Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 55 of 325
Found at i:19976196 original size:14 final size:14
Alignment explanation
Indices: 19976173--19976226 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
19976163 GTTTGTCAGT
*
19976173 AAAATAATTTTTAA
1 AAAATGATTTTTAA
*
19976187 AAAATGATTTTTAG
1 AAAATGATTTTTAA
*
19976201 AAAATGGTTTTTAA
1 AAAATGATTTTTAA
*
19976215 AAGATGATTTTT
1 AAAATGATTTTT
19976227 TCCTGGTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (14 bp):
AAAATGATTTTTAA
Found at i:19976450 original size:14 final size:15
Alignment explanation
Indices: 19976431--19976459 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19976421 ATTTATTTAT
19976431 AAATAAATAA-AATA
1 AAATAAATAATAATA
19976445 AAATAAATAATAATA
1 AAATAAATAATAATA
19976460 CTCAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATAATAATA
Found at i:19978481 original size:21 final size:21
Alignment explanation
Indices: 19978457--19978497 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
19978447 TCAACCTATG
19978457 GCGAGAAATTTATGCTCTAAA
1 GCGAGAAATTTATGCTCTAAA
19978478 GCGAGAAATTTATGCTCTAA
1 GCGAGAAATTTATGCTCTAA
19978498 GTATCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (21 bp):
GCGAGAAATTTATGCTCTAAA
Found at i:19993247 original size:5 final size:5
Alignment explanation
Indices: 19993237--19993271 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
19993227 ATTTGTTAAA
19993237 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAA
19993272 AAGCATTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:19995526 original size:7 final size:7
Alignment explanation
Indices: 19995514--19995562 Score: 77
Period size: 7 Copynumber: 7.4 Consensus size: 7
19995504 TTTTAGGTTA
19995514 TTTTCAT
1 TTTTCAT
19995521 TTTTCAT
1 TTTTCAT
19995528 TTTTCAT
1 TTTTCAT
19995535 TTTTCAT
1 TTTTCAT
19995542 TTTT-AT
1 TTTTCAT
19995548 TTTT-AT
1 TTTTCAT
19995554 TTTT-AT
1 TTTTCAT
19995560 TTT
1 TTT
19995563 GGAGAAAACC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 17 0.40
7 25 0.60
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTCAT
Found at i:19995556 original size:5 final size:6
Alignment explanation
Indices: 19995511--19995562 Score: 68
Period size: 6 Copynumber: 8.2 Consensus size: 6
19995501 CTTTTTTAGG
*
19995511 TTATTT TCATTT TTCATTT TTCATTT TTCATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TT-ATTT TT-ATTT TT-ATTT TTATTT TTATTT TTATTT
19995562 T
1 T
19995563 GGAGAAAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 23 0.53
7 20 0.47
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:19997538 original size:46 final size:47
Alignment explanation
Indices: 19997478--19997786 Score: 339
Period size: 46 Copynumber: 7.0 Consensus size: 47
19997468 TTTGACATGA
* * * *
19997478 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* * *
19997524 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* *
19997570 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT-ATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* * *
19997616 TGCCATGGTACCTTTCAATCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
*
19997662 TGCCATGGTAGCTTTCAACCATGG------TC----T--TATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* * *
19997697 TGCCATGGTATCTTACAACCATGGTCGTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
*
19997743 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAG
19997787 AGAGCACACT
Statistics
Matches: 228, Mismatches: 21, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
