Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 72 of 214
Found at i:20638265 original size:17 final size:17
Alignment explanation
Indices: 20638239--20638280 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
20638229 ATTGCATGGG
*
20638239 AGGATTCATGAACTCGA
1 AGGATACATGAACTCGA
* *
20638256 AGGATACATGTACTTGA
1 AGGATACATGAACTCGA
20638273 A-GATACAT
1 AGGATACAT
20638281 CGCATGGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (17 bp):
AGGATACATGAACTCGA
Found at i:20639213 original size:25 final size:25
Alignment explanation
Indices: 20639185--20639235 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
20639175 AACACGAGTG
20639185 TGAGTGTTATCATCAAGTTGAGTAC
1 TGAGTGTTATCATCAAGTTGAGTAC
20639210 TGAGTGTTATCATCAAGTTGAGTAC
1 TGAGTGTTATCATCAAGTTGAGTAC
20639235 T
1 T
20639236 AACACGTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (25 bp):
TGAGTGTTATCATCAAGTTGAGTAC
Found at i:20642245 original size:49 final size:49
Alignment explanation
Indices: 20642189--20642286 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
20642179 AAAAAAAAAG
* *
20642189 TAAGCAATCTGGAATCTGGAAATCATGGATAATATAGTATGAATATGAT
1 TAAGCAATCTGGAATCTAGAAATCATGGATAATAGAGTATGAATATGAT
*
20642238 TAAGCAATCTGGAATTTAGAAATCATGGATAATAGAGTATGAATATGAT
1 TAAGCAATCTGGAATCTAGAAATCATGGATAATAGAGTATGAATATGAT
20642287 ACTTATACAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (49 bp):
TAAGCAATCTGGAATCTAGAAATCATGGATAATAGAGTATGAATATGAT
Found at i:20645076 original size:37 final size:37
Alignment explanation
Indices: 20645013--20645125 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 37
20645003 ATTCCAAAAA
*
20645013 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
20645049 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
* *
20645087 GAAGTGATTATCTTAATA--TTAA-ATTTAATCTAATATT
1 TAA-T-ATTATCTTAATAGTTTAATATTAAAT-TAATATT
20645124 TA
1 TA
20645126 TCTTGATAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
36 12 0.19
37 30 0.48
38 7 0.11
39 12 0.19
40 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:20645108 original size:68 final size:69
Alignment explanation
Indices: 20645031--20645165 Score: 200
Period size: 68 Copynumber: 2.0 Consensus size: 69
20645021 TTTTAATAGT
* * * *
20645031 TTAATATTAAATTAAATTTAATACTTATCTTAAT-AGTATTTTATTAATTTAATATTGAAGTGAT
1 TTAATATTAAATTAAATCTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
20645095 TATC
66 TATC
* * *
20645099 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATCTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
20645164 TA
66 TA
20645166 AGTTAAATCA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
68 30 0.51
69 29 0.49
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTAAATCTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:20649834 original size:17 final size:17
Alignment explanation
Indices: 20649812--20649844 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20649802 TAAGAGGGTT
*
20649812 AAAAATAAATAAATAAC
1 AAAAATAAAGAAATAAC
20649829 AAAAATAAAGAAATAA
1 AAAAATAAAGAAATAA
20649845 AGAAAGTTAA
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:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAATAAAGAAATAAC
Found at i:20656998 original size:18 final size:19
Alignment explanation
Indices: 20656975--20657012 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
20656965 TTTAATTGGG
20656975 AAATTAATTAATTA-ATTT
1 AAATTAATTAATTATATTT
*
20656993 AAATTAATTCATTATATTT
1 AAATTAATTAATTATATTT
20657012 A
1 A
20657013 TTTTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTAATTAATTATATTT
Found at i:20658792 original size:43 final size:43
Alignment explanation
Indices: 20658697--20658824 Score: 197
Period size: 43 Copynumber: 3.0 Consensus size: 43
20658687 TCATATTTCA
*
20658697 TTTCTCATCTCAAAATTATTTCTCATATTTGTCA-TTCAATAT
1 TTTCTCATCTCATAATTATTTCTCATATTTGTCATTTCAATAT
* *
20658739 TTTCTCATCTCATAATTATTTCTCGTAATTGTCATTTCAATAT
1 TTTCTCATCTCATAATTATTTCTCATATTTGTCATTTCAATAT
*
20658782 TTTCTCATCTCAT-ATTCATTTCTCATCTTTGTCATTTCAATAT
1 TTTCTCATCTCATAATT-ATTTCTCATATTTGTCATTTCAATAT
20658825 CAATCACATA
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
42 34 0.44
43 44 0.56
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.52
Consensus pattern (43 bp):
TTTCTCATCTCATAATTATTTCTCATATTTGTCATTTCAATAT
Found at i:20659536 original size:5 final size:5
Alignment explanation
Indices: 20659509--20659550 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
20659499 GCTTCTTCTC
20659509 CTTTT C-TTT C-TTT C-TTT CTTTTT CTTTT CTTTT CTTTT CTTT
1 CTTTT CTTTT CTTTT CTTTT C-TTTT CTTTT CTTTT CTTTT CTTT
20659551 GTTTAATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 12 0.34
5 19 0.54
6 4 0.11
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:20662266 original size:56 final size:57
Alignment explanation
Indices: 20662205--20662329 Score: 155
Period size: 56 Copynumber: 2.2 Consensus size: 57
20662195 TCTTATAAAA
* * * *
20662205 TGATAATGGAGTATGAAACTGAAATGAAATACGTG-AATTTAGTATGAGTTTAT-GAT
1 TGATAATAGAATATGAAACTGAAATGAAATACGTGAAATTGA-TATGAATTTATGGAT
* * * *
20662261 TGATAATAGAATTTGAAATTGAAATGAATTATGTGAAATTGATATGAATTTATGGAT
1 TGATAATAGAATATGAAACTGAAATGAAATACGTGAAATTGATATGAATTTATGGAT
20662318 TGATAATAGAAT
1 TGATAATAGAAT
20662330 TTGATATAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
56 39 0.66
57 20 0.34
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.36
Consensus pattern (57 bp):
TGATAATAGAATATGAAACTGAAATGAAATACGTGAAATTGATATGAATTTATGGAT
Found at i:20662329 original size:20 final size:20
Alignment explanation
Indices: 20662258--20662331 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
20662248 ATGAGTTTAT
20662258 GATTGATAATAGAA-TT-TGA
1 GATTGATAAT-GAATTTATGA
* *
20662277 AATTGA-AATGAATTATGTGA
1 GATTGATAATGAATT-TATGA
*
20662297 AATTGAT-ATGAATTTATG-
1 GATTGATAATGAATTTATGA
20662315 GATTGATAATAGAATTT
1 GATTGATAAT-GAATTT
20662332 GATATAGGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
17 3 0.07
18 10 0.22
19 11 0.24
20 22 0.48
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (20 bp):
GATTGATAATGAATTTATGA
Found at i:20662344 original size:57 final size:56
Alignment explanation
Indices: 20662225--20662358 Score: 180
Period size: 57 Copynumber: 2.4 Consensus size: 56
20662215 GTATGAAACT
* * * * *
20662225 GAAATGAAATACGTG-AATTTAGTATGAGTTTATGATTGATAATAGAATTTGAAATT
1 GAAATGAATTATGTGAAATTGA-TATGAATTTATGATTGATAATAGAATTTGAAATA
*
20662281 GAAATGAATTATGTGAAATTGATATGAATTTATGGATTGATAATAGAATTTGATATA
1 GAAATGAATTATGTGAAATTGATATGAATTTAT-GATTGATAATAGAATTTGAAATA
*
20662338 GGAATGAATTATGTGAAATTG
1 GAAATGAATTATGTGAAATTG
20662359 GTATATGCTA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
56 23 0.33
57 46 0.67
ACGTcount: A:0.41, C:0.01, G:0.21, T:0.37
Consensus pattern (56 bp):
GAAATGAATTATGTGAAATTGATATGAATTTATGATTGATAATAGAATTTGAAATA
Found at i:20669784 original size:11 final size:11
Alignment explanation
Indices: 20669747--20669791 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
20669737 TTCCAGCAAA
20669747 TAAAATTTGAGC
1 TAAAA-TTGAGC
*
20669759 TAAAA-TGAAC
1 TAAAATTGAGC
20669769 TAAAATTGAGC
1 TAAAATTGAGC
20669780 TAAAATTGAGC
1 TAAAATTGAGC
20669791 T
1 T
20669792 TGGAGAAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 9 0.30
11 16 0.53
12 5 0.17
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (11 bp):
TAAAATTGAGC
Found at i:20670556 original size:9 final size:9
Alignment explanation
Indices: 20670540--20670692 Score: 189
Period size: 9 Copynumber: 16.6 Consensus size: 9
20670530 TTTGGTTAAA
20670540 AATTACCCG
1 AATTACCCG
*
20670549 ACTTACCCG
1 AATTACCCG
*
20670558 ACTTACCCG
1 AATTACCCG
*
20670567 AATTACCTG
1 AATTACCCG
*
20670576 ACTTACCCG
1 AATTACCCG
*
20670585 AATTACTCG
1 AATTACCCG
* *
20670594 ACTTACTCG
1 AATTACCCG
20670603 AATTACCCG
1 AATTACCCG
20670612 AATTACCCG
1 AATTACCCG
20670621 AATTACCCG
1 AATTACCCG
*
20670630 AAAATTACCCA
1 --AATTACCCG
20670641 AATTACCCG
1 AATTACCCG
20670650 AATTACCCG
1 AATTACCCG
*
20670659 AAAATTACCCA
1 --AATTACCCG
20670670 AATTACCCG
1 AATTACCCG
20670679 AATTACCCG
1 AATTACCCG
20670688 AATTA
1 AATTA
20670693 AATCACTACA
Statistics
Matches: 126, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
9 110 0.87
11 16 0.13
ACGTcount: A:0.35, C:0.32, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:20670644 original size:29 final size:29
Alignment explanation
Indices: 20670620--20670689 Score: 140
Period size: 29 Copynumber: 2.4 Consensus size: 29
20670610 CGAATTACCC
20670620 GAATTACCCGAAAATTACCCAAATTACCC
1 GAATTACCCGAAAATTACCCAAATTACCC
20670649 GAATTACCCGAAAATTACCCAAATTACCC
1 GAATTACCCGAAAATTACCCAAATTACCC
20670678 GAATTACCCGAA
1 GAATTACCCGAA
20670690 TTAAATCACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.41, C:0.30, G:0.09, T:0.20
Consensus pattern (29 bp):
GAATTACCCGAAAATTACCCAAATTACCC
Found at i:20670721 original size:17 final size:17
Alignment explanation
Indices: 20670699--20670759 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
20670689 ATTAAATCAC
20670699 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
20670716 TACATAAATATTTGAATCAC
1 TACAT--A-ATTAAAAACAT
*
20670736 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
20670753 TACATAA
1 TACATAA
20670760 GTCTTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 18 0.56
18 1 0.03
19 1 0.03
20 12 0.38
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:20670797 original size:37 final size:37
Alignment explanation
Indices: 20670693--20670805 Score: 183
Period size: 37 Copynumber: 3.1 Consensus size: 37
20670683 ACCCGAATTA
* * *
20670693 AATCACTACATAATTAAAAACATTACATAAATATTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
20670730 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
20670767 AATCACTACATAATTAAAGATATTACATAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
20670803 AAT
1 AAT
20670806 TAACACATAA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 6 0.08
37 66 0.92
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:20670873 original size:24 final size:24
Alignment explanation
Indices: 20670846--20670904 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
20670836 ATTCTCCATT
*
20670846 TATATCCATTTCATCTTTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
20670870 TATATCCATTTCATCTCTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
20670894 TATCTCCATTT
1 TATATCCATTT
20670905 GCATTAAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (24 bp):
TATATCCATTTCATCTCTCCAAAA
Found at i:20672896 original size:15 final size:15
Alignment explanation
Indices: 20672876--20672906 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20672866 CCCCCCTTCA
20672876 ACTCCCTTTCTAGGT
1 ACTCCCTTTCTAGGT
20672891 ACTCCCTTTCTAGGT
1 ACTCCCTTTCTAGGT
20672906 A
1 A
20672907 AAACTAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.32, G:0.13, T:0.39
Consensus pattern (15 bp):
ACTCCCTTTCTAGGT
Found at i:20673625 original size:17 final size:17
Alignment explanation
Indices: 20673603--20673638 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
20673593 TGAATTAAGG
20673603 TATGAAAAATAATCTTA
1 TATGAAAAATAATCTTA
20673620 TATGAAAAATAATCTTA
1 TATGAAAAATAATCTTA
20673637 TA
1 TA
20673639 CGACTGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
TATGAAAAATAATCTTA
Found at i:20673857 original size:8 final size:8
Alignment explanation
Indices: 20673844--20673868 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20673834 AAATGTTCGC
20673844 ATTTAATT
1 ATTTAATT
20673852 ATTTAATT
1 ATTTAATT
20673860 ATTTAATT
1 ATTTAATT
20673868 A
1 A
20673869 ACAATATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTAATT
Found at i:20674003 original size:27 final size:27
Alignment explanation
Indices: 20673973--20674025 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
20673963 AAAGATGAAA
*
20673973 GAAAAAATTAAGACAATAGTATACAAT
1 GAAAAAATTAAGACAATAATATACAAT
20674000 GAAAAAATTAAGACAATAATATACAA
1 GAAAAAATTAAGACAATAATATACAA
20674026 CGACATAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.62, C:0.08, G:0.09, T:0.21
Consensus pattern (27 bp):
GAAAAAATTAAGACAATAATATACAAT
Found at i:20678756 original size:17 final size:17
Alignment explanation
Indices: 20678734--20678771 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
20678724 GCTGTACTCT
20678734 TTTTCCCTTAACCGATG
1 TTTTCCCTTAACCGATG
20678751 TTTTCCCTTAACCGATG
1 TTTTCCCTTAACCGATG
20678768 TTTT
1 TTTT
20678772 GTCTCATTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.26, G:0.11, T:0.47
Consensus pattern (17 bp):
TTTTCCCTTAACCGATG
Found at i:20679305 original size:11 final size:11
Alignment explanation
Indices: 20679291--20679341 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
20679281 AATAAATAAA
*
20679291 TATAATTATTT
1 TATAATTATAT
20679302 TATAATTATAT
1 TATAATTATAT
* *
20679313 TATAATGATTT
1 TATAATTATAT
*
20679324 TCATTATTATAT
1 T-ATAATTATAT
20679336 TATAAT
1 TATAAT
20679342 ATTATAATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TATAATTATAT
Found at i:20679336 original size:23 final size:22
Alignment explanation
Indices: 20679291--20679341 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
20679281 AATAAATAAA
*
20679291 TATAATTATTTTATAATTATAT
1 TATAATGATTTTATAATTATAT
*
20679313 TATAATGATTTTCATTATTATAT
1 TATAATGATTTT-ATAATTATAT
20679336 TATAAT
1 TATAAT
20679342 ATTATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATAATGATTTTATAATTATAT
Found at i:20679343 original size:8 final size:8
Alignment explanation
Indices: 20679326--20679360 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
20679316 AATGATTTTC
*
20679326 ATTATTAT
1 ATTATAAT
20679334 ATTATAAT
1 ATTATAAT
20679342 ATTATAAT
1 ATTATAAT
20679350 ATTAATAAT
1 ATT-ATAAT
20679359 AT
1 AT
20679361 ATTATTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
ATTATAAT
Found at i:20683877 original size:30 final size:30
Alignment explanation
Indices: 20683825--20683891 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
20683815 AACGTAGGGG
*
20683825 AGATAGGAATGGCCTTTAGAGTTGTCAGGA
1 AGATAGGAATGGCCTTTAGAGTTCTCAGGA
* *
20683855 AGATATGG-ATGGGCTTTCGAGTTCTCAGGA
1 AGATA-GGAATGGCCTTTAGAGTTCTCAGGA
*
20683885 ACATAGG
1 AGATAGG
20683892 GGGACATAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.06
30 28 0.88
31 2 0.06
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (30 bp):
AGATAGGAATGGCCTTTAGAGTTCTCAGGA
Found at i:20685631 original size:40 final size:40
Alignment explanation
Indices: 20685576--20685652 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
20685566 AATTATTGCT
* * *
20685576 TCCACGTCAGCAAATCGCACTTACATGGGCGCGATTTGTG
1 TCCACGTAAGCAAATCGCACTGACATGGACGCGATTTGTG
*
20685616 TCCACGTAAGCAAATCGCGCTGACATGGACGCGATTT
1 TCCACGTAAGCAAATCGCACTGACATGGACGCGATTT
20685653 CGGGGAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (40 bp):
TCCACGTAAGCAAATCGCACTGACATGGACGCGATTTGTG
Found at i:20693699 original size:5 final size:5
Alignment explanation
Indices: 20693689--20693714 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20693679 TTTTAGAATT
20693689 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
20693715 GTTTGCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:20695516 original size:19 final size:18
Alignment explanation
Indices: 20695483--20695568 Score: 59
Period size: 19 Copynumber: 4.4 Consensus size: 18
20695473 ATGGTAAAAA
*
20695483 ATAAAAATCAATAAATATT
1 ATAAAAAT-ATTAAATATT
*
20695502 ATAAAAATGATTAAATTTT
1 ATAAAAAT-ATTAAATATT
20695521 AATTAAAAA-ATTTAAA-ATTT
1 -A-TAAAAATA-TTAAATA-TT
*
20695541 ATTAAAAATTATAAAATATT
1 A-TAAAAA-TATTAAATATT
20695561 ATAAAAAT
1 ATAAAAAT
20695569 TGTAAAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
18 1 0.02
19 31 0.56
20 15 0.27
21 8 0.15
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (18 bp):
ATAAAAATATTAAATATT
Found at i:20695569 original size:19 final size:19
Alignment explanation
Indices: 20695495--20695585 Score: 87
Period size: 19 Copynumber: 4.6 Consensus size: 19
20695485 AAAAATCAAT
* *
20695495 AAATATTATAAAAATGATT
1 AAATATTATAAAAATTATA
*
20695514 AAATTTTAATTAAAAAATT-TA
1 AAATATT-A-T-AAAAATTATA
20695535 AAAT-TTATTAAAAATTATA
1 AAATATTA-TAAAAATTATA
*
20695554 AAATATTATAAAAATTGTA
1 AAATATTATAAAAATTATA
20695573 AAATATATATAAA
1 AAATAT-TATAAA
20695586 TATAGAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.11
19 31 0.50
20 12 0.19
21 6 0.10
22 6 0.10
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATATTATAAAAATTATA
Found at i:20695574 original size:9 final size:9
Alignment explanation
Indices: 20695521--20695604 Score: 64
Period size: 10 Copynumber: 9.0 Consensus size: 9
20695511 ATTAAATTTT
20695521 AATTA-AAA
1 AATTATAAA
20695529 AATT-TAAA
1 AATTATAAA
*
20695537 ATTTATTAAA
1 AATTA-TAAA
20695547 AATTATAAA
1 AATTATAAA
20695556 ATATTATAAA
1 A-ATTATAAA
*
20695566 AATTGTAAA
1 AATTATAAA
20695575 ATATATATAAA
1 A-AT-TATAAA
* * *
20695586 TATAGAAAAA
1 AAT-TATAAA
20695596 AATTATAAA
1 AATTATAAA
20695605 TTTTTATAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
8 10 0.17
9 17 0.28
10 28 0.47
11 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
AATTATAAA
Found at i:20695594 original size:19 final size:19
Alignment explanation
Indices: 20695533--20695604 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
20695523 TTAAAAAATT
20695533 TAAAAT-TTATTAAAAATTA-
1 TAAAATATTA-TAAAAA-TAG
*
20695552 TAAAATATTATAAAAATTG
1 TAAAATATTATAAAAATAG
*
20695571 TAAAATATATATAAATATAG
1 TAAAATAT-TATAAAAATAG
* *
20695591 AAAAAAATTATAAA
1 TAAAATATTATAAA
20695605 TTTTTATAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.02
19 26 0.58
20 18 0.40
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
TAAAATATTATAAAAATAG
Found at i:20695878 original size:19 final size:18
Alignment explanation
Indices: 20695856--20696000 Score: 111
Period size: 19 Copynumber: 7.9 Consensus size: 18
20695846 TTTTTTATGC
*
20695856 ATTTTTATAATTTTTTAT
1 ATTTTTATAATATTTTAT
* *
20695874 GATTTTTATAAAATTTTACA
1 -ATTTTTATAATATTTTA-T
*
20695894 ATTTTTTTATATATTTTAAT
1 ATTTTTATA-ATATTTT-AT
*
20695914 ATTTTT-TACAAATTTTAT
1 ATTTTTATA-ATATTTTAT
*
20695932 AATTTT-TAATATTTTAT
1 ATTTTTATAATATTTTAT
* *
20695949 CATTTTTATTAAAATTTAAT
1 -ATTTTTA-TAATATTTTAT
20695969 AATTTTTATAA-ATTTTAT
1 -ATTTTTATAATATTTTAT
20695987 -TTTTTATAAT-TTTT
1 ATTTTTATAATATTTT
20696001 TTGCCACATG
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
16 13 0.12
17 8 0.08
18 20 0.19
19 34 0.33
20 28 0.27
21 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (18 bp):
ATTTTTATAATATTTTAT
Found at i:20695976 original size:10 final size:9
Alignment explanation
Indices: 20695856--20696000 Score: 91
Period size: 9 Copynumber: 15.7 Consensus size: 9
20695846 TTTTTTATGC
20695856 ATTTTTATA
1 ATTTTTATA
*
20695865 ATTTTTTATG
1 A-TTTTTATA
20695875 ATTTTTATAA
1 ATTTTTAT-A
* *
20695885 AATTTTACA
1 ATTTTTATA
20695894 ATTTTTTTATA
1 A--TTTTTATA
*
20695905 TATTTTAATA
1 -ATTTTTATA
* *
20695915 TTTTTTACA
1 ATTTTTATA
*
20695924 AATTTTATA
1 ATTTTTATA
20695933 A-TTTT-TA
1 ATTTTTATA
*
20695940 ATATTTTATC
1 AT-TTTTATA
20695950 ATTTTTATTAA
1 ATTTTTA-T-A
* *
20695961 AATTTAATA
1 ATTTTTATA
20695970 ATTTTTATA
1 ATTTTTATA
*
20695979 AATTTTAT-
1 ATTTTTATA
20695987 -TTTTTATA
1 ATTTTTATA
20695995 ATTTTT
1 ATTTTT
20696001 TTGCCACATG
Statistics
Matches: 103, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
7 9 0.09
8 4 0.04
9 52 0.50
10 26 0.25
11 11 0.11
12 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:20696001 original size:10 final size:10
Alignment explanation
Indices: 20695857--20695938 Score: 55
Period size: 10 Copynumber: 8.4 Consensus size: 10
20695847 TTTTTATGCA
20695857 TTTTTATAAT
1 TTTTTATAAT
*
20695867 TTTTTATGA-
1 TTTTTATAAT
*
20695876 TTTTTATAAA
1 TTTTTATAAT
* *
20695886 ATTTTACAAT
1 TTTTTATAAT
20695896 TTTTT-TATAT
1 TTTTTATA-AT
*
20695906 ATTTTA-ATAT
1 TTTTTATA-AT
*
20695916 TTTTTACAA-
1 TTTTTATAAT
*
20695925 ATTTTATAAT
1 TTTTTATAAT
20695935 TTTT
1 TTTT
20695939 AATATTTTAT
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
9 16 0.29
10 38 0.69
11 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:20697331 original size:18 final size:18
Alignment explanation
Indices: 20697308--20697368 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
20697298 GAGTGGAAAA
* *
20697308 AGGATACATATAAGGGTT
1 AGGATACACATAAGAGTT
20697326 AGGATACACATAAGAGTT
1 AGGATACACATAAGAGTT
