Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 89
Found at i:6678129 original size:21 final size:21
Alignment explanation
Indices: 6678076--6678132 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
6678066 AGACAAATGT
*
6678076 AAGAAAGTCGAAATTTTTGAA
1 AAGAAAGTCGAGATTTTTGAA
*
6678097 AAGAGAGTCGAGATTTTTGAA
1 AAGAAAGTCGAGATTTTTGAA
6678118 AAGAAAGTCGAGATT
1 AAGAAAGTCGAGATT
6678133 GGAGTCGACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.05, G:0.25, T:0.26
Consensus pattern (21 bp):
AAGAAAGTCGAGATTTTTGAA
Found at i:6680011 original size:5 final size:5
Alignment explanation
Indices: 6680003--6680166 Score: 62
Period size: 5 Copynumber: 32.8 Consensus size: 5
6679993 ATGAAAGCTA
* * * *
6680003 AAAAT AAAAG AAAA- AATAG AAAAAT AAAAG AAGAA- AAGAAG AAAAC
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AA-AAG AA-AAG AAAAG
* * * *
6680049 AAAAG GAACG AATA- AAAAG AAAATG AAAA- AAAA- AACAG AAAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG AAAAG -AAAAG AAAAG
* *
6680098 --AAG AAAATA AAAAG AAAAT AAAA- AGAAAG AAGAA- AAAA- AAAAG
1 AAAAG AAAA-G AAAAG AAAAG AAAAG A-AAAG AA-AAG AAAAG AAAAG
6680141 AAAAG AGAAA- AAAAG AGAAGAG AAAA
1 AAAAG A-AAAG AAAAG A-AA-AG AAAA
6680167 AAATGAGAGA
Statistics
Matches: 122, Mismatches: 18, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
3 3 0.02
4 23 0.19
5 63 0.52
6 30 0.25
7 3 0.02
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:6680034 original size:11 final size:11
Alignment explanation
Indices: 6680002--6680156 Score: 67
Period size: 11 Copynumber: 14.1 Consensus size: 11
6679992 TATGAAAGCT
6680002 AAAAATAAAAG
1 AAAAATAAAAG
*
6680013 -AAAA-AATAG
1 AAAAATAAAAG
6680022 AAAAATAAAAG
1 AAAAATAAAAG
*
6680033 AAGAAA-AGAAG
1 AA-AAATAAAAG
*
6680044 AAAACA-AAAGG
1 AAAA-ATAAAAG
*
6680055 AACGAATAAAA-
1 AA-AAATAAAAG
*
6680066 AGAAAATGAAA-
1 A-AAAATAAAAG
*
6680077 AAAAA-AACAG
1 AAAAATAAAAG
*
6680087 AAAAAGAAAAG
1 AAAAATAAAAG
6680098 AAGAAAATAAAA-
1 -A-AAAATAAAAG
6680110 AGAAAATAAAAAG
1 A-AAAAT-AAAAG
* *
6680123 AAAGAAGAAAAA
1 AAA-AATAAAAG
*
6680135 AAAAAGAAAAG
1 AAAAATAAAAG
*
6680146 AGAAA-AAAAG
1 AAAAATAAAAG
6680156 A
1 A
6680157 GAAGAGAAAA
Statistics
Matches: 113, Mismatches: 17, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
9 6 0.05
10 25 0.22
11 49 0.43
12 22 0.19
13 11 0.10
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.05
Consensus pattern (11 bp):
AAAAATAAAAG
Found at i:6680090 original size:7 final size:6
Alignment explanation
Indices: 6680062--6680152 Score: 80
Period size: 6 Copynumber: 14.8 Consensus size: 6
6680052 AGGAACGAAT
* * *
6680062 AAAAAG AAAATG AAAAAA AAAACAG AAAAAG -AAAAG AAGAAAAT AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAA-AG AAAAAG AAAAAG -A-AAAAG AAAAAG
*
6680112 -AAAAT AAAAAG AAAGAAG AAAAA- AAAAAG AAAAGAG AAAAA
1 AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAA-AG AAAAA
6680153 AAGAGAAGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
5 14 0.20
6 33 0.48
7 18 0.26
8 4 0.06
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:6680090 original size:25 final size:23
Alignment explanation
Indices: 6680062--6680159 Score: 101
Period size: 25 Copynumber: 4.1 Consensus size: 23
6680052 AGGAACGAAT
6680062 AAAAAGAAAATGAAAAAAAAAACAG
1 AAAAAGAAAA-GAAAAAAAAAA-AG
6680087 AAAAAGAAAAGAAGAAAATAAAAAG
1 AAAAAGAAAAGAA-AAAA-AAAAAG
*
6680112 AAAATA-AAAAGAAAGAAGAAAAA-
1 AAAA-AGAAAAGAAA-AAAAAAAAG
* *
6680135 AAAAAGAAAAGAGAAAAAAAGAG
1 AAAAAGAAAAGAAAAAAAAAAAG
6680158 AA
1 AA
6680160 GAGAAAAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
22 7 0.11
23 13 0.21
24 9 0.14
25 29 0.46
26 5 0.08
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (23 bp):
AAAAAGAAAAGAAAAAAAAAAAG
Found at i:6680096 original size:15 final size:13
Alignment explanation
Indices: 6680002--6680156 Score: 89
Period size: 15 Copynumber: 10.9 Consensus size: 13
6679992 TATGAAAGCT
*
6680002 AAAAATAAAAGAA
1 AAAAAAAAAAGAA
*
6680015 AAAATAGAAAAATAA
1 AAAA-A-AAAAAGAA
6680030 AAGAAGAAAAGAAGAA
1 AA-AA-AAAA-AAGAA
* *
6680046 AACAAAAGGAACGAA
1 AA-AAAA-AAAAGAA
*
6680061 TAAAAAGAAAATGAA
1 -AAAAA-AAAAAGAA
*
6680076 AAAAAAAACAG--
1 AAAAAAAAAAGAA
*
6680087 AAAAAGAAAAGAA
1 AAAAAAAAAAGAA
*
6680100 GAAAATAAAAAGAA
1 -AAAAAAAAAAGAA
6680114 AATAAAAAGAAAGAA
1 AA-AAAAA-AAAGAA
6680129 GAAAAAAAAAAGAA
1 -AAAAAAAAAAGAA
6680143 AAGAGAAAAAAAGA
1 AA-A-AAAAAAAGA
6680157 GAAGAGAAAA
Statistics
Matches: 111, Mismatches: 16, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
11 9 0.08
13 12 0.11
14 28 0.25
15 45 0.41
16 17 0.15
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:6680107 original size:44 final size:43
Alignment explanation
Indices: 6680002--6680142 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
6679992 TATGAAAGCT
* * *
6680002 AAAAATAAAAGAA-AAAATAGAAAA-ATAA-AAGAAGAAAAGAAG
1 AAAAAAAAAAGAAGAAAATA-AAAAGAAAATAAAAAGAAAA-AAG
* *
6680044 AAAACAAAAGGAACG--AATAAAAAGAAAATGAAAAA-AAAAACAG
1 AAAAAAAAAAGAA-GAAAATAAAAAGAAAAT-AAAAAGAAAAA-AG
* *
6680087 AAAAAGAAAAGAAGAAAATAAAAAGAAAATAAAAAGAAAGAAG
1 AAAAAAAAAAGAAGAAAATAAAAAGAAAATAAAAAGAAAAAAG
6680130 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
6680143 AAGAGAAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
41 4 0.05
42 19 0.24
43 35 0.44
44 22 0.28
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (43 bp):
AAAAAAAAAAGAAGAAAATAAAAAGAAAATAAAAAGAAAAAAG
Found at i:6680120 original size:29 final size:29
Alignment explanation
Indices: 6680074--6680169 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 29
6680064 AAAGAAAATG
* *
6680074 AAAAAAAA-AACAGAAAAAGAAAAGAAGAA
1 AAAAAAAAGAAAATAAAAAG-AAAGAAGAA
*
6680103 AATAAAAAGAAAATAAAAAGAAAGAAGAA
1 AAAAAAAAGAAAATAAAAAGAAAGAAGAA
* * *
6680132 AAAAAAAAGAAAAGAGAAAAAAAGAGAAGAG
1 AAAAAAAAGAAAATA-AAAAGAA-AGAAGAA
6680163 AAAAAAA
1 AAAAAAA
6680170 TGAGAGATGC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
29 29 0.51
30 15 0.26
31 13 0.23
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.02
Consensus pattern (29 bp):
AAAAAAAAGAAAATAAAAAGAAAGAAGAA
Found at i:6680176 original size:13 final size:15
Alignment explanation
Indices: 6680087--6680174 Score: 70
Period size: 15 Copynumber: 5.6 Consensus size: 15
6680077 AAAAAAACAG
*
6680087 AAAAAGAAAAGAAGAA
1 AAAAAGAGAAG-AGAA
* * *
6680103 AATAAAAAGAAAATAA
1 AA-AAAGAGAAGAGAA
*
6680119 AAAGAA-AGAAGAAAAA
1 AAA-AAGAGAAG-AGAA
*
6680135 AAAAAGAAAAGAGAA
1 AAAAAGAGAAGAGAA
6680150 AAAAAGAGAAGAGAA
1 AAAAAGAGAAGAGAA
6680165 AAAAATGAGA
1 AAAAA-GAGA
6680175 GATGCTTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
15 29 0.50
16 23 0.40
17 6 0.10
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAAAGAGAAGAGAA
Found at i:6680530 original size:16 final size:16
Alignment explanation
Indices: 6680509--6680540 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6680499 TTTCTATTTC
6680509 AGAGTAGAAATAGTAA
1 AGAGTAGAAATAGTAA
6680525 AGAGTAGAAATAGTAA
1 AGAGTAGAAATAGTAA
6680541 TTGTTACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (16 bp):
AGAGTAGAAATAGTAA
Found at i:6683899 original size:40 final size:40
Alignment explanation
Indices: 6683854--6684004 Score: 293
Period size: 40 Copynumber: 3.8 Consensus size: 40
6683844 AAGGACACTA
6683854 AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTC
1 AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTC
*
6683894 GGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTC
1 AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTC
6683934 AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTC
1 AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTC
6683974 AGTGTATATGGTGGGCACGACCTTATGTGTA
1 AGTGTATATGGTGGGCACGACCTTATGTGTA
6684005 GCACTACGGT
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (40 bp):
AGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTC
Found at i:6684598 original size:54 final size:54
Alignment explanation
Indices: 6684516--6684620 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
6684506 TACTGGTTCT
*
6684516 TAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTATGCCCAGATTTTCG
1 TAAAACATTTGACAACACATTCATCCTTTCATGTGACTTATGCCCAGATTTTCG
*
6684570 TAAAACATTTGACAACACATTCATCCTTTCATGTGACTTCTGCCCAGATTT
1 TAAAACATTTGACAACACATTCATCCTTTCATGTGACTTATGCCCAGATTT
6684621 CTTGTCAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATCCTTTCATGTGACTTATGCCCAGATTTTCG
Found at i:6685184 original size:52 final size:52
Alignment explanation
Indices: 6685107--6685252 Score: 233
Period size: 52 Copynumber: 2.8 Consensus size: 52
6685097 ATATCCCAAC
* *
6685107 CTTTTT-ATGCT-AGTGTGAGCCTTCAAGATGCCCCACATGGATTACTTTTAT
1 CTTTTTCATGCTGA-TGTGAGCCTTCAAGATACCCCACATGGATTACTTCTAT
*
6685158 CTTTTTCATGCTGATGTGAGCCTTCAAGATACCCCACATGGATTACTTCTGT
1 CTTTTTCATGCTGATGTGAGCCTTCAAGATACCCCACATGGATTACTTCTAT
*
6685210 CTTTTTCATGCTGATGTGAGCCTTTAAGATACCCCACATGGAT
1 CTTTTTCATGCTGATGTGAGCCTTCAAGATACCCCACATGGAT
6685253 AATATAGACC
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
51 6 0.07
52 82 0.92
53 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (52 bp):
CTTTTTCATGCTGATGTGAGCCTTCAAGATACCCCACATGGATTACTTCTAT
Found at i:6686573 original size:11 final size:11
Alignment explanation
Indices: 6686557--6686697 Score: 88
Period size: 11 Copynumber: 12.0 Consensus size: 11
6686547 TTTTTTCATC
6686557 TCTTTTTTCTTT
1 TCTTTTTT-TTT
*
6686569 T-TTTTTTCTT
1 TCTTTTTTTTT
*
6686579 TCTTCTTTTTT
1 TCTTTTTTTTT
*
6686590 TCTTCTTTTTT
1 TCTTTTTTTTT
6686601 TCTTCTTTTTTCAT
1 TCTT-TTTTTT--T
*
6686615 TCTTACTTTTTT
1 TCTT-TTTTTTT
6686627 TCTTTCTTTTTCT
1 TCTTT-TTTTT-T
6686640 T-TTTCTTTTTT
1 TCTTT-TTTTTT
*
6686651 TCTCTTTCTTTT
1 TCT-TTTTTTTT
**
6686663 TCCCTTTTTTT
1 TCTTTTTTTTT
*
6686674 CCTTTTTTCTTCT
1 TCTTTTTT-TT-T
*
6686687 TCCTTTTTTTT
1 TCTTTTTTTTT
6686698 CTGATGGATG
Statistics
Matches: 103, Mismatches: 16, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
10 3 0.03
11 42 0.41
12 37 0.36
13 11 0.11
14 10 0.10
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:6686588 original size:26 final size:26
Alignment explanation
Indices: 6686546--6686697 Score: 116