35 30 0.13
37 1 0.00
40 1 0.00
41 1 0.00
44 1 0.00
45 8 0.04
46 182 0.80
47 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
Found at i:19997700 original size:35 final size:35
Alignment explanation
Indices: 19997654--19997722 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
19997644 ACACATTTCA
*
19997654 TATCAGGTTGCCATGGTAGCTTTCAACCATGGTCT
1 TATCAGGTTGCCATGGTAGCTTACAACCATGGTCT
*
19997689 TATCAGGTTGCCATGGTATCTTACAACCATGGTC
1 TATCAGGTTGCCATGGTAGCTTACAACCATGGTC
19997723 GTACACATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (35 bp):
TATCAGGTTGCCATGGTAGCTTACAACCATGGTCT
Found at i:19997706 original size:81 final size:81
Alignment explanation
Indices: 19997608--19997771 Score: 274
Period size: 81 Copynumber: 2.0 Consensus size: 81
19997598 ATTCATTTTA
* * *
19997608 TATCAAGTTGCCATGGTACCTTTCAATCATGGTCTTACACATTTCATATCAGGTTGCCATGGTAG
1 TATCAAGTTGCCATGGTACCTTACAACCATGGTCGTACACATTTCATATCAGGTTGCCATGGTAG
19997673 CTTTCAACCATGGTCT
66 CTTTCAACCATGGTCT
* * *
19997689 TATCAGGTTGCCATGGTATCTTACAACCATGGTCGTACACATTTCATATCAGGTTGCCATGGTAT
1 TATCAAGTTGCCATGGTACCTTACAACCATGGTCGTACACATTTCATATCAGGTTGCCATGGTAG
19997754 CTTTCAACCATGGTCT
66 CTTTCAACCATGGTCT
19997770 TA
1 TA
19997772 CACATTTCAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (81 bp):
TATCAAGTTGCCATGGTACCTTACAACCATGGTCGTACACATTTCATATCAGGTTGCCATGGTAG
CTTTCAACCATGGTCT
Found at i:20002174 original size:27 final size:28
Alignment explanation
Indices: 20002144--20002203 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
20002134 TGTTCGAGTT
* *
20002144 AATTTTT-TAAAAAATGATTTTCTTTAA
1 AATTTTTCAAAAAAATAATTTTCTTTAA
20002171 AATTTTTCAAAAAAATAATTTTCTTTAA
1 AATTTTTCAAAAAAATAATTTTCTTTAA
20002199 AATTT
1 AATTT
20002204 CTAAACATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (28 bp):
AATTTTTCAAAAAAATAATTTTCTTTAA
Found at i:20005011 original size:24 final size:25
Alignment explanation
Indices: 20004973--20005041 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 25
20004963 AGGGGTTTAG
* *
20004973 AGTT-TTAACATTTATTTATAATTA
1 AGTTATTAAAATTTATTTATAATAA
* *
20004997 A-TTATTTAATTTTATTTA-AATAA
1 AGTTATTAAAATTTATTTATAATAA
20005020 AGTTATTAAAATTTATTTATAA
1 AGTTATTAAAATTTATTTATAA
20005042 GTCTTCTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
23 7 0.19
24 27 0.75
25 2 0.06
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (25 bp):
AGTTATTAAAATTTATTTATAATAA
Found at i:20005134 original size:16 final size:16
Alignment explanation
Indices: 20005113--20005143 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
20005103 TTATATCCCC
20005113 AGAATATATTAAATAA
1 AGAATATATTAAATAA
20005129 AGAATATATTAAATA
1 AGAATATATTAAATA
20005144 TTCTCTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
AGAATATATTAAATAA
Found at i:20018245 original size:6 final size:6
Alignment explanation
Indices: 20018234--20018309 Score: 86
Period size: 6 Copynumber: 12.7 Consensus size: 6
20018224 CCAATCTTTC
*
20018234 TTTTTA TTTTTA TTTTTA TTTTTA TTTATT- TTTTT- CTTTTA TTATTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TT-TTTA
*
20018282 TTTTTT TCTTTTA TTTTTA -TTTTA TTTT
1 TTTTTA T-TTTTA TTTTTA TTTTTA TTTT
20018310 AGTTAAATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
5 11 0.18
6 37 0.61
7 13 0.21
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:20018280 original size:20 final size:20
Alignment explanation
Indices: 20018236--20018304 Score: 95
Period size: 20 Copynumber: 3.4 Consensus size: 20