*
20697344 AGGATACGCATAAGAGTT
1 AGGATACACATAAGAGTT
20697362 AGGATAC
1 AGGATAC
20697369 GCATTTGGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACACATAAGAGTT
Found at i:20698945 original size:19 final size:18
Alignment explanation
Indices: 20698907--20698957 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
20698897 GGCTATTATA
*
20698907 AAAAAATATTAATTAAATT
1 AAAAAA-ATTAAATAAATT
*
20698926 ATAAAAATTAAATAATATT
1 AAAAAAATTAAATAA-ATT
*
20698945 AAAAAAATGAAAT
1 AAAAAAATTAAAT
20698958 TAATCCTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAAAATTAAATAAATT
Found at i:20698949 original size:18 final size:17
Alignment explanation
Indices: 20698908--20698950 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
20698898 GCTATTATAA
*
20698908 AAAAATATTAATTAAATT
1 AAAAA-ATTAAATAAATT
20698926 ATAAAAATTAAATAATATT
1 A-AAAAATTAAATAA-ATT
20698945 AAAAAA
1 AAAAAA
20698951 ATGAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAAATTAAATAAATT
Found at i:20700446 original size:2 final size:2
Alignment explanation
Indices: 20700441--20700480 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
20700431 TCTCTCTCTC
*
20700441 TA TA TA TA TA TA TA TA TA TA T- TA TA T- TA -A TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20700480 T
1 T
20700481 TAAACGTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20714104 original size:17 final size:17
Alignment explanation
Indices: 20714075--20714107 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20714065 GAATTAAAAA
20714075 AATAATAATTTTTTTTG
1 AATAATAATTTTTTTTG
20714092 AATAA-AATATTTTTTT
1 AATAATAAT-TTTTTTT
20714108 ATATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
AATAATAATTTTTTTTG
Found at i:20714479 original size:12 final size:12
Alignment explanation
Indices: 20714462--20714487 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20714452 TTTGTGAATT
20714462 TTTTAGAAGATA
1 TTTTAGAAGATA
20714474 TTTTAGAAGATA
1 TTTTAGAAGATA
20714486 TT
1 TT
20714488 GTGAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTTAGAAGATA
Found at i:20714578 original size:19 final size:19
Alignment explanation
Indices: 20714554--20714671 Score: 99
Period size: 19 Copynumber: 6.5 Consensus size: 19
20714544 TTTGGATTAG
*
20714554 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
*
20714573 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
20714587 AATATTGTA---ATATTAT
1 AATTTTGTATGAATATTGT
*
20714603 AATTTTATATGAATATTGT
1 AATTTTGTATGAATATTGT
20714622 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
20714644 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
20714663 AATATTGTA
1 AATTTTGTA
20714672 ATTTTGTATG
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
14 7 0.09
15 3 0.04
16 9 0.11
18 3 0.04
19 39 0.49
22 18 0.23
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:20714600 original size:8 final size:8
Alignment explanation
Indices: 20714587--20714763 Score: 62
Period size: 8 Copynumber: 21.4 Consensus size: 8
20714577 TTTTTGTATG
20714587 AATATTGT
1 AATATTGT
*
20714595 AATATTAT
1 AATATTGT
20714603 AAT-TT-T
1 AATATTGT
20714609 -ATA-TG-
1 AATATTGT
20714614 AATATTGT
1 AATATTGT
* *
20714622 AATTTTTT
1 AATATTGT
**
20714630 TGTA-TG-
1 AATATTGT
20714636 AATATTGT
1 AATATTGT
*
20714644 AATTTTGTAT
1 AATATTG--T
20714654 GAATATTGT
1 -AATATTGT
20714663 AATATTGT
1 AATATTGT
*
20714671 AATTTTGTAT
1 AATATTG--T
20714681 GAATATTGT
1 -AATATTGT
* * *
20714690 AATGTCGGG
1 AATAT-TGT
20714699 ATATATTGT
1 A-ATATTGT
20714708 AATATTGT
1 AATATTGT
*
20714716 AATTTTGTAT
1 AATATTG--T
20714726 GAATATTGT
1 -AATATTGT
* * *
20714735 AATGTCGGG
1 AATAT-TGT
20714744 ATATATTGT
1 A-ATATTGT
20714753 AATATTGT
1 AATATTGT
20714761 AAT
1 AAT
20714764 TTTTTGTATG
Statistics
Matches: 122, Mismatches: 27, Indels: 40
0.65 0.14 0.21
Matches are distributed among these distances:
5 3 0.02
6 6 0.05
7 7 0.06
8 68 0.56
9 11 0.09
10 9 0.07
11 18 0.15
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (8 bp):
AATATTGT
Found at i:20714616 original size:27 final size:26
Alignment explanation
Indices: 20714578--20714692 Score: 126
Period size: 27 Copynumber: 4.8 Consensus size: 26
20714568 ATTCTAATTT
20714578 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATT-TAA
*
20714605 TTTTATATGAATATTGT-A-ATTT--
1 TTTTGTATGAATATTGTAATATTTAA
20714627 TTTTGTATGAATATTG-------TAA
1 TTTTGTATGAATATTGTAATATTTAA
20714646 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
20714673 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
20714693 GTCGGGATAT
Statistics
Matches: 76, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
17 1 0.01
19 16 0.21
22 15 0.20
24 1 0.01
25 3 0.04
26 1 0.01
27 39 0.51
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (26 bp):
TTTTGTATGAATATTGTAATATTTAA
Found at i:20714626 original size:49 final size:48
Alignment explanation
Indices: 20714561--20714784 Score: 225
Period size: 45 Copynumber: 4.8 Consensus size: 48
20714551 TAGAATTTTG
* ** *
20714561 TATG-AATATTCTAATTTTTTTGTATGAATATTGTAATATTATAATTTTA
1 TATGTAATATTGTAA-TTTTTTGTATGAATATTGTAATATTGGAA-TATA
* *
20714610 TATG-AATATTGTAATTTTTTTGTATGAATATTGTAAT-TTTGTATGA-A
1 TATGTAATATTGTAA-TTTTTTGTATGAATATTGTAATATTGGAAT-ATA
* * *
20714657 TATTGTAATATTGTAA--TTTTGTATGAATATTGTAATGTCGGGATATA
1 TA-TGTAATATTGTAATTTTTTGTATGAATATTGTAATATTGGAATATA
* * *
20714704 T-TGTAATATTGTAA--TTTTGTATGAATATTGTAATGTCGGGATATA
1 TATGTAATATTGTAATTTTTTGTATGAATATTGTAATATTGGAATATA
20714749 T-TGTAATATTGTAATTTTTTGTATGAATATTGTAAT
1 TATGTAATATTGTAATTTTTTGTATGAATATTGTAAT
20714785 TATTTTATAA
Statistics
Matches: 160, Mismatches: 8, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
45 58 0.36
46 21 0.13
47 30 0.19
48 5 0.03
49 46 0.29
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.51
Consensus pattern (48 bp):
TATGTAATATTGTAATTTTTTGTATGAATATTGTAATATTGGAATATA
Found at i:20714692 original size:19 final size:19
Alignment explanation
Indices: 20714595--20714671 Score: 100
Period size: 19 Copynumber: 3.9 Consensus size: 19
20714585 TGAATATTGT
* *
20714595 AATATTATAATTTTATATG
1 AATATTGTAATTTTGTATG
20714614 AATATTGTAATTTTTTTGTATG
1 AATATTGTAA---TTTTGTATG
20714636 AATATTGTAATTTTGTATG
1 AATATTGTAATTTTGTATG
*
20714655 AATATTGTAATATTGTA
1 AATATTGTAATTTTGTA
20714672 ATTTTGTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
19 34 0.65
22 18 0.35
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (19 bp):
AATATTGTAATTTTGTATG
Found at i:20714714 original size:26 final size:26
Alignment explanation
Indices: 20714682--20714763 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 26
20714672 ATTTTGTATG
20714682 AATATTGTAATGTCGGGATATATTGT
1 AATATTGTAATGTCGGGATATATTGT
* *
20714708 AATATTGTAAT-T----TTGTA-TG-
1 AATATTGTAATGTCGGGATATATTGT
20714727 AATATTGTAATGTCGGGATATATTGT
1 AATATTGTAATGTCGGGATATATTGT
20714753 AATATTGTAAT
1 AATATTGTAAT
20714764 TTTTTGTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
19 11 0.24
20 3 0.07
21 3 0.07
24 3 0.07
25 3 0.07
26 22 0.49
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (26 bp):
AATATTGTAATGTCGGGATATATTGT
Found at i:20714720 original size:45 final size:45
Alignment explanation
Indices: 20714627--20714784 Score: 246
Period size: 45 Copynumber: 3.4 Consensus size: 45
20714617 ATTGTAATTT
** *
20714627 TTTTGTATGAATATTGTAAT-TTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATGTCGGGAT--ATATTGTAATATTGTAA
20714673 TTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGTAA
20714718 TTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGTAA
20714763 TTTTTTGTATGAATATTGTAAT
1 --TTTTGTATGAATATTGTAAT
20714785 TATTTTATAA
Statistics
Matches: 106, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
45 62 0.58
46 20 0.19
47 24 0.23
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.50
Consensus pattern (45 bp):
TTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGTAA
Found at i:20714859 original size:60 final size:60
Alignment explanation
Indices: 20714778--20714899 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
20714768 TGTATGAATA
* * * * *
20714778 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
20714838 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
20714898 TT
1 TT
20714900 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:20714984 original size:37 final size:37
Alignment explanation
Indices: 20714933--20715013 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
20714923 CATATAAAGT
20714933 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTAT-AAAAAATTAAAAATCATTTTATTAAAAGTTTAA
*
20714971 TTATAAAAAATTAAAAATTATTTTATTAAAAGTTTAA
1 TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
20715008 TTATAA
1 TTATAA
20715014 TTGACTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 38 0.90
38 4 0.10
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (37 bp):
TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
Found at i:20715394 original size:122 final size:122
Alignment explanation
Indices: 20715177--20715423 Score: 413
Period size: 122 Copynumber: 2.0 Consensus size: 122
20715167 GATCAATAAA
*
20715177 ACAGTTTTATTGATCTTGCAAATATGCAATCAAAAAAATAAATTCAATTAATTTGTTTCAAAAAA
1 ACAGTTTTATTGATCCTGCAAATATGCAATCAAAAAAATAAATTCAATTAATTTGTTTCAAAAAA
20715242 TCAATAAATACTGTTAAATAAATACAAAATCAAATAAAATTAAATTATATAAAAGTT
66 TCAATAAATACTGTTAAATAAATACAAAATCAAATAAAATTAAATTATATAAAAGTT
* * * **
20715299 ACAGTTTTATTGATCCTGCAAATCTGCAATCAAAAAAATGAATTCAGTTAATTTGTTTTTAAAAA
1 ACAGTTTTATTGATCCTGCAAATATGCAATCAAAAAAATAAATTCAATTAATTTGTTTCAAAAAA
* * *
20715364 TCAATAATTACTGTTAAATAAATACAAAATCAAATTAAATTAAATTTTATAAAAGTT
66 TCAATAAATACTGTTAAATAAATACAAAATCAAATAAAATTAAATTATATAAAAGTT
20715421 ACA
1 ACA
20715424 TTATATAAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
122 116 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (122 bp):
ACAGTTTTATTGATCCTGCAAATATGCAATCAAAAAAATAAATTCAATTAATTTGTTTCAAAAAA
TCAATAAATACTGTTAAATAAATACAAAATCAAATAAAATTAAATTATATAAAAGTT
Found at i:20715517 original size:37 final size:37
Alignment explanation
Indices: 20715475--20715554 Score: 160
Period size: 37 Copynumber: 2.2 Consensus size: 37
20715465 AAAAAGTCAG
20715475 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTT
20715512 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTT
20715549 TTATAA
1 TTATAA
20715555 ACTTTATATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (37 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTT
Found at i:20715664 original size:60 final size:60
Alignment explanation
Indices: 20715588--20715709 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
20715578 ATACTAAACT
* * * * *
20715588 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
*
20715648 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
20715708 AA
1 AA
20715710 TATTCATACA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 4 0.07
60 51 0.93
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:20715774 original size:19 final size:19
Alignment explanation
Indices: 20715750--20715983 Score: 123
Period size: 19 Copynumber: 12.2 Consensus size: 19
20715740 ATATCCCGAC
20715750 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
20715769 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATAC---AAA
* *
20715791 ATTGCAATATTCATATAAA
1 ATTACAATATTCATACAAA
* * *
20715810 ATTATAA-AAT--TACAAT
1 ATTACAATATTCATACAAA
*
20715826 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
20715840 ATTACAATATTCACACAAA
1 ATTACAATATTCATACAAA
*
20715859 ATTACAATATTCATGCAAA
1 ATTACAATATTCATACAAA
* * *
20715878 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
20715898 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
20715920 ATTACAATATTCATAAAAA
1 ATTACAATATTCATACAAA
20715939 ATTACAATATTCATACAAAAAAA
1 ATTACAATATTCATAC----AAA
*
20715962 ATTAGAATATTCATACAAA
1 ATTACAATATTCATACAAA
20715981 ATT
1 ATT
20715984 CTAATCCAAA
Statistics
Matches: 166, Mismatches: 23, Indels: 52
0.69 0.10 0.22
Matches are distributed among these distances:
14 7 0.04
15 2 0.01
16 10 0.06
17 3 0.02
18 10 0.06
19 72 0.43
20 13 0.08
21 2 0.01
22 22 0.13
23 23 0.14
25 2 0.01
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:20715811 original size:41 final size:41
Alignment explanation
Indices: 20715750--20715983 Score: 185
Period size: 41 Copynumber: 5.5 Consensus size: 41
20715740 ATATCCCGAC
20715750 ATTACAATATTCATACAAAATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTCATACAAAAAA
* *
20715791 ATTGCAATATTCATATAAAATTATAAAATTACAATATTCATACAAAAAA
1 ATTACAATATTC-------A-TACAAAATTACAATATTCATACAAAAAA
* *
20715840 ATTACAATATTCACACAAAATTACAATATTCATGCAAAATACTA
1 ATTACAATATTCATACAAAATTACAATATTCATACAAAA-A--A
* * * * * *
20715884 A-TCCAA-A-AC-TA-TAAA-TACAA-ATTTAATTATAAAATA
1 ATTACAATATTCATACAAAATTACAATA-TTCA-TACAAAAAA
*
20715920 ATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTCATAC-AAAAAA
*
20715962 ATTAGAATATTCATACAAAATT
1 ATTACAATATTCATACAAAATT
20715984 CTAATCCAAA
Statistics
Matches: 150, Mismatches: 22, Indels: 41
0.70 0.10 0.19
Matches are distributed among these distances:
36 2 0.01
37 5 0.03
38 9 0.06
39 9 0.06
40 3 0.02
41 40 0.27
42 36 0.24
43 5 0.03
44 2 0.01
48 1 0.01
49 38 0.25
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (41 bp):
ATTACAATATTCATACAAAATTACAATATTCATACAAAAAA
Found at i:20715822 original size:49 final size:49
Alignment explanation
Indices: 20715766--20715862 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
20715756 ATATTCATAC
* * *
20715766 AAAATTACAATATTCATACAAAAAAATTGCAATATTCATATAAAATTAT
1 AAAATTACAATATTCATACAAAAAAATTACAATATTCACACAAAATTAT
20715815 AAAATTACAATATTCATACAAAAAAATTACAATATTCACACAAAATTA
1 AAAATTACAATATTCATACAAAAAAATTACAATATTCACACAAAATTA
20715863 CAATATTCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (49 bp):
AAAATTACAATATTCATACAAAAAAATTACAATATTCACACAAAATTAT
Found at i:20715991 original size:103 final size:99
Alignment explanation
Indices: 20715817--20716000 Score: 262
Period size: 103 Copynumber: 1.8 Consensus size: 99
20715807 AAAATTATAA
* *
20715817 AATTACAATATTCATACAAAAAAATTACAATATTCACACAAAATTACAATATTCATGCAAAATAC
1 AATTACAATATTCAT--AAAAAAATTACAATATTCACAAAAAATTACAATATTCATACAAAATAC
20715882 TAATCCAAAACTATAAATACAAATTTAATTATAAAAT
64 TAATCC-AAACTATAAATACAAATTTAATTATAAAAT
*
20715919 AATTACAATATTCAT-AAAAAATTACAATATTCATACAAAAAAAATTAGAATATTCATACAAAAT
1 AATTACAATATTCATAAAAAAATTACAATATTC--AC--AAAAAATTACAATATTCATACAAAAT
*
20715983 TCTAATCCAAACTATAAA
62 ACTAATCCAAACTATAAA
20716001 CACTAAATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
99 17 0.23
101 2 0.03
102 25 0.34
103 30 0.41
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.29
Consensus pattern (99 bp):
AATTACAATATTCATAAAAAAATTACAATATTCACAAAAAATTACAATATTCATACAAAATACTA
ATCCAAACTATAAATACAAATTTAATTATAAAAT
Found at i:20716041 original size:103 final size:101
Alignment explanation
Indices: 20715817--20716053 Score: 252
Period size: 103 Copynumber: 2.3 Consensus size: 101
20715807 AAAATTATAA
* * *
20715817 AATTACAATATTCATACAAAAAAATTACAATATTCACACAAAATTACAATATTCATGCAAAATAC
1 AATTACAATATTAATA-AAAAAAATTACAATATTCACAAAAAATTACAATATTCATACAAAATAC
* * *
20715882 TAATCCAAAACTATAAATACAAATTTAATTATAAAAT
65 TAATCCAAAACTATAAACACAAATATAATAATAAAAT
* *
20715919 AATTACAATATTCAT--AAAAAATTACAATATTCATACAAAAAAAATTAGAATATTCATACAAAA
1 AATTACAATATTAATAAAAAAAATTACAATATTC--AC--AAAAAATTACAATATTCATACAAAA
* **
20715982 TTCTAATCC-AAACTATAAACACTAAATATAGATAAT-TTAT
62 TACTAATCCAAAACTATAAACAC-AAATATA-ATAATAAAAT
20716022 AATT--AATAATTAATAAAAAAAATTCACAATAT
1 AATTACAAT-ATTAATAAAAAAAATT-ACAATAT
20716054 CTTCTAAAAT
Statistics
Matches: 115, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
99 17 0.15
101 5 0.04
102 32 0.28
103 42 0.37
104 12 0.10
105 7 0.06
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.30
Consensus pattern (101 bp):
AATTACAATATTAATAAAAAAAATTACAATATTCACAAAAAATTACAATATTCATACAAAATACT
AATCCAAAACTATAAACACAAATATAATAATAAAAT
Found at i:20716446 original size:17 final size:18
Alignment explanation
Indices: 20716424--20716457 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
20716414 TAAAAAATAT
20716424 AAAAAAATATT-TTATTC
1 AAAAAAATATTATTATTC
20716441 AAAAAAATATTATTATT
1 AAAAAAATATTATTATT
20716458 ATTTTATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAAAAATATTATTATTC
Found at i:20717950 original size:32 final size:32
Alignment explanation
Indices: 20717914--20717977 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
20717904 TGGAACAAAA
20717914 CATGTTTATGGTGATATTTTTGTGTGCAAGAG
1 CATGTTTATGGTGATATTTTTGTGTGCAAGAG
20717946 CATGTTTATGGTGATATTTTTGTGTGCAAGAG
1 CATGTTTATGGTGATATTTTTGTGTGCAAGAG
20717978 GAAACTGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.44
Consensus pattern (32 bp):
CATGTTTATGGTGATATTTTTGTGTGCAAGAG
Found at i:20719974 original size:22 final size:23
Alignment explanation
Indices: 20719919--20719961 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
20719909 AATATGTTTA
20719919 TTTACAGTTTATTAAATTAAGTG
1 TTTACAGTTTATTAAATTAAGTG
20719942 TTTACAGTTTATT-AATTAAG
1 TTTACAGTTTATTAAATTAAG
20719962 CTTATTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.49
Consensus pattern (23 bp):
TTTACAGTTTATTAAATTAAGTG
Found at i:20721043 original size:18 final size:18
Alignment explanation
Indices: 20721022--20721062 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
20721012 GGTATTGTAG
20721022 TTCATTTGAAAAAAAAAT
1 TTCATTTGAAAAAAAAAT
**
20721040 TTCAATTTTTAAAAAAAAT
1 TTC-ATTTGAAAAAAAAAT
20721059 TTCA
1 TTCA
20721063 GCATCCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.39
Consensus pattern (18 bp):
TTCATTTGAAAAAAAAAT
Found at i:20721444 original size:96 final size:96
Alignment explanation
Indices: 20721280--20721470 Score: 328
Period size: 96 Copynumber: 2.0 Consensus size: 96
20721270 GCTTTGCAAA
*
20721280 TCGACCCACAACGACTGCTTCTAAGTCTAACTAGTCCTTTTGAGAACTTAAAGAGGCAGAGTGAG
1 TCGACCCACAACGAATGCTTCTAAGTCTAACTAGTCCTTTTGAGAACTTAAAGAGGCAGAGTGAG
20721345 CGGAAAAAGGCAAGAGAAAGTGAGACTATTG
66 CGGAAAAAGGCAAGAGAAAGTGAGACTATTG
* * * * *
20721376 TCGACCCACAATGAATGCTTTTAAGTGTAACTAGTTCTTTTGAGAACTTAGAGAGGCAGAGTGAG
1 TCGACCCACAACGAATGCTTCTAAGTCTAACTAGTCCTTTTGAGAACTTAAAGAGGCAGAGTGAG
20721441 CGGAAAAAGGCAAGAGAAAGTGAGACTATT
66 CGGAAAAAGGCAAGAGAAAGTGAGACTATT
20721471 CAAGCAAGTA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.23
Consensus pattern (96 bp):
TCGACCCACAACGAATGCTTCTAAGTCTAACTAGTCCTTTTGAGAACTTAAAGAGGCAGAGTGAG
CGGAAAAAGGCAAGAGAAAGTGAGACTATTG
Found at i:20723242 original size:16 final size:14
Alignment explanation
Indices: 20723217--20723251 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
20723207 ATTGAAATTG
20723217 AAAGAAAAGAAAGAA
1 AAAGAAAAGAAA-AA
20723232 AAAGTAAAAGAAAAA
1 AAAG-AAAAGAAAAA
20723247 AAAGA
1 AAAGA
20723252 TTGAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 10 0.53
16 8 0.42
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAGAAAAGAAAAA
Found at i:20723244 original size:25 final size:25
Alignment explanation
Indices: 20723216--20723275 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
20723206 AATTGAAATT
20723216 GAAAGAAAAGAAAGAAAAAGTA-AAA
1 GAAAGAAAAGAAAGAAAAAG-AGAAA
* **
20723241 GAAAAAAAAGATTGAAAAAGAGAAA
1 GAAAGAAAAGAAAGAAAAAGAGAAA
20723266 GAAAAGAAAA
1 G-AAAGAAAA
20723276 ACGATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 1 0.03
25 21 0.72
26 7 0.24
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (25 bp):
GAAAGAAAAGAAAGAAAAAGAGAAA
Found at i:20723285 original size:37 final size:38
Alignment explanation
Indices: 20723213--20723285 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
20723203 ATCAATTGAA
*
20723213 ATTGAAAGAAAAGAAAGAAAAAGTAAAAGAAAAAAAAG
1 ATTGAAAGAAAAGAAAGAAAAAGAAAAAGAAAAAAAAG
* *
20723251 ATTGAAA-AAGAGAAAG-AAAAGAAAAACGATAAAAA
1 ATTGAAAGAAAAGAAAGAAAAAGAAAAA-GAAAAAAA
20723286 GAAAGGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 9 0.29
37 15 0.48
38 7 0.23
ACGTcount: A:0.73, C:0.01, G:0.18, T:0.08
Consensus pattern (38 bp):
ATTGAAAGAAAAGAAAGAAAAAGAAAAAGAAAAAAAAG
Found at i:20724180 original size:35 final size:35
Alignment explanation
Indices: 20724134--20724204 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
20724124 AGGTTTTACG
20724134 AAAGGAAGTATTATAAGCAAAGCTTAAGAAATGTA
1 AAAGGAAGTATTATAAGCAAAGCTTAAGAAATGTA
20724169 AAAGGAAGTATTATAAGCAAAGCTTAAGAAATGTA
1 AAAGGAAGTATTATAAGCAAAGCTTAAGAAATGTA