Period size: 26 Copynumber: 5.7 Consensus size: 26
6686536 TTGATTCAAA
*
6686546 TTTT-TTTCATCTCTTTTTTCTTTTTT
1 TTTTCTTTCTTCT-TTTTTTCTTTTTT
*
6686572 TTTTCTTTCTTCTTTTTTTCTTCTTT
1 TTTTCTTTCTTCTTTTTTTCTTTTTT
* *
6686598 TTTTC-TTCTT-TTTTCATTCTTACTTT
1 TTTTCTTTCTTCTTTT-TTTCTT-TTTT
*
6686624 TTTTCTTTCTTTTTCTTTTTCTTTTTTT
1 TTTTCTTTCTTCTT-TTTTTC-TTTTTT
*
6686652 CTCTTTCTTT-TTCCCTTTTTTTCCTTTTT
1 -T-TTTCTTTCTT--CTTTTTTTCTTTTTT
* *
6686681 TCTTCTTCCTT-TTTTTT
1 TTTTCTTTCTTCTTTTTT
6686698 CTGATGGATG
Statistics
Matches: 105, Mismatches: 9, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
24 4 0.04
25 16 0.15
26 30 0.29
27 17 0.16
28 11 0.10
29 12 0.11
30 13 0.12
31 2 0.02
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTTCTTTCTTCTTTTTTTCTTTTTT
Found at i:6686661 original size:14 final size:13
Alignment explanation
Indices: 6686557--6686663 Score: 95
Period size: 11 Copynumber: 8.5 Consensus size: 13
6686547 TTTTTTCATC
6686557 TCTTTTTTCT-TT
1 TCTTTTTTCTCTT
*
6686569 T-TTTTTTCTTTCT
1 TCTTTTTTCTCT-T
6686582 TCTTTTTT-TC-T
1 TCTTTTTTCTCTT
6686593 TCTTTTTT-TC-T
1 TCTTTTTTCTCTT
6686604 TCTTTTTTCATTCTT
1 TCTTTTTTC--TCTT
*
6686619 ACTTTTTT-TCTT
1 TCTTTTTTCTCTT
*
6686631 TC-TTTTTCTTTT
1 TCTTTTTTCTCTT
6686643 TCTTTTTTTCTCTT
1 TC-TTTTTTCTCTT
6686657 TCTTTTT
1 TCTTTTT
6686664 CCCTTTTTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
11 33 0.41
12 12 0.15
13 8 0.10
14 19 0.24
15 8 0.10
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (13 bp):
TCTTTTTTCTCTT
Found at i:6686693 original size:22 final size:22
Alignment explanation
Indices: 6686558--6686695 Score: 78
Period size: 21 Copynumber: 6.3 Consensus size: 22
6686548 TTTTTCATCT
6686558 CTTTTTT-CTTTTTT-TT-TT-
1 CTTTTTTCCTTTTTTCTTCTTC
* *
6686576 CTTTCTTCTTTTTTTCTTCTT-
1 CTTTTTTCCTTTTTTCTTCTTC
*
6686597 -TTTTTCTTCTTTTTTCATTCTTAC
1 CTTTTT-TCCTTTTTTC-TTCTT-C
* * *
6686621 TTTTTTTCTTTCTTTTTCTTTTTC
1 CTTTTTTC-CT-TTTTTCTTCTTC
*
6686645 TTTTTTTCTCTTTCTTT-TTC--C
1 CTTTTTTC-CTTT-TTTCTTCTTC
6686666 CTTTTTTTCCTTTTTTCTTCTTC
1 C-TTTTTTCCTTTTTTCTTCTTC
6686689 CTTTTTT
1 CTTTTTT
6686696 TTCTGATGGA
Statistics
Matches: 94, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
18 6 0.06
19 6 0.06
20 9 0.10
21 18 0.19
22 18 0.19
23 6 0.06
24 15 0.16
25 10 0.11
26 6 0.06
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
CTTTTTTCCTTTTTTCTTCTTC
Found at i:6689651 original size:6 final size:6
Alignment explanation
Indices: 6689640--6689678 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
6689630 GTATGCAAAG
*
6689640 ATGCAA ATGCAA ATGCAAA GATGCAA ATGCAG ATGCAA A
1 ATGCAA ATGCAA ATGC-AA -ATGCAA ATGCAA ATGCAA A
6689679 AATGTTGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 21 0.72
7 4 0.14
8 4 0.14
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (6 bp):
ATGCAA
Found at i:6689657 original size:20 final size:20
Alignment explanation
Indices: 6689632--6689678 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
6689622 AAATATAAGT
6689632 ATGCAAAGATGCAAATGCAA
1 ATGCAAAGATGCAAATGCAA
*
6689652 ATGCAAAGATGCAAATGCAG
1 ATGCAAAGATGCAAATGCAA
6689672 ATGCAAA
1 ATGCAAA
6689679 AATGTTGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (20 bp):
ATGCAAAGATGCAAATGCAA
Found at i:6694676 original size:16 final size:16
Alignment explanation
Indices: 6694655--6694711 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
6694645 ATTTGAAGGA
6694655 TTGGGCAGGGAAGAAT
1 TTGGGCAGGGAAGAAT
*
6694671 TTGGGCAGGGAAGGA-
1 TTGGGCAGGGAAGAAT
6694686 TTGGGCAGGGAAGAAT
1 TTGGGCAGGGAAGAAT
*
6694702 TTGGGTAGGG
1 TTGGGCAGGG
6694712 CTTCGATGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
15 14 0.38
16 23 0.62
ACGTcount: A:0.26, C:0.05, G:0.49, T:0.19
Consensus pattern (16 bp):
TTGGGCAGGGAAGAAT
Found at i:6694687 original size:31 final size:31
Alignment explanation
Indices: 6694649--6694711 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
6694639 AGTTGGATTT
6694649 GAAGGATTGGGCAGGGAAGAATTTGGGCAGG
1 GAAGGATTGGGCAGGGAAGAATTTGGGCAGG
*
6694680 GAAGGATTGGGCAGGGAAGAATTTGGGTAGG
1 GAAGGATTGGGCAGGGAAGAATTTGGGCAGG
6694711 G
1 G
6694712 CTTCGATGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.05, G:0.49, T:0.17
Consensus pattern (31 bp):
GAAGGATTGGGCAGGGAAGAATTTGGGCAGG
Found at i:6694691 original size:15 final size:15
Alignment explanation
Indices: 6694649--6694698 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
6694639 AGTTGGATTT
6694649 GAAGGATTGGGCAGG
1 GAAGGATTGGGCAGG
*
6694664 GAAGAATTTGGGCAGG
1 GAAGGA-TTGGGCAGG
6694680 GAAGGATTGGGCAGG
1 GAAGGATTGGGCAGG
6694695 GAAG
1 GAAG
6694699 AATTTGGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 18 0.56
16 14 0.44
ACGTcount: A:0.30, C:0.06, G:0.50, T:0.14
Consensus pattern (15 bp):
GAAGGATTGGGCAGG
Found at i:6697369 original size:23 final size:23
Alignment explanation
Indices: 6697332--6697384 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
6697322 ATTTTAATAG
6697332 AAATATTAATTATTAAAATATTTT
1 AAATATTAATTATTAAAAT-TTTT
* *
6697356 AAATA-TATTTATTAATATTTTT
1 AAATATTAATTATTAAAATTTTT
6697378 -AATATTA
1 AAATATTA
6697385 TAATAATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 4 0.15
22 6 0.23
23 11 0.42
24 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATTAATTATTAAAATTTTT
Found at i:6697611 original size:21 final size:21
Alignment explanation
Indices: 6697562--6697611 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
6697552 ATTTTCAAAA
* *
6697562 TATAATATAATAATCTTACTT
1 TATAATATAATAATCATAATT
6697583 TA-ATATATAATTAAT-ATAATT
1 TATA-ATATAA-TAATCATAATT
6697604 TATAATAT
1 TATAATAT
6697612 TTTTATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 1 0.04
21 18 0.75
22 5 0.21
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAATATAATAATCATAATT
Found at i:6703935 original size:21 final size:21
Alignment explanation
Indices: 6703908--6703960 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
6703898 ACCAATGGAC
*
6703908 TAGTATCCATACCTGATAAGT
1 TAGTATCCATACCAGATAAGT
* * *
6703929 TGGTATCAATACCAGATGAGT
1 TAGTATCCATACCAGATAAGT
6703950 TAGTATCCATA
1 TAGTATCCATA
6703961 TTGGATGAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (21 bp):
TAGTATCCATACCAGATAAGT
Found at i:6709952 original size:22 final size:20
Alignment explanation
Indices: 6709927--6709997 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 20
6709917 CTGAGTGGCA
6709927 TATGAAATTGTCCCGAAGAACC
1 TATG-AATTGTCCCGAAG-ACC
**
6709949 TATGTGTATGTCCCGAAGGACC
1 TATGAAT-TGTCCCGAA-GACC
*
6709971 TATGAGTTGTCCCGAATGACC
1 TATGAATTGTCCCGAA-GACC
6709992 TATGAA
1 TATGAA
6709998 ACCCTCGACT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
21 19 0.45
22 22 0.52
23 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (20 bp):
TATGAATTGTCCCGAAGACC
Found at i:6709983 original size:21 final size:21
Alignment explanation
Indices: 6709934--6709996 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
6709924 GCATATGAAA
* *
6709934 TTGTCCCGAAGAACCTATGTG
1 TTGTCCCGAAGGACCTATGAG
6709955 TATGTCCCGAAGGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAG
*
6709977 TTGTCCCGAATGACCTATGA
1 TTGTCCCGAAGGACCTATGA
6709997 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAG
Found at i:6710570 original size:66 final size:69
Alignment explanation
Indices: 6710500--6710645 Score: 162
Period size: 66 Copynumber: 2.2 Consensus size: 69
6710490 TCTCCTTTAG
* ** * *
6710500 GGGGTATCGATACCCCCA-CT-TAAGGTATCGATATTCTC-ATGGCATTCTGTGATT-TTTCGTT
1 GGGGTATCGATACCCCCAGCTGGAAGGTATCGATACCCACAAT-ACATTCTGTGATTCTTTCGTT
6710561 CGAGA
65 CGAGA
* * *
6710566 GGGGTATCGGTA--CCCAGCTGGAGGGTATCGATACCCACAATACATTCTGTGATTCTTTCGTTT
1 GGGGTATCGATACCCCCAGCTGGAAGGTATCGATACCCACAATACATTCTGTGATTCTTTCGTTC
6710629 GAGA
66 GAGA
6710633 -GGGTATCGATACC
1 GGGGTATCGATACC
6710646 TGTTGAATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
64 4 0.06
65 2 0.03
66 46 0.71
67 13 0.20
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (69 bp):
GGGGTATCGATACCCCCAGCTGGAAGGTATCGATACCCACAATACATTCTGTGATTCTTTCGTTC
GAGA
Found at i:6710658 original size:66 final size:66
Alignment explanation
Indices: 6710542--6710667 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
6710532 ATTCTCATGG
* *
6710542 CATTCTGTGATTTTTCGTTCGAGAGGGGTATCGGTACCCAGCTGGAGGGTATCGATACCCACAAT
1 CATTCTGTGATTTTTCGTTCGAGAGGGGTATCGATACCCAGCTGAAGGGTATCGATACCCACAAT
6710607 A
66 A
* * *
6710608 CATTCTGTGATTCTTTCGTTTGAGA-GGGTATCGATA-CCTGTTGAATGGGTATCGATACCC
1 CATTCTGTGATT-TTTCGTTCGAGAGGGGTATCGATACCCAGCTGAA-GGGTATCGATACCC
6710668 CTAGCCCAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
65 6 0.11
66 36 0.68
67 11 0.21
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (66 bp):
CATTCTGTGATTTTTCGTTCGAGAGGGGTATCGATACCCAGCTGAAGGGTATCGATACCCACAAT
A
Found at i:6713832 original size:225 final size:223
Alignment explanation
Indices: 6713477--6714792 Score: 1126
Period size: 225 Copynumber: 5.9 Consensus size: 223
6713467 GCACATCCAT
* * * * * *
6713477 AACTGACTGCACTTTGGATTAACTCAACGGTGAGGAGCCATCTTCCAATCAAATCTTTTCGAAGT
1 AACTGACTGCATTTTGGCTTAACTCAA--GCGAGGAGCCATCTTCTAGTCAAAACTTTTCGAAGT
* * * * *
6713542 CAATCTCAACTCCATGAAAGAGGATATTGAGTTTGGAAAAACAATTCAGAATCGAATACAGTCTA
64 CAATCTCAACTCCATGAAGGAGGATATTG-GGTTCGAAAAACAATTCAGAATCGACTGCAGTCTA
* * * * * *
6713607 G-TTAACTTAGTGGCGGGGAGCTAGTTTCTATTCGAAGTTTTTAGGGCAAGTCTCAACTTCACGC
128 GCTTAACTCAATGGTGAGGAGCTAGTTTCTATTCGAAGTTTTTAGGCCAAGTCTCAACTTCACGA
* * *
6713671 CGAAGGATTCTTGACCTATAAACGCAACTAG
193 CGGAGGATTCTTGACCTAGAAACGCATCTAG
* * *
6713702 AACTGCCTGCATTTTGGCTTAACTCAATGACGAGGAGCCATCTTCAAGTCAAAACTTTTCAAAGT
1 AACTGACTGCATTTTGGCTTAACTCAA-G-CGAGGAGCCATCTTCTAGTCAAAACTTTTCGAAGT
* * * *
6713767 CAATCTCAACTCCATGAAGGAGGATATTAGGTTCGGAAAAATAATTCAAAATCGACTGTAGTCTA
64 CAATCTCAACTCCATGAAGGAGGATATTGGGTTC-GAAAAACAATTCAGAATCGACTGCAGTCTA
* * * * * *
6713832 GCTTAACTCAGTGGGGAGGAGCTAGTTTCCAGTCAAAGTTTTTAGGCCAAGTATCAACTTCACGA
128 GCTTAACTCAATGGTGAGGAGCTAGTTTCTATTCGAAGTTTTTAGGCCAAGTCTCAACTTCACGA
*** * *
6713897 TAAAGGATTCTTGACCTAGAAATGGATCTAG
193 CGGAGGATTCTTGACCTAGAAACGCATCTAG
* * * ** *
6713928 AA-TCGACTGCA-TTTGGCTTAACTCAGCAGCGAGGAACTATCTTCTAGTCAAACCTTTTTAAAT
