Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 69 of 93
Found at i:9745379 original size:27 final size:27
Alignment explanation
Indices: 9745349--9745403 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
9745339 TTTATGTGAG
*
9745349 ATTAAAATAATGATAAATATAAAATTA
1 ATTAAAATAACGATAAATATAAAATTA
** *
9745376 ATTATTATAACGATAAATTTAAAATTA
1 ATTAAAATAACGATAAATATAAAATTA
9745403 A
1 A
9745404 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (27 bp):
ATTAAAATAACGATAAATATAAAATTA
Found at i:9745608 original size:32 final size:35
Alignment explanation
Indices: 9745539--9745609 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
9745529 AATGGTATTT
*
9745539 TTAATTTTTAATATAATAATAATTCTATTATTTTA
1 TTAATTTTTAATATAATAATAATTCTATTATTATA
9745574 TTAATTTATT-ATATAATAA-AATTC-ATT-TTATA
1 TTAATTT-TTAATATAATAATAATTCTATTATTATA
9745606 TTAA
1 TTAA
9745610 ATTTCAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
32 8 0.24
33 3 0.09
34 5 0.15
35 16 0.47
36 2 0.06
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (35 bp):
TTAATTTTTAATATAATAATAATTCTATTATTATA
Found at i:9746036 original size:2 final size:2
Alignment explanation
Indices: 9745985--9746017 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9745975 TGATCCTTAC
9745985 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 A
9746018 CAAATTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9746060 original size:20 final size:20
Alignment explanation
Indices: 9746027--9746080 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
9746017 ACAAATTTTA
*
9746027 TTATTATATATTAAATATATT
1 TTATAATAT-TTAAATATATT
*
9746048 TTATAATATTTAAATATTTT
1 TTATAATATTTAAATATATT
*
9746068 TTAAAAT-TTTAAA
1 TTATAATATTTAAA
9746081 ATAAATAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 6 0.20
20 16 0.53
21 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATAATATTTAAATATATT
Found at i:9752466 original size:24 final size:22
Alignment explanation
Indices: 9752439--9752484 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
9752429 ATAAAATAAG
9752439 AAAGAAGTATCACAACATATTAAA
1 AAAGAAGTATCACAA-AT-TTAAA
* *
9752463 AAAGAATTATGACAAATTTAAA
1 AAAGAAGTATCACAAATTTAAA
9752485 CGTAATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 2 0.10
24 13 0.65
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (22 bp):
AAAGAAGTATCACAAATTTAAA
Found at i:9752563 original size:231 final size:228
Alignment explanation
Indices: 9752326--9752978 Score: 593
Period size: 231 Copynumber: 2.8 Consensus size: 228
9752316 AAATTTTTAA
*
9752326 TTAATTATTATTTTGTAGATATCTAAGGAAAAATAGCTAAAATTAAAAAATAAATTGATAATGTA
1 TTAATTATTATTTTGTAGATATATAA-GAAAAATAGCTAAAATTAAAAAATAAATTGATAATGTA
* * *
9752391 AACAAGTAAATACAAACATAAAATTAATATAATTTAGCATAAAATAAGAAAGAAGTATCACAACA
65 AACAAGTAGATA-AAACGTAAAATTAATATTATTTAGCATAAAATAAGAAAGAAGT-TCACAACA
* * *
9752456 TATTAAAAAAGAATTATGACAAATTTAAACGTAATGAAAAGTAAAAATAATTGTAAGAATATATT
128 TACTAAAAAAGAATTATGACAAATTTAAACGTAATGAAAAGTAAAAACAATAGTAA-AATATATT
* * * *
9752521 ATTGTAATGCAAATAATTATGTTGATACCATAAATTTT
192 ATTATAATACAAATAATTATGATGATAACATAAA-TTT
* * * * *
9752559 AATTAATTATTGTTTCTGTAAATATATAAGAAAATTAGTTAAAAATTAAAAAATAATTTGATAAT
1 --TTAATTATTATTT-TGTAGATATATAAGAAAAATAGCT-AAAATTAAAAAATAAATTGATAAT
* * * * * * *
9752624 GTAAACAAGT-GAT-AAATGTACAACTAATATTATTT-GGAGTAAAATAGGTAAA-AAGTGTTAT
62 GTAAACAAGTAGATAAAACGTAAAATTAATATTATTTAGCA-TAAAATAAG-AAAGAAGT-TCAC
* * ** * * *
9752685 AACACACT-AAGAAGACCTATAACAAATTTAAACGTAATGCAAAGTAAAAACAACAGTAAAATAT
124 AACATACTAAAAAAGAATTATGACAAATTTAAACGTAATGAAAAGTAAAAACAATAGTAAAATAT
* * *
9752749 ATTATTATAATATAAATAATTATGATGGTAATATAAATTT
189 ATTATTATAATACAAATAATTATGATGATAACATAAATTT
* * * * * *
9752789 TTAACTAATTATTGTTTTTGTATATATAAAAGAAAATAGCTAGAAATTAAAAAATAAATTAAAAA
1 TTAA-TTATTATT-TTGTAG-ATATATAAGA-AAAATAGCTA-AAATTAAAAAATAAATTGATAA
* * * * *
9752854 TGTAAACAAGTGAGA-AGAAACGTAAAATTAGTATTATTTAACGTAAAATGAGTAAGAAGTTC-C
61 TGTAAACAAGT-AGATA-AAACGTAAAATTAATATTATTTAGCATAAAATAAGAAAGAAGTTCAC
* * * * * * *
9752917 ATAGCATGCTAAAAAA-AAGTTATGATAATTTTAAATGTAATAAAAAATAAAAACAATCGTAA
124 A-A-CATACTAAAAAAGAA-TTATGACAAATTTAAACGTAATGAAAAGTAAAAACAATAGTAA
9752979 TAAGATTTGT
Statistics
Matches: 328, Mismatches: 71, Indels: 38
0.75 0.16 0.09
Matches are distributed among these distances:
228 4 0.01
229 8 0.02
230 14 0.04
231 72 0.22
232 46 0.14
233 43 0.13
234 37 0.11
235 60 0.18
236 44 0.13
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.32
Consensus pattern (228 bp):
TTAATTATTATTTTGTAGATATATAAGAAAAATAGCTAAAATTAAAAAATAAATTGATAATGTAA
ACAAGTAGATAAAACGTAAAATTAATATTATTTAGCATAAAATAAGAAAGAAGTTCACAACATAC
TAAAAAAGAATTATGACAAATTTAAACGTAATGAAAAGTAAAAACAATAGTAAAATATATTATTA
TAATACAAATAATTATGATGATAACATAAATTT
Found at i:9752800 original size:232 final size:233
Alignment explanation
Indices: 9752315--9752866 Score: 623
Period size: 232 Copynumber: 2.4 Consensus size: 233
9752305 ATTAAAAAAG
* * *
9752315 TAAATTTTTAATTAATTATTATTTTGTAGATATCTAAGGAAAAATAGCT-AAAATTAAAAAATAA
1 TAAATTTTTAATTAATTATTGTTTTGTAAATATATAA-G-AAAATAGCTAAAAATTAAAAAATAA
* *
9752379 ATTGATAATGTAAACAAGTAAATACAAACATAAAATTAATATAATTTAGCATAAAATAAGAAAGA
64 ATTGATAATGTAAACAAGT-GATA-AAACATAAAACTAATATAATTTAGCATAAAATAAGAAAGA
* * * * * **
9752444 AGTATCACAACATATTAAAAAAGAATTATGACAAATTTAAACGTAATGAAAAGTAAAAATAATTG
127 AGTATCACAACACACTAAAAAAGAACTATAACAAATTTAAACGTAATGAAAAGTAAAAACAACAG
* * * *
9752509 TAAGAATATATTATTGTAATGCAAATAATTATGTTGATACCA
192 TAAGAATATATTATTATAATACAAATAATTATGATGATAACA
*
9752551 TAAA-TTTTAATTAATTATTGTTTCTGTAAATATATAAGAAAATTAGTTAAAAATTAAAAAATAA
1 TAAATTTTTAATTAATTATTGTTT-TGTAAATATATAAGAAAA-TAGCTAAAAATTAAAAAATAA
* ** * * * *
9752615 TTTGATAATGTAAACAAGTGAT-AAATGTACAACTAATATTATTT-GGAGTAAAATAGGTAAA-A
64 ATTGATAATGTAAACAAGTGATAAAACATAAAACTAATATAATTTAGCA-TAAAATAAG-AAAGA
* * * * * *
9752677 AGTGTTATAACACACT-AAGAAGACCTATAACAAATTTAAACGTAATGCAAAGTAAAAACAACAG
127 AGTATCACAACACACTAAAAAAGAACTATAACAAATTTAAACGTAATGAAAAGTAAAAACAACAG
* * *
9752741 TAA-AATATATTATTATAATATAAATAATTATGATGGTAATA
192 TAAGAATATATTATTATAATACAAATAATTATGATGATAACA
* * * *
9752782 TAAATTTTTAACTAATTATTGTTTTTGTATATATAAAAGAAAATAGCTAGAAATTAAAAAATAAA
1 TAAATTTTTAATTAATTATTG-TTTTGTAAATATATAAGAAAATAGCTAAAAATTAAAAAATAAA
* *
9752847 TTAAAAATGTAAACAAGTGA
65 TTGATAATGTAAACAAGTGA
9752867 GAAGAAACGT
Statistics
Matches: 268, Mismatches: 41, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
231 72 0.27
232 76 0.28
233 40 0.15
234 7 0.03
235 25 0.09
236 48 0.18
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (233 bp):
TAAATTTTTAATTAATTATTGTTTTGTAAATATATAAGAAAATAGCTAAAAATTAAAAAATAAAT
TGATAATGTAAACAAGTGATAAAACATAAAACTAATATAATTTAGCATAAAATAAGAAAGAAGTA
TCACAACACACTAAAAAAGAACTATAACAAATTTAAACGTAATGAAAAGTAAAAACAACAGTAAG
AATATATTATTATAATACAAATAATTATGATGATAACA
Found at i:9753249 original size:22 final size:21
Alignment explanation
Indices: 9753187--9753249 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
9753177 ATATAATATT
9753187 CATAAAATAT-TATTTTTTA-A
1 CATAAAATATAT-TTTTTTATA
* * *
9753207 TATAAATTATATTTTAATTATA
1 CATAAAATATATTTT-TTTATA
9753229 CATAAAATATAGTTTTTTTAT
1 CATAAAATATA-TTTTTTTAT
9753250 TAAGTTAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
20 11 0.33
21 4 0.12
22 14 0.42
23 4 0.12
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (21 bp):
CATAAAATATATTTTTTTATA
Found at i:9753269 original size:43 final size:42
Alignment explanation
Indices: 9753187--9753269 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
9753177 ATATAATATT
*
9753187 CATAAAATATTATTTTTTAATATAAATTATATTTTAATTATA
1 CATAAAATATTATTTTTTAATATAAATTATATTTAAATTATA
* *
9753229 CATAAAATA-TAGTTTTTTTAT-TAAGTTAATATCTTAAATTA
1 CATAAAATATTA-TTTTTTAATATAAATT-ATAT-TTAAATTA
9753270 AAGTATTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
41 7 0.20
42 21 0.60
43 7 0.20
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (42 bp):
CATAAAATATTATTTTTTAATATAAATTATATTTAAATTATA
Found at i:9753553 original size:19 final size:18
Alignment explanation
Indices: 9753529--9753564 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9753519 ATTATTATTT
9753529 TTAAATATATAAAAAATAG
1 TTAAATAT-TAAAAAATAG
*
9753548 TTAAATATTGAAAAATA
1 TTAAATATTAAAAAATA
9753565 AATTAGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
TTAAATATTAAAAAATAG
Found at i:9754192 original size:63 final size:63
Alignment explanation
Indices: 9754113--9754233 Score: 217
Period size: 63 Copynumber: 1.9 Consensus size: 63
9754103 TAACACATTT
9754113 AAAAAAATTATAAACAATTCTAAATATAATGAAAAGCAAAAACAATCATAAGAAGATATTAAA
1 AAAAAAATTATAAACAATTCTAAATATAATGAAAAGCAAAAACAATCATAAGAAGATATTAAA
*
9754176 AAAAAAAGTTAT-AACAATTCTAGATATAATGAAAAGCAAAAACAATCATAAGAAGATA
1 AAAAAAA-TTATAAACAATTCTAAATATAATGAAAAGCAAAAACAATCATAAGAAGATA
9754234 ATATCATAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
63 52 0.93
64 4 0.07
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.21
Consensus pattern (63 bp):
AAAAAAATTATAAACAATTCTAAATATAATGAAAAGCAAAAACAATCATAAGAAGATATTAAA
Found at i:9754960 original size:235 final size:239
Alignment explanation
Indices: 9754654--9755253 Score: 672
Period size: 235 Copynumber: 2.5 Consensus size: 239
9754644 TAAGCATAAG
* * * *
9754654 AAAATATTATTGTAACATAAATAATTAAATAGATAATGTAAACTTTTAATTAATTATTGTTTTTA
1 AAAAT-TTATTGTAACATAAATAATTAAGTAGACAATGTAAAATTTTAATTAATTATTGTTTTTG
* * **
9754719 TAAATATATATAA-AAAATAGTTAAAATTAAAAAATAAATAAGCAATGTAAACAAGTGAGAAAAA
65 TAAATATA-ATAACAAAATAGCTAAAATTAAAAAA-AAATAAGTAACATAAACAAGTGAGAAAAA
*
9754783 -CATAAAATTTATATCATTTGCCATAAAAT-AGATAAGAA-ATGTAGTAA-A-ACATTATA-AAA
128 TCATAAAATCTATATCATTTGCCATAAAATGA-ATAA-AATATGTAGTAACACACATTA-AGAAA
** * * ** *
9754842 AAAGCTATAATAATTTTAAATGTAAT-GAA-A-AGTAAGAACAATTGTAAA
190 AAAAATATAACAATTCTAAATGTAATGGAAGATAAAAAGAACAATAG-AAA
* * *
9754890 AAAATTTATTGTAATATAAATAATTAAGTAGACAAAGTAAAATTTTAATTAATCATTGTTTTTGT
1 AAAATTTATTGTAACATAAATAATTAAGTAGACAATGTAAAATTTTAATTAATTATTGTTTTTGT
* * *
9754955 AAATATAAGAACAAAATAACTAAAAGTTAAAAAAAAAATATGTAACATAAACAAGTGAGAAAAAT
66 AAATATAATAACAAAATAGCTAAAA-TT-AAAAAAAAATAAGTAACATAAACAAGTGAGAAAAAT
* *** * *
9755020 CGTAAAATCTATATCATTTGGTGTAAAATGAATAAAATGTGTTGTAACACACATTAAGAAAAAAA
129 CATAAAATCTATATCATTTGCCATAAAATGAATAAAATATGTAGTAACACACATTAAGAAAAAAA
* *
9755085 ATATAACAATTCTAAATGTAATGGAAGATAAAAATAACAATAGGAA
194 ATATAACAATTCTAAATGTAATGGAAGATAAAAAGAACAATAGAAA
* * * * *
9755131 GATA-TTATTTTAACGTAAATAATTAAGTA-ATCGATGTAAAATTTTAATTAATTATTG-TTTTG
1 AAAATTTATTGTAACATAAATAATTAAGTAGA-CAATGTAAAATTTTAATTAATTATTGTTTTTG
*
9755193 TAAATA-AATAAGAAAATAGCTAAAATTAAAAAAAAA-AACGTAACATAAACAAGTGAGAAAA
65 TAAATATAATAACAAAATAGCTAAAATTAAAAAAAAATAA-GTAACATAAACAAGTGAGAAAA
9755254 TTGTAAAATT
Statistics
Matches: 308, Mismatches: 42, Indels: 28
0.81 0.11 0.07
Matches are distributed among these distances:
234 3 0.01
235 72 0.23
236 65 0.21
237 43 0.14
238 19 0.06
239 43 0.14
240 48 0.16
241 5 0.02
242 10 0.03
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (239 bp):
AAAATTTATTGTAACATAAATAATTAAGTAGACAATGTAAAATTTTAATTAATTATTGTTTTTGT
AAATATAATAACAAAATAGCTAAAATTAAAAAAAAATAAGTAACATAAACAAGTGAGAAAAATCA