20018226 AATCTTTCTT
* *
20018236 TTTATTTTTATTTTTATTTTTA
1 TTTATTTTT-TTCTT-TTATTA
20018258 TTTATTTTTTTCTTTTATTA
1 TTTATTTTTTTCTTTTATTA
20018278 TTTATTTTTTTCTTTTATT-
1 TTTATTTTTTTCTTTTATTA
20018297 TTTATTTT
1 TTTATTTT
20018305 ATTTTAGTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
19 8 0.18
20 24 0.53
21 4 0.09
22 9 0.20
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTATTTTTTTCTTTTATTA
Found at i:20018503 original size:43 final size:42
Alignment explanation
Indices: 20018418--20018510 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
20018408 TATCCATGCT
* * * *
20018418 GCCAAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTGCA
1 GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCA
*
20018460 GCCAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGCA
1 GCCAAACAGTCCTATTCCAGCC-CAGAAT-CCCAAAACTCTGCA
20018503 GCCAAACA
1 GCCAAACA
20018511 CCCCTTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 21 0.48
43 18 0.41
44 5 0.11
ACGTcount: A:0.32, C:0.35, G:0.13, T:0.19
Consensus pattern (42 bp):
GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCA
Found at i:20020308 original size:27 final size:26
Alignment explanation
Indices: 20020248--20020309 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
20020238 ATTTTATTTT
20020248 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
20020274 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
20020302 ATTTTATT
1 ATTTTATT
20020310 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:20021842 original size:17 final size:17
Alignment explanation
Indices: 20021820--20021870 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
20021810 CAAGTTGGAA
20021820 TTAAGAATTTATAATAT
1 TTAAGAATTTATAATAT
* *
20021837 TTAAGATTTTTCTAAT-T
1 TTAAGA-ATTTATAATAT
*
20021854 CTAA-AATTTATAATAT
1 TTAAGAATTTATAATAT
20021870 T
1 T
20021871 CAAGTTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 7 0.27
16 2 0.08
17 10 0.38
18 7 0.27
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (17 bp):
TTAAGAATTTATAATAT
Found at i:20022781 original size:43 final size:43
Alignment explanation
Indices: 20022716--20023098 Score: 585
Period size: 43 Copynumber: 9.0 Consensus size: 43
20022706 AATGTGACAT
*
20022716 TCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
**
20022759 TCGGGCTTCGAGCCTAATAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
20022802 TCGGGCTTC-AGGCCTAGCAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGA-GCCTAGCAGGCTATAATGCCGGTGAGATGATA
20022845 TCGGGCTTC-AGGCCTAGCAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGA-GCCTAGCAGGCTATAATGCCGGTGAGATGATA
*
20022888 TCGGGCTTCGAGCCTAGCAGGCTATAATGTCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
* * * *
20022931 TCGGGCTTCGGGCCTAGTAGGTTATAATACCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
*
20022974 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTAAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
* * *
20023017 TCGGGCTTCGGGCCTAGCAGACGATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
* * *
20023060 TCAGGCTTCGAGCCTAGCAGGCGA-AATACCGGTGA-ATGA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGA
20023099 GTTCAGACTT
Statistics
Matches: 314, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
41 4 0.01
42 11 0.04
43 298 0.95
44 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
Found at i:20023690 original size:16 final size:18
Alignment explanation
Indices: 20023659--20023691 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