1 AACT-GACTGCATTTTGGCTTAACTCA--AGCGAGGAGCCATCTTCTAGTCAAAACTTTTCGAAG
* ** * *
6713991 TCAATCTCAACTTCATGAAAAAAGGATATTGGGTTCG-AAAGCAATTCAGAATCAACTGCAGTCT
63 TCAATCTCAACTCCATG-AAGGAGGATATTGGGTTCGAAAAACAATTCAGAATCGACTGCAGTCT
* * * ** *
6714055 AGTTTAACTCAATGGTGAGGAACTAATTTCTATTCGAAGTTTTTAGTTCAAGTCTCACCTTCACG
127 AGCTTAACTCAATGGTGAGGAGCTAGTTTCTATTCGAAGTTTTTAGGCCAAGTCTCAACTTCACG
* * * * *
6714120 ATGGAGGATTTTTTACCTAAAAACACATCTAG
192 ACGGAGGATTCTTGACCTAGAAACGCATCTAG
* * * * * *
6714152 AAC-AAGCTGTATTTTGGCTTAACTC-AGC--GGTG--A---T-GAGT---AA-TCTTC-CAGTC
1 AACTGA-CTGCATTTTGGCTTAACTCAAGCGAGGAGCCATCTTCTAGTCAAAACTTTTCGAAGTC
* * ** * *
6714202 AAATCTCAACTCCACGACA-AATAATATTGGGTTCGAAAAACAATCCAGAATCGACTACAGTCTA
65 -AATCTCAACTCCATGA-AGGAGGATATTGGGTTCGAAAAACAATTCAGAATCGACTGCAGTCTA
* * * * * *
6714266 GCTTAACTCAGTAGCGAGGAGCTAGTTT-TCAATCTAAGTTTTT-GGCTAAGTCTCAACTTCACG
128 GCTTAACTCAATGGTGAGGAGCTAGTTTCT-ATTCGAAGTTTTTAGGCCAAGTCTCAACTTCACG
* * * * *
6714329 ACGGAGAATTCTTGACCCATAAATGCATAC-AA
192 ACGGAGGATTCTTGACCTAGAAACGCAT-CTAG
* * * * *
6714361 AACCT-ATTGCATTTTGGCTTAACTC-AGCGGCAAAGAGACATCTTCTAGTCAAATCTTTTTGAA
1 AA-CTGACTGCATTTTGGCTTAACTCAAGC-G--AGGAGCCATCTTCTAGTCAAAACTTTTCGAA
* * * *
6714424 GTCAATATCAACTCCATGACGGAGGATATTGGGTTCAGAAAAACAA-TCTAGAATCAATTGCAGT
62 GTCAATCTCAACTCCATGAAGGAGGATATTGGGTTC-GAAAAACAATTC-AGAATCGACTGCAGT
* * * *
6714488 CTAACTTAACTCAACGGTGAGGAGCTAGTTT-TCAGTCGAAGTTTTTAGGCCAAGTCTCAATTTC
125 CTAGCTTAACTCAATGGTGAGGAGCTAGTTTCT-ATTCGAAGTTTTTAGGCCAAGTCTCAACTTC
** * * * *
6714552 ATAACGGAGAATTCTTGACCCAGAAACACATCCAG
189 ACGACGGAGGATTCTTGACCTAGAAACGCATCTAG
* ** * ** *
6714587 AACCGGTTGCATTTTGGGTTAACTCGGCTGCGAGGAGTCATCTTCTAGTCAAAA-TTCTTCGAAG
1 AACTGACTGCATTTTGGCTTAACTC--AAGCGAGGAGCCATCTTCTAGTCAAAACTT-TTCGAAG
* * * * *
6714651 CCAATCTCAACTCCATGATGGAGGATACTGGGTTCG-AAATCAATTCAGAATCGACTGTAGTCTA
63 TCAATCTCAACTCCATGAAGGAGGATATTGGGTTCGAAAAACAATTCAGAATCGACTGCAGTCTA
* * * *
6714715 GCTTAACTCAACGGTGAGGAGCTAGTTTCTAGTT-GAAGTTTTCAGGCCAAGTTTCAACTTCACA
128 GCTTAACTCAATGGTGAGGAGCTAGTTTCTA-TTCGAAGTTTTTAGGCCAAGTCTCAACTTCACG
6714779 ACGGAGGATTCTTG
192 ACGGAGGATTCTTG
6714793 TCCCGAAAAC
Statistics
Matches: 880, Mismatches: 165, Indels: 93
0.77 0.14 0.08
Matches are distributed among these distances:
209 78 0.09
210 77 0.09
211 1 0.00
214 5 0.01
215 1 0.00
216 1 0.00
218 1 0.00
219 1 0.00
220 5 0.01
222 3 0.00
223 2 0.00
224 227 0.26
225 253 0.29
226 221 0.25
227 1 0.00
228 1 0.00
229 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (223 bp):
AACTGACTGCATTTTGGCTTAACTCAAGCGAGGAGCCATCTTCTAGTCAAAACTTTTCGAAGTCA
ATCTCAACTCCATGAAGGAGGATATTGGGTTCGAAAAACAATTCAGAATCGACTGCAGTCTAGCT
TAACTCAATGGTGAGGAGCTAGTTTCTATTCGAAGTTTTTAGGCCAAGTCTCAACTTCACGACGG
AGGATTCTTGACCTAGAAACGCATCTAG
Found at i:6715211 original size:2 final size:2
Alignment explanation
Indices: 6715194--6715235 Score: 52
Period size: 2 Copynumber: 21.0 Consensus size: 2
6715184 TTACAGTATT
6715194 TA TA T- TA TA TA GTA TA TA TGA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
6715236 ATAATAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 2 0.06
2 30 0.83
3 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6715285 original size:26 final size:27
Alignment explanation
Indices: 6715223--6715309 Score: 95
Period size: 29 Copynumber: 3.1 Consensus size: 27
6715213 GATAATATAT
* **
6715223 ATATATATATATAATAATAATTTCAAAAA
1 ATATATA-ATATAAT-ATAGTTTTTAAAA
*
6715252 ATATATAATAT-ATATAGTTTTTGAAA
1 ATATATAATATAATATAGTTTTTAAAA
6715278 ATATATAATATAAGATATAGTTTTTAAAA
1 ATATATAATAT-A-ATATAGTTTTTAAAA
6715307 ATA
1 ATA
6715310 GTTTTTGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 20 0.40
27 2 0.04
28 4 0.08
29 24 0.48
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (27 bp):
ATATATAATATAATATAGTTTTTAAAA
Found at i:6715384 original size:26 final size:26
Alignment explanation
Indices: 6715336--6715386 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6715326 ATAATATATA
*
6715336 ATATATATAATATGTTTTCAAAAATT
1 ATATATATAATATATTTTCAAAAATT
*
6715362 ATATATATTATATAATTTT-AAAAAT
1 ATATATATAATAT-ATTTTCAAAAAT
6715387 AAATAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
ATATATATAATATATTTTCAAAAATT
Found at i:6720857 original size:105 final size:105
Alignment explanation
Indices: 6720648--6721213 Score: 927
Period size: 105 Copynumber: 5.4 Consensus size: 105
6720638 GTATTGCTCC
* * * * * * *
6720648 GAGTCCAATATCCTCCGCTGTGAAGTTGAAACTGGTTCTGGAATTGGGAAAT-TGTCGGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATAT-T-TGTTGACA
** *** *
6720712 GTCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTT
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
6720754 GAGTCCAATATCCTTCGTTGTGAAGTTGAAACTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
6720819 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
6720859 GAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGATATTGAGAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
6720924 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
6720964 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGACATTGAGAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
6721029 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
6721069 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGACATTGAGAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
*
6721134 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGAGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
6721174 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
6721214 GGTAAAACCT
Statistics
Matches: 440, Mismatches: 19, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
105 391 0.89
106 48 0.11
107 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:6722035 original size:55 final size:58
Alignment explanation
Indices: 6721951--6722060 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 58
6721941 TTTCTCTTCT
* * * *
6721951 TTTTTCTTTTTCTTTTTTTTTAATTTTAGGGCGCCCTTTCGGGTTTTCACCCTAAACG
1 TTTTTCTTTTTCTTTTTTTTCAATCTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
*
6722009 TTTTT-TTTTT-TTTTTTTTCAA-CTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTCTTTTTCTTTTTTTTCAATCTTAGGACGCCCTCTCGGGTTTTCACCCTAA
6722061 GCGAAGTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
55 27 0.57
56 10 0.21
57 5 0.11
58 5 0.11
ACGTcount: A:0.13, C:0.21, G:0.13, T:0.54
Consensus pattern (58 bp):
TTTTTCTTTTTCTTTTTTTTCAATCTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
Found at i:6731491 original size:20 final size:20
Alignment explanation
Indices: 6731453--6731496 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6731443 ATGGTTAGTA
*
6731453 AAATAAAAATAAATGGAAAT
1 AAATAAAAATAAATAGAAAT
6731473 AAATAAAAATAACA-AGAAAT
1 AAATAAAAATAA-ATAGAAAT
6731493 AAAT
1 AAAT
6731497 GGCAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (20 bp):
AAATAAAAATAAATAGAAAT
Found at i:6732540 original size:27 final size:27
Alignment explanation
Indices: 6732481--6732547 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
6732471 AAAAACGATG
6732481 GTAAT-AATAATAAAGATATATACAATA
1 GTAATAAATAA-AAAGATATATACAATA
** *
6732508 AAAATAAATAAAAAGATATATATAATA
1 GTAATAAATAAAAAGATATATACAATA
*
6732535 GTAATAAGTAAAA
1 GTAATAAATAAAA
6732548 TAAAATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 28 0.85
28 5 0.15
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.27
Consensus pattern (27 bp):
GTAATAAATAAAAAGATATATACAATA
Found at i:6742331 original size:20 final size:20
Alignment explanation
Indices: 6742306--6742439 Score: 133
Period size: 21 Copynumber: 6.5 Consensus size: 20
6742296 TTTTCCCAAT
6742306 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
6742326 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
6742346 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
6742367 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
6742388 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
6742408 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
6742429 TCGCAATGCGA
1 TCGCAATGCGA
6742440 TACTGACTAT
Statistics
Matches: 90, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
20 43 0.48
21 47 0.52
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:6742352 original size:21 final size:20
Alignment explanation
Indices: 6742306--6742439 Score: 133
Period size: 20 Copynumber: 6.5 Consensus size: 20
6742296 TTTTCCCAAT
*
6742306 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
6742326 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
6742346 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
6742367 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
*
6742388 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
6742408 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
6742429 TCGCAATGCGA
1 TCGCAATGCGA
6742440 TACTGACTAT
Statistics
Matches: 90, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
20 45 0.50
21 45 0.50
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:6742453 original size:20 final size:20
Alignment explanation
Indices: 6742428--6742542 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
6742418 AATTGGGAAA
6742428 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * **
6742448 ATCGCAATGCGATAATAAAAA
1 ATCGCAATGCGATACT-GACT
* * *
6742469 ATCGCAACGAGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
6742489 TTCGCAACGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
6742509 TTCGCAATGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
6742529 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
6742543 TTTCAAAGCG
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 48 0.63
21 26 0.34
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:6742454 original size:41 final size:41
Alignment explanation
Indices: 6742306--6742439 Score: 259
Period size: 41 Copynumber: 3.3 Consensus size: 41
6742296 TTTTCCCAAT
*
6742306 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAT
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
6742347 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