TAAAATCTATATCATTTGCCATAAAATGAATAAAATATGTAGTAACACACATTAAGAAAAAAAAT
ATAACAATTCTAAATGTAATGGAAGATAAAAAGAACAATAGAAA
Found at i:9755674 original size:127 final size:127
Alignment explanation
Indices: 9755537--9755793 Score: 496
Period size: 127 Copynumber: 2.0 Consensus size: 127
9755527 TGTCTTAACT
9755537 TAACAAAAATGAGCTATGATAATTCTAAATATAATGAAAAGTAAGAAAAATTGTAAGAAAATATC
1 TAACAAAAATGAGCTATGATAATTCTAAATATAATGAAAAGTAAGAAAAATTGTAAGAAAATATC
9755602 TTTATAAATTAAACAATTAAATTAATAGCGTAACATTACATTTTAATTAATTATTATTGTTA
66 TTTATAAATTAAACAATTAAATTAATAGCGTAACATTACATTTTAATTAATTATTATTGTTA
*
9755664 TAACAAAAATGAGCTATGATAATTCTAAATATAATGAAAAGTAAGAAAAATTGTAAGAAAATATT
1 TAACAAAAATGAGCTATGATAATTCTAAATATAATGAAAAGTAAGAAAAATTGTAAGAAAATATC
*
9755729 TTTATAACTTAAACAATTAAATTAATAGCGTAACATTACATTTTAATTAATTATTATTGTTA
66 TTTATAAATTAAACAATTAAATTAATAGCGTAACATTACATTTTAATTAATTATTATTGTTA
9755791 TAA
1 TAA
9755794 ATATATAAGA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (127 bp):
TAACAAAAATGAGCTATGATAATTCTAAATATAATGAAAAGTAAGAAAAATTGTAAGAAAATATC
TTTATAAATTAAACAATTAAATTAATAGCGTAACATTACATTTTAATTAATTATTATTGTTA
Found at i:9756549 original size:10 final size:10
Alignment explanation
Indices: 9756483--9756550 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 10
9756473 AAATAAATTT
9756483 ATTTTTTAT-
1 ATTTTTTATA
9756492 ATTTTTTAGTTA
1 ATTTTTTA--TA
9756504 ACTTATTTTACTA
1 A-TT-TTTTA-TA
*
9756517 ATTTTTTATT
1 ATTTTTTATA
9756527 A-TTTTTA-A
1 ATTTTTTATA
9756535 A-TTTTTATA
1 ATTTTTTATA
9756544 ATTTTTT
1 ATTTTTT
9756551 CAATTTAGCT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
8 7 0.14
9 16 0.33
10 7 0.14
11 6 0.12
12 3 0.06
13 5 0.10
14 5 0.10
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.69
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:9758386 original size:20 final size:19
Alignment explanation
Indices: 9758361--9758406 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
9758351 TATTTATTTA
9758361 TTTTTTTATAATAGTACTAT
1 TTTTTTTATAATAG-ACTAT
* * *
9758381 TTTTTTTGTATTAGATTAT
1 TTTTTTTATAATAGACTAT
9758400 TTTTTTT
1 TTTTTTT
9758407 CGTTGCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTTTATAATAGACTAT
Found at i:9760669 original size:13 final size:13
Alignment explanation
Indices: 9760651--9760702 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
9760641 ATAATTCGAT
9760651 AAAATATAATATA
1 AAAATATAATATA
*
9760664 AAAATAAAATATAA
1 AAAATATAATAT-A
*
9760678 AATAATATAATTTA
1 AA-AATATAATATA
*
9760692 AAATTATAATA
1 AAAATATAATA
9760703 ATTATATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 18 0.56
14 6 0.19
15 8 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATATAATATA
Found at i:9760714 original size:21 final size:21
Alignment explanation
Indices: 9760649--9760737 Score: 68
Period size: 19 Copynumber: 4.5 Consensus size: 21
9760639 TGATAATTCG
*
9760649 ATAAAA-TATAAT-ATA-AAA
1 ATAAAATTATAATAATATAAT
*
9760667 ATAAAATATAAAATAATATAAT
1 ATAAAAT-TATAATAATATAAT
*
9760689 TTAAAATTATAATAAT-T-AT
1 ATAAAATTATAATAATATAAT
*
9760708 ATATAAATT-TAATAAAATAA-
1 ATA-AAATTATAATAATATAAT
9760728 A-AAAATTATA
1 ATAAAATTATA
9760738 TTTTATATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
18 11 0.19
19 13 0.23
20 13 0.23
21 12 0.21
22 8 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAATTATAATAATATAAT
Found at i:9762107 original size:24 final size:25
Alignment explanation
Indices: 9762070--9762118 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
9762060 TTAAATCATA
*
9762070 TAAAATGGTATTGAAATACCTTAAG
1 TAAAATGGCATTGAAATACCTTAAG
*
9762095 TAAAA-GGCATTGAAATATCTTAAG
1 TAAAATGGCATTGAAATACCTTAAG
9762119 AGAGAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (25 bp):
TAAAATGGCATTGAAATACCTTAAG
Found at i:9764307 original size:23 final size:22
Alignment explanation
Indices: 9764281--9764332 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
9764271 ATCTAATAAT
*
9764281 TATATATATTGTAATATAATATA
1 TATATATATT-TAATATAAAATA
*
9764304 TATATGAT-TTTTATATAAAATA
1 TATAT-ATATTTAATATAAAATA
9764326 T-TATATA
1 TATATATA
9764333 AATATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 3 0.12
22 11 0.44
23 7 0.28
24 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
TATATATATTTAATATAAAATA
Found at i:9775765 original size:16 final size:16
Alignment explanation
Indices: 9775745--9775784 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
9775735 GAATGCTCAA
9775745 AAAATTGAAAAAAAAT
1 AAAATTGAAAAAAAAT
*
9775761 GAAATTTGAAAAAAAAT
1 -AAAATTGAAAAAAAAT
9775778 AAAATTG
1 AAAATTG
9775785 CTTTGAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (16 bp):
AAAATTGAAAAAAAAT
Found at i:9780182 original size:2 final size:2
Alignment explanation
Indices: 9780177--9780206 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9780167 AAAAAAAAAA
9780177 AT 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 AT
9780207 TGGTGAGCTG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9788452 original size:34 final size:34
Alignment explanation
Indices: 9788405--9788478 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
9788395 AGTAAAAAAT
* *
9788405 TACTTTT-AAAAATGTATTTTCAAATAATTACAA
1 TACTTTTCATAAATGCATTTTCAAATAATTACAA
* * *
9788438 TGCTTTTCATAAATGCATTTTCGAATAATTATAA
1 TACTTTTCATAAATGCATTTTCAAATAATTACAA
9788472 TACTTTT
1 TACTTTT
9788479 TGAAAATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 6 0.18
34 28 0.82
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (34 bp):
TACTTTTCATAAATGCATTTTCAAATAATTACAA
Found at i:9800387 original size:2 final size:2
Alignment explanation
Indices: 9800380--9800406 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9800370 GCCAAAGGGT
9800380 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
9800407 ACAAAGAGAT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9802835 original size:11 final size:11
Alignment explanation
Indices: 9802819--9802853 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
9802809 AGCAATATCT
9802819 AATAAATCTCA
1 AATAAATCTCA
*
9802830 AATAAATCTCT
1 AATAAATCTCA
*
9802841 AACAAATCTCA
1 AATAAATCTCA
9802852 AA
1 AA
9802854 CGAATATCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAAATCTCA
Found at i:9803729 original size:11 final size:11
Alignment explanation
Indices: 9803715--9803754 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
9803705 AATAATATTT
9803715 AATAAATCTCA
1 AATAAATCTCA
*
9803726 AATAAATCTCT
1 AATAAATCTCA
*
9803737 AACAAATCTCA
1 AATAAATCTCA
9803748 AATAAAT
1 AATAAAT
9803755 ATCTTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAATCTCA
Found at i:9804197 original size:38 final size:39
Alignment explanation
Indices: 9804155--9804229 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
9804145 TTAAAATTTC
9804155 TTTTAAAAAATTAGAAA-ATTTTT-TAAAATGATAAAACA
1 TTTTAAAAAATTAGAAATATTTTTAT-AAATGATAAAACA
* * *
9804193 TTTTAAAATATTTGAAATATTTTTATAAATTATAAAA
1 TTTTAAAAAATTAGAAATATTTTTATAAATGATAAAA
9804230 ATAAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 15 0.47
39 16 0.50
40 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (39 bp):
TTTTAAAAAATTAGAAATATTTTTATAAATGATAAAACA
Found at i:9804240 original size:16 final size:17
Alignment explanation
Indices: 9804219--9804256 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9804209 ATATTTTTAT
9804219 AAATTAT-AAAAATAAA
1 AAATTATGAAAAATAAA
* *
9804235 AAATTATGAAAACTTAA
1 AAATTATGAAAAATAAA
9804252 AAATT
1 AAATT
9804257 TCAAAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATTATGAAAAATAAA
Found at i:9804442 original size:18 final size:18
Alignment explanation
Indices: 9804421--9804479 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
9804411 AAAATTGAAA
9804421 ATTTAAAAAAATATAATT
1 ATTTAAAAAAATATAATT
* * *
9804439 ATTTTAAAAAATCTAA-A
1 ATTTAAAAAAATATAATT
9804456 ATTTACAAAAAA-A-AATT
1 ATTTA-AAAAAATATAATT
*
9804473 TTTTAAA
1 ATTTAAA
9804480 TTCTAAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
16 4 0.12
17 8 0.25
18 20 0.62
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTAAAAAAATATAATT
Found at i:9804457 original size:35 final size:34
Alignment explanation
Indices: 9804405--9804479 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 34
9804395 TAAATTTTAA
9804405 ATTTT-AAAAATTGAAAATTTA-AAAAAATATAATT
1 ATTTTAAAAAATTGAAAATTTACAAAAAA-A-AATT
9804439 ATTTTAAAAAATCT-AAAATTTACAAAAAAAAATT
1 ATTTTAAAAAAT-TGAAAATTTACAAAAAAAAATT
9804473 -TTTTAAA
1 ATTTTAAA
9804480 TTCTAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
33 7 0.18
34 9 0.24
35 15 0.39
36 7 0.18
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (34 bp):
ATTTTAAAAAATTGAAAATTTACAAAAAAAAATT
Found at i:9804950 original size:18 final size:17
Alignment explanation
Indices: 9804913--9804946 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9804903 TTCATATATT
**
9804913 TTTAAATTTTTTTTAAA
1 TTTAAATTTTTTAAAAA
9804930 TTTAAATTTTTTAAAAA
1 TTTAAATTTTTTAAAAA
9804947 ATTTTACTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAAATTTTTTAAAAA
Found at i:9805300 original size:34 final size:34
Alignment explanation
Indices: 9805259--9805335 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
9805249 TACACCCTTC
*
9805259 CATTT-AAAAATATTTGAATTTACAAATTTAAAAA
1 CATTTAAAAAAT-TTTGAATTTACAAATTCAAAAA
* * * *
9805293 CTTTTAAAAAATTTTGGATTTACATATTCAAAAT
1 CATTTAAAAAATTTTGAATTTACAAATTCAAAAA
9805327 CATTTAAAA
1 CATTTAAAA
9805336 CTTTTTAGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
34 30 0.83
35 6 0.17
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (34 bp):
CATTTAAAAAATTTTGAATTTACAAATTCAAAAA
Found at i:9811395 original size:2 final size:2
Alignment explanation
Indices: 9811388--9811431 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
9811378 CTGATATACT
9811388 TC TC TC TC T- TC TC TC TC TC TC TC TC TC T- 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
9811428 TC TC
1 TC TC
9811432 ATTATTAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9811412 original size:19 final size:19
Alignment explanation
Indices: 9811388--9811431 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
9811378 CTGATATACT
9811388 TCTCTCTCTTCTCTCTCTC
1 TCTCTCTCTTCTCTCTCTC
9811407 TCTCTCTCTTCTCTCTCTC
1 TCTCTCTCTTCTCTCTCTC
9811426 TCTCTC
1 TCTCTC
9811432 ATTATTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (19 bp):
TCTCTCTCTTCTCTCTCTC
Found at i:9823353 original size:105 final size:105
Alignment explanation
Indices: 9823171--9823378 Score: 344
Period size: 105 Copynumber: 2.0 Consensus size: 105
9823161 GGTGAGCTAT
* * *
9823171 TTTTGAAATACAGCAAGAAATAAAAGAAGAGTAAACAAAAATAACAGTAGGGCATGCAGCATCAA
1 TTTTGAAATACAGCAAGAAATAAAAGAAAAGTAAACAAAAATAACAGTAAGGCATGCAACATCAA
*
9823236 CAATGGAGAAAGTAAAGTATGGAAGAGGTCCAAGGCAAAA
66 CAATGAAGAAAGTAAAGTATGGAAGAGGTCCAAGGCAAAA
** * *
9823276 TTTTGAAATATGGCAAGAAATAAAAGAAAAGTAAACAAAAATGACGGTAAGGCATGCAACATCAA
1 TTTTGAAATACAGCAAGAAATAAAAGAAAAGTAAACAAAAATAACAGTAAGGCATGCAACATCAA
9823341 CAATGAAGAAAGTAAAGTATGGAAGAGGTCCAAGGCAA
66 CAATGAAGAAAGTAAAGTATGGAAGAGGTCCAAGGCAA
9823379 GATCTTGCAT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 95 1.00
