Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 25 of 190
Found at i:4097530 original size:5 final size:5
Alignment explanation
Indices: 4097520--4097554 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
4097510 AAACAATGAC
4097520 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
4097555 CTACAAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:4098009 original size:183 final size:184
Alignment explanation
Indices: 4097698--4098053 Score: 543
Period size: 183 Copynumber: 1.9 Consensus size: 184
4097688 CTCTAATCTT
* *
4097698 TTTTTCCTCTGTATCAGCTCGGAACCAAGTATTAAAGTAATTAAAAACAACTTGCTAAGCCAGGT
1 TTTTTCCTCTATATCAGCTCAGAACCAAGTATTAAAGTAATTAAAAACAACTTGCTAAGCCAGGT
* * *
4097763 ATTTCTAAGAATCTGCTCTTCTATTACTCATAGTGTTAAAACAACTTCACTCTAAAGATCAGTAA
66 ACTTCT-A-AATCTGCTCTTCTATTACTAATAGTGTTAAAACAACTTCAATCTAAAGATCAGTAA
* *
4097828 ATTAAAATCCAAAGAGCCAAAACTACAACAATAAAAAATTCATACACTCTCTGATC
129 ATTAAAACCCAAAGAGCCAAAACAACAACAATAAAAAATTCATACACTCTCTGATC
* * * * *
4097884 TTTTTCCTCTATATCAGCTCATAACCAAGTATTAAATTAATTATAAACAACTTTCTAAGCTAGGT
1 TTTTTCCTCTATATCAGCTCAGAACCAAGTATTAAAGTAATTAAAAACAACTTGCTAAGCCAGGT
* **
4097949 ACTTCT-AATCTGCTCTTTTATTACTAATAGTGTTAAAACATTTTCAATCTAAAGATCAGTAAAT
66 ACTTCTAAATCTGCTCTTCTATTACTAATAGTGTTAAAACAACTTCAATCTAAAGATCAGTAAAT
*
4098013 TAAAACCCTAAGAGCCAAAACAACAACAATAAAAAATTCAT
131 TAAAACCCAAAGAGCCAAAACAACAACAATAAAAAATTCAT
4098054 CCATATTCAA
Statistics
Matches: 154, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
183 91 0.59
186 63 0.41
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (184 bp):
TTTTTCCTCTATATCAGCTCAGAACCAAGTATTAAAGTAATTAAAAACAACTTGCTAAGCCAGGT
ACTTCTAAATCTGCTCTTCTATTACTAATAGTGTTAAAACAACTTCAATCTAAAGATCAGTAAAT
TAAAACCCAAAGAGCCAAAACAACAACAATAAAAAATTCATACACTCTCTGATC
Found at i:4102845 original size:16 final size:16
Alignment explanation
Indices: 4102824--4102874 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
4102814 TATTCAAATC
4102824 ATTTTTATTTTTAATT
1 ATTTTTATTTTTAATT
4102840 ATTTTTAATTTATT-ATT
1 ATTTTT-ATTT-TTAATT
* * *
4102857 ATGTTAAGTTTTAATT
1 ATTTTTATTTTTAATT
4102873 AT
1 AT
4102875 AAATTGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 2 0.07
16 14 0.48
17 11 0.38
18 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
ATTTTTATTTTTAATT
Found at i:4105239 original size:8 final size:8
Alignment explanation
Indices: 4105223--4105252 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4105213 ATTTTCAGTT
*
4105223 TTAATAAA
1 TTAAAAAA
4105231 TTAAAAAA
1 TTAAAAAA
4105239 TTAAAAAA
1 TTAAAAAA
4105247 TTAAAA
1 TTAAAA
4105253 TAATAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TTAAAAAA
Found at i:4106346 original size:23 final size:21
Alignment explanation
Indices: 4106308--4106349 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
4106298 CGAACTGAGT
*
4106308 TTAAATTATTTTAATAATTAA
1 TTAAATTATTTGAATAATTAA
4106329 TTAAATTAAATTTGAATAATT
1 TTAAATT--ATTTGAATAATT
4106350 TAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAAATTATTTGAATAATTAA
Found at i:4110917 original size:25 final size:26
Alignment explanation
Indices: 4110885--4110944 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
4110875 TTAATATAAC
4110885 TATTAAAATAT-TAAAAATAATTTAT
1 TATTAAAATATATAAAAATAATTTAT
** *
4110910 TATTAAAATATATTGAAATTATTTAT
1 TATTAAAATATATAAAAATAATTTAT
4110936 TATTAAAAT
1 TATTAAAAT
4110945 GATTGATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 11 0.35
26 20 0.65
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TATTAAAATATATAAAAATAATTTAT
Found at i:4110999 original size:15 final size:16
Alignment explanation
Indices: 4110981--4111041 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 16
4110971 TTAATAATAA
*
4110981 TATTTAATATTAAAATAT
1 TATTTAATATT-AAA-AC
4110999 TATGTTAATATTAAAA-
1 TAT-TTAATATTAAAAC
*
4111015 TATTTAA-AATAAAAC
1 TATTTAATATTAAAAC
*
4111030 TATTTATTATTA
1 TATTTAATATTA
4111042 TTTATATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 6 0.16
15 10 0.27
16 6 0.16
17 1 0.03
18 6 0.16
19 8 0.22
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAC
Found at i:4111006 original size:19 final size:18
Alignment explanation
Indices: 4110971--4111018 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
4110961 TAAGTATATT
*
4110971 TTAATAATAATATTTAATA
1 TTAA-AATATTATTTAATA
4110990 TTAAAATATTATGTTAATA
1 TTAAAATATTAT-TTAATA
4111009 TTAAAATATT
1 TTAAAATATT
4111019 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TTAAAATATTATTTAATA
Found at i:4111041 original size:49 final size:52
Alignment explanation
Indices: 4110929--4111041 Score: 119
Period size: 49 Copynumber: 2.2 Consensus size: 52
4110919 ATATTGAAAT
* *
4110929 TATTTATTATTAAAATGATTGATATTAAAAAATAAGTATATTTTAATAATAA
1 TATTTATTATTAAAATGATTGATATTAAAAAATAAGAATATTTAAATAATAA
* * * *
4110981 TATTTAATATTAAAAT-ATT-ATGTT-AATATTAA-AATATTTAAAATAA-AA
1 TATTTATTATTAAAATGATTGATATTAAAAAATAAGAATATTT-AAATAATAA
4111029 CTATTTATTATTA
1 -TATTTATTATTA
4111042 TTTATATTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
48 8 0.15
49 22 0.42
50 4 0.08
51 3 0.06
52 15 0.29
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.46
Consensus pattern (52 bp):
TATTTATTATTAAAATGATTGATATTAAAAAATAAGAATATTTAAATAATAA
Found at i:4111045 original size:10 final size:10
Alignment explanation
Indices: 4111030--4111061 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
4111020 AAAATAAAAC
4111030 TATTTATTAT
1 TATTTATTAT
4111040 TATTTA-TAT
1 TATTTATTAT
4111049 TATTTATTAT
1 TATTTATTAT
4111059 TAT
1 TAT
4111062 ATAATAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTTATTAT
Found at i:4111104 original size:31 final size:29
Alignment explanation
Indices: 4111048--4111125 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 29
4111038 ATTATTTATA
*
4111048 TTATTTAT-TATTATATAATAGGTATTAC
1 TTATTAATATATTATATAATAGGTATTAC
* *
4111076 TTATTAATATATTATATTCATAGTGTATTAT
1 TTATTAATATATTATA-TAATAG-GTATTAC
4111107 TTATTAATATATTAATATA
1 TTATTAATATATT-ATATA
4111126 TTAATTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 7 0.17
29 7 0.17
30 5 0.12
31 20 0.48
32 3 0.07
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (29 bp):
TTATTAATATATTATATAATAGGTATTAC
Found at i:4111127 original size:20 final size:20
Alignment explanation
Indices: 4111104--4111150 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4111094 CATAGTGTAT
*
4111104 TATTTATTAA-TATATTAATA
1 TATTAATTAATTA-ATTAATA
4111124 TATTAATTAATTAATTAATA
1 TATTAATTAATTAATTAATA
*
4111144 TAATAAT
1 TATTAAT
4111151 ATTTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTAATTAATTAATTAATA
Found at i:4118751 original size:17 final size:17
Alignment explanation
Indices: 4118729--4118761 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4118719 TTGCAACAAT
4118729 TTTTTTTATTTTTTAAG
1 TTTTTTTATTTTTTAAG
*
4118746 TTTTTTTTTTTTTTAA
1 TTTTTTTATTTTTTAA
4118762 ATCATGATTT
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:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTATTTTTTAAG
Found at i:4120210 original size:14 final size:15
Alignment explanation
Indices: 4120177--4120216 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4120167 AGTTAATTTT
*
4120177 AAATTAAATTACTCA
1 AAATTAAATTAATCA
4120192 AAATTAAATTAAT-A
1 AAATTAAATTAATCA
*
4120206 AAATTATATTA
1 AAATTAAATTA
4120217 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTAAATTAATCA
Found at i:4120252 original size:28 final size:28
Alignment explanation
Indices: 4120199--4120255 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
4120189 TCAAAATTAA
* *
4120199 ATTAATAAAATTATATTATTTTATTTTT
1 ATTAATAAAATTAAATTATTTAATTTTT
*
4120227 ATTAATCAAATTAAAATT-TTTAATTTTT
1 ATTAATAAAATT-AAATTATTTAATTTTT
4120255 A
1 A
4120256 AAATTAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTAATAAAATTAAATTATTTAATTTTT
Found at i:4131357 original size:13 final size:13
Alignment explanation
Indices: 4131335--4131377 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
4131325 AAAATTGATT
4131335 AAAT-AAAAATTA
1 AAATCAAAAATTA
*
4131347 AAATCAAAAATCA
1 AAATCAAAAATTA
*
4131360 AAATCGATAAATTA
1 AAATC-AAAAATTA
4131374 AAAT
1 AAAT
4131378 ATCTCATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 4 0.15
13 12 0.46
14 10 0.38
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (13 bp):
AAATCAAAAATTA
Found at i:4131585 original size:113 final size:118
Alignment explanation
Indices: 4131370--4131586 Score: 284
Period size: 113 Copynumber: 1.9 Consensus size: 118
4131360 AAATCGATAA
* *
4131370 ATTAAAATATCTCATTATATAGATTAAGTGTGTAATATTTGAAAAATTTTTAATAAATATTAATA
1 ATTAAAATATCTCATTATATAAATTAAATGTGTAATATTTGAAAAATTTTTAATAAATATTAATA
