Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 56 of 77
Found at i:11125507 original size:19 final size:18
Alignment explanation
Indices: 11125476--11125514 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
11125466 TATTATTATT
*
11125476 TTTTATATTTTTTTGGTA
1 TTTTATATTTTTTTGATA
11125494 TTTTATATTATTTTTGATA
1 TTTTATATT-TTTTTGATA
11125513 TT
1 TT
11125515 ATTTTTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTATATTTTTTTGATA
Found at i:11125507 original size:41 final size:40
Alignment explanation
Indices: 11125460--11125562 Score: 95
Period size: 42 Copynumber: 2.5 Consensus size: 40
11125450 TCTTTTTGTT
11125460 TTATTTTATTATTATTTTTTATATTT-T-TTTGGTATTTTATA
1 TTATTTTATTATTATTTTTTAT-TTTATATTTGGTA-TTTA-A
*
11125501 TTATTTT-TGATATTATTTTTGTATTTTATATTTTGTATTTAA
1 TTATTTTAT--TATTATTTTT-TATTTTATATTTGGTATTTAA
* **
11125543 TAATAATATTATTATTTTTT
1 TTATTTTATTATTATTTTTT
11125563 GGGACAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
40 2 0.04
41 17 0.33
42 18 0.35
43 9 0.17
44 6 0.12
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (40 bp):
TTATTTTATTATTATTTTTTATTTTATATTTGGTATTTAA
Found at i:11125521 original size:12 final size:12
Alignment explanation
Indices: 11125494--11125539 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
11125484 TTTTTTGGTA
11125494 TTTT-ATATTAT
1 TTTTGATATTAT
11125505 TTTTGATATTAT
1 TTTTGATATTAT
*
11125517 TTTTGTATTTTAT
1 TTTTG-ATATTAT
11125530 ATTTTG-TATT
1 -TTTTGATATT
11125540 TAATAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 4 0.13
12 15 0.50
13 6 0.20
14 5 0.17
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.72
Consensus pattern (12 bp):
TTTTGATATTAT
Found at i:11125536 original size:14 final size:13
Alignment explanation
Indices: 11125501--11125540 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
11125491 GTATTTTATA
*
11125501 TTATTTTTG-ATA
1 TTATTTTTGTATT
11125513 TTATTTTTGTATT
1 TTATTTTTGTATT
11125526 TTATATTTTGTATT
1 TTAT-TTTTGTATT
11125540 T
1 T
11125541 AATAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 9 0.36
13 6 0.24
14 10 0.40
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (13 bp):
TTATTTTTGTATT
Found at i:11127030 original size:15 final size:15
Alignment explanation
Indices: 11127002--11127042 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
11126992 CCGGTTCAGA
11127002 TATT-TTTTTA-TAT
1 TATTATTTTTATTAT
11127015 TATTATTTTTATTAT
1 TATTATTTTTATTAT
* *
11127030 TTTTAGTTTTATT
1 TATTATTTTTATT
11127043 TTTAATAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.17
14 6 0.25
15 14 0.58
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (15 bp):
TATTATTTTTATTAT
Found at i:11127165 original size:17 final size:17
Alignment explanation
Indices: 11127159--11127191 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11127149 AAAAAATGCT
11127159 TAAAAATAATAATAATG
1 TAAAAATAATAATAATG
11127176 TAAAAATAATAATAAT
1 TAAAAATAATAATAAT
11127192 AAAACTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
TAAAAATAATAATAATG
Found at i:11127564 original size:28 final size:29
Alignment explanation
Indices: 11127414--11127571 Score: 121
Period size: 29 Copynumber: 5.4 Consensus size: 29
11127404 CCTAAAATTG
* *
11127414 AAACCCTAAAA-TCAAATACCTAAACCTTCC
1 AAACCCTAAAATTAAAAT-CCAAAACC-TCC
* **
11127444 AAACCTTAAAAATT-AAA-CCATAAACCCTAT
1 AAACCCT-AAAATTAAAATCCA-AAA-CCTCC
*
11127474 AAACCCTAAAATCAAAACTCC-AAACCTCC
1 AAACCCTAAAATTAAAA-TCCAAAACCTCC
* *
11127503 AAGCCCTAAAATTAAAATCCCAAACCTCC
1 AAACCCTAAAATTAAAATCCAAAACCTCC
* *
11127532 AAACCCTAAAATTAAACAT-CAAAATCT-T
1 AAACCCTAAAATTAAA-ATCCAAAACCTCC
11127560 AAACCCTAAAAT
1 AAACCCTAAAAT
11127572 CCAAAATCTC
Statistics
Matches: 105, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
28 15 0.14
29 54 0.51
30 24 0.23
31 9 0.09
32 3 0.03
ACGTcount: A:0.50, C:0.30, G:0.01, T:0.20
Consensus pattern (29 bp):
AAACCCTAAAATTAAAATCCAAAACCTCC
Found at i:11127569 original size:22 final size:22
Alignment explanation
Indices: 11127551--11127606 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
11127541 AATTAAACAT
11127551 CAAAATCTTAAACCCTAAAATC
1 CAAAATCTTAAACCCTAAAATC
* *
11127573 CAAAATCTCAAACTCTAAAATC
1 CAAAATCTTAAACCCTAAAATC
*
11127595 CAAAACCTTAAA
1 CAAAATCTTAAA
11127607 ATTTAAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (22 bp):
CAAAATCTTAAACCCTAAAATC
Found at i:11127613 original size:22 final size:22
Alignment explanation
Indices: 11127532--11127622 Score: 69
Period size: 22 Copynumber: 4.1 Consensus size: 22
11127522 CCAAACCTCC
*
11127532 AAACCCTAAAAT-TAAACAT-CA
1 AAACCTTAAAATCTAAA-ATCCA
* **
11127553 AAATCTTAAACCCTAAAATCCA
1 AAACCTTAAAATCTAAAATCCA
* * *
11127575 AAATCTCAAACTCTAAAATCCA
1 AAACCTTAAAATCTAAAATCCA
* *
11127597 AAACCTTAAAATTTAAATTCCTA
1 AAACCTTAAAATCTAAAATCC-A
11127620 AAA
1 AAA
11127623 ACCCTAAACT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 10 0.18
22 42 0.75
23 4 0.07
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACCTTAAAATCTAAAATCCA
Found at i:11128796 original size:3 final size:3
Alignment explanation
Indices: 11128790--11128872 Score: 166
Period size: 3 Copynumber: 27.7 Consensus size: 3
11128780 TATCATTTTT
11128790 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11128838 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11128873 GTAGATACTA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11129433 original size:20 final size:22
Alignment explanation
Indices: 11129394--11129434 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11129384 TAATCATACA
11129394 TTGTTAATAATAATTATTTGAT
1 TTGTTAATAATAATTATTTGAT
*
11129416 TTGTTGATAA-AA-TATTTGA
1 TTGTTAATAATAATTATTTGA
11129435 ATTCTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TTGTTAATAATAATTATTTGAT
Found at i:11129470 original size:21 final size:21
Alignment explanation
Indices: 11129444--11129491 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
11129434 AATTCTTTAA
* *
11129444 TTTTAATAGCTACAATCTAAT
1 TTTTAATAACTAAAATCTAAT
*
11129465 TTTTAATAACTAAAATTTAAT
1 TTTTAATAACTAAAATCTAAT
11129486 TTTTAA
1 TTTTAA
11129492 CAGTTTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTAATAACTAAAATCTAAT
Found at i:11130722 original size:11 final size:12
Alignment explanation
Indices: 11130708--11130772 Score: 53
Period size: 14 Copynumber: 5.0 Consensus size: 12
11130698 TTTTCCCTTA
11130708 TTTTT-TTTTAT
1 TTTTTGTTTTAT
11130719 TTTTTGTTTTGAT
1 TTTTTGTTTT-AT
11130732 TTTGTTGTCTTTAT
1 TTT-TTGT-TTTAT
11130746 TTTGTTGATTTT-T
1 TTT-TTG-TTTTAT
11130759 TTGTTATGTTTTAT
1 TT-TT-TGTTTTAT
11130773 GATATTATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
11 5 0.11
12 4 0.09
13 13 0.28
14 20 0.43
15 4 0.09
ACGTcount: A:0.09, C:0.02, G:0.12, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTTAT
Found at i:11130728 original size:14 final size:14
Alignment explanation
Indices: 11130712--11130758 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
11130702 CCCTTATTTT
11130712 TTTTTATTTT-TTG
1 TTTTTATTTTGTTG
*
11130725 TTTTGATTTTGTTG
1 TTTTTATTTTGTTG
*
11130739 TCTTTATTTTGTTG
1 TTTTTATTTTGTTG
11130753 ATTTTT
1 -TTTTT
11130759 TTGTTATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 9 0.32
14 15 0.54
15 4 0.14
ACGTcount: A:0.09, C:0.02, G:0.13, T:0.77
Consensus pattern (14 bp):
TTTTTATTTTGTTG
Found at i:11130733 original size:23 final size:22
Alignment explanation
Indices: 11130707--11130770 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 22
11130697 GTTTTCCCTT
*
11130707 ATTTTTTTTTATTTTTTGTTTTG
1 ATTTTTTTTTATTTTTT-TGTTG
* * *
11130730 ATTTTGTTGTCTTTATTTTGTTG
1 ATTTTTTTTTATTT-TTTTGTTG
*
11130753 ATTTTTTTGTTATGTTTT
1 ATTTTTTT-TTATTTTTT
11130771 ATGATATTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 25 0.81
24 6 0.19
ACGTcount: A:0.09, C:0.02, G:0.12, T:0.77
Consensus pattern (22 bp):
ATTTTTTTTTATTTTTTTGTTG
Found at i:11131211 original size:12 final size:12
Alignment explanation
Indices: 11131194--11131227 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11131184 TTTAAACAAT
11131194 ATAAAATAATAA
1 ATAAAATAATAA
*
11131206 ATAAAAAAATAA
1 ATAAAATAATAA
11131218 A-AAAATAATA
1 ATAAAATAATA
11131228 GTCGATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAATAATAA
Found at i:11133458 original size:118 final size:111
Alignment explanation
Indices: 11133266--11133478 Score: 291
Period size: 118 Copynumber: 1.9 Consensus size: 111
11133256 ATATGTTTTT
* * * * *
11133266 TTTTTTTTAGATTGTATGTAATTTTTGTTATTTTTTTAAATCTATCTTTTTATTTTATAGTATTC
1 TTTTTTTTAGATTATATCTAATTCTTGTTATTTTTTTAAATCTATCTTTATATTTTATAGTATTA
*
11133331 ATTTTTTATAATATATTTTTATACTTGATTATTTGTTTATTTATGC
66 ATTTATTATAATATATTTTTATACTTGATTATTTGTTTATTTATGC
*
11133377 TTTTTTTTAGATTATATCTAATTCTTGTTATTTTTCATTTTAAAGCATCTATGTTTATATTTTAT
1 TTTTTTTTAGATTATATCTAATTCTTGTTA--TTT--TTTT-AA--ATCTATCTTTATATTTTAT
*
11133442 AGTATTAATTTATTATAATATATTTTTATATTTGATT
59 AGTATTAATTTATTATAATATATTTTTATACTTGATT
11133479 CTCGACATTA
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
111 27 0.31
113 3 0.03
115 4 0.05
116 2 0.02
118 51 0.59
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.63
Consensus pattern (111 bp):
TTTTTTTTAGATTATATCTAATTCTTGTTATTTTTTTAAATCTATCTTTATATTTTATAGTATTA
ATTTATTATAATATATTTTTATACTTGATTATTTGTTTATTTATGC
Found at i:11133709 original size:2 final size:2