20023649 TACTCGTCAC
20023659 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
20023677 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
20023692 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:20026347 original size:20 final size:21
Alignment explanation
Indices: 20026322--20026360 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20026312 CTGACTTCGA
*
20026322 CTTT-AAAAATTAATTTGGCT
1 CTTTAAAAAAATAATTTGGCT
20026342 CTTTAAAAAAATAATTTGG
1 CTTTAAAAAAATAATTTGG
20026361 ATTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (21 bp):
CTTTAAAAAAATAATTTGGCT
Found at i:20026367 original size:21 final size:21
Alignment explanation
Indices: 20026322--20026368 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
20026312 CTGACTTCGA
* *
20026322 CTTT-AAAAATTAATTTGGCT
1 CTTTAAAAAAATAATTTGGAT
20026342 CTTTAAAAAAATAATTTGGAT
1 CTTTAAAAAAATAATTTGGAT
*
20026363 TTTTAA
1 CTTTAA
20026369 TTTATCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (21 bp):
CTTTAAAAAAATAATTTGGAT
Found at i:20026549 original size:49 final size:49
Alignment explanation
Indices: 20026495--20026601 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 49
20026485 GAAATTAATT
* * * *
20026495 AAATTAAATTAGAAACAATTTGATA-TTGTTCTTAACTTAATCAAAACCA
1 AAATTAAATTAGAAACAAATT-AAAGTTGATCTTAACTTAATCAAAACAA
** * *
20026544 AAATTATTTTAGAAACAAATTAAAGTTGATCTTAATTTAATTAAAACAA
1 AAATTAAATTAGAAACAAATTAAAGTTGATCTTAACTTAATCAAAACAA
20026593 AAATTAAAT
1 AAATTAAAT
20026602 CGAAATTCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 2 0.04
49 45 0.96
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (49 bp):
AAATTAAATTAGAAACAAATTAAAGTTGATCTTAACTTAATCAAAACAA
Found at i:20046211 original size:17 final size:17
Alignment explanation
Indices: 20046189--20046222 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20046179 ATCCACTAAT
*
20046189 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
20046206 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
20046223 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:20050850 original size:17 final size:17
Alignment explanation
Indices: 20050828--20050861 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20050818 ATCCACTAAT
*
20050828 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
20050845 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
20050862 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:20052065 original size:17 final size:19
Alignment explanation
Indices: 20052043--20052087 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
20052033 TTTAACATGT
20052043 CTTAAA-AAAAAT-TGACA
1 CTTAAACAAAAATCTGACA
*
20052060 CTTAAACACAAATCTGACA
1 CTTAAACAAAAATCTGACA
*
20052079 CTTGAACAA
1 CTTAAACAA
20052088 TCATTGTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 6 0.26
18 5 0.22
19 12 0.52
ACGTcount: A:0.51, C:0.20, G:0.07, T:0.22
Consensus pattern (19 bp):
CTTAAACAAAAATCTGACA
Found at i:20055233 original size:20 final size:20
Alignment explanation
Indices: 20055195--20055242 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
20055185 TAAATTCTAA
* **
20055195 AAAGATAAATACATCTAATT
1 AAAGATAAATAAAAATAATT
20055215 AAAGATAAATAAAAATAATT
1 AAAGATAAATAAAAATAATT
20055235 AAA-ATAAA
1 AAAGATAAA
20055243 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:20055267 original size:27 final size:26
Alignment explanation
Indices: 20055237--20055299 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
