Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_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: 8285662
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 35
Found at i:5957422 original size:98 final size:99
Alignment explanation
Indices: 5957279--5957514 Score: 256
Period size: 98 Copynumber: 2.4 Consensus size: 99
5957269 ATGTATTTAT
* * *
5957279 TAATCATTATAAAAATGATTTAATAATAAT--TTA-AATATTTAATGA-TT-TGATGATTTAGTA
1 TAATCATTATAATAATGATTT-ATAATAATCATTATAATA-TAAATGATTTATAATGATTTA--A
*
5957339 ATGATTTGAT-A-ATAATCATTATAGTAATGATTTGATAA
62 AT-ATTTAATGATATAATCATT-TAGTAATGATTTGATAA
5957377 TAATCATTATAATAATGATTTAGTAATAATCATTATAA-A-AAATGATTTAATAATGATTTAAAT
1 TAATCATTATAATAATGATTTA-TAATAATCATTATAATATAAATGATTT-ATAATGATTTAAAT
* * *
5957440 ATTTAATGATTTGATGATTTAGTAATGATTTGATAA
64 ATTTAATGATATAATCATTTAGTAATGATTTGATAA
* *
5957476 TAATCATTATAGTAATGATTGATAATAATCATTATAATA
1 TAATCATTATAATAATGATTTATAATAATCATTATAATA
5957515 ATACATTTAG
Statistics
Matches: 119, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
97 1 0.01
98 53 0.45
99 44 0.37
100 10 0.08
101 11 0.09
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (99 bp):
TAATCATTATAATAATGATTTATAATAATCATTATAATATAAATGATTTATAATGATTTAAATAT
TTAATGATATAATCATTTAGTAATGATTTGATAA
Found at i:5957590 original size:124 final size:124
Alignment explanation
Indices: 5957279--5957647 Score: 615
Period size: 125 Copynumber: 3.0 Consensus size: 124
5957269 ATGTATTTAT
*
5957279 TAATCATTATAAAAATGATTTAATAATAATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
*
5957344 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATCATTTAGTAA
5957403 TAATCATTATAAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGA
1 TAATCATTAT-AAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGA
5957468 TTTGATAATAATCATTATAGTAATGA-TTGATAATAATCATTATAATAATACATTTAGTAA
65 TTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAAT-CATTTAGTAA
5957528 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGA-
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* * * * *
5957592 TTGATAATAATCA-T-TA-TAATGATTTTATAATAATTATT-TAGTTATTATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATCATTTAGTAA
5957647 T
1 T
5957648 TATAATAATG
Statistics
Matches: 235, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
119 10 0.04
120 11 0.05
121 15 0.06
122 1 0.00
123 13 0.06
124 87 0.37
125 98 0.42
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATCATTTAGTAA
Found at i:5957665 original size:13 final size:13
Alignment explanation
Indices: 5957647--5957687 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
5957637 TATTTAGTAA
5957647 TTATAATAATGAT
1 TTATAATAATGAT
5957660 TTATAATAATGAT
1 TTATAATAATGAT
5957673 TTA-AATAATGAT
1 TTATAATAATGAT
5957685 TTA
1 TTA
5957688 ATACTAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
TTATAATAATGAT
Found at i:5957669 original size:22 final size:22
Alignment explanation
Indices: 5957586--5957687 Score: 71
Period size: 22 Copynumber: 4.5 Consensus size: 22
5957576 GATGATTTAG
* * *
5957586 TAATGATTGATAATAATCATTA
1 TAATGATTTATAATAATTATAA
*
5957608 TAATGATTTTATAATAATTAT-T
1 TAATGA-TTTATAATAATTATAA
* * * *
5957630 TAGTTATTATTTAGTAATTATAA
1 TAATGATT-TATAATAATTATAA
*
5957653 TAATGATTTATAATAATGATTTAAA
1 TAATGATTTATAATAAT--TAT-AA
5957678 TAATGATTTA
1 TAATGATTTA
5957688 ATACTAACAA
Statistics
Matches: 61, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
21 2 0.03
22 27 0.44
23 18 0.30
24 2 0.03
25 12 0.20
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (22 bp):
TAATGATTTATAATAATTATAA
Found at i:5957681 original size:12 final size:12
Alignment explanation
Indices: 5957651--5957688 Score: 67
Period size: 12 Copynumber: 3.1 Consensus size: 12
5957641 TAGTAATTAT
5957651 AATAATGATTTA
1 AATAATGATTTA
5957663 TAATAATGATTTA
1 -AATAATGATTTA
5957676 AATAATGATTTA
1 AATAATGATTTA
5957688 A
1 A
5957689 TACTAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
AATAATGATTTA
Found at i:5957809 original size:17 final size:17
Alignment explanation
Indices: 5957784--5957816 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5957774 ACTAAATATT
*
5957784 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
5957801 TAATGATTTGATACTA
1 TAATGATTTGATACTA
5957817 AATCATTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:5959984 original size:15 final size:14
Alignment explanation
Indices: 5959961--5959991 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
5959951 TACAACACTA
5959961 AACTTTAATATAAT
1 AACTTTAATATAAT
5959975 AACTTATAATATAAT
1 AACTT-TAATATAAT
5959990 AA
1 AA
5959992 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:5960245 original size:45 final size:44
Alignment explanation
Indices: 5960168--5960300 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 44
5960158 TCAACAAACA
5960168 AATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTT
1 AATATAAC-TAACTA-TTAAC-AA-ACAAACTAATTAAATAATTTTTT
* *
5960216 TATATAACTAACTATTAACAATACAAACTAATT-AATTATTTTTT
1 AATATAACTAACTATTAACAA-ACAAACTAATTAAATAATTTTTT
5960260 AACTAT-A-TAACTA-T--CAAACATATACTAATTAAATAATTTTT
1 AA-TATAACTAACTATTAACAAACA-A-ACTAATTAAATAATTTTT
5960301 AATTTATGTA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
39 3 0.04
40 4 0.05
41 7 0.09
42 10 0.13
43 6 0.08
44 12 0.16
45 16 0.21
46 5 0.07
47 6 0.08
48 7 0.09
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (44 bp):
AATATAACTAACTATTAACAAACAAACTAATTAAATAATTTTTT
Found at i:5960490 original size:4 final size:4
Alignment explanation
Indices: 5960454--5960519 Score: 55
Period size: 4 Copynumber: 16.5 Consensus size: 4
5960444 CCTTATCTCC
* ** **
5960454 CTTT C-TT C-TT CTTA CTTT CCTTT CTCC CTTT CTTT CTTT CCTTT CTCC
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT -CTTT CTTT
5960502 CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CT
5960520 CGGCTGCAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
3 6 0.12
4 35 0.71
5 8 0.16
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.64
Consensus pattern (4 bp):
CTTT
Found at i:5960492 original size:21 final size:21
Alignment explanation
Indices: 5960462--5960520 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
5960452 CCCTTTCTTC
*
5960462 TTCTTACTTTCCTTTCTCCCT
1 TTCTTTCTTTCCTTTCTCCCT
5960483 TTCTTTCTTTCCTTTCTCCCT
1 TTCTTTCTTTCCTTTCTCCCT
5960504 TTCTTTCTTT-CTTTCTC
1 TTCTTTCTTTCCTTTCTC
5960521 GGCTGCAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 7 0.19
21 30 0.81
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.63
Consensus pattern (21 bp):
TTCTTTCTTTCCTTTCTCCCT
Found at i:5960553 original size:23 final size:23
Alignment explanation
Indices: 5960523--5960568 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5960513 TCTTTCTCGG
5960523 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
5960546 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
5960569 TCTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.39, G:0.04, T:0.48
Consensus pattern (23 bp):
CTGCAATCTCTTCTCCCTTTCTT
Found at i:5960696 original size:18 final size:18
Alignment explanation
Indices: 5960673--5960707 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
5960663 GTACCAATAA
5960673 TCAAATGGTTCACATGCC
1 TCAAATGGTTCACATGCC
5960691 TCAAATGGTTCACATGC
1 TCAAATGGTTCACATGC
5960708 ATGCATTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (18 bp):
TCAAATGGTTCACATGCC
Found at i:5960759 original size:36 final size:37
Alignment explanation
Indices: 5960712--5960785 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
5960702 ACATGCATGC
5960712 ATTGGGAGGTGTAGGC-ATGCAGCGGGGAGCACGTGA
1 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
5960748 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
1 ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
5960785 A
1 A
5960786 GGAATCTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 16 0.43
37 21 0.57
ACGTcount: A:0.24, C:0.14, G:0.46, T:0.16
Consensus pattern (37 bp):
ATTGGGAGGTGTAGGCAATGCAGCGGGGAGCACGTGA
Found at i:5960868 original size:29 final size:29
Alignment explanation
Indices: 5960836--5960944 Score: 209
Period size: 29 Copynumber: 3.8 Consensus size: 29
5960826 ATGGGAATGG
5960836 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
5960865 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
5960894 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
*
5960923 CGCCGGGACTGCATGGCGACCT
1 CGCCGGGACTACATGGCGACCT
5960945 CTCTATTCCT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.22, C:0.32, G:0.32, T:0.14
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:5961033 original size:61 final size:61
Alignment explanation
Indices: 5960958--5961150 Score: 298
Period size: 61 Copynumber: 3.1 Consensus size: 61
5960948 TATTCCTGCA
5960958 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
*
5961019 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCGT
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
* * *
5961080 GGGCTCGTATATGGCTCGTTGCATGCTCCCCA-TGGCTCGTATATGGCTCGTTGCATGCTCCCCA
1 TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTC-TCTAT---TC-CTGCATGCTCCCCA