* * * *
4131435 AATATTTTTATATAGATATTTTTAGTAAAACTGTTGATAGTCAAAATAAATAT
66 AATATTTTTAGATAGATATTTTTAATAAAAATATTGATAGTCAAAATAAATAT
* **
4131488 ATTAAAATGTCTTGTTATATAAATTAAATGTGTCAA-ATTT-AAAAA-TTTTAAT-AA-ATT-AT
1 ATTAAAATATCTCATTATATAAATTAAATGTGT-AATATTTGAAAAATTTTTAATAAATATTAAT
**
4131547 GTATATTTTTAGATAGATATTTTTAATAAAAATATTGATA
65 AAATATTTTTAGATAGATATTTTTAATAAAAATATTGATA
4131587 AATTTTTTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
113 36 0.41
114 3 0.03
115 2 0.02
116 7 0.08
117 5 0.06
118 32 0.37
119 2 0.02
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (118 bp):
ATTAAAATATCTCATTATATAAATTAAATGTGTAATATTTGAAAAATTTTTAATAAATATTAATA
AATATTTTTAGATAGATATTTTTAATAAAAATATTGATAGTCAAAATAAATAT
Found at i:4131719 original size:13 final size:14
Alignment explanation
Indices: 4131701--4131733 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4131691 ATCAATTTTG
4131701 ATTTTTTTAT-TAA
1 ATTTTTTTATATAA
*
4131714 ATTTTTTTATATCA
1 ATTTTTTTATATAA
4131728 ATTTTT
1 ATTTTT
4131734 AAAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTTTATATAA
Found at i:4133613 original size:18 final size:19
Alignment explanation
Indices: 4133587--4133622 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4133577 ATCTTTATGA
4133587 TTTTAATTTT-ACTTTTTT
1 TTTTAATTTTAACTTTTTT
*
4133605 TTTTCATTTTAACTTTTT
1 TTTTAATTTTAACTTTTT
4133623 AATTAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTAATTTTAACTTTTTT
Found at i:4142450 original size:10 final size:10
Alignment explanation
Indices: 4142428--4142461 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
4142418 ATTTTACTTA
4142428 AATTAATTAT
1 AATTAATTAT
4142438 AATATAA-TAT
1 AAT-TAATTAT
4142448 AATTAATTAT
1 AATTAATTAT
4142458 AATT
1 AATT
4142462 TAAAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.14
10 16 0.73
11 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTAATTAT
Found at i:4149501 original size:26 final size:27
Alignment explanation
Indices: 4149463--4149514 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
4149453 ACTATTAAAC
4149463 TATTAAAAATTATTTATGATTAAAATA
1 TATTAAAAATTATTTATGATTAAAATA
* *
4149490 TATT-AAAATTATTTCTTATTAAAAT
1 TATTAAAAATTATTTATGATTAAAAT
4149515 TATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
TATTAAAAATTATTTATGATTAAAATA
Found at i:4149558 original size:21 final size:21
Alignment explanation
Indices: 4149534--4149578 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
4149524 TAAAAAAATT
4149534 ATATTTTAATAATAATAT-TTA
1 ATATTTTAA-AATAATATATTA
*
4149555 ATA-TTTAAAATATTATATTA
1 ATATTTTAAAATAATATATTA
4149575 ATAT
1 ATAT
4149579 AAAAATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.33
20 11 0.52
21 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTAAAATAATATATTA
Found at i:4149583 original size:19 final size:20
Alignment explanation
Indices: 4149519--4149588 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 20
4149509 TAAAATTATA
*
4149519 AATATTAAAAAAATTATA-T
1 AATATTAAAAATATTATATT
* *
4149538 --T-TTAATAATAATAT-TT
1 AATATTAAAAATATTATATT
*
4149554 AATATTTAAAATATTATATT
1 AATATTAAAAATATTATATT
4149574 AATA-TAAAAATATTA
1 AATATTAAAAATATTA
4149589 AAATAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
16 11 0.28
17 1 0.03
18 1 0.03
19 20 0.51
20 6 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATTAAAAATATTATATT
Found at i:4149586 original size:35 final size:35
Alignment explanation
Indices: 4149519--4149587 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
4149509 TAAAATTATA
* *
4149519 AATATTAAAAAAATTATATTTTAATAATAATATTT
1 AATATTAAAAAAATTATATTATAATAAAAATATTT
* *
4149554 AATATTTAAAATATTATATTA-ATATAAAAATATT
1 AATATTAAAAAAATTATATTATA-ATAAAAATATT
4149588 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
AATATTAAAAAAATTATATTATAATAAAAATATTT
Found at i:4150982 original size:32 final size:33
Alignment explanation
Indices: 4150931--4151014 Score: 116
Period size: 32 Copynumber: 2.5 Consensus size: 33
4150921 TAAAAAATAT
**
4150931 TTTTATTATAATAGGATAAGGTTCATTTGTTTTA
1 TTTT-TTATAATAGGATAAGGCACATTTGTTTTA
4150965 TTTTTTATAAT-GGATAAGGCACATTTGTTTTA
1 TTTTTTATAATAGGATAAGGCACATTTGTTTTA
* *
4150997 TTATTTATAATAAGATAA
1 TTTTTTATAATAGGATAA
4151015 AGCTTAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
32 29 0.64
33 12 0.27
34 4 0.09
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (33 bp):
TTTTTTATAATAGGATAAGGCACATTTGTTTTA
Found at i:4151060 original size:37 final size:37
Alignment explanation
Indices: 4151019--4151129 Score: 103
Period size: 32 Copynumber: 3.2 Consensus size: 37
4151009 AGATAAAGCT
4151019 TAATTTTTTCTTTTTAAAAAACATTAATACAATGATC
1 TAATTTTTTCTTTTTAAAAAACATTAATACAATGATC
* * * * * *
4151056 TAA-TTTAT-TATTTATAATA-A--GATA-AA-GCT-
1 TAATTTTTTCTTTTTAAAAAACATTAATACAATGATC
4151085 TAATTTTTTTCTTTTTAAAAAACATTAATACAATGATC
1 TAA-TTTTTTCTTTTTAAAAAACATTAATACAATGATC
4151123 TAATTTT
1 TAATTTT
4151130 AAATTGCATT
Statistics
Matches: 53, Mismatches: 12, Indels: 18
0.64 0.14 0.22
Matches are distributed among these distances:
29 3 0.06
30 2 0.04
31 6 0.11
32 11 0.21
33 1 0.02
34 1 0.02
35 11 0.21
36 6 0.11
37 9 0.17
38 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.48
Consensus pattern (37 bp):
TAATTTTTTCTTTTTAAAAAACATTAATACAATGATC
Found at i:4151071 original size:66 final size:67
Alignment explanation
Indices: 4150993--4151128 Score: 265
Period size: 67 Copynumber: 2.0 Consensus size: 67
4150983 GCACATTTGT
4150993 TTTATTATTTATAATAAGATAAAGCTTAA-TTTTTTCTTTTTAAAAAACATTAATACAATGATCT
1 TTTATTATTTATAATAAGATAAAGCTTAATTTTTTTCTTTTTAAAAAACATTAATACAATGATCT
4151057 AA
66 AA
4151059 TTTATTATTTATAATAAGATAAAGCTTAATTTTTTTCTTTTTAAAAAACATTAATACAATGATCT
1 TTTATTATTTATAATAAGATAAAGCTTAATTTTTTTCTTTTTAAAAAACATTAATACAATGATCT
4151124 AA
66 AA
4151126 TTT
1 TTT
4151129 TAAATTGCAT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 29 0.42
67 40 0.58
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.47
Consensus pattern (67 bp):
TTTATTATTTATAATAAGATAAAGCTTAATTTTTTTCTTTTTAAAAAACATTAATACAATGATCT
AA
Found at i:4159254 original size:21 final size:20
Alignment explanation
Indices: 4159224--4159262 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4159214 GATAATCAAA
4159224 TAAATAAATAAATAAAATAGT
1 TAAATAAATAAA-AAAATAGT
*
4159245 TAAATGAATAAAAAAATA
1 TAAATAAATAAAAAAATA
4159263 CCTAATGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
TAAATAAATAAAAAAATAGT
Found at i:4160005 original size:43 final size:43
Alignment explanation
Indices: 4159950--4160223 Score: 179
Period size: 43 Copynumber: 6.4 Consensus size: 43
4159940 TAAACAAAGT
* * *
4159950 TAAACAACTTTAAAATAGGAAATGAGCTCTTTTATTCAGAGGC
1 TAAACAACTTTAAAATAAGAAATGAGCTCTTTTATACAAAGGC
* * * *
4159993 TAAATAACTTTAAAATAAGAAAT-AGGCT-TCTCTATACAGAGAC
1 TAAACAACTTTAAAATAAGAAATGA-GCTCT-TTTATACAAAGGC
* * * * * * *
4160036 TAAATAGCTTTAAAATAAGAGATTG-GCTCATTTAAATAAAGAC
1 TAAACAACTTTAAAATAAGA-AATGAGCTCTTTTATACAAAGGC
* * *
4160079 AAAACGA-TTTAAAATAAGAAATAAGCT-TTTATATACAAAGG-
1 TAAACAACTTTAAAATAAGAAATGAGCTCTTT-TATACAAAGGC
* * * *
4160120 TAAAACAACTTT-AAATAGGAAATGA-CTATTCTAAACAAAGGC
1 T-AAACAACTTTAAAATAAGAAATGAGCTCTTTTATACAAAGGC
* ** * * *
4160162 AAAATGACTTTAAAATAAGAAATG-GACTCTTATATTCAGAGGC
1 TAAACAACTTTAAAATAAGAAATGAG-CTCTTTTATACAAAGGC
*
4160205 TAAACAATTTTAAAATAAG
1 TAAACAACTTTAAAATAAG
4160224 TGACTGGGAT
Statistics
Matches: 176, Mismatches: 41, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
41 23 0.13
42 53 0.30
43 98 0.56
44 2 0.01
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.28
Consensus pattern (43 bp):
TAAACAACTTTAAAATAAGAAATGAGCTCTTTTATACAAAGGC
Found at i:4160125 original size:42 final size:42
Alignment explanation
Indices: 4160068--4160184 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
4160058 TTGGCTCATT
* * *
4160068 TAAATAAAGACAAAACGA-TTTAAAATAAGAAATAAGCTTTTA
1 TAAACAAAGGCAAAACGACTTTAAAATAAGAAATAA-CTATTA
* * * * * *
4160110 TATACAAAGGTAAAACAACTTT-AAATAGGAAATGACTATTC
1 TAAACAAAGGCAAAACGACTTTAAAATAAGAAATAACTATTA
*
4160151 TAAACAAAGGCAAAATGACTTTAAAATAAGAAAT
1 TAAACAAAGGCAAAACGACTTTAAAATAAGAAAT
4160185 GGACTCTTAT
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
41 22 0.37
42 34 0.58
43 3 0.05
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.25
Consensus pattern (42 bp):
TAAACAAAGGCAAAACGACTTTAAAATAAGAAATAACTATTA
Found at i:4160416 original size:65 final size:65
Alignment explanation
Indices: 4160216--4160423 Score: 212
Period size: 66 Copynumber: 3.2 Consensus size: 65
4160206 AAACAATTTT
* *
4160216 AAAATAAGTGACTGGGATTGAATCGTAAA-TTCAAAAAAATAAATGACCT-AGACTGATCCGAGG
1 AAAATAAGTGACTGGGACTGAATCGCAAAGTT-AAAAAAATAAATGACCTGA-ACTGAT-C-AGG