Alignment explanation
Indices: 11133702--11133726 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11133692 TGCTTGGTTA
11133702 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 A
11133727 CTTTTTTACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11136401 original size:2 final size:2
Alignment explanation
Indices: 11136396--11136423 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11136386 TCTCAAAATC
11136396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11136424 TTCTAACCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11139118 original size:102 final size:102
Alignment explanation
Indices: 11138942--11139144 Score: 302
Period size: 102 Copynumber: 2.0 Consensus size: 102
11138932 GTCAATATTT
* * * *
11138942 GCAAGGAATCGCACGATTTCGACAGGCTTCAGTAAGTGATCGGGCGATGGATGTTGCACGATAAA
1 GCAAGGAATCGCACGATTTCGACAGACTTCAGAAAGTGATCGGGCGATGAAAGTTGCACGATAAA
11139007 GCAACGGTAGATCAAAACTATTTGTCCATATGCGAAC
66 GCAACGGTAGATCAAAACTATTTGTCCATATGCGAAC
* * * *
11139044 GCAAGGAGTCGCATGATTTCGACCGACTTTC-GAAAGTGCTCGGGCGATGCAAAG-TGCACGATA
1 GCAAGGAATCGCACGATTTCGACAGAC-TTCAGAAAGTGATCGGGCGATG-AAAGTTGCACGATA
11139107 AAGCAACGGTAGATCAAAACTATTTGTCCATATGCGAA
64 AAGCAACGGTAGATCAAAACTATTTGTCCATATGCGAA
11139145 TGTGTCATTT
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
102 86 0.95
103 5 0.05
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (102 bp):
GCAAGGAATCGCACGATTTCGACAGACTTCAGAAAGTGATCGGGCGATGAAAGTTGCACGATAAA
GCAACGGTAGATCAAAACTATTTGTCCATATGCGAAC
Found at i:11139203 original size:13 final size:13
Alignment explanation
Indices: 11139185--11139211 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11139175 CGCAAGGAGT
11139185 CGCACGATTTCGA
1 CGCACGATTTCGA
11139198 CGCACGATTTCGA
1 CGCACGATTTCGA
11139211 C
1 C
11139212 AGAAGTTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (13 bp):
CGCACGATTTCGA
Found at i:11139328 original size:145 final size:145
Alignment explanation
Indices: 11139053--11139343 Score: 440
Period size: 145 Copynumber: 2.0 Consensus size: 145
11139043 CGCAAGGAGT
* * **
11139053 CGCATGATTTCGACCGACTTTCGAAAGTGCTCGGGCGATGCAAAGTGCACGATAAAGCAACGGTA
1 CGCACGATTTCGACAGAAGTTCGAAAGTGCTCGGGCGATGCAAAGTGCACGATAAAGCAACGGTA
* * * *
11139118 GATCAAAACTATTTGTCCATATGCGAATGTGTCATTTAAATTTCACATGACAATTTTCGCAAGGA
66 GACCAAAACTATTTGTCCATATGCGAATATATCATTTAAATTTCACATGACAATTCTCGCAAGGA
11139183 GTCGCACGATTTCGA
131 GTCGCACGATTTCGA
* * *
11139198 CGCACGATTTCGACAGAAGTTCGAAAGTGCTCGGGCGATGGAAAGTGCACGATAAAGGAACGGTG
1 CGCACGATTTCGACAGAAGTTCGAAAGTGCTCGGGCGATGCAAAGTGCACGATAAAGCAACGGTA
* * *
11139263 GACCAAAACTATTTGTCCATATGCGAATATATTATTTAAATTTCATC-TGTCAATTCTCGCGAGG
66 GACCAAAACTATTTGTCCATATGCGAATATATCATTTAAATTTCA-CATGACAATTCTCGCAAGG
11139327 AGTCGCACGATTTCGA
130 AGTCGCACGATTTCGA
11139343 C
1 C
11139344 AGACTATCGT
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
145 130 0.99
146 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (145 bp):
CGCACGATTTCGACAGAAGTTCGAAAGTGCTCGGGCGATGCAAAGTGCACGATAAAGCAACGGTA
GACCAAAACTATTTGTCCATATGCGAATATATCATTTAAATTTCACATGACAATTCTCGCAAGGA
GTCGCACGATTTCGA
Found at i:11139734 original size:24 final size:23
Alignment explanation
Indices: 11139673--11139736 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
11139663 GTTTTAATAT
*
11139673 TTTATTAATTGTTTAAAACTTTATA
1 TTTATTAA-T-TTTAAAAATTTATA
*
11139698 TTTATTAGTTTTAAAAATTTATA
1 TTTATTAATTTTAAAAATTTATA
11139721 TTTGA-TAATATTTAAA
1 TTT-ATTAAT-TTTAAA
11139737 TTATTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 19 0.56
24 8 0.24
25 7 0.21
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTATTAATTTTAAAAATTTATA
Found at i:11140155 original size:15 final size:14
Alignment explanation
Indices: 11140135--11140176 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
11140125 AATCATTAAA
11140135 AAAATTATAAATGTT
1 AAAATTATAAAT-TT
11140150 AAAATT-TAAAATTT
1 AAAATTAT-AAATTT
11140164 AAAATTATTAAAT
1 AAAATTA-TAAAT
11140177 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 9 0.38
15 14 0.58
16 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
AAAATTATAAATTT
Found at i:11140967 original size:28 final size:26
Alignment explanation
Indices: 11140910--11140980 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
11140900 TGATTATATA
* *
11140910 AAAATAATCAATATTA-TATATATTTT
1 AAAATAATCAAT-TTATTAGAAATTTT
11140936 AAAATAATCAATTTATTAGAAATCTTT
1 AAAATAATCAATTTATTAGAAAT-TTT
*
11140963 GAAAA-AAACATATTTATT
1 -AAAATAATCA-ATTTATT
11140981 TAATTGTATC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
25 3 0.08
26 17 0.45
27 7 0.18
28 11 0.29
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (26 bp):
AAAATAATCAATTTATTAGAAATTTT
Found at i:11143164 original size:24 final size:23
Alignment explanation
Indices: 11143114--11143164 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
11143104 ATTATTTGTT
* *
11143114 TAAAACTTTATATTTATTAAATT
1 TAAAAATTTATATTTATTAAATC
11143137 TAAAAATTTATATTTGA-TAATATC
1 TAAAAATTTATATTT-ATTAA-ATC
11143161 TAAA
1 TAAA
11143165 TTATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (23 bp):
TAAAAATTTATATTTATTAAATC
Found at i:11144245 original size:20 final size:21
Alignment explanation
Indices: 11144216--11144255 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11144206 TTTTTTTATT
*
11144216 TTTAATATAATTTTAAATATA
1 TTTAATATAAATTTAAATATA
*
11144237 TTTAA-ATAAATTTAGATAT
1 TTTAATATAAATTTAAATAT
11144256 TAAATAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTAATATAAATTTAAATATA
Found at i:11150575 original size:16 final size:16
Alignment explanation
Indices: 11150554--11150584 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11150544 CCAGACCTGC
11150554 TGCAGTTAGTCAAAAT
1 TGCAGTTAGTCAAAAT
11150570 TGCAGTTAGTCAAAA
1 TGCAGTTAGTCAAAA
11150585 ACAGATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (16 bp):
TGCAGTTAGTCAAAAT
Found at i:11153439 original size:6 final size:6
Alignment explanation
Indices: 11153415--11153487 Score: 85
Period size: 6 Copynumber: 12.0 Consensus size: 6
11153405 GCTTTATCTG
* * * *
11153415 AATAAT AA-AATT GAATAAC AATAAC AACAAC AATAAT AATAAT AATAAT
1 AATAAT AATAA-T -AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
11153464 AATAAT AATAAT AATAAT AATAAT
1 AATAAT AATAAT AATAAT AATAAT
11153488 GTTATTTGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
5 2 0.03
6 54 0.90
7 2 0.03
8 2 0.03
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.27
Consensus pattern (6 bp):
AATAAT
Found at i:11153452 original size:3 final size:3
Alignment explanation
Indices: 11153446--11153487 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
11153436 TAACAACAAC
11153446 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11153488 GTTATTTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11153458 original size:9 final size:9
Alignment explanation
Indices: 11153415--11153487 Score: 85
Period size: 9 Copynumber: 8.0 Consensus size: 9
11153405 GCTTTATCTG
11153415 AATAATAA-
1 AATAATAAT
*
11153423 AATTGAATAAC
1 AA-T-AATAAT
* *
11153434 AATAACAAC
1 AATAATAAT
*
11153443 AACAATAAT
1 AATAATAAT
11153452 AATAATAAT
1 AATAATAAT
11153461 AATAATAAT
1 AATAATAAT
11153470 AATAATAAT
1 AATAATAAT
11153479 AATAATAAT
1 AATAATAAT
11153488 GTTATTTGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
8 2 0.04
9 47 0.82
10 6 0.11
11 2 0.04
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.27
Consensus pattern (9 bp):
AATAATAAT
Found at i:11156174 original size:27 final size:30
Alignment explanation
Indices: 11156136--11156202 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 30
11156126 TAATAATTTA
*
11156136 ATAATTTAAATATTATATCAAA-AA-TTTTT
1 ATAATTT-AATATCATATCAAATAATTTTTT
*
11156165 A-AATTTAATATCATATTAAATAATTTTTT
1 ATAATTTAATATCATATCAAATAATTTTTT
11156194 ATAATTTAA
1 ATAATTTAA
11156203 AAACAATTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 12 0.36
28 7 0.21
29 7 0.21
30 7 0.21
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
ATAATTTAATATCATATCAAATAATTTTTT
Found at i:11156675 original size:17 final size:18
Alignment explanation
Indices: 11156644--11156679 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11156634 ATTAGATTTT
*
11156644 TTTATTTTTTATAAAATA
1 TTTAATTTTTATAAAATA
11156662 TTTAATTTTT-TAAAATA
1 TTTAATTTTTATAAAATA
11156679 T
1 T
11156680 CTTTTTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATTTTTATAAAATA
Found at i:11156717 original size:32 final size:31
Alignment explanation
Indices: 11156681--11156760 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
11156671 TTAAAATATC
11156681 TTTTTAAGTTCAAATTAAGTTTGAATT-GAAAT
1 TTTTTAA-TTCAAATT-AGTTTGAATTCGAAAT
* * *
11156713 TTTTTAAAATTTAAATTATTTTGAATTCGAATT
1 TTTTT--AATTCAAATTAGTTTGAATTCGAAAT
11156746 TTTTTACATTCAAAT
1 TTTTTA-ATTCAAAT
11156761 CTTTAACTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
31 1 0.03
32 21 0.52
33 16 0.40
34 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTTTAATTCAAATTAGTTTGAATTCGAAAT
Found at i:11159490 original size:3 final size:3
Alignment explanation
Indices: 11159484--11159528 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
11159474 TTAAAAAAAT
11159484 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11159529 AACTAAAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11160077 original size:102 final size:102