20724204 A
1 A
20724205 CTTTTGTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.52, C:0.06, G:0.20, T:0.23
Consensus pattern (35 bp):
AAAGGAAGTATTATAAGCAAAGCTTAAGAAATGTA
Found at i:20726602 original size:43 final size:43
Alignment explanation
Indices: 20726535--20726652 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 43
20726525 AAAGCTCGTA
* * *
20726535 CAATGCCAACGCCCCAGACGTGGTCTTACATTTAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATTAAATCACAAAT
* * * *
20726578 CGATGCC-ACTGTCCCAGACATGGTCTTACACGTAAATTACAAAT
1 CAATGCCAAC-GTCCCAGACGTGGTCTTACA-TTAAATCACAAAT
20726622 CAATGCCAACGTCCCAGACGTGGTCTTACAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACAT
20726653 GATAACACAC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
42 2 0.03
43 24 0.39
44 34 0.55
45 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACATTAAATCACAAAT
Found at i:20727572 original size:28 final size:28
Alignment explanation
Indices: 20727541--20727597 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
20727531 TTATATTTGT
20727541 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
20727569 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
20727597 T
1 T
20727598 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:20731230 original size:50 final size:49
Alignment explanation
Indices: 20731157--20731291 Score: 130
Period size: 50 Copynumber: 2.7 Consensus size: 49
20731147 TATCATTCGA
* * * * *
20731157 TACATGTAGTAGCCTTCATATAGTACTCCACATGTGATCAAA-ATTTTCGG
1 TACACGTAGTAGCCTT-ACATAGTACT-CACATGTGACCAAAGACTTTCAG
* *
20731207 TTCACGTAGTAGCCTGTACATAGTACTACACATGTGACCAAAGCCTTTCAG
1 TACACGTAGTAGCCT-TACATAGTACT-CACATGTGACCAAAGACTTTCAG
* *
20731258 TACACATAGTAGCCTACACATAGTACT-ACATGTG
1 TACACGTAGTAGCCT-TACATAGTACTCACATGTG
20731292 TGACCATTAT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
49 7 0.10
50 35 0.49
51 29 0.41
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (49 bp):
TACACGTAGTAGCCTTACATAGTACTCACATGTGACCAAAGACTTTCAG
Found at i:20731282 original size:51 final size:49
Alignment explanation
Indices: 20731152--20731340 Score: 171
Period size: 51 Copynumber: 3.7 Consensus size: 49
20731142 ATTATTATCA
* * * * * *
20731152 TTCGATACATGTAGTAGCCTTCATATAGTACTCCACATGTGATCAAAATT
1 TTCG-TACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAAAACT
* * *
20731202 TTCGGTTCACGTAGTAGCCTGTACATAGTACTACACATGTGACCAAAGCCT
1 TTC-GTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAAA-ACT
* * ** * *
20731253 TTCAGTACACATAGTAGCCTACACATAGTACTACATGTGTGACCATTATCT
1 TTC-GTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA-AAACT
* *
20731304 ATCGATACACGTAGTAGCCTGCACTTAGTACTACACA
1 TTCG-TACACGTAGTAGCCTGCACATAGTACTACACA
20731341 CGTGTTTATA
Statistics
Matches: 111, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 39 0.35
51 71 0.64
52 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (49 bp):
TTCGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAAAACT
Found at i:20738175 original size:26 final size:28
Alignment explanation
Indices: 20738144--20738199 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 28
20738134 TTTATATTTG
20738144 ATTTATTATAATAA-CTTTATAA-TATT
1 ATTTATTATAATAACCTTTATAATTATT
*
20738170 ATTTATTATTATAACCTTTATAATTATT
1 ATTTATTATAATAACCTTTATAATTATT
20738198 AT
1 AT
20738200 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 13 0.48
27 8 0.30
28 6 0.22
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTTATTATAATAACCTTTATAATTATT
Found at i:20748571 original size:3 final size:3
Alignment explanation
Indices: 20748563--20748591 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20748553 CACAATTTCT
20748563 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
20748592 TGCAGTCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:20751523 original size:7 final size:7
Alignment explanation
Indices: 20751511--20751535 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20751501 TTGGAATGGG
20751511 ATATGTT
1 ATATGTT
20751518 ATATGTT
1 ATATGTT
20751525 ATATGTT
1 ATATGTT
20751532 ATAT
1 ATAT
20751536 AATATGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (7 bp):
ATATGTT
Found at i:20755585 original size:28 final size:28
Alignment explanation
Indices: 20755548--20755666 Score: 105
Period size: 28 Copynumber: 4.3 Consensus size: 28
20755538 TAGGAAAGCT
* *
20755548 TTTGTGGCAATTTATGGTAAGGGAAACC
1 TTTGTGGCAATCTATGGAAAGGGAAACC
* * * *
20755576 TTTGTTGCAACCTATAGAAAGGGAAGCC
1 TTTGTGGCAATCTATGGAAAGGGAAACC
* * *
20755604 TTTGTGGCGATCTATGGAAAGGGAAGCA
1 TTTGTGGCAATCTATGGAAAGGGAAACC
* ** *
20755632 TTTATGGGGATCTAT-GAAATGGAAACC
1 TTTGTGGCAATCTATGGAAAGGGAAACC
*
20755659 TGTGTGGC
1 TTTGTGGC
20755667 TTGAAACACG
Statistics
Matches: 72, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
27 14 0.19
28 58 0.81
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.29
Consensus pattern (28 bp):
TTTGTGGCAATCTATGGAAAGGGAAACC
Found at i:20763887 original size:40 final size:40
Alignment explanation
Indices: 20763828--20764175 Score: 606
Period size: 40 Copynumber: 8.7 Consensus size: 40
20763818 GAGCATTGGA
*
20763828 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
20763868 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
20763908 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
20763948 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
20763988 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
20764028 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
20764068 ATATATCCGGACTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
20764108 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
20764148 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
20764176 ATGTGTTTGC
Statistics
Matches: 294, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 294 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:20769844 original size:40 final size:40
Alignment explanation
Indices: 20769785--20770132 Score: 606
Period size: 40 Copynumber: 8.7 Consensus size: 40
20769775 GAGCATTGGA
*
20769785 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
20769825 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
20769865 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
20769905 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
20769945 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
20769985 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
20770025 ATATATCCGGACTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
20770065 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
20770105 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
20770133 ATGTGTTTGC
Statistics
Matches: 294, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 294 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:20771891 original size:27 final size:27
Alignment explanation
Indices: 20771853--20771906 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20771843 ACAAACATCA
20771853 TTGAGGTAGAATTATTTGATGTTTGGG
1 TTGAGGTAGAATTATTTGATGTTTGGG
20771880 TTGAGGTAGAATTATTTGATGTTTGGG
1 TTGAGGTAGAATTATTTGATGTTTGGG
20771907 GTATTGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (27 bp):
TTGAGGTAGAATTATTTGATGTTTGGG
Found at i:20775556 original size:27 final size:27
Alignment explanation
Indices: 20775522--20775672 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
20775512 TAAATTGTAC
* *
20775522 AGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
20775548 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
20775576 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
20775604 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
20775631 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
20775658 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20775673 GACTCAATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.78
28 23 0.21
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:20775619 original size:55 final size:54
Alignment explanation
Indices: 20775521--20775672 Score: 171
Period size: 55 Copynumber: 2.8 Consensus size: 54
20775511 TTAAATTGTA
** *
20775521 CAGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACG
* * * **
20775575 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
* * * *
20775630 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
20775673 GACTCAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 38 0.46
55 44 0.53
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (54 bp):
CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:20775663 original size:82 final size:82
Alignment explanation
Indices: 20775522--20775672 Score: 187
Period size: 82 Copynumber: 1.8 Consensus size: 82
20775512 TAAATTGTAC
* * *
20775522 AGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
20775587 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
** * * ** * *
20775604 AGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTGTGCGAATTGACCATACAGCACTAAGT
20775668 GTGCG
65 GTGCG
20775673 GACTCAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 1 0.02
82 56 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:20783711 original size:27 final size:27
Alignment explanation
Indices: 20783674--20783824 Score: 151
Period size: 27 Copynumber: 5.6 Consensus size: 27
20783664 TAAATTGTAC
* * *
20783674 AGCACCAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
20783700 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
20783728 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
20783756 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
20783783 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
20783810 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20783825 GACTCAATAT
Statistics
Matches: 107, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.78
28 23 0.21
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:20783766 original size:55 final size:54
Alignment explanation
Indices: 20783673--20783824 Score: 162
Period size: 55 Copynumber: 2.8 Consensus size: 54
20783663 TTAAATTGTA
* ** * *
20783673 CAGCACCAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACG
* * * **