6742388 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
6742429 TCGCAATGCGA
1 TCGCAATGCGA
6742440 TACTGACTAT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:6742470 original size:41 final size:41
Alignment explanation
Indices: 6742425--6742502 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
6742415 GCGAATTGGG
* * *
6742425 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* *
6742466 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
6742503 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:6742738 original size:22 final size:22
Alignment explanation
Indices: 6742710--6742753 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6742700 CACTCTCTCA
6742710 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
6742732 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
6742754 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:6743042 original size:20 final size:20
Alignment explanation
Indices: 6743017--6743054 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6743007 CGATTCTCTC
6743017 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
6743037 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
6743055 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:6744394 original size:18 final size:18
Alignment explanation
Indices: 6744373--6744417 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6744363 TCCACTTCGG
*
6744373 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
6744391 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
6744409 GAGCCATCA
1 GAGCCATCA
6744418 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:6744943 original size:19 final size:20
Alignment explanation
Indices: 6744889--6744955 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
6744879 TAGTTTACTT
* *
6744889 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
6744909 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
6744929 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
6744948 TCGCAACG
1 TCGCAACG
6744956 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:6744963 original size:14 final size:14
Alignment explanation
Indices: 6744944--6745001 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
6744934 ATGCGAAATG
6744944 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
6744958 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
6744974 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
6744990 AAAATCGCAACG
1 AAAATCGCAACG
6745002 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:6744986 original size:32 final size:33
Alignment explanation
Indices: 6744928--6745006 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
6744918 GGAAATGGCT
*
6744928 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
6744961 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
6744993 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
6745007 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:6745035 original size:19 final size:19
Alignment explanation
Indices: 6745013--6745166 Score: 105
Period size: 19 Copynumber: 8.6 Consensus size: 19
6745003 GAAACACAAA
*
6745013 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
6745032 TCGCGTTGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
6745048 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
*
6745064 TCGCGTTGCGA-TTT--TG
1 TCGCGTTGCGATTTTCATT
6745080 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* ***
6745097 TCGCATTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATT
* **
6745116 TCCGTGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
6745136 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
6745156 TCGTGTTGCGA
1 TCGCGTTGCGA
6745167 AAGTAAACTA
Statistics
Matches: 107, Mismatches: 17, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
14 19 0.18
15 3 0.03
16 6 0.06
17 2 0.02
18 14 0.13
19 35 0.33
20 28 0.26
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6745054 original size:14 final size:14
Alignment explanation
Indices: 6745035--6745092 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
6745025 TTTCATTTCG
6745035 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
6745049 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
6745065 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
6745081 CGTTGCGATTTT
1 CGTTGCGATTTT
6745093 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:6745099 original size:33 final size:33
Alignment explanation
Indices: 6745018--6745108 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
6745008 ACAAATCGCA
6745018 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
6745051 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
6745083 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
6745109 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:6745127 original size:20 final size:19
Alignment explanation
Indices: 6745093--6745147 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
6745083 TTGCGATTTT
*
6745093 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
* *
6745112 CATTTCCGTGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
6745132 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
6745148 TTTAAGTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:6747015 original size:14 final size:14
Alignment explanation
Indices: 6746996--6747031 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6746986 ATTGTTTAAT
6746996 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
6747010 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
6747024 TGATTTGT
1 TGATTTGT
6747032 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6747157 original size:14 final size:15
Alignment explanation
Indices: 6747138--6747214 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
6747128 CGAAATGGCT
6747138 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
6747152 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
6747170 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
6747189 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
6747203 ATCGCAATGCGA
1 ATCGCAA-GCGA
6747215 TTTTCATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.13
17 2 0.04
18 13 0.25
19 9 0.17
20 1 0.02
21 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:6747170 original size:19 final size:19
Alignment explanation
Indices: 6747148--6747214 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
6747138 ATCGCAACGA
6747148 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
6747167 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
6747185 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
6747199 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
6747215 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
18 18 0.41
19 10 0.23
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:6747246 original size:14 final size:14
Alignment explanation
Indices: 6747227--6747263 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
6747217 TTCATTTCGT
6747227 GTTGCGATATTCTC
1 GTTGCGATATTCTC
6747241 GTTGCGATATTCTC
1 GTTGCGATATTCTC
6747255 GTTGCGATA
1 GTTGCGATA
6747264 ACCATTTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (14 bp):
GTTGCGATATTCTC
Found at i:6747279 original size:20 final size:20
Alignment explanation
Indices: 6747254--6747303 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
6747244 GCGATATTCT
*
6747254 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAACCATTTTCA
**
6747274 CGTTGCGATTGCCATTTTCA
1 CGTTGCGATAACCATTTTCA
6747294 CGTTGCGATA
1 CGTTGCGATA
6747304 GTCAAATGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAACCATTTTCA
Found at i:6747689 original size:14 final size:14
Alignment explanation
Indices: 6747670--6747705 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6747660 ATTGTTTAAT
6747670 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
6747684 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
6747698 TGATTTGT
1 TGATTTGT
6747706 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6749000 original size:24 final size:24
Alignment explanation
Indices: 6748949--6749002 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
6748939 GTATTCAAAA
* * *
6748949 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGAAC
*
6748973 TTTGATATTGGTCAATACACGAAT
1 TTTGATATTGGTCAATACACGAAC
6748997 TTTGAT
1 TTTGAT
6749003 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGAAC
Found at i:6749194 original size:12 final size:12
Alignment explanation
Indices: 6749177--6749201 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6749167 ATATAATCCT
6749177 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6749189 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6749201 G
1 G
6749202 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:6751517 original size:19 final size:19
Alignment explanation
Indices: 6751495--6751559 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
6751485 GGAAATTACT
6751495 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
6751514 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
6751528 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6751547 ATCGCAACGCGAA
1 ATCGCAATGCGAA
6751560 TTTAATTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:6751577 original size:19 final size:20
Alignment explanation
Indices: 6751555--6751597 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6751545 AAATCGCAAC
6751555 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
6751574 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
6751594 GCGA
1 GCGA
6751598 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:6751582 original size:14 final size:14
Alignment explanation
Indices: 6751583--6751616 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6751573 TGCGATTTTC
6751583 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
6751597 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
6751611 ATTTTC
1 ATTTTC
6751617 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:6751757 original size:14 final size:15
Alignment explanation