ACGTcount: A:0.50, C:0.11, G:0.23, T:0.16
Consensus pattern (105 bp):
TTTTGAAATACAGCAAGAAATAAAAGAAAAGTAAACAAAAATAACAGTAAGGCATGCAACATCAA
CAATGAAGAAAGTAAAGTATGGAAGAGGTCCAAGGCAAAA
Found at i:9826550 original size:7 final size:6
Alignment explanation
Indices: 9826535--9826609 Score: 51
Period size: 6 Copynumber: 11.2 Consensus size: 6
9826525 TTTATTTTTT
*
9826535 ATAAAA ATAAATA ATAAAA AGTAAAA ATCAAA ATAAACAA ATATAAA ATTTAAAA
1 ATAAAA ATAAA-A ATAAAA A-TAAAA ATAAAA AT-AA-AA ATA-AAA A--TAAAA
* *
9826590 TTAAAA ATTAAAA ACAAAA A
1 ATAAAA A-TAAAA ATAAAA A
9826610 ACCTATCATA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
6 23 0.41
7 23 0.41
8 8 0.14
9 2 0.04
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:9826553 original size:13 final size:12
Alignment explanation
Indices: 9826535--9826609 Score: 51
Period size: 13 Copynumber: 5.6 Consensus size: 12
9826525 TTTATTTTTT
9826535 ATAAAAATAAATA
1 ATAAAAATAAA-A
9826548 ATAAAAAGTAAAA
1 ATAAAAA-TAAAA
*
9826561 ATCAAAATAAACAA
1 ATAAAAAT-AA-AA
9826575 ATATAAAATTTAAAA
1 ATA-AAAA--TAAAA
*
9826590 TTAAAAATTAAAA
1 ATAAAAA-TAAAA
*
9826603 ACAAAAA
1 ATAAAAA
9826610 ACCTATCATA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
12 1 0.02
13 27 0.53
14 12 0.24
15 8 0.16
16 2 0.04
17 1 0.02
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.21
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:9828479 original size:90 final size:94
Alignment explanation
Indices: 9828315--9828486 Score: 221
Period size: 90 Copynumber: 1.9 Consensus size: 94
9828305 TAATAATATT
* *
9828315 TAATATTAAAATATTGTATTAATATAAAATACTTAAAATAAAACTATTTATTATTCTTTATATTA
1 TAATATTAAAATATTGTATTAATATAAAATACTTAAAATAAAACTATTTATTATTCATAATATTA
*
9828380 ATATTTTAAAATATTTAAAATATTTTTAC
66 ATATGTTAAAATATTTAAAATATTTTTAC
* * *
9828409 TAATTTTAAAATATTGT-TT-TTAT-TAATA-TTAAAATAATAA-TATTTATTATT-ATAATATT
1 TAATATTAAAATATTGTATTAATATAAAATACTTAAAATAA-AACTATTTATTATTCATAATATT
*
9828468 TATACTGTTAAAATATTTA
65 AATA-TGTTAAAATATTTA
9828487 TATTTTATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
89 9 0.13
90 33 0.48
91 6 0.09
92 3 0.04
93 2 0.03
94 16 0.23
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (94 bp):
TAATATTAAAATATTGTATTAATATAAAATACTTAAAATAAAACTATTTATTATTCATAATATTA
ATATGTTAAAATATTTAAAATATTTTTAC
Found at i:9835427 original size:23 final size:25
Alignment explanation
Indices: 9835375--9835428 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
9835365 TTATAGATAA
*
9835375 ATTTGTTTGTGCTTCATATGCATAT
1 ATTTGATTGTGCTTCATATGCATAT
* *
9835400 GTTTGATTGTGCTT-AT-TTCATAT
1 ATTTGATTGTGCTTCATATGCATAT
9835423 ATTTGA
1 ATTTGA
9835429 CTAACATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 11 0.44
24 2 0.08
25 12 0.48
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (25 bp):
ATTTGATTGTGCTTCATATGCATAT
Found at i:9837907 original size:29 final size:29
Alignment explanation
Indices: 9837874--9837935 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
9837864 TTTCATCCTA
9837874 TTTTCTGATTTGA-TTTGATTTGATTTTAC
1 TTTTCT-ATTTGATTTTGATTTGATTTTAC
* * * *
9837903 TTTTCTATTTTATTTTTATTTTATTTTAT
1 TTTTCTATTTGATTTTGATTTGATTTTAC
9837932 TTTT
1 TTTT
9837936 AAATTTTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.16, C:0.05, G:0.06, T:0.73
Consensus pattern (29 bp):
TTTTCTATTTGATTTTGATTTGATTTTAC
Found at i:9837936 original size:11 final size:11
Alignment explanation
Indices: 9837896--9837934 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
9837886 ATTTGATTTG
9837896 ATTTTACTTTTCT
1 ATTTTA-TTTT-T
9837909 ATTTTATTTTT
1 ATTTTATTTTT
9837920 ATTTTA-TTTT
1 ATTTTATTTTT
9837930 ATTTT
1 ATTTT
9837935 TAAATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.35
11 7 0.27
12 4 0.15
13 6 0.23
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:9838879 original size:39 final size:39
Alignment explanation
Indices: 9838836--9838918 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 39
9838826 TATGACAAAA
9838836 AATATTATTATATTAT-TTAACATTAATTATTAAAATAAT
1 AATATTATTATA-TATGTTAACATTAATTATTAAAATAAT
** *
9838875 AATATTATTATATATGTTATTATTTATTATTAAAATAAT
1 AATATTATTATATATGTTAACATTAATTATTAAAATAAT
9838914 AATAT
1 AATAT
9838919 AATACTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 3 0.08
39 37 0.93
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (39 bp):
AATATTATTATATATGTTAACATTAATTATTAAAATAAT
Found at i:9838902 original size:36 final size:36
Alignment explanation
Indices: 9838857--9838934 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
9838847 ATTATTTAAC
* * *
9838857 ATTAATTATTA-AAATAATAATATTATTATA-TATGTT
1 ATTATTTATTATAAA-AATAATAATATAATACTAT-TT
*
9838893 ATTATTTATTATTAAAATAATAATATAATACTATTT
1 ATTATTTATTATAAAAATAATAATATAATACTATTT
9838929 ATTATT
1 ATTATT
9838935 GAAATTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 31 0.86
37 5 0.14
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (36 bp):
ATTATTTATTATAAAAATAATAATATAATACTATTT
Found at i:9839665 original size:59 final size:58
Alignment explanation
Indices: 9839571--9839736 Score: 197
Period size: 59 Copynumber: 2.8 Consensus size: 58
9839561 GATTTTGTAT
* * *
9839571 AATTAAAAACCATGTTTTCACTTTAAGAAATGTAGTTTCTGTACAATAATTTTTTTTTC
1 AATTAAAAACCAAGTTTTCACTTTAAAAAATGTAGTTT-TGTACAATAATTTTTTATTC
* * * * *
9839630 AATTAAATACCACGTTTTCATTTTAATAAACGTAGTTTTTGTACAATAATTTTTTATTC
1 AATTAAAAACCAAGTTTTCACTTTAAAAAATGTAG-TTTTGTACAATAATTTTTTATTC
* * * *
9839689 AATTAAAGATCAAGTTTTCAGTTTAAAAAATATAGTCTTTGTACAATA
1 AATTAAAAACCAAGTTTTCACTTTAAAAAATGTAGT-TTTGTACAATA
9839737 TTTAAAGATG
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
58 1 0.01
59 88 0.96
60 3 0.03
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (58 bp):
AATTAAAAACCAAGTTTTCACTTTAAAAAATGTAGTTTTGTACAATAATTTTTTATTC
Found at i:9840529 original size:17 final size:19
Alignment explanation
Indices: 9840509--9840549 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
9840499 AAATATATAC
9840509 AAAAATTAAAAA-TGAA-A
1 AAAAATTAAAAATTGAAGA
*
9840526 AAAATTTAAAAATTGAAGA
1 AAAAATTAAAAATTGAAGA
9840545 AAAAA
1 AAAAA
9840550 AATAGTACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 11 0.55
18 4 0.20
19 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (19 bp):
AAAAATTAAAAATTGAAGA
Found at i:9854882 original size:33 final size:33
Alignment explanation
Indices: 9854840--9854905 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
9854830 TTAGGCCTTA
9854840 AATTTACAGTTTCAAAACGACTTCTTAATTGTC
1 AATTTACAGTTTCAAAACGACTTCTTAATTGTC
*
9854873 AATTTACAGTTTCAAAATGACTTCTTAATTGTC
1 AATTTACAGTTTCAAAACGACTTCTTAATTGTC
9854906 TATCAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (33 bp):
AATTTACAGTTTCAAAACGACTTCTTAATTGTC
Found at i:9854934 original size:25 final size:26
Alignment explanation
Indices: 9854886--9854934 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9854876 TTACAGTTTC
*
9854886 AAAATGACTTCTTAATTGTCTATCAA
1 AAAATGACTTCTTAATTCTCTATCAA
*
9854912 AAAATGACTTCTTCATTCT-TATC
1 AAAATGACTTCTTAATTCTCTATC
9854935 TTGAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (26 bp):
AAAATGACTTCTTAATTCTCTATCAA
Found at i:9859069 original size:12 final size:13
Alignment explanation
Indices: 9859028--9859069 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
9859018 CGAATTCGAG
*
9859028 TCAAATTTCGAATC
1 TCAAATTTC-AAAC
9859042 TCAAATTTCAAA-
1 TCAAATTTCAAAC
9859054 TCAAATTT-AAAC
1 TCAAATTTCAAAC
9859066 TCAA
1 TCAA
9859070 GCTTAATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 3 0.12
12 12 0.46
13 2 0.08
14 9 0.35
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.33
Consensus pattern (13 bp):
TCAAATTTCAAAC
Found at i:9861684 original size:15 final size:15
Alignment explanation
Indices: 9861667--9861698 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9861657 CTTTAAAAAA
9861667 TTTTCTTTTCCTTTAT
1 TTTTC-TTTCCTTTAT
9861683 TTTTCTTTCCTTTAT
1 TTTTCTTTCCTTTAT
9861698 T
1 T
9861699 AATATTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCTTTCCTTTAT
Found at i:9862499 original size:17 final size:18
Alignment explanation
Indices: 9862465--9862500 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9862455 TGTTTCTTTA
9862465 TGAGGTTATGATTTTTTT
1 TGAGGTTATGATTTTTTT
9862483 TGAGGTTATGATTTTTTT
1 TGAGGTTATGATTTTTTT
9862501 CTTACTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (18 bp):
TGAGGTTATGATTTTTTT
Found at i:9866258 original size:12 final size:12
Alignment explanation
Indices: 9866240--9866281 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
9866230 TACTAATGAT
9866240 TAATAATAACAA
1 TAATAATAACAA
* **
9866252 CAATAATAATGA
1 TAATAATAACAA
9866264 TAATAATAACAA
1 TAATAATAACAA
9866276 TAATAA
1 TAATAA
9866282 AAATGATTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (12 bp):
TAATAATAACAA
Found at i:9866270 original size:24 final size:24
Alignment explanation
Indices: 9866233--9866288 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
9866223 CGTTTCATAC
9866233 TAATGATTAATAATAACAACAATAA
1 TAATGA-TAATAATAACAACAATAA
*
9866258 TAATGATAATAATAACAATAATAA
1 TAATGATAATAATAACAACAATAA
*
9866282 AAATGAT
1 TAATGAT
9866289 TTAAAAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (24 bp):
TAATGATAATAATAACAACAATAA
Found at i:9866669 original size:29 final size:30
Alignment explanation
Indices: 9866635--9867003 Score: 228
Period size: 29 Copynumber: 12.5 Consensus size: 30
9866625 GTTCACGTTT
9866635 TCTCTAAACCCTAAAATC-AAACCCTAAAA
1 TCTCTAAACCCTAAAATCTAAACCCTAAAA
* *
9866664 TTTCTAACCCCTAAAATC-AAGACCCT-AAA
1 TCTCTAAACCCTAAAATCTAA-ACCCTAAAA
* *
9866693 TCCTCTAAACCTTAAAA-CTAAACCCTTAAAC
1 T-CTCTAAACCCTAAAATCTAAACCC-TAAAA
* * * * *
9866724 CCTCCAAACCCTAAAATCAAAACCTTAAAT
1 TCTCTAAACCCTAAAATCTAAACCCTAAAA
*
9866754 TCTCT-AACCATTAAAA-CTAAACCCT-AAA
1 TCTCTAAACC-CTAAAATCTAAACCCTAAAA
* * *
9866782 TCCTCCAAACACTAAAA-CTAAACCCTAAAC
1 T-CTCTAAACCCTAAAATCTAAACCCTAAAA
* * * * *
9866812 CCTCCAAACCCTAAAATCAAAACCCTCAAC
1 TCTCTAAACCCTAAAATCTAAACCCTAAAA
* * * ** *
9866842 CCTTTAATCTATAAAATCAAAACCCT-AAA
1 TCTCTAAACCCTAAAATCTAAACCCTAAAA
* * * *
9866871 TCCTCCAAACCTTAAAA-CTAAACTCTAAAC
1 T-CTCTAAACCCTAAAATCTAAACCCTAAAA
* * * *
9866901 CCTCCAAACCTTAAAATCAAAACCCT-AAA
1 TCTCTAAACCCTAAAATCTAAACCCTAAAA
9866930 TCCTCT-AACTCCTAAAA-CTAAACCCT-AAA
1 T-CTCTAAAC-CCTAAAATCTAAACCCTAAAA
* *
9866959 TCCTCTAAACCCTAAAA-CTAAGCCCTAAAC
1 T-CTCTAAACCCTAAAATCTAAACCCTAAAA
* *
9866989 CCTATAAACCCTAAA
1 TCTCTAAACCCTAAA
9867004 CCTTCCAAAC
Statistics
Matches: 269, Mismatches: 53, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
28 3 0.01
29 143 0.53
30 115 0.43
31 8 0.03
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (30 bp):
TCTCTAAACCCTAAAATCTAAACCCTAAAA
Found at i:9866688 original size:15 final size:13
Alignment explanation
Indices: 9866640--9866692 Score: 61
Period size: 13 Copynumber: 3.8 Consensus size: 13
9866630 CGTTTTCTCT
9866640 AAACCCTAAAATC
1 AAACCCTAAAATC
9866653 AAACCCTAAAATTTC
1 AAACCCTAAAA--TC
*
9866668 TAACCCCTAAAATC
1 -AAACCCTAAAATC
9866682 AAGACCCTAAA
1 AA-ACCCTAAA
9866693 TCCTCTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 13 0.38