5961144 T
61 T
5961145 TGGCTC
1 TGGCTC
5961151 TCTATTCCTG
Statistics
Matches: 121, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
60 6 0.05
61 95 0.79
64 2 0.02
65 18 0.15
ACGTcount: A:0.11, C:0.33, G:0.23, T:0.33
Consensus pattern (61 bp):
TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCATGCTCCCCAT
Found at i:5961131 original size:93 final size:92
Alignment explanation
Indices: 5961005--5961213 Score: 348
Period size: 93 Copynumber: 2.3 Consensus size: 92
5960995 TCTCTATTCC
5961005 TGCATGCTCCCCATTGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCA
1 TGCATGCTCCCCATTGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCA
* *
5961070 TGCTCCCCGTGGGCTCGTATATGGCTCGT
66 TGCTCCCCATGGCCTCG--TATGGCTCGT
5961099 TGCATGCTCCCCA-TGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCA
1 TGCATGCTCCCCATTGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCA
*
5961163 TGCTCCCCATTGCCTCGTATGGCTCGT
66 TGCTCCCCATGGCCTCGTATGGCTCGT
* *
5961190 TGCATCCTCCTCATTGGCTCGTAT
1 TGCATGCTCCCCATTGGCTCGTAT
5961214 GACTCGTATA
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
91 21 0.19
92 10 0.09
93 65 0.60
94 13 0.12
ACGTcount: A:0.11, C:0.34, G:0.22, T:0.33
Consensus pattern (92 bp):
TGCATGCTCCCCATTGGCTCGTATATGGCTCGTTGCATGCTCCCCATTGGCTCTCTATTCCTGCA
TGCTCCCCATGGCCTCGTATGGCTCGT
Found at i:5961259 original size:12 final size:13
Alignment explanation
Indices: 5961227--5961261 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
5961217 TCGTATATGG
5961227 CTCGTATGTCACC
1 CTCGTATGTCACC
5961240 CTCGTATGTCACC
1 CTCGTATGTCACC
5961253 C-CGTATGTC
1 CTCGTATGTC
5961262 GCCTGGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.14, C:0.37, G:0.17, T:0.31
Consensus pattern (13 bp):
CTCGTATGTCACC
Found at i:5966882 original size:2 final size:2
Alignment explanation
Indices: 5966875--5966907 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5966865 TGGTGGTAAT
5966875 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5966908 TAATTACTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5967687 original size:6 final size:6
Alignment explanation
Indices: 5967676--5967700 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5967666 ATTAAAGTTT
5967676 GGGGAA GGGGAA GGGGAA GGGGAA G
1 GGGGAA GGGGAA GGGGAA GGGGAA G
5967701 ACAGATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:5972402 original size:36 final size:36
Alignment explanation
Indices: 5972339--5972412 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
5972329 TGGTTCCCGA
* * * *
5972339 TCCCAATTTTTAGTAACCGATTGAACAGGTTTCGGT
1 TCCCAATTTTTAGGAACCGAGTGAACAGATTCCGGT
*
5972375 TCCCATTTTTTAGGAACCG-GTGCAACAGATTCCGGT
1 TCCCAATTTTTAGGAACCGAGTG-AACAGATTCCGGT
5972411 TC
1 TC
5972413 TGATTCCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (36 bp):
TCCCAATTTTTAGGAACCGAGTGAACAGATTCCGGT
Found at i:5979034 original size:14 final size:14
Alignment explanation
Indices: 5979012--5979073 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 14
5979002 GAGATTTGGT
*
5979012 TGAATATAAACGAA
1 TGAACATAAACGAA
*
5979026 TGAACATAAACAAA
1 TGAACATAAACGAA
*
5979040 TGTAC--AAA--AA
1 TGAACATAAACGAA
* *
5979050 CGAACATAAGCGAA
1 TGAACATAAACGAA
5979064 TGAACATAAA
1 TGAACATAAA
5979074 GGAACATATT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
10 5 0.14
12 5 0.14
14 26 0.72
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (14 bp):
TGAACATAAACGAA
Found at i:5979065 original size:24 final size:24
Alignment explanation
Indices: 5979027--5979081 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
5979017 ATAAACGAAT
*
5979027 GAACATAAACAAATGTACAAAAAC
1 GAACATAAACAAATGAACAAAAAC
* * * *
5979051 GAACATAAGCGAATGAACATAAAG
1 GAACATAAACAAATGAACAAAAAC
5979075 GAACATA
1 GAACATA
5979082 TTACTGAACG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.13
Consensus pattern (24 bp):
GAACATAAACAAATGAACAAAAAC
Found at i:5980315 original size:21 final size:20
Alignment explanation
Indices: 5980289--5980406 Score: 94
Period size: 20 Copynumber: 5.8 Consensus size: 20
5980279 ATCAGTTTCC
5980289 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
5980310 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
** *
5980329 ACAAATTCGCATTGCGATTTTCC
1 A-AAA-TCGCAACGCGATTTT-G
* * *
5980352 AGAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
* *
5980372 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
5980392 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
5980407 ACACATAAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
19 1 0.01
20 38 0.47
21 38 0.47
22 2 0.03
23 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:5980589 original size:20 final size:20
Alignment explanation
Indices: 5980354--5980602 Score: 250
Period size: 20 Copynumber: 12.4 Consensus size: 20
5980344 GATTTTCCAG
** *
5980354 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
** *
5980374 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
*
5980394 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
5980414 AATCGCAACGC-ATATCCGTA
1 AATCGCAACGCGA-ATCCGTA
* **
5980434 AATCGCAACGTGTGTCCGTA
1 AATCGCAACGCGAATCCGTA
*
5980454 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
5980474 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
5980494 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
**
5980514 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
5980534 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
**
5980554 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
5980574 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
*
5980594 AATCACAAC
1 AATCGCAAC
5980603 ACTGAAATTT
Statistics
Matches: 201, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
19 1 0.00
20 199 0.99
21 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:5981326 original size:24 final size:23
Alignment explanation
Indices: 5981287--5981332 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
5981277 AAATTTGGTC
5981287 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
5981311 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
5981333 GAGTTTCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:5983855 original size:33 final size:34
Alignment explanation
Indices: 5983804--5984014 Score: 213
Period size: 33 Copynumber: 6.2 Consensus size: 34
5983794 CGGAAATTAC
*
5983804 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
5983837 AATCCCAAC-ATGAAAATCGCAATGCGGAAATG-A
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
* * *
5983870 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--CG--ATGAAAATCGCAATGCGA-AAT-GAA
*
5983909 AATGCGGAA--ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACGATGAAAATCGCAATGCGAAATGAA
*
5983942 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
* *
5983975 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
5984008 AATCGCA
1 AATCGCA
5984015 TTGCGATTCT
Statistics
Matches: 152, Mismatches: 13, Indels: 26
0.80 0.07 0.14
Matches are distributed among these distances:
32 6 0.04
33 95 0.62
34 23 0.15
35 1 0.01
37 2 0.01
38 17 0.11
39 4 0.03
40 4 0.03
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:5983874 original size:19 final size:19
Alignment explanation
Indices: 5983818--5984020 Score: 187
Period size: 19 Copynumber: 11.7 Consensus size: 19
5983808 GCAACGAGAG
5983818 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5983837 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
5983851 AATCGCAATGCGGAAATG-A
1 AATCGCAATGC-GAAATGAA
5983870 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5983889 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
5983903 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
5983923 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5983942 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
5983956 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5983975 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
5983989 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
5984008 AATCGCATTGCGA
1 AATCGCAATGCGA
5984021 TTCTCTCGTT
Statistics
Matches: 151, Mismatches: 10, Indels: 46
0.73 0.05 0.22
Matches are distributed among these distances:
14 42 0.28
15 3 0.02
16 6 0.04
17 8 0.05
18 8 0.05
19 68 0.45
20 16 0.11
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:5983944 original size:53 final size:53
Alignment explanation
Indices: 5983818--5983982 Score: 282
Period size: 52 Copynumber: 3.2 Consensus size: 53
5983808 GCAACGAGAG
* *
5983818 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATG-A
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
5983870 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
5983923 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
5983975 AATCGCAA
1 AATCGCAA
5983983 CGAGAGAATC
Statistics
Matches: 109, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
52 63 0.58
53 46 0.42
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:5983961 original size:14 final size:14
Alignment explanation
Indices: 5983942--5983996 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