4160279 -TCG
62 ATCG
* * * *
4160282 AAAATAAGTGACTGGGACTGAA-CTGCAAAGTTAAAAAAATAAATGACCTGGATTGAGC-TGATA
1 AAAATAAGTGACTGGGACTGAATC-GCAAAGTTAAAAAAATAAATGACCTGAACTGATCAGGAT-
4160345 ACG
64 -CG
* * * *
4160348 AAAATAAGTGACTGAGACTAAATCG-AAAGTTAAAAAAATAAATGACTTGAACTGAATCAGGATT
1 AAAATAAGTGACTGGGACTGAATCGCAAAGTTAAAAAAATAAATGACCTGAACTG-ATCAGGATC
4160412 G
65 G
4160413 AAAATAAGTGA
1 AAAATAAGTGA
4160424 TCGAAATTGA
Statistics
Matches: 119, Mismatches: 14, Indels: 19
0.78 0.09 0.12
Matches are distributed among these distances:
63 1 0.01
64 1 0.01
65 40 0.34
66 71 0.60
67 6 0.05
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (65 bp):
AAAATAAGTGACTGGGACTGAATCGCAAAGTTAAAAAAATAAATGACCTGAACTGATCAGGATCG
Found at i:4160901 original size:17 final size:18
Alignment explanation
Indices: 4160855--4160904 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
4160845 TAAGAGCTTC
*
4160855 AGATTCACAAGAATTTAA
1 AGATTAACAAGAATTTAA
* *
4160873 AAATTAACAAGAATTT-T
1 AGATTAACAAGAATTTAA
*
4160890 AGATTTACAAGAATT
1 AGATTAACAAGAATT
4160905 GCAAGATTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (18 bp):
AGATTAACAAGAATTTAA
Found at i:4161174 original size:45 final size:45
Alignment explanation
Indices: 4161118--4161367 Score: 117
Period size: 45 Copynumber: 5.7 Consensus size: 45
4161108 GATTTCATGA
*
4161118 TTCATAGCCAAAATTCAAAAATTCTCATTCAAAAAATTTTAGGGT
1 TTCATATCCAAAATTCAAAAATTCTCATTCAAAAAATTTTAGGGT
* * ** * *
4161163 TTCATATCCAAAAGTTC-AAGATTTTCATTTGAAAAATTTAAGGAT
1 TTCATATCCAAAA-TTCAAAAATTCTCATTCAAAAAATTTTAGGGT
* * ** * * *
4161208 TCACATAT-GAAGTTTCAAAGATTTTCATTCAAAAAATTTT-GGGA
1 T-TCATATCCAAAATTCAAAAATTCTCATTCAAAAAATTTTAGGGT
* * * * * ** * * *
4161252 TTGAAATTCAAAGTTTCAAAAGTTCTTTTTC-AAAAACTTTATGGC
1 TTCATATCCAAA-ATTCAAAAATTCTCATTCAAAAAATTTTAGGGT
* *
4161297 TTCACA-CC---A---AAAAATTCTCATTTAAAAAAATTTTTAGGGT
1 TTCATATCCAAAATTCAAAAATTCTCA-TTCAAAAAA-TTTTAGGGT
* *
4161337 TTCTTATCCAAAATTTCAAAAATTCTTATTC
1 TTCATATCCAAAA-TTCAAAAATTCTCATTC
4161368 GAAAGACTAT
Statistics
Matches: 144, Mismatches: 44, Indels: 32
0.65 0.20 0.15
Matches are distributed among these distances:
37 8 0.06
38 2 0.01
39 5 0.03
40 10 0.07
41 2 0.01
43 3 0.02
44 18 0.12
45 76 0.53
46 8 0.06
47 2 0.01
48 10 0.07
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (45 bp):
TTCATATCCAAAATTCAAAAATTCTCATTCAAAAAATTTTAGGGT
Found at i:4165679 original size:9 final size:9
Alignment explanation
Indices: 4165656--4165689 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4165646 CGACGGATAT
*
4165656 ATAAAATGA
1 ATAAAATAA
4165665 AT-AAATAA
1 ATAAAATAA
4165673 ATAAAATAA
1 ATAAAATAA
4165682 ATAAAATA
1 ATAAAATA
4165690 CAAATAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
ATAAAATAA
Found at i:4165702 original size:15 final size:14
Alignment explanation
Indices: 4165664--4165696 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4165654 ATATAAAATG
4165664 AATAAAT-AAATAA
1 AATAAATAAAATAA
4165677 AATAAATAAAATACA
1 AATAAATAAAATA-A
4165692 AATAA
1 AATAA
4165697 GAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAATAAAATAA
Found at i:4170410 original size:11 final size:11
Alignment explanation
Indices: 4170394--4170432 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
4170384 CCTTTTTTAA
4170394 AAATTATAATT
1 AAATTATAATT
4170405 AAATTATAATT
1 AAATTATAATT
*
4170416 AAATCA-AATT
1 AAATTATAATT
4170426 ATAATTA
1 A-AATTA
4170433 AAAAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (11 bp):
AAATTATAATT
Found at i:4170426 original size:16 final size:16
Alignment explanation
Indices: 4170395--4170434 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
4170385 CTTTTTTAAA
*
4170395 AATTATAATTAAATTAT
1 AATTA-AATCAAATTAT
4170412 AATTAAATCAAATTAT
1 AATTAAATCAAATTAT
4170428 AATTAAA
1 AATTAAA
4170435 AAATTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTAAATCAAATTAT
Found at i:4173864 original size:26 final size:28
Alignment explanation
Indices: 4173830--4173914 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 28
4173820 AATTATTTTA
*
4173830 TCATTTTAATTATA-T-TTTATATATAT
1 TCATATTAATTATATTATTTATATATAT
* *
4173856 TCATATTAATCATATTATTTGTATATAT
1 TCATATTAATTATATTATTTATATATAT
* * * * *
4173884 CCATATTATTTATGTATATCTATATTTAT
1 TCATATTAATTATAT-TATTTATATATAT
4173913 TC
1 TC
4173915 GTATCATATT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
26 12 0.27
27 1 0.02
28 21 0.47
29 11 0.24
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (28 bp):
TCATATTAATTATATTATTTATATATAT
Found at i:4173888 original size:19 final size:19
Alignment explanation
Indices: 4173866--4173923 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
4173856 TCATATTAAT
4173866 CATATTATTTGTATATATC
1 CATATTATTTGTATATATC
* *
4173885 CATATTATTTATGTATATC
1 CATATTATTTGTATATATC
* *
4173904 TATATTTATTCGTATCATAT
1 CATA-TTATTTGTAT-ATAT
4173924 TTAAATGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 20 0.65
20 7 0.23
21 4 0.13
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.53
Consensus pattern (19 bp):
CATATTATTTGTATATATC
Found at i:4184655 original size:21 final size:22
Alignment explanation
Indices: 4184630--4184671 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4184620 TTTCATTATT
4184630 AATTTTAAT-TTTATCAAAATC
1 AATTTTAATATTTATCAAAATC
* *
4184651 AATTTTATTATTTATCTAAAT
1 AATTTTAATATTTATCAAAAT
4184672 AAGCTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTTTAATATTTATCAAAATC
Found at i:4185696 original size:18 final size:19
Alignment explanation
Indices: 4185650--4185697 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
4185640 TTTATTTTAT
*
4185650 AAATAATTAAATCGATCAA
1 AAATAATTAAATCAATCAA
*
4185669 AAATATTTAAAT-AATCAA
1 AAATAATTAAATCAATCAA
**
4185687 TTATAATTAAA
1 AAATAATTAAA
4185698 CTGACTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATAATTAAATCAATCAA
Found at i:4189954 original size:2 final size:2
Alignment explanation
Indices: 4189897--4189935 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4189887 GGGCTTTCCA
4189897 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4189936 AAGCAGAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4195987 original size:6 final size:6
Alignment explanation
Indices: 4195976--4196004 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4195966 TGCGTCGCCC
4195976 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
4196005 TTCTATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:4197549 original size:12 final size:13
Alignment explanation
Indices: 4197524--4197554 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
4197514 ATATATTTAT
4197524 TTTTTAAAATGAA
1 TTTTTAAAATGAA
4197537 TTTTTAAAA-GAA
1 TTTTTAAAATGAA
4197549 TTTTTA
1 TTTTTA
4197555 TACTATCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (13 bp):
TTTTTAAAATGAA
Found at i:4205398 original size:3 final size:3
Alignment explanation
Indices: 4205392--4205433 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
4205382 CATCATCATC
4205392 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4205434 TCTTTCTTTC
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):
ATT
Found at i:4206531 original size:17 final size:17
Alignment explanation
Indices: 4206509--4206543 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4206499 TTGTTGTTTT
4206509 ATAATAATAAT-TAATAA
1 ATAATAA-AATATAATAA
4206526 ATAATAAAATATAATAA
1 ATAATAAAATATAATAA
4206543 A
1 A
4206544 AGTTTTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATAAAATATAATAA
Found at i:4206621 original size:21 final size:21
Alignment explanation
Indices: 4206596--4206637 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4206586 AAATTTTTTT
*
4206596 AATTAAATAAAAA-TAATAAAA
1 AATT-AATAAAAAGTAAGAAAA
4206617 AATTAATAAAAAGTAAGAAAA
1 AATTAATAAAAAGTAAGAAAA
4206638 GAAAAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (21 bp):
AATTAATAAAAAGTAAGAAAA
Found at i:4208213 original size:22 final size:21
Alignment explanation
Indices: 4208188--4208228 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4208178 TAAAACAAAA
4208188 CAAAACAAAACAAAAAAAATCT
1 CAAAACAAAA-AAAAAAAATCT
*
4208210 CAAAACTAAAAAAAAAAAT
1 CAAAACAAAAAAAAAAAAT
4208229 GTTTTCTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.10
Consensus pattern (21 bp):
CAAAACAAAAAAAAAAAATCT
Found at i:4208496 original size:7 final size:7
Alignment explanation
Indices: 4208486--4208511 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4208476 ATTTTTTTTA
4208486 AAAAATC
1 AAAAATC
4208493 AAAAATC
1 AAAAATC
4208500 AAAAATC
1 AAAAATC
4208507 AAAAA
1 AAAAA
4208512 ATAAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:4211548 original size:16 final size:16