20783727 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACG
* * *
20783782 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTGACTATATAGCACTAAGTGTGCG
20783825 GACTCAATAT
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 38 0.47
55 43 0.53
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (54 bp):
CAGCACTAAGTGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACG
Found at i:20785333 original size:25 final size:25
Alignment explanation
Indices: 20785273--20785333 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
20785263 CTCCTAAATT
*
20785273 TTAATTTAATTATGTAATTTTTCAA
1 TTAATTAAATTATGTAATTTTTCAA
* *
20785298 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATGTAAT-TTTTCA-A
20785323 TTAATTAAATT
1 TTAATTAAATT
20785334 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATGTAATTTTTCAA
Found at i:20800317 original size:28 final size:28
Alignment explanation
Indices: 20800283--20800392 Score: 141
Period size: 28 Copynumber: 3.9 Consensus size: 28
20800273 CCCGGAATAG
*
20800283 GGAAGCCTTTATGGTGATCTATGGAAAT
1 GGAAGCCTTTATGGCGATCTATGGAAAT
20800311 GGAAGCCTTTATGGCGATCTATGGAAAT
1 GGAAGCCTTTATGGCGATCTATGGAAAT
* * *
20800339 -GAAGGTCTTTGTGGCGATCTATGGAAAG
1 GGAA-GCCTTTATGGCGATCTATGGAAAT
** *
20800367 GGAAGCAGTTATGGTGATCTATGGAA
1 GGAAGCCTTTATGGCGATCTATGGAA
20800393 GCCTGTGTGG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
27 3 0.04
28 65 0.92
29 3 0.04
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.29
Consensus pattern (28 bp):
GGAAGCCTTTATGGCGATCTATGGAAAT
Found at i:20802674 original size:24 final size:25
Alignment explanation
Indices: 20802647--20802694 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
20802637 TAATTTATCC
*
20802647 ATTTTTATTTTA-TTTTATTTTTAT
1 ATTTTTATTTTAGTTTAATTTTTAT
*
20802671 ATTTTTGTTTTAGTTTAATTTTTA
1 ATTTTTATTTTAGTTTAATTTTTA
20802695 CATTCTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (25 bp):
ATTTTTATTTTAGTTTAATTTTTAT
Found at i:20806879 original size:30 final size:30
Alignment explanation
Indices: 20806845--20806902 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20806835 ATTTTCGAGC
20806845 TTTGGGACAAAAATGTAAATATGCAAAAGT
1 TTTGGGACAAAAATGTAAATATGCAAAAGT
* * *
20806875 TTTGGGACAAAATTGTAATTTTGCAAAA
1 TTTGGGACAAAAATGTAAATATGCAAAA
20806903 AGTTGAGTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (30 bp):
TTTGGGACAAAAATGTAAATATGCAAAAGT
Found at i:20807267 original size:26 final size:26
Alignment explanation
Indices: 20807238--20807288 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
20807228 GAATAAAAAT
* *
20807238 GGGTTGCTAAGTGTTGATTCCCCAAG
1 GGGTTGCTAAGTGCTAATTCCCCAAG
20807264 GGGTTGCTAAGTGCTAATTCCCCAA
1 GGGTTGCTAAGTGCTAATTCCCCAA
20807289 ATTATTGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (26 bp):
GGGTTGCTAAGTGCTAATTCCCCAAG
Found at i:20807414 original size:85 final size:85
Alignment explanation
Indices: 20807261--20807584 Score: 400
Period size: 85 Copynumber: 3.8 Consensus size: 85
20807251 TTGATTCCCC
* ** * * * *
20807261 AAGGGGTTGCTAAGTGCTAATTCCCCAAATTATTGACTATAAAGGTGATTGCTAAGTGTTG-ATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGAAT-
20807325 CCACCGTATTTTTAATTGTGA
65 CCACCGTATTTTTAATTGTGA
* * *
20807346 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCGTTGAATATAATGGTGGTTGCTATGTGCTGAATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGAATC
20807411 CACCGTATTTTTAATTGTGA
66 CACCGTATTTTTAATTGTGA
* * * * *
20807431 ATGGGGCTGCTAGGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGAATC
** **
20807496 CACCAAATCCTTAATTGTGA
66 CACCGTATTTTTAATTGTGA
* * * * * *
20807516 AAGAGGTTGCTATGTGCTGATTCCCCGTATCAATGAAT-TTATGGTGGTTGCTAAGTGATGAATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGAATC
20807580 CACCG
66 CACCG
20807585 AGTAACGGAT
Statistics
Matches: 206, Mismatches: 32, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
84 26 0.13
85 178 0.86
86 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (85 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGAATC
CACCGTATTTTTAATTGTGA
Found at i:20807442 original size:43 final size:42
Alignment explanation
Indices: 20807309--20807545 Score: 185
Period size: 43 Copynumber: 5.6 Consensus size: 42
20807299 ATAAAGGTGA
* * *
20807309 TTGCTAAGTGTTGATCCCACCGTATTTTTAATTGTGAAAGGGG
1 TTGCTAAGTGCTGATTCC-CCGTATTTTTAATTGTGAATGGGG
* * *
20807352 TTGCTAAGTGCTGATTCCCCGTATCGTTGAA-TAT-AATGGTGG
1 TTGCTAAGTGCTGATTCCCCGTAT-TTTTAATTGTGAATGG-GG
* *
20807394 TTGCTATGTGCTGAATCCACCGTATTTTTAATTGTGAATGGGG
1 TTGCTAAGTGCTGATTCC-CCGTATTTTTAATTGTGAATGGGG
* * ** * * *
20807437 CTGCTAGGTGCTGATTCCCCGTATCACTGAA-TAT-AAAGGTGG
1 TTGCTAAGTGCTGATTCCCCGTAT-TTTTAATTGTGAATGG-GG
** ** * *
20807479 TTGCTAAGTGCTGATTCCACCAAATCCTTAATTGTGAAAGAGG
1 TTGCTAAGTGCTGATTCC-CCGTATTTTTAATTGTGAATGGGG
*
20807522 TTGCTATGTGCTGATTCCCCGTAT
1 TTGCTAAGTGCTGATTCCCCGTAT
20807546 CAATGAATTT
Statistics
Matches: 154, Mismatches: 30, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
41 8 0.05
42 64 0.42
43 73 0.47
44 9 0.06
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
TTGCTAAGTGCTGATTCCCCGTATTTTTAATTGTGAATGGGG
Found at i:20810723 original size:40 final size:40
Alignment explanation
Indices: 20810686--20810870 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
20810676 GCTACTCGTT
*
20810686 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
20810726 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
20810766 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
20810805 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
20810846 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20810871 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 75 0.60
41 15 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:20810797 original size:79 final size:82
Alignment explanation
Indices: 20810686--20810870 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
20810676 GCTACTCGTT
* * *
20810686 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20810749 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20810766 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20810829 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20810846 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20810871 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.57
80 36 0.40
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20822591 original size:40 final size:40
Alignment explanation
Indices: 20822561--20822823 Score: 231
Period size: 40 Copynumber: 6.6 Consensus size: 40
20822551 GCTACTCGTT
*
20822561 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
20822601 CAATTGCCTTCGGGACTTAACTCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
20822641 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * *
20822680 CAAATGCCTTC-GGATCTTAGTCCGAATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCG-GTTATAGTAACTCGCA
* * *
20822720 CAAATGCCTTC-AGATCTTAGTCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCA
* * * * *
20822760 -AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
20822800 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
20822824 ACATCATTCA
Statistics
Matches: 190, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
38 3 0.02
39 57 0.30
40 122 0.64
41 8 0.04
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:20822678 original size:79 final size:80
Alignment explanation
Indices: 20822561--20822824 Score: 317
Period size: 79 Copynumber: 3.3 Consensus size: 80
20822551 GCTACTCGTT
* * * *
20822561 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTA-ACT
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC-
20822623 CGGATTTAGTAACTCGCA
63 CGGATTTAGTAACTCGCA
* *
20822641 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
*
20822705 ATTTAGTATCTCGCA
66 ATTTAGTAACTCGCA
* *
20822720 CAAATGCCTTC-AGATCTTAGTCCGGATTTAGTATCTCGCA-AAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
* * * *
20822783 GATATGGTCACTTAGCA
65 GATTTAGTAAC-TCGCA
20822800 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20822825 CATCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.03
79 106 0.67
80 49 0.31
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
ATTTAGTAACTCGCA
Found at i:20822818 original size:119 final size:119
Alignment explanation
Indices: 20822561--20822822 Score: 288
Period size: 119 Copynumber: 2.2 Consensus size: 119
20822551 GCTACTCGTT
* * * *
20822561 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACTCGG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGAGACTTAACTCGG
*
20822626 ATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
66 ATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
* * *
20822680 CAAATGCCTTC-GGATCTTAGTCCGAATT-TAGTATCTCGCACAAATGCCTTC-AGATCTT-AGT
1 CAAATGCCTTCGGGA-CTTAGCCCG-ATTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACT
* * * *
20822741 CCGGATTTAGTATCTCGCA-AAATGCCTTCGGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
63 -CGGATTTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGT-ATC-TAGCA
20822800 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
20822823 GACATCATTC
Statistics
Matches: 121, Mismatches: 13, Indels: 18
0.80 0.09 0.12
Matches are distributed among these distances:
118 21 0.17
119 86 0.71
120 14 0.12
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGAGACTTAACTCGG
ATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
Found at i:20828133 original size:3 final size:3
Alignment explanation
Indices: 20828121--20828185 Score: 78
Period size: 3 Copynumber: 21.3 Consensus size: 3
20828111 ACGTTATTAT
* * *
20828121 TAA TAG TAA TAA TAA TAAA TAA TAG TACA -AA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
20828167 TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
20828186 GATAGCAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 1 0.02
3 49 0.92
4 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:20828158 original size:15 final size:15
Alignment explanation
Indices: 20828130--20828207 Score: 86
Period size: 15 Copynumber: 5.1 Consensus size: 15
20828120 TTAATAGTAA
20828130 TAATAATAAATAATAG
1 TAATAAT-AATAATAG
20828146 TACA-AATAATAATAG
1 TA-ATAATAATAATAG
*
20828161 TAATAATAATAATAA
