCTAAAAATGAAAAA
*
9023582 AAAAAGAAAATCTAATCTAAAAATGGAAAA
1 AAAAAGAAAATCTAATCTAAAAATGAAAAA
*
9023612 AGAAAGAAA
1 AAAAAGAAA
9023621 GAAAGGAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.69, C:0.04, G:0.10, T:0.16
Consensus pattern (30 bp):
AAAAAGAAAATCTAATCTAAAAATGAAAAA
Found at i:9029843 original size:29 final size:30
Alignment explanation
Indices: 9029801--9029861 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
9029791 CTTAACAAGT
9029801 AAATACCTCTAAAATAATAA-AAAATTAAC
1 AAATACCTCTAAAATAATAACAAAATTAAC
* * *
9029830 AAATGCCTTTAAAATAGTAACAAAATTAAC
1 AAATACCTCTAAAATAATAACAAAATTAAC
9029860 AA
1 AA
9029862 GAAAATAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAC
Found at i:9030287 original size:26 final size:26
Alignment explanation
Indices: 9030244--9030294 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9030234 GCGCGACTCT
* *
9030244 TTTTTTATATTAATATATATATTTTTG
1 TTTTTTATAATAAAATAT-TATTTTTG
9030271 TTTTTTA-AATAAAATATTATTTTT
1 TTTTTTATAATAAAATATTATTTTT
9030295 TTATTTTCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 8 0.36
27 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTTATAATAAAATATTATTTTTG
Found at i:9031263 original size:22 final size:23
Alignment explanation
Indices: 9031218--9031286 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 23
9031208 TATATAAATT
*
9031218 TAAATATTTTTAATAAAAATAAAAAA
1 TAAATA-TTTTAAT-ATAA-AAAAAA
* * *
9031244 TTAATATTTT-ATTTAAAAAATA
1 TAAATATTTTAATATAAAAAAAA
9031266 TAAATATTTTAATATAAAAAA
1 TAAATATTTTAATATAAAAAA
9031287 TCACGCATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 14 0.39
23 11 0.31
24 2 0.06
25 4 0.11
26 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATATTTTAATATAAAAAAAA
Found at i:9032767 original size:45 final size:45
Alignment explanation
Indices: 9032703--9032794 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
9032693 AGTTCATGTC
9032703 TTAAGATAAAAATCTTCAAGGTTCAAGATTGGGTCTCAAGATAAT
1 TTAAGATAAAAATCTTCAAGGTTCAAGATTGGGTCTCAAGATAAT
9032748 TTAAGATAAAAATCTTCAAGGTTCAAGATTGGGTCTCAAGATAAT
1 TTAAGATAAAAATCTTCAAGGTTCAAGATTGGGTCTCAAGATAAT
9032793 TT
1 TT
9032795 TTCCATGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (45 bp):
TTAAGATAAAAATCTTCAAGGTTCAAGATTGGGTCTCAAGATAAT
Found at i:9033240 original size:14 final size:14
Alignment explanation
Indices: 9033221--9033249 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9033211 TCATGCAACG
9033221 AAATACTTATGAAC
1 AAATACTTATGAAC
9033235 AAATACTTATGAAC
1 AAATACTTATGAAC
9033249 A
1 A
9033250 TGTATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
AAATACTTATGAAC
Found at i:9034281 original size:11 final size:11
Alignment explanation
Indices: 9034265--9034292 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9034255 AATTGGTGGA
9034265 AGGTGGTGCAT
1 AGGTGGTGCAT
9034276 AGGTGGTGCAT
1 AGGTGGTGCAT
9034287 AGGTGG
1 AGGTGG
9034293 CACCACCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.07, G:0.50, T:0.25
Consensus pattern (11 bp):
AGGTGGTGCAT
Found at i:9034386 original size:27 final size:27
Alignment explanation
Indices: 9034342--9034407 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
9034332 TTTTATGTAC
* *
9034342 TGGAGGGTGTCAGATAGGTAGCATCAG
1 TGGAGGGTGTCAGATAGGCAGCACCAG
* * *
9034369 TGGAGGGTGTCCGGTAGGCGGCACCAG
1 TGGAGGGTGTCAGATAGGCAGCACCAG
*
9034396 TGGAGAGTGTCA
1 TGGAGGGTGTCA
9034408 TCTAACACTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.15, G:0.44, T:0.20
Consensus pattern (27 bp):
TGGAGGGTGTCAGATAGGCAGCACCAG
Found at i:9034937 original size:84 final size:83
Alignment explanation
Indices: 9034796--9034965 Score: 313
Period size: 84 Copynumber: 2.0 Consensus size: 83
9034786 CGCCCATGTG
9034796 ACTTGGCCGTGTGAAAACATGATTTTTGTCCATTTTTAAGCTATTTTCACATGTTAAACACATTT
1 ACTTGGCCGTGTGAAAACATGATTTTTGTCCATTTTTAAGCTATTTTCACATGTTAAACACATTT
9034861 AATTCACGCTCAAGCATTT
66 AATTCACG-TCAAGCATTT
* *
9034880 ACTTGGCCGTGTGAAAACATGATTTTTGTCTATTTTTAAGCTATTTTCATATGTTAAACACATTT
1 ACTTGGCCGTGTGAAAACATGATTTTTGTCCATTTTTAAGCTATTTTCACATGTTAAACACATTT
9034945 AATTCACGTCAAGCATTT
66 AATTCACGTCAAGCATTT
9034963 ACT
1 ACT
9034966 AATAGTTCTT
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
83 13 0.15
84 71 0.85
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.41
Consensus pattern (83 bp):
ACTTGGCCGTGTGAAAACATGATTTTTGTCCATTTTTAAGCTATTTTCACATGTTAAACACATTT
AATTCACGTCAAGCATTT
Found at i:9036631 original size:20 final size:18
Alignment explanation
Indices: 9036593--9036636 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
9036583 AAATTCTAAT
9036593 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
9036610 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
9036630 TTTCCCT
1 TTTCCCT
9036637 GCTAATCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:9040068 original size:14 final size:14
Alignment explanation
Indices: 9040049--9040082 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9040039 TAATATATTT
9040049 AATTTATATAACAA
1 AATTTATATAACAA
*
9040063 AATTTATATTACAA
1 AATTTATATAACAA
*
9040077 AGTTTA
1 AATTTA
9040083 ATCCAATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (14 bp):
AATTTATATAACAA
Found at i:9040088 original size:64 final size:64
Alignment explanation
Indices: 9039983--9040205 Score: 293
Period size: 64 Copynumber: 3.5 Consensus size: 64
9039973 TGAGCTTATG
* * * * * *
9039983 TAATTTATATAAAAAAAAATTATATTATAAAGTATGTTCCAATTAGGTTATGATTGTAATATATT
1 TAATTTATAT-AACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTTGTAATATATT
** *
9040048 TAATTTATATAACAAAATTTATATTACAAAGTTTAATCCAATTAGATTATGGTTGTAATTTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTTGTAATATATT
* * * * * *
9040112 TAATTTTTTTAACATAATTTATATTAAAAAGTTTGTTCCAATTAGATTATGGCTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTTGTAATATATT
*
9040176 TAATTTATATAACATAATTTATATTACAAA
1 TAATTTATATAACAAAATTTATATTACAAA
9040206 ACTAAGTTTA
Statistics
Matches: 138, Mismatches: 20, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
64 128 0.93
65 10 0.07
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.45
Consensus pattern (64 bp):
TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTTGTAATATATT
Found at i:9044883 original size:64 final size:63
Alignment explanation
Indices: 9044814--9045033 Score: 284
Period size: 64 Copynumber: 3.5 Consensus size: 63
9044804 ACAAACTTAG
* *
9044814 TTTTGTAATACAAATTATGTTATATAAATTAAATACATTATAACCATAATCTAATTAGAACAAA
1 TTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATT-GAACAAA
* * *
9044878 TTTTGTAATATAAATTAGGTTATATAAATTAAATACATTACAACTATAATCCAATTGAAACAAA
1 TTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTG-AACAAA
* * * * **
9044942 CTTTGTAATATAAATTTTGTTATATAAATTAAATA-ATTACAAACATAATTTAATTGGAATGAA
1 TTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATT-GAACAAA
*
9045005 TTTTGTAATATATATT-T-TTATATAAATTA
1 TTTTGTAATATAAATTATGTTATATAAATTA
9045034 CATAAGCTTA
Statistics
Matches: 138, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
61 12 0.09
62 1 0.01
63 35 0.25
64 90 0.65
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (63 bp):
TTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTGAACAAA
Found at i:9048640 original size:22 final size:21
Alignment explanation
Indices: 9048592--9048642 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
9048582 GATTTATTCA
9048592 ATTTATCTTTCAATTTTAGTTT
1 ATTTAT-TTTCAATTTTAGTTT
*
9048614 TTTTATTTTCAATTGTTTA-TTT
1 ATTTATTTTCAA-T-TTTAGTTT
9048636 ATTTATT
1 ATTTATT
9048643 GTTTTGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 6 0.24
22 15 0.60
23 4 0.16
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69
Consensus pattern (21 bp):
ATTTATTTTCAATTTTAGTTT
Found at i:9048679 original size:22 final size:20
Alignment explanation
Indices: 9048633--9048681 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
9048623 CAATTGTTTA
*
9048633 TTTATTTATTGTTTTGGATT
1 TTTATTTATTGTTTTGAATT
*
9048653 TTTATTTATTGTGTTTTAATT
1 TTTATTTATTGT-TTTGAATT
9048674 TCTTATTT
1 T-TTATTT
9048682 TGGTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.48
21 7 0.28
22 6 0.24
ACGTcount: A:0.16, C:0.02, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTATTTATTGTTTTGAATT
Found at i:9050273 original size:22 final size:22
Alignment explanation
Indices: 9050212--9050275 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
9050202 TATCATGTAC
9050212 ATTGATTTATTCAATTTATCTTTCA
1 ATTG-TTTATTC-ATTTAT-TTTCA
**
9050237 A-T-TTTAGTTTTTTTATTTTCA
1 ATTGTTTA-TTCATTTATTTTCA
9050258 ATTGTTTATTCATTTATT
1 ATTGTTTATTCATTTATT
9050276 GTTTTGGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
21 6 0.19
22 18 0.56
23 6 0.19
24 1 0.03
25 1 0.03
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (22 bp):
ATTGTTTATTCATTTATTTTCA
Found at i:9057020 original size:12 final size:12
Alignment explanation
Indices: 9056999--9057045 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
9056989 CCCTTTCTAG
9056999 CAACTATTAAAA
1 CAACTATTAAAA
* *
9057011 GAATTATTAAAA
1 CAACTATTAAAA
9057023 CAACTATTAAAA
1 CAACTATTAAAA
9057035 CAACTATTAAA
1 CAACTATTAAA
9057046 TTTTTTTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (12 bp):
CAACTATTAAAA
Found at i:9060504 original size:71 final size:71
Alignment explanation
Indices: 9060388--9060525 Score: 267
Period size: 71 Copynumber: 1.9 Consensus size: 71
9060378 ATAGACATGA
9060388 ATGTATTTTATTCATTTTAGTCCCTACAAGCCTTAATATCCAAAATGATTGTAACTTACGATTTA
1 ATGTATTTTATTCATTTTAGTCCCTACAAGCCTTAATATCCAAAATGATTGTAACTTACGATTTA
9060453 CCAAGT
66 CCAAGT
*
9060459 ATGTATTTTATTCATTTTAGTCTCTACAAGCCTTAATATCCAAAATGATTGTAACTTACGATTTA
1 ATGTATTTTATTCATTTTAGTCCCTACAAGCCTTAATATCCAAAATGATTGTAACTTACGATTTA
9060524 CC
66 CC
9060526 CAATCGATTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (71 bp):
ATGTATTTTATTCATTTTAGTCCCTACAAGCCTTAATATCCAAAATGATTGTAACTTACGATTTA
CCAAGT
Found at i:9064534 original size:30 final size:30
Alignment explanation
Indices: 9064498--9064558 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
9064488 ACTATCACAG
*
9064498 TTAGTTACATGGTCTAGCCCCACGGCCGTA
1 TTAGTTACACGGTCTAGCCCCACGGCCGTA
*
9064528 TTAGTTACACGGTCTGGCCCCACGGCCGTA
1 TTAGTTACACGGTCTAGCCCCACGGCCGTA
9064558 T
1 T
9064559 GACCTCTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (30 bp):
TTAGTTACACGGTCTAGCCCCACGGCCGTA
Found at i:9068416 original size:42 final size:42
Alignment explanation
Indices: 9068285--9068446 Score: 105
Period size: 42 Copynumber: 3.8 Consensus size: 42
9068275 TAAGATGCCA
* * * * * *
9068285 ATGCCATATCCCAGATATGGTCTTATATGACATCACATATCG
1 ATGCCATATCCCAAACATGGTCTTACACGAAATCATATATCG
* * * * * *
9068327 ATGCCGATAGCCC-AGCTATGGCCTTCCAC-AATGTC-TCATATTG
1 ATGCC-ATATCCCAAAC-ATGGTCTTACACGAA-ATCAT-ATATCG
* * *
9068370 ATGCCATGTCCTAGACATGGTCTTACACGAAATCATATATCG
1 ATGCCATATCCCAAACATGGTCTTACACGAAATCATATATCG
** *
9068412 ATGCCATATCCCAAATGTGGTCTTACATGAAATCA
1 ATGCCATATCCCAAACATGGTCTTACACGAAATCA
9068447 CACATAACCC
Statistics
Matches: 86, Mismatches: 27, Indels: 14
0.68 0.21 0.11
Matches are distributed among these distances:
42 56 0.65
43 30 0.35
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAAACATGGTCTTACACGAAATCATATATCG
Found at i:9076891 original size:2 final size:2
Alignment explanation
Indices: 9076884--9076909 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9076874 CTAAAAATAG
9076884 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9076910 TAAAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9087776 original size:11 final size:12
Alignment explanation
Indices: 9087753--9087781 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9087743 GTTATCGAAA