Alignment explanation
Indices: 11159971--11160672 Score: 458
Period size: 102 Copynumber: 6.8 Consensus size: 102
11159961 CAAGTAAAAA
* * * *
11159971 AATAAAGAGATCGGGATTAAACCACCAGTTAGAGGATAACAACAATCGAGATTAAACTGTGATTT
1 AATAAAAAGATCGGGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGACTT
*
11160036 TAAATAAAAGAGATCGGGATTGAACCACGAATCGAAG
66 TAAATTAAAGAGATCGGGATTGAACCACGAATCGAAG
* * * * *
11160073 AATAAAAAGATCGAGATTAAATCGCGAGTCAAAGGATAACAATAATCGAGATTAAACTGTGACTT
1 AATAAAAAGATCGGGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGACTT
* *
11160138 TGAATTAAAGAGATCGGGATTGAACCTCGAATCGAAG
66 TAAATTAAAGAGATCGGGATTGAACCACGAATCGAAG
** * * * * ** * * * **
11160175 AATAATGAGATCGGAATTAAATCGCGAGTCAAAAAATTA-AA-GATGACTGAGACTAAACTGCAA
1 AATAAAAAGATCGGGATTAAACCACGAGTCAGAGGATAACAACAAT--C-GAGATTAAACTGTGA
* ** * * * * *
11160238 GTCAGAGAATTAATGAAATGATCGAGATTAAACCACGAGTC-AAA
63 CT-TTA-AATTAA--AGA-GATCGGGATTGAACCACGAATCGAAG
* * * *** * ** * * *
11160282 AGATAAAAACAATCGAGACTAAACTGTGACTTTGA-GTTAA-AGA-GATCGAGATTGAA-TCGTG
1 A-ATAAAAA-GATCGGGATTAAACCACGAGTCAGAGGATAACA-ACAATCGAGATTAAACT-GTG
* * * * * * ** *
11160343 A-ATCAAA-GAATGTTA-ACTCGGG-TTGAATCA-TAAGTAAAAA
62 ACTTTAAATTAAAG--AGA-TCGGGATTGAACCACGAA-TCGAAG
** * * * *
11160383 AATAAAGGGACCAGGATTAAACCACGAGTCAGAGAATAACAAC-ATCGAGATTAAACTGCGACTT
1 AATAAAAAGATCGGGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGACTT
* * * *
11160447 TGAATTAAAGTGATCGGGATTAAACCATGAATCGAAG
66 TAAATTAAAGAGATCGGGATTGAACCACGAATCGAAG
** * * *
11160484 AATAAAAAGATCGGGATTAAATTACGAGTCAAAGGATAACAACAATCGAGATTCAACTGCGACTT
1 AATAAAAAGATCGGGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGACTT
* * ** *
11160549 TGAATTAAAGTGATTAGGATTGAACCGCGAATCGAAG
66 TAAATTAAAGAGATCGGGATTGAACCACGAATCGAAG
* * * *
11160586 AATAAAAAGATCGAGATTAAACCATGAGTCAGAAGATAACAACAATCGAGATTAAAACTGTGATT
1 AATAAAAAGATCGGGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATT-AAACTGTGACT
11160651 TTAAATTAAAGAGATCGGGATT
65 TTAAATTAAAGAGATCGGGATT
11160673 AAACAGTGAA
Statistics
Matches: 451, Mismatches: 121, Indels: 55
0.72 0.19 0.09
Matches are distributed among these distances:
99 15 0.03
100 38 0.08
101 60 0.13
102 230 0.51
103 41 0.09
104 1 0.00
105 7 0.02
106 9 0.02
107 6 0.01
108 26 0.06
109 18 0.04
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (102 bp):
AATAAAAAGATCGGGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGACTT
TAAATTAAAGAGATCGGGATTGAACCACGAATCGAAG
Found at i:11160867 original size:33 final size:34
Alignment explanation
Indices: 11160830--11160894 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
11160820 TTTTAAATTA
*
11160830 AAAAGATCGGGATTGAACCGCGAATC-GAAAAAT
1 AAAAGATCGGGATTAAACCGCGAATCAGAAAAAT
* * *
11160863 AAAAGATTGGGATTAAATCGCGAGTCAGAAAA
1 AAAAGATCGGGATTAAACCGCGAATCAGAAAA
11160895 TGACGTTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 22 0.81
34 5 0.19
ACGTcount: A:0.46, C:0.12, G:0.25, T:0.17
Consensus pattern (34 bp):
AAAAGATCGGGATTAAACCGCGAATCAGAAAAAT
Found at i:11160986 original size:170 final size:171
Alignment explanation
Indices: 11160586--11161051 Score: 588
Period size: 171 Copynumber: 2.7 Consensus size: 171
11160576 CGAATCGAAG
* *
11160586 AATAAAA-AGATC-GAGATTAAACCATGAGTCAGAAGATAACAACAATCGAGATTAAAACTGTGA
1 AATAAAAGAGATCAG-GATTAAACCACGAGTCAGAAGATAACAACAATCGAGATT-AAACTATGA
* * * * *
11160649 TTTTAAATTAAAGAGATCGGGATTAAACAGTGAATCAGAGAATAAAGAGATCGAAATTAAATCGT
64 TTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCAGAAAATAAAGAGATCGAAATTAAATCGC
11160714 GTATCAAAAATGACGTTAACTTGGATTGAATCACAAGTAAGAA
129 GTATCAAAAATGACGTTAACTTGGATTGAATCACAAGTAAGAA
* * *
11160757 AATAAAAGAGATCAGGATTAAACCACAAGTCAAAAAATAACAACAATCGAGATTAAACTATGATT
1 AATAAAAGAGATCAGGATTAAACCACGAGTCAGAAGATAACAACAATCGAGATTAAACTATGATT
* * **
11160822 TTAAATTAAAAAGATCGGGATTGAACCGCGAATC-GAAAAATAAA-AGATTGGGATTAAATCGCG
66 TTAAATTAAAGAGATCGGGATTGAACCGCGAATCAG-AAAATAAAGAGATCGAAATTAAATCGCG
11160885 -AGTCAGAAAATGACGTTAACTTGGATTGAATCACAAGTCAA-AA
130 TA-TCA-AAAATGACGTTAACTTGGATTGAATCACAAGT-AAGAA
* * * * *
11160928 AAT-AAAGAGA-CTGGGATTAAACTACGAGTCAGAGGTTAACAACAATCGAGATTAAACTATAAT
1 AATAAAAGAGATC-AGGATTAAACCACGAGTCAGAAGATAACAACAATCGAGATTAAACTATGA-
* * * * *
11160991 TTTTAAATTAAAGAGATCGAGATTGAACCACGAATCAGAGAATAAAGAGACCGAGATTAAA
64 TTTTAAATTAAAGAGATCGGGATTGAACCGCGAATCAGAAAATAAAGAGATCGAAATTAAA
11161052 CCATGAATCA
Statistics
Matches: 256, Mismatches: 29, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
169 2 0.01
170 68 0.27
171 131 0.51
172 54 0.21
173 1 0.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (171 bp):
AATAAAAGAGATCAGGATTAAACCACGAGTCAGAAGATAACAACAATCGAGATTAAACTATGATT
TTAAATTAAAGAGATCGGGATTGAACCGCGAATCAGAAAATAAAGAGATCGAAATTAAATCGCGT
ATCAAAAATGACGTTAACTTGGATTGAATCACAAGTAAGAA
Found at i:11161037 original size:34 final size:34
Alignment explanation
Indices: 11160999--11161066 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
11160989 ATTTTTAAAT
* *
11160999 TAAAGAGATCGAGATTGAACCACGAATCAGAGAA
1 TAAAGAGACCGAGATTAAACCACGAATCAGAGAA
*
11161033 TAAAGAGACCGAGATTAAACCATGAATCAGAGAA
1 TAAAGAGACCGAGATTAAACCACGAATCAGAGAA
11161067 ATAATGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.49, C:0.15, G:0.22, T:0.15
Consensus pattern (34 bp):
TAAAGAGACCGAGATTAAACCACGAATCAGAGAA
Found at i:11161088 original size:38 final size:34
Alignment explanation
Indices: 11160999--11161093 Score: 91
Period size: 34 Copynumber: 2.7 Consensus size: 34
11160989 ATTTTTAAAT
* * *
11160999 TAAAGAGATCGAGATTGAACCACGAATCAGAGAA
1 TAAAAAGACCGAGATTAAACCACGAATCAGAGAA
* *
11161033 TAAAGAGACCGAGATTAAACCATGAATCAGAGAAA
1 TAAAAAGACCGAGATTAAACCACGAATCAGAG-AA
* *
11161068 TAATGAAATGACCGGGATTAAGCCAC
1 TAA--AAA-GACCGAGATTAAACCAC
11161094 AAGCCAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
34 29 0.58
35 5 0.10
37 2 0.04
38 14 0.28
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (34 bp):
TAAAAAGACCGAGATTAAACCACGAATCAGAGAA
Found at i:11164284 original size:25 final size:25
Alignment explanation
Indices: 11164256--11164309 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
11164246 CTGGGAGTGA
*
11164256 GAAAAATTTTT-TAGAAATTTTTGG
1 GAAAAATTTTTCTAGAAATTTCTGG
*
11164280 CGAAAAATTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTTCTAGAAATTTCTGG
11164306 GAAA
1 GAAA
11164310 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.39
Consensus pattern (25 bp):
GAAAAATTTTTCTAGAAATTTCTGG
Found at i:11164354 original size:32 final size:32
Alignment explanation
Indices: 11164318--11164390 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
11164308 AATTTCCAGA
*
11164318 TTCCGACGAAAATTCCGGCGAAGTTTTGAATT
1 TTCCGACGAAAATTCCGGCGAAGTTTTGAAGT
*
11164350 TTCCGGCGAAAATTCCGGCGAAGTTTTGAAGT
1 TTCCGACGAAAATTCCGGCGAAGTTTTGAAGT
11164382 TTCCGACGA
1 TTCCGACGA
11164391 CCTGCCCAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (32 bp):
TTCCGACGAAAATTCCGGCGAAGTTTTGAAGT
Found at i:11164486 original size:20 final size:20
Alignment explanation
Indices: 11164451--11164488 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11164441 ACTTCCGGTG
* *
11164451 AAATTTCCAGATTCCGACGA
1 AAATTTCCAAAATCCGACGA
11164471 AAATTTCCAAAATCCGAC
1 AAATTTCCAAAATCCGAC
11164489 ACCGGTGTTC
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:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (20 bp):
AAATTTCCAAAATCCGACGA
Found at i:11165153 original size:61 final size:59
Alignment explanation
Indices: 11164878--11165279 Score: 505
Period size: 57 Copynumber: 6.8 Consensus size: 59
11164868 AAATAAAAAA
*
11164878 TTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCC-AAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * *
11164939 TTCC--AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAAA
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
11164996 TTCC--AAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* ** *
11165053 TTTCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 TTCCAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
11165115 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *** *
11165174 TTTCAAAAAAAGGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 TTCCAAAAAAA--ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
* *
11165237 TTTC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
11165280 TCCTACAAAA
Statistics
Matches: 302, Mismatches: 27, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
57 100 0.33
58 5 0.02
59 49 0.16
60 39 0.13
61 85 0.28
62 16 0.05
63 8 0.03
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (59 bp):
TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:11166767 original size:9 final size:9
Alignment explanation
Indices: 11166743--11166784 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
11166733 CAATTTGTCC
*
11166743 TGTATTATTT
1 TGTATT-TTA
11166753 TGTATTTTA
1 TGTATTTTA
11166762 TGTATTTTA
1 TGTATTTTA
11166771 TGTATTTTA
1 TGTATTTTA
11166780 T-TATT
1 TGTATT
11166785 ATGTATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 4 0.13
9 21 0.68
10 6 0.19
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (9 bp):
TGTATTTTA
Found at i:11166776 original size:18 final size:19
Alignment explanation
Indices: 11166743--11166796 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
11166733 CAATTTGTCC
*
11166743 TGTATTATTTTGTATTTTA