Indices: 6751738--6751774 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
6751728 CATCAATTAA
6751738 ACAAATCAAC-TTTT
1 ACAAATCAACATTTT
6751752 ACAAATC-ACATTTT
1 ACAAATCAACATTTT
6751766 ACAAATCAA
1 ACAAATCAA
6751775 TTAAACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.86
15 1 0.05
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
ACAAATCAACATTTT
Found at i:6753214 original size:42 final size:42
Alignment explanation
Indices: 6753168--6753251 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
6753158 CGATGACAGT
* * *
6753168 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
6753210 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
6753252 CGAGTCGAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:6755308 original size:19 final size:19
Alignment explanation
Indices: 6755244--6755414 Score: 190
Period size: 19 Copynumber: 9.1 Consensus size: 19
6755234 TCTTTTGGTT
*
6755244 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
6755263 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
6755283 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
** *
6755303 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
6755321 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
6755336 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
6755356 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
6755375 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
6755394 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
6755413 GA
1 GA
6755415 TTTTGGTTTC
Statistics
Matches: 133, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
14 10 0.08
15 2 0.02
18 2 0.02
19 69 0.52
20 48 0.36
21 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:6755368 original size:39 final size:38
Alignment explanation
Indices: 6755244--6755414 Score: 190
Period size: 39 Copynumber: 4.6 Consensus size: 38
6755234 TCTTTTGGTT
* *
6755244 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** ** *
6755283 GGAAATGACTATCGCAACGCGAAATGACTATCGCGAC-C
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
6755321 ---A-GACAATCGCAACGCGAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAA-CGC
*
6755356 GAAATTAAAATCGCAACGCGAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
6755394 GAAATGAAAATCGCAATGCGA
1 GAAATGAAAATCGCAACGCGA
6755415 TTTTGGTTTC
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
33 26 0.23
34 2 0.02
35 1 0.01
38 24 0.22
39 40 0.36
40 18 0.16
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:6755443 original size:19 final size:19
Alignment explanation
Indices: 6755410--6755454 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
6755400 AAAATCGCAA
*
6755410 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
6755429 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
6755448 TGCGATT
1 TGCGATT
6755455 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:6756033 original size:20 final size:20
Alignment explanation
Indices: 6756005--6756056 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
6755995 CGCTAAGTAA
* *
6756005 ATCGCGTTGCGAAAGTCAGT
1 ATCGTGTTGCGAAAGTAAGT
6756025 ATCGTGTTGCGAAAGTAAGT
1 ATCGTGTTGCGAAAGTAAGT
6756045 ATC-TCGTTGCGA
1 ATCGT-GTTGCGA
6756057 TTTTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (20 bp):
ATCGTGTTGCGAAAGTAAGT
Found at i:6756111 original size:20 final size:20
Alignment explanation
Indices: 6756067--6756159 Score: 105
Period size: 20 Copynumber: 4.5 Consensus size: 20
6756057 TTTTTTATTA
*
6756067 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
**
6756088 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
6756108 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACCAAT
* **
6756129 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
6756149 TCGCATTGCGA
1 TCGCATTGCGA
6756160 ATTGGGAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 33 0.55
21 27 0.45
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:6756112 original size:41 final size:41
Alignment explanation
Indices: 6756060--6756162 Score: 174
Period size: 41 Copynumber: 2.6 Consensus size: 41
6756050 GTTGCGATTT
*
6756060 TTTA-TTA-TCGCATTGCGATTTTCCCAATTCGCATTGCGA
1 TTTACTTATTCGCATTGCGAATTTCCCAATTCGCATTGCGA
*
6756099 TTTACTTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGA
1 TTTACTTATTCGCATTGCGAATTTCCCAATTCGCATTGCGA
6756140 TTTACTTATTCGCATTGCGAATT
1 TTTACTTATTCGCATTGCGAATT
6756163 GGGAAAATCG
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 4 0.07
40 3 0.05
41 53 0.88
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (41 bp):
TTTACTTATTCGCATTGCGAATTTCCCAATTCGCATTGCGA
Found at i:6761423 original size:29 final size:29
Alignment explanation
Indices: 6761388--6761451 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
6761378 AAAAATTCGG
*
6761388 TTAATTCTGTTCGGTTAAAAATTTTCAAA
1 TTAATTCGGTTCGGTTAAAAATTTTCAAA
*
6761417 TTAATTCGGTTCGGTTAATAATTTTCAAA
1 TTAATTCGGTTCGGTTAAAAATTTTCAAA
*
6761446 TAAATT
1 TTAATT
6761452 TTGGTTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (29 bp):
TTAATTCGGTTCGGTTAAAAATTTTCAAA
Found at i:6761561 original size:29 final size:29
Alignment explanation
Indices: 6761527--6761744 Score: 186
Period size: 29 Copynumber: 7.4 Consensus size: 29
6761517 AAAAAATCAG
*
6761527 TTAATTTGGTTCGGTTATTAATTTTCAAA
1 TTAATTTGGTTCGGTTAATAATTTTCAAA
* *
6761556 TTAATTCGGTTCGGTTATTAATTTTCAAA
1 TTAATTTGGTTCGGTTAATAATTTTCAAA
* *
6761585 TTAATTCGGTTCGGTTAAAAATTTTCAAA
1 TTAATTTGGTTCGGTTAATAATTTTCAAA
* * * ****
6761614 TAAATTTTGGTTCGATTAACCGAATTTTTTTT
1 TTAA-TTTGGTTCGGTTAA--TAATTTTCAAA
* ** *
6761646 TTGA-TTAATTCGGTTAATAATTTTTTAAA
1 TTAATTTGGTTCGGTTAATAA-TTTTCAAA
** * *
6761675 AAAATTCGGTTCGATTAATAATTTTCAAA
1 TTAATTTGGTTCGGTTAATAATTTTCAAA
*
6761704 TTAATTTGGGTCGGTTAATAATTTTCAAA
1 TTAATTTGGTTCGGTTAATAATTTTCAAA
*
6761733 TAAATTTTGGTT
1 TTAA-TTTGGTT
6761745 TGATTAACCA
Statistics
Matches: 148, Mismatches: 35, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
28 2 0.01
29 98 0.66
30 40 0.27
32 8 0.05
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (29 bp):
TTAATTTGGTTCGGTTAATAATTTTCAAA
Found at i:6761698 original size:119 final size:118
Alignment explanation
Indices: 6761536--6761753 Score: 337
Period size: 119 Copynumber: 1.8 Consensus size: 118
6761526 GTTAATTTGG
* ** * * *
6761536 TTCGGTTATTAATTTTCAAATTAATTCGGTTCGGTTATTAATTTTCAAATTAATTCGGTTCGGTT
1 TTCGGTTAATAATTTTCAAAAAAATTCGGTTCGATTAATAATTTTCAAATTAATTCGGGTCGGTT
6761601 AAAAATTTTCAAATAAATTTTGGTTCGATTAACCGAATTTTTTTTTTGATTAA
66 AAAAATTTTCAAATAAATTTTGGTTCGATTAACCGAATTTTTTTTTTGATTAA
* *
6761654 TTCGGTTAATAATTTTTTAAAAAAATTCGGTTCGATTAATAATTTTCAAATTAATTTGGGTCGGT
1 TTCGGTTAATAA-TTTTCAAAAAAATTCGGTTCGATTAATAATTTTCAAATTAATTCGGGTCGGT
* *
6761719 TAATAATTTTCAAATAAATTTTGGTTTGATTAACC
65 TAAAAATTTTCAAATAAATTTTGGTTCGATTAACC
6761754 AAACCGAATT
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
118 11 0.12
119 78 0.88
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (118 bp):
TTCGGTTAATAATTTTCAAAAAAATTCGGTTCGATTAATAATTTTCAAATTAATTCGGGTCGGTT
AAAAATTTTCAAATAAATTTTGGTTCGATTAACCGAATTTTTTTTTTGATTAA
Found at i:6761873 original size:67 final size:69
Alignment explanation
Indices: 6761747--6761894 Score: 203
Period size: 67 Copynumber: 2.2 Consensus size: 69
6761737 TTTTGGTTTG
* * * *
6761747 ATTAACCAAACCGAATTAACCAAATGTTTTTCTTTAACCGTTAATTGAACAAAATTTTATTTGAA
1 ATTAACCAAACCAAAATAACCAAATGTTTTTCTTTAACCATTAATCGAACAAAATTTTATTTGAA
6761812 AATT
66 AATT
* *
6761816 ATTAACCAAACCAAAATAACC-GAT-TTTTTCTTTAACCATTAATCGAACCAAAA-TTTATTTTA
1 ATTAACCAAACCAAAATAACCAAATGTTTTTCTTTAACCATTAATCGAA-CAAAATTTTATTTGA
6761878 AAATT
65 AAATT
*
6761883 ATTAACTAAACC
1 ATTAACCAAACC
6761895 GTACAAATTT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
67 45 0.63
68 7 0.10
69 19 0.27
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.36
Consensus pattern (69 bp):
ATTAACCAAACCAAAATAACCAAATGTTTTTCTTTAACCATTAATCGAACAAAATTTTATTTGAA
AATT
Found at i:6763037 original size:14 final size:15
Alignment explanation
Indices: 6763018--6763047 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6763008 ATAACCATTT
*
6763018 CAAAAACAATTTATG
1 CAAAAAAAATTTATG
6763033 CAAAAAAAATTTATG
1 CAAAAAAAATTTATG
6763048 TATGAGATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.27
Consensus pattern (15 bp):
CAAAAAAAATTTATG
Found at i:6770845 original size:20 final size:20
Alignment explanation
Indices: 6770822--6770954 Score: 65
Period size: 22 Copynumber: 6.0 Consensus size: 20
6770812 GTATTATATT
6770822 ATATAGTATAATAATTTTT-A
1 ATATA-TATAATAATTTTTGA
*
6770842 ATATACTAT-ATAGTTTTTGA
1 ATATA-TATAATAATTTTTGA
* *
6770862 AAATATATAATATAGATTTTGA
1 ATATATATAATA-A-TTTTTGA
*
6770884 A-AGCATATTATATAATTTTTGAA
1 ATA-TATA-TA-ATAATTTTTG-A
6770907 ATATATATATATAATATTATTTGAAA
1 ATATATATA-AT-A-ATT-TTTG--A
*
6770933 ATATATATAATATAGTTTTGA
1 ATATATATAATA-ATTTTTGA
6770954 A
1 A
6770955 AATGTATTAT
Statistics
Matches: 91, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
19 11 0.12
20 16 0.18
21 3 0.03
22 20 0.22
23 13 0.14
24 11 0.12
25 6 0.07
26 11 0.12
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.46
Consensus pattern (20 bp):
ATATATATAATAATTTTTGA
Found at i:6770875 original size:24 final size:23
Alignment explanation
Indices: 6770842--6770967 Score: 127
Period size: 22 Copynumber: 5.5 Consensus size: 23
6770832 ATAATTTTTA
6770842 ATATACTATATAGTTTTTGAAAAT
1 ATATA-TATATAGTTTTTGAAAAT
* **
6770866 ATATA-ATATAGATTTTGAAAGC
1 ATATATATATAGTTTTTGAAAAT
*
6770888 ATAT-TATATAATTTTTGAAATAT
1 ATATATATATAGTTTTTGAAA-AT
6770911 ATATATATAATA-TTATTTGAAAAT
1 ATATATAT-ATAGTT-TTTGAAAAT
6770935 ATATATAATATAG-TTTTGAAAAT
1 ATATAT-ATATAGTTTTTGAAAAT
*
6770958 GTAT-TATATA
1 ATATATATATA
6770968 CTATTTTTAC
Statistics
Matches: 87, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
21 5 0.06
22 32 0.37
23 16 0.18
24 22 0.25
25 12 0.14
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (23 bp):
ATATATATATAGTTTTTGAAAAT
Found at i:6770940 original size:44 final size:44
Alignment explanation
Indices: 6770821--6770943 Score: 114
Period size: 44 Copynumber: 2.8 Consensus size: 44