9087753 TATTTTATTTTT
1 TATTTTATTTTT
9087765 TATTTT-TTTTT
1 TATTTTATTTTT
9087776 TATTTT
1 TATTTT
9087782 CAAATTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:9110880 original size:59 final size:59
Alignment explanation
Indices: 9110817--9110944 Score: 132
Period size: 59 Copynumber: 2.2 Consensus size: 59
9110807 AACCAAAAAG
*** ** * *
9110817 CCAAGTTCATATAAC-TAATTGAACCGAAAAAAGTTTAGGTACCAAATTGAACCTTGAGA
1 CCAAGTTCATAT-ACTTAATTGAAAAAAAAAAACCTTAGCTACCAAATTGAACCTTGAAA
* ** * *
9110876 CCAAGTTTAGGTGCTTAATTGAAAAAAAAAAACCTTAGCTACCAATTTGAACCTTGAAA
1 CCAAGTTCATATACTTAATTGAAAAAAAAAAACCTTAGCTACCAAATTGAACCTTGAAA
9110935 CCAAGTTCAT
1 CCAAGTTCAT
9110945 GGAAAAAAAT
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
58 1 0.02
59 53 0.98
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (59 bp):
CCAAGTTCATATACTTAATTGAAAAAAAAAAACCTTAGCTACCAAATTGAACCTTGAAA
Found at i:9111603 original size:13 final size:11
Alignment explanation
Indices: 9111575--9111617 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
9111565 AGTTAAATAT
9111575 TATTTTATTAA
1 TATTTTATTAA
9111586 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
9111599 TA-TTTATTAT
1 TATTTTATTAA
9111609 TATTTTATT
1 TATTTTATT
9111618 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:9111604 original size:23 final size:23
Alignment explanation
Indices: 9111578--9111621 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9111568 TAAATATTAT
9111578 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
9111601 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
9111622 AAATGGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:9114025 original size:39 final size:39
Alignment explanation
Indices: 9113971--9114048 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
9113961 GATGAAGAGA
* *
9113971 CGAGAAGATAGGACTAAATTGCAAATTTTGAAAATTATG
1 CGAGAAGATAAGACTAAATTGCAAATTTTGAAAACTATG
*
9114010 CGAGAAGATAAGACTAAATTGTAAATTTTGAAAACTATG
1 CGAGAAGATAAGACTAAATTGCAAATTTTGAAAACTATG
9114049 TGATTGAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (39 bp):
CGAGAAGATAAGACTAAATTGCAAATTTTGAAAACTATG
Found at i:9117199 original size:13 final size:11
Alignment explanation
Indices: 9117171--9117213 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
9117161 AGTTAAATAT
9117171 TATTTTATTAA
1 TATTTTATTAA
9117182 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
9117195 TA-TTTATTAT
1 TATTTTATTAA
9117205 TATTTTATT
1 TATTTTATT
9117214 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:9117200 original size:23 final size:23
Alignment explanation
Indices: 9117174--9117217 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9117164 TAAATATTAT
9117174 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
9117197 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
9117218 AAATGGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:9119687 original size:7 final size:8
Alignment explanation
Indices: 9119662--9119687 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9119652 TTTTAATTTG
9119662 TTTCAATT
1 TTTCAATT
9119670 TTTCAATT
1 TTTCAATT
9119678 TTTCAATT
1 TTTCAATT
9119686 TT
1 TT
9119688 AATATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTCAATT
Found at i:9119780 original size:19 final size:20
Alignment explanation
Indices: 9119756--9119794 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
9119746 TCCCATTATT
9119756 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
9119775 TATTTATTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
9119795 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:9119812 original size:25 final size:23
Alignment explanation
Indices: 9119756--9119820 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
9119746 TCCCATTATT
*
9119756 TATTTATTTTT-TGTTTT-AA--
1 TATTTATTTTTATATTTTAAATG
*
9119775 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
9119798 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
9119821 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:9123419 original size:9 final size:9
Alignment explanation
Indices: 9123402--9123438 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9123392 TGAGTTTTCG
9123402 AATTCGAAT
1 AATTCGAAT
*
9123411 AACTCGAAT
1 AATTCGAAT
9123420 AATTCGAAT
1 AATTCGAAT
9123429 AATTCGAAT
1 AATTCGAAT
9123438 A
1 A
9123439 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9123845 original size:20 final size:21
Alignment explanation
Indices: 9123811--9123850 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9123801 CAAACTTTTA
9123811 TCCCCCAAAACTTTTTACTTT
1 TCCCCCAAAACTTTTTACTTT
*
9123832 TCCCCCTAAA-TTTTTACTT
1 TCCCCCAAAACTTTTTACTT
9123851 CTCACCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45
Consensus pattern (21 bp):
TCCCCCAAAACTTTTTACTTT
Found at i:9124967 original size:13 final size:13
Alignment explanation
Indices: 9124951--9124975 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9124941 TAAGTACCCA
9124951 ACCCAACCCAATT
1 ACCCAACCCAATT
9124964 ACCCAACCCAAT
1 ACCCAACCCAAT
9124976 CATAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:9125095 original size:9 final size:9
Alignment explanation
Indices: 9125039--9125097 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
9125029 TTTATACAAA
*
9125039 TAATTCGAT
1 TAATTCGGT
* *
9125048 TAATTTGGG
1 TAATTCGGT
*
9125057 TAATTCGGG
1 TAATTCGGT
9125066 TAATTCGGT
1 TAATTCGGT
**
9125075 TAATTCAAT
1 TAATTCGGT
9125084 TAATTCGGT
1 TAATTCGGT
9125093 TAATT
1 TAATT
9125098 TTATACTTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:9130765 original size:18 final size:18
Alignment explanation
Indices: 9130742--9130779 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9130732 TCAAGATTCG
9130742 GTGTTCAAAACACTTTCT
1 GTGTTCAAAACACTTTCT