1 TGTATTATTATGTATTTTA
11166762 TGTATT-TTATGTATTTTA
1 TGTATTATTATGTATTTTA
*
11166780 T-TATTATGTATATATTT
1 TGTATTAT-TATGTATTT
11166797 ATTTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 4 0.13
18 13 0.42
19 14 0.45
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (19 bp):
TGTATTATTATGTATTTTA
Found at i:11167327 original size:32 final size:32
Alignment explanation
Indices: 11167277--11167349 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
11167267 AATTTCCAGA
*
11167277 TTCCGGCG-AAATTCCGGCGAAGTTTTGAATT
1 TTCCGGCGAAAATTCCGGCGAAGTTTTGAAGT
* *
11167308 TTCCGACGAAAATTTCGGCGAAGTTTTGAAGT
1 TTCCGGCGAAAATTCCGGCGAAGTTTTGAAGT
11167340 TTCCGGCGAA
1 TTCCGGCGAA
11167350 CCTGCCCAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 7 0.19
32 30 0.81
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (32 bp):
TTCCGGCGAAAATTCCGGCGAAGTTTTGAAGT
Found at i:11167434 original size:20 final size:20
Alignment explanation
Indices: 11167409--11167446 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11167399 ACTTCCGGTG
*
11167409 AAATTTCCAGATTCCGGCGA
1 AAATTTCCAGAATCCGGCGA
11167429 AAATTTCCAGAATCCGGC
1 AAATTTCCAGAATCCGGC
11167447 ACCGGTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
AAATTTCCAGAATCCGGCGA
Found at i:11167982 original size:116 final size:118
Alignment explanation
Indices: 11167845--11168304 Score: 673
Period size: 116 Copynumber: 3.9 Consensus size: 118
11167835 AAAAAAATTC
*
11167845 CAAAAAAAATATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTCC
1 CAAAAAAAA-AGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTTCC
*
11167907 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAA-TTT
63 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
* *
11167962 CAAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAAATTCCA
1 CAAAAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTTCCA
*
11168024 AAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
64 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
* *
11168079 CAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCCAA
1 CAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTCC--
11168144 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
63 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
** * *
11168200 CAAAAAAAGGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTTCA
1 CAAAAAAA-AAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTCCA
*
11168265 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
64 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
11168305 CTACAAAAAA
Statistics
Matches: 324, Mismatches: 11, Indels: 13
0.93 0.03 0.04
Matches are distributed among these distances:
116 101 0.31
117 58 0.18
118 2 0.01
119 7 0.02
120 40 0.12
121 63 0.19
122 53 0.16
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (118 bp):
CAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCCAAA
AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
Found at i:11167999 original size:59 final size:59
Alignment explanation
Indices: 11167839--11168304 Score: 585
Period size: 57 Copynumber: 7.9 Consensus size: 59
11167829 AAAAATAAAA
*
11167839 AAATTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCAAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * *
11167899 AAATTTC--CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
11167956 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * * *
11168015 AAAATTC--CAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
***
11168072 AAATTTTCAAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 AAA-TTTCAAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
* *
11168132 CGAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 --AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
****
11168193 AAATTTTCAAAAAAAGGGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 AAA-TTTCAAAAAAA-AATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
11168254 CGAAATTTTC---AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 --AAA-TTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
11168305 CTACAAAAAA
Statistics
Matches: 359, Mismatches: 29, Indels: 37
0.84 0.07 0.09
Matches are distributed among these distances:
57 99 0.28
58 8 0.02
59 89 0.25
60 65 0.18
61 85 0.24
62 5 0.01
63 8 0.02
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (59 bp):
AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:11168176 original size:61 final size:59
Alignment explanation
Indices: 11167842--11168304 Score: 618
Period size: 59 Copynumber: 7.8 Consensus size: 59
11167832 AATAAAAAAA
*
11167842 TTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCC-AAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
11167903 TTCC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * *
11167960 TTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAA
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
11168019 TTCC--AAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* ** *
11168076 TTTCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 TTCCAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
11168138 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *** *
11168197 TTTCAAAAAAAGGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 TTCCAAAAAAA--ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
* *
11168260 TTTC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
11168305 CTACAAAAAA
Statistics
Matches: 359, Mismatches: 29, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
57 102 0.28
58 5 0.01
59 104 0.29
60 39 0.11
61 85 0.24
62 16 0.04
63 8 0.02
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.34
Consensus pattern (59 bp):
TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:11179082 original size:110 final size:110
Alignment explanation
Indices: 11178889--11179114 Score: 371
Period size: 110 Copynumber: 2.1 Consensus size: 110
11178879 AAATCCTCAT
* * *
11178889 CATCTAGGCGGACTTTCGGAGCAAGTTTAATTTTTTATAATTTTTGAAAACTAATTAAAAAATTC
1 CATCTAAGCGGACTTTCGAAGCAAGTTCAATTTTTTATAATTTTTGAAAACTAATTAAAAAATTC
11178954 TTATATATTTCTGTTTATGAAAATTTATTAATAATAATTCTCCAA
66 TTATATATTTCTGTTTATGAAAATTTATTAATAATAATTCTCCAA
* **
11178999 CATCTAAGTGGACTTTCGAAGCAAGTTCAATTTTTTATAATTTTTGAAAACTAATTAAAATTTTC
1 CATCTAAGCGGACTTTCGAAGCAAGTTCAATTTTTTATAATTTTTGAAAACTAATTAAAAAATTC
* *
11179064 TTATATATTTCTTTTTATGAAAATTTATTAATAATAATTCTTCAA
66 TTATATATTTCTGTTTATGAAAATTTATTAATAATAATTCTCCAA
*
11179109 TATCTA
1 CATCTA
11179115 GGTGAAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (110 bp):
CATCTAAGCGGACTTTCGAAGCAAGTTCAATTTTTTATAATTTTTGAAAACTAATTAAAAAATTC
TTATATATTTCTGTTTATGAAAATTTATTAATAATAATTCTCCAA
Found at i:11180389 original size:18 final size:17
Alignment explanation
Indices: 11180366--11180410 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
11180356 ATTTCTCTTC
*
11180366 TTTTTTTTAATTATTGA
1 TTTTTTTTAATTATTAA
11180383 TTTTTTTTAATTATTATA
1 TTTTTTTTAATTATTA-A
*
11180401 TATTTTTTAA
1 TTTTTTTTAA
11180411 AAAATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTTTTTAATTATTAA
Found at i:11180424 original size:3 final size:3
Alignment explanation
Indices: 11180416--11180442 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11180406 TTTAAAAAAT
11180416 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
11180443 AACTAAAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11180959 original size:2 final size:2
Alignment explanation
Indices: 11180952--11180981 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11180942 AAAAGATGGA
11180952 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11180982 GCTTTTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:11182901 original size:11 final size:11
Alignment explanation
Indices: 11182885--11182926 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
11182875 AATCCAATAA
11182885 GAGATTTGTTT
1 GAGATTTGTTT
*
11182896 GAGATTTGTTA
1 GAGATTTGTTT
11182907 GAGATTTGTTT
1 GAGATTTGTTT
11182918 GAGATTTGT
1 GAGATTTGT
11182927 CAGATATTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:11182912 original size:22 final size:22
Alignment explanation
Indices: 11182884--11182926 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11182874 AAATCCAATA
11182884 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
11182906 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
11182927 CAGATATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:11183004 original size:52 final size:52
Alignment explanation
Indices: 11182946--11183093 Score: 167
Period size: 52 Copynumber: 2.8 Consensus size: 52
11182936 CTTGATAGAC
* * **
11182946 AAGAAGAATTCTAAGAGAAAATAGATTCTTAATAGGTAAGTTTGACTTGTA-
1 AAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGTAAGTTTAACTTACAG
* *
11182997 ATAGAAGAATTCTAA-AAAACAAAAGATTCTTAATAGGCAAGTTTAACTTACAG
1 A-AGAAGAATTCTAAGAGAA-AAAAGATTCTTAATAGGTAAGTTTAACTTACAG
* * *
11183050 AAGAAGAATTCTAAGAGGAGAGAGATTCTTAAT-GGATAAGTTTA
1 AAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGG-TAAGTTTA
11183094 TATGGTTATA
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
51 6 0.07
52 72 0.89
53 3 0.04
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.28
Consensus pattern (52 bp):
AAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGTAAGTTTAACTTACAG
Found at i:11183997 original size:11 final size:11
Alignment explanation
Indices: 11183968--11183998 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11183958 AATCCAATAA
*
11183968 GAGATTTATTT
1 GAGATTTGTTT
11183979 GAGATTTGTTT
1 GAGATTTGTTT
11183990 GAGATTTGT
1 GAGATTTGT
11183999 CAGATATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:11184112 original size:52 final size:53
Alignment explanation
Indices: 11184024--11184149 Score: 139
Period size: 52 Copynumber: 2.4 Consensus size: 53
11184014 GGACAAGAAG
* * * * * *
11184024 ACTTACAAAAAAAGAATTGT-AAGAGAAAATAAATTCTTAATAGATAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAAAAGAAAATAAATTCTTAATAGACAAGTTTA
* * * *
11184076 ACTTGCAATAGAAGAATTCTAAAAAGAAAA-AGATTCTTAATAGGCAAGTTTA
1 ACTTACAAGAGAAGAATTCTAAAAAGAAAATAAATTCTTAATAGACAAGTTTA
*
11184128 ACTTACAGGAGAAGAATTCTAA
1 ACTTACAAGAGAAGAATTCTAA
11184150 GAGGAGAGGA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 53 0.87
53 8 0.13
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (53 bp):
ACTTACAAGAGAAGAATTCTAAAAAGAAAATAAATTCTTAATAGACAAGTTTA
Found at i:11184176 original size:52 final size:51
Alignment explanation
Indices: 11184054--11184178 Score: 126
Period size: 52 Copynumber: 2.4 Consensus size: 51
11184044 AAGAGAAAAT
* * * * *
11184054 AAATTCTTAATAGATAAGTTTGACTTGCAATAGAAGAATTCTAAAAAGAAA
1 AAATTCTTAATGGACAAGTTTAACTTACAAGAGAAGAATTCTAAAAAGAAA
* * * *
11184105 AAGATTCTTAATAGG-CAAGTTTAACTTACAGGAGAAGAATTCTAAGAGGAGAG
1 AA-ATTCTTAAT-GGACAAGTTTAACTTACAAGAGAAGAATTCTAAAAAGA-AA
*
11184158 GAATTCTTAATGGACAAGTTT
1 AAATTCTTAATGGACAAGTTT
11184179 GTATGGTTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
51 4 0.07
52 53 0.88
53 3 0.05
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (51 bp):
AAATTCTTAATGGACAAGTTTAACTTACAAGAGAAGAATTCTAAAAAGAAA
Found at i:11184810 original size:50 final size:48
Alignment explanation
Indices: 11184735--11184836 Score: 125
Period size: 50 Copynumber: 2.1 Consensus size: 48
11184725 GAAACGTAAG
* * *
11184735 AAGAGTTGAAGATTCAAGATGTGGGAAGAGCCGATGGTTTGAGACATTGA
1 AAGAGTTGAAGATTCAAGATATGGGAAGAG-C-ATGGTTTAAGACATGGA
* *
11184785 AAGAGTTGACAG-TTCGAGATATGGGAAGAGCTTGGTTTAAGACATGGA
1 AAGAGTTGA-AGATTCAAGATATGGGAAGAGCATGGTTTAAGACATGGA
11184833 AAGA
1 AAGA
11184837 AATAAGCTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
48 18 0.39
49 1 0.02
50 25 0.54
51 2 0.04
ACGTcount: A:0.35, C:0.08, G:0.33, T:0.24
Consensus pattern (48 bp):
AAGAGTTGAAGATTCAAGATATGGGAAGAGCATGGTTTAAGACATGGA
Found at i:11185239 original size:52 final size:52
Alignment explanation
Indices: 11185110--11185253 Score: 155
Period size: 52 Copynumber: 2.8 Consensus size: 52
11185100 CTTACAAAAG
* * * * *
11185110 AAGAATTCT-AAGAGAAAATAGATTCTTAATAGGTAAGTTTGACTTGCAGTAA
1 AAGAATTCTAAAAAGAAAA-AGATTCTTAATAGGCAAGTTTAACTTACAGGAA
* * *
11185162 AAGAATTCTAAAAAGAAAAAAATTCTTACTAGGCAAGTTTAACTTACAGGAG
1 AAGAATTCTAAAAAGAAAAAGATTCTTAATAGGCAAGTTTAACTTACAGGAA
* * ** *
11185214 AAGAATTCTAAAAGGAGAGGGATTCTTAATGGGCAAGTTT
1 AAGAATTCTAAAAAGAAAAAGATTCTTAATAGGCAAGTTT
11185254 GTATGGTTAT
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
52 68 0.89
53 8 0.11
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (52 bp):
AAGAATTCTAAAAAGAAAAAGATTCTTAATAGGCAAGTTTAACTTACAGGAA
Found at i:11187680 original size:30 final size:29
Alignment explanation
Indices: 11187645--11187717 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
11187635 TTGAAATAGA
* *
11187645 TTAGGGTTTTGATTTTACAGTTTGAAGATT
1 TTAGGGTTTTGATTTTAAAATTTG-AGATT
* * *
11187675 TTAGGGTTTCGGTTTTAAAATTTGAGGTT
1 TTAGGGTTTTGATTTTAAAATTTGAGATT
*
11187704 TGA-GGTTTTGATTT
1 TTAGGGTTTTGATTT
11187718 AAGGGGTTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
28 9 0.26
29 6 0.17
30 20 0.57
ACGTcount: A:0.21, C:0.03, G:0.26, T:0.51
Consensus pattern (29 bp):
TTAGGGTTTTGATTTTAAAATTTGAGATT
Found at i:11187739 original size:16 final size:16
Alignment explanation
Indices: 11187715--11187748 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11187705 GAGGTTTTGA
11187715 TTTAAGGGGTTTGAAT
1 TTTAAGGGGTTTGAAT
* *
11187731 TTTAGGGGGTTTGGAT
1 TTTAAGGGGTTTGAAT
11187747 TT
1 TT
11187749 AAGAGTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (16 bp):
TTTAAGGGGTTTGAAT
Found at i:11187799 original size:15 final size:15
Alignment explanation
Indices: 11187769--11187852 Score: 78
Period size: 15 Copynumber: 5.3 Consensus size: 15
11187759 AGGTTTGGGA
11187769 TTTTGGATTTTGAGGG
1 TTTTGGATTTT-AGGG
11187785 TTTTGGATTTTAGGG
1 TTTTGGATTTTAGGG
* * *
11187800 GTTTGGATTTAAGGAA
1 TTTTGGATTTTAGG-G
11187816 TTTTGGATTTTTAGGGG
1 TTTTGGA-TTTTA-GGG
* * *
11187833 TTTCGAATTTTAGGA
1 TTTTGGATTTTAGGG
11187848 TTTTG
1 TTTTG
11187853 AAAATTAAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
15 22 0.40
16 22 0.40
17 9 0.16
18 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (15 bp):
TTTTGGATTTTAGGG
Found at i:11187801 original size:61 final size:60
Alignment explanation
Indices: 11187699--11187812 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 60
11187689 TTAAAATTTG
11187699 AGGTTTGAGGTTTTGATTTAAGGGGTTTGAATTTTAGGGGGTTTGGATTTAAGAGTTTAA
1 AGGTTTGAGGTTTTGATTTAAGGGGTTTGAATTTTAGGGGGTTTGGATTTAAGAGTTTAA
* * *
11187759 AGGTTTG-GGATTTTGGATTTTGAGGGTTTTGGATTTTA-GGGGTTTGGATTTAAG
1 AGGTTTGAGG-TTTT-GA-TTTAAGGGGTTTGAATTTTAGGGGGTTTGGATTTAAG
11187813 GAATTTTGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
59 2 0.04
60 11 0.23
61 18 0.38
62 17 0.35
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (60 bp):
AGGTTTGAGGTTTTGATTTAAGGGGTTTGAATTTTAGGGGGTTTGGATTTAAGAGTTTAA
Found at i:11187808 original size:31 final size:31
Alignment explanation
Indices: 11187770--11187852 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 31
11187760 GGTTTGGGAT
*
11187770 TTTGGATTTTGAGGGTTTTGGA-TTTTAGGGG
1 TTTGGATTTT-AGGATTTTGGATTTTTAGGGG
*
11187801 TTTGGATTTAAGGAATTTTGGATTTTTAGGGG
1 TTTGGATTTTAGG-ATTTTGGATTTTTAGGGG
*
11187833 TTTCGAATTTTAGGATTTTG
1 TTT-GGATTTTAGGATTTTG
11187853 AAAATTAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
30 3 0.07
31 16 0.36
32 18 0.40
33 8 0.18
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.49
Consensus pattern (31 bp):
TTTGGATTTTAGGATTTTGGATTTTTAGGGG
Found at i:11188117 original size:3 final size:3
Alignment explanation
Indices: 11188111--11188152 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
11188101 ATAATAATTC
11188111 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11188153 CTTTAGCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11190182 original size:131 final size:130
Alignment explanation
Indices: 11189905--11190150 Score: 325
Period size: 131 Copynumber: 1.9 Consensus size: 130
11189895 GCACGAAACT
* * *
11189905 GCAACGGTAGACCAAAACTATTTGACCATGTGCGAATATGTGATTTAAATTTCACCTGTCAATTT
1 GCAACGATAAACCAAAACTATTTGACCATATGCGAATATGTGATTTAAATTTCACCTGTCAATTT
* * * *
11189970 TCGCAGGGAGTGGCACGATTTCGACAGACTGTCGCAAGTGCTCGGGCGATGGAAAGTGCACGATG
66 TCGCAAGGAGTCGCACGATTTCGACAGACTGTCGCAAGTGCTCGCGCGAT-GAAAG-CCACGATG
11190035 AA
129 AA
* * * *
11190037 GCAACGGTAGACCAAAACTATTTGTCCATATGCGAATATGTTG-TTTAAA-TTCATCTGTCAATT
1 GCAACGATAAACCAAAACTATTTGACCATATGCGAATATG-TGATTTAAATTTCACCTGTCAATT
* * *
11190100 TTCGCAAGGAGTCGCACGATTTCGACAGACTTTCGTACGTGCTCGCGCGAT
65 TTCGCAAGGAGTCGCACGATTTCGACAGACTGTCGCAAGTGCTCGCGCGAT
11190151 AAACCAACGG
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
131 58 0.56
132 44 0.42
133 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (130 bp):
GCAACGATAAACCAAAACTATTTGACCATATGCGAATATGTGATTTAAATTTCACCTGTCAATTT
TCGCAAGGAGTCGCACGATTTCGACAGACTGTCGCAAGTGCTCGCGCGATGAAAGCCACGATGAA
Found at i:11190484 original size:25 final size:23
Alignment explanation
Indices: 11190454--11190499 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
11190444 GTTTTAATAT
*
11190454 TTTATTAATTATTTAAAACTTTATA
1 TTTATT-ATT-TTTAAAAATTTATA
11190479 TTTATTATTTTTAAAAATTTA
1 TTTATTATTTTTAAAAATTTA
11190500 CTTTTGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 3 0.15
25 6 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTATTATTTTTAAAAATTTATA
Found at i:11190515 original size:24 final size:23
Alignment explanation
Indices: 11190454--11190517 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
11190444 GTTTTAATAT
*
11190454 TTTATTAATTATTTAAAACTTTATA
1 TTTA-TAA-TATTTAAAAATTTATA
* *
11190479 TTTATTATTTTTAAAAATTTACT-
1 TTTATAATATTTAAAAATTTA-TA
11190502 TTTGATAATATTTAAA
1 TTT-ATAATATTTAAA
11190518 TTATTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 15 0.47
24 13 0.41
25 4 0.12
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATAATATTTAAAAATTTATA
Found at i:11193055 original size:29 final size:30
Alignment explanation
Indices: 11193017--11193153 Score: 108
Period size: 29 Copynumber: 4.7 Consensus size: 30
11193007 TCGAATTTTA
11193017 TTATTT-TATTTAAATAAATTTTT-ATATT
1 TTATTTATATTTAAATAAATTTTTAATATT
* * *
11193045 TT-TATTATATTTAAATAAAATTTTAATCTG
1 TTAT-TTATATTTAAATAAATTTTTAATATT
* * *
11193075 TAATTTGTATTT-AA-AAATCATTTAATATT
1 TTATTTATATTTAAATAAAT-TTTTAATATT
* * *
11193104 TAACTTATATTTAAA-AAATTTCTGAAT-TT
1 TTATTTATATTTAAATAAATTT-TTAATATT
11193133 TTAATTTATATTTAAATAAAT
1 TT-ATTTATATTTAAATAAAT
11193154 CTTAAACAGT
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
27 1 0.01
28 7 0.08
29 39 0.46
30 33 0.39