5983932 GCGAAATGAA
5983942 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
5983956 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
5983975 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5983989 AATCGCAA
1 AATCGCAA
5983997 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:5984123 original size:52 final size:53
Alignment explanation
Indices: 5984010--5984126 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
5984000 GAAATTAAAA
5984010 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
5984063 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
5984115 TCGCATTGCGAT
1 TCGCATTGCGAT
5984127 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:5984134 original size:19 final size:19
Alignment explanation
Indices: 5984029--5984126 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
5984019 GATTCTCTCG
5984029 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
5984049 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
5984068 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
5984082 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
5984101 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
5984120 TTGCGAT
1 TTGCGAT
5984127 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:5984252 original size:14 final size:14
Alignment explanation
Indices: 5984233--5984269 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5984223 CATCAATTAC
5984233 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
5984247 ACAAATCATCTTTT
1 ACAAATCAACTTTT
5984261 ACAAATCAA
1 ACAAATCAA
5984270 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:5992580 original size:36 final size:36
Alignment explanation
Indices: 5992533--5992604 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
5992523 GCATGGTTAC
5992533 ATGGATTTTGCACTTATCTGTTTTAAATAAGGTGAT
1 ATGGATTTTGCACTTATCTGTTTTAAATAAGGTGAT
5992569 ATGGATTTTGCACTTATCTGTTTTAAATAAGGTGAT
1 ATGGATTTTGCACTTATCTGTTTTAAATAAGGTGAT
5992605 TTTTGTCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.44
Consensus pattern (36 bp):
ATGGATTTTGCACTTATCTGTTTTAAATAAGGTGAT
Found at i:5994178 original size:28 final size:29
Alignment explanation
Indices: 5994142--5994200 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
5994132 AAAAACAAAC
5994142 ATCATGAG-AAAATTATCTACGAATACAA
1 ATCATGAGAAAAATTATCTACGAATACAA
5994170 ATCATGAGAAAAATTATCTACGAATACAA
1 ATCATGAGAAAAATTATCTACGAATACAA
5994199 AT
1 AT
5994201 AATTTATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.51, C:0.14, G:0.10, T:0.25
Consensus pattern (29 bp):
ATCATGAGAAAAATTATCTACGAATACAA
Found at i:5999207 original size:126 final size:126
Alignment explanation
Indices: 5998983--5999234 Score: 463
Period size: 126 Copynumber: 2.0 Consensus size: 126
5998973 AAATGTTGCA
5998983 AGTTACTTATACCGAACACACTCAGAGAACTGTCAGTTGCGATGTCTCAGCAATATGGTGTTTGT
1 AGTTACTTATACCGAACACACTCAGAGAACTGTCAGTTGCGATGTCTCAGCAATATGGTGTTTGT
5999048 TGTCCACCTTACCACACATGTAATTTGCTTCTCCCTTTGTAAAT-AAACATGTCCCCTTTT
66 TGTCCACCTTACCACACATGTAATTTGCTTCTCCCTTTGTAAATAAAACATGTCCCCTTTT
*
5999108 AGTTACTTATACCGAACACCACTCAGAGAACTGTCAGTTGTG-TGTCTTCAGCAATATGGTGTTT
1 AGTTACTTATACCGAACA-CACTCAGAGAACTGTCAGTTGCGATGTC-TCAGCAATATGGTGTTT
5999172 GTTGTCCACCTTACCACACATGTAATTTGCTTCTCCCTTTGTAAATAAAACATGTCCCCTTTT
64 GTTGTCCACCTTACCACACATGTAATTTGCTTCTCCCTTTGTAAATAAAACATGTCCCCTTTT
5999235 TGGAATGATA
Statistics
Matches: 123, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
125 22 0.18
126 85 0.69
127 16 0.13
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (126 bp):
AGTTACTTATACCGAACACACTCAGAGAACTGTCAGTTGCGATGTCTCAGCAATATGGTGTTTGT
TGTCCACCTTACCACACATGTAATTTGCTTCTCCCTTTGTAAATAAAACATGTCCCCTTTT
Found at i:6002393 original size:31 final size:32
Alignment explanation
Indices: 6002324--6002399 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
6002314 TCTTTTGGTA
** **
6002324 TTCGGGTCGGATTTTATTTTCAAAATTTTCGGG
1 TTCGGGTCGGA-TTTATTTAAAAAAAATTCGGG
*
6002357 ATCGGGTCGGATTT-TTTAAAAAAAATTCGGG
1 TTCGGGTCGGATTTATTTAAAAAAAATTCGGG
6002388 TTCGGGTCGGAT
1 TTCGGGTCGGAT
6002400 CGAGTTCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 24 0.65
32 3 0.08
33 10 0.27
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (32 bp):
TTCGGGTCGGATTTATTTAAAAAAAATTCGGG
Found at i:6002442 original size:27 final size:29
Alignment explanation
Indices: 6002394--6002462 Score: 97
Period size: 27 Copynumber: 2.4 Consensus size: 29
6002384 CGGGTTCGGG
*
6002394 TCGGATCGAGTTCTTTTTAAGTTTGATAT
1 TCGGATCGAGTTCTTTTTAAGTGTGATAT
6002423 TCGGATCGA-TT-TTTTTAAGTGTGATAT
1 TCGGATCGAGTTCTTTTTAAGTGTGATAT
* *
6002450 TCGGGTCGGGTTC
1 TCGGATCGAGTTC
6002463 GGGTTTAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 22 0.63
28 4 0.11
29 9 0.26
ACGTcount: A:0.17, C:0.12, G:0.26, T:0.45
Consensus pattern (29 bp):
TCGGATCGAGTTCTTTTTAAGTGTGATAT
Found at i:6017359 original size:13 final size:13
Alignment explanation
Indices: 6017341--6017373 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
6017331 TCCTTTGATT
6017341 CCGATTTTGGTTC
1 CCGATTTTGGTTC
6017354 CCGATTTTGGTTC
1 CCGATTTTGGTTC
6017367 CCGATTT
1 CCGATTT
6017374 CTTCTTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.45
Consensus pattern (13 bp):
CCGATTTTGGTTC
Found at i:6018069 original size:20 final size:20
Alignment explanation
Indices: 6018047--6018121 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
6018037 TTATTCCCTG
*
6018047 GTAATCTTACATTCCCACTG
1 GTAATCTTACATTCCCACTA
**
6018067 GTAATCTTACATTTTCACTA
1 GTAATCTTACATTCCCACTA
6018087 GTAATCTTACATTCCCACTA
1 GTAATCTTACATTCCCACTA
*
6018107 ATAATCTTACATTCC
1 GTAATCTTACATTCC
6018122 GTGAACCAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (20 bp):
GTAATCTTACATTCCCACTA
Found at i:6023156 original size:33 final size:33
Alignment explanation
Indices: 6023060--6023214 Score: 108
Period size: 35 Copynumber: 4.6 Consensus size: 33
6023050 TTCATATCTC
*
6023060 TTTTGAATATTCTAAATTAAAA-GATATTTATTT
1 TTTTGAATATT-TAAATTAAAATGATAATTATTT
* **
6023093 TTTT-AAT-TTGAATATTAGTATGATAATTATTT
1 TTTTGAATATTTAA-ATTAAAATGATAATTATTT
*
6023125 TTTTGAATATCTTAAATTAAAATG-TAGTTATTAT
1 TTTTGAATAT-TTAAATTAAAATGATAATTATT-T
*
6023159 CTATTT-AACT-TTGAATATTAAAA-GATAATTATATT
1 -T-TTTGAA-TATTTAA-ATTAAAATGATAATTAT-TT
6023194 ATTTTGAATATTTCAAATTAA
1 -TTTTGAATATTT-AAATTAA
6023215 GATAATATCT
Statistics
Matches: 95, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
30 2 0.02
31 7 0.07
32 17 0.18
33 14 0.15
34 17 0.18
35 31 0.33
36 7 0.07
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.50
Consensus pattern (33 bp):
TTTTGAATATTTAAATTAAAATGATAATTATTT
Found at i:6023279 original size:34 final size:35
Alignment explanation
Indices: 6023241--6023322 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 35
6023231 GTTTGAATGG
6023241 TAAAAGATATCTAT-ATCT-TTTGAATATTTCAAT-T
1 TAAAAGATATCTATCATCTGTTT-AA-ATTTCAATAT
*
6023275 TAAAAGATAT-TATCATCTGTTTAAATTTGAATAT
1 TAAAAGATATCTATCATCTGTTTAAATTTCAATAT
*
6023309 TAAAATATATCTAT
1 TAAAAGATATCTAT
6023323 TTTGAGTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
33 10 0.24
34 26 0.62
35 6 0.14
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.45
Consensus pattern (35 bp):
TAAAAGATATCTATCATCTGTTTAAATTTCAATAT
Found at i:6023322 original size:68 final size:67
Alignment explanation
Indices: 6023058--6023313 Score: 246
Period size: 68 Copynumber: 3.9 Consensus size: 67
6023048 AATTCATATC
* * * *
6023058 TCTTTTGAATA-TTCTAAATTAAAAGATATT-TAT-TTTTTTAATTTGAATATTAGTATGATAAT
1 TCTTTTGAATATTTC-AAATTAAAAGATATTATATCTATTTAAATTTGAATATTA-AAAGATAAT
6023120 TAT-
64 TATA
* *
6023123 TTTTTTGAATATCTT-AAATTAAAATG-TAGTTATTATCTATTTAACTTTGAATATTAAAAGATA
1 TCTTTTGAATAT-TTCAAATTAAAA-GATA-TTA-TATCTATTTAAATTTGAATATTAAAAGATA
6023186 ATTATA
62 ATTATA
* * **
6023192 TTATTTTGAATATTTCAAATT--AAGATA--ATATCTATTTAAGTTTGAATGGTAAAAGAT-ATC
1 -TCTTTTGAATATTTCAAATTAAAAGATATTATATCTATTTAAATTTGAATATTAAAAGATAAT-
6023252 TATA
64 TATA
* *
6023256 TCTTTTGAATATTTCAATTTAAAAGATATTATCATCTGTTTAAATTTGAATATTAAAA
1 TCTTTTGAATATTTCAAATTAAAAGATATTAT-ATCTATTTAAATTTGAATATTAAAA
6023314 TATATCTATT
Statistics
Matches: 158, Mismatches: 16, Indels: 31
0.77 0.08 0.15
Matches are distributed among these distances:
63 20 0.13
64 30 0.19
65 28 0.18
66 3 0.02
67 5 0.03
68 38 0.24
69 18 0.11
70 16 0.10
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (67 bp):
TCTTTTGAATATTTCAAATTAAAAGATATTATATCTATTTAAATTTGAATATTAAAAGATAATTA
TA
Found at i:6024076 original size:231 final size:231
Alignment explanation
Indices: 6023673--6024134 Score: 924
Period size: 231 Copynumber: 2.0 Consensus size: 231
6023663 TTTTGGGCAT
6023673 GTAGATAATGTTCACTTTTCTTACCACGGCCGATGCGACCTCTTCTGCCTAGTGCATAGATTGGC
1 GTAGATAATGTTCACTTTTCTTACCACGGCCGATGCGACCTCTTCTGCCTAGTGCATAGATTGGC
6023738 ACCTTATTTGTTTGTTTGTTTCAAGACATGGAGTATTAGTTTGAATAAAAACAAATAAGACGTCC
66 ACCTTATTTGTTTGTTTGTTTCAAGACATGGAGTATTAGTTTGAATAAAAACAAATAAGACGTCC
6023803 AATTCGAAATCAATCCTCTTCAAACTTCAACATTTATTTATGTATGTTTTGTGTGTAATTACTAG
131 AATTCGAAATCAATCCTCTTCAAACTTCAACATTTATTTATGTATGTTTTGTGTGTAATTACTAG