Alignment explanation
Indices: 4211527--4211561 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4211517 CAGTGAAAGC
*
4211527 AAAAAAAATAAAGAAA
1 AAAAAAAAGAAAGAAA
*
4211543 AAAAAAAAGAGAGAAA
1 AAAAAAAAGAAAGAAA
4211559 AAA
1 AAA
4211562 TAGATGATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAAAGAAA
Found at i:4212814 original size:35 final size:34
Alignment explanation
Indices: 4212768--4212891 Score: 146
Period size: 35 Copynumber: 3.6 Consensus size: 34
4212758 TATTAGTATT
4212768 TTTTAA-AAAAGATATTTGCATTTCATGTACATCA
1 TTTTAAGAAAAGATATTTGCATTTCATGT-CATCA
*
4212802 TTTTAAGAAAAGATATTTGTATTTCATGTGCATCA
1 TTTTAAGAAAAGATATTTGCATTTCATGT-CATCA
* * *
4212837 TTTTAGGAAAAGATATTTGTATTTGCA--TCCTCA
1 TTTTAAGAAAAGATATTTGCATTT-CATGTCATCA
* *
4212870 TTTTAAGAGAAGACATTTGCAT
1 TTTTAAGAAAAGATATTTGCAT
4212892 CATAATGGTG
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
33 22 0.28
34 7 0.09
35 49 0.61
36 2 0.03
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (34 bp):
TTTTAAGAAAAGATATTTGCATTTCATGTCATCA
Found at i:4213308 original size:42 final size:42
Alignment explanation
Indices: 4213246--4213495 Score: 279
Period size: 42 Copynumber: 6.0 Consensus size: 42
4213236 AAGTCATTTG
*
4213246 CATTTTCTCGGTGGTGATATCCGAGTATTAAAATTTGAATTA
1 CATTTTCTCAGTGGTGATATCCGAGTATTAAAATTTGAATTA
* * * * ** *
4213288 CATCTTCTCAATGGTGATATCCAAGTGTCGAGATTTGAATTA
1 CATTTTCTCAGTGGTGATATCCGAGTATTAAAATTTGAATTA
* * ** *
4213330 CATTTTTTCAGTAGTGATATCAAAGTATTAAAATTTGAATTG
1 CATTTTCTCAGTGGTGATATCCGAGTATTAAAATTTGAATTA
* * * *
4213372 CATCTTCTCAGTGGTGATATCCGAGTGTCAAAGTTTGAATTA
1 CATTTTCTCAGTGGTGATATCCGAGTATTAAAATTTGAATTA
* * * * *
4213414 CATTTTTTCGGTGGTGATATCTGAGTATTAAGATTTGAATTG
1 CATTTTCTCAGTGGTGATATCCGAGTATTAAAATTTGAATTA
4213456 CATTTTCTC-GATGGTGATATCCGAGT-TTAAAATTTGAATT
1 CATTTTCTCAG-TGGTGATATCCGAGTATTAAAATTTGAATT
4213496 TGCATTTACA
Statistics
Matches: 168, Mismatches: 39, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
41 14 0.08
42 154 0.92
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (42 bp):
CATTTTCTCAGTGGTGATATCCGAGTATTAAAATTTGAATTA
Found at i:4213373 original size:126 final size:126
Alignment explanation
Indices: 4213241--4213502 Score: 321
Period size: 126 Copynumber: 2.1 Consensus size: 126
4213231 TAAAAAAGTC
* *
4213241 ATTTGCATTTTCTCGGTGGTGATATCCGAGTATTAAAATTTGAATTACATCTTCTCAATGGTGAT
1 ATTTGCATTTTCTCAGTGGTGATATCCGAGTATCAAAATTTGAATTACATCTTCTCAATGGTGAT
* * *
4213306 ATCCAAGTGTCGAGATTTGAATTACATTTTTTC-AGTAGTGATATCAAAGTATTAAAATTTGA
66 ATCCAAGTATCAAGATTTGAATTACATTTTCTCGA-TAGTGATATCAAAGT-TTAAAATTTGA
* * * * * **
4213368 A-TTGCATCTTCTCAGTGGTGATATCCGAGTGTCAAAGTTTGAATTACATTTTTTCGGTGGTGAT
1 ATTTGCATTTTCTCAGTGGTGATATCCGAGTATCAAAATTTGAATTACATCTTCTCAATGGTGAT
** * * * **
4213432 ATCTGAGTATTAAGATTTGAATTGCATTTTCTCGATGGTGATATCCGAGTTTAAAATTTGA
66 ATCCAAGTATCAAGATTTGAATTACATTTTCTCGATAGTGATATCAAAGTTTAAAATTTGA
4213493 ATTTGCATTT
1 ATTTGCATTT
4213503 ACATTTCCTC
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
125 12 0.11
126 99 0.88
127 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (126 bp):
ATTTGCATTTTCTCAGTGGTGATATCCGAGTATCAAAATTTGAATTACATCTTCTCAATGGTGAT
ATCCAAGTATCAAGATTTGAATTACATTTTCTCGATAGTGATATCAAAGTTTAAAATTTGA
Found at i:4213499 original size:42 final size:42
Alignment explanation
Indices: 4213243--4213571 Score: 277
Period size: 42 Copynumber: 7.7 Consensus size: 42
4213233 AAAAAGTCAT
*
4213243 TTGCATTTTCTCGGTGGTGATATCCGAGTATTAAAATTTGAA
1 TTGCATTTTCTCGATGGTGATATCCGAGTATTAAAATTTGAA
* * * * * ** *
4213285 TTACATCTTCTCAATGGTGATATCCAAGTGTCGAGATTTGAA
1 TTGCATTTTCTCGATGGTGATATCCGAGTATTAAAATTTGAA
* * * **
4213327 TTACATTTTTTC-AGTAGTGATATCAAAGTATTAAAATTTGAA
1 TTGCATTTTCTCGA-TGGTGATATCCGAGTATTAAAATTTGAA
* * * *
4213369 TTGCATCTTCTC-AGTGGTGATATCCGAGTGTCAAAGTTTGAA
1 TTGCATTTTCTCGA-TGGTGATATCCGAGTATTAAAATTTGAA
* * * * *
4213411 TTACATTTTTTCGGTGGTGATATCTGAGTATTAAGATTTGAA
1 TTGCATTTTCTCGATGGTGATATCCGAGTATTAAAATTTGAA
4213453 TTGCATTTTCTCGATGGTGATATCCGAGT-TTAAAATTTGAA
1 TTGCATTTTCTCGATGGTGATATCCGAGTATTAAAATTTGAA
* * * **
4213494 TTTGCATTTACATTTCCTCGGTGATGATATCTGAGTATTAAAGCTTGAA
1 -TTGCA--T---TTT-CTCGATGGTGATATCCGAGTATTAAAATTTGAA
* * *
4213543 TTGCATTTTTTCGATAGTGATATTCGAGT
1 TTGCATTTTCTCGATGGTGATATCCGAGT
4213572 TTCCTTCGGT
Statistics
Matches: 226, Mismatches: 51, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
41 12 0.05
42 174 0.77
43 3 0.01
44 1 0.00
46 1 0.00
47 3 0.01
48 22 0.10
49 10 0.04
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.41
Consensus pattern (42 bp):
TTGCATTTTCTCGATGGTGATATCCGAGTATTAAAATTTGAA
Found at i:4213502 original size:84 final size:84
Alignment explanation
Indices: 4213246--4213571 Score: 359
Period size: 84 Copynumber: 3.8 Consensus size: 84
4213236 AAGTCATTTG
* * * * *
4213246 CATTTTCTCGGTGGTGATATCCGAGTATTAAAATTTGAATTACATCTTCTCAATGGTGATATCCA
1 CATTTTTTCGGTGGTGATATCTGAGTATTAAAATTTGAATTGCATCTTCTCGATGGTGATATCCG
* *
4213311 AGTGTCGAGATTTGAATTA
66 AGTGTCAAAATTTGAATTA
* * **
4213330 CATTTTTTCAGTAGTGATATCAAAGTATTAAAATTTGAATTGCATCTTCTC-AGTGGTGATATCC
1 CATTTTTTCGGTGGTGATATCTGAGTATTAAAATTTGAATTGCATCTTCTCGA-TGGTGATATCC
*
4213394 GAGTGTCAAAGTTTGAATTA
65 GAGTGTCAAAATTTGAATTA
* *
4213414 CATTTTTTCGGTGGTGATATCTGAGTATTAAGATTTGAATTGCATTTTCTCGATGGTGATATCCG
1 CATTTTTTCGGTGGTGATATCTGAGTATTAAAATTTGAATTGCATCTTCTCGATGGTGATATCCG
* *
4213479 AGT-TTAAAATTTGAATTTG
66 AGTGTCAAAATTTGAA-TTA
* ** * * *
4213498 CATTTACATTTCCTCGGTGATGATATCTGAGTATTAAAGCTTGAATTGCATTTTTTCGATAGTGA
1 CA-TT---TTT--TCGGTGGTGATATCTGAGTATTAAAATTTGAATTGCATCTTCTCGATGGTGA
*
4213563 TATTCGAGT
60 TATCCGAGT
4213572 TTCCTTCGGT
Statistics
Matches: 207, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
83 11 0.05
84 136 0.66
85 3 0.01
88 3 0.01
90 54 0.26
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (84 bp):
CATTTTTTCGGTGGTGATATCTGAGTATTAAAATTTGAATTGCATCTTCTCGATGGTGATATCCG
AGTGTCAAAATTTGAATTA
Found at i:4213522 original size:48 final size:48
Alignment explanation
Indices: 4213456--4213550 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
4213446 ATTTGAATTG
* * *
4213456 CATTTTCTCGATGGTGATATCCGAGT-TTAAAATTTGAATTTGCATTTA
1 CATTTCCTCGATGATGATATCCGAGTATTAAAACTTGAA-TTGCATTTA
* * *
4213504 CATTTCCTCGGTGATGATATCTGAGTATTAAAGCTTGAATTGCATTT
1 CATTTCCTCGATGATGATATCCGAGTATTAAAACTTGAATTGCATTT
4213551 TTTCGATAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 30 0.75
49 10 0.25
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (48 bp):
CATTTCCTCGATGATGATATCCGAGTATTAAAACTTGAATTGCATTTA
Found at i:4213736 original size:147 final size:147
Alignment explanation
Indices: 4213453--4213770 Score: 415
Period size: 147 Copynumber: 2.2 Consensus size: 147
4213443 AAGATTTGAA
* * *
4213453 TTGCATTTTCTCGATGGTGATATCCGAGTTTAAAATTTGAATTTGCATTTACATTTCCTCGGTGA
1 TTGCATCTTCTAGATGGTGATATCCGAGTTTAAAATTTGAATTTGCATTTACATTTCCTCAGTGA
* * * **
4213518 TGATATCTGAGTATTAAAGCTTGAATTGCATTTTTTCGATAGTGATATTCGAGTTTCCTTCGGTG
66 TGATATCCGAGTATTAAAGCTTGAATTACATTTTTTCGATAGTGATATTCAAGTTTCCTTCAATG
**
4213583 GTGATATCCAAAATCAT
131 ACGATATCCAAAATCAT
* **
4213600 TTGCATCTTCTA-AGTGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGTATTTCCTCAGTG
1 TTGCATCTTCTAGA-TGGTGATATCCGAGTTTAAAATTTGAATTTGCATTTACATTTCCTCAGTG
* * *
4213664 GTGATATCCGAGTATTAAAGCTTGAATTATATTTTCTT-GATGGTGATATTCAAGTTTCCTTCAA
65 ATGATATCCGAGTATTAAAGCTTGAATTACATTTT-TTCGATAGTGATATTCAAGTTTCCTTCAA
* * *
4213728 TGACGATATTCGAAGTCAT
129 TGACGATATCCAAAATCAT
* *
4213747 TTGTATCTTCTCGATGGTGATATC
1 TTGCATCTTCTAGATGGTGATATC
4213771 TGAGATTATT
Statistics
Matches: 147, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
146 1 0.01
147 143 0.97
148 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (147 bp):
TTGCATCTTCTAGATGGTGATATCCGAGTTTAAAATTTGAATTTGCATTTACATTTCCTCAGTGA
TGATATCCGAGTATTAAAGCTTGAATTACATTTTTTCGATAGTGATATTCAAGTTTCCTTCAATG
ACGATATCCAAAATCAT
Found at i:4213810 original size:30 final size:30
Alignment explanation
Indices: 4213723--4213811 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
4213713 TCAAGTTTCC
** *
4213723 TTCAATGACGATATTCGAAGTCATTTGTATCT
1 TTCAATGGTGATATTCGAAGTTA-TT-TATCT
*
4213755 TCTCGATGGTGATA-TCTG-AGATTATTTATCT
1 T-TCAATGGTGATATTC-GAAG-TTATTTATCT
4213786 TTCAATGGTGATATTCGAAGTTATTT
1 TTCAATGGTGATATTCGAAGTTATTT
4213812 TTTTAATGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
30 18 0.38
31 10 0.21
32 7 0.15
33 12 0.26
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (30 bp):
TTCAATGGTGATATTCGAAGTTATTTATCT
Found at i:4214138 original size:20 final size:20
Alignment explanation
Indices: 4214113--4214159 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