14 9 0.26
15 2 0.06
16 10 0.29
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.19
Consensus pattern (13 bp):
AAACCCTAAAATC
Found at i:9866796 original size:16 final size:15
Alignment explanation
Indices: 9866772--9867100 Score: 89
Period size: 16 Copynumber: 22.2 Consensus size: 15
9866762 CATTAAAACT
9866772 AAACCCTAAATCCTCC
1 AAACCCTAAA-CCTCC
* *
9866788 AAACACTAAAACT--
1 AAACCCTAAACCTCC
9866801 AAACCCTAAACCCTCC
1 AAACCCTAAA-CCTCC
* *
9866817 AAACCCTAAA-ATCA
1 AAACCCTAAACCTCC
* **
9866831 AAACCCTCAACCCTTT
1 AAACCCT-AAACCTCC
* ** * *
9866847 AATCTATAAA-ATCA
1 AAACCCTAAACCTCC
9866861 AAACCCTAAATCCTCC
1 AAACCCTAAA-CCTCC
* *
9866877 AAACCTTAAAACT--
1 AAACCCTAAACCTCC
*
9866890 AAACTCTAAACCCTCC
1 AAACCCTAAA-CCTCC
* * *
9866906 AAACCTTAAA-ATCA
1 AAACCCTAAACCTCC
9866920 AAACCCTAAATCCT-C
1 AAACCCTAAA-CCTCC
* *
9866935 TAACTCCTAAAACT--
1 AAAC-CCTAAACCTCC
*
9866949 AAACCCTAAATCCTCT
1 AAACCCTAAA-CCTCC
*
9866965 AAACCCTAAAACT--
1 AAACCCTAAACCTCC
* **
9866978 AAGCCCTAAACCCTAT
1 AAACCCTAAA-CCTCC
9866994 AAACCCTAAACCTTCC
1 AAACCCTAAACC-TCC
** *
9867010 AAA-CCTAAAAAT-T
1 AAACCCTAAACCTCC
**
9867023 AAACCCTAAAACCTTT
1 AAACCCT-AAACCTCC
*
9867039 AAACCCTAAAACT--
1 AAACCCTAAACCTCC
* *
9867052 AAACCCTGAACCCTTC
1 AAACCCT-AAACCTCC
* * **
9867068 AAACCATAAA-ATTA
1 AAACCCTAAACCTCC
9867082 AAACCCTAAATCCTCC
1 AAACCCTAAA-CCTCC
9867098 AAA
1 AAA
9867101 ACCCAAAATC
Statistics
Matches: 225, Mismatches: 60, Indels: 56
0.66 0.18 0.16
Matches are distributed among these distances:
13 42 0.19
14 58 0.26
15 34 0.15
16 91 0.40
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.20
Consensus pattern (15 bp):
AAACCCTAAACCTCC
Found at i:9866798 original size:89 final size:87
Alignment explanation
Indices: 9866640--9867003 Score: 448
Period size: 89 Copynumber: 4.1 Consensus size: 87
9866630 CGTTTTCTCT
* *
9866640 AAACCCTAAAATC-AAACCCTAAAAT-TTCTAACCCCTAAAA-TCAAGACCCTAAATCCTCTAAA
1 AAACCCTAAAATCAAAACCCT-AAATCCTCTAA-CCCTAAAACT-AA-ACCCTAAATCCTCCAAA
9866702 CCTTAAAACTAAACCCTTAAACCCTCC
62 CCTTAAAACTAAACCC-TAAACCCTCC
* * *
9866729 AAACCCTAAAATCAAAACCTTAAATTCTCTAACCATTAAAACTAAACCCTAAATCCTCCAAACAC
1 AAACCCTAAAATCAAAACCCTAAATCCTCTAACC-CTAAAACTAAACCCTAAATCCTCCAAAC-C
9866794 -TAAAACTAAACCCTAAACCCTCC
64 TTAAAACTAAACCCTAAACCCTCC
* * * ** *
9866817 AAACCCTAAAATCAAAACCCTCAACCCTTTAATCTATAAAATCAAAACCCTAAATCCTCCAAACC
1 AAACCCTAAAATCAAAACCCTAAATCCTCTAA-CCCTAAAA-CTAAACCCTAAATCCTCCAAACC
*
9866882 TTAAAACTAAACTCTAAACCCTCC
64 TTAAAACTAAACCCTAAACCCTCC
* * *
9866906 AAACCTTAAAATCAAAACCCTAAATCCTCTAACTCCTAAAACTAAACCCTAAATCCTCTAAACCC
1 AAACCCTAAAATCAAAACCCTAAATCCTCTAAC-CCTAAAACTAAACCCTAAATCCTCCAAACCT
* **
9866971 TAAAACTAAGCCCTAAACCCTAT
65 TAAAACTAAACCCTAAACCCTCC
9866994 AAACCCTAAA
1 AAACCCTAAA
9867004 CCTTCCAAAC
Statistics
Matches: 239, Mismatches: 27, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
88 93 0.39
89 126 0.53
90 19 0.08
91 1 0.00
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (87 bp):
AAACCCTAAAATCAAAACCCTAAATCCTCTAACCCTAAAACTAAACCCTAAATCCTCCAAACCTT
AAAACTAAACCCTAAACCCTCC
Found at i:9866835 original size:59 final size:59
Alignment explanation
Indices: 9866640--9867506 Score: 378
Period size: 59 Copynumber: 14.4 Consensus size: 59
9866630 CGTTTTCTCT
*** * * * *
9866640 AAACCCTAAAA-TCAAACCCTAAAATTTCTAACCCCTAAAATCAAGACCCTAAATCCTCT
1 AAACCCTAAAACT-AAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
* * *
9866699 AAACCTTAAAACTAAACCCTTAAACCCTCCAAACCCTAAAATCAAAACCTTAAATTCT-C
1 AAACCCTAAAACTAAACCC-TAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
* * * * * *
9866758 TAACCATTAAAACTAAACCCTAAATCCTCCAAACACTAAAA-CTAAACCCTAAACCCTCC
1 AAACC-CTAAAACTAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
* * ** * **
9866817 AAACCCTAAAATCAAAACCCTCAACCCTTTAATCTATAAAATCAAAACCCTAAATCCTCC
1 AAACCCTAAAA-CTAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
* * *
9866877 AAACCTTAAAACTAAACTCTAAACCCTCCAAACCTTAAAATCAAAACCCTAAATCCT-C
1 AAACCCTAAAACTAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
* * * * * * **
9866935 TAACTCCTAAAACTAAACCCTAAATCCTCTAAACCCTAAAA-CTAAGCCCTAAACCCTAT
1 AAAC-CCTAAAACTAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
* ** * ** *
9866994 AAACCCTAAACCTTCCAAA-CCTAAA-AAT-TAAACCCTAAAACCTTTAAACCCTAAA-ACT--
1 AAACCCTAAAAC-T--AAACCCTAAACCCTCCAAACCCTAAAA--TCAAAACCCTAAATCCTCC
** * * ** *
9867052 AAACCCTGAACCCTTCAAACCATAAA--ATTAAAACCCTAAATCCTCCAAAACCCAAAATCAAAA
1 AAACCCT-AAAAC-T-AAACCCTAAACCCTCCAAACCCTAAA--AT-CAAAACCC----T--AAA
*
9867115 TCTCAAACCTC
54 TC-C---TC-C
* * * * * * * *
9867126 AAATCCTAAAAGC-AAAGCCCTAAAACCTCTAAGCCTTAAAATCGAAACCCCAAA-CCT-T
1 AAACCCTAAAA-CTAAA-CCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
* * * * * * * **
9867184 AAACCGTAAAATCAAAACCCTAAACCTTCTAAATCTTAAATTTCAAAACCCTAAATCCTTA
1 AAACCCTAAAA-CTAAACCCTAAACCCTCCAAACCCTAAA-ATCAAAACCCTAAATCCTCC
* * * * * *
9867245 AAACTCTAAAATCTAAACCCCAAA-CCT-CAGACCTTTAAATCAAAAGCCCTAAAAT-CT-A
1 AAACCCTAAAA-CTAAACCCTAAACCCTCCAAACCCTAAAATCAAAA-CCCT-AAATCCTCC
* * * * *
9867303 AAAGCCCTAAAATCAAAACCCCAAA-CCT-CAAACCCTAAAATCGAAACCCTAAACCCTCT
1 AAA-CCCTAAAA-CTAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
* * ** * * ** *
9867362 AAATCTTAAATTTTTAAACCTTAAATCCTTAAAACCCTAAAATCAAAACCTTAAA-CCT-C
1 AAACCCTAAA--ACTAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
* * *
9867421 AAACCCTAAAATCAAAACCCTAAACCCTCCAAACCCTAAAATTAAAACCTTAAATCCTCC
1 AAACCCTAAAA-CTAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
** *
9867481 AAACTATAAATCTAAAACCCTAAACC
1 AAACCCTAAAACT-AAACCCTAAACC
9867507 TTTTAAACCT
Statistics
Matches: 622, Mismatches: 131, Indels: 109
0.72 0.15 0.13
Matches are distributed among these distances:
57 3 0.00
58 151 0.24
59 247 0.40
60 121 0.19
61 55 0.09
63 1 0.00
64 2 0.00
65 3 0.00
66 3 0.00
68 1 0.00
71 10 0.02
72 7 0.01
73 2 0.00
74 16 0.03
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (59 bp):
AAACCCTAAAACTAAACCCTAAACCCTCCAAACCCTAAAATCAAAACCCTAAATCCTCC
Found at i:9866924 original size:148 final size:145
Alignment explanation
Indices: 9866672--9867534 Score: 541
Period size: 148 Copynumber: 5.8 Consensus size: 145
9866662 AATTTCTAAC
* * * *
9866672 CCCTAAAATCAAGACCCTAAATCCTCTAAACCTTAAAA-CTAAACCCTTAAACCCTCCAAACCCT
1 CCCTAAAATCAAAACCCTAAACCCTTTAAA-CTTAAAATCAAAACCC-TAAA-CCTCCAAACCCT
* * ** * *
9866736 AAAATCAAAACCTTAAATTCT-CTAACCATTAAAA-CTAAACCCTAAATCCTCCAAACACTAAAA
63 AAAATCTAAACCCTAAACCCTCCAAACC-TTAAAATCAAAACCCTAAATCCTCCAAACACTAAAA
9866799 CTAAACCCTAAACCCTCCAAA
127 CTAAACCCTAAA-CCT-CAAA
* * *
9866820 CCCTAAAATCAAAACCCTCAACCCTTTAATCTATAAAATCAAAACCCTAAATCCTCCAAACCTTA
1 CCCTAAAATCAAAACCCTAAACCCTTTAAACT-TAAAATCAAAACCCTAAA-CCTCCAAACCCTA
* * *
9866885 AAA-CTAAACTCTAAACCCTCCAAACCTTAAAATCAAAACCCTAAATCCT-CTAACTCCTAAAAC
64 AAATCTAAACCCTAAACCCTCCAAACCTTAAAATCAAAACCCTAAATCCTCCAAAC-ACTAAAAC
9866948 TAAACCCTAAATCCTCTAAA
128 TAAACCCTAAA-CCTC-AAA
* * *
9866968 CCCTAAAACTAAGCCCTAAACCCTATAAACCCTAAACCTTCCAAACCTAAAAAT-TAAACCCTAA
1 CCCTAAAA-T-----CAAAACCC--TAAACCCT-----TT--AAA-CTTAAAATCAAAACCCT-A
** * * * *
9867032 AACCTTTAAACCCTAAAA-CTAAACCCTGAACCCTTCAAACCATAAAATTAAAACCCTAAATCCT
49 AACCTCCAAACCCTAAAATCTAAACCCTAAACCCTCCAAACCTTAAAATCAAAACCCTAAATCCT
* **
9867096 CCAAA-ACCCAAAA-TCAAAATCTCAAACCTCAAA
114 CCAAACA-CTAAAACT-AAACCCT-AAACCTCAAA
* * * * * * * * * *
9867129 TCCTAAAAGCAAAGCCCTAAAACCTCTAAGCCTTAAAATCGAAACCCCAAACCT-TAAACCGTAA
1 CCCTAAAATCAAAACCCTAAACCCTTTAA-ACTTAAAATCAAAACCCTAAACCTCCAAACCCTAA
* * * * * ** *
9867193 AATCAAAACCCTAAACCTTCTAAATCTTAAATTTCAAAACCCTAAATCCTTAAAACTCTAAAATC
65 AATCTAAACCCTAAACCCTCCAAACCTTAAA-ATCAAAACCCTAAATCCTCCAAACACTAAAA-C
* *
9867258 TAAACCCCAAACCTCAGA
128 TAAACCCTAAACCTCAAA
* * ** * * *
9867276 CCTTTAAATCAAAAGCCCTAAAATC-TAAAAGCCCTAAAATCAAAACCCCAAACCT-CAAACCCT
1 CCCTAAAATCAAAA-CCCTAAACCCTTTAAA--CTTAAAATCAAAACCCTAAACCTCCAAACCCT
* * * * ** * ** *
9867339 AAAATCGAAACCCTAAACCCTCTAAATCTTAAATTTTTAAACCTTAAATCCTTAAAACCCTAAAA
63 AAAATCTAAACCCTAAACCCTCCAAACCTTAAA-ATCAAAACCCTAAATCCTCCAAACACTAAAA
* *
9867404 TCAAAACCTTAAACCTCAAA
127 -CTAAACCCTAAACCTCAAA
** * * *
9867424 CCCTAAAATCAAAACCCTAAACCCTCCAAACCCTAAAATTAAAACCTTAAATCCTCCAAA--CTA
1 CCCTAAAATCAAAACCCTAAACCCTTTAAA-CTTAAAATCAAAACCCTAAA-CCTCCAAACCCTA
* ** *
9867487 TAAATCTAAAACCCTAAACCTTTTAAACCTCAAAA-CTAAAACCCTAAA
64 -AAATCT-AAACCCTAAACCCTCCAAACCTTAAAATC-AAAACCCTAAA
9867535 CACCAATCCT
Statistics
Matches: 567, Mismatches: 105, Indels: 86
0.75 0.14 0.11
Matches are distributed among these distances:
145 11 0.02
146 36 0.06
147 103 0.18
148 249 0.44
149 35 0.06
153 7 0.01
154 7 0.01
155 6 0.01
156 7 0.01
161 13 0.02
162 75 0.13
163 16 0.03
164 2 0.00
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (145 bp):
CCCTAAAATCAAAACCCTAAACCCTTTAAACTTAAAATCAAAACCCTAAACCTCCAAACCCTAAA
ATCTAAACCCTAAACCCTCCAAACCTTAAAATCAAAACCCTAAATCCTCCAAACACTAAAACTAA
ACCCTAAACCTCAAA
Found at i:9867037 original size:30 final size:29
Alignment explanation
Indices: 9866993--9867534 Score: 110
Period size: 30 Copynumber: 18.4 Consensus size: 29
9866983 CTAAACCCTA
9866993 TAAACCCT-AAACCTTCCAAACCTAAAAAT
1 TAAACCCTAAAACCTT-CAAACCTAAAAAT
* *
9867022 TAAACCCTAAAACCTTTAAACCCT-AAAAC
1 TAAACCCTAAAACCTTCAAA-CCTAAAAAT
* *
9867051 TAAACCCTGAACCCTTCAAACC-ATAAAAT
1 TAAACCCTAAAACCTTCAAACCTA-AAAAT
* * *
9867080 TAAAACCCTAAATCCTCCAAAACC-CAAAAT
1 T-AAACCCTAAAACCTTC-AAACCTAAAAAT
* ** * *
9867110 CAAAATCTCAAACC-TCAAATCCT-AAAAG
1 TAAACCCTAAAACCTTCAAA-CCTAAAAAT
* * *
9867138 CAAAGCCCTAAAACC-TCTAAGCCTTAAAAT
1 TAAA-CCCTAAAACCTTC-AAACCTAAAAAT
* *
9867168 CGAAACCC-CAAACCTT-AAACCGT-AAAAT
1 -TAAACCCTAAAACCTTCAAACC-TAAAAAT
* * * *
9867196 CAAAACCCT-AAACCTTCTAAATCTTAAATT
1 -TAAACCCTAAAACCTTC-AAACCTAAAAAT
* *
9867226 TCAAAACCCTAAATCCTTAAAACTCT-AAAAT
1 T--AAACCCTAAAACCTTCAAAC-CTAAAAAT
* * **
9867257 CTAAACCC-CAAACC-TCAGACCTTTAAAT
1 -TAAACCCTAAAACCTTCAAACCTAAAAAT
* * *
9867285 CAAAAGCCCTAAAATC-TAAAAGCCCT-AAAAT
1 -TAAA-CCCTAAAACCTTCAAA--CCTAAAAAT
* *
9867316 CAAAACCC-CAAACC-TCAAACCCT-AAAAT
1 -TAAACCCTAAAACCTTCAAA-CCTAAAAAT
* * * **
9867344 CGAAACCCT-AAACCCTCTAAATCTTAAATTTT
1 -TAAACCCTAAAACCTTC-AAA-CCTAAA-AAT
* * *
9867376 TAAACCTTAAATCCTTAAAACCCT-AAAAT
1 TAAACCCTAAAACCTTCAAA-CCTAAAAAT
* * *
9867405 CAAAACCTTAAACC-TCAAACCCT-AAAAT
1 TAAACCCTAAAACCTTCAAA-CCTAAAAAT
* * *
9867433 CAAAACCCTAAACCCTCCAAACCCT-AAAAT
1 -TAAACCCTAAAACCTTCAAA-CCTAAAAAT
* * * *
9867463 TAAAACCTTAAATCCTCCAAA-CTATAAAT
1 T-AAACCCTAAAACCTTCAAACCTAAAAAT
* *
9867492 CTAAAACCCT-AAACCTTTTAAACCTCAAAACT
1 -T-AAACCCTAAAACC-TTCAAACCT-AAAAAT
*
9867524 AAAACCCTAAA
1 TAAACCCTAAA
9867535 CACCAATCCT
Statistics
Matches: 387, Mismatches: 83, Indels: 84
0.70 0.15 0.15
Matches are distributed among these distances:
27 5 0.01
28 84 0.22
29 110 0.28
30 118 0.30
31 48 0.12
32 22 0.06
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (29 bp):
TAAACCCTAAAACCTTCAAACCTAAAAAT
Found at i:9867128 original size:58 final size:57
Alignment explanation
Indices: 9866994--9867559 Score: 235
Period size: 58 Copynumber: 9.6 Consensus size: 57
9866984 TAAACCCTAT
* * ** *
9866994 AAACCCTAAACCTTCCAAACCTAAAAAT-TAAACCCTAAAACCTTTAAACC-CTAAAA-CT