6023868 TATATTTCTAAGAATTTCAATTTCAATTTATTTGGA
196 TATATTTCTAAGAATTTCAATTTCAATTTATTTGGA
6023904 GTAGATAATGTTCACTTTTCTTACCACGGCCGATGCGACCTCTTCTGCCTAGTGCATAGATTGGC
1 GTAGATAATGTTCACTTTTCTTACCACGGCCGATGCGACCTCTTCTGCCTAGTGCATAGATTGGC
6023969 ACCTTATTTGTTTGTTTGTTTCAAGACATGGAGTATTAGTTTGAATAAAAACAAATAAGACGTCC
66 ACCTTATTTGTTTGTTTGTTTCAAGACATGGAGTATTAGTTTGAATAAAAACAAATAAGACGTCC
6024034 AATTCGAAATCAATCCTCTTCAAACTTCAACATTTATTTATGTATGTTTTGTGTGTAATTACTAG
131 AATTCGAAATCAATCCTCTTCAAACTTCAACATTTATTTATGTATGTTTTGTGTGTAATTACTAG
6024099 TATATTTCTAAGAATTTCAATTTCAATTTATTTGGA
196 TATATTTCTAAGAATTTCAATTTCAATTTATTTGGA
6024135 CATAATAGAG
Statistics
Matches: 231, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 231 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (231 bp):
GTAGATAATGTTCACTTTTCTTACCACGGCCGATGCGACCTCTTCTGCCTAGTGCATAGATTGGC
ACCTTATTTGTTTGTTTGTTTCAAGACATGGAGTATTAGTTTGAATAAAAACAAATAAGACGTCC
AATTCGAAATCAATCCTCTTCAAACTTCAACATTTATTTATGTATGTTTTGTGTGTAATTACTAG
TATATTTCTAAGAATTTCAATTTCAATTTATTTGGA
Found at i:6028372 original size:5 final size:5
Alignment explanation
Indices: 6028362--6028405 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
6028352 TCAAATGCTG
* * * *
6028362 TTCTC TTCTC TTCTC TTCTC CTCTC CTCTC TCCTC TTCTT TTCT
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCT
6028406 TTTTCTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (5 bp):
TTCTC
Found at i:6028391 original size:20 final size:20
Alignment explanation
Indices: 6028363--6028400 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6028353 CAAATGCTGT
* *
6028363 TCTCTTCTCTTCTCTTCTCC
1 TCTCCTCTCTCCTCTTCTCC
6028383 TCTCCTCTCTCCTCTTCT
1 TCTCCTCTCTCCTCTTCT
6028401 TTTCTTTTTC
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:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (20 bp):
TCTCCTCTCTCCTCTTCTCC
Found at i:6034276 original size:59 final size:59
Alignment explanation
Indices: 6034171--6034335 Score: 167
Period size: 59 Copynumber: 2.8 Consensus size: 59
6034161 ACCCTTATTT
* * * *
6034171 TAAATTGGTCTCTAAACTTTTAAATATTATAATTTCA-TCCCTAAACTATGACTA-TCATTC
1 TAAATTGATC-CTAACCTTTTGAACATTATAATTTCATTCCC-AAACTATGA-TATTCATTC
6034231 TAAATTGATCCTAACCTTTTGAACATT-TAAGTTTCATTCCCAAACTATGATATTCATTC
1 TAAATTGATCCTAACCTTTTGAACATTATAA-TTTCATTCCCAAACTATGATATTCATTC
* * * * *
6034290 TAAATCGGACCCCAAACGTTTTGAACATTCTAATTTC-TTCCCAAAC
1 TAAAT-TGA-TCCTAACCTTTTGAACATTATAATTTCATTCCCAAAC
6034336 AATATAAAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
58 5 0.05
59 39 0.43
60 24 0.26
61 20 0.22
62 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (59 bp):
TAAATTGATCCTAACCTTTTGAACATTATAATTTCATTCCCAAACTATGATATTCATTC
Found at i:6034398 original size:21 final size:22
Alignment explanation
Indices: 6034372--6034415 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6034362 TTAAAAAAGT
6034372 TATATTAAATAA-TTCTAAAAA
1 TATATTAAATAATTTCTAAAAA
* *
6034393 TATATTAATTAATTTTTAAAAA
1 TATATTAAATAATTTCTAAAAA
6034415 T
1 T
6034416 GTTTATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATTAAATAATTTCTAAAAA
Found at i:6034425 original size:21 final size:20
Alignment explanation
Indices: 6034387--6034479 Score: 78
Period size: 21 Copynumber: 4.2 Consensus size: 20
6034377 TAAATAATTC
*
6034387 TAAAAATATATTAATTAATTTT
1 TAAAAAT-T-TTATTTAATTTT
6034409 TAAAAATGTTTATTTAATTTT
1 TAAAAAT-TTTATTTAATTTT
* *
6034430 TAAAATCATATTATTTATTCATTT
1 TAAAA--ATTTTATTTAAT--TTT
*
6034454 TAAATAATATTATTTAATTTT
1 TAAA-AATTTTATTTAATTTT
6034475 TAAAA
1 TAAAA
6034480 TGTTTTAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
20 1 0.02
21 23 0.38
22 16 0.26
23 13 0.21
24 7 0.11
25 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (20 bp):
TAAAAATTTTATTTAATTTT
Found at i:6034602 original size:20 final size:18
Alignment explanation
Indices: 6034565--6034604 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
6034555 TGCCATTAAC
*
6034565 TATTTAATTTTAAATAAA
1 TATTTAATATTAAATAAA
6034583 TATTATAATATTATAATAAA
1 TATT-TAATATTA-AATAAA
6034603 TA
1 TA
6034605 AATAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAATATTAAATAAA
Found at i:6035462 original size:9 final size:9
Alignment explanation
Indices: 6035444--6035477 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
6035434 TTATATAAAA
6035444 ATAAAAATT
1 ATAAAAATT
*
6035453 ATAAACATT
1 ATAAAAATT
6035462 ATAAAAA-T
1 ATAAAAATT
6035470 ATAAAAAT
1 ATAAAAAT
6035478 GATTAATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (9 bp):
ATAAAAATT
Found at i:6035474 original size:8 final size:8
Alignment explanation
Indices: 6035436--6035477 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
6035426 AGCAACTGTT
6035436 ATATAAAA
1 ATATAAAA
6035444 ATA-AAAA
1 ATATAAAA
*
6035451 TTATAAACA
1 ATATAAA-A
*
6035460 TTATAAAA
1 ATATAAAA
6035468 ATATAAAA
1 ATATAAAA
6035476 AT
1 AT
6035478 GATTAATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 6 0.20
8 16 0.53
9 8 0.27
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (8 bp):
ATATAAAA
Found at i:6037562 original size:66 final size:66
Alignment explanation
Indices: 6037484--6037613 Score: 260
Period size: 66 Copynumber: 2.0 Consensus size: 66
6037474 GGGACATCCA
6037484 TTTTTATAATATAATATAATATATTAAATGTTATTATAATTTTATTAAATTAGTATAAACATTAA
1 TTTTTATAATATAATATAATATATTAAATGTTATTATAATTTTATTAAATTAGTATAAACATTAA
6037549 C
66 C
6037550 TTTTTATAATATAATATAATATATTAAATGTTATTATAATTTTATTAAATTAGTATAAACATTA
1 TTTTTATAATATAATATAATATATTAAATGTTATTATAATTTTATTAAATTAGTATAAACATTA
6037614 TCAGACATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (66 bp):
TTTTTATAATATAATATAATATATTAAATGTTATTATAATTTTATTAAATTAGTATAAACATTAA
C
Found at i:6041389 original size:2 final size:2
Alignment explanation
Indices: 6041382--6041406 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6041372 ATTATATCAT
6041382 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6041407 TAATGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6041835 original size:2 final size:2
Alignment explanation
Indices: 6041828--6041853 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6041818 TAAATAGTTT
6041828 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6041854 CTATTAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6044949 original size:18 final size:18
Alignment explanation
Indices: 6044926--6044973 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
6044916 AAATTGTCCT
*
6044926 TATTATATATTTGTATAA
1 TATTATATATTTGTAAAA
*
6044944 TATTATA-AATTGTAAAA
1 TATTATATATTTGTAAAA
6044961 TATTTATATATTT
1 TA-TTATATATTT
6044974 TCTTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 12 0.48
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
TATTATATATTTGTAAAA
Found at i:6046235 original size:3 final size:3
Alignment explanation
Indices: 6046227--6046256 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6046217 TGTTTGCATG
6046227 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
6046257 AACCCTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:6047878 original size:28 final size:28
Alignment explanation
Indices: 6047838--6047893 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
6047828 CCTAGTAACC
* *
6047838 TGTCTCAATCTAGCCTCGATCAGCCTTT
1 TGTCTCAACCTAGCCTCGATCACCCTTT
6047866 TGTCTCAACCTAGCCTCGATCACCCTTT
1 TGTCTCAACCTAGCCTCGATCACCCTTT
6047894 CCCATAGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.18, C:0.36, G:0.12, T:0.34
Consensus pattern (28 bp):
TGTCTCAACCTAGCCTCGATCACCCTTT
Found at i:6049215 original size:64 final size:64
Alignment explanation
Indices: 6049114--6049237 Score: 155
Period size: 64 Copynumber: 1.9 Consensus size: 64
6049104 ATGCACTATT
* * *
6049114 TTAAAATATAAACATCGAATGTAATTAGTGCATCGATGCATAAGGCA-TGCATCGATGCATTCCA
1 TTAAAATATAAACATCGAATGCAATTAGTGCACCGATGCACAA-GCAGTGCATCGATGCATTCCA
* *
6049178 TTAATAATA-AAACATCGAATGCATTTTA-TGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TTAA-AATATAAACATCGAATGCA-ATTAGTGCACCGATGCACAAGCAGTGCATCGATGCAT
6049238 ACCTTCATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
63 2 0.04
64 43 0.83
65 7 0.13
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (64 bp):
TTAAAATATAAACATCGAATGCAATTAGTGCACCGATGCACAAGCAGTGCATCGATGCATTCCA
Found at i:6049649 original size:29 final size:29
Alignment explanation
Indices: 6049612--6049691 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
6049602 ATGTGATATG
*
6049612 AGAACATGACATGAACTATATGATCACAAA
1 AGAA-ATGACATGAACTACATGATCACAAA
* *
6049642 AGAAATGACATGAGCTACATGATCACAAG
1 AGAAATGACATGAACTACATGATCACAAA
*
6049671 AGAAATGACATG-AGTACATGA
1 AGAAATGACATGAACTACATGA
6049692 ACATATGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 7 0.16
29 34 0.76
30 4 0.09
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (29 bp):
AGAAATGACATGAACTACATGATCACAAA
Found at i:6055863 original size:64 final size:64
Alignment explanation
Indices: 6055712--6055866 Score: 163
Period size: 64 Copynumber: 2.4 Consensus size: 64
6055702 GAAGGTGTAT
* * * * ** *
6055712 CGATGCACAGGTTGTGCATCGATACACTCTTTTAAAATATAAACATAGAATGCAATTAGTGCAT