4214103 GATATTTTAA
4214113 AATATTCATATTTAAAAAAT
1 AATATTCATATTTAAAAAAT
**
4214133 AATATTTTGTATTTAAAAAAT
1 AATA-TTCATATTTAAAAAAT
4214154 AATATT
1 AATATT
4214160 TTATTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
AATATTCATATTTAAAAAAT
Found at i:4214147 original size:21 final size:21
Alignment explanation
Indices: 4214121--4214161 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4214111 AAAATATTCA
4214121 TATTTAAAAAATAATATTTTG
1 TATTTAAAAAATAATATTTTG
4214142 TATTTAAAAAATAATATTTT
1 TATTTAAAAAATAATATTTT
4214162 ATTAATTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTTAAAAAATAATATTTTG
Found at i:4214405 original size:50 final size:50
Alignment explanation
Indices: 4214303--4214547 Score: 303
Period size: 48 Copynumber: 5.1 Consensus size: 50
4214293 ACCCTAGCTG
* * *
4214303 AGAGAAGCTTTTTCAAGATGAGA--TTTTAAAGTTGTTGAGCCTCTACTG
1 AGAGGAGCTTTTTCAAGATGAGATTTTTTAAAGTTGTTGAGCCTCTGCTT
* *
4214351 AGAGGAACTTTTTCAAGATGAGATTTTTTAAAGTTATTGAGCCTCTGCTT
1 AGAGGAGCTTTTTCAAGATGAGATTTTTTAAAGTTGTTGAGCCTCTGCTT
* *
4214401 AGAGGAGCTTTTTC---A--AGATTTTTTAAAGTTTTTGAGCCTCTGCTG
1 AGAGGAGCTTTTTCAAGATGAGATTTTTTAAAGTTGTTGAGCCTCTGCTT
* * *
4214446 AGAGGAGCTTTTTCAAGATGAGA--TTTTAAAGTTGTTAAACCTCTGTTT
1 AGAGGAGCTTTTTCAAGATGAGATTTTTTAAAGTTGTTGAGCCTCTGCTT
*
4214494 AGAGGAGCTTTTTTTAAGATGA-ATTTTTTTAAAGTTGTTGAGCCTCTGCTT
1 AGAGGAGC-TTTTTCAAGATGAGA-TTTTTTAAAGTTGTTGAGCCTCTGCTT
4214545 AGA
1 AGA
4214548 AGAACCTTTT
Statistics
Matches: 169, Mismatches: 17, Indels: 19
0.82 0.08 0.09
Matches are distributed among these distances:
45 42 0.25
47 1 0.01
48 51 0.30
49 12 0.07
50 38 0.22
51 25 0.15
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (50 bp):
AGAGGAGCTTTTTCAAGATGAGATTTTTTAAAGTTGTTGAGCCTCTGCTT
Found at i:4214508 original size:95 final size:98
Alignment explanation
Indices: 4214326--4214557 Score: 303
Period size: 95 Copynumber: 2.4 Consensus size: 98
4214316 CAAGATGAGA
* *
4214326 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAACTTTTTCAAGATGAGATTTTTTAAAGTTATTGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTTTTTCAAGATGAGA-TTTTTAAAGTTATTAA
* *
4214391 GCCTCTGCTTAGAGGAGCTTTTTCA-A-G-A-TT
65 ACCTCTGCTTAGAGGAGCTTTTTAAGATGAATTT
* * *
4214421 TTTTAAAGTTTTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGA-TTTTAAAGTTGTTAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTTTTTCAAGATGAGATTTTTAAAGTTATTAAA
*
4214485 CCTCTGTTTAGAGGAGCTTTTTTTAAGATGAATTT
66 CCTCTGCTTAGAGGAGC--TTTTTAAGATGAATTT
* * *
4214520 TTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAACCTTTT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTTTTT
4214558 AAATTTTTAA
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
93 29 0.25
95 51 0.43
96 1 0.01
97 1 0.01
98 1 0.01
99 35 0.30
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (98 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTTTTTCAAGATGAGATTTTTAAAGTTATTAAA
CCTCTGCTTAGAGGAGCTTTTTAAGATGAATTT
Found at i:4214601 original size:143 final size:142
Alignment explanation
Indices: 4214311--4214581 Score: 332
Period size: 144 Copynumber: 1.9 Consensus size: 142
4214301 TGAGAGAAGC
* *
4214311 TTTTTCAAGATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAACTTTTTCAAGATGAGATT
1 TTTTTCAAGATGAGATTTTAAAGTTGTTAAACCTCTACTGAGAGGAACTTTTTCAAGATGAGATT
* * * * * *
4214376 TTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATTTTTTAAAGTTTTTGAGCCTC
66 TTTTAAAGTTATTGAGCCTCTGCTTAGAAGAACCTTTTCAAGATTTTTAAAAGTTGTTGAACCTC
**
4214441 TGCTGAGAGGAGC
131 T-CTGAGAGGAAA
** * * *
4214454 TTTTTCAAGATGAGATTTTAAAGTTGTTAAACCTCTGTTTAGAGGAGCTTTTTTTAAGATGA-AT
1 TTTTTCAAGATGAGATTTTAAAGTTGTTAAACCTCTACTGAGAGGAAC-TTTTTCAAGATGAGA-
*
4214518 TTTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAACCTTTT-AA-ATTTTTAAAAATGTTGTTGAA
64 TTTTTTAAAGTTATTGAGCCTCTGCTTAGAAGAACCTTTTCAAGATTTTT-AAAA-GTTGTTGAA
4214581 C
127 C
4214582 TCCTTGAGCC
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
142 6 0.05
143 48 0.44
144 56 0.51
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (142 bp):
TTTTTCAAGATGAGATTTTAAAGTTGTTAAACCTCTACTGAGAGGAACTTTTTCAAGATGAGATT
TTTTAAAGTTATTGAGCCTCTGCTTAGAAGAACCTTTTCAAGATTTTTAAAAGTTGTTGAACCTC
TCTGAGAGGAAA
Found at i:4214779 original size:15 final size:18
Alignment explanation
Indices: 4214740--4214782 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 18
4214730 ATTATTATTA
4214740 TTTTTCCTTTCTTTCTTTC
1 TTTTTCC-TTCTTTCTTTC
4214759 TTTTTCCTTC-TT-TTT-
1 TTTTTCCTTCTTTCTTTC
4214774 TTTTTCCTT
1 TTTTTCCTT
4214783 ATCTAATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.38
16 3 0.12
17 2 0.08
18 3 0.12
19 7 0.29
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTCCTTCTTTCTTTC
Found at i:4219406 original size:29 final size:29
Alignment explanation
Indices: 4219364--4219432 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
4219354 CAGTAATAGT
* *
4219364 AATTATAATGAAATATTTAATGTAATATTTA
1 AATTATAA--AAATATTTAATATAAAATTTA
* *
4219395 AATTTTAAAAATTTTTAATATAAAATTTA
1 AATTATAAAAATATTTAATATAAAATTTA
4219424 AATTATAAA
1 AATTATAAA
4219433 TCTATTAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 26 0.79
31 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (29 bp):
AATTATAAAAATATTTAATATAAAATTTA
Found at i:4220358 original size:21 final size:22
Alignment explanation
Indices: 4220311--4220362 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4220301 ATAATATAAC
* *
4220311 TTAATTAAAATTTAATTTGATA
1 TTAATTAAAATATAATTTGAAA
* *
4220333 GTAATTAAAA-ATAATTTTAAA
1 TTAATTAAAATATAATTTGAAA
4220354 TTAATTAAA
1 TTAATTAAA
4220363 TTTTTATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
TTAATTAAAATATAATTTGAAA
Found at i:4232576 original size:19 final size:19
Alignment explanation
Indices: 4232552--4232611 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
4232542 ATTTATTATC
4232552 TATTTGTGTATATTAATGT
1 TATTTGTGTATATTAATGT
* * *
4232571 TTTTTGTATATATCAATGT
1 TATTTGTGTATATTAATGT
*
4232590 TATTTGTGTATATTAGTGT
1 TATTTGTGTATATTAATGT
4232609 TAT
1 TAT
4232612 CAATGTGATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
TATTTGTGTATATTAATGT
Found at i:4233409 original size:17 final size:17
Alignment explanation
Indices: 4233351--4233414 Score: 71
Period size: 16 Copynumber: 3.9 Consensus size: 17
4233341 CTTCATTTAC
* *
4233351 TTTTTATGCAATTT-AT
1 TTTTCATGCAATTTAAA
**
4233367 TTTTCATGCTTTTTAAA
1 TTTTCATGCAATTTAAA
4233384 -TTT-ATGCAATTTAAA
1 TTTTCATGCAATTTAAA
4233399 TTTTCATGCAATTTAA
1 TTTTCATGCAATTTAA
4233415 TTATTCGTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
15 10 0.26
16 17 0.44
17 12 0.31
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTTCATGCAATTTAAA
Found at i:4233414 original size:32 final size:31
Alignment explanation
Indices: 4233353--4233414 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
4233343 TCATTTACTT
* **
4233353 TTTATGCAATTTATTTTTCATGCTTTTTAAA
1 TTTATGCAATTTAATTTTCATGCAATTTAAA
4233384 TTTATGCAATTTAAATTTTCATGCAATTTAA
1 TTTATGCAATTT-AATTTTCATGCAATTTAA
4233415 TTATTCGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (31 bp):
TTTATGCAATTTAATTTTCATGCAATTTAAA
Found at i:4245548 original size:192 final size:189
Alignment explanation
Indices: 4245183--4245570 Score: 659
Period size: 192 Copynumber: 2.0 Consensus size: 189
4245173 AGAAGTGTGA
*
4245183 AAACAAACAAGAAAGCAATTGGATGAATAAGCAAAAAAGGGGGTTTAGGAGTCAAAGAGATATAT
1 AAACAAACAAGAAAGCAATTGGATGAATAAGCAAAAAAGGGGGTTTAGGACTCAAAGAGATATAT
4245248 GAACAAAAAAAAAAACAAAAATCTCACATTTGCAATTGAAGAAGCAGAAAGTGCCCCACCCATAG
66 GAACAAAAAAAAAAACAAAAATCTCACATTTGCAATTGAAGAAGCAGAAAGTGCCCCACCCATAG
*
4245313 TTTGTTGACTAACAGCAACCTTTTGGAACTCCATATGCAGCTCTGGAGCTTGAGAAAAC
131 TTTGTTGACTAACAGCAACCTTTTGGAACTCCATATACAGCTCTGGAGCTTGAGAAAAC
*
4245372 AAACAAACAAGAAAGCAATTGGATGAATAAGCAAGAAAGGGGGTTTAGGACTCAAAGAGATATAT
1 AAACAAACAAGAAAGCAATTGGATGAATAAGCAAAAAAGGGGGTTTAGGACTCAAAGAGATATAT
* * * *
4245437 GAACAAAAAAAATAATAATAAAAATCTCACATTTGTAATTGAATAAGCAGAAGGTGCCCCACCCA
66 GAAC-AAAAAAA-AA-AACAAAAATCTCACATTTGCAATTGAAGAAGCAGAAAGTGCCCCACCCA
* * *
4245502 TAGTTTGTTGACTAACAGCAGCTTTTTGGAACTTCATATACAGCTCTGGAGCTTGAGAAAAC
128 TAGTTTGTTGACTAACAGCAACCTTTTGGAACTCCATATACAGCTCTGGAGCTTGAGAAAAC
4245564 AAACAAA
1 AAACAAA
4245571 TTTGTTCACA
Statistics
Matches: 186, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
189 67 0.36
190 7 0.04
191 2 0.01
192 110 0.59
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (189 bp):
AAACAAACAAGAAAGCAATTGGATGAATAAGCAAAAAAGGGGGTTTAGGACTCAAAGAGATATAT
GAACAAAAAAAAAAACAAAAATCTCACATTTGCAATTGAAGAAGCAGAAAGTGCCCCACCCATAG
TTTGTTGACTAACAGCAACCTTTTGGAACTCCATATACAGCTCTGGAGCTTGAGAAAAC
Found at i:4259589 original size:29 final size:28