9130760 GTGTTCAAAACACTTTCT
1 GTGTTCAAAACACTTTCT
9130778 GT
1 GT
9130780 CAGTCTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (18 bp):
GTGTTCAAAACACTTTCT
Found at i:9135922 original size:21 final size:21
Alignment explanation
Indices: 9135896--9135937 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9135886 CCTATGTATG
9135896 GATATAATTCATGTTAGATAA
1 GATATAATTCATGTTAGATAA
9135917 GATATAATTCATGTTAGATAA
1 GATATAATTCATGTTAGATAA
9135938 TATAACACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (21 bp):
GATATAATTCATGTTAGATAA
Found at i:9136471 original size:21 final size:21
Alignment explanation
Indices: 9136447--9136488 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9136437 GAGAATTAAA
9136447 AAGGAGAACTAAAGTGAATAT
1 AAGGAGAACTAAAGTGAATAT
9136468 AAGGAGAACTAAAGTGAATAT
1 AAGGAGAACTAAAGTGAATAT
9136489 TGAACCTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.24, T:0.19
Consensus pattern (21 bp):
AAGGAGAACTAAAGTGAATAT
Found at i:9145222 original size:17 final size:16
Alignment explanation
Indices: 9145195--9145235 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
9145185 AGAGATTTAT
9145195 TTTTATATAAATTAATTCA
1 TTTTATA-AAA-TAATT-A
9145214 TTTTATAAAATAATTA
1 TTTTATAAAATAATTA
9145230 TTTTAT
1 TTTTAT
9145236 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 3 0.14
19 7 0.32
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTATAAAATAATTA
Found at i:9145237 original size:21 final size:21
Alignment explanation
Indices: 9145204--9145244 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9145194 TTTTTATATA
9145204 AATTAATTCATTTTATAAAAT
1 AATTAATTCATTTTATAAAAT
* * *
9145225 AATTATTTTATTTTTTAAAA
1 AATTAATTCATTTTATAAAA
9145245 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTAATTCATTTTATAAAAT
Found at i:9147095 original size:27 final size:27
Alignment explanation
Indices: 9147043--9147095 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
9147033 TTCGACTTTT
* *
9147043 AAATTGAGTAAATTAATCCCTCTCAAA
1 AAATTGAGTAAATTAATCCATATCAAA
*
9147070 AAATTAGAGTAATTTAAT-CATATCAA
1 AAATT-GAGTAAATTAATCCATATCAA
9147096 TTTTGAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTGAGTAAATTAATCCATATCAAA
Found at i:9153669 original size:19 final size:18
Alignment explanation
Indices: 9153645--9153716 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 18
9153635 AAATTTTAGA
9153645 AAAATTAATTAAAAACCAT
1 AAAATT-ATTAAAAACCAT
*
9153664 AAAA-T-TTATAAAACTTCTAA
1 AAAATTATTA-AAAAC--C-AT
9153684 AAAATTATTAAAAACCAT
1 AAAATTATTAAAAACCAT
9153702 AAAAATTATTAAAAA
1 -AAAATTATTAAAAA
9153717 ATCATTTGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
16 3 0.07
17 5 0.11
18 2 0.05
19 20 0.45
20 5 0.11
21 6 0.14
22 3 0.07
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTATTAAAAACCAT
Found at i:9153747 original size:24 final size:23
Alignment explanation
Indices: 9153703--9153747 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
9153693 AAAAACCATA
*
9153703 AAAATTATTAAAAAATCATTTGT
1 AAAATTATTAAAAAATAATTTGT
* *
9153726 AAAATATATTAGAAATTAATTT
1 AAAAT-TATTAAAAAATAATTT
9153748 AAAACCATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
AAAATTATTAAAAAATAATTTGT
Found at i:9154045 original size:19 final size:21
Alignment explanation
Indices: 9154008--9154049 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
9153998 ATTCATAATT
*
9154008 TTTTTTATATTTTTGTATAAC
1 TTTTTTATAGTTTTGTATAAC
9154029 TTTTTTAT-GTTTT-TATAAC
1 TTTTTTATAGTTTTGTATAAC
9154048 TT
1 TT
9154050 CATAATGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 4 0.20
21 8 0.40
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTATAGTTTTGTATAAC
Found at i:9155743 original size:29 final size:29
Alignment explanation
Indices: 9155702--9155765 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
9155692 AACTTTTTAG
**
9155702 ATTTAGTTTTTCTA-TTTCT-ATTTCTAAGA
1 ATTTAGTCATTCTACTTTCTGATTTC-AA-A
9155731 ATTTAGTCATTCTACTTTTCTGATTTCAAA
1 ATTTAGTCATTCTAC-TTTCTGATTTCAAA
9155761 ATTTA
1 ATTTA
9155766 AATTTAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
29 12 0.40
30 6 0.20
31 7 0.23
32 5 0.17
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (29 bp):
ATTTAGTCATTCTACTTTCTGATTTCAAA
Found at i:9157812 original size:19 final size:19
Alignment explanation
Indices: 9157784--9157823 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9157774 AAACAATAGG
*
9157784 ACACACTGTAACGCCCTTT
1 ACACACTGTAACGCCCCTT
*
9157803 ACACATTGTAACGCCCCTT
1 ACACACTGTAACGCCCCTT
9157822 AC
1 AC
9157824 CAGTATTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.38, G:0.10, T:0.25
Consensus pattern (19 bp):
ACACACTGTAACGCCCCTT
Found at i:9158864 original size:23 final size:23
Alignment explanation
Indices: 9158820--9158864 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9158810 TTATATTAAA
**
9158820 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAATAAAAATATG
9158843 ATTAAAAATAAAA-AAAATATAT
1 ATTAAAAATAAAATAAAA-ATAT
9158865 ATTTAGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (23 bp):
ATTAAAAATAAAATAAAAATATG
Found at i:9163457 original size:39 final size:40
Alignment explanation
Indices: 9163373--9163457 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
9163363 ACTTAATTCA
* * *
9163373 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCGGCGGGACTCTAAACCCGGATACAATC
*
9163413 CCAGCATGAAGCCGGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCGGCGGGACTCTAAACCCGGATACAATC
*
9163452 TCAGCA
1 CCAGCA
9163458 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCGGCGGGACTCTAAACCCGGATACAATC
Found at i:9163675 original size:47 final size:46
Alignment explanation
Indices: 9163539--9163683 Score: 177
Period size: 47 Copynumber: 3.1 Consensus size: 46
9163529 CACAATTGAT
* * **
9163539 CATTCGGCCTTATCACATAT-TCACTTACACATAT-ATCACATTAAC