1 CGATGCACAAGTAGTGCATCGATGCATTCCATTAAAATATAAACATAGAATGCAATTAGTGCAC
* * * *
6055776 CGATGCATAAGGCA-TGCATCGATGCATTCCATTAATAATA-AAACATCGAATGCATTTTA-TGC
1 CGATGCACAA-GTAGTGCATCGATGCATTCCATTAA-AATATAAACATAGAATGCA-ATTAGTGC
6055838 AC
63 AC
6055840 CGATGCACAAGTAGTGCATCGATGCAT
1 CGATGCACAAGTAGTGCATCGATGCAT
6055867 ACCTTCATTA
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
63 2 0.03
64 64 0.86
65 8 0.11
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (64 bp):
CGATGCACAAGTAGTGCATCGATGCATTCCATTAAAATATAAACATAGAATGCAATTAGTGCAC
Found at i:6056286 original size:29 final size:29
Alignment explanation
Indices: 6056247--6056356 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
6056237 TATGTGATAT
6056247 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
6056277 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
6056306 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
6056335 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
6056357 ACATATGAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.09
29 66 0.85
30 5 0.06
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:6056447 original size:15 final size:15
Alignment explanation
Indices: 6056427--6056460 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6056417 GCATGCTAAG
*
6056427 AGTCGATGGTATAAT
1 AGTCGAGGGTATAAT
6056442 AGTCGAGGGTATAAT
1 AGTCGAGGGTATAAT
6056457 AGTC
1 AGTC
6056461 CTTTGGGACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (15 bp):
AGTCGAGGGTATAAT
Found at i:6056474 original size:15 final size:15
Alignment explanation
Indices: 6056456--6056489 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6056446 GAGGGTATAA
*
6056456 TAGTCCTTTGGGACG
1 TAGTCCTTCGGGACG
*
6056471 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
6056486 TAGT
1 TAGT
6056490 TATCCTACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:6072406 original size:2 final size:2
Alignment explanation
Indices: 6072395--6072424 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6072385 AATATGTGAT
6072395 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6072425 TATTTACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6073310 original size:19 final size:20
Alignment explanation
Indices: 6073276--6073338 Score: 101
Period size: 21 Copynumber: 3.1 Consensus size: 20
6073266 GATTTACAAC
6073276 GCGAACTTCGACTATCGCAAT
1 GCGAACTT-GACTATCGCAAT
6073297 GCGAACTT-ACTATCGCAAT
1 GCGAACTTGACTATCGCAAT
6073316 GCGAACTTAGACTATCGCAAT
1 GCGAACTT-GACTATCGCAAT
6073337 GC
1 GC
6073339 AATTTACATA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (20 bp):
GCGAACTTGACTATCGCAAT
Found at i:6073323 original size:40 final size:41
Alignment explanation
Indices: 6073276--6073360 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 41
6073266 GATTTACAAC
*
6073276 GCGAACTTCGACTATCGCAATGCGAACTTAC-TA-TCGCAAT
1 GCGAACTTAGACTATCGCAATGC-AACTTACATATTCGCAAT
* *
6073316 GCGAACTTAGACTATCGCAATGCAATTTACATATTCGCATT
1 GCGAACTTAGACTATCGCAATGCAACTTACATATTCGCAAT
6073357 GCGA
1 GCGA
6073361 TAGTCGAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 6 0.15
40 24 0.60
41 10 0.25
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (41 bp):
GCGAACTTAGACTATCGCAATGCAACTTACATATTCGCAAT
Found at i:6073403 original size:21 final size:21
Alignment explanation
Indices: 6073377--6073446 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
6073367 AAGTTCGCGT
6073377 TTGCGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCG
* * *
6073398 TTGCGA--TAGTCTAAGTTCGCG
1 TTGCGATTTATTCCAAATT--CG
6073419 TTGCGATTTATTCCAAATTCG
1 TTGCGATTTATTCCAAATTCG
6073440 TTGCGAT
1 TTGCGAT
6073447 AGTCCAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 8 0.21
21 23 0.59
23 8 0.21
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (21 bp):
TTGCGATTTATTCCAAATTCG
Found at i:6073424 original size:42 final size:43
Alignment explanation
Indices: 6073355--6073450 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 43
6073345 CATATTCGCA
6073355 TTGCGATAGTCGAAGTTCGCGTTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTTGCGATTTATTCCAAATTCG
*
6073398 TTGCGATAGTCTAAGTTCGCG-TTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTTGCGATTTATTCCAAATTCG
6073440 TTGCGATAGTC
1 TTGCGATAGTC
6073451 CAAAATCGTA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 32 0.62
43 20 0.38
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (43 bp):
TTGCGATAGTCGAAGTTCGCGTTTGCGATTTATTCCAAATTCG
Found at i:6073454 original size:19 final size:19
Alignment explanation
Indices: 6073388--6073459 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 19
6073378 TGCGATTTAT
6073388 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
* * *
6073407 TCTAAGTTCGCGTTGCGATTTAT
1 TCCAAATT--CGTTGCGA--TAG
6073430 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
*
6073449 TCCAAAATCGT
1 TCCAAATTCGT
6073460 AACGACTGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 18 0.43
21 16 0.38
23 8 0.19
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (19 bp):
TCCAAATTCGTTGCGATAG
Found at i:6073568 original size:5 final size:5
Alignment explanation
Indices: 6073558--6073588 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
6073548 GACCACGACC
6073558 CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
6073589 GCGACGCGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.35, C:0.23, G:0.42, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:6074069 original size:6 final size:6
Alignment explanation
Indices: 6074055--6074095 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
6074045 CGCCGCCTCG
*
6074055 GGTCG- GGTCGT GGTCGT GGTCTT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
6074096 TAAATAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.00, C:0.17, G:0.49, T:0.34
Consensus pattern (6 bp):
GGTCGT
Found at i:6074444 original size:23 final size:20
Alignment explanation
Indices: 6074412--6074455 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 20
6074402 GAAATATTTA
6074412 TTTTATATTAATATTTATATAT
1 TTTTATATTAA-ATTTA-ATAT
6074434 TTTTATAATTAAATTTAATAT
1 TTTTAT-ATTAAATTTAATAT
6074455 T
1 T
6074456 CTCATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTATATTAAATTTAATAT
Found at i:6081511 original size:12 final size:12
Alignment explanation
Indices: 6081479--6081513 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6081469 CTCACCAAAA
*
6081479 ATATATATATAT
1 ATATATATGTAT
*
6081491 ATATATATGTGT
1 ATATATATGTAT
6081503 ATATATATGTA
1 ATATATATGTA
6081514 ATGCAGGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:6081885 original size:33 final size:33
Alignment explanation
Indices: 6081842--6081919 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
6081832 CAGCTGTTAG
* * *
6081842 CAATGTTGCTCTGGCACCAA-GGTCAGCTGGTGC
1 CAATGGTGCTCTGGCA-CAAGGGCCAGCTGGTCC
* *
6081875 CGATGGTGCTCAGGCACAAGGGCCAGCTGGTCC
1 CAATGGTGCTCTGGCACAAGGGCCAGCTGGTCC
*
6081908 CAATTGTGCTCT
1 CAATGGTGCTCT
6081920 TTTTGTGTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
32 3 0.08
33 33 0.92
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.23
Consensus pattern (33 bp):
CAATGGTGCTCTGGCACAAGGGCCAGCTGGTCC
Found at i:6083209 original size:20 final size:20
Alignment explanation
Indices: 6083166--6083208 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
6083156 TAAAAAAAAG
6083166 AAAATTTTGAAATTTTATTA
1 AAAATTTTGAAATTTTATTA
* *
6083186 AAAATTTT-AATTTTTTTTA
1 AAAATTTTGAAATTTTATTA
6083205 AAAA
1 AAAA
6083209 AATTATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAATTTTGAAATTTTATTA
Found at i:6095051 original size:198 final size:198
Alignment explanation
Indices: 6094713--6095109 Score: 794
Period size: 198 Copynumber: 2.0 Consensus size: 198
6094703 GGTAGGACCC
6094713 AATTCCCCATATTCCAGTTTCTCCTTTTTCACTATGTTAGAAATCAACGTTGGAATAATAGAACC
1 AATTCCCCATATTCCAGTTTCTCCTTTTTCACTATGTTAGAAATCAACGTTGGAATAATAGAACC
6094778 GGATTAACCCAAATTAAATAATAGATGGTGGAATGTTTTGAATTACTGATGGAAGTTAACTTGGG
66 GGATTAACCCAAATTAAATAATAGATGGTGGAATGTTTTGAATTACTGATGGAAGTTAACTTGGG
6094843 AATGTGTCACGTCTTGTCCGGTCTGCATATCTTCGTAAGTTTGGCTGCACAATCAAATTTGCCAA
131 AATGTGTCACGTCTTGTCCGGTCTGCATATCTTCGTAAGTTTGGCTGCACAATCAAATTTGCCAA
6094908 TAA
196 TAA
6094911 AATTCCCCATATTCCAGTTTCTCCTTTTTCACTATGTTAGAAATCAACGTTGGAATAATAGAACC
1 AATTCCCCATATTCCAGTTTCTCCTTTTTCACTATGTTAGAAATCAACGTTGGAATAATAGAACC
6094976 GGATTAACCCAAATTAAATAATAGATGGTGGAATGTTTTGAATTACTGATGGAAGTTAACTTGGG
66 GGATTAACCCAAATTAAATAATAGATGGTGGAATGTTTTGAATTACTGATGGAAGTTAACTTGGG
6095041 AATGTGTCACGTCTTGTCCGGTCTGCATATCTTCGTAAGTTTGGCTGCACAATCAAATTTGCCAA
131 AATGTGTCACGTCTTGTCCGGTCTGCATATCTTCGTAAGTTTGGCTGCACAATCAAATTTGCCAA
6095106 TAA
196 TAA
6095109 A
1 A
6095110 TAGAATATCT
Statistics
Matches: 199, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
198 199 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (198 bp):
AATTCCCCATATTCCAGTTTCTCCTTTTTCACTATGTTAGAAATCAACGTTGGAATAATAGAACC
GGATTAACCCAAATTAAATAATAGATGGTGGAATGTTTTGAATTACTGATGGAAGTTAACTTGGG
AATGTGTCACGTCTTGTCCGGTCTGCATATCTTCGTAAGTTTGGCTGCACAATCAAATTTGCCAA
TAA