Alignment explanation
Indices: 4259557--4259627 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
4259547 AATAAGAGCA
4259557 TATTTGATACAAATAAAAGA-ATAAAAATT
1 TATTTGATA-AAATAAAA-ATATAAAAATT
**
4259586 TATTTGAATTTAATAAAAATATAAAAATT
1 TATTTG-ATAAAATAAAAATATAAAAATT
*
4259615 TATGTGATAAAAT
1 TATTTGATAAAAT
4259628 TTAGAAACTC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.17
29 27 0.77
30 2 0.06
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.37
Consensus pattern (28 bp):
TATTTGATAAAATAAAAATATAAAAATT
Found at i:4266438 original size:30 final size:30
Alignment explanation
Indices: 4266397--4266453 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
4266387 TTTTTTATTT
* * *
4266397 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
4266427 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
4266454 ATTAATTTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:4266731 original size:20 final size:21
Alignment explanation
Indices: 4266706--4266750 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
4266696 ATTAAATAGT
4266706 AATAGAAT-AAAATTTTT-AAA
1 AATAG-ATCAAAATTTTTCAAA
4266726 AATAGATCGAAAATTTTTCAAA
1 AATAGATC-AAAATTTTTCAAA
4266748 AAT
1 AAT
4266751 CTAAATTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 5 0.23
21 9 0.41
22 6 0.27
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (21 bp):
AATAGATCAAAATTTTTCAAA
Found at i:4269191 original size:39 final size:39
Alignment explanation
Indices: 4269110--4269191 Score: 89
Period size: 39 Copynumber: 2.1 Consensus size: 39
4269100 TTATGACATA
* * *
4269110 TAATATTTGTATAAAATATAATATAAATATATTAAGTAT
1 TAATATTTGTATAAAATAAAATATAAATATATCAAATAT
4269149 TAATATTT-TATATAATATAAATATATAAAT-TATCAAAT-T
1 TAATATTTGTATA-AA-ATAAA-ATATAAATATATCAAATAT
4269188 TAAT
1 TAAT
4269192 TGTATTGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
38 4 0.11
39 15 0.41
40 10 0.27
41 8 0.22
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (39 bp):
TAATATTTGTATAAAATAAAATATAAATATATCAAATAT
Found at i:4272659 original size:21 final size:21
Alignment explanation
Indices: 4272633--4272672 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4272623 AATTTCACCC
4272633 TTATAATA-CTCAATCTCATCG
1 TTATAATAGCT-AATCTCATCG
4272654 TTATAATAGCTAATCTCAT
1 TTATAATAGCTAATCTCAT
4272673 TATCATCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (21 bp):
TTATAATAGCTAATCTCATCG
Found at i:4274691 original size:18 final size:18
Alignment explanation
Indices: 4274668--4274710 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4274658 TTTCTTATTT
4274668 TTTATTACTT-ATTCTTAA
1 TTTATTACTTAATT-TTAA
* *
4274686 TTTATTAGTTAATTTTTA
1 TTTATTACTTAATTTTAA
4274704 TTTATTA
1 TTTATTA
4274711 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATTACTTAATTTTAA
Found at i:4276604 original size:15 final size:15
Alignment explanation
Indices: 4276586--4276656 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
4276576 TTTAAAAATT
4276586 CTCATCTTGAAAAAG
1 CTCATCTTGAAAAAG
* * *
4276601 CTCATCTCAGCAAAGG
1 CTCATCT-TGAAAAAG
* *
4276617 CTCAATAACTTTAAAAAT
1 CTC-AT--CTTGAAAAAG
*
4276635 CTCATCTTGAAAAAA
1 CTCATCTTGAAAAAG
4276650 CTCATCT
1 CTCATCT
4276657 CAGAAGATGC
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
15 22 0.52
16 8 0.19
17 4 0.10
18 6 0.14
19 2 0.05
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.28
Consensus pattern (15 bp):
CTCATCTTGAAAAAG
Found at i:4276630 original size:98 final size:99
Alignment explanation
Indices: 4276446--4276737 Score: 340
Period size: 98 Copynumber: 3.0 Consensus size: 99
4276436 TAAAATATGA
* * * * * *
4276446 AAAAAACTCCTCTCAACAA-AGGCTCAACAACTTAAAAAAAATT-TCATATTGAAAAAGCTCTTT
1 AAAAAACTCATCT-AAGAAGAGGCTCAACAACTT--TAAAAATTCTCATCTTGAAAAAGCTCATC
* * * *
4276509 TCAGCATAGACTCAACAATTTTAAAAATCTCATCTAG
63 TCAGCAAAGGCTCAATAACTTTAAAAATCTCATCTAG
* * *
4276546 -AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATCTCA
1 AAAAAACTCATCTAAGAAGAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATCTCA
*
4276610 GCAAAGGCTCAATAACTTTAAAAATCTCATCTTG
66 GCAAAGGCTCAATAACTTTAAAAATCTCATCTAG
* * * *
4276644 AAAAAACTCATCTCAGAAGATGCTCAACAACTTT-AAAACTCTCATCTTGAAAAAGCTCATCACA
1 AAAAAACTCATCTAAGAAGAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATCTCA
* * *
4276708 GTAGAGGTTCAATAACTTTAAAAATCTCAT
66 GCAAAGGCTCAATAACTTTAAAAATCTCAT
4276738 ATGTTCTCCA
Statistics
Matches: 167, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
97 7 0.04
98 107 0.64
99 53 0.32
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (99 bp):
AAAAAACTCATCTAAGAAGAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATCTCA
GCAAAGGCTCAATAACTTTAAAAATCTCATCTAG
Found at i:4276638 original size:49 final size:49
Alignment explanation
Indices: 4276446--4276737 Score: 309
Period size: 49 Copynumber: 5.9 Consensus size: 49
4276436 TAAAATATGA
* * * * * *
4276446 AAAAAACTCCTCTCAACAAAGGCTCAACAACTTAAAAAAAATTTCATATTG
1 AAAAAGCTCATCTCAGCAAAGGCTCAACAACTT--TAAAAATCTCATCTTG
* * * * * *
4276497 AAAAAGCTCTTTTCAGCATAGACTCAACAATTTTAAAAATCTCATCTAG
1 AAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * *
4276546 -AAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCTCATCTTG
1 AAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAAA-TCTCATCTTG
*
4276595 AAAAAGCTCATCTCAGCAAAGGCTCAATAACTTTAAAAATCTCATCTTG
1 AAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
4276644 AAAAAACTCATCTCAG-AAGATGCTCAACAACTTTAAAACTCTCATCTTG
1 AAAAAGCTCATCTCAGCAA-AGGCTCAACAACTTTAAAAATCTCATCTTG
* * * * *
4276693 AAAAAGCTCATCACAGTAGAGGTTCAATAACTTTAAAAATCTCAT
1 AAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAAATCTCAT
4276738 ATGTTCTCCA
Statistics
Matches: 202, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
48 33 0.16
49 109 0.54
50 34 0.17
51 26 0.13
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (49 bp):
AAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAAATCTCATCTTG
Found at i:4286615 original size:20 final size:19
Alignment explanation
Indices: 4286590--4286651 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
4286580 TTATTAATTT
4286590 TATAAATATTAAATATATAA
1 TATAAAT-TTAAATATATAA
*
4286610 TATAAATTTAATTATATAAA
1 TATAAATTTAAATATAT-AA
* *
4286630 TTTAAATTTAATATATTTAA
1 TATAAATTTAA-ATATATAA
4286650 TA
1 TA
4286652 ATAATTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 9 0.26
20 22 0.63
21 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAAATTTAAATATATAA
Found at i:4286628 original size:34 final size:31
Alignment explanation
Indices: 4286583--4286644 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 31
4286573 TTAAAATTTA
*
4286583 TTAATTTTATAAATATTAAATATATAATATAAAT
1 TTAATTATATAAAT-TTAAAT-T-TAATATAAAT
4286617 TTAATTATATAAATTTAAATTTAATATA
1 TTAATTATATAAATTTAAATTTAATATA
4286645 TTTAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 1 0.04
33 6 0.22
34 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TTAATTATATAAATTTAAATTTAATATAAAT
Found at i:4286656 original size:15 final size:16
Alignment explanation
Indices: 4286590--4286656 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 16
4286580 TTATTAATTT
*
4286590 TATAA-ATATTAAATA
1 TATAATATATTTAATA
4286605 TATAATATAAATTTAAT-
1 TATAATAT--ATTTAATA
*
4286622 TAT-ATAAATTTAA-A
1 TATAATATATTTAATA
*
4286636 TTTAATATATTTAATA
1 TATAATATATTTAATA
4286652 -ATAAT
1 TATAAT
4286657 TTTTTTCATT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
14 8 0.20
15 18 0.44
16 6 0.15
17 3 0.07
18 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAATATATTTAATA
Found at i:4286781 original size:18 final size:18
Alignment explanation
Indices: 4286755--4286791 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4286745 CATTATAATA
4286755 ATTAATTTTAATATCATT
1 ATTAATTTTAATATCATT
* *
4286773 ATTATTTTTAATCTCATT
1 ATTAATTTTAATATCATT
4286791 A
1 A
4286792 AAATCAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAATTTTAATATCATT
Found at i:4286901 original size:20 final size:21
Alignment explanation
Indices: 4286878--4286918 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4286868 AATCTTTTCT
*
4286878 AAAAAT-ATCTAAAATTTTAA
1 AAAAATGATCTAAAATCTTAA
*
4286898 AAAAATGATTTAAAATCTTAA
1 AAAAATGATCTAAAATCTTAA
4286919 TTTATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAAATGATCTAAAATCTTAA
Found at i:4290031 original size:29 final size:29
Alignment explanation
Indices: 4289990--4290067 Score: 72
Period size: 30 Copynumber: 2.7 Consensus size: 29
4289980 AACTTTACTT
*
4289990 AAATAAGAC-CTTATACTTTTTTTACACTC
1 AAATAAG-CTCTTATACTTTTTTTACACCC
* *
4290019 AAATAAGCTCTTAATA-TTTAATTTGCACCC
1 AAATAAGCTCTT-ATACTTT-TTTTACACCC
*
4290049 AAATAAGCTCATA-ACTTTT