1 TAATAATAATAATAG
*
20828176 TAATAATAATGATAG
1 TAATAATAATAATAG
* * *
20828191 CAATAATTATAAGAG
1 TAATAATAATAATAG
20828206 TA
1 TA
20828208 CAAAAATAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
14 1 0.02
15 45 0.87
16 5 0.10
17 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:20834808 original size:24 final size:26
Alignment explanation
Indices: 20834765--20834818 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
20834755 GGATTGTAAA
20834765 TTGAGTTATAAGTATAATGT-TG-GT
1 TTGAGTTATAAGTATAATGTCTGTGT
20834789 TTGAGTATATAAGTAT-ATGTCTGTGT
1 TTGAGT-TATAAGTATAATGTCTGTGT
20834815 TTGA
1 TTGA
20834819 AGCCATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 10 0.37
25 11 0.41
26 6 0.22
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (26 bp):
TTGAGTTATAAGTATAATGTCTGTGT
Found at i:20846318 original size:40 final size:40
Alignment explanation
Indices: 20846259--20846606 Score: 642
Period size: 40 Copynumber: 8.7 Consensus size: 40
20846249 GAGCATTGGA
20846259 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
20846299 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
20846339 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
20846379 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
20846419 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
20846459 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
20846499 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
20846539 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
20846579 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
20846607 ATGTGTTTGC
Statistics
Matches: 299, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 299 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:20856905 original size:85 final size:84
Alignment explanation
Indices: 20856815--20857105 Score: 252
Period size: 85 Copynumber: 3.4 Consensus size: 84
20856805 TAAAATGATG
* * *
20856815 AATCTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGCCTTATCTCCTTGAACAGGCAG
1 AATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGGCCTTATCTCCTTGAACATGCAG
*
20856880 CGAAGCAGACTGAATAAACC
66 CG-AGCAGACTGAATAAACT
* * * ** ** * **
20856900 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAG-AAGAAACCAATCCTATCTCTTTGAAGT
1 AATCTTATCTCTCTGAAGTTGCAATAGAGCAGATC-GCATCAGGCC--T--TATCTCCTTGAACA
* *
20856963 TGCATG-GAGCAGA-TTAA-AATGATT
61 TGCA-GCGAGCAGACTGAATAA--ACT
* * * * *
20856987 GATCTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCATCAGGTCTTATCTCCCTGAATATGCAG
1 AATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGGCCTTATCTCCTTGAACATGCAG
20857052 CGGAGCAGACTGAATAAACT
66 C-GAGCAGACTGAATAAACT
20857072 AATCTTATCTC-CTTGAAGTTGCAATAGAGCAGAT
1 AATCTTATCTCTC-TGAAGTTGCAATAGAGCAGAT
20857106 TGAAGTTATA
Statistics
Matches: 157, Mismatches: 34, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
83 1 0.01
84 20 0.13
85 70 0.45
86 8 0.05
87 38 0.24
88 19 0.12
89 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (84 bp):
AATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCGCATCAGGCCTTATCTCCTTGAACATGCAG
CGAGCAGACTGAATAAACT
Found at i:20856931 original size:44 final size:43
Alignment explanation
Indices: 20856730--20857149 Score: 191
Period size: 44 Copynumber: 9.7 Consensus size: 43
20856720 AGTTACAAGA
* *
20856730 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAATAAACCAAT
* * * * **
20856774 CCTATTTCCCTGAAGTGGCAGTGGAGCAGATTAA-AATGATGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAATAA--ACCAAT
* * * * * * * **
20856818 CTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGC---
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-GAATAAACCAAT
* *** * *
20856859 CTTATCTCCTTGAACAGGCAGCGAAGCAGACTGAATAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAATAAACCAAT
* *
20856903 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAATAAACCAAT
* ** * ***
20856947 CCTATCTCTTTGAAGTTGCA-TGGAGCAGATTAA-AATGATTGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAATAA--ACCAAT
* * * * * *
20856990 CTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCAT----CAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-GAATAAACCA-AT
* *
20857031 CTTATCTCCCTGAA-TATGCAGCGGAGCAGACTGAATAAACTAAT
1 CTTATCTCCCTGAAGT-TGCAGTGGAGCAGA-TGAATAAACCAAT
* * * *
20857075 CTTATCTCCTTGAAGTTGCAATAGAGCAGATTGAAGTTATA--AAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAA--TAAACCAAT
* * *
20857119 CCTATCTCTCTGAAGTTGCAGCGGAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
20857150 TAAAATGATG
Statistics
Matches: 272, Mismatches: 81, Indels: 47
0.68 0.20 0.12
Matches are distributed among these distances:
40 1 0.00
41 53 0.19
42 6 0.02
43 33 0.12
44 171 0.63
45 4 0.01
46 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAATAAACCAAT
Found at i:20857060 original size:128 final size:129
Alignment explanation
Indices: 20856902--20857138 Score: 334
Period size: 128 Copynumber: 1.8 Consensus size: 129
20856892 AATAAACCAA
* *
20856902 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTTTGAAGTTGC-
1 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAACCAATCCTATCTCCTTGAAGTTGCA
* ** *
20856966 ATGGAGCAGATTAAAATGATTGATCTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCATCAGG
66 ATAGAGCAGATTAAAATGATAAATCCTATCTCTCTGAAGTTGCAATAGAGTAGATCGCATCAGG
* * * *
20857030 TCTTATCTCCCTGAA-TATGCAGCGGAGCAGACTGAATAAACTAATCTTATCTCCTTGAAGTTGC
1 TCTTATCTCCCTGAAGT-TGCAGCGGAGCAGACAGAAGAAACCAATCCTATCTCCTTGAAGTTGC
* * *
20857094 AATAGAGCAGATTGAAGTTATAAATCCTATCTCTCTGAAGTTGCA
65 AATAGAGCAGATTAAAATGATAAATCCTATCTCTCTGAAGTTGCA
20857139 GCGGAGCAGA
Statistics
Matches: 94, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
127 1 0.01
128 56 0.60
129 37 0.39
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACAGAAGAAACCAATCCTATCTCCTTGAAGTTGCA
ATAGAGCAGATTAAAATGATAAATCCTATCTCTCTGAAGTTGCAATAGAGTAGATCGCATCAGG
Found at i:20857199 original size:172 final size:173
Alignment explanation
Indices: 20856730--20857181 Score: 672
Period size: 172 Copynumber: 2.6 Consensus size: 173
20856720 AGTTACAAGA
* * *
20856730 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATTTCCCTGAAGTGGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAG
*
20856795 TGGAGCAGATTAAAATGATGAATCTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGCC
66 TGGAGCAGATTAAAATGATGGATCTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGCC
*
20856860 TTATCTCCTTGAACAGGCAGCGAAGCAGACTGAATAAACCAAT
131 TTATCTCCCTGAACAGGCAGCGAAGCAGACTGAATAAACCAAT
*
20856903 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTTTGAAGTTGCA-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAG
* * *
20856967 TGGAGCAGATTAAAATGATTGATCTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCATCAGGTC
66 TGGAGCAGATTAAAATGATGGATCTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGCC
* * * *
20857032 TTATCTCCCTGAATATGCAGCGGAGCAGACTGAATAAACTAAT
131 TTATCTCCCTGAACAGGCAGCGAAGCAGACTGAATAAACCAAT
* * * ** ** **
20857075 CTTATCTCCTTGAAGTTGCAATAGAGCAGATTGAAGTTATAAATCCTATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAG
* * *
20857140 CGGAGCAGATTAAAATGATGGATCTTACCTCTCTAAAGTTGT
66 TGGAGCAGATTAAAATGATGGATCTTATCTCTCTGAAGTTGT
20857182 GGTAGAACAA
Statistics
Matches: 250, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
172 153 0.61
173 97 0.39
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (173 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAG
TGGAGCAGATTAAAATGATGGATCTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGCC
TTATCTCCCTGAACAGGCAGCGAAGCAGACTGAATAAACCAAT
Found at i:20857252 original size:172 final size:172
Alignment explanation
Indices: 20856730--20857277 Score: 638
Period size: 172 Copynumber: 3.2 Consensus size: 172
20856720 AGTTACAAGA
* * * *
20856730 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATTTCCCTGAAGTGGCAG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAG
*
20856795 TGGAGCAGATTAAAATGATGAATCTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGCC
66 TGGAGCAGATTAAAATGATGGATCTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGCC
*
20856860 TTATCTCCTTGAACA-GGCAGCGAAGCAGACTGAATAAACCAAT
131 TTATCTCCTTGAA-ATTGCAGCGAAGCAGACTGAATAAA-CAAT
* *
20856903 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTTTGAAGTTGCA-
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAG
* * *
20856967 TGGAGCAGATTAAAATGATTGATCTTATCTCTCTGAAGTTGCAATAGAGTAGATCGCATCAGGTC
66 TGGAGCAGATTAAAATGATGGATCTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGCC
* *
20857032 TTATCTCCCTG-AATATGCAGCGGAGCAGACTGAATAAACTAAT
131 TTATCTCCTTGAAAT-TGCAGCGAAGCAGACTGAATAAAC-AAT
* * ** ** **
20857075 CTTATCTCCTTGAAGTTGCAATAGAGCAGATTGAAGTTATAAATCCTATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAG
* * * ** ** **
20857140 CGGAGCAGATTAAAATGATGGATCTTACCTCTCTAAAGTTGTGGTAGAACA-ATCGCATCATACC
66 TGGAGCAGATTAAAATGATGGATCTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGCC
* * * * * ***
20857204 TTATTTCCTTGAAATTACAGTGAAACCA-ATTGAAGCTACAAGT
131 TTATCTCCTTGAAATTGCAGCG-AAGCAGACTGAATAAACAA-T
** *
20857247 CTTATCTCATTGAGGTTGCAATGGAGCAGAC
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGAC
20857278 CAAAAATAGC
Statistics
Matches: 321, Mismatches: 47, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
170 1 0.00
171 4 0.01
172 208 0.65
173 108 0.34
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (172 bp):
CTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTGCAG
TGGAGCAGATTAAAATGATGGATCTTATCTCTCTGAAGTTGTAATAGAGTAGATCGCATCAGGCC
TTATCTCCTTGAAATTGCAGCGAAGCAGACTGAATAAACAAT
Found at i:20858721 original size:3 final size:3
Alignment explanation
Indices: 20858713--20858804 Score: 80
Period size: 3 Copynumber: 30.3 Consensus size: 3
20858703 TATCGCTATC
* * *
20858713 ATT ATT ATT ATT AAT ACT ATT ATT ATT ATT -TGT ACT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT A-TT ATT
* * * *
20858759 ATT ATT ACT ACTT -TC ATT ATT ATT AGT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20858804 A
1 A
20858805 CTAATAATGT
Statistics
Matches: 71, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
2 2 0.03
3 65 0.92
4 4 0.06
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:20858734 original size:18 final size:18