Found at i:6106952 original size:18 final size:19
Alignment explanation
Indices: 6106912--6106955 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6106902 TTTGGTTCAT
*
6106912 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAG-G
*
6106932 GGAATAAAAGATTATCA-G
1 GGAATAAAAGATTACCAGG
6106950 GGAATA
1 GGAATA
6106956 TGATTATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
20 15 0.68
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.23
Consensus pattern (19 bp):
GGAATAAAAGATTACCAGG
Found at i:6112772 original size:22 final size:22
Alignment explanation
Indices: 6112729--6112772 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6112719 AAATTTACAT
*
6112729 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
6112751 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
6112773 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:6114586 original size:29 final size:29
Alignment explanation
Indices: 6114554--6114611 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
6114544 ACTGTTTGAG
6114554 GGATTTTGGTCACTGTTGTTGATGCGTTC
1 GGATTTTGGTCACTGTTGTTGATGCGTTC
6114583 GGATTTTGGTCACTGTTGTTGATGCGTTC
1 GGATTTTGGTCACTGTTGTTGATGCGTTC
6114612 ATCAGATACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.10, C:0.14, G:0.31, T:0.45
Consensus pattern (29 bp):
GGATTTTGGTCACTGTTGTTGATGCGTTC
Found at i:6115005 original size:3 final size:3
Alignment explanation
Indices: 6114983--6115057 Score: 96
Period size: 3 Copynumber: 24.3 Consensus size: 3
6114973 ATTAATATGT
* ** *
6114983 TAA TAA AAA TAA GCA TAA TAA TAA TAA TAA TTAGA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA
6115030 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6115058 TAGATAGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
3 57 0.92
4 4 0.06
5 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6115011 original size:32 final size:32
Alignment explanation
Indices: 6114985--6115045 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
6114975 TAATATGTTA
*
6114985 ATAAAAATAAGCATAATAATAATAATAATTAG
1 ATAAAAATAAGAATAATAATAATAATAATTAG
** *
6115017 ATAGTAATAATAATAATAATAATAATAAT
1 ATAAAAATAAGAATAATAATAATAATAAT
6115046 AATAATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (32 bp):
ATAAAAATAAGAATAATAATAATAATAATTAG
Found at i:6115501 original size:129 final size:129
Alignment explanation
Indices: 6115271--6115581 Score: 550
Period size: 129 Copynumber: 2.4 Consensus size: 129
6115261 TTAACGCGGT
* *
6115271 TCCTACGTGATGAGGAAATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
1 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
*
6115336 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
66 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTATGGTTGACACGGC
*
6115400 TCCTACGTGATAAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
1 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
6115465 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTATGGTTGACACGGC
66 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTATGGTTGACACGGC
* * * *
6115529 TCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGA
1 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGA
6115582 GGACGGCTGG
Statistics
Matches: 173, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 173 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (129 bp):
TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTATGGTTGACACGGC
Found at i:6115582 original size:40 final size:41
Alignment explanation
Indices: 6115271--6115584 Score: 215
Period size: 40 Copynumber: 7.4 Consensus size: 41
6115261 TTAACGCGGT
*
6115271 TCCTACGTGATGAGGAAATCTGG-TC-GGGGAATGACACGGC
1 TCCTACGTGATGAGGAGATCTGGATCTGGGG-ATGACACGGC
* * * * * *
6115311 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGT
1 TCCTACGTGATGAGGAGATCTGG--ATCT---GGGGATGACACGGC
* ** *
6115357 TCCTACGTGATGAGGACG-GCTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGG--ATCTGGGGATGACACGGC
* *
6115400 TCCTACGTGATAAGGAGATCTGG-TCTGGGAATGACACGGC
1 TCCTACGTGATGAGGAGATCTGGATCTGGGGATGACACGGC
* * * * * *
6115440 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGT
1 TCCTACGTGATGAGGAGATCTGG--ATCT---GGGGATGACACGGC
* * ** *
6115486 TCCTACGTGATGAGGACAGCTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGAGATCTGG--ATCTGGGGATGACACGGC
*
6115529 TCCTACGTGATGAGGAGATCTGG-TCTGGGGATGACACGGT
1 TCCTACGTGATGAGGAGATCTGGATCTGGGGATGACACGGC
*
6115569 TCCTACATGATGAGGA
1 TCCTACGTGATGAGGA
6115585 CGGCTGGCCA
Statistics
Matches: 207, Mismatches: 52, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
40 79 0.38
42 1 0.00
43 61 0.29
46 62 0.30
47 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (41 bp):
TCCTACGTGATGAGGAGATCTGGATCTGGGGATGACACGGC
Found at i:6115813 original size:30 final size:28
Alignment explanation
Indices: 6115761--6115822 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
6115751 TCAAGCGAGA
* *
6115761 CAAAATTTGTTTTTAAGGGAAACATTCT
1 CAAAATTGGTTTTTAAGGGAAACAGTCT
* *
6115789 CAAAGATTGGTTTTTCATGGGAAACCGTCT
1 CAAA-ATTGGTTTTT-AAGGGAAACAGTCT
6115819 CAAA
1 CAAA
6115823 TGAGACAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.14
29 9 0.32
30 15 0.54
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (28 bp):
CAAAATTGGTTTTTAAGGGAAACAGTCT
Found at i:6116391 original size:63 final size:64
Alignment explanation
Indices: 6116314--6116441 Score: 195
Period size: 64 Copynumber: 2.0 Consensus size: 64
6116304 TTTTTTGTTT
* * *
6116314 TTTTTTTCAAAAGAAGTTGTC-TCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGA
1 TTTTTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
* * *
6116377 TTTTTTTCAAAAGAAATTGTCTTTAAGAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGA
1 TTTTTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
6116441 T
1 T
6116442 GGATCACATC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
63 20 0.34
64 38 0.66
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (64 bp):
TTTTTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGA
Found at i:6116554 original size:120 final size:119
Alignment explanation
Indices: 6116339--6116562 Score: 276
Period size: 120 Copynumber: 1.9 Consensus size: 119
6116329 GTTGTCTCGA
* *
6116339 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTTTAAG
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAACTGTCTTCAAG
*
6116404 AGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
66 AGAGAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
* * * **
6116458 GAGACCAAA-TTTGTTTCAAATGAAACAATCTCAAA-AGTTAGTTTTTCATTAGAAACTGTC-TC
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGA-TT--TTTTTCAAAAGAAACTGTCTTC
** *
6116520 AAGAGAGACAACA-TTTGTTTTTAAAGAAATAGACTCAAAGATG
63 AAGAGAGA-AA-ATTTTGTTTCAAAAGAAACAGACTCAAAGATG
6116563 ATTTTGTTAA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
117 1 0.01
118 26 0.29
119 16 0.18
120 45 0.51
121 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (119 bp):
GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAACTGTCTTCAAG
AGAGAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCACATCTTAAGT
Found at i:6116761 original size:67 final size:66
Alignment explanation
Indices: 6116663--6116893 Score: 297
Period size: 67 Copynumber: 3.5 Consensus size: 66
6116653 TCATTTTAAG
* * * *
6116663 AGAAACAGATTCAAAGATTTTTTTTCAAAAGAAATTATTTTAAGAGAGAAAAAATTTTGTTTCCA
1 AGAAACAAACTCAAAGATTTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCA
6116728 A
66 A
*
6116729 AGAAACAAACTCAAAGACTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAAACTCAAAGA-TTTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
6116794 AA
65 AA
* * * * *
6116796 AGAAACAAACTCAAAGA-TTTTTTTC-ACA-AAATTGTCTCAAGAGAGACAAAACTTTGTTTCAA
1 AGAAACAAACTCAAAGATTTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCA
6116858 A
66 A
* * * *
6116859 ATAAATAGACTCAAAGATTTTTTTTTCAAACGAAA
1 AGAAACAAACTCAAAGA-TTTTTTTTCAAAAGAAA
6116894 CAACTCAAAG
Statistics
Matches: 144, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
63 45 0.31
64 2 0.01
65 15 0.10
66 16 0.11
67 66 0.46
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (66 bp):
AGAAACAAACTCAAAGATTTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCA
A
Found at i:6116871 original size:63 final size:65
Alignment explanation
Indices: 6116609--6116882 Score: 288
Period size: 67 Copynumber: 4.2 Consensus size: 65
6116599 ATGAACATAT
** *** * * *
6116609 TCAAAGATTTACTTCAAAAGAAACGGTCTCAAGAGATACAAAATTCAT-TTT--AAGAGAAACAG
1 TCAAAGATTTTTTTCAAAAGAAATTATCTCAAGAGAGACAAAATT-TTGTTTCCAA-AGAAACAA
*
6116671 AT
64 AC
* * *
6116673 TCAAAGATTTTTTTTCAAAAGAAATTATTTTAAGAGAGAAAAAATTTTGTTTCCAAAGAAACAAA
1 TCAAAGA-TTTTTTTCAAAAGAAATTATCTCAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAA
6116738 C
65 C
*
6116739 TCAAAGACTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAA
1 TCAAAGA-TTTT-TTTCAAAAGAAATTATCTCAAGAGAGACAAAATTTTGTTTCCAAAGAAACAA
6116804 AC
64 AC
* * * * * * *
6116806 TCAAAGATTTTTTTC-ACA-AAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGAC
1 TCAAAGATTTTTTTCAAAAGAAATTATCTCAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAAC
6116869 TCAAAGATTTTTTT
1 TCAAAGATTTTTTT
6116883 TTCAAACGAA
Statistics
Matches: 182, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
63 52 0.29
64 10 0.05
65 36 0.20
66 23 0.13
67 61 0.34
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (65 bp):
TCAAAGATTTTTTTCAAAAGAAATTATCTCAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAAC
Found at i:6116900 original size:29 final size:29
Alignment explanation
Indices: 6116867--6117060 Score: 288
Period size: 29 Copynumber: 6.8 Consensus size: 29
6116857 AAATAAATAG
* * *
6116867 ACTCAAAGATTTTTTTTTCAAACGAAAC-A
1 ACTCAAAGA-TTTTTATTCAAAAGGAACAA
6116896 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
*
6116925 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
*
6116954 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
*
6116983 ACTCCAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
*
6117012 ACTCAAAGATTTTT-TTCAAGAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
6117040 ACTCAAAGA-TTTT-TTCAAAAG
1 ACTCAAAGATTTTTATTCAAAAG
6117061 AAATTGTCTT
Statistics
Matches: 157, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
27 11 0.07
28 37 0.24
29 109 0.69
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.29
Consensus pattern (29 bp):
ACTCAAAGATTTTTATTCAAAAGGAACAA
Found at i:6117383 original size:36 final size:35
Alignment explanation
Indices: 6117299--6117396 Score: 110
Period size: 36 Copynumber: 2.8 Consensus size: 35
6117289 GAGAAAATGA
* *
6117299 TGTCTCAAGCGAGACGAAATTTG-CTTTAAGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGATAT
* **
6117333 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGCA-AT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTA-AG-ATAT
*
6117369 TGTCTCAAGCGAGACAAAGTTTGTTTTT
1 TGTCTCAAGCGAGACAAAATTTGTTTTT
6117397 GAGAAAACGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
34 19 0.37
35 4 0.08
36 28 0.54
37 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAAGATAT
Found at i:6117411 original size:36 final size:36
Alignment explanation
Indices: 6117300--6117418 Score: 102
Period size: 36 Copynumber: 3.4 Consensus size: 36
6117290 AGAAAATGAT
* * *
6117300 GTCTCAAGCGAGACGAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGA-AAAC
** * **
6117334 GTCTCAAATGAGACAAAATTTGTTTTTAGAGCAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
6117370 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
6117405 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
6117419 TCAACTTTGT
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
34 19 0.28
35 11 0.16
36 37 0.55
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:6117549 original size:105 final size:101
Alignment explanation
Indices: 6117370--6117602 Score: 276
Period size: 105 Copynumber: 2.3 Consensus size: 101
6117360 TAGAGCAATT
*
6117370 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAAAGATCTCAAGTGAGATCAACTTTGTTTAAT
* *
6117434 GTGAAACAAATTCGAAATTT-TGATCTCAAAGGGAAAAG
64 GTGAAACAAATTCAAAATTTGT-ATCTCAAAGGAAAAAG
* *
6117472 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAGAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AGAAA-AAG-ATCTCAA-GTGAGATCAACTTTGTTT
* * *
6117536 -TTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
61 AAT-GTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAAAG
*
6117577 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
6117603 AAAATTCTCA
Statistics
Matches: 114, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 8 0.07
104 5 0.04
105 77 0.68
106 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAAAGATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGTATCTCAAAGGAAAAAG
Found at i:6119189 original size:13 final size:12
Alignment explanation
Indices: 6119155--6119190 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
6119145 CACTTTCTCT
6119155 TTTTTTCTTTGA
1 TTTTTTCTTTGA
*
6119167 TTTTTGCTTTGA
1 TTTTTTCTTTGA
6119179 TTTTTCTCTTTG
1 TTTTT-TCTTTG
6119191 CTCTTTGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (12 bp):
TTTTTTCTTTGA
Found at i:6119207 original size:25 final size:24
Alignment explanation
Indices: 6119152--6119212 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
6119142 GTCCACTTTC
* *
6119152 TCTTTTTTTCTTTGATTTTTGCTT
1 TCTTTTTCTCTTTGATCTTTGCTT
* *
6119176 TGATTTTTCTCTTTGCTCTTTGCTCT
1 T-CTTTTTCTCTTTGATCTTTGCT-T
6119202 TC-TTTTCTCTT
1 TCTTTTTCTCTT
6119213 CGCTTTAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 10 0.33
25 18 0.60
26 2 0.07
ACGTcount: A:0.03, C:0.20, G:0.08, T:0.69
Consensus pattern (24 bp):
TCTTTTTCTCTTTGATCTTTGCTT
Found at i:6119845 original size:26 final size:24
Alignment explanation
Indices: 6119815--6119885 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 24
6119805 CAAGGTGGAA
6119815 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
* *
6119839 AGGGAATGTTTCAAGG--TCGAA-A-
1 A--GAATATTTCAAGGTCTCAAAGAG
6119861 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
6119885 A
1 A
6119886 TAGAATGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 12 0.32
22 5 0.14
23 2 0.05
24 6 0.16
26 12 0.32
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAATATTTCAAGGTCTCAAAGAG
Found at i:6119870 original size:20 final size:20
Alignment explanation
Indices: 6119802--6119876 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
6119792 AAATACAGTG
*
6119802 TTTCAAGGT-GGAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
* *
6119821 TTTCAAGGTCTCAAAGAGAGGGAATG
1 TTTCAAGG--TCGAA-A-A--GAATA
6119847 TTTCAAGGTCGAAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
6119867 TTTCAAGGTC
1 TTTCAAGGTC
6119877 TCAAAGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 8 0.18
20 14 0.32
21 1 0.02
22 2 0.05
23 2 0.05
24 5 0.11
26 12 0.27
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (20 bp):
TTTCAAGGTCGAAAAGAATA
Found at i:6119890 original size:26 final size:26
Alignment explanation
Indices: 6119812--6119891 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
6119802 TTTCAAGGTG
6119812 GAAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
** *
6119838 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATATTTCAAGGTCTCAAAGA
6119859 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
*
6119884 GATAGAAT
1 GAAAGAAT
6119892 GTCAAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
20 13 0.32
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 20 0.49
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (26 bp):
GAAAGAATATTTCAAGGTCTCAAAGA
Found at i:6119892 original size:46 final size:45
Alignment explanation
Indices: 6119800--6119893 Score: 152
Period size: 46 Copynumber: 2.1 Consensus size: 45
6119790 ATAAATACAG
* *
6119800 TGTTTCAAGGTGGAAAGAATATTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
6119845 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
6119891 TGT
1 TGT
6119894 CAAAAATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 11 0.24
46 34 0.76
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:6121351 original size:31 final size:32
Alignment explanation
Indices: 6121295--6121356 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6121285 TGACAAAATG
6121295 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
6121327 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
6121357 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:6122914 original size:22 final size:22
Alignment explanation
Indices: 6122871--6122914 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6122861 AAATTTACAT
*
6122871 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
6122893 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
6122915 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:6124728 original size:29 final size:29
Alignment explanation
Indices: 6124696--6124753 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
6124686 ACTGTTTGAG
6124696 GGATTTTGGTCACTGTTGTTGATGCGTTC
1 GGATTTTGGTCACTGTTGTTGATGCGTTC
6124725 GGATTTTGGTCACTGTTGTTGATGCGTTC
1 GGATTTTGGTCACTGTTGTTGATGCGTTC
6124754 ATCAGATACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.10, C:0.14, G:0.31, T:0.45
Consensus pattern (29 bp):
GGATTTTGGTCACTGTTGTTGATGCGTTC
Found at i:6125147 original size:3 final size:3
Alignment explanation
Indices: 6125125--6125196 Score: 90
Period size: 3 Copynumber: 23.3 Consensus size: 3
6125115 ATTAATATGT
* ** *
6125125 TAA TAA AAA TAA GCA TAA TAA TAA TAA TAA TAA TTAGA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA
6125172 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
6125197 TAGATAGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 54 0.92
4 4 0.07
5 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6132863 original size:20 final size:20
Alignment explanation
Indices: 6132824--6132863 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6132814 AAACAAAAAG
* * *
6132824 GCAAGAAGAAAAATCGCGAA
1 GCAAAAAGAAAAACCACGAA
6132844 GCAAAAAGAAAAACCACGAA
1 GCAAAAAGAAAAACCACGAA
6132864 TGTCAAGAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.17, G:0.20, T:0.03
Consensus pattern (20 bp):