31 5 0.06
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (30 bp):
TTATTTATATTTAAATAAATTTTTAATATT
Found at i:11193086 original size:59 final size:60
Alignment explanation
Indices: 11193019--11193154 Score: 142
Period size: 59 Copynumber: 2.3 Consensus size: 60
11193009 GAATTTTATT
* *
11193019 ATTTTATTTAAATAAAT--TTTTATATTTTTA-TTATATTTAAATAAAATTT-T-AATCTGTA
1 ATTTTATTTAAATAAATCATTTAATA-TTTAACTTATATTT-AA-AAAATTTCTGAATCTGTA
* *
11193077 ATTTGTATTT-AA-AAATCATTTAATATTTAACTTATATTTAAAAAATTTCTGAATTTTTA
1 ATTT-TATTTAAATAAATCATTTAATATTTAACTTATATTTAAAAAATTTCTGAATCTGTA
11193136 ATTTATATTTAAATAAATC
1 ATTT-TATTTAAATAAATC
11193155 TTAAACAGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
57 11 0.17
58 13 0.20
59 34 0.52
60 2 0.03
61 5 0.08
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (60 bp):
ATTTTATTTAAATAAATCATTTAATATTTAACTTATATTTAAAAAATTTCTGAATCTGTA
Found at i:11193577 original size:13 final size:14
Alignment explanation
Indices: 11193551--11193579 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11193541 TATACTTACA
11193551 TAATTATAATATTT
1 TAATTATAATATTT
11193565 TAATTAT-ATATTT
1 TAATTATAATATTT
11193578 TA
1 TA
11193580 TTTGGATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:11205060 original size:2 final size:2
Alignment explanation
Indices: 11205053--11205079 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11205043 AAATCAACTT
11205053 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 T
11205080 CTGAAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11205222 original size:24 final size:22
Alignment explanation
Indices: 11205161--11205206 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
11205151 AAAAATAAAA
*
11205161 GAAAA-AAAGGTGGAAGAGAGTT
1 GAAAAGAAA-GTGAAAGAGAGTT
11205183 GAAAAGAAAGTGAAAGAGAGTT
1 GAAAAGAAAGTGAAAGAGAGTT
11205205 GA
1 GA
11205207 TAGAAGAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.35, T:0.13
Consensus pattern (22 bp):
GAAAAGAAAGTGAAAGAGAGTT
Found at i:11207453 original size:20 final size:21
Alignment explanation
Indices: 11207424--11207463 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11207414 TATTTTGGTA
*
11207424 TTATTATT-AAGTTTATTTTT
1 TTATTATTAAAGTTCATTTTT
*
11207444 TTATTTTTAAAGTTCATTTT
1 TTATTATTAAAGTTCATTTT
11207464 AAAAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATTATTAAAGTTCATTTTT
Found at i:11208784 original size:6 final size:6
Alignment explanation
Indices: 11208773--11208810 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
11208763 AGAATAGGAT
11208773 AAAGAC AAAGAC AAAGAC AAAGAC AAAGAC AAAGAC AA
1 AAAGAC AAAGAC AAAGAC AAAGAC AAAGAC AAAGAC AA
11208811 CAATTTTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.68, C:0.16, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAC
Found at i:11209035 original size:50 final size:49
Alignment explanation
Indices: 11208926--11209488 Score: 538
Period size: 47 Copynumber: 11.6 Consensus size: 49
11208916 CTTCTCATTT
* * * *
11208926 GAGGCTCAACAACTTTTGAAAATTTAAAATC-TGAAAAAGACTTCTATCAGCA
1 GAGGCTCAACAAC-TTTAAAAATTT--CATCTTGAAAAAG-CTCCTCTCAGCA
* *
11208978 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAATGGCTCCTCTCAGTA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAA-AGCTCCTCTCAGCA
* *
11209028 GAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGACTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAG-CTCCTCTCAGCA
* * * * * *
11209078 AAAGCTCAACGACTTTAAAAATTTCATC-TGAAAAAGCTCATCTTAACA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGCA
* * * * * *
11209126 GAGGCTTAACAATTTTTAAAATCTT-ATCTTGAAAAAGCTCATATCAGTA
1 GAGGCTCAACAACTTTAAAAAT-TTCATCTTGAAAAAGCTCCTCTCAGCA
* * * *** * * *
11209175 AAGGTTCAATAACTTTAAAAGCCTCATCTTGAAAAGGGCTCCTTTTAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAA-AGCTCCTCTCAGCA
** *
11209225 GAAACTCAACAACTTT-AAAA-TCCATCTTGAAAAAGCTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGCA
* * * * *
11209272 GAGGCTCAACAACTTT-AAAATTT-TTTTTAAAAAAACTCCTCTCAACA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGCA
* * ** *
11209319 TAGGCTCAATAACTTTAAAAA-TTC-TCTTGAAAAAGCTTATCTCAACA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGCA
*
11209366 GAGGCTCAACAACTTT-AAAATCT-ATCTTGAAAAAGCTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGCA
* * *
11209413 AAGGCTCAACAACTTTAAAAATCTT-ATCTTGAAGAAGCTCCTCTCAACA
1 GAGGCTCAACAACTTTAAAAAT-TTCATCTTGAAAAAGCTCCTCTCAGCA
*
11209462 GAGGCTCAACAACTTTAAAAATCTCAT
1 GAGGCTCAACAACTTTAAAAATTTCAT
11209489 ATGTTCTTCA
Statistics
Matches: 418, Mismatches: 78, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
46 4 0.01
47 132 0.32
48 51 0.12
49 103 0.25
50 104 0.25
51 11 0.03
52 13 0.03
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (49 bp):
GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGCA
Found at i:11230038 original size:19 final size:20
Alignment explanation
Indices: 11230004--11230056 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
11229994 TATATTCTCT
*
11230004 TTATTTTTTGAAATATCTAAAA
1 TTATTTTTT-ATAT-TCTAAAA
*
11230026 CTT-TTTTTTATATTTTAAAA
1 -TTATTTTTTATATTCTAAAA
11230046 TTATTTTTTAT
1 TTATTTTTTAT
11230057 GATTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.07
20 14 0.52
21 3 0.11
22 6 0.22
23 2 0.07
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATTTTTTATATTCTAAAA
Found at i:11230044 original size:20 final size:21
Alignment explanation
Indices: 11230021--11230063 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
11230011 TTGAAATATC
11230021 TAAAACTT-TTTTTTAT-ATTT
1 TAAAA-TTATTTTTTATGATTT
11230041 TAAAATTATTTTTTATGATTT
1 TAAAATTATTTTTTATGATTT
11230062 TA
1 TA
11230064 TTTACTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TAAAATTATTTTTTATGATTT
Found at i:11232939 original size:17 final size:17
Alignment explanation
Indices: 11232917--11232950 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11232907 GTTGTTGTTG
*
11232917 TTATTATATTTTTTTAT
1 TTATTATATTATTTTAT
11232934 TTATTATATTATTTTAT
1 TTATTATATTATTTTAT
11232951 AAGGTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTATATTATTTTAT
Found at i:11234198 original size:8 final size:8
Alignment explanation
Indices: 11234181--11234213 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
11234171 TACTAGCCCC
11234181 TTTATTTT
1 TTTATTTT
*
11234189 TTTCTTTT
1 TTTATTTT
11234197 TTTA-TTT
1 TTTATTTT
11234204 TTTATTTT
1 TTTATTTT
11234212 TT
1 TT
11234214 GTTTAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:11234914 original size:7 final size:7
Alignment explanation
Indices: 11234883--11234926 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
11234873 GCACCAGCCC
11234883 TTTTG-T
1 TTTTGTT
11234889 TTTTGTT
1 TTTTGTT
*
11234896 TTTTTTT
1 TTTTGTT
11234903 TTTTGTT
1 TTTTGTT
11234910 TTTTGTAT
1 TTTTGT-T
11234918 TTTTAGTT
1 TTTT-GTT
11234926 T
1 T
11234927 AATTAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 5 0.15
7 19 0.58
8 7 0.21
9 2 0.06
ACGTcount: A:0.05, C:0.00, G:0.11, T:0.84
Consensus pattern (7 bp):
TTTTGTT
Found at i:11236267 original size:49 final size:48
Alignment explanation
Indices: 11236185--11236277 Score: 150
Period size: 49 Copynumber: 1.9 Consensus size: 48
11236175 CTAAATAAAT
* *
11236185 TTATTTGAACAAAAAAAATGACTATATGGACTGTCATAATTTTTAAGC
1 TTATTTGAACAAAAAAAATAACTATATAGACTGTCATAATTTTTAAGC
*
11236233 TTATTTGAACAAAAAAATATAATTATATAGACTGTCATAATTTTT
1 TTATTTGAACAAAAAAA-ATAACTATATAGACTGTCATAATTTTT
11236278 TAAATAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 17 0.41
49 24 0.59
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.39
Consensus pattern (48 bp):
TTATTTGAACAAAAAAAATAACTATATAGACTGTCATAATTTTTAAGC
Found at i:11241402 original size:2 final size:2
Alignment explanation
Indices: 11241397--11241441 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
11241387 CTCTCAAACA
11241397 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11241439 TC T
1 TC T
11241442 TTAAACCAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11247245 original size:2 final size:2
Alignment explanation
Indices: 11247238--11247263 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11247228 GTACCCTTTT
11247238 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
11247264 ATTTAAGAAT
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:11247881 original size:24 final size:23
Alignment explanation
Indices: 11247853--11247915 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
11247843 AGTGAATCTA
11247853 AATTTTATAAATTAATTAATATTT
1 AATTTTATAAATTAATTAAT-TTT
* *
11247877 AATTTTATCAACTCAATTAATTTT
1 AATTTTAT-AAATTAATTAATTTT
* * *
11247901 GATTTAAAAAATTAA
1 AATTTTATAAATTAA
11247916 AATCAATATT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 5 0.16
24 16 0.52
25 10 0.32
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (23 bp):
AATTTTATAAATTAATTAATTTT
Found at i:11251720 original size:14 final size:13
Alignment explanation
Indices: 11251694--11251718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11251684 TTTTAATATA
11251694 TATTTAAAAAAAT
1 TATTTAAAAAAAT
11251707 TATTTAAAAAAA
1 TATTTAAAAAAA
11251719 ATGAAACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TATTTAAAAAAAT
Found at i:11252732 original size:18 final size:18
Alignment explanation
Indices: 11252697--11252734 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11252687 AATAATTTAA