1 CATTCGGCCTTATCACATATAACACTTTCACAT-TCATCACATTGGC
* * *
9163584 CATTCGGCATTATCACATGTATGCACTTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACATATA-ACACTTTCACATTCATCACATTGGC
9163631 CATTCGGCCTTATCACATATACACACTTTCACATTCATCACATTGGC
1 CATTCGGCCTTATCACATATA-ACACTTTCACATTCATCACATTGGC
*
9163678 TATTCG
1 CATTCG
9163684 ATCTTAAGCT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 18 0.21
46 1 0.01
47 67 0.78
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (46 bp):
CATTCGGCCTTATCACATATAACACTTTCACATTCATCACATTGGC
Found at i:9165196 original size:51 final size:51
Alignment explanation
Indices: 9165128--9165234 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 51
9165118 ATCACATTTA
*
9165128 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTG
* *
9165179 TCACTTGTCACTGATCAGATAAGTGCAGCTGAGGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTG
9165230 TCACT
1 TCACT
9165235 GATTAGAAGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTG
Found at i:9166318 original size:30 final size:30
Alignment explanation
Indices: 9166284--9166340 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
9166274 CGATTATGTG
9166284 ATAGCCTGTGTCTCAAGTTGTGTGCTCCAT
1 ATAGCCTGTGTCTCAAGTTGTGTGCTCCAT
9166314 ATAGCCTGTGTCTCAAGTTGTGTGCTC
1 ATAGCCTGTGTCTCAAGTTGTGTGCTC
9166341 TATAATTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.37
Consensus pattern (30 bp):
ATAGCCTGTGTCTCAAGTTGTGTGCTCCAT
Found at i:9169135 original size:18 final size:17
Alignment explanation
Indices: 9169102--9169155 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
9169092 TATAGATTTC
9169102 TTTAAA-AATATT-TATT
1 TTTAAATAAT-TTATATT
9169118 TTTAAATTAATTTATATTT
1 TTTAAA-TAATTTATA-TT
9169137 TTTAAATAATTTA-ATT
1 TTTAAATAATTTATATT
9169153 TTT
1 TTT
9169156 TTTAAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 11 0.32
17 3 0.09
18 12 0.35
19 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAAATAATTTATATT
Found at i:9169140 original size:19 final size:20
Alignment explanation
Indices: 9169116--9169163 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
9169106 AAAATATTTA
9169116 TTTTTAAATTAATTT-ATAT
1 TTTTTAAATTAATTTAATAT
*
9169135 TTTTTAAA-TAATTTAATTT
1 TTTTTAAATTAATTTAATAT
9169154 TTTTTAAATT
1 TTTTTAAATT
9169164 TTGTTTACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.23
19 19 0.73
20 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTAAATTAATTTAATAT
Found at i:9172970 original size:7 final size:7
Alignment explanation
Indices: 9172958--9172984 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9172948 CAACCCTCGT
9172958 CTCTTCC
1 CTCTTCC
9172965 CTCTTCC
1 CTCTTCC
9172972 CTCTTCC
1 CTCTTCC
9172979 CTCTTC
1 CTCTTC
9172985 TATTTTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (7 bp):
CTCTTCC
Found at i:9178367 original size:17 final size:19
Alignment explanation
Indices: 9178345--9178389 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
9178335 TATATGTATG
*
9178345 AAATATAACTTT-TTTA-A
1 AAATATAAATTTATTTATA
9178362 AAATATAAATTTATTTATA
1 AAATATAAATTTATTTATA
9178381 AAAT-TAAAT
1 AAATATAAAT
9178390 ATAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 11 0.44
18 9 0.36
19 5 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATATAAATTTATTTATA
Found at i:9184046 original size:16 final size:17
Alignment explanation
Indices: 9184020--9184053 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9184010 TTCAATACAT
9184020 ATTCATCATTCAACTCA
1 ATTCATCATTCAACTCA
*
9184037 ATTC-TCATTCAATTCA
1 ATTCATCATTCAACTCA
9184053 A
1 A
9184054 CAATAACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTCATCATTCAACTCA
Found at i:9184967 original size:30 final size:30
Alignment explanation
Indices: 9184933--9184991 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
9184923 CTTAACAAGA
*
9184933 AAATA-CTTCTAAAATAATAATAAAATTAAC
1 AAATACCTT-TAAAATAATAACAAAATTAAC
9184963 AAATACCTTTAAAATAATAACAAAATTAA
1 AAATACCTTTAAAATAATAACAAAATTAA
9184992 TAATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (30 bp):
AAATACCTTTAAAATAATAACAAAATTAAC
Found at i:9187478 original size:23 final size:24
Alignment explanation
Indices: 9187450--9187494 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
9187440 AATTAAATAT
9187450 TTTAAAAAAA-TGCATAATTTTAC
1 TTTAAAAAAAGTGCATAATTTTAC
9187473 TTTAAAAAAAGTGCATAATTTT
1 TTTAAAAAAAGTGCATAATTTT
9187495 GAAATAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (24 bp):
TTTAAAAAAAGTGCATAATTTTAC
Found at i:9190137 original size:30 final size:30
Alignment explanation
Indices: 9190078--9190137 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
9190068 TATTTTATTA
*
9190078 TTAATTTTGTTATTATTTTAAAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
9190108 TTAATTTT-TTATTACTTTTAGAA-GCATTTG
1 TTAATTTTGTTATTA-TTTTA-AAGGCATTTG
9190138 CTTATTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 6 0.22
30 19 0.70
31 2 0.07
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:9192364 original size:21 final size:21
Alignment explanation
Indices: 9192340--9192383 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
9192330 TAATGACCAA
9192340 AAATAACAAAATTAAATA-ATT
1 AAATAACAAAA-TAAATATATT
9192361 AAATAACAAAATAAATATATT
1 AAATAACAAAATAAATATATT
9192382 AA
1 AA
9192384 TTGTTGGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATAACAAAATAAATATATT
Found at i:9197236 original size:54 final size:54
Alignment explanation
Indices: 9197059--9197262 Score: 210
Period size: 54 Copynumber: 3.8 Consensus size: 54
9197049 TCCTTTGAAT
** ** ** * * *
9197059 TTGGCTGTTGCAAAAGATGATGTTACACTGGCAGCTAATGTTTGTCCTTCGAGC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* ** * *
9197113 TTGTCTGTCACAAAAGATGATGTTATACGAACAGCTAATGTTTCTCCTTCAAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* * *