1 AAACCCCAAACC-T-CAAACCT-AAAATCAAAACCCTAAAACCTCAAAACCTC-AAAATCA
* * * *
9867052 AAACCCTGAACCCTTCAAACCATAAAATTAAAACCCTAAATCCTCCAAAACC-CAAAATCA
1 AAACCC-CAAACC-TCAAACC-TAAAATCAAAACCCTAAAACCT-CAAAACCTCAAAATCA
* * * * * * * *
9867112 AAATCTCAAACCTCAAATCCTAAAAGCAAAGCCCTAAAACCTCTAAGCCTTAAAATCG
1 AAACCCCAAACCTCAAA-CCTAAAATCAAAACCCTAAAACCTCAAAACCTCAAAATCA
* * * * *
9867170 AAACCCCAAACCTTAAACCGTAAAATCAAAACCCT-AAACCTTCTAAATCTTAAATTTCA
1 AAACCCCAAACCTCAAACC-TAAAATCAAAACCCTAAAACC-TCAAAACCTCAAA-ATCA
* * * * * **
9867229 AAACCCTAAATCCTTAAAACTCTAAAATCTAAACCC-CAAACCTC-AGACCTTTAAATCA
1 AAACCCCAAA-CC-TCAAAC-CTAAAATCAAAACCCTAAAACCTCAAAACCTCAAAATCA
* * * * * *
9867287 AAAGCCCTAAAATCTAAAAGCCCTAAAATCAAAACCC-CAAACCTCAAACCCT-AAAATCG
1 AAA-CCC-CAAACCTCAAA--CCTAAAATCAAAACCCTAAAACCTCAAAACCTCAAAATCA
* * * ** * * *
9867346 AAACCCTAAACCCTCTAAATCTTAAATTTTTAAACCTTAAATCCTTAAAACC-CTAAAATCA
1 AAACCCCAAA-CCTC-AAA-CCTAAA-ATCAAAACCCTAAAACCTCAAAACCTC-AAAATCA
** * * *
9867407 AAACCTTAAACCTCAAACCCTAAAATCAAAACCCTAAACCCTCCAAACC-CTAAAATTA
1 AAACCCCAAACCTCAAA-CCTAAAATCAAAACCCTAAAACCTCAAAACCTC-AAAATCA
** **
9867465 AAACCTTAAATCCTCCAAA-CTATAAATCTAAAACCCT-AAACCTTTTAAACCTCAAAA-CTA
1 AAACCCCAAA-CCT-CAAACCTA-AAATC-AAAACCCTAAAACC-TCAAAACCTCAAAATC-A
* * *
9867525 AAACCCTAAACAC-CAATCCTAAAATCGAAACCCTA
1 AAACCCCAAAC-CTCAAACCTAAAATCAAAACCCTA
9867560 CACCTTTTAA
Statistics
Matches: 399, Mismatches: 74, Indels: 70
0.73 0.14 0.13
Matches are distributed among these distances:
57 22 0.06
58 152 0.38
59 115 0.29
60 70 0.18
61 39 0.10
62 1 0.00
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (57 bp):
AAACCCCAAACCTCAAACCTAAAATCAAAACCCTAAAACCTCAAAACCTCAAAATCA
Found at i:9867319 original size:89 final size:86
Alignment explanation
Indices: 9867023--9867508 Score: 249
Period size: 89 Copynumber: 5.5 Consensus size: 86
9867013 CCTAAAAATT
* * * * * **
9867023 AAACCCTAAAACCTTTAAACCCTAAAA-CTAAACCCTGAACCCTTCAAAC-CATAAAATTAAAAC
1 AAACCCT-AAACATCTAAACCCTAAAATCAAAACCCT-AAACCTTAAAACTC-TAAAATCGAAAC
* *
9867086 CCTAAATCCTCCAAAACC-CAAAATCA
63 CCCAAA-CCT-C-AAACCGTAAAATCA
* * * * * **
9867112 AAA-TCTCAAACCTC-AAATCCTAAAAGCAAAGCCCTAAAACCTCTAAGCCT-TAAAATCGAAAC
1 AAACCCT-AAACATCTAAACCCTAAAATCAAAACCCT-AAACCT-TAAAACTCTAAAATCGAAAC
*
9867174 CCCAAACCTTAAACCGTAAAATCA
63 CCCAAACCTCAAACCGTAAAATCA
* * * * *
9867198 AAACCCTAAACCTTCTAAATCTTAAATTTCAAAACCCTAAATCCTTAAAACTCTAAAATCTAAAC
1 AAACCCTAAA-CATCTAAACCCTAAA-ATCAAAACCCTAAA-CCTTAAAACTCTAAAATCGAAAC
* * *
9867263 CCCAAACCTCAGACCTTTAAATCA
63 CCCAAACCTCAAACCGTAAAATCA
* * *
9867287 AAAGCCCTAAA-ATCTAAAAGCCCTAAAATCAAAACCCCAAACC-TCAAACCCTAAAATCGAAAC
1 AAA-CCCTAAACATCT-AAA-CCCTAAAATCAAAACCCTAAACCTTAAAACTCTAAAATCGAAAC
* * * * **
9867350 CCTAAACCCTCTAAATCTTAAATTTTT
63 CCCAAA-CCTC-AAACCGTAAA-ATCA
* * * * * *
9867377 AAACCTTAAATCCT-TAAAACCCTAAAATCAAAACCTTAAACC-TCAAACCCTAAAATCAAAACC
1 AAACCCTAAA-CATCT-AAACCCTAAAATCAAAACCCTAAACCTTAAAACTCTAAAATCGAAACC
* * *
9867440 CTAAACCCTCCAAACCCTAAAATTA
64 CCAAA-CCT-CAAACCGTAAAATCA
* * *
9867465 AAACCTTAAATCCTCCAAA--CTATAAATCTAAAACCCTAAACCTT
1 AAACCCTAAA-CATCTAAACCCTA-AAATC-AAAACCCTAAACCTT
9867509 TTAAACCTCA
Statistics
Matches: 319, Mismatches: 55, Indels: 46
0.76 0.13 0.11
Matches are distributed among these distances:
85 5 0.02
86 16 0.05
87 45 0.14
88 92 0.29
89 138 0.43
90 22 0.07
91 1 0.00
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.21
Consensus pattern (86 bp):
AAACCCTAAACATCTAAACCCTAAAATCAAAACCCTAAACCTTAAAACTCTAAAATCGAAACCCC
AAACCTCAAACCGTAAAATCA
Found at i:9867349 original size:14 final size:14
Alignment explanation
Indices: 9867281--9867474 Score: 97
Period size: 14 Copynumber: 13.1 Consensus size: 14
9867271 TCAGACCTTT
9867281 AAATCAAAAGCCCTA
1 AAATCAAAA-CCCTA
9867296 AAATCTAAAAGCCCTA
1 AAATC-AAAA-CCCTA
*
9867312 AAATCAAAACCCCA
1 AAATCAAAACCCTA
*
9867326 AACCTC-AAACCCTA
1 AA-ATCAAAACCCTA
*
9867340 AAATCGAAACCCTA
1 AAATCAAAACCCTA
* * * *
9867354 AACCCTCTAAATCTTA
1 AA--ATCAAAACCCTA
* ** *
9867370 AATTTTTAAA-CCTT
1 AA-ATCAAAACCCTA
9867384 AAATCCTTAAAACCCTA
1 AAAT-C--AAAACCCTA
*
9867401 AAATCAAAACCTTA
1 AAATCAAAACCCTA
*
9867415 AACCTC-AAACCCTA
1 AA-ATCAAAACCCTA
9867429 AAATCAAAACCCTA
1 AAATCAAAACCCTA
* *
9867443 AACCCTCCAAACCCTA
1 AA--ATCAAAACCCTA
* *
9867459 AAATTAAAACCTTA
1 AAATCAAAACCCTA
9867473 AA
1 AA
9867475 TCCTCCAAAC
Statistics
Matches: 139, Mismatches: 27, Indels: 27
0.72 0.14 0.14
Matches are distributed among these distances:
13 5 0.04
14 68 0.49
15 18 0.13
16 41 0.29
17 7 0.05
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (14 bp):
AAATCAAAACCCTA
Found at i:9867613 original size:21 final size:22
Alignment explanation
Indices: 9867571--9867624 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
9867561 ACCTTTTAAA
*
9867571 CCTTAAAAC-C-AATCTTAAAC
1 CCTTAAAACTCAAATCTAAAAC
9867591 CCTTAAAACTCAAATC-AAAAC
1 CCTTAAAACTCAAATCTAAAAC
*
9867612 CC-TAAAATTCAAA
1 CCTTAAAACTCAAA
9867625 ACCCCAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 19 0.63
21 7 0.23
22 4 0.13
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (22 bp):
CCTTAAAACTCAAATCTAAAAC
Found at i:9874231 original size:21 final size:21
Alignment explanation
Indices: 9874207--9874251 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9874197 ATGGGGCATC
*
9874207 ACAAAA-AAAAGAAAGATAAAA
1 ACAAAACAAAAGAAA-AAAAAA
*
9874228 ACAAAACAAAATAAAAAAAAA
1 ACAAAACAAAAGAAAAAAAAA
9874249 ACA
1 ACA
9874252 TCTTCAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.82, C:0.09, G:0.04, T:0.04
Consensus pattern (21 bp):
ACAAAACAAAAGAAAAAAAAA
Found at i:9874249 original size:16 final size:17
Alignment explanation
Indices: 9874209--9874251 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
9874199 GGGGCATCAC
*
9874209 AAAAAAAAGAAAGATAA
1 AAAAAAAACAAAGATAA
*
9874226 AAACAAAACAAA-ATAA
1 AAAAAAAACAAAGATAA
9874242 AAAAAAAACA
1 AAAAAAAACA
9874252 TCTTCAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.84, C:0.07, G:0.05, T:0.05
Consensus pattern (17 bp):
AAAAAAAACAAAGATAA
Found at i:9876626 original size:118 final size:118
Alignment explanation
Indices: 9876365--9876681 Score: 390
Period size: 118 Copynumber: 2.7 Consensus size: 118
9876355 AAGATTTTGT
* * * *
9876365 AATTTTCAAAACCTCT-GAGCAAAACATTTTAAAGTTTCATTACCTCTATTATGAGGAGCATTCA
1 AATTTTCAAGACCTCTAG-GCAAAACATTTTAAAGTTTCATTGCCTCTAATAGGAGGAGCATTCA
* * * * *
9876429 AAGATTTTTAAGATTTGTAATATATTCGAGCATAATCTTCAATACCTCATGGCAT
65 AAGATTTTGAA-ATTTGTAAAACATTCGAGCATAATCTTCAAAACCTCATGGCAC
* * *
9876484 AATTTTCAAGACCTCTAAGCAAAACATTTTAAAGTTTTATTGCCTCTTAGTAGGAGGAGCATTCA
1 AATTTTCAAGACCTCTAGGCAAAACATTTTAAAGTTTCATTGCCTC-TAATAGGAGGAGCATTCA
* * *
9876549 AAGACTTTGAAATTTGTAAAACCTTCG-GCATAATC-TCTAAAATCTC-TGGGCAC
65 AAGATTTTGAAATTTGTAAAACATTCGAGCATAATCTTC-AAAACCTCAT-GGCAC
* *
9876602 AATTTTCAAGACCTCTAGGCAAAACATTTTAAAGTTTCATTGCCTCTAATTGAAAGGAGCATTCA
1 AATTTTCAAGACCTCTAGGCAAAACATTTTAAAGTTTCATTGCCTCTAATAG-GAGGAGCATTCA
*
9876667 AAGATTTTGCAATTT
65 AAGATTTTGAAATTT
9876682 TCAAGACCTC
Statistics
Matches: 172, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
117 7 0.04
118 86 0.50
119 54 0.31
120 25 0.15
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (118 bp):
AATTTTCAAGACCTCTAGGCAAAACATTTTAAAGTTTCATTGCCTCTAATAGGAGGAGCATTCAA
AGATTTTGAAATTTGTAAAACATTCGAGCATAATCTTCAAAACCTCATGGCAC
Found at i:9876819 original size:76 final size:72
Alignment explanation
Indices: 9876609--9876843 Score: 276
Period size: 75 Copynumber: 3.1 Consensus size: 72
9876599 CACAATTTTC
* *
9876609 AAGACCTCTAGGCAAAACATTTTAAAGTTTCATTGCCTCTAATTGAAAGGAGCATTCAAAGATTT
1 AAGACCTC-AGGCAAAACATTTTAAAGTTTCATTGCCTCTAATAG-GAGGAGCATTCAAAGATTT
9876674 TGCAATTT-T
64 TG-AATTTGT
* * *
9876683 CAAGACCTCTGAGCAAAACATTTTAAAGTTTCATTACCTCTGTTATGAGGA-GAGCATTCAAAGA
1 -AAGACCTCAG-GCAAAACATTTTAAAGTTTCATTGCCTC--TAAT-AGGAGGAGCATTCAAAGA
9876747 TTTTTGAGATTTGT
61 -TTTTGA-ATTTGT
* *
9876761 AAGACCTTCAGGCAAAATATTTTAAAGTTTCATTGCCTCTAATCAGGAGGAGCATTCAAAGACTT
1 AAGACC-TCAGGCAAAACATTTTAAAGTTTCATTGCCTCTAAT-AGGAGGAGCATTCAAAGATTT
9876826 TGAAATTTGT
64 TG-AATTTGT
9876836 AAGACCTC
1 AAGACCTC
9876844 CGAGCATAAT
Statistics
Matches: 139, Mismatches: 11, Indels: 21
0.81 0.06 0.12
Matches are distributed among these distances:
74 3 0.02
75 58 0.42
76 28 0.20
77 45 0.32
78 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (72 bp):
AAGACCTCAGGCAAAACATTTTAAAGTTTCATTGCCTCTAATAGGAGGAGCATTCAAAGATTTTG
AATTTGT
Found at i:9877011 original size:75 final size:75
Alignment explanation
Indices: 9876869--9877014 Score: 224
Period size: 75 Copynumber: 1.9 Consensus size: 75
9876859 AGACCTCTGG
* * *
9876869 GTAAAATATTTTAAAGTTTCATTACCTCTGATTAAGATAAGCATTCAAAGATTTTGCAATTTTTA
1 GTAAAATATTTTAAAATTTCATTACCTCTGATTAAGAGAAGCATTCAAAGATTTTGCAATTTATA
9876934 AGACCTCCAA
66 AGACCTCCAA
*
9876944 GTAAAATATTTTAAAATTTCATTACCTCT-ATTATGAGAAGCATTCAAAGATTATTG-AGATTTA
1 GTAAAATATTTTAAAATTTCATTACCTCTGATTAAGAGAAGCATTCAAAGATT-TTGCA-ATTTA
9877007 TAAGACCT
64 TAAGACCT
9877015 TCGAACATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
74 22 0.34
75 43 0.66
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (75 bp):
GTAAAATATTTTAAAATTTCATTACCTCTGATTAAGAGAAGCATTCAAAGATTTTGCAATTTATA
AGACCTCCAA
Found at i:9877013 original size:172 final size:174
Alignment explanation
Indices: 9876684--9877036 Score: 464
Period size: 172 Copynumber: 2.0 Consensus size: 174
9876674 TGCAATTTTC
*
9876684 AAGACCTCTGAGCAAAACATTTTAAAGTTTCATTACCTCTGTTATGAGGAGAGCATTCAAAGATT
1 AAGACCTCTGAGCAAAACATTTTAAAGTTTCATTACCTCTGTTAAGAGGAGAGCATTCAAAGATT
* * * * *
9876749 TTTGAGATTTGTAAGACCTTCAGGCAAAATATTTTAAAGTTTCATTGCCTCTAATCAGGAGGAGC
66 TTTGAGATTTGTAAGACCTCCAAGCAAAATATTTTAAAATTTCATTACCTCTAATCAGGAGAAGC
* * *
9876814 ATTCAAAGACTTTGAAATTTGTAAGACCTCCGAGCATAATCTTT
131 ATTCAAAGACTTTGAAATTTATAAGACCTCCGAACATAATCTCT
* * * *
9876858 AAGACCTCTGGGTAAAATATTTTAAAGTTTCATTACCTCTGATTAAGA-TA-AGCATTCAAAGA-
1 AAGACCTCTGAGCAAAACATTTTAAAGTTTCATTACCTCTG-TTAAGAGGAGAGCATTCAAAGAT
* * * *
9876920 TTTTGCA-ATTTTTAAGACCTCCAAGTAAAATATTTTAAAATTTCATTACCTCT-ATTATGAGAA
65 TTTTG-AGATTTGTAAGACCTCCAAGCAAAATATTTTAAAATTTCATTACCTCTAATCAGGAGAA
* * *
9876983 GCATTCAAAGATTATTGAGATTTATAAGACCTTCGAACATAATCTCT
129 GCATTCAAAGACT-TTGAAATTTATAAGACCTCCGAACATAATCTCT
9877030 AAGACCT
1 AAGACCT
9877037 TTAGGCACAT
Statistics
Matches: 156, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
171 19 0.12
172 80 0.51
173 13 0.08
174 39 0.25
175 5 0.03
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (174 bp):
AAGACCTCTGAGCAAAACATTTTAAAGTTTCATTACCTCTGTTAAGAGGAGAGCATTCAAAGATT
TTTGAGATTTGTAAGACCTCCAAGCAAAATATTTTAAAATTTCATTACCTCTAATCAGGAGAAGC
ATTCAAAGACTTTGAAATTTATAAGACCTCCGAACATAATCTCT
Found at i:9877154 original size:22 final size:22
Alignment explanation
Indices: 9877129--9877222 Score: 68
Period size: 22 Copynumber: 4.3 Consensus size: 22
9877119 CAAAATTTAT
*
9877129 AAGACCTTTGGGCATAATTTTC
1 AAGACCTTTGAGCATAATTTTC
* * * *
9877151 AAGACCTATAAGCA-AAATCTC
1 AAGACCTTTGAGCATAATTTTC
* *
9877172 TAAGATCTTCGAGCATAATTTTC
1 -AAGACCTTTGAGCATAATTTTC
* *
9877195 AAGA-CTTCTGGGTAT-ATTTTC