*
11252697 AATATGATATAATGATAT
1 AATATGATATAAAGATAT
11252715 AATATGA-ATAAAGTATAT
1 AATATGATATAAAG-ATAT
11252733 AA
1 AA
11252735 AGATATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (18 bp):
AATATGATATAAAGATAT
Found at i:11252787 original size:29 final size:31
Alignment explanation
Indices: 11252731--11252790 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
11252721 AATAAAGTAT
11252731 ATAAAGATATTATAACTTAAAATTAAAAAATC
1 ATAAAGATATTATAAC-TAAAATTAAAAAATC
*
11252763 ATAAATATATT-TAAC-AAAATTAAAAAAT
1 ATAAAGATATTATAACTAAAATTAAAAAAT
11252791 ATATATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 13 0.48
31 4 0.15
32 10 0.37
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (31 bp):
ATAAAGATATTATAACTAAAATTAAAAAATC
Found at i:11253252 original size:24 final size:23
Alignment explanation
Indices: 11253225--11253286 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
11253215 ATTGAATCTA
11253225 AATTTTATAAATTAATTAATATTT
1 AATTTTATAAATTAATTAAT-TTT
*
11253249 AATTTTATCAATTCAATTAATTTT
1 AATTTTATAAATT-AATTAATTTT
* *
11253273 GA-TTTAAAAATTAA
1 AATTTTATAAATTAA
11253287 AATCAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 2 0.06
23 8 0.24
24 16 0.48
25 7 0.21
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (23 bp):
AATTTTATAAATTAATTAATTTT
Found at i:11257004 original size:119 final size:118
Alignment explanation
Indices: 11256765--11257082 Score: 322
Period size: 119 Copynumber: 2.6 Consensus size: 118
11256755 ATTTTTAGTT
* * * * *
11256765 TTTAGGAAAAATTAATATTTCATTTTTTCCTAACATTGTTTTTAAAATTTATTATAAGGAAATGT
1 TTTAGAAAAAATTGATATTTCAATTTTTCCTAA-A-TATTTTTAAAATTTATTCTAAGGAAAT-T
* * * *
11256830 T--TATATTAACTTTTTCCTTAATCGATTTTGTCTATTTTATTTTATTTTTGAAGAA
63 TGATATTTTAA-TTTCTCCTTAATCGATTTTGTCTATTTTATTTTATTGTTAAAGAA
*
11256885 TATTAGAAAAAATTGATGTTTCAATTTTTCCTAAATATTTTTAAAATTTCATTCTAAAGGAAATT
1 T-TTAGAAAAAATTGATATTTCAATTTTTCCTAAATATTTTTAAAATTT-ATTCT-AAGGAAATT
**
11256950 TGATATTTTAATTGTCTCCTTAATTTATTTT-T-T-TTTTATTTTATTGTTAAAGAA
63 TGATATTTTAATT-TCTCCTTAATCGATTTTGTCTATTTTATTTTATTGTTAAAGAA
*** * * * * *
11257004 TTTAGAAATGTTTGATATTTCAACTTCTTCTTAAATATTTTCAAAATTTTGTTCTAAGGAAAAAT
1 TTTAGAAAAAATTGATATTTCAA-TTTTTCCTAAATATTTTTAAAA-TTTATTCTAAGG-AAATT
11257069 TGATATTTTAATTT
63 TGATATTTTAATTT
11257083 TTACCTTAGT
Statistics
Matches: 168, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
118 23 0.14
119 73 0.43
120 12 0.07
121 39 0.23
122 21 0.12
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (118 bp):
TTTAGAAAAAATTGATATTTCAATTTTTCCTAAATATTTTTAAAATTTATTCTAAGGAAATTTGA
TATTTTAATTTCTCCTTAATCGATTTTGTCTATTTTATTTTATTGTTAAAGAA
Found at i:11257157 original size:21 final size:22
Alignment explanation
Indices: 11257131--11257183 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
11257121 AACAAAGTTC
11257131 ATACAAAAATA-AAATAAAAAT
1 ATACAAAAATAGAAATAAAAAT
*
11257152 ATACAAAAATAGAAATAATAAT
1 ATACAAAAATAGAAATAAAAAT
*
11257174 A-ATAAAAATA
1 ATACAAAAATA
11257184 TATTAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (22 bp):
ATACAAAAATAGAAATAAAAAT
Found at i:11257536 original size:24 final size:25
Alignment explanation
Indices: 11257508--11257566 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
11257498 AACTTAATTC
*
11257508 TTATATTTGAT-AAAAGTTTGATT-T
1 TTATATTCGATGAAAA-TTTGATTAT
11257532 TTATATTCGATGAAAATTTGATTAT
1 TTATATTCGATGAAAATTTGATTAT
*
11257557 TTGTATTCGA
1 TTATATTCGA
11257567 ACTTAAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 17 0.55
25 14 0.45
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (25 bp):
TTATATTCGATGAAAATTTGATTAT
Found at i:11257948 original size:21 final size:21
Alignment explanation
Indices: 11257923--11257970 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
11257913 CACGACCGCT
11257923 GTCGTCGACGCAGTTGATGCC
1 GTCGTCGACGCAGTTGATGCC
11257944 GTCGTCGACGCAGTTGATGCC
1 GTCGTCGACGCAGTTGATGCC
*
11257965 GCCGTC
1 GTCGTC
11257971 AACTGCCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.31, G:0.33, T:0.23
Consensus pattern (21 bp):
GTCGTCGACGCAGTTGATGCC
Found at i:11258884 original size:15 final size:14
Alignment explanation
Indices: 11258857--11258883 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11258847 CTAATATGTA
11258857 AAAAATTTTAAAAG
1 AAAAATTTTAAAAG
11258871 AAAAATTTTAAAA
1 AAAAATTTTAAAA
11258884 ATTGCATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAAATTTTAAAAG
Found at i:11260437 original size:13 final size:12
Alignment explanation
Indices: 11260395--11260438 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
11260385 AAATAAGTAG
11260395 GAAGAAAGAAAAA
1 GAAG-AAGAAAAA
11260408 GAATGAA-AAAAA
1 GAA-GAAGAAAAA
11260420 GAAGAAGAAAAA
1 GAAGAAGAAAAA
11260432 GTAAGAA
1 G-AAGAA
11260439 TAGAAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 3 0.11
12 14 0.50
13 10 0.36
14 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:11262464 original size:17 final size:19
Alignment explanation
Indices: 11262432--11262467 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
11262422 TAACTTTAAT
11262432 TATAATTAATTAATTATAG
1 TATAATTAATTAATTATAG
11262451 TATAA-TAA-TAATTATAG
1 TATAATTAATTAATTATAG
11262468 GTGATATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
TATAATTAATTAATTATAG
Found at i:11266815 original size:7 final size:7
Alignment explanation
Indices: 11266803--11266838 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
11266793 GAGCTCACAT
11266803 CCACGCC
1 CCACGCC
11266810 CCACGCC
1 CCACGCC
11266817 CCACGCC
1 CCACGCC
11266824 CCACGCC
1 CCACGCC
11266831 CCACGCC
1 CCACGCC
11266838 C
1 C
11266839 TTCTTTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.72, G:0.14, T:0.00
Consensus pattern (7 bp):
CCACGCC
Found at i:11267100 original size:71 final size:71
Alignment explanation
Indices: 11267001--11267250 Score: 366
Period size: 71 Copynumber: 3.5 Consensus size: 71
11266991 GACATGAAGG
* *
11267001 CAAAGGTAAAGAAGACATAAAGGCTGGGATCTCTCCATCCTTCTTGTTTTTTGGGCGTTTAGCCC
1 CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTTTTTGGGCG-TTAGCCC
11267066 TTGAAAC
65 TTGAAAC
* * *
11267073 CGAAGGCAAAGAAGACA-CAAGGCTGGGATCTCTCCCTCCTTCTTGTTCTTTGGGCGCTTAGCCC
1 CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTTTTTGGGCG-TTAGCCC
11267137 TTGAAAC
65 TTGAAAC
* *
11267144 CCAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCTCCTTGTTGTTTGTCTT---C-TTAGCC
1 CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTT-T-TTGGGCGTTAGCC
11267205 CTTGAAAC
64 CTTGAAAC
11267213 CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCT
1 CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCT
11267251 TCTTTTCGTT
Statistics
Matches: 164, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
69 51 0.31
71 67 0.41
72 43 0.26
73 1 0.01
74 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (71 bp):
CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTTTTTGGGCGTTAGCCCT
TGAAAC
Found at i:11267220 original size:69 final size:69
Alignment explanation
Indices: 11267001--11267250 Score: 310
Period size: 69 Copynumber: 3.6 Consensus size: 69
11266991 GACATGAAGG
* * *
11267001 CAAAGGTAAAGAAGACATAAAGGCTGGGATCTCTCCATCCTTCTTGTTT-T-TTGGGCGTTTAGC
1 CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCTCCTTGTTGTTTGTCTT---C--TTAGC
11267064 CCTTGAAAC
61 CCTTGAAAC
* * * * *
11267073 CGAAGGCAAAGAAGACA-CAAGGCTGGGATCTCTCCCTCCTTCTTGTTCTTTGGGC-GCTTAGCC
1 CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCT-C--CTTGTTGTTT-GTCTTCTTAGCC
11267136 CTTGAAAC
62 CTTGAAAC
*
11267144 CCAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCTCCTTGTTGTTTGTCTTCTTAGCCCTTG
1 CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCTCCTTGTTGTTTGTCTTCTTAGCCCTTG
11267209 AAAC
66 AAAC
11267213 CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCT
1 CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCT
11267251 TCTTTTCGTT
Statistics
Matches: 156, Mismatches: 14, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
68 2 0.01
69 61 0.39
71 49 0.31
72 35 0.22
73 1 0.01
74 8 0.05
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (69 bp):
CAAAGGCAAAGAAGACATAAAGGCTGGGATCTCTCCCTCCTTGTTGTTTGTCTTCTTAGCCCTTG
AAAC
Found at i:11267271 original size:41 final size:41
Alignment explanation
Indices: 11267226--11267308 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
11267216 AGGCAAAGAA
*
11267226 GACATAAAGGCTGGGATCTCTCCCTTCTT-TTCGTTGCTTGG
1 GACATAAAGGCTGGGATCTCTCCCTCCTTCTT-GTTGCTTGG
*
11267267 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGTTTGG
1 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGCTTGG
11267308 G
1 G
11267309 CTCTTAGCCC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
41 37 0.95
42 2 0.05
ACGTcount: A:0.14, C:0.24, G:0.25, T:0.36
Consensus pattern (41 bp):
GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGCTTGG
Found at i:11267332 original size:113 final size:113
Alignment explanation
Indices: 11267157--11267606 Score: 727
Period size: 113 Copynumber: 4.0 Consensus size: 113
11267147 AGGCAAAGAA
* *
11267157 GACATAAAGGCTGGGATCTCTCCCT-C--CTTGTTGTTT-GTCTTCTTAGCCCTTGAAACCAAAG
1 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGTTTGGGC-GCTTAGCCCTTGAAACCAAAG
*
11267218 GCAAAGAAGACATAAAGGCTGGGATCTCTCCCTTCTT-TTCGTTGCTTGG