9197167 TTGGCTGACACAAAAGACAATGTTACACTAGCAGCTAATGCTTCTCCTTCAAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* ** * *
9197221 TTGGCAGTCGTAAAAGACAATGCTACACTAACAACTAATGTT
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTT
9197263 AAAGAGAACA
Statistics
Matches: 124, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 124 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (54 bp):
TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
Found at i:9201419 original size:36 final size:36
Alignment explanation
Indices: 9201350--9201420 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
9201340 TTTAAAATTA
* ** *
9201350 AAATTTTATATTATTTTTAATTTAATTTTTTTTTAC
1 AAATTTTATATTATTGTTAATTTAAACTCTTTTTAC
9201386 AAATTTTATA-TATTGTTAATTTAACACTCTTTTTA
1 AAATTTTATATTATTGTTAATTTAA-ACTCTTTTTA
9201421 ATGTTTACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (36 bp):
AAATTTTATATTATTGTTAATTTAAACTCTTTTTAC
Found at i:9211124 original size:21 final size:21
Alignment explanation
Indices: 9211097--9211155 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
9211087 TAAATGGAAT
*
9211097 ATTTTAAAATAAATAAATAGA
1 ATTTTAAAATAAATAAATAAA
* * *
9211118 CTTTTAAAAAAAATATATAAA
1 ATTTTAAAATAAATAAATAAA
9211139 ATAATTTAAAATAAATA
1 AT--TTTAAAATAAATA
9211156 GTTTAAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 18 0.60
23 12 0.40
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
ATTTTAAAATAAATAAATAAA
Found at i:9211146 original size:23 final size:24
Alignment explanation
Indices: 9211120--9211165 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
9211110 TAAATAGACT
9211120 TTTAAAAAAAATA-TATAAAATAA
1 TTTAAAAAAAATAGTATAAAATAA
* *
9211143 TTTAAAATAAATAGTTTAAAATA
1 TTTAAAAAAAATAGTATAAAATA
9211166 CATAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TTTAAAAAAAATAGTATAAAATAA
Found at i:9211160 original size:14 final size:14
Alignment explanation
Indices: 9211137--9211171 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9211127 AAAATATATA
9211137 AAATAATTTAAAAT
1 AAATAATTTAAAAT
*
9211151 AAATAGTTTAAAAT
1 AAATAATTTAAAAT
*
9211165 ACATAAT
1 AAATAAT
9211172 ATATAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (14 bp):
AAATAATTTAAAAT
Found at i:9211296 original size:35 final size:38
Alignment explanation
Indices: 9211226--9211299 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 38
9211216 GTCTACATAC
*
9211226 AAATATTATATATATAAAACATTTAAAATAGATAATAT
1 AAATATTATACATATAAAACATTTAAAATAGATAATAT
*
9211264 AAATA-TATACATATAAAA-GTTTAAAATA-ATAATAT
1 AAATATTATACATATAAAACATTTAAAATAGATAATAT
9211299 A
1 A
9211300 CAAAACAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 8 0.24
36 9 0.26
37 12 0.35
38 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (38 bp):
AAATATTATACATATAAAACATTTAAAATAGATAATAT
Found at i:9211353 original size:22 final size:24
Alignment explanation
Indices: 9211309--9211369 Score: 81
Period size: 22 Copynumber: 2.6 Consensus size: 24
9211299 ACAAAACAAA
9211309 TTAAAATAAATAATAGAAGATAAT
1 TTAAAATAAATAATAGAAGATAAT
*
9211333 TTAAAGTAAATAA-A-AAGATAAT
1 TTAAAATAAATAATAGAAGATAAT
* *
9211355 TTTAGATAAATAATA
1 TTAAAATAAATAATA
9211370 TATATATAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 18 0.56
23 2 0.06
24 12 0.38
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (24 bp):
TTAAAATAAATAATAGAAGATAAT
Found at i:9211432 original size:25 final size:25
Alignment explanation
Indices: 9211379--9211439 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
9211369 ATATATATAG
*
9211379 AAAAACAGTTTAAAATAGATACTAA
1 AAAAACAATTTAAAATAGATACTAA
*
9211404 AAAAAGCAATTTAAAATA-ATAGT-A
1 AAAAA-CAATTTAAAATAGATACTAA
*
9211428 TAAAACAATTTA
1 AAAAACAATTTA
9211440 GAATTATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 7 0.22
24 5 0.16
25 9 0.28
26 11 0.34
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.26
Consensus pattern (25 bp):
AAAAACAATTTAAAATAGATACTAA
Found at i:9211432 original size:26 final size:25
Alignment explanation
Indices: 9211366--9211439 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 25
9211356 TTAGATAAAT
* *
9211366 AATATATATATAGAAAAACAGTTTAA
1 AATAGATATATA-AAAAACAATTTAA
9211392 AATAGATACTA-AAAAAAGCAATTTAA
1 AATAGATA-TATAAAAAA-CAATTTAA
9211418 AATA-ATAGTAT--AAAACAATTTA
1 AATAGATA-TATAAAAAACAATTTA
9211440 GAATTATCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
23 7 0.17
24 4 0.10
25 10 0.24
26 19 0.45
27 2 0.05
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.28
Consensus pattern (25 bp):
AATAGATATATAAAAAACAATTTAA
Found at i:9211683 original size:19 final size:19
Alignment explanation
Indices: 9211655--9211691 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9211645 AGGAACTTAA
* *
9211655 AATAATTAACCTATAAAAC
1 AATAAATAACATATAAAAC
9211674 AATAAATAACATATAAAA
1 AATAAATAACATATAAAA
9211692 TTTAAAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (19 bp):
AATAAATAACATATAAAAC
Found at i:9211738 original size:28 final size:28
Alignment explanation
Indices: 9211707--9211784 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 28
9211697 AATAGACAAT
9211707 ATATATGTAATAGTTTAAAATATAATAC
1 ATATATGTAATAGTTTAAAATATAATAC
* ** *
9211735 ATATATAT-ATAAATTCAAA-AT-ATAC
1 ATATATGTAATAGTTTAAAATATAATAC
*
9211760 ATA-ATGTAAAAGTTTAAAATA-AATA
1 ATATATGTAATAGTTTAAAATATAATA
9211785 TTGTATACAA
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
24 3 0.08
25 14 0.37
26 6 0.16
27 8 0.21
28 7 0.18
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (28 bp):
ATATATGTAATAGTTTAAAATATAATAC
Found at i:9211755 original size:56 final size:50
Alignment explanation
Indices: 9211684--9211784 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 50
9211674 AATAAATAAC
* *
9211684 ATATAAAATTTAAAATAGACAATATATATGTAATAGTTTAAAATATAATACATAT