1 AAGACCTT-TGAGCATAATTTTC
9877216 AAGACCT
1 AAGACCT
9877223 CCGGATATAA
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
21 18 0.33
22 31 0.57
23 5 0.09
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (22 bp):
AAGACCTTTGAGCATAATTTTC
Found at i:9877231 original size:21 final size:21
Alignment explanation
Indices: 9877189--9877236 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
9877179 TTCGAGCATA
* * *
9877189 ATTTTCAAGACTTCTGGGTAT
1 ATTTTCAAGACCTCCGGATAT
9877210 ATTTTCAAGACCTCCGGATAT
1 ATTTTCAAGACCTCCGGATAT
*
9877231 AATTTC
1 ATTTTC
9877237 GACTTGCAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.40
Consensus pattern (21 bp):
ATTTTCAAGACCTCCGGATAT
Found at i:9877315 original size:37 final size:34
Alignment explanation
Indices: 9877266--9877339 Score: 94
Period size: 37 Copynumber: 2.1 Consensus size: 34
9877256 GTCATTTTTT
*
9877266 TTTATTTCAACTTACAGTGTTGTCCCGGTTGATTC
1 TTTATTTCAACTTACAGTGTTGTCCCAGTT-ATTC
**
9877301 TTTATCTTCTAACTTATGGTGTTGTCCCAGTTATTC
1 TTTAT-TTC-AACTTACAGTGTTGTCCCAGTTATTC
9877337 TTT
1 TTT
9877340 TTTATTTGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 5 0.15
36 10 0.29
37 19 0.56
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.50
Consensus pattern (34 bp):
TTTATTTCAACTTACAGTGTTGTCCCAGTTATTC
Found at i:9877476 original size:37 final size:36
Alignment explanation
Indices: 9877426--9877515 Score: 90
Period size: 36 Copynumber: 2.5 Consensus size: 36
9877416 TATTTGACTT
* * * *
9877426 GCGATGCTATCTCGATCGATTCTTTATTTCTTGACAC
1 GCGATGTTGTCTCGATCG-TTATATATTTCTTGACAC
* * *
9877463 GCGATGTTGTCTCGGTCGTTATATATTTTTTGACTC
1 GCGATGTTGTCTCGATCGTTATATATTTCTTGACAC
* *
9877499 GCGGTGTTGTCCCGATC
1 GCGATGTTGTCTCGATC
9877516 TTTTTTTTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
36 28 0.65
37 15 0.35
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.41
Consensus pattern (36 bp):
GCGATGTTGTCTCGATCGTTATATATTTCTTGACAC
Found at i:9877838 original size:18 final size:17
Alignment explanation
Indices: 9877815--9877862 Score: 78
Period size: 18 Copynumber: 2.8 Consensus size: 17
9877805 ATTAAACATT
9877815 AAAAAAATACAAAGACA
1 AAAAAAATACAAAGACA
*
9877832 AAAAAAATAACAAATACA
1 AAAAAAAT-ACAAAGACA
9877850 AAAAAAATACAAA
1 AAAAAAATACAAA
9877863 AAAAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.79, C:0.10, G:0.02, T:0.08
Consensus pattern (17 bp):
AAAAAAATACAAAGACA
Found at i:9877874 original size:18 final size:17
Alignment explanation
Indices: 9877815--9877869 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 17
9877805 ATTAAACATT
*
9877815 AAAAAAATACAAAGACA
1 AAAAAAATACAAAAACA
*
9877832 AAAAAAATAACAAATACA
1 AAAAAAAT-ACAAAAACA
9877850 AAAAAAATACAAAAA-A
1 AAAAAAATACAAAAACA
9877866 AAAA
1 AAAA
9877870 CAAAAAGTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
16 5 0.14
17 14 0.40
18 16 0.46
ACGTcount: A:0.82, C:0.09, G:0.02, T:0.07
Consensus pattern (17 bp):
AAAAAAATACAAAAACA
Found at i:9879125 original size:3 final size:3
Alignment explanation
Indices: 9879108--9879164 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
9879098 TTATTGTTTC
* * * *
9879108 ATA ATA ATGA TTA ATA ATA ATA ACA ATA ATA ATG ATA ATA ATA ACA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9879154 ATA ATA ATA AT
1 ATA ATA ATA AT
9879165 GATTTTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9879548 original size:7 final size:7
Alignment explanation
Indices: 9879538--9879818 Score: 68
Period size: 7 Copynumber: 38.0 Consensus size: 7
9879528 TCTACAATCA
9879538 AAACCCT
1 AAACCCT
9879545 AAACCTTCT
1 AAACC--CT
*
9879554 AACCCCT
1 AAACCCT
** *
9879561 AAAATCA
1 AAACCCT
9879568 AAACCCT
1 AAACCCT
*
9879575 AAATCCTCC
1 AAA-CC-CT
9879584 AAACCCT
1 AAACCCT
*
9879591 AAATCCTTT
1 AAA-CC-CT
*
9879600 AACCCCT
1 AAACCCT
*
9879607 AAA-ACT
1 AAACCCT
*
9879613 AAATCCT
1 AAACCCT
9879620 AAACCCT
1 AAACCCT
*
9879627 CCAAACCTT
1 --AAACCCT
** *
9879636 AAAATCA
1 AAACCCT
9879643 AAACCCT
1 AAACCCT
9879650 AAACCCTAT
1 AAACCC--T
*
9879659 AAACCGT
1 AAACCCT
** *
9879666 AAAATCA
1 AAACCCT
*
9879673 AAATCCT
1 AAACCCT
9879680 AAAACCTCT
1 -AAACC-CT
* *
9879689 AAATCTT
1 AAACCCT
*
9879696 AAA-ACT
1 AAACCCT
9879702 AAACCCT
1 AAACCCT
9879709 AAACCCTCT
1 AAA-CC-CT
9879718 AAACCCT
1 AAACCCT
** *
9879725 AAAATCA
1 AAACCCT
9879732 AAACCCT
1 AAACCCT
*
9879739 AATCCTCT
1 AAACC-CT
**
9879747 -AACTTTT
1 AAAC-CCT
**
9879754 AAA-AAT
1 AAACCCT
9879760 AAACCCT
1 AAACCCT
9879767 AAATCCTCT
1 AAA-CC-CT
9879776 AAACCCT
1 AAACCCT
*
9879783 AAA-ACT
1 AAACCCT
9879789 AAACCCT
1 AAACCCT
9879796 AAACCCTCT
1 AAA-CC-CT
*
9879805 AAACCTT
1 AAACCCT
9879812 AAACCCT
1 AAACCCT
9879819 TCAAACCTTA
Statistics
Matches: 192, Mismatches: 57, Indels: 50
0.64 0.19 0.17
Matches are distributed among these distances:
6 18 0.09
7 100 0.52
8 32 0.17
9 42 0.22
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (7 bp):
AAACCCT
Found at i:9879562 original size:16 final size:17
Alignment explanation
Indices: 9879538--9879609 Score: 57
Period size: 16 Copynumber: 4.6 Consensus size: 17
9879528 TCTACAATCA
9879538 AAACCCTAAA-CCTTCT
1 AAACCCTAAATCCTTCT
* * *
9879554 AACCCCTAAA---ATCA
1 AAACCCTAAATCCTTCT
*
9879568 AAACCCTAAATCC-TCC
1 AAACCCTAAATCCTTCT
9879584 AAACCCTAAATCCTT-T
1 AAACCCTAAATCCTTCT
*
9879600 AACCCCTAAA
1 AAACCCTAAA
9879610 ACTAAATCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
14 11 0.24
16 33 0.73
17 1 0.02
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.21
Consensus pattern (17 bp):
AAACCCTAAATCCTTCT
Found at i:9879591 original size:30 final size:30
Alignment explanation
Indices: 9879524--9879593 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
9879514 CGTTTTCTCT
* * *
9879524 AAACTCTACAATCAAAACCCTAAACCTTCT
1 AAACCCTAAAATCAAAACCCTAAACCTTCC
*
9879554 AACCCCTAAAATCAAAACCCTAAATCC-TCC
1 AAACCCTAAAATCAAAACCCTAAA-CCTTCC
9879584 AAACCCTAAA
1 AAACCCTAAA
9879594 TCCTTTAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 32 0.94
31 2 0.06
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.19
Consensus pattern (30 bp):
AAACCCTAAAATCAAAACCCTAAACCTTCC
Found at i:9879641 original size:46 final size:47
Alignment explanation
Indices: 9879538--9879638 Score: 145
Period size: 45 Copynumber: 2.2 Consensus size: 47
9879528 TCTACAATCA
*
9879538 AAACCCTAAA-CCTTCTAACCCCTAAAATCAAAACCCTAAATCCTCC
1 AAACCCTAAATCCTTCTAACCCCTAAAATCAAAACCCTAAACCCTCC
* *
9879584 AAACCCTAAATCCTT-TAACCCCTAAAA-CTAAATCCTAAACCCTCC
1 AAACCCTAAATCCTTCTAACCCCTAAAATCAAAACCCTAAACCCTCC
*
9879629 AAACCTTAAA
1 AAACCCTAAA
9879639 ATCAAAACCC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
45 24 0.48
46 22 0.44
47 4 0.08
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.21
Consensus pattern (47 bp):
AAACCCTAAATCCTTCTAACCCCTAAAATCAAAACCCTAAACCCTCC
Found at i:9879648 original size:59 final size:59
Alignment explanation
Indices: 9879584--9879814 Score: 238
Period size: 59 Copynumber: 3.9 Consensus size: 59
9879574 TAAATCCTCC
* * * * *
9879584 AAACCCTAAATCCTTTAACCCCTAAAA-CTAAATCCTAAACCCTCCAAACCTTAAAATCA
1 AAACCCTAAACCCTCTAAACCCTAAAATCAAAACCCTAAACCCTCCAAACCTTAAAA-CA
* * * * * * *
9879643 AAACCCTAAACCCTATAAACCGTAAAATCAAAATCCTAAAACCTCTAAATCTTAAAACT
1 AAACCCTAAACCCTCTAAACCCTAAAATCAAAACCCTAAACCCTCCAAACCTTAAAACA
* * *
9879702 AAACCCTAAACCCTCTAAACCCTAAAATCAAAACCCT-AATCCT-CTAACTTTTAAAA-A
1 AAACCCTAAACCCTCTAAACCCTAAAATCAAAACCCTAAACCCTCCAAAC-CTTAAAACA
* * *
9879759 TAAACCCTAAATCCTCTAAACCCTAAAA-CTAAACCCTAAACCCTCTAAACCTTAAA
1 -AAACCCTAAACCCTCTAAACCCTAAAATCAAAACCCTAAACCCTCCAAACCTTAAA
9879815 CCCTTCAAAC
Statistics
Matches: 143, Mismatches: 24, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
57 10 0.07
58 47 0.33
59 61 0.43
60 25 0.17
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (59 bp):
AAACCCTAAACCCTCTAAACCCTAAAATCAAAACCCTAAACCCTCCAAACCTTAAAACA
Found at i:9879651 original size:30 final size:29
Alignment explanation
Indices: 9879584--9879814 Score: 225
Period size: 29 Copynumber: 7.9 Consensus size: 29
9879574 TAAATCCTCC
* * * * *
9879584 AAACCCTAAATCCTTTAACCCCTAAAACT
1 AAACCCTAAACCCTCTAAACCTTAAAACA
* *
9879613 AAATCCTAAACCCTCCAAACCTTAAAATCA
1 AAACCCTAAACCCTCTAAACCTTAAAA-CA
* *
9879643 AAACCCTAAACCCTATAAACCGTAAAATCA
1 AAACCCTAAACCCTCTAAACCTTAAAA-CA
* * * *
9879673 AAATCCTAAAACCTCTAAATCTTAAAACT
1 AAACCCTAAACCCTCTAAACCTTAAAACA
*
9879702 AAACCCTAAACCCTCTAAACCCTAAAATCA
1 AAACCCTAAACCCTCTAAACCTTAAAA-CA
* *
9879732 AAACCCT-AATCCTCT-AACTTTTAAAA-A
1 AAACCCTAAACCCTCTAAAC-CTTAAAACA
* * *
9879759 TAAACCCTAAATCCTCTAAACCCTAAAACT
1 -AAACCCTAAACCCTCTAAACCTTAAAACA
9879789 AAACCCTAAACCCTCTAAACCTTAAA
1 AAACCCTAAACCCTCTAAACCTTAAA
9879815 CCCTTCAAAC
Statistics
Matches: 165, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
27 1 0.01
28 10 0.06
29 94 0.57
30 60 0.36
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (29 bp):
AAACCCTAAACCCTCTAAACCTTAAAACA
Found at i:9879792 original size:13 final size:13
Alignment explanation
Indices: 9879774--9879798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9879764 CCTAAATCCT
9879774 CTAAACCCTAAAA
1 CTAAACCCTAAAA
9879787 CTAAACCCTAAA
1 CTAAACCCTAAA
9879799 CCCTCTAAAC
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:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (13 bp):
CTAAACCCTAAAA
Found at i:9879824 original size:16 final size:16
Alignment explanation
Indices: 9879787--9879828 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
9879777 AACCCTAAAA
*
9879787 CTAAACCCTAAACCCT
1 CTAAACCTTAAACCCT
9879803 CTAAACCTTAAACCCT
1 CTAAACCTTAAACCCT
9879819 -TCAAACCTTA
1 CT-AAACCTTA
9879829 CAATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (16 bp):
CTAAACCTTAAACCCT
Found at i:9879873 original size:14 final size:13
Alignment explanation
Indices: 9879847--9879930 Score: 60
Period size: 14 Copynumber: 5.9 Consensus size: 13
9879837 ATCTCAAACC
*
9879847 TCAAACTCTAAAA
1 TCAAACCCTAAAA
9879860 TCAAAGCCCTAAAA
1 TCAAA-CCCTAAAA
*
9879874 CCTCCAAGCCCTAAAA
1 --T-CAAACCCTAAAA
* * *
9879890 TTGAAACCCCAAATC
1 -TCAAACCCTAAA-A
9879905 TCAAACCCTAAAA
1 TCAAACCCTAAAA
9879918 TCGAAACCCTAAA
1 TC-AAACCCTAAA
9879931 CCCTCTAAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
13 7 0.13
14 35 0.64
15 1 0.02
16 9 0.16
17 3 0.05
ACGTcount: A:0.46, C:0.32, G:0.05, T:0.17
Consensus pattern (13 bp):
TCAAACCCTAAAA
Found at i:9880018 original size:14 final size:13
Alignment explanation
Indices: 9879998--9880152 Score: 58
Period size: 14 Copynumber: 10.6 Consensus size: 13
9879988 CAAACCTCAT
9879998 ACCCTAAAATCAA
1 ACCCTAAAATCAA
9880011 AGCCCTAAAACCTCCAA
1 A-CCCTAAAA--T-CAA
* *
9880028 GCCCTAAAATTGAA
1 ACCCTAAAA-TCAA
*
9880042 ACCCTAAACCTCAA
1 ACCCTAAA-ATCAA
*
9880056 ACCCTAAAATTGAA
1 ACCCTAAAA-TCAA
* *
9880070 ATCCTAAACCCTCTAA
1 ACCCTAAA--ATC-AA
* *
9880086 ATCCTAAATTTCTAA
1 ACCCTAAA-ATC-AA
*
9880101 ACCCTAAAATAAAA
1 ACCCTAAAAT-CAA
*
9880115 ACCCTAAACCCTCCAA
1 ACCCTAAA--AT-CAA
*
9880131 ACTCTAAAATCAAA
1 ACCCTAAAATC-AA
9880145 ACCCTAAA
1 ACCCTAAA
9880153 TCCTCTAAAC
Statistics
Matches: 107, Mismatches: 22, Indels: 25
0.69 0.14 0.16
Matches are distributed among these distances:
13 2 0.02
14 59 0.55
15 14 0.13
16 29 0.27
17 3 0.03
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.19
Consensus pattern (13 bp):
ACCCTAAAATCAA
Found at i:9880076 original size:58 final size:57
Alignment explanation
Indices: 9879842--9880108 Score: 193
Period size: 58 Copynumber: 4.6 Consensus size: 57
9879832 TAAAAATCTC
* * **
9879842 AAACCT-CAAACTCTAAAATC-AAAGCCCTAAAACCTCCAAGCCCTAAAATTGAAACCCC
1 AAACCTCCAAACCCTAAAATCGAAA-CCCT-AAACCT-CAAACCCTAAAATTGAAACCTA
* * * *
9879900 AAATCT-CAAACCCTAAAATCGAAACCCTAAACCCTCTAAATCCTAAATTTTTAAACCTTA
1 AAACCTCCAAACCCTAAAATCGAAACCCTAAA-CCTC-AAACCCTAAA-ATTGAAACC-TA
* ** * * * *
9879960 AATCCTTAAAATCCTAAAATCAAAACTCC-AAACCTCATACCCTAAAA-TCAAAGCCCTA
1 AAACCTCCAAACCCTAAAATCGAAAC-CCTAAACCTCAAACCCTAAAATTGAAA--CCTA
* *
9880018 AAACCTCCAAGCCCTAAAATTGAAACCCTAAACCTCAAACCCTAAAATTGAAATCCTA
1 AAACCTCCAAACCCTAAAATCGAAACCCTAAACCTCAAACCCTAAAATTGAAA-CCTA
* * * * *
9880076 AACCCTCTAAATCCTAAATTTCTAAACCCTAAA
1 AAACCTCCAAACCCTAAA-ATCGAAACCCTAAA
9880109 ATAAAAACCC
Statistics
Matches: 163, Mismatches: 34, Indels: 23
0.74 0.15 0.10
Matches are distributed among these distances:
57 10 0.06
58 89 0.55
59 35 0.21
60 8 0.05
61 19 0.12
62 2 0.01
ACGTcount: A:0.45, C:0.31, G:0.03, T:0.21
Consensus pattern (57 bp):
AAACCTCCAAACCCTAAAATCGAAACCCTAAACCTCAAACCCTAAAATTGAAACCTA
Found at i:9880079 original size:147 final size:147
Alignment explanation
Indices: 9879802--9880108 Score: 474
Period size: 147 Copynumber: 2.1 Consensus size: 147
9879792 CCCTAAACCC
* * *
9879802 TCTAAACCTTAAACCCTTCAAACCTTACAATAAAAATCTCAAACCTCAAACTCTAAAATCAAAGC
1 TCTAAACCTTAAACCCTTAAAACCTTAAAATAAAAATCTCAAACCTCAAACCCTAAAATCAAAGC
*
9879867 CCTAAAACCTCCAAGCCCTAAAATTGAAACCCCAAATCTCAAACCCTAAAATCGAAACCCTAAAC
66 CCTAAAACCTCCAAGCCCTAAAATTGAAACCCCAAACCTCAAACCCTAAAATCGAAACCCTAAAC
9879932 CCTCTAAATCCTAAATT
131 CCTCTAAATCCTAAATT
* * * *
9879949 TTTAAACCTTAAATCCTTAAAATCC-TAAAATCAAAA-CTCCAAACCTCATACCCTAAAATCAAA
1 TCTAAACCTTAAACCCTTAAAA-CCTTAAAATAAAAATCT-CAAACCTCAAACCCTAAAATCAAA
* * *
9880012 GCCCTAAAACCTCCAAGCCCTAAAATTGAAACCCTAAACCTCAAACCCTAAAATTGAAATCCTAA
64 GCCCTAAAACCTCCAAGCCCTAAAATTGAAACCCCAAACCTCAAACCCTAAAATCGAAACCCTAA
9880077 ACCCTCTAAATCCTAAATT
129 ACCCTCTAAATCCTAAATT
*
9880096 TCTAAACCCTAAA
1 TCTAAACCTTAAA
9880109 ATAAAAACCC
Statistics
Matches: 145, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
146 2 0.01
147 141 0.97
148 2 0.01
ACGTcount: A:0.44, C:0.31, G:0.03, T:0.22
Consensus pattern (147 bp):
TCTAAACCTTAAACCCTTAAAACCTTAAAATAAAAATCTCAAACCTCAAACCCTAAAATCAAAGC
CCTAAAACCTCCAAGCCCTAAAATTGAAACCCCAAACCTCAAACCCTAAAATCGAAACCCTAAAC
CCTCTAAATCCTAAATT
Found at i:9880080 original size:21 final size:20
Alignment explanation
Indices: 9880054--9880126 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 20
9880044 CCTAAACCTC
9880054 AAACCCTAAAATTGAAATCCT
1 AAACCCTAAAATT-AAATCCT
* *
9880075 AAACCCTCTAAATCCTAAATTTCT
1 AAACCCT-AAAAT--TAAA-TCCT
* *
9880099 AAACCCTAAAATAAAAACCCT
1 AAACCCTAAAAT-TAAATCCT
9880120 AAACCCT
1 AAACCCT
9880127 CCAAACTCTA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
21 16 0.39
22 7 0.17
23 7 0.17
24 11 0.27
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (20 bp):
AAACCCTAAAATTAAATCCT
Found at i:9880139 original size:30 final size:29
Alignment explanation
Indices: 9880103--9880185 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
9880093 ATTTCTAAAC
9880103 CCTAAAATAAAAACCCTAAACCCTCCAAA
1 CCTAAAATAAAAACCCTAAACCCTCCAAA
* * *
9880132 CTCTAAAATCAAAACCCTAAATCCTCTAAA
1 C-CTAAAATAAAAACCCTAAACCCTCCAAA
*
9880162 CCGT-AAATATAAAATCCTAAACCC
1 CC-TAAAATA-AAAACCCTAAACCC
9880186 CTTAAACCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 6 0.13
30 39 0.87
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.19
Consensus pattern (29 bp):
CCTAAAATAAAAACCCTAAACCCTCCAAA
Found at i:9880270 original size:20 final size:20
Alignment explanation
Indices: 9880245--9880304 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
9880235 TCTAAACCTT
*
9880245 TTAAACCCTAAAACCAATCC
1 TTAAACCCTAAAACCAAACC
9880265 TTAAACCCTTAAAACTCAAACC
1 TTAAACCC-TAAAAC-CAAACC
*
9880287 -AAAACCCTAAAATCCAAA
1 TTAAACCCTAAAA-CCAAA
9880305 ATTCCAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 17 0.49
21 13 0.37
22 5 0.14
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAACCCTAAAACCAAACC
Found at i:9880279 original size:29 final size:28
Alignment explanation
Indices: 9880098--9880277 Score: 87
Period size: 30 Copynumber: 6.1 Consensus size: 28
9880088 CCTAAATTTC
* * *
9880098 TAAACCCTAAAATAAAAACCCTAAACCCT
1 TAAACCCTAAAA-CAAATCCTTAAACCCT
* * * * *
9880127 CCAAACTCTAAAATCAAAACCCTAAATCCT
1 -TAAACCCTAAAA-CAAATCCTTAAACCCT
* *
9880157 CTAAACCGTAAATATAAAATCC-TAAACCCCT
1 -TAAACCCTAAA-A-CAAATCCTTAAA-CCCT
* *
9880188 TAAACCCCAAAACTAAAACCTTAAACCC-
1 TAAACCCTAAAAC-AAATCCTTAAACCCT
* * * *
9880216 CAAATCCTAAAATCGAAT-CTCTAAACCTTT
1 TAAACCCTAAAA-CAAATCCT-TAAACC-CT
*
9880246 TAAACCCTAAAACCAATCCTTAAACCCT
1 TAAACCCTAAAACAAATCCTTAAACCCT
9880274 TAAA
1 TAAA
9880278 ACTCAAACCA
Statistics
Matches: 117, Mismatches: 24, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 20 0.17
30 63 0.54
31 10 0.09
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (28 bp):
TAAACCCTAAAACAAATCCTTAAACCCT
Found at i:9888416 original size:25 final size:25
Alignment explanation
Indices: 9888380--9888440 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
9888370 GTGGGTTTGA
*
9888380 AGCTTAATTCTTAACACGAATTCAG
1 AGCTTAAATCTTAACACGAATTCAG
*
9888405 AGCTTAAATCTTAACACGGATTCAG
1 AGCTTAAATCTTAACACGAATTCAG
9888430 AGCTTAAATCT
1 AGCTTAAATCT
9888441 CGACCCGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (25 bp):
AGCTTAAATCTTAACACGAATTCAG
Found at i:9893825 original size:14 final size:14
Alignment explanation
Indices: 9893806--9893833 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9893796 CTATGCATGC
9893806 CATAAAAAAGTGTT
1 CATAAAAAAGTGTT
9893820 CATAAAAAAGTGTT
1 CATAAAAAAGTGTT
9893834 AATACGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
CATAAAAAAGTGTT
Found at i:9894120 original size:22 final size:21
Alignment explanation
Indices: 9894059--9894120 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
9894049 TAAGGTTTTT
* *
9894059 TTAATTTTTTTTTGTATATTTA
1 TTAA-TTTTTTTTGAATATATA
* *
9894081 TGTAATTTTTTATAAATATATA
1 T-TAATTTTTTTTGAATATATA
9894103 TTAATATTTTTTTGAATA
1 TTAAT-TTTTTTTGAATA
9894121 AAAATATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 4 0.12
22 25 0.78
23 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
TTAATTTTTTTTGAATATATA
Found at i:9894169 original size:27 final size:25
Alignment explanation
Indices: 9894120--9894185 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
9894110 TTTTTTGAAT
* *
9894120 AAAAATATATTAATTTTAATTAATCTAA
1 AAAAAT-TATTTATATTAATTAA--TAA
*
9894148 AAAAATTATTTATATTATTTAATAA
1 AAAAATTATTTATATTAATTAATAA
*
9894173 AAAATTTATTTAT
1 AAAAATTATTTAT
9894186 TAAATATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.44
27 13 0.38
28 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AAAAATTATTTATATTAATTAATAA
Found at i:9902999 original size:26 final size:25
Alignment explanation
Indices: 9902938--9903002 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 25
9902928 GAATTAAATT
9902938 TTATTATTTTAATTTGATTTAATTTAA
1 TTATTATTTTAA-TT-ATTTAATTTAA
*
9902965 TGATT-TTTTAATT-TTTAATTTATA
1 TTATTATTTTAATTATTTAATTTA-A
9902989 TATATTATTTTAAT
1 T-TATTATTTTAAT
9903003 ATAATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 9 0.27
24 2 0.06
25 5 0.15
26 13 0.39
27 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (25 bp):
TTATTATTTTAATTATTTAATTTAA
Found at i:9903009 original size:11 final size:11
Alignment explanation
Indices: 9902980--9903029 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
9902970 TTTTAATTTT
9902980 TAATTTATATATA
1 TAATTT-TA-ATA
*
9902993 TTATTTTAATA
1 TAATTTTAATA
9903004 TAATTTTAATA
1 TAATTTTAATA
*
9903015 T-ATTTAAATA
1 TAATTTTAATA
9903025 -AATTT
1 TAATTT
9903030 ACATAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 12 0.36
11 14 0.42
12 2 0.06
13 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TAATTTTAATA
Found at i:9904434 original size:27 final size:26
Alignment explanation
Indices: 9904404--9904466 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
9904394 AAAACATACG
9904404 ATAATATTATTTAATCTAATTTTATTT
1 ATAATATTATTTAATCTAATTTTA-TT
* * *
9904431 ATAATATTATTTTATTTTATTTTATT
1 ATAATATTATTTAATCTAATTTTATT
*
9904457 ATAATTTTAT
1 ATAATATTAT
9904467 ATATTAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
ATAATATTATTTAATCTAATTTTATT
Found at i:9904465 original size:21 final size:22
Alignment explanation
Indices: 9904422--9904466 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
9904412 ATTTAATCTA
*
9904422 ATTTTATTTATAATATTATTTT
1 ATTTTATTTATAATATAATTTT
*
9904444 ATTTTATTT-TATTATAATTTT
1 ATTTTATTTATAATATAATTTT
9904465 AT
1 AT
9904467 ATATTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTATTTATAATATAATTTT
Found at i:9906121 original size:13 final size:13
Alignment explanation
Indices: 9906103--9906127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9906093 TGCACAAAAA
9906103 CTATGTTTTTTAT
1 CTATGTTTTTTAT
9906116 CTATGTTTTTTA
1 CTATGTTTTTTA
9906128 GATAAGAAAA
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:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (13 bp):
CTATGTTTTTTAT
Found at i:9906932 original size:11 final size:11
Alignment explanation
Indices: 9906918--9906956 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9906908 TTTTTAAATG
*
9906918 TTTTTGTTTTC
1 TTTTTATTTTC
*
9906929 TTTTTATTTTA
1 TTTTTATTTTC
9906940 TTTTTATTTTAC
1 TTTTTATTTT-C
9906952 TTTTT
1 TTTTT
9906957 TTTCTTAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTTATTTTC
Found at i:9916776 original size:370 final size:371
Alignment explanation
Indices: 9916068--9916922 Score: 1218
Period size: 370 Copynumber: 2.3 Consensus size: 371
9916058 AGCCCCATGG
* *
9916068 CCTCACGGTTTTATCCTACAAAAAACGCCTCACAAGGAAGAGATGGTGTGAACCCTAATATACCC
1 CCTCACGGTTTTATCCTACAAAAAGCGCCTCACAAGGAAGAGATGGTGTGAACCCTTATATACCC
* *
9916133 CAGTGACCTCTTATTATGTTCGATGTGAGATTCAGGACTCTTCCATAGGTCCGTGACATTCTCCT
66 CAGTGACCTCTTATTATGTTCGATGTGAGATTCAGGACTCTTCCTTAGGTCCGTGACATTCTCCC
* *
9916198 GCACCTCAACCTCGTGACGCCCTCGTCACGGAAGCTGGCCACCCTGCCTACCTCCCTCGAGGTGC
131 ACACCTCAACCTCGTGACGCCCTCGTCACGGAAGCTGGCCACCCTGCCGACCTCCCTCGAGGTGC
**
9916263 TCGGCGTAGATCGAACGGTTTAGGGCTGGTTCTGATACCACTTGTCACGGGTCGAGACTTAAGCT
196 TCGGCGTAGATCGAACGGTTTAGCACTGGTTCTGATACCACTTGTCACGGGTCGAGACTTAAGCT
* * * *
9916328 CCGAACCCGCGCAGCTCCGAGACTCGGGCATTCACCCTTCCGGCGTTCCGGATCAGCCTAACCGC
261 CCGAACCCGCGCAGCTCCGAGACCCGGGCATTCACCCTTCCGGCGTCCCAGATCAGCCTAACCAC
9916393 CACGGACCACACCCTTGTGAGGTATTATCCACTCTGGTCCC-CCTGA
326 CACGGACCACACCCTTGTGAGGTATTATCCACTCTGG-CCCACCTGA
* * * * * * * *
9916439 CCTTAGGGTTTTTTCCTACAAAAGGCACCTCACAA-GACGGAGATGGTGTGAATCCTTTTATACC
1 CCTCACGGTTTTATCCTACAAAAAGCGCCTCACAAGGA-AGAGATGGTGTGAACCCTTATATACC
* * * *
9916503 CCAGTGACCCTCCTATTACGTTCGATGTGGGATTCAGGA-TTTTCCTTAGGTCCGTGACATTCTC