1 AAATAAGCTCTTATACTTTT
4290068 AATTTGTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
28 2 0.05
29 17 0.43
30 21 0.52
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.38
Consensus pattern (29 bp):
AAATAAGCTCTTATACTTTTTTTACACCC
Found at i:4290114 original size:31 final size:30
Alignment explanation
Indices: 4290035--4290115 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 30
4290025 GCTCTTAATA
* * * *
4290035 TTTAATTTGCACCCAAATAAGCTCATAACT
1 TTTAATTTGTACCTAAATAAACCCATAACT
* *
4290065 TTTAATTTGTA-TTGAAATAAACCCTTGAACT
1 TTTAATTTGTACCT-AAATAAACCCAT-AACT
4290096 TTTAATTTGTACCTAAATAA
1 TTTAATTTGTACCTAAATAA
4290116 GACCTTAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
30 19 0.46
31 21 0.51
32 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTAATTTGTACCTAAATAAACCCATAACT
Found at i:4308323 original size:18 final size:18
Alignment explanation
Indices: 4308300--4308353 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 18
4308290 AAATAACACA
4308300 TATGATAATTTATATATT
1 TATGATAATTTATATATT
*
4308318 TATGAT-ATTTA-AAATAT
1 TATGATAATTTATATAT-T
*
4308335 TAT--TAATTTATATTTT
1 TATGATAATTTATATATT
4308351 TAT
1 TAT
4308354 ATCATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.03
16 12 0.40
17 11 0.37
18 6 0.20
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
TATGATAATTTATATATT
Found at i:4308440 original size:21 final size:21
Alignment explanation
Indices: 4308416--4308470 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
4308406 TATAAAATAT
4308416 TTTTTTATTTTATTAAATTTA
1 TTTTTTATTTTATTAAATTTA
* * **
4308437 TTTTTAATTATATTATTTTTA
1 TTTTTTATTTTATTAAATTTA
* *
4308458 TATTTTAATTTAT
1 TTTTTTATTTTAT
4308471 ATTATTTTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTTATTTTATTAAATTTA
Found at i:4308461 original size:23 final size:23
Alignment explanation
Indices: 4308435--4308514 Score: 90
Period size: 23 Copynumber: 3.4 Consensus size: 23
4308425 TTATTAAATT
4308435 TATTTTTAATTATATTATTTTTA
1 TATTTTTAATTATATTATTTTTA
4308458 TA-TTTTAATTTATATTATTTTTA
1 TATTTTTAA-TTATATTATTTTTA
* *
4308481 TATTATATCATTATATTATATTTTA
1 TATT-TTTAATTATATTAT-TTTTA
* *
4308506 AATTATTAA
1 TATTTTTAA
4308515 ATCTAAAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
22 6 0.13
23 18 0.38
24 12 0.26
25 11 0.23
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTTTTAATTATATTATTTTTA
Found at i:4308976 original size:28 final size:27
Alignment explanation
Indices: 4308944--4308998 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
4308934 TGATTGAAAA
4308944 AAATTATATAAAAAATTTAATA-TTAAAT
1 AAATTATAT-AAAAA-TTAATATTTAAAT
* *
4308972 AAATTTTATTAAAATTAATATTTAAAT
1 AAATTATATAAAAATTAATATTTAAAT
4308999 TTAATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.25
27 10 0.42
28 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
AAATTATATAAAAATTAATATTTAAAT
Found at i:4310334 original size:24 final size:24
Alignment explanation
Indices: 4310302--4310361 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
4310292 ATTTATTTTA
4310302 AAAAT-TAATAATTATTTAATAAT
1 AAAATATAATAATTATTTAATAAT
* * *
4310325 AAAATATAATCATAATTTATTAAT
1 AAAATATAATAATTATTTAATAAT
*
4310349 AATATATAA-AATT
1 AAAATATAATAATT
4310362 TATATACAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 7 0.23
24 23 0.77
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AAAATATAATAATTATTTAATAAT
Found at i:4311287 original size:12 final size:12
Alignment explanation
Indices: 4311270--4311309 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
4311260 TTCTATCAAT
4311270 TTTTTATTTAAA
1 TTTTTATTTAAA
*
4311282 TTTTTATTCAAA
1 TTTTTATTTAAA
* *
4311294 ATTTTATCTAAA
1 TTTTTATTTAAA
4311306 TTTT
1 TTTT
4311310 GTCCATCAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTTATTTAAA
Found at i:4311292 original size:24 final size:23
Alignment explanation
Indices: 4311245--4311309 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
4311235 ACATATTACT
*
4311245 AATTTTTATATTAAA-TTCTATCA
1 AATTTTTAT-TTAAATTTTTATCA
*
4311268 ATTTTTTATTTAAATTTTTATTCA
1 AATTTTTATTTAAATTTTTA-TCA
* *
4311292 AAATTTTATCTAAATTTT
1 AATTTTTATTTAAATTTT
4311310 GTCCATCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 5 0.14
23 12 0.34
24 18 0.51
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (23 bp):
AATTTTTATTTAAATTTTTATCA
Found at i:4315685 original size:19 final size:19
Alignment explanation
Indices: 4315644--4315686 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4315634 ATTTCATTTA
4315644 AATTTTTTAGTAATACGAG
1 AATTTTTTAGTAATACGAG
* * *
4315663 -ATTTTTTATTAATATGTG
1 AATTTTTTAGTAATACGAG
4315681 AATTTT
1 AATTTT
4315687 ATTTCAACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (19 bp):
AATTTTTTAGTAATACGAG
Found at i:4317619 original size:12 final size:12
Alignment explanation
Indices: 4317592--4317633 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
4317582 TCGATCGAAT
*
4317592 TTTAAATCTCAAA
1 TTTAAA-CTTAAA
4317605 TTTCAAA-TTAAA
1 TTT-AAACTTAAA
4317617 TTTAAACTTAAA
1 TTTAAACTTAAA
4317629 TTTAA
1 TTTAA
4317634 TATTACATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 3 0.12
12 17 0.65
13 3 0.12
14 3 0.12
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (12 bp):
TTTAAACTTAAA
Found at i:4318125 original size:27 final size:29
Alignment explanation
Indices: 4318095--4318181 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
4318085 TTTTTAATAC
4318095 TATATTA-ATTAACAAA-TTTAT-AATTTA
1 TATATTACATTAA-AAATTTTATAAATTTA
*
4318122 TATATTACATTAAAAATTTTTTAAATTTA
1 TATATTACATTAAAAATTTTATAAATTTA
* * *
4318151 AATATTATATTAAAATTTTTATTATAATTTA
1 TATATTACATTAAAAATTTTA-TA-AATTTA
4318182 AAATATTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 10 0.20
28 9 0.18
29 23 0.46
30 2 0.04
31 6 0.12
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TATATTACATTAAAAATTTTATAAATTTA
Found at i:4318155 original size:29 final size:30
Alignment explanation
Indices: 4318111--4318188 Score: 104
Period size: 29 Copynumber: 2.6 Consensus size: 30
4318101 AATTAACAAA
*
4318111 TTTATAATTTATATATTACATTAAAAATTT
1 TTTATAATTTAAATATTACATTAAAAATTT
* *
4318141 TTTA-AATTTAAATATTATATTAAAATTTT
1 TTTATAATTTAAATATTACATTAAAAATTT
4318170 TATTATAATTTAAAATATT
1 T-TTATAATTT-AAATATT
4318189 TATAACATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 23 0.55
30 7 0.17
31 5 0.12
32 7 0.17
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (30 bp):
TTTATAATTTAAATATTACATTAAAAATTT
Found at i:4319089 original size:6 final size:6
Alignment explanation
Indices: 4319078--4319107 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4319068 GATACAGTAT
*
4319078 TTTTCA TTTTCA TTTTCA TTTTCG TTTTCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
4319108 AAATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.13, C:0.17, G:0.03, T:0.67
Consensus pattern (6 bp):
TTTTCA
Found at i:4319291 original size:24 final size:24
Alignment explanation
Indices: 4319275--4319321 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4319265 ATATTTAGAT
4319275 AATTTTTT-ATAAATATATGTTAA
1 AATTTTTTAATAAATATATGTTAA
* *
4319298 AATTTTTTAATAAAAATATATTAA
1 AATTTTTTAATAAATATATGTTAA
4319322 TTTTAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTTTTTAATAAATATATGTTAA
Found at i:4319291 original size:26 final size:25
Alignment explanation
Indices: 4319249--4319319 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 25
4319239 ATTTTTTAAT
4319249 TTTTTTAA-AAATTTATATATTTAGATAA
1 TTTTTTAATAAA--TATATATTTA-A-AA
*
4319277 TTTTTT-ATAAATATAT-GTTAAAA
1 TTTTTTAATAAATATATATTTAAAA
*
4319300 TTTTTTAATAAAAATATATT
1 TTTTTTAATAAATATATATT
4319320 AATTTTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 8 0.22
24 10 0.27
25 4 0.11
26 5 0.14
27 1 0.03
28 9 0.24
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (25 bp):
TTTTTTAATAAATATATATTTAAAA
Found at i:4319342 original size:20 final size:22
Alignment explanation
Indices: 4319319--4319364 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
4319309 AAAAATATAT
4319319 TAAT-TTTA-ATTACTTTAA-AA
1 TAATATTTATATTA-TTTAATAA
4319339 TAATAATTTATATTATTTAATAA
1 TAAT-ATTTATATTATTTAATAA
4319362 TAA
1 TAA
4319365 AATCATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.18
22 9 0.41
23 9 0.41
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATATTTATATTATTTAATAA
Found at i:4320498 original size:20 final size:20
Alignment explanation
Indices: 4320457--4320498 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
4320447 AACCAATCAA
* *
4320457 AACAACACATTAATAAAGTC
1 AACAACACATAAACAAAGTC
4320477 AACAACCACATAAACAAA-TC
1 AACAA-CACATAAACAAAGTC
4320497 AA
1 AA