20055227 AAATAATTAA
20055237 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
20055264 AATAATTATCTTAATATTAATGATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
20055291 AATATAAAT
1 AATA-AAAT
20055300 AAAATAGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:20061905 original size:20 final size:21
Alignment explanation
Indices: 20061858--20061905 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
20061848 CCATAAAATT
*
20061858 TATTTAAAAAATCATAAATAA
1 TATTAAAAAAATCATAAATAA
*
20061879 T-TATAAAAAAAT-ATAAATAC
1 TAT-TAAAAAAATCATAAATAA
20061899 TATTAAA
1 TATTAAA
20061906 TATTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
TATTAAAAAAATCATAAATAA
Found at i:20062007 original size:18 final size:19
Alignment explanation
Indices: 20061963--20062008 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
20061953 TATAATTTCT
20061963 TTTATAAAATAATAAAACA
1 TTTATAAAATAATAAAACA
* *
20061982 TATT-TAAAAT-ATTAAACC
1 T-TTATAAAATAATAAAACA
20062000 TTTATAAAA
1 TTTATAAAA
20062009 ATGTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 2 0.09
18 12 0.52
19 7 0.30
20 2 0.09
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
TTTATAAAATAATAAAACA
Found at i:20062028 original size:10 final size:10
Alignment explanation
Indices: 20062002--20062048 Score: 62
Period size: 9 Copynumber: 4.8 Consensus size: 10
20061992 ATTAAACCTT
*
20062002 TATAAAAATG
1 TATAAAAATC
20062012 TATTAAAAATC
1 TA-TAAAAATC
20062023 TATAAAAATC
1 TATAAAAATC
20062033 -ATAAAAAT-
1 TATAAAAATC
20062041 TATAAAAA
1 TATAAAAA
20062049 AAACTTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 15 0.44
10 10 0.29
11 9 0.26
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (10 bp):
TATAAAAATC
Found at i:20062094 original size:12 final size:12
Alignment explanation
Indices: 20062077--20062102 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20062067 ATAAGCTTAT
20062077 AAAAATTATAAA
1 AAAAATTATAAA
20062089 AAAAATTATAAA
1 AAAAATTATAAA
20062101 AA
1 AA
20062103 CTTGAAGTGG
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:20062637 original size:9 final size:9
Alignment explanation
Indices: 20062625--20062733 Score: 60
Period size: 9 Copynumber: 11.7 Consensus size: 9
20062615 GTTTTATGAA
20062625 TTTTATATT
1 TTTTATATT
20062634 TTTTATAATT
1 TTTTAT-ATT
* * *
20062644 TCTTAGAAT
1 TTTTATATT
**
20062653 TTTTA-AAA
1 TTTTATATT
*
20062661 TTTTATGTT
1 TTTTATATT
*
20062670 TTTTAAATACT
1 TTTT--ATATT
20062681 TTTTATATT
1 TTTTATATT
* *
20062690 TTTAAAATT
1 TTTTATATT
20062699 TTTTATGATAT
1 TTTTAT-AT-T
20062710 TTTT-TATT
1 TTTTATATT
*
20062718 TTTAAATATT
1 TTT-TATATT
20062728 TTTTAT
1 TTTTAT
20062734 GGAAAAACAT
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
8 11 0.15
9 35 0.47
10 17 0.23
11 12 0.16
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTATATT
Found at i:20062641 original size:27 final size:27
Alignment explanation
Indices: 20062598--20062655 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
20062588 AATATGTTTT
20062598 TTTTATATTTTAAATAAGTT-TTATGAA
1 TTTTATATTTTAAATAAGTTCTTA-GAA
** *
20062625 TTTTATATTTTTTATAATTTCTTAGAA
1 TTTTATATTTTAAATAAGTTCTTAGAA
20062652 TTTT
1 TTTT
20062656 TAAAATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (27 bp):
TTTTATATTTTAAATAAGTTCTTAGAA
Found at i:20062643 original size:17 final size:17
Alignment explanation
Indices: 20062616--20062674 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 17
20062606 TTTAAATAAG
20062616 TTTTATGAATTTTATATT
1 TTTTAT-AATTTTATATT