GCAAAAAGAAAAACCACGAA
Found at i:6138279 original size:45 final size:45
Alignment explanation
Indices: 6138230--6138317 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
6138220 GAACATCGAA
*
6138230 TGCATTTTATGCATCGATGCACATA-CCATGCATCGATACACTCAG
1 TGCATTTGATGCATCGATGCAC-TAGCCATGCATCGATACACTCAG
* *
6138275 TGCATTTGATGCATCGATGCACTAGCCATGTATCGATGCACTC
1 TGCATTTGATGCATCGATGCACTAGCCATGCATCGATACACTC
6138318 TGGCTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 2 0.05
45 37 0.95
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACTAGCCATGCATCGATACACTCAG
Found at i:6140173 original size:31 final size:31
Alignment explanation
Indices: 6140135--6140197 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
6140125 TTTTCTAAGG
6140135 ATCATGCACTCAGTAACCTAGACAATGAAGA
1 ATCATGCACTCAGTAACCTAGACAATGAAGA
6140166 ATCATGCACTCAGTAACCTAGACAATGAAGA
1 ATCATGCACTCAGTAACCTAGACAATGAAGA
6140197 A
1 A
6140198 GAATATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (31 bp):
ATCATGCACTCAGTAACCTAGACAATGAAGA
Found at i:6143856 original size:20 final size:20
Alignment explanation
Indices: 6143831--6143873 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
6143821 ATTTTTAAAT
6143831 ATTAAAATAACT-TATTTATA
1 ATTAAAAT-ACTATATTTATA
*
6143851 ATTAAAATACTATTTTTATA
1 ATTAAAATACTATATTTATA
6143871 ATT
1 ATT
6143874 TTATTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAAAATACTATATTTATA
Found at i:6144149 original size:31 final size:32
Alignment explanation
Indices: 6144114--6144202 Score: 78
Period size: 34 Copynumber: 2.8 Consensus size: 32
6144104 ACTTTTATTA
6144114 ATAATTTATTATATATTATTAAAATAAAAAT-
1 ATAATTTATTATATATTATTAAAATAAAAATG
* *
6144145 ATAATATCT-TATATTATATTATTATAATATAAATG
1 ATAAT-T-TAT-TA-TATATTATTAAAATAAAAATG
*
6144180 ATTATTTTATTATA-A-TATTAAAA
1 A-TAATTTATTATATATTATTAAAA
6144203 ATATAATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
31 12 0.26
32 3 0.06
33 5 0.11
34 21 0.45
35 3 0.06
36 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (32 bp):
ATAATTTATTATATATTATTAAAATAAAAATG
Found at i:6144163 original size:34 final size:31
Alignment explanation
Indices: 6144125--6144202 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 31
6144115 TAATTTATTA
6144125 TATATTATTAAAATAAAAAT-ATAATATCTTATAT
1 TATATTATTAAAATAAAAATGAT--TAT-TT-TAT
* *
6144159 TATATTATTATAATATAAATGATTATTTTAT
1 TATATTATTAAAATAAAAATGATTATTTTAT
*
6144190 TATAATATTAAAA
1 TATATTATTAAAA
6144203 ATATAATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 14 0.36
32 2 0.05
33 3 0.08
34 18 0.46
35 2 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (31 bp):
TATATTATTAAAATAAAAATGATTATTTTAT
Found at i:6144220 original size:22 final size:24
Alignment explanation
Indices: 6144190--6144257 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 24
6144180 ATTATTTTAT
*
6144190 TATAATATTAAAAATA-TAAT-AA
1 TATATTATTAAAAATATTAATAAA
*
6144212 TATATTATTAGAAATATTAATAAA
1 TATATTATTAAAAATATTAATAAA
* *
6144236 TATATT-TTAAATATTTTAATAA
1 TATATTATTAAAAATATTAATAA
6144258 TTAATATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 14 0.36
23 17 0.44
24 8 0.21
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (24 bp):
TATATTATTAAAAATATTAATAAA
Found at i:6144254 original size:23 final size:23
Alignment explanation
Indices: 6144201--6144267 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
6144191 ATAATATTAA
6144201 AAATA-TAAT-AATATATTATTAG
1 AAATATTAATAAATATATT-TTAG
6144223 AAATATTAATAAATATATTTTA-
1 AAATATTAATAAATATATTTTAG
* *
6144245 AATATTTTAATAATTAATATTTT
1 AA-ATATTAATAAAT-ATATTTT
6144268 GATTAAAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.18
23 17 0.44
24 15 0.38
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
AAATATTAATAAATATATTTTAG
Found at i:6145458 original size:4 final size:4
Alignment explanation
Indices: 6145449--6145499 Score: 68
Period size: 4 Copynumber: 12.8 Consensus size: 4
6145439 TAATACTAAT
* *
6145449 AATA AATA AATA AATA GATA AATA AATA AATA ATTA AATA AA-A TAATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA -AATA
6145497 AAT
1 AAT
6145500 CAGTGGAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 1 0.02
4 39 0.95
5 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:6145661 original size:3 final size:3
Alignment explanation
Indices: 6145642--6145708 Score: 54
Period size: 3 Copynumber: 23.0 Consensus size: 3
6145632 AAGAGAAAAA
* *
6145642 AAT AA- AAT -AT AAC AAT AAT AA- AAT GAAT TA- AAT AGAT AAAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT -AAT AAT
6145685 AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
6145709 GAGAAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
2 9 0.17
3 35 0.67
4 7 0.13
5 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:6145697 original size:22 final size:21
Alignment explanation
Indices: 6145658--6145710 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
6145648 ATATAACAAT
*
6145658 AATAAAATGAATTAAATAGATA
1 AATAAAATGAATAAAATA-ATA
6145680 AATAAAAT-AATAATAATAAT-
1 AATAAAATGAATAA-AATAATA
6145700 AATAATAATGA
1 AATAA-AATGA
6145711 GAAAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 9 0.33
22 13 0.48
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (21 bp):
AATAAAATGAATAAAATAATA
Found at i:6147389 original size:23 final size:23
Alignment explanation
Indices: 6147323--6147408 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
6147313 TCATATAAAT
6147323 TTGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
* *
6147346 TTTGCCCCGAAG-GACCGCGTAGAGA
1 -TTGCACCGAAGTG-CCACGTAGA-A
*
6147371 -TGCACCGAAGTGTCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
* *
6147393 TTGCATCGTAGTGCCA
1 TTGCACCGAAGTGCCA
6147409 TATAATATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
22 1 0.02
23 29 0.58
24 19 0.38
25 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:6152260 original size:21 final size:22
Alignment explanation
Indices: 6152234--6152278 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6152224 GAATGCAAAT
6152234 AGGGAATCG-GTACCCTGCTAC
1 AGGGAATCGAGTACCCTGCTAC
* *
6152255 AGGGAATCGATTCCCCTGCTAC
1 AGGGAATCGAGTACCCTGCTAC
6152277 AG
1 AG
6152279 TACTGCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (22 bp):
AGGGAATCGAGTACCCTGCTAC
Found at i:6152764 original size:23 final size:23
Alignment explanation
Indices: 6152697--6152783 Score: 72
Period size: 23 Copynumber: 3.7 Consensus size: 23
6152687 TCATATAAAT
*
6152697 TTGCACCGAAGTTCCAAT-TAGAA
1 TTGCACCGAAGTGCC-ATGTAGAA
* **
6152720 TTTGCCCCGAAG-GACCGCGTAGAGA
1 -TTGCACCGAAGTG-CCATGTAGA-A
6152745 -TGCACCGAAGTGCCATGTAGAA
1 TTGCACCGAAGTGCCATGTAGAA
*
6152767 TTGCACCGTAGTGCCAT
1 TTGCACCGAAGTGCCAT
6152784 ATAATATGTC
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
22 1 0.02
23 31 0.62
24 17 0.34
25 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (23 bp):
TTGCACCGAAGTGCCATGTAGAA
Found at i:6154433 original size:3 final size:3
Alignment explanation
Indices: 6154420--6154449 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
6154410 AAGATAAGTA
6154420 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
6154450 ATATATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6154567 original size:32 final size:32
Alignment explanation
Indices: 6154529--6154630 Score: 125
Period size: 32 Copynumber: 3.2 Consensus size: 32
6154519 CTATATATTA
6154529 TATATAAATTTTCAAAAATATTTTTTTAAAAA-
1 TATAT-AATTTTCAAAAATATTTTTTTAAAAAC
* ****
6154561 TATATAATTTTCAAAAAAAAAAATTTAAAAAC
1 TATATAATTTTCAAAAATATTTTTTTAAAAAC
* *
6154593 TATATAATTTTCAAAAATGTTTTTTTAAAAAT
1 TATATAATTTTCAAAAATATTTTTTTAAAAAC
6154625 TATATA
1 TATATA
6154631 TTATATAAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 21 0.37
32 36 0.63
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (32 bp):
TATATAATTTTCAAAAATATTTTTTTAAAAAC
Found at i:6154684 original size:23 final size:26
Alignment explanation
Indices: 6154653--6154711 Score: 88
Period size: 25 Copynumber: 2.3 Consensus size: 26
6154643 TTAAAAAATA
6154653 TTTTCAAAAAC-A-ATATTATATAAG
1 TTTTCAAAAACTATATATTATATAAG
6154677 TTTT-AAAAACTATATATTATATAAG
1 TTTTCAAAAACTATATATTATATAAG
6154702 TTTTTCAAAA
1 -TTTTCAAAA
6154712 TGATTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.19
24 5 0.16
25 12 0.39
26 4 0.13
27 4 0.13
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (26 bp):
TTTTCAAAAACTATATATTATATAAG
Found at i:6154691 original size:62 final size:63
Alignment explanation
Indices: 6154615--6154737 Score: 180
Period size: 62 Copynumber: 2.0 Consensus size: 63
6154605 AAAAATGTTT
*
6154615 TTTTAAAAATTATATATTATATAAGTTTTTAAAAAAT-ATTTTCAAAAA-CA-ATATTATATAAG
1 TTTTAAAAACTATATATTATATAAGTTTTT-AAAAATGATTTT-AAAAATCATATATTATATAAG
* *
6154677 TTTTAAAAACTATATATTATATAAGTTTTTCAAAATGATTTTAAAAATTATATATTATATA
1 TTTTAAAAACTATATATTATATAAGTTTTTAAAAATGATTTTAAAAATCATATATTATATA
6154738 TATTTTCTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 10 0.18
62 35 0.64
63 10 0.18
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (63 bp):
TTTTAAAAACTATATATTATATAAGTTTTTAAAAATGATTTTAAAAATCATATATTATATAAG
Done.