Alignment explanation
Indices: 20858713--20858798 Score: 104
Period size: 18 Copynumber: 4.7 Consensus size: 18
20858703 TATCGCTATC
*
20858713 ATTATTATTATTAATACT
1 ATTATTATTATTATTACT
20858731 ATTATTATTATT-TGTACT
1 ATTATTATTATTAT-TACT
20858749 ATTATTTATTATTATTACT
1 ATTA-TTATTATTATTACT
* *
20858768 ACTT-TCATTATTATTAGT
1 A-TTATTATTATTATTACT
20858786 ATTATTATTATTA
1 ATTATTATTATTA
20858799 CTATTACTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.03
18 41 0.69
19 13 0.22
20 3 0.05
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTATTATTATTATTACT
Found at i:20875929 original size:29 final size:29
Alignment explanation
Indices: 20875716--20875929 Score: 266
Period size: 29 Copynumber: 7.4 Consensus size: 29
20875706 GTGTGCTAAA
**
20875716 CGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
20875745 CAATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* ** *
20875774 CAATGGTCGAAACCATCCCTTTTAATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* *
20875803 CCATGGTTGTCACCATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* ** *
20875832 CGATGGTTGAAACCGTCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
20875861 CGATGGTCGTCACCATGCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* *
20875890 CGAAGGTCGTCACCATCACTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* *
20875919 GGATGGGCGTC
1 CGATGGTCGTC
20875930 GATACGTCAT
Statistics
Matches: 159, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 159 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.36
Consensus pattern (29 bp):
CGATGGTCGTCACCATCCCTTTTCATATT
Found at i:20885167 original size:18 final size:18
Alignment explanation
Indices: 20885137--20885171 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20885127 AGAAAAATAA
20885137 TAAAACAATTAAATAAAC
1 TAAAACAATTAAATAAAC
20885155 TAAATACAA-TAAATAAA
1 TAAA-ACAATTAAATAAA
20885172 GAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAACAATTAAATAAAC
Found at i:20885177 original size:18 final size:18
Alignment explanation
Indices: 20885141--20885183 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
20885131 AAATAATAAA
*
20885141 ACAATTAAATAAACTAAAT
1 ACAA-TAAATAAACAAAAT
*
20885160 ACAATAAATAAAGAAAAT
1 ACAATAAATAAACAAAAT
*
20885178 AAAATA
1 ACAATA
20885184 GTAAAAGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (18 bp):
ACAATAAATAAACAAAAT
Found at i:20887954 original size:209 final size:209
Alignment explanation
Indices: 20887594--20888013 Score: 840
Period size: 209 Copynumber: 2.0 Consensus size: 209
20887584 TTGGAAGATG
20887594 CTGATGATGTGCGTACTCATGATGAGTATGAAGAATACTTGGAGTATGGTGAGAAAGCACTTGTT
1 CTGATGATGTGCGTACTCATGATGAGTATGAAGAATACTTGGAGTATGGTGAGAAAGCACTTGTT
20887659 GCTCGAAGGGGTTTAAATGTCCAGTTTAAAGAGGAAGGGTACGAACAAAGAGATAACATTTTCCA
66 GCTCGAAGGGGTTTAAATGTCCAGTTTAAAGAGGAAGGGTACGAACAAAGAGATAACATTTTCCA
20887724 CATGAGATGTTTGATTAGTGGACAACCTAGTTCATTGATCATCGATAGTGGAAGTTGCACCAATG
131 CATGAGATGTTTGATTAGTGGACAACCTAGTTCATTGATCATCGATAGTGGAAGTTGCACCAATG
20887789 TGGTAAGTTCTTCC
196 TGGTAAGTTCTTCC
20887803 CTGATGATGTGCGTACTCATGATGAGTATGAAGAATACTTGGAGTATGGTGAGAAAGCACTTGTT
1 CTGATGATGTGCGTACTCATGATGAGTATGAAGAATACTTGGAGTATGGTGAGAAAGCACTTGTT
20887868 GCTCGAAGGGGTTTAAATGTCCAGTTTAAAGAGGAAGGGTACGAACAAAGAGATAACATTTTCCA
66 GCTCGAAGGGGTTTAAATGTCCAGTTTAAAGAGGAAGGGTACGAACAAAGAGATAACATTTTCCA
20887933 CATGAGATGTTTGATTAGTGGACAACCTAGTTCATTGATCATCGATAGTGGAAGTTGCACCAATG
131 CATGAGATGTTTGATTAGTGGACAACCTAGTTCATTGATCATCGATAGTGGAAGTTGCACCAATG
20887998 TGGTAAGTTCTTCC
196 TGGTAAGTTCTTCC
20888012 CT
1 CT
20888014 TGTTGAGAAA
Statistics
Matches: 211, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
209 211 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (209 bp):
CTGATGATGTGCGTACTCATGATGAGTATGAAGAATACTTGGAGTATGGTGAGAAAGCACTTGTT
GCTCGAAGGGGTTTAAATGTCCAGTTTAAAGAGGAAGGGTACGAACAAAGAGATAACATTTTCCA
CATGAGATGTTTGATTAGTGGACAACCTAGTTCATTGATCATCGATAGTGGAAGTTGCACCAATG
TGGTAAGTTCTTCC
Found at i:20894613 original size:51 final size:50
Alignment explanation
Indices: 20894555--20894745 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 50
20894545 CCGGTTCACA
*
20894555 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCG-TACACG
* * * * *
20894606 TAGTAGCCTGAATATAGTACTACACACGTGATCGA--AGCTATCCCGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT-CCGTACACG
* * *
20894657 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATC-CGTACACG
*
20894707 TAGTAGCCTGCACATAGTACTACATACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
20894746 TTCACTATCA
Statistics
Matches: 115, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
49 5 0.04
50 39 0.34
51 65 0.57
52 5 0.04
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGTACACG
Found at i:20894736 original size:101 final size:102
Alignment explanation
Indices: 20894553--20894737 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
20894543 TACCGGTTCA
*
20894553 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGAA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGAA
*
20894618 TATAGTACTACACACGTGATCGAAGCTATCCCGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCCGTACG
* * *
20894655 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGA
*
20894718 ACATAGTACTACATACGTGA
65 ACATAGTACTACACACGTGA
20894738 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 37 0.49
102 35 0.46
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGAA
CATAGTACTACACACGTGATCGAAGCTATCCCGTACG
Found at i:20894760 original size:101 final size:103
Alignment explanation
Indices: 20894550--20894771 Score: 267
Period size: 101 Copynumber: 2.2 Consensus size: 103
20894540 TGATACCGGT
*
20894550 TCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCT
1 TCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCT
* * *
20894615 GAATATAGTACTACACACGTGATCGAAGCTATCCCGTA
66 GAACATAGTACTACACACGTGATCCAAGCTATCACGTA
* * *
20894653 -CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCC
1 TCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCC
* * *
20894715 TGCACATAGTACTACATACGTGA-CCATCA-CTTTCAC-TA
65 TGAACATAGTACTACACACGTGATCCA--AGCTATCACGTA
* *
20894753 TCACATAGTGGCCTACACA
1 TCACATAGTAGCCTGCACA
20894772 CAGTCCATGC
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
100 4 0.04
101 57 0.56
102 37 0.36
103 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (103 bp):
TCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCT
GAACATAGTACTACACACGTGATCCAAGCTATCACGTA
Found at i:20899092 original size:39 final size:40
Alignment explanation
Indices: 20898988--20899211 Score: 237
Period size: 40 Copynumber: 5.7 Consensus size: 40
20898978 TTGAATGATG
* *
20898988 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
20899027 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
20899068 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
20899107 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
20899146 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20899185 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20899212 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 72 0.46
40 73 0.46
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20899162 original size:79 final size:79
Alignment explanation
Indices: 20898988--20899211 Score: 224
Period size: 79 Copynumber: 2.8 Consensus size: 79
20898978 TTGAATGATG
* * * * * *
20898988 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCAAAGGCA
1 TCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
20899050 TTTGTGCGAGATACTAAT
62 TTTGTGCGAGATACTAAA
* * *
20899068 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCTGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
* *
20899131 GTGCGAGTTATTAAA
65 GTGCGAGATACTAAA
* * *
20899146 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
20899211 G
65 G
20899212 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
78 33 0.27
79 55 0.45
80 34 0.28
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:20899233 original size:79 final size:79
Alignment explanation
Indices: 20899044--20899244 Score: 203
Period size: 79 Copynumber: 2.6 Consensus size: 79
20899034 CTAAGATCCA
** * * * * *
20899044 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATT
1 AAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAATA
*
20899108 CCGGGCTAAGCCTG
66 CCGGGCTAAGCCCG
** * *
20899122 AAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATA
1 AAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAAT-
*
20899186 ACCGGGCTATGTCCCG
65 ACCGGGCTAAG-CCCG
* * *
20899202 AAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 AAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
20899245 TACGTGATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
78 33 0.32
79 48 0.46
80 23 0.22
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAATA
CCGGGCTAAGCCCG
Found at i:20901755 original size:20 final size:20
Alignment explanation
Indices: 20901732--20901785 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
20901722 AGTTTTTCCC
*
20901732 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
20901752 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
20901772 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
20901786 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:20901767 original size:30 final size:30
Alignment explanation
Indices: 20901732--20901805 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
20901722 AGTTTTTCCC
20901732 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
20901762 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
20901792 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
20901806 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:20901795 original size:20 final size:20
Alignment explanation
Indices: 20901732--20901796 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
20901722 AGTTTTTCCC
* * * *
20901732 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
20901752 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
20901771 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
20901792 AGCTC
1 AGCTC
20901797 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Done.