6770811 AGTATTATAT
* *
6770821 TATATAGTATAATAATT-TTT-AATATACTATATAGTTTTTGAAAA
1 TATATA-TATAAT-ATTATTTGAAAATACTATATAATTTTTGAAAA
* *
6770865 TATATA-AT-ATA-GATTTTGAAAGCATATTATATAATTTTTGAAATA
1 TATATATATAATATTA-TTTGAAA--ATACTATATAATTTTTGAAA-A
6770910 TATATATATAATATTATTTGAAAATA-TATATAAT
1 TATATATATAATATTATTTGAAAATACTATATAAT
6770944 ATAGTTTTGA
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
40 1 0.02
41 5 0.08
42 4 0.06
44 32 0.49
45 10 0.15
46 2 0.03
47 10 0.15
48 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (44 bp):
TATATATATAATATTATTTGAAAATACTATATAATTTTTGAAAA
Found at i:6772447 original size:20 final size:20
Alignment explanation
Indices: 6772424--6772462 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6772414 GTTTTGCAGT
*
6772424 ATTTTATATTCTTT-TTTTAA
1 ATTTT-TATTATTTATTTTAA
6772444 ATTTTTATTATTTATTTTA
1 ATTTTTATTATTTATTTTA
6772463 TTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTATTATTTATTTTAA
Found at i:6773224 original size:22 final size:22
Alignment explanation
Indices: 6773183--6773225 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6773173 TTTCAATATG
*
6773183 CATATATATATATATTTCATGA
1 CATATATATATATATGTCATGA
6773205 CATATATATA-ATCATGTCATG
1 CATATATATATAT-ATGTCATG
6773226 CACACATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (22 bp):
CATATATATATATATGTCATGA
Found at i:6773456 original size:15 final size:15
Alignment explanation
Indices: 6773436--6773470 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
6773426 CCGTAGGACC
6773436 ACTACGTCCCAAAGG
1 ACTACGTCCCAAAGG
*
6773451 ACTACGTCCCGAAGG
1 ACTACGTCCCAAAGG
6773466 ACTAC
1 ACTAC
6773471 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.34, G:0.20, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCAAAGG
Found at i:6777278 original size:2 final size:2
Alignment explanation
Indices: 6777271--6777336 Score: 111
Period size: 2 Copynumber: 34.5 Consensus size: 2
6777261 ATCAAATTAT
6777271 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6777311 TA TA TA TA TA TA TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6777337 TTCCAATGAT
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 58 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6777292 original size:19 final size:19
Alignment explanation
Indices: 6777268--6777336 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
6777258 TCAATCAAAT
6777268 TATTATATATATATATATA
1 TATTATATATATATATATA
6777287 TATTATATATATATATATA
1 TATTATATATATATATATA
6777306 TA-TA-ATATATATATATA
1 TATTATATATATATATATA
6777323 TATTATATATATAT
1 TATTATATATATAT
6777337 TTCCAATGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 15 0.31
18 4 0.08
19 29 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTATATATATATATATA
Found at i:6777295 original size:17 final size:17
Alignment explanation
Indices: 6777273--6777336 Score: 110
Period size: 17 Copynumber: 3.6 Consensus size: 17
6777263 CAAATTATTA
6777273 TATATATATATATATAT
1 TATATATATATATATAT
6777290 TATATATATATATATAT
1 TATATATATATATATAT
6777307 ATAATATATATATATATAT
1 -T-ATATATATATATATAT
6777326 TATATATATAT
1 TATATATATAT
6777337 TTCCAATGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 27 0.60
18 2 0.04
19 16 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:6778800 original size:18 final size:19
Alignment explanation
Indices: 6778779--6778814 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6778769 TCCCTGGGAA
6778779 TTTAAAA-AAAAAACTTTG
1 TTTAAAACAAAAAACTTTG
*
6778797 TTTAAAACAAAATACTTT
1 TTTAAAACAAAAAACTTT
6778815 AATTTACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (19 bp):
TTTAAAACAAAAAACTTTG
Found at i:6779155 original size:22 final size:22
Alignment explanation
Indices: 6779115--6779156 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6779105 CAATATGCAT
*
6779115 ATATATATATATATTTCATGAC
1 ATATATATATATATGTCATGAC
6779137 ATATATATA-ATCATGTCATG
1 ATATATATATAT-ATGTCATG
6779157 CACACATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (22 bp):
ATATATATATATATGTCATGAC
Found at i:6779387 original size:15 final size:15
Alignment explanation
Indices: 6779367--6779401 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
6779357 CCGTAGGACC
6779367 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
*
6779382 ACTACGTCCTGAAGG
1 ACTACGTCCCGAAGG
6779397 ACTAC
1 ACTAC
6779402 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:6780103 original size:18 final size:18
Alignment explanation
Indices: 6780080--6780120 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
6780070 CCCAGGGGGA
6780080 ATCATCTATAACTCAACT
1 ATCATCTATAACTCAACT
6780098 ATCATCTATAACTCAACT
1 ATCATCTATAACTCAACT
6780116 ATCAT
1 ATCAT
6780121 AGGGTATCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (18 bp):
ATCATCTATAACTCAACT
Found at i:6787011 original size:20 final size:20
Alignment explanation
Indices: 6786982--6787024 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
6786972 TCGATGTTAA
6786982 ACCT-TTGGTAAT-GATACCC
1 ACCTGTTGGT-ATCGATACCC
6787001 ACCTGTTGGTATCGATACCC
1 ACCTGTTGGTATCGATACCC
6787021 -CCTG
1 ACCTG
6787025 ATTGATGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (20 bp):
ACCTGTTGGTATCGATACCC
Found at i:6787899 original size:82 final size:80
Alignment explanation
Indices: 6787801--6788149 Score: 333
Period size: 82 Copynumber: 4.2 Consensus size: 80
6787791 TGTTTTTCGA
* *
6787801 ACAAACGCCGCTAAATACTAATACTTTTGTGGCGCTTTTATACAAACGCCGCTAAAGACTGTACT
1 ACAAACGCCGCTAAAGACTAATACTTTTGTGGCGTTTTTATACAAACGCCGCTAAAGACTGTACT
6787866 TTAGTGGCATTTTTCT
66 TTAGTGGCATTTTT-T
* * * * * * * * *
6787882 ACAAACGCCGCCAAAATAC-AAT-CTTTAGTGGCGTTTTCAAAACAAATGCCGCTATATATTAGT
1 ACAAACGCCG-CTAAAGACTAATACTTTTGTGGCGTTTT-TATACAAACGCCGCTAAAGACT-GT
*
6787945 ACTTTAGTGGCGTTTTTT
63 ACTTTAGTGGCATTTTTT
* * * * * * *
6787963 GAACAGACGCCGCTATAGACTAGTACTTTTGTTGCGTTTTTATACAAACGCTGCTAAAATATTGT
1 --ACAAACGCCGCTAAAGACTAATACTTTTGTGGCGTTTTTATACAAACGCCGCT-AAAGACTGT
* *
6788028 ACTTTAGTGGCGTTTTTGA
63 ACTTTAGTGGCATTTTT-T
* * * * *
6788047 ACAAACGCCTCTATAGACTAGTACTTTCGTGGCGTTTTTATACAAACGCCGCTAAAGTACTGTAG
1 ACAAACGCCGCTAAAGACTAATACTTTTGTGGCGTTTTTATACAAACGCCGCTAAAG-ACTGTAC
6788112 TTTAGTGGCATTTTTT
65 TTTAGTGGCATTTTTT
* *
6788128 GAACAAACACCGCTATAGACTA
1 --ACAAACGCCGCTAAAGACTA
6788150 GGAATGGCAG
Statistics
Matches: 221, Mismatches: 35, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
80 13 0.06
81 33 0.15
82 97 0.44
83 59 0.27
84 19 0.09
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (80 bp):
ACAAACGCCGCTAAAGACTAATACTTTTGTGGCGTTTTTATACAAACGCCGCTAAAGACTGTACT
TTAGTGGCATTTTTT
Found at i:6787955 original size:42 final size:41
Alignment explanation
Indices: 6787785--6788150 Score: 294
Period size: 41 Copynumber: 8.9 Consensus size: 41
6787775 GCGGTATTTC
* * * * *
6787785 TAGTGGTGTTTTTCGAACAAACGCCGCTAAATACTAATACTT
1 TAGTGGCGTTTTT-AAACAAACGCCGCTATAGACTAGTACTT
* * * *
6787827 TTGTGGCGCTTTTATACAAACGCCGCTAAAGACT-GTACTT
1 TAGTGGCGTTTTTAAACAAACGCCGCTATAGACTAGTACTT
* ** * * **
6787867 TAGTGGCATTTTTCTACAAACGCCGCCA-A-AATACAATCTT
1 TAGTGGCGTTTTTAAACAAACGCCGCTATAGACTAGTA-CTT
* * * *
6787907 TAGTGGCGTTTTCAAAACAAATGCCGCTATATATTAGTACTT
1 TAGTGGCGTTTT-TAAACAAACGCCGCTATAGACTAGTACTT
* *
6787949 TAGTGGCGTTTTTTGAACAGACGCCGCTATAGACTAGTACTT
1 TAGTGGCG-TTTTTAAACAAACGCCGCTATAGACTAGTACTT
* * * * *
6787991 TTGTTGCGTTTTTATACAAACGCTGCTA-A-AATATTGTACTT
1 TAGTGGCGTTTTTAAACAAACGCCGCTATAGACTA--GTACTT
* *
6788032 TAGTGGCGTTTTTGAACAAACGCCTCTATAGACTAGTACTT
1 TAGTGGCGTTTTTAAACAAACGCCGCTATAGACTAGTACTT
* * * *
6788073 TCGTGGCGTTTTTATACAAACGCCGCTAAAGTACT-GTAGTT
1 TAGTGGCGTTTTTAAACAAACGCCGCTATAG-ACTAGTACTT
* * *
6788114 TAGTGGCATTTTTTGAACAAACACCGCTATAGACTAG
1 TAGTGGC-GTTTTTAAACAAACGCCGCTATAGACTAG
6788151 GAATGGCAGA
Statistics
Matches: 255, Mismatches: 56, Indels: 26
0.76 0.17 0.08
Matches are distributed among these distances:
38 2 0.01
39 5 0.02
40 43 0.17
41 119 0.47
42 75 0.29
43 11 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
TAGTGGCGTTTTTAAACAAACGCCGCTATAGACTAGTACTT
Found at i:6788118 original size:165 final size:164
Alignment explanation
Indices: 6787785--6788150 Score: 423
Period size: 165 Copynumber: 2.2 Consensus size: 164
6787775 GCGGTATTTC
* * * * *
6787785 TAGTGGTGTTTTTCGAACAAACGCCGCTAAATACTAATACTTTTGTGGCGCTTTTATACAAACGC
1 TAGTGGCGTTTTTTGAACAAACGCCGCTATAGACTAGTACTTTTGTGGCGCTTTTATACAAACGC
*
6787850 CGCTAAAGACTGTACTTTAGTGGCATTTTTCTACAAACGCCGCCAAAATACAATCTTTAGTGGCG
66 CGCTAAAGACTGTACTTTAGTGGCATTTTTCAACAAACGCCGCCAAAATACAATCTTTAGTGGCG
* * *
6787915 TTTTCAAAACAAATGCCGCTATATATTAGTACTT
131 TTTTCAAAACAAACGCCGCTAAATACTAGTACTT
* * *
6787949 TAGTGGCGTTTTTTGAACAGACGCCGCTATAGACTAGTACTTTTGTTGCGTTTTTATACAAACGC
1 TAGTGGCGTTTTTTGAACAAACGCCGCTATAGACTAGTACTTTTGTGGCGCTTTTATACAAACGC
* * * * * * * * * * *
6788014 TGCTAAAATATTGTACTTTAGTGGCGTTTTTGAACAAACGCC-TCTATAGACTAGTACTTTCGTG
66 CGCT-AAAGACTGTACTTTAGTGGCATTTTTCAACAAACGCCGCCAAAATAC-AAT-CTTTAGTG
* * *
6788078 GCGTTTT-TATACAAACGCCGCTAAAGTACT-GTAGTT
128 GCGTTTTCAAAACAAACGCCGCTAAA-TACTAGTACTT
* *
6788114 TAGTGGCATTTTTTGAACAAACACCGCTATAGACTAG
1 TAGTGGCGTTTTTTGAACAAACGCCGCTATAGACTAG
6788151 GAATGGCAGA
Statistics
Matches: 169, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
164 65 0.38
165 87 0.51
166 17 0.10
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (164 bp):
TAGTGGCGTTTTTTGAACAAACGCCGCTATAGACTAGTACTTTTGTGGCGCTTTTATACAAACGC
CGCTAAAGACTGTACTTTAGTGGCATTTTTCAACAAACGCCGCCAAAATACAATCTTTAGTGGCG
TTTTCAAAACAAACGCCGCTAAATACTAGTACTT
Found at i:6788127 original size:124 final size:121
Alignment explanation
Indices: 6787785--6788126 Score: 398
Period size: 124 Copynumber: 2.8 Consensus size: 121
6787775 GCGGTATTTC
* * * * *
6787785 TAGTGGTGTTTTTCGAACAAACGCCGCTAAATACTAATACTTTTGTGGCGCTTTTATACAAACGC
1 TAGTGGCGTTTTT-GAACAAACGCCGCTATATACTAGTACTTTAGTGGCGTTTTTATACAAACGC
*
6787850 CGCTAAAGACTGTACTTTAGTGGCATTTTTCTACAAACGCCGCCAAAATACAATCTT
65 CGCTAAAGACTGTACTTTAGTGGCATTTTTATACAAACGCCGCCAAAATACAATCTT
** * * *
6787907 TAGTGGCGTTTTCAAAACAAATGCCGCTATATATTAGTACTTTAGTGGCGTTTTT-TGAACAGAC
1 TAGTGGCGTTTT-TGAACAAACGCCGCTATATACTAGTACTTTAGTGGCGTTTTTAT--ACAAAC