65 CCAGTGA-CCTCTTATTATGTTCGATGTGAGATTCAGGACTCTTCCTTAGGTCCGTGACATTCTC
* * * *
9916567 CCACACC-CAACCTCGTGACGCCCTCGTCACGGAGGTTGGCCATCCTGTCGACCTCCCTCGAGGT
129 CCACACCTCAACCTCGTGACGCCCTCGTCACGGAAGCTGGCCACCCTGCCGACCTCCCTCGAGGT
*
9916631 GCTTGGCGT-GCATCGAACGGTTTAGCACTGGTTCTGATACCACTTGTCACGGGTCGAGACTTAA
194 GCTCGGCGTAG-ATCGAACGGTTTAGCACTGGTTCTGATACCACTTGTCACGGGTCGAGACTTAA
* * * * * *
9916695 GTTCCGAACCCGCGCGGCTCCGGGACCCGGGCATTCACCCTTTCGGCGTCCCAGATCAGTCT-TC
258 GCTCCGAACCCGCGCAGCTCCGAGACCCGGGCATTCACCCTTCCGGCGTCCCAGATCAGCCTAAC
** ** *
9916759 CTACCACGGTTCACACCCTTGTGAGGTATTATCCGTTTTGGCCCACCTGA
323 C-ACCACGGACCACACCCTTGTGAGGTATTATCCACTCTGGCCCACCTGA
* * * *
9916809 TCTCACGGTTTTATCCTACAAAAAGTGCCTCACAAGGAAGAGATGATGTGAACCCTTATATATCC
1 CCTCACGGTTTTATCCTACAAAAAGCGCCTCACAAGGAAGAGATGGTGTGAACCCTTATATACCC
9916874 CAGTGATCCTCTTATTATGTTCGATGTGAGATTCAGGACTCTTCCTTAG
66 CAGTGA-CCTCTTATTATGTTCGATGTGAGATTCAGGACTCTTCCTTAG
9916923 ATCTATAACA
Statistics
Matches: 420, Mismatches: 57, Indels: 14
0.86 0.12 0.03
Matches are distributed among these distances:
369 6 0.01
370 289 0.69
371 97 0.23
372 28 0.07
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (371 bp):
CCTCACGGTTTTATCCTACAAAAAGCGCCTCACAAGGAAGAGATGGTGTGAACCCTTATATACCC
CAGTGACCTCTTATTATGTTCGATGTGAGATTCAGGACTCTTCCTTAGGTCCGTGACATTCTCCC
ACACCTCAACCTCGTGACGCCCTCGTCACGGAAGCTGGCCACCCTGCCGACCTCCCTCGAGGTGC
TCGGCGTAGATCGAACGGTTTAGCACTGGTTCTGATACCACTTGTCACGGGTCGAGACTTAAGCT
CCGAACCCGCGCAGCTCCGAGACCCGGGCATTCACCCTTCCGGCGTCCCAGATCAGCCTAACCAC
CACGGACCACACCCTTGTGAGGTATTATCCACTCTGGCCCACCTGA
Found at i:9920868 original size:62 final size:62
Alignment explanation
Indices: 9920733--9920890 Score: 196
Period size: 62 Copynumber: 2.6 Consensus size: 62
9920723 TTTGTACAAG
* * *
9920733 GAAAAATTGATACTTTCAATTTTTTCTC--AAAATATTTTTTTTGAAAAACTTTAGTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATTTTTTTTGAAAAACTTTAGTTTCAA
* *** * *
9920793 GAAAAATTAATACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTTTTTAAA-TTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAT-TTTTTTTGAAAAACTTTAGTTTCAA
*
9920855 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAA
9920891 CGCTTTTTGA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
60 25 0.30
62 49 0.58
63 10 0.12
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (62 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATTTTTTTTGAAAAACTTTAGTTTCAA
Found at i:9929457 original size:13 final size:13
Alignment explanation
Indices: 9929441--9929475 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
9929431 TGGTAACAGT
*
9929441 ATTATTAAACATA
1 ATTACTAAACATA
9929454 ATTACTAAACATA
1 ATTACTAAACATA
9929467 ATTAC-AAAC
1 ATTACTAAAC
9929476 TCTCTAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
ATTACTAAACATA
Found at i:9931111 original size:21 final size:22
Alignment explanation
Indices: 9931087--9931145 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
9931077 TTTGCTTTCT
9931087 CTTTATTTTATTT-G-TTTTATA
1 CTTTATTTTATTTAGATTTT-TA
*
9931108 CTTTATTTT-TTTAGATTTTTT
1 CTTTATTTTATTTAGATTTTTA
9931129 CTTT-TTTTATTTA-ATTT
1 CTTTATTTTATTTAGATTT
9931146 AATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 11 0.32
21 19 0.56
22 4 0.12
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (22 bp):
CTTTATTTTATTTAGATTTTTA
Found at i:9933765 original size:27 final size:27
Alignment explanation
Indices: 9933727--9933782 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
9933717 ACCACGGTTT
*
9933727 TCTTCCCCACCCAACTTCGTGATGCCC
1 TCTTCCCCACCCAACTTCGTGACGCCC
9933754 TCTTCCCCACCCAACTTCGTGACGCCC
1 TCTTCCCCACCCAACTTCGTGACGCCC
9933781 TC
1 TC
9933783 ATCATGGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.50, G:0.11, T:0.25
Consensus pattern (27 bp):
TCTTCCCCACCCAACTTCGTGACGCCC
Found at i:9943181 original size:27 final size:26
Alignment explanation
Indices: 9943151--9943202 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 26
9943141 ATTTATGTAA
9943151 TTTTTTT-ATAAACATATATATTAATAT
1 TTTTTTTAATAAA-A-ATATATTAATAT
9943178 TTTTTTTCAATAAAAATATATTAAT
1 TTTTTTT-AATAAAAATATATTAAT
9943203 TCTAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 17 0.74
28 1 0.04
29 5 0.22
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTTTTTAATAAAAATATATTAATAT
Found at i:9943233 original size:23 final size:22
Alignment explanation
Indices: 9943211--9943258 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
9943201 ATTCTAATTA
9943211 ATCTAAAAAAATAATTTATATT
1 ATCTAAAAAAATAATTTATATT
* *
9943233 ATTTAATAAAA-AATTTAT-TT
1 ATCTAAAAAAATAATTTATATT
9943253 A-CTAAA
1 ATCTAAA
9943259 TATATATGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.14
20 3 0.14
21 7 0.32
22 9 0.41
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
ATCTAAAAAAATAATTTATATT
Found at i:9945057 original size:21 final size:21
Alignment explanation
Indices: 9945033--9945079 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
9945023 CTCGAAATTA
9945033 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
9945054 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
9945075 ATAAA
1 ATAAA
9945080 TAATTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:9946655 original size:33 final size:34
Alignment explanation
Indices: 9946588--9946656 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
9946578 AAATGAAGGA
* *
9946588 TCGATATATGATAAGTCTTCTTTTGATAATCTTG
1 TCGATATAGGATAAGTCTTCTTTTGATAACCTTG
*
9946622 TCGATGTAGGATAAGTCTTC-TTTGATAACCTTG
1 TCGATATAGGATAAGTCTTCTTTTGATAACCTTG
9946655 TC
1 TC
9946657 CAAGAGATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 14 0.44
34 18 0.56
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (34 bp):
TCGATATAGGATAAGTCTTCTTTTGATAACCTTG
Found at i:9952303 original size:17 final size:17
Alignment explanation
Indices: 9952281--9952313 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9952271 CAGTTTAAGA
9952281 TTTTTTTATTTTTTTTC
1 TTTTTTTATTTTTTTTC
*
9952298 TTTTTTTCTTTTTTTT
1 TTTTTTTATTTTTTTT
9952314 TTCAAATGTC
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:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTTTTATTTTTTTTC
Found at i:9952383 original size:15 final size:16
Alignment explanation
Indices: 9952354--9952398 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
9952344 TTAAATTTTT
**
9952354 ATAAATTTTTTAATA-
1 ATAAATTTTAAAATAC
9952369 ATAAATTTTAAAATAC
1 ATAAATTTTAAAATAC
9952385 ATAAAATTTTAAAA
1 AT-AAATTTTAAAA
9952399 ATCTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 13 0.50
16 2 0.08
17 11 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAATTTTAAAATAC
Found at i:9952750 original size:27 final size:26
Alignment explanation
Indices: 9952720--9952776 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
9952710 AAAAAATATG
*
9952720 ATAACATTATTTTA-TTTAATTTTATTT
1 ATAACATTATCTTAGTTT-ATTTTA-TT
*
9952747 ATAATATTATCTTAGTTTATTTTATT
1 ATAACATTATCTTAGTTTATTTTATT
9952773 ATAA
1 ATAA
9952777 TCTTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 6 0.22
27 18 0.67
28 3 0.11
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
ATAACATTATCTTAGTTTATTTTATT
Found at i:9952781 original size:21 final size:22
Alignment explanation
Indices: 9952740--9952781 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9952730 TTTATTTAAT
*
9952740 TTTATTTATAATATTATCTTAG
1 TTTATTTATAATATAATCTTAG
*
9952762 TTTATTT-TATTATAATCTTA
1 TTTATTTATAATATAATCTTA
9952782 TATATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTATTTATAATATAATCTTAG
Found at i:9952799 original size:40 final size:37
Alignment explanation
Indices: 9952726--9952800 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 37
9952716 TATGATAACA
*
9952726 TTATTTTATTTAATTTTATTTATAATATTATCTTAGT
1 TTATTTTATTTAATTTTATTTATAATATGATCTTAGT
9952763 TTATTTTATTATAATCTTATATATTA-AATATGATCTTA
1 TTATTTTATT-TAAT-TT-TAT-TTATAATATGATCTTA
9952801 AAACATAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
37 10 0.30
38 4 0.12
39 2 0.06
40 14 0.42
41 3 0.09
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (37 bp):
TTATTTTATTTAATTTTATTTATAATATGATCTTAGT
Found at i:9954603 original size:138 final size:139
Alignment explanation
Indices: 9954373--9954624 Score: 339
Period size: 138 Copynumber: 1.8 Consensus size: 139
9954363 AAGTATGTTT
* * * ** * *
9954373 TTTACATAAGAAAAGTAGTTTTTGTAGTTTTTTTTTGTTGTAAAAAATTCTTGTAAAAGTAAAAA
1 TTTACATAAGAAAAGAAGTCTTTGTAGTTTTTTGTTGTTAAAAAAAATTCTTGCAAAACTAAAAA
* * **
9954438 AGAAGATTTGGTGAGATTCATTGACTTACATTTT-TTTTATCACTTTTGCTTTGGTGCACAGAGA
66 AGAAGATTTGATGAGATTCATTAACTTACATTTTCCATTATCACTTTTGCTTTGGTGCACAGAGA
9954502 CTATGTCTC
131 CTATGTCTC
9954511 TTTACATAAG-AAAGAAAGTCTTTGTAGTTTTTTGTTG-TAAAAAAAATTCTTGCAAAACTAAAA
1 TTTACATAAGAAAAG-AAGTCTTTGTAGTTTTTTGTTGTTAAAAAAAATTCTTGCAAAACTAAAA
* * *
9954574 GGAGAAGATTTGATGATATTCGTTAACTTACATTTTCCATTATCACTTTTG
65 -AAGAAGATTTGATGAGATTCATTAACTTACATTTTCCATTATCACTTTTG
9954625 TTTTTTTAAG
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
137 26 0.27
138 59 0.61
139 12 0.12
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (139 bp):
TTTACATAAGAAAAGAAGTCTTTGTAGTTTTTTGTTGTTAAAAAAAATTCTTGCAAAACTAAAAA
AGAAGATTTGATGAGATTCATTAACTTACATTTTCCATTATCACTTTTGCTTTGGTGCACAGAGA
CTATGTCTC
Found at i:9957980 original size:15 final size:15
Alignment explanation
Indices: 9957960--9957990 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9957950 GTTAATTTTG
*
9957960 AACCAAATTACCCAA
1 AACCAAATTAACCAA
9957975 AACCAAATTAACCAA
1 AACCAAATTAACCAA
9957990 A
1 A
9957991 TTATGGTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.29, G:0.00, T:0.13
Consensus pattern (15 bp):
AACCAAATTAACCAA
Found at i:9969787 original size:29 final size:27
Alignment explanation
Indices: 9969734--9969790 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
9969724 GTGTCATAAT
*
9969734 TTATATAAAAATTATATATTATTTTTA
1 TTATATAAAAATTAAATATTATTTTTA
9969761 TTATATAAAAATATAAA-ATATATTTTTA
1 TTATATAAAAAT-TAAATAT-TATTTTTA
9969789 TT
1 TT
9969791 TTATTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTATATAAAAATTAAATATTATTTTTA
Found at i:9969804 original size:22 final size:23
Alignment explanation
Indices: 9969779--9969838 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
9969769 AAATATAAAA
9969779 TATATTTTTATTTTATT-AAATT
1 TATATTTTTATTTTATTAAAATT
**
9969801 TATATTAATA-TTTATTAAAATT
1 TATATTTTTATTTTATTAAAATT
*
9969823 TTTAATTTTTAATTTT
1 TAT-ATTTTT-ATTTT
9969839 TTACTTTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 6 0.21
22 15 0.52
23 4 0.14
24 1 0.03
25 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATATTTTTATTTTATTAAAATT
Found at i:9975111 original size:12 final size:11
Alignment explanation
Indices: 9975091--9975129 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
9975081 ATATTTTAAA
9975091 ATTTTTTATAT
1 ATTTTTTATAT
9975102 ATTATTTTATAT
1 ATT-TTTTATAT
*
9975114 AATTTTTAATAT
1 -ATTTTTTATAT
9975126 ATTT
1 ATTT
9975130 AAATATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 7 0.28
12 15 0.60
13 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTTTATAT
Done.