1 ATATAAAATTCAAAATAGAC---ATA-ATGTAAAAGTTTAAAATA-AATACATAT
*
9211739 ATATATAAATTCAAAATATACATAATGTAAAAGTTTAAAATAAATA
1 ATATA-AAATTCAAAATAGACATAATGTAAAAGTTTAAAATAAATA
9211785 TTGTATACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
51 4 0.10
52 17 0.40
53 3 0.07
55 5 0.12
56 13 0.31
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (50 bp):
ATATAAAATTCAAAATAGACATAATGTAAAAGTTTAAAATAAATACATAT
Found at i:9212918 original size:21 final size:22
Alignment explanation
Indices: 9212877--9212918 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9212867 ATCCCTGCTT
*
9212877 TGTATTGTTTCTGCCTCTGTTC
1 TGTATGGTTTCTGCCTCTGTTC
*
9212899 TGTATGGTTT-TGCTTCTGTT
1 TGTATGGTTTCTGCCTCTGTT
9212919 TCGCCTCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.05, C:0.17, G:0.21, T:0.57
Consensus pattern (22 bp):
TGTATGGTTTCTGCCTCTGTTC
Found at i:9213931 original size:8 final size:8
Alignment explanation
Indices: 9213918--9213944 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9213908 AAATTGAAAT
9213918 ATATCAAA
1 ATATCAAA
9213926 ATATCAAA
1 ATATCAAA
9213934 ATATCAAA
1 ATATCAAA
9213942 ATA
1 ATA
9213945 AAATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (8 bp):
ATATCAAA
Found at i:9216112 original size:30 final size:30
Alignment explanation
Indices: 9216066--9216152 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
9216056 TTTTATTATG
*
9216066 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
9216097 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
9216127 CCATTATTTGATACCCATATCTTTGA
1 CCAATATTTGATACCCATATCTTTGA
9216153 TTTTTCATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
30 47 0.87
31 7 0.13
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:9216121 original size:15 final size:15
Alignment explanation
Indices: 9216076--9216153 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
9216066 CCAATATCTC
9216076 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
9216091 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
9216106 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
9216121 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
9216136 GATACCCATATCTTT
1 GATACCCATATCTTT
9216151 GAT
1 GAT
9216154 TTTTCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:9220775 original size:30 final size:30
Alignment explanation
Indices: 9220729--9220822 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
9220719 TTTTATTATG
*
9220729 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
9220760 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
9220790 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
9220820 CCA
1 CCA
9220823 TAAATATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:9220784 original size:15 final size:15
Alignment explanation
Indices: 9220739--9220816 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
9220729 CCAATATCTC
9220739 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
9220754 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
9220769 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
9220784 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
9220799 GATACCCATATCTTT
1 GATACCCATATCTTT
9220814 GAT
1 GAT
9220817 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:9222164 original size:15 final size:14
Alignment explanation
Indices: 9222137--9222167 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
9222127 ATAATTAAAT
9222137 TTAAATAAAAATAA
1 TTAAATAAAAATAA
9222151 TTAAATAAATAATAA
1 TTAAATAAA-AATAA
9222166 TT
1 TT
9222168 GGGGATATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAATAAAAATAA
Found at i:9230204 original size:24 final size:24
Alignment explanation
Indices: 9230158--9230206 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
9230148 TTCAGCCCAT
* **
9230158 AAGAATATTTTTCATAATCATAAA
1 AAGAATATTTTCCATAAAAATAAA
9230182 AAGAATATTTTCCATAAAAATAAA
1 AAGAATATTTTCCATAAAAATAAA
9230206 A
1 A
9230207 TACGCTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
AAGAATATTTTCCATAAAAATAAA
Found at i:9231127 original size:15 final size:14
Alignment explanation
Indices: 9231109--9231151 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
9231099 TTTAATATTT
9231109 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
9231124 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
9231139 TTATGATTTAGGG
1 TTATGGTTTAGGG
9231152 TTGATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:9231183 original size:14 final size:14
Alignment explanation
Indices: 9231116--9231183 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
9231106 TTTTTATAGG
* *
9231116 TTTAGGGGTTATGGG
1 TTTAGGGTTTAT-GA
9231131 TTTAAGGG-TTATGA
1 TTT-AGGGTTTATGA
*
9231145 TTTAGGGTTGATGA
1 TTTAGGGTTTATGA
* *
9231159 TTTATGTTTTATGA
1 TTTAGGGTTTATGA
9231173 TTTAGGGTTTA
1 TTTAGGGTTTA
9231184 AGGTTTATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
13 4 0.09
14 29 0.66
15 7 0.16
16 4 0.09
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:9231197 original size:28 final size:28
Alignment explanation
Indices: 9231139--9231197 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
9231129 GGTTTAAGGG
* **
9231139 TTATGATTTAGGGTTGATGATTTATGTT
1 TTATGATTTAGGGTTGAAGATTTATAAT
* *
9231167 TTATGATTTAGGGTTTAAGGTTTATAAT
1 TTATGATTTAGGGTTGAAGATTTATAAT
9231195 TTA
1 TTA
9231198 AAAGGTTAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (28 bp):
TTATGATTTAGGGTTGAAGATTTATAAT
Found at i:9231726 original size:7 final size:7
Alignment explanation
Indices: 9231682--9231743 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
9231672 TTTTTAACAT
9231682 TTTAGGG
1 TTTAGGG
9231689 TGTTAGGG
1 T-TTAGGG
*
9231697 TTTAGAG
1 TTTAGGG
9231704 TTTAGGG
1 TTTAGGG
**
9231711 -TT-GTT
1 TTTAGGG
*
9231716 TTTAGTG
1 TTTAGGG
9231723 TTTAAGGG