* * * * * * ***
6787971 GCCGCTATAGACTAGTACTTTTGTTGCGTTTTTATACAAACGCTGCTAAAATATTGTACTT
63 GCCGCTAAAGACT-GTACTTTAGTGGCATTTTTATACAAACGCCGCCAAAATACAAT-CTT
* * *
6788032 TAGTGGCGTTTTTGAACAAACGCCTCTATAGACTAGTACTTTCGTGGCGTTTTTATACAAACGCC
1 TAGTGGCGTTTTTGAACAAACGCCGCTATATACTAGTACTTTAGTGGCGTTTTTATACAAACGCC
*
6788097 GCTAAAGTACTGTAGTTTAGTGGCATTTTT
66 GCTAAAG-ACTGTACTTTAGTGGCATTTTT
6788127 TGAACAAACA
Statistics
Matches: 180, Mismatches: 33, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
121 1 0.01
122 45 0.25
123 46 0.26
124 72 0.40
125 16 0.09
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (121 bp):
TAGTGGCGTTTTTGAACAAACGCCGCTATATACTAGTACTTTAGTGGCGTTTTTATACAAACGCC
GCTAAAGACTGTACTTTAGTGGCATTTTTATACAAACGCCGCCAAAATACAATCTT
Found at i:6790462 original size:14 final size:14
Alignment explanation
Indices: 6790443--6790512 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 14
6790433 TGGATGAGGT
6790443 AAATTGTGATATGG
1 AAATTGTGATATGG
*
6790457 AAATTGTGATGTTTGG
1 AAATTGTGA--TATGG
*
6790473 -AACTGTTGGATGA-GG
1 AAATTG-T-GAT-ATGG
6790488 TAAATTGTGATATGG
1 -AAATTGTGATATGG
6790503 AAATTGTGAT
1 AAATTGTGAT
6790513 GTTTGGAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
14 20 0.45
15 12 0.27
16 6 0.14
17 6 0.14
ACGTcount: A:0.31, C:0.01, G:0.30, T:0.37
Consensus pattern (14 bp):
AAATTGTGATATGG
Found at i:6790475 original size:46 final size:46
Alignment explanation
Indices: 6790408--6790533 Score: 243
Period size: 46 Copynumber: 2.7 Consensus size: 46
6790398 TTGGAACTGT
6790408 TGGAAATTGTGATGTTTGGAACTGTTGGATGAGGTAAATTGTGATA
1 TGGAAATTGTGATGTTTGGAACTGTTGGATGAGGTAAATTGTGATA
6790454 TGGAAATTGTGATGTTTGGAACTGTTGGATGAGGTAAATTGTGATA
1 TGGAAATTGTGATGTTTGGAACTGTTGGATGAGGTAAATTGTGATA
*
6790500 TGGAAATTGTGATGTTTGGAACTGTTGGTTGAGG
1 TGGAAATTGTGATGTTTGGAACTGTTGGATGAGG
6790534 AATCATTATA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.02, G:0.34, T:0.37
Consensus pattern (46 bp):
TGGAAATTGTGATGTTTGGAACTGTTGGATGAGGTAAATTGTGATA
Found at i:6791948 original size:2 final size:2
Alignment explanation
Indices: 6791943--6791976 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6791933 CCTCCCCCCC
*
6791943 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6791977 TAAGCTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6794649 original size:43 final size:43
Alignment explanation
Indices: 6794579--6794904 Score: 211
Period size: 43 Copynumber: 7.7 Consensus size: 43
6794569 AATATGCAAA
* *
6794579 GCTATAGATCTGACATTTTGCGACGTTTG-ACATAAAAAACACC
1 GCTATAGATCTGACCTTTTGCGACGTTTGTTC-TAAAAAACACC
* * * *
6794622 GCTATAGATCTGTCCTTTTACGGCGTTTGTTCT--AAAACGCC
1 GCTATAGATCTGACCTTTTGCGACGTTTGTTCTAAAAAACACC
* *
6794663 GCTATAGATATTGACCTTTTGCGGCGTTTGTTCTAAAAAA-ACC
1 GCTATAGAT-CTGACCTTTTGCGACGTTTGTTCTAAAAAACACC
* *
6794706 GCTATAGATCTGACTTTTTGCGACGTTTG-T-TAAAAAACGCC
1 GCTATAGATCTGACCTTTTGCGACGTTTGTTCTAAAAAACACC
* * * * * * * *
6794747 GCTATAAATATCGACCTTTTGTGGCATTTTTTC-CAAAAACGCC
1 GCTATAGATCT-GACCTTTTGCGACGTTTGTTCTAAAAAACACC
* * * * * *
6794790 GCTATAGATATCAACTTTTTGCGGCGTTTGTTC-CAAAAACGCC
1 GCTATAGATCT-GACCTTTTGCGACGTTTGTTCTAAAAAACACC
* * * * * * * *
6794833 GTTATAGATATCAACATTTTGCGGCATTTGTTC-CAAAAACGCC
1 GCTATAGATCT-GACCTTTTGCGACGTTTGTTCTAAAAAACACC
* * * *
6794876 GCGATAGATCTTGAGCTATTGCGGCGTTT
1 GCTATAGATC-TGACCTTTTGCGACGTTT
6794905 TATGTTCTCA
Statistics
Matches: 235, Mismatches: 39, Indels: 18
0.80 0.13 0.06
Matches are distributed among these distances:
40 7 0.03
41 28 0.12
42 51 0.22
43 143 0.61
44 6 0.03
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (43 bp):
GCTATAGATCTGACCTTTTGCGACGTTTGTTCTAAAAAACACC
Found at i:6794810 original size:127 final size:126
Alignment explanation
Indices: 6794579--6794855 Score: 331
Period size: 127 Copynumber: 2.2 Consensus size: 126
6794569 AATATGCAAA
* * *
6794579 GCTATAGATCTGACATTTTGCGACGTTTGACATAAAAAACACCGCTATAGATCTGTCCTTTTACG
1 GCTATAGATCTGACATTTTGCGACGTTTGA-ATAAAAAACACCGCTATAAATATGACCTTTTACG
* * ** *
6794644 GCGTTTGTTCTAAAACGCCGCTATAGATATTGACCTTTTGCGGCGTTTGTTCTAAAAAAACC
65 GCATTTGTTCAAAAACGCCGCTATAGATATCAACCTTTTGCGGCGTTTGTTCCAAAAAAACC
* * * **
6794706 GCTATAGATCTGACTTTTTGCGACGTTTG-TTAAAAAACGCCGCTATAAATATCGACCTTTTGTG
1 GCTATAGATCTGACATTTTGCGACGTTTGAATAAAAAACACCGCTATAAATAT-GACCTTTTACG
* * **
6794770 GCATTTTTTCCAAAAACGCCGCTATAGATATCAACTTTTTGCGGCGTTTGTTCCAAAAACGCC
65 GCATTTGTT-CAAAAACGCCGCTATAGATATCAACCTTTTGCGGCGTTTGTTCCAAAAAAACC
* * *
6794833 GTTATAGATATCAACATTTTGCG
1 GCTATAGATCT-GACATTTTGCG
6794856 GCATTTGTTC
Statistics
Matches: 126, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
125 19 0.15
126 15 0.12
127 83 0.66
128 9 0.07
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
GCTATAGATCTGACATTTTGCGACGTTTGAATAAAAAACACCGCTATAAATATGACCTTTTACGG
CATTTGTTCAAAAACGCCGCTATAGATATCAACCTTTTGCGGCGTTTGTTCCAAAAAAACC
Found at i:6794898 original size:86 final size:84
Alignment explanation
Indices: 6794613--6794904 Score: 343
Period size: 84 Copynumber: 3.4 Consensus size: 84
6794603 GTTTGACATA
* * * * * *
6794613 AAAAACACCGCTATAGATCTGTCCTTTTACGGCGTTTGTTCTAAAACGCCGCTATAGATATTGAC
1 AAAAACGCCGCTATAGATCTGACTTTTTGCGGCGTTTGTTCAAAAACGCCGCTATAGATATCGAC
* *
6794678 CTTTTGCGGCGTTTGTTCT
66 CTTTTGCGGCATTTGTTCC
** * * *
6794697 AAAAAAACCGCTATAGATCTGACTTTTTGCGACGTTTGTTAAAAAACGCCGCTATAAATATCGAC
1 AAAAACGCCGCTATAGATCTGACTTTTTGCGGCGTTTGTTCAAAAACGCCGCTATAGATATCGAC
* *
6794762 CTTTTGTGGCATTTTTTCC
66 CTTTTGCGGCATTTGTTCC
* * * *
6794781 AAAAACGCCGCTATAGATATCAACTTTTTGCGGCGTTTGTTCCAAAAACGCCGTTATAGATATCA
1 AAAAACGCCGCTATAGATCT-GACTTTTTGCGGCGTTTGTT-CAAAAACGCCGCTATAGATATCG
*
6794846 ACATTTTGCGGCATTTGTTCC
64 ACCTTTTGCGGCATTTGTTCC
* *
6794867 AAAAACGCCGCGATAGATCTTGAGC-TATTGCGGCGTTT
1 AAAAACGCCGCTATAGATC-TGA-CTTTTTGCGGCGTTT
6794905 TATGTTCTCA
Statistics
Matches: 175, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
84 88 0.50
85 18 0.10
86 67 0.38
87 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (84 bp):
AAAAACGCCGCTATAGATCTGACTTTTTGCGGCGTTTGTTCAAAAACGCCGCTATAGATATCGAC
CTTTTGCGGCATTTGTTCC
Found at i:6795813 original size:22 final size:23
Alignment explanation
Indices: 6795780--6795856 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 23
6795770 GATAATTAAT
*
6795780 TTAGATTCTTAATAAAATGGTGG
1 TTAGATTTTTAATAAAATGGTGG
* **
6795803 TTAG-TTTTTAAT-ATATAAT--
1 TTAGATTTTTAATAAAATGGTGG
*
6795822 TTAGATTCTTAATAAAATGGTGG
1 TTAGATTTTTAATAAAATGGTGG
6795845 TT-GATTTTTAAT
1 TTAGATTTTTAAT
6795857 GTATAATTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 9
0.69 0.15 0.15
Matches are distributed among these distances:
19 4 0.10
20 7 0.17
21 8 0.20
22 16 0.39
23 6 0.15
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.48
Consensus pattern (23 bp):
TTAGATTTTTAATAAAATGGTGG
Found at i:6795823 original size:42 final size:42
Alignment explanation
Indices: 6795776--6795869 Score: 163
Period size: 42 Copynumber: 2.2 Consensus size: 42
6795766 TTAAGATAAT
6795776 TAATTTAGATTCTTAATAAAATGGTGGTT-AGTTTTTAATATA
1 TAATTTAGATTCTTAATAAAATGGTGGTTGA-TTTTTAATATA
*
6795818 TAATTTAGATTCTTAATAAAATGGTGGTTGATTTTTAATGTA
1 TAATTTAGATTCTTAATAAAATGGTGGTTGATTTTTAATATA
6795860 TAATTTAGAT
1 TAATTTAGAT
6795870 CATTTAAAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (42 bp):
TAATTTAGATTCTTAATAAAATGGTGGTTGATTTTTAATATA
Found at i:6797563 original size:2 final size:2
Alignment explanation
Indices: 6797556--6797626 Score: 124
Period size: 2 Copynumber: 35.5 Consensus size: 2
6797546 AAACCAATTG
* *
6797556 AT AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6797598 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 A
6797627 ATGGCATGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6800553 original size:3 final size:3
Alignment explanation
Indices: 6800547--6800588 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
6800537 TAGTGGTGTT
*
6800547 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6800589 TAAAGAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6801818 original size:40 final size:40
Alignment explanation
Indices: 6801773--6801853 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
6801763 AAATACGTCC
6801773 ATTAAGAAACATAATGAAGTAAACTAAGGAATAACTAAAT
1 ATTAAGAAACATAATGAAGTAAACTAAGGAATAACTAAAT
6801813 ATTAAGAAACATAATGAAGTAAACTAAGGAATAACTAAAT
1 ATTAAGAAACATAATGAAGTAAACTAAGGAATAACTAAAT
6801853 A
1 A
6801854 CATGATAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.22
Consensus pattern (40 bp):
ATTAAGAAACATAATGAAGTAAACTAAGGAATAACTAAAT
Found at i:6802856 original size:27 final size:27
Alignment explanation
Indices: 6802799--6802862 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
6802789 GATAATGACT
* *
6802799 CTGAATCATTCAGAATGTACTTCTATG
1 CTGAATCATTCAAAATGTACTTCTATA
* * *
6802826 CTGAATTATTCAAAATGTACTTTTGTA
1 CTGAATCATTCAAAATGTACTTCTATA
6802853 CTGAATCATT
1 CTGAATCATT
6802863 TAGCACTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (27 bp):
CTGAATCATTCAAAATGTACTTCTATA
Found at i:6804229 original size:101 final size:102
Alignment explanation
Indices: 6804054--6804256 Score: 390
Period size: 101 Copynumber: 2.0 Consensus size: 102
6804044 GTAGCATTTG
6804054 CACACCCATTATTTTGGGGAAAATTTTAAATCTAGTTTAATTTGTTAGTGGAAATAGAAAAAATA
1 CACACCCATTATTTTGGGGAAAATTTTAAATCTAGTTTAATTTGTTAGTGGAAATAGAAAAAATA
6804119 AGGAAATTTGCATA-CCCTTTTTTTAAAAAAAATAGA
66 AGGAAATTTGCATACCCCTTTTTTTAAAAAAAATAGA
*
6804155 CACACCCATTATTTTTGGGAAAATTTTAAATCTAGTTTAATTTGTTAGTGGAAATAGAAAAAATA
1 CACACCCATTATTTTGGGGAAAATTTTAAATCTAGTTTAATTTGTTAGTGGAAATAGAAAAAATA
6804220 AGGAAATTTGCATACCCCTTTTTTTAAAAAAAATAGA
66 AGGAAATTTGCATACCCCTTTTTTTAAAAAAAATAGA
6804257 TTATTATAAT
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
101 78 0.78
102 22 0.22
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (102 bp):
CACACCCATTATTTTGGGGAAAATTTTAAATCTAGTTTAATTTGTTAGTGGAAATAGAAAAAATA
AGGAAATTTGCATACCCCTTTTTTTAAAAAAAATAGA
Found at i:6804895 original size:67 final size:67
Alignment explanation
Indices: 6804802--6804935 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 67
6804792 GATAAAGCAT
*