4320499 TTATCACATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.60, C:0.24, G:0.02, T:0.14
Consensus pattern (20 bp):
AACAACACATAAACAAAGTC
Found at i:4324491 original size:2 final size:2
Alignment explanation
Indices: 4324484--4324514 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4324474 AAAATAATGC
4324484 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4324515 GTGAATGTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4324646 original size:44 final size:44
Alignment explanation
Indices: 4324590--4324680 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
4324580 TACTGGTACG
*
4324590 TACCAGTACCAGAAAAAAGGTATGTCCACCGGTAAGGTACTGAC
1 TACCAGTACCAGAAAAAAGATATGTCCACCGGTAAGGTACTGAC
* *
4324634 TACCAGTGCCAGAAAAAAGATATGTCCACTGGTAAGGTACTGAC
1 TACCAGTACCAGAAAAAAGATATGTCCACCGGTAAGGTACTGAC
4324678 TAC
1 TAC
4324681 TTTGCTCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (44 bp):
TACCAGTACCAGAAAAAAGATATGTCCACCGGTAAGGTACTGAC
Found at i:4333019 original size:19 final size:20
Alignment explanation
Indices: 4332976--4333020 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
4332966 TACTAATTTT
4332976 TACTT-AAAAAACTACCAAC
1 TACTTAAAAAAACTACCAAC
* *
4332995 TTCTTAAAAAAACTACCCA-
1 TACTTAAAAAAACTACCAAC
4333014 TACTTAA
1 TACTTAA
4333021 CTTCTTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (20 bp):
TACTTAAAAAAACTACCAAC
Found at i:4335335 original size:2 final size:2
Alignment explanation
Indices: 4335328--4335367 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4335318 TTGTTTCTTT
4335328 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
4335368 AATGAAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4335800 original size:68 final size:68
Alignment explanation
Indices: 4335691--4335830 Score: 199
Period size: 68 Copynumber: 2.1 Consensus size: 68
4335681 GTGTTGATAG
* * ** * *
4335691 AAAGAGATTGTTGACAGATTGAAAGTTGATCGCATCCATCAACTTCATGTACTCAAACATCGATA
1 AAAGAGATTATTAACAGATCAAAAGTTGATCGCATCCATCAACTTCATATACTCAAACACCGATA
4335756 TTA
66 TTA
* * *
4335759 AAAGAGATTATTAACAGATCAAAAGTTTATCGCATCCATCAACTTCATATATTCGAACACCGATA
1 AAAGAGATTATTAACAGATCAAAAGTTGATCGCATCCATCAACTTCATATACTCAAACACCGATA
4335824 TTA
66 TTA
4335827 AAAG
1 AAAG
4335831 TTTGACTTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (68 bp):
AAAGAGATTATTAACAGATCAAAAGTTGATCGCATCCATCAACTTCATATACTCAAACACCGATA
TTA
Found at i:4336154 original size:118 final size:118
Alignment explanation
Indices: 4335946--4336177 Score: 322
Period size: 118 Copynumber: 2.0 Consensus size: 118
4335936 AACTAAGGTG
* * * * *
4335946 ATAAGGTTGAATGCTTTGATCTGTTCCAAAAGCGCACTAGAGACTTAAGGTTGATTGGCCCAAAA
1 ATAAGGTTGAATGCTTTGATCTGTCCCAAAAGCACACTAAAAACTTAAGGTTGACTGGCCCAAAA
* *
4336011 GATGTGAGGTTGGCTGGCCCAAAAGAAGTGTTGATAGGATTTACTCACACAAT
66 GATGTGAGATTGGCTGGCCCAAAAGAAGTGTTGATAAGATTTACTCACACAAT
* * * *
4336064 ATAAGGTTGAATG-TTGTGGTCTGTCCCAAACGCATACTAAAAATTTAAGGTTGACTGGCCCAAA
1 ATAAGGTTGAATGCTT-TGATCTGTCCCAAAAGCACACTAAAAACTTAAGGTTGACTGGCCCAAA
* * *
4336128 AGATGTGAGATTGGTTGGCTCAAAAGAAGTGTTGATAAGATTTTCTCACA
65 AGATGTGAGATTGGCTGGCCCAAAAGAAGTGTTGATAAGATTTACTCACA
4336178 TGAGAGAGTT
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
117 2 0.02
118 97 0.98
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (118 bp):
ATAAGGTTGAATGCTTTGATCTGTCCCAAAAGCACACTAAAAACTTAAGGTTGACTGGCCCAAAA
GATGTGAGATTGGCTGGCCCAAAAGAAGTGTTGATAAGATTTACTCACACAAT
Found at i:4336306 original size:51 final size:51
Alignment explanation
Indices: 4336251--4336350 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
4336241 AAGAGATTTG
* * *
4336251 TTGGGATATGATTTACATGTGAATAAAGAATCTCACATCATTAAAAAATTA
1 TTGGGACATAATTTACATGTGAATAAAAAATCTCACATCATTAAAAAATTA
* *
4336302 TTGGGACATAATTTACATGTGAGTAAAAAATCTCATATCATTAAAAAAT
1 TTGGGACATAATTTACATGTGAATAAAAAATCTCACATCATTAAAAAAT
4336351 CTGAATGAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (51 bp):
TTGGGACATAATTTACATGTGAATAAAAAATCTCACATCATTAAAAAATTA
Found at i:4339468 original size:13 final size:12
Alignment explanation
Indices: 4339446--4339486 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
4339436 CTTATATATG
4339446 TTTTAGATAAATAT
1 TTTTA-ATAAA-AT
*
4339460 TTTTAATAAAAA
1 TTTTAATAAAAT
4339472 TTTTAATAAAAT
1 TTTTAATAAAAT
4339484 TTT
1 TTT
4339487 CACTGTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 15 0.60
13 5 0.20
14 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
TTTTAATAAAAT
Found at i:4339529 original size:20 final size:20
Alignment explanation
Indices: 4339492--4339531 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4339482 ATTTTCACTG
*
4339492 TTAAATATATAATCATAAAT
1 TTAAATATATAATAATAAAT
4339512 TTAAAT-TATAAATAATAAAT
1 TTAAATATAT-AATAATAAAT
4339532 AATTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAATATATAATAATAAAT
Found at i:4349107 original size:14 final size:14
Alignment explanation
Indices: 4349086--4349127 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
4349076 TTATATATAT
4349086 AATATTAT-TTTTA
1 AATATTATATTTTA
4349099 AATATTTATATTTTA
1 AATA-TTATATTTTA
* *
4349114 AAAATAATATTTTA
1 AATATTATATTTTA
4349128 TTAATTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 13 0.52
15 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATATTATATTTTA
Found at i:4350052 original size:13 final size:13
Alignment explanation
Indices: 4350034--4350062 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4350024 ATAAGTGTTA
4350034 TATTATTTATTTT
1 TATTATTTATTTT
4350047 TATTATTTATTTT
1 TATTATTTATTTT
4350060 TAT
1 TAT
4350063 ATTCATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTATTTATTTT
Found at i:4351079 original size:21 final size:21
Alignment explanation
Indices: 4351055--4351094 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4351045 AATAATAATT
4351055 AAATTAATAATT-ATAGTGATA
1 AAATTAA-AATTAATAGTGATA
4351076 AAATTAAAATTAATAGTGA
1 AAATTAAAATTAATAGTGA
4351095 AATATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (21 bp):
AAATTAAAATTAATAGTGATA
Found at i:4351271 original size:22 final size:22
Alignment explanation
Indices: 4351247--4351304 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4351237 TTTAAACATA
**
4351247 TTAAATTAATAA-AATTTAATTA
1 TTAAATTAA-AATAATAAAATTA
*
4351269 TTATATTAAAATAATAAAATTA
1 TTAAATTAAAATAATAAAATTA
*
4351291 TTTAATTAAAATAA
1 TTAAATTAAAATAA
4351305 AATGCACTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAATTAAAATAATAAAATTA
Found at i:4351305 original size:27 final size:27
Alignment explanation
Indices: 4351248--4351307 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
4351238 TTAAACATAT
* * *
4351248 TAAATTAATAAAATTTAATTATTATAT
1 TAAAATAATAAAATTTAATTATTAAAA
*
4351275 TAAAATAATAAAA-TTATTTAATTAAAA
1 TAAAATAATAAAATTTAATT-ATTAAAA
4351302 TAAAAT
1 TAAAAT
4351308 GCACTATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAAATAATAAAATTTAATTATTAAAA
Found at i:4353901 original size:36 final size:36
Alignment explanation
Indices: 4353855--4353933 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
4353845 GATCAAACTT
*
4353855 AATCAAGTGAGCTCAAATAACTTGATTTCGATAACG
1 AATCGAGTGAGCTCAAATAACTTGATTTCGATAACG
* * * * *
4353891 TATCGAGTGAGTTCGAGTAGCTTGATTTCGATAACG
1 AATCGAGTGAGCTCAAATAACTTGATTTCGATAACG
4353927 AATCGAG
1 AATCGAG
4353934 CTTGAACTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (36 bp):
AATCGAGTGAGCTCAAATAACTTGATTTCGATAACG
Found at i:4369279 original size:2 final size:2
Alignment explanation
Indices: 4369272--4369298 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4369262 AAATTAAAGT
4369272 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
4369299 TCATTCTTTA
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:4385138 original size:28 final size:29
Alignment explanation
Indices: 4385093--4385150 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
4385083 TAATTAGGTG
* * *
4385093 AAATATTTAATTTGATATTTAAATTTTAA
1 AAATATTTAATATAATATTTAAATTATAA
4385122 AAAT-TTTAATATAATATTTAAATTATAA
1 AAATATTTAATATAATATTTAAATTATAA
4385150 A
1 A
4385151 TTTATTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
AAATATTTAATATAATATTTAAATTATAA
Found at i:4385158 original size:28 final size:27
Alignment explanation
Indices: 4385093--4385163 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
4385083 TAATTAGGTG
* *
4385093 AAATATTTAATTTGATATTTAAATTTTAA
1 AAAT-TTTAA-TTAATATTTAAATTATAA
4385122 AAATTTTAATATAATATTTAAATTAT-A
1 AAATTTTAAT-TAATATTTAAATTATAA
*
4385149 AATTTATTAATTAAT
1 AAATT-TTAATTAAT
4385164 GTTATATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 10 0.27
28 23 0.62
29 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
AAATTTTAATTAATATTTAAATTATAA
Done.