65 GCAAAGAAGACATAAAGGCTGGGATCTCTCCCTTCTTCTT-GTTGTTTGG
*
11267267 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGTTTGGGCTCTTAGCCCTTGAAACCAAAGG
1 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGTTTGGGCGCTTAGCCCTTGAAACCAAAGG
11267332 CAAAGAAGGACATGAAAGGCTGGGATCTCT-CC-TCTTC-TGTTGTTTGG
66 CAAAGAA-GACAT-AAAGGCTGGGATCTCTCCCTTCTTCTTGTTGTTTGG
*
11267379 GAACATAAAGGCTGGAATCTCTCCCTCCTTCTTGTTGTTTGGGCGCTTAGCCCTTGAAACCAAAG
1 G-ACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGTTTGGGCGCTTAGCCCTTGAAACCAAAG
*
11267444 TCAAAGAAGACATAAAGGCTGGGATCTCTCCCTTCTTCTTGTTGTTTGG
65 GCAAAGAAGACATAAAGGCTGGGATCTCTCCCTTCTTCTTGTTGTTTGG
*
11267493 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTAGTTTGGGCGCTTAGCCCTTGAAACCAAAGG
1 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGTTTGGGCGCTTAGCCCTTGAAACCAAAGG
*
11267558 CAAAGAAGACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGTTTGG
66 CAAAGAAGACATAAAGGCTGGGATCTCTCCCTTCTTCTTGTTGTTTGG
11267606 G
1 G
11267607 CGCTTAGCCC
Statistics
Matches: 320, Mismatches: 9, Indels: 19
0.92 0.03 0.05
Matches are distributed among these distances:
110 25 0.08
111 17 0.05
112 16 0.05
113 226 0.71
114 20 0.06
115 16 0.05
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (113 bp):
GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGTTTGGGCGCTTAGCCCTTGAAACCAAAGG
CAAAGAAGACATAAAGGCTGGGATCTCTCCCTTCTTCTTGTTGTTTGG
Found at i:11267400 original size:39 final size:43
Alignment explanation
Indices: 11267341--11267421 Score: 125
Period size: 39 Copynumber: 2.0 Consensus size: 43
11267331 GCAAAGAAGG
*
11267341 ACATGAAAGGCTGGGATCTCT-CCT-CTTC-TGTTGTTTGGGA
1 ACATGAAAGGCTGGAATCTCTCCCTCCTTCTTGTTGTTTGGGA
11267381 ACAT-AAAGGCTGGAATCTCTCCCTCCTTCTTGTTGTTTGGG
1 ACATGAAAGGCTGGAATCTCTCCCTCCTTCTTGTTGTTTGGG
11267422 CGCTTAGCCC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
39 15 0.41
40 7 0.19
41 4 0.11
42 11 0.30
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (43 bp):
ACATGAAAGGCTGGAATCTCTCCCTCCTTCTTGTTGTTTGGGA
Found at i:11267497 original size:41 final size:41
Alignment explanation
Indices: 11267452--11267534 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
11267442 AGTCAAAGAA
* *
11267452 GACATAAAGGCTGGGATCTCTCCCTTCTTCTTGTTGTTTGG
1 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTAGTTTGG
11267493 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTAGTTTGG
1 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTAGTTTGG
11267534 G
1 G
11267535 CGCTTAGCCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (41 bp):
GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTAGTTTGG
Found at i:11267610 original size:72 final size:72
Alignment explanation
Indices: 11267493--11267627 Score: 261
Period size: 72 Copynumber: 1.9 Consensus size: 72
11267483 TGTTGTTTGG
11267493 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTAGTTTGGGCGCTTAGCCCTTGAAACCAAAGG
1 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTAGTTTGGGCGCTTAGCCCTTGAAACCAAAGG
11267558 CAAAGAA
66 CAAAGAA
*
11267565 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTTGTTTGGGCGCTTAGCCCTTGAAACCAAA
1 GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTAGTTTGGGCGCTTAGCCCTTGAAACCAAA
11267628 AAAAAAAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (72 bp):
GACATAAAGGCTGGGATCTCTCCCTCCTTCTTGTAGTTTGGGCGCTTAGCCCTTGAAACCAAAGG
CAAAGAA
Found at i:11267657 original size:2 final size:2
Alignment explanation
Indices: 11267652--11267722 Score: 60
Period size: 2 Copynumber: 37.0 Consensus size: 2
11267642 TATTAGAAAC
* * **
11267652 CT CT CT CT CT CT GT CT CT C- CT CT CA AG C- CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
11267692 CT CT CT -T CGT CT CT C- CT CT CT CT CA CT CT CT
1 CT CT CT CT C-T CT CT CT CT CT CT CT CT CT CT CT
11267723 TCCTCAATCT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
1 4 0.07
2 50 0.89
3 2 0.04
ACGTcount: A:0.04, C:0.48, G:0.04, T:0.44
Consensus pattern (2 bp):
CT
Found at i:11272493 original size:12 final size:12
Alignment explanation
Indices: 11272476--11272505 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11272466 AATAAAATAT
11272476 TTCGAGTCCGAA
1 TTCGAGTCCGAA
*
11272488 TTCGAGTTCGAA
1 TTCGAGTCCGAA
11272500 TTCGAG
1 TTCGAG
11272506 CATGAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (12 bp):
TTCGAGTCCGAA
Found at i:11273111 original size:20 final size:20
Alignment explanation
Indices: 11273083--11273155 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
11273073 ATAAATAATT
11273083 TTTTA-AATTATTTATTTAA
1 TTTTATAATTATTTATTTAA
*
11273102 TTTTATAATTATTTATATATA
1 TTTTATAATTATTTATTTA-A
* ** *
11273123 TATATATTTTTATATATTTAA
1 T-TTTATAATTATTTATTTAA
*
11273144 TTTTATATTTAT
1 TTTTATAATTAT
11273156 ATTAAAAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.12
20 21 0.49
21 4 0.09
22 13 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTATAATTATTTATTTAA
Found at i:11273113 original size:16 final size:15
Alignment explanation
Indices: 11273090--11273152 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 15
11273080 ATTTTTTAAA
11273090 TTAT-TTATTTAATT
1 TTATATTATTTAATT
11273104 TTATAATTATTT-A-T
1 TTAT-ATTATTTAATT
* * *
11273118 ATATA-TATATATTT
1 TTATATTATTTAATT
11273132 TTATA-TATTTAATT
1 TTATATTATTTAATT
11273146 TTATATT
1 TTATATT
11273153 TATATTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
12 4 0.11
13 1 0.03
14 25 0.66
15 2 0.05
16 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTATTTAATT
Found at i:11273851 original size:25 final size:25
Alignment explanation
Indices: 11273814--11273874 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
11273804 GTGGTATCAC
11273814 AGCTGAAGGTTCGAAACGTGAGAAG
1 AGCTGAAGGTTCGAAACGTGAGAAG
* * *
11273839 AGTTGAAGGTTCGAAATGTGGGAAG
1 AGCTGAAGGTTCGAAACGTGAGAAG
*
11273864 AGCTGATGGTT
1 AGCTGAAGGTT
11273875 TGAGACATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.31, C:0.08, G:0.38, T:0.23
Consensus pattern (25 bp):
AGCTGAAGGTTCGAAACGTGAGAAG
Found at i:11274274 original size:52 final size:52
Alignment explanation
Indices: 11274211--11274329 Score: 157
Period size: 52 Copynumber: 2.3 Consensus size: 52
11274201 ATTTTTTTAA
*** *
11274211 AAAAAGATTCTTAATAGGTAAGTTTGACTAATAAGAGAAGAATTCTAAAAGG
1 AAAAAGATTCTTAATAAACAAGTTTGACTAACAAGAGAAGAATTCTAAAAGG
* * * *
11274263 AAAAAGATTCTTAATAAACAAGTTTGATTTACAGGAGAAGAATTCTAAGAGG
1 AAAAAGATTCTTAATAAACAAGTTTGACTAACAAGAGAAGAATTCTAAAAGG
*
11274315 AAAGAGATTCTTAAT
1 AAAAAGATTCTTAAT
11274330 GGACAAATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (52 bp):
AAAAAGATTCTTAATAAACAAGTTTGACTAACAAGAGAAGAATTCTAAAAGG
Found at i:11276788 original size:20 final size:18
Alignment explanation
Indices: 11276757--11276800 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
11276747 TTAGTTCCTC
11276757 TAATATATTAATCT-TTAT
1 TAATATATTAAT-TATTAT
11276775 TATATATAATTAATTATTAT
1 TA-ATAT-ATTAATTATTAT
11276795 TAATAT
1 TAATAT
11276801 CATATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.09
19 9 0.39
20 12 0.52
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATATATTAATTATTAT
Found at i:11276848 original size:16 final size:15
Alignment explanation
Indices: 11276825--11276865 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
11276815 TGTTATCATT
11276825 TATATTAATCAAT-TA
1 TATATTAAT-AATATA
11276840 TACTATTAATAATATA
1 TA-TATTAATAATATA
11276856 TATATTAATA
1 TATATTAATA
11276866 TATCAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (15 bp):
TATATTAATAATATA
Found at i:11277041 original size:20 final size:21
Alignment explanation
Indices: 11277011--11277053 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
11277001 ATATAAAAAT
11277011 AATATAGTAAAAATATATTAA
1 AATATAGTAAAAATATATTAA
* *
11277032 AATA-AGTAAAATTTTATTAA
1 AATATAGTAAAAATATATTAA
11277052 AA
1 AA
11277054 ATAATATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AATATAGTAAAAATATATTAA
Found at i:11279663 original size:19 final size:18
Alignment explanation
Indices: 11279620--11279663 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11279610 ATTTAAATAT
*
11279620 AAAA-TTATAAGATATTA
1 AAAATTTATAAGATATGA
*
11279637 AAAATTTATTAGATATGA
1 AAAATTTATAAGATATGA
11279655 AATAATTTA
1 AA-AATTTA
11279664 CTTTAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (18 bp):
AAAATTTATAAGATATGA
Found at i:11281078 original size:13 final size:12
Alignment explanation
Indices: 11281054--11281103 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
11281044 AGGTAGGAGG
*
11281054 AGAGAAATAGAA
1 AGAGAAAAAGAA
11281066 AGAAGAAAAAGAA
1 AG-AGAAAAAGAA
*
11281079 AGCAGAAAAAGTA
1 AG-AGAAAAAGAA
11281092 AG-GAAAAAGAA
1 AGAGAAAAAGAA
11281103 A
1 A
11281104 AACGTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 9 0.27
12 2 0.06
13 22 0.67
ACGTcount: A:0.70, C:0.02, G:0.24, T:0.04
Consensus pattern (12 bp):
AGAGAAAAAGAA
Found at i:11281773 original size:22 final size:24
Alignment explanation
Indices: 11281746--11281791 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
11281736 TATTTTTCAA
11281746 ATATTTAAAA-T-TTTTATATTTT
1 ATATTTAAAATTATTTTATATTTT
11281768 ATATTTAAAATTATTTTATATTTT
1 ATATTTAAAATTATTTTATATTTT
11281792 TTGACATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 10 0.45
23 1 0.05
24 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATATTTAAAATTATTTTATATTTT
Done.