6804802 ATACAACCCACCATACCTCTTGAGTAGATAAAGCATTAGAAGTGTATACAACCAAAAATACCAAT
1 ATACAACCCACCATACCTCTTGAGTAGAAAAAGCATTAGAAGTGTATACAACCAAAAATACCAAT
6804867 GC
66 GC
*
6804869 ATACAACCCACCATACCTCTTGAGTAGAAAAAGCATTAGAAGTGTATACAACCAAAAATACCTAT
1 ATACAACCCACCATACCTCTTGAGTAGAAAAAGCATTAGAAGTGTATACAACCAAAAATACCAAT
6804934 GC
66 GC
6804936 TACCAGAACT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.21
Consensus pattern (67 bp):
ATACAACCCACCATACCTCTTGAGTAGAAAAAGCATTAGAAGTGTATACAACCAAAAATACCAAT
GC
Found at i:6823944 original size:23 final size:23
Alignment explanation
Indices: 6823925--6823970 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6823915 GTCCTTCAGG
*
6823925 ACAAAATTATGTGGCACTTCGGT
1 ACAAAACTATGTGGCACTTCGGT
*
6823948 ACAAACCTATGTGGCACTTCGGT
1 ACAAAACTATGTGGCACTTCGGT
6823971 GTAAACCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
ACAAAACTATGTGGCACTTCGGT
Found at i:6823992 original size:23 final size:23
Alignment explanation
Indices: 6823932--6823983 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
6823922 AGGACAAAAT
6823932 TATGTGGCACTTCGGTACAAACC
1 TATGTGGCACTTCGGTACAAACC
**
6823955 TATGTGGCACTTCGGTGTAAACC
1 TATGTGGCACTTCGGTACAAACC
6823978 TATGTG
1 TATGTG
6823984 CTTCTTCGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (23 bp):
TATGTGGCACTTCGGTACAAACC
Found at i:6829776 original size:23 final size:23
Alignment explanation
Indices: 6829750--6829794 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6829740 TAAAATTATG
6829750 TGGCACTTCGGTACAAACCTATA
1 TGGCACTTCGGTACAAACCTATA
**
6829773 TGGCACTTCGGTGTAAACCTAT
1 TGGCACTTCGGTACAAACCTAT
6829795 GGTTCTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (23 bp):
TGGCACTTCGGTACAAACCTATA
Found at i:6837157 original size:2 final size:2
Alignment explanation
Indices: 6837150--6837180 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6837140 GAACTTTGTA
6837150 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 A
6837181 AAAGATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6838135 original size:18 final size:18
Alignment explanation
Indices: 6838104--6838143 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6838094 TAAAAGTAAA
* *
6838104 ATTAAATTTCAATAAATG
1 ATTAAATTTAAATAAATC
*
6838122 ATTAATTTTAAATAAATC
1 ATTAAATTTAAATAAATC
6838140 ATTA
1 ATTA
6838144 TTCTTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTTAAATAAATC
Found at i:6847165 original size:13 final size:14
Alignment explanation
Indices: 6847137--6847166 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6847127 AGTTAAAAAA
6847137 TAATTTTTTAACAT
1 TAATTTTTTAACAT
6847151 TAATTTTTTAA-AT
1 TAATTTTTTAACAT
6847164 TAA
1 TAA
6847167 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTTTTTAACAT
Found at i:6847361 original size:18 final size:17
Alignment explanation
Indices: 6847334--6847368 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6847324 TAAACAATAG
*
6847334 TTTTAAAAAAATTTAAT
1 TTTTAAAAAAAATTAAT
6847351 TTTTAAAAAAAAATTAAT
1 TTTT-AAAAAAAATTAAT
6847369 ATATGAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTTAAAAAAAATTAAT
Found at i:6851930 original size:81 final size:81
Alignment explanation
Indices: 6851828--6852723 Score: 1261
Period size: 81 Copynumber: 11.1 Consensus size: 81
6851818 TCCTTTAGTA
* * * * * * * * * *
6851828 TTTTACCCAAAGGCATTTAACCTTTCATCTAAATTGCATGATTGATACTTTTCTACCAAATGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* * *
6851893 AGCTAGACCATTTCTC
66 AACTAGGCCATTTATC
** *
6851909 TTTTACTCAATAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTTCCAAATGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
6851974 AACTAGGCCATTTATC
66 AACTAGGCCATTTATC
* ** *
6851990 TTTTACTCAACGATATTTAACTATTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* *
6852055 AGCTAGACCATTTATC
66 AACTAGGCCATTTATC
* * * * * *
6852071 TTTTACTCAACAGTATTTAACCATTCATCTAGCTGGCATAATTGACACCTTTCTACCAAATGTAT
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
6852136 AGCTAGGCCATTTATC
66 AACTAGGCCATTTATC
* *
6852152 TTTTACTCAACGGTATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* *
6852217 AGCTAGTCCATTTATC
66 AACTAGGCCATTTATC
* * * *
6852233 TTTTACTCAATGGTATTTAACTGTTCATCTAACTGGAATAATTGACACATTTCTGCCAAATGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
6852298 AACTAGGCCATTTATC
66 AACTAGGCCATTTATC
** * * *
6852314 TTTTACTCAACAATATTTAACCGTTCATCTAACTGGAATAATTAACACATTTCTGCCAAATGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
6852379 AACTAGGACATTTATC
66 AACTAGGCCATTTATC
*
6852395 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCCTTCTGCCAAATGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
6852460 AACTAGGTCATTTATC
66 AACTAGGCCATTTATC
*
6852476 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGTATAATTGACACCTTTCTGCCAAATGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* * *
6852541 AATTAGGTCATTTATA
66 AACTAGGCCATTTATC
* *** * *
6852557 TTTTACTCAGCAACATTTAACCGTTCATCTAACTGGTATAATTGATACCTTTCTGCCAAATGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
6852622 AACTAGGCCATTTATC
66 AACTAGGCCATTTATC
* *
6852638 TTTTACCCAACGGTATTTAACCGTTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* *
6852703 AGCTAGGCCATTTGTC
66 AACTAGGCCATTTATC
6852719 TTTTA
1 TTTTA
6852724 ATCTTAGAAT
Statistics
Matches: 733, Mismatches: 82, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 733 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (81 bp):
TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
AACTAGGCCATTTATC
Found at i:6855018 original size:44 final size:46
Alignment explanation
Indices: 6854970--6855064 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 46
6854960 ACCATTTTGT
* * * *
6854970 ATTTTCATTT-GGGCATCCTTTCATACCCATTATGTATTGTT-TAC
1 ATTTTCATTTAGGACATCCATTCATACCAATTATGCATTGTTGTAC
* *
6855014 ATTTTCCTTTATGACATCCATTCATACCAATTATGCATTGTTGTAC
1 ATTTTCATTTAGGACATCCATTCATACCAATTATGCATTGTTGTAC
6855060 ATTTT
1 ATTTT
6855065 ATATCTATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 9 0.21
45 26 0.60
46 8 0.19
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.47
Consensus pattern (46 bp):
ATTTTCATTTAGGACATCCATTCATACCAATTATGCATTGTTGTAC
Found at i:6855089 original size:49 final size:45
Alignment explanation
Indices: 6854983--6855099 Score: 135
Period size: 49 Copynumber: 2.5 Consensus size: 45
6854973 TTCATTTGGG
* * *
6854983 CATCCTTTCATACCCATTATGTATTGTTTACATTTTCCTTTATGA
1 CATCCTTTCATACCAATTATGCATTGTTTACATTTTCCTATATGA
* * *
6855028 CATCCATTCATACCAATTATGCATTGTTGTACATTTTATATCTATATGT
1 CATCCTTTCATACCAATTATGCATTGTT-TACA-TTT-T-CCTATATGA
*
6855077 CATCCTTTCATACCACTTATGCA
1 CATCCTTTCATACCAATTATGCA
6855100 CCGTTTATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 25 0.42
46 4 0.07
47 3 0.05
48 1 0.02
49 27 0.45
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (45 bp):
CATCCTTTCATACCAATTATGCATTGTTTACATTTTCCTATATGA
Found at i:6855238 original size:81 final size:81
Alignment explanation
Indices: 6855129--6856112 Score: 1356
Period size: 81 Copynumber: 12.1 Consensus size: 81
6855119 TTAGAATTCC
* * * * * * * * *
6855129 TTTAGTCTTTTACCCAAAGGCATTTAACCTTTCATCTAAATTGCATGATTGACACTTTTCTACCA
1 TTTA-TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCA
* * *
6855194 AATGTACATCTAGACCA
65 AATGCACAACTAGGCCA
* * *
6855211 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAATTGCCATAATTGACACCTTTTTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
* *
6855276 ATGAACAGCTAGGCCA
66 ATGCACAACTAGGCCA
* * * *
6855292 TTTGTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATTCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
6855357 ATGCACAACTAGGCCA
66 ATGCACAACTAGGCCA
* * *
6855373 TTTATCTTTTACTCAATGATATTTAACCGTTCATCTAACTGGCATAATTTACACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
* * *
6855438 ATGTACAGCTAGACCA
66 ATGCACAACTAGGCCA
* * * * *
6855454 TTTATATTTTACTCAATGGTATTTAACCATTCATCTAGCTGGCATAATTGACACCTTTATGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
6855519 ATGCACAGCTAGGCCA
66 ATGCACAACTAGGCCA
* *
6855535 TTTATCTTTTACTCAACGTTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
6855600 ATGCACAACTAGTCCA
66 ATGCACAACTAGGCCA
** * * *
6855616 TTTATCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGAATAATTAACACATTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
* *
6855681 ATGCACAGCTAGGACA
66 ATGCACAACTAGGCCA
*
6855697 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCCTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
6855762 ATGCACAACTAGGTCA
66 ATGCACAACTAGGCCA
*
6855778 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGTATAATTGACACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
* *
6855843 ATGCACAATTAGGTCA
66 ATGCACAACTAGGCCA
* * *** * *
6855859 TTTATATTTTACTCAGCAACATTTAACCGTTCATCTAACTGGTATAATTGATACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
6855924 ATGCACAACTAGGCCA
66 ATGCACAACTAGGCCA
* * * *
6855940 TTTATCTTTTACCCAACGGTATTTAACCGTTCATCTAACTGACATAATTAAAACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
* *
6856005 ATTCACAGCTAGGCCA
66 ATGCACAACTAGGCCA
* * * *
6856021 TTTTTCTTTTACTCAACGGTATATAATCGTTCATCTAACTGGCATAATTGACATCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
*
6856086 ATGCACAACTAGGCTA
66 ATGCACAACTAGGCCA
*
6856102 TTTTTCTTTTA
1 TTTATCTTTTA
6856113 ATCTTAGAAT
Statistics
Matches: 804, Mismatches: 98, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
81 800 1.00
82 4 0.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (81 bp):
TTTATCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
ATGCACAACTAGGCCA
Found at i:6856808 original size:19 final size:21
Alignment explanation
Indices: 6856745--6856808 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
6856735 TGGCTCAATA
** *
6856745 GTATCGATACCCCTA-CCACG
1 GTATCGATACTACTATCTACG
*
6856765 GTATCGATACTACTATGCTATG
1 GTATCGATACTACTAT-CTACG
6856787 GTATCGATACT-CTAT-TACG
1 GTATCGATACTACTATCTACG
6856806 GTA
1 GTA
6856809 CCAATACCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 6 0.16
20 13 0.35
21 4 0.11
22 14 0.38
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (21 bp):
GTATCGATACTACTATCTACG
Done.