1 TTT-AGGG
9231731 TTTAGGG
1 TTTAGGG
9231738 TTTAGG
1 TTTAGG
9231744 AGTATACATG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
5 1 0.02
6 4 0.09
7 27 0.60
8 13 0.29
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:9231917 original size:7 final size:7
Alignment explanation
Indices: 9231787--9231917 Score: 67
Period size: 7 Copynumber: 18.6 Consensus size: 7
9231777 GTTAGGGAGA
9231787 TTTAGGG
1 TTTAGGG
9231794 TTTTAGGG
1 -TTTAGGG
**
9231802 TTTAGAC
1 TTTAGGG
9231809 TTT-GTGG
1 TTTAG-GG
*
9231816 ATT-GGG
1 TTTAGGG
*
9231822 TTTTGTGG
1 TTTAG-GG
*
9231830 TTTATGG
1 TTTAGGG
*
9231837 TTTGGGG
1 TTTAGGG
*
9231844 CTTAGGG
1 TTTAGGG
9231851 TTT-GGTG
1 TTTAGG-G
9231858 TTT-GGG
1 TTTAGGG
*
9231864 ATGT-GAGG
1 -TTTAG-GG
*
9231872 TTTGGGG
1 TTTAGGG
*
9231879 TTTAGAG
1 TTTAGGG
9231886 TTT-GGAG
1 TTTAGG-G
9231893 TTTAGGG
1 TTTAGGG
9231900 TTTAGGG
1 TTTAGGG
9231907 TTTAGGG
1 TTTAGGG
9231914 TTTA
1 TTTA
9231918 ATTTTGGAAT
Statistics
Matches: 96, Mismatches: 18, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
6 9 0.09
7 70 0.73
8 17 0.18
ACGTcount: A:0.12, C:0.02, G:0.40, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:9237518 original size:21 final size:21
Alignment explanation
Indices: 9237453--9237521 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
9237443 TCAACTATGA
9237453 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
* *
9237474 GCCGAGGTAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
*
9237495 GCGGAGGCAACAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
9237516 GCGGAG
1 GCGGAG
9237522 CAGAACAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.25, C:0.19, G:0.55, T:0.01
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:9237863 original size:43 final size:42
Alignment explanation
Indices: 9237816--9237993 Score: 230
Period size: 43 Copynumber: 4.1 Consensus size: 42
9237806 CTGGGCAAAC
* *
9237816 TAGCGGTGTTTTTTAAAAAAGCGTCGCTAAAAGTCCTGGTCTT
1 TAGCGGCGTTTTTTAAAAAAGCG-CGCTAAAAGTCCTGATCTT
** *
9237859 TAGCGGCGTTTTTTAAAATGGCGCTGCTAAAAATCCTGATCTT
1 TAGCGGCGTTTTTTAAAAAAGCGC-GCTAAAAGTCCTGATCTT
* * *
9237902 TAGTGGCATTTTTTAAAATAGCGCCGCTAAAAGTCCTGATCTT
1 TAGCGGCGTTTTTTAAAAAAGCG-CGCTAAAAGTCCTGATCTT
* *
9237945 TAGCGGCGTTTTTTAAAAAAGCAACGCTAAAAGTCCTGGTCTT
1 TAGCGGCGTTTTTTAAAAAAGC-GCGCTAAAAGTCCTGATCTT
9237988 TAGCGG
1 TAGCGG
9237994 GATTACATAT
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.01
43 116 0.98
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
TAGCGGCGTTTTTTAAAAAAGCGCGCTAAAAGTCCTGATCTT
Found at i:9245209 original size:4 final size:4
Alignment explanation
Indices: 9245200--9245231 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
9245190 TTTCTCTAAG
*
9245200 CATA CATA CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
9245232 TATCATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:9257063 original size:20 final size:20
Alignment explanation
Indices: 9257025--9257063 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9257015 TAGGAAAACA
* * *
9257025 TTTCTATTTTTATTCCAAAT
1 TTTCAATTTTAATTACAAAT
9257045 TTTCAATTTTAATTACAAA
1 TTTCAATTTTAATTACAAA
9257064 ATAATGAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTCAATTTTAATTACAAAT
Found at i:9259570 original size:14 final size:14
Alignment explanation
Indices: 9259551--9259580 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9259541 AATCAACTCT
9259551 TACTACATTATATC
1 TACTACATTATATC
9259565 TACTACATTATATC
1 TACTACATTATATC
9259579 TA
1 TA
9259581 TATGATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (14 bp):
TACTACATTATATC
Found at i:9261362 original size:22 final size:22
Alignment explanation
Indices: 9261334--9261377 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
9261324 TCCTGTCAAG
9261334 CTTGTTAGATTGTTTCCTTGTA
1 CTTGTTAGATTGTTTCCTTGTA
9261356 CTTGTTAGATTGTTTCCTTGTA
1 CTTGTTAGATTGTTTCCTTGTA
9261378 GGAAAGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (22 bp):
CTTGTTAGATTGTTTCCTTGTA
Found at i:9263020 original size:38 final size:38
Alignment explanation
Indices: 9262978--9263057 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
9262968 AGCTACTAAC
*
9262978 TTAAGTCATTTTTAAAGGTTCTAATTTATGAGAAGAGT
1 TTAAGTCATTTTTAAAGGTTCTAATTCATGAGAAGAGT
*
9263016 TTAAGTCATTTTTAAAGGTTCTACTTCATGAGAAGAGT
1 TTAAGTCATTTTTAAAGGTTCTAATTCATGAGAAGAGT
9263054 TTAA
1 TTAA
9263058 ATGACGACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (38 bp):
TTAAGTCATTTTTAAAGGTTCTAATTCATGAGAAGAGT
Found at i:9264034 original size:29 final size:31
Alignment explanation
Indices: 9263990--9264068 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 31
9263980 ATTAAATTAA
9263990 ATTAATA-TAATATTT-ATATATAAGATAA-AT
1 ATTAATATTAA-ATTTAATAT-TAAGATAACAT
9264020 ATTAA-ATTAAATTTAATATTAAGATAATCAT
1 ATTAATATTAAATTTAATATTAAGATAA-CAT
*
9264051 TTTAATATTAAA-TTAATA
1 ATTAATATTAAATTTAATA
9264069 AATTACTATC
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
29 13 0.30
30 12 0.28
31 12 0.28
32 6 0.14
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (31 bp):
ATTAATATTAAATTTAATATTAAGATAACAT
Found at i:9264066 original size:11 final size:12
Alignment explanation
Indices: 9263979--9264068 Score: 50
Period size: 11 Copynumber: 7.7 Consensus size: 12
9263969 AAATTAAATC
9263979 TATTAA-ATTAA
1 TATTAATATTAA
9263990 -ATTAATA-TAA
1 TATTAATATTAA
*
9264000 TATTTATATATAA
1 TATTAATAT-TAA
* *
9264013 GATAAATATTAA
1 TATTAATATTAA
9264025 -ATTAA-ATTTAA
1 TATTAATA-TTAA
*
9264036 TATTAAGA-TAA
1 TATTAATATTAA
9264047 TCATTTTAATATTAA
1 T-A--TTAATATTAA
9264062 -ATTAATA
1 TATTAATA
9264069 AATTACTATC
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
10 9 0.15
11 25 0.40
12 9 0.15
13 11 0.18
14 5 0.08
15 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (12 bp):
TATTAATATTAA
Done.