* *
20062634 TTTTATAATTTCTTAGAAT
1 TTTTATAA-TT-TTATATT
* *
20062653 TTTTAAAATTTTATGTT
1 TTTTATAATTTTATATT
20062670 TTTTA
1 TTTTA
20062675 AATACTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 11 0.33
18 10 0.30
19 12 0.36
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTATAATTTTATATT
Found at i:20062656 original size:78 final size:76
Alignment explanation
Indices: 20062512--20062662 Score: 171
Period size: 78 Copynumber: 1.9 Consensus size: 76
20062502 TTCAAGTTTT
** *
20062512 TATGTTTTTTATATATTTTTTACAAGTTTATATCAATTTTAATATTTTATAATGTTACAATTTTT
1 TATGTTTTTTATATATTTTAAACAAGTTTATATCAATTTTAATATTTTATAATCTTACAA-TTTT
20062577 TTAAGAATTACAA
65 TTAA-AATTACAA
* * * * *
20062590 TATGTTTTTTTTATATTTTAAATAAGTTT-TATGAATTTTATATTTTTTATAATTTCTTAGAA-T
1 TATGTTTTTTATATATTTTAAACAAGTTTATATCAATTTTA-ATATTTTATAA--TCTTACAATT
20062653 TTTTAAAATT
63 TTTTAAAATT
20062663 TTATGTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
77 14 0.23
78 42 0.68
80 6 0.10
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (76 bp):
TATGTTTTTTATATATTTTAAACAAGTTTATATCAATTTTAATATTTTATAATCTTACAATTTTT
TAAAATTACAA
Found at i:20062663 original size:36 final size:35
Alignment explanation
Indices: 20062623--20062700 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
20062613 AAGTTTTATG
20062623 AATTTTATATTTTTTATAAT-TTCTTAGAATTTTTAA
1 AATTTTATATTTTTTA-AATATTCTTA-AATTTTTAA
* * *
20062659 AATTTTATGTTTTTTAAATACTTTTTATATTTTTAA
1 AATTTTATATTTTTTAAATA-TTCTTAAATTTTTAA
20062695 AATTTT
1 AATTTT
20062701 TTATGATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 3 0.08
36 29 0.78
37 5 0.14
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (35 bp):
AATTTTATATTTTTTAAATATTCTTAAATTTTTAA
Found at i:20062674 original size:45 final size:44
Alignment explanation
Indices: 20062616--20062701 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 44
20062606 TTTAAATAAG
* *
20062616 TTTTATGAATTTT-ATATTTTTTATAATTTCTTAGAATTTTTAAAA
1 TTTTATGAATTTTAATACTTTTTAT-ATTT-TTAAAATTTTTAAAA
**
20062661 TTTTATGTTTTTTAAATACTTTTTATATTTTTAAAATTTTT
1 TTTTATGAATTTT-AATACTTTTTATATTTTTAAAATTTTT
20062702 TATGATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
45 21 0.60
46 4 0.11
47 10 0.29
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.64
Consensus pattern (44 bp):
TTTTATGAATTTTAATACTTTTTATATTTTTAAAATTTTTAAAA
Found at i:20062686 original size:20 final size:19
Alignment explanation
Indices: 20062651--20062712 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
20062641 ATTTCTTAGA
20062651 ATTTTTAAAA--TTTTATG
1 ATTTTTAAAACTTTTTATG
*
20062668 TTTTTTAAATACTTTTTAT-
1 ATTTTTAAA-ACTTTTTATG
*
20062687 ATTTTTAAAATTTTTTATG
1 ATTTTTAAAACTTTTTATG
20062706 ATATTTT
1 AT-TTTT
20062713 TTATTTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.22
18 9 0.24
19 10 0.27
20 10 0.27
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTTAAAACTTTTTATG
Found at i:20062700 original size:28 final size:29
Alignment explanation
Indices: 20062668--20062733 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
20062658 AAATTTTATG
20062668 TTTTTTA-AATACTTTTTATATTTTTAAA-A
1 TTTTTTATAATA-TTTTT-TATTTTTAAATA
*
20062697 TTTTTTATGATATTTTTTATTTTTAAATA
1 TTTTTTATAATATTTTTTATTTTTAAATA
20062726 TTTTTTAT
1 TTTTTTAT
20062734 GGAAAAACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.29
29 21 0.62
30 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (29 bp):
TTTTTTATAATATTTTTTATTTTTAAATA
Found at i:20062719 original size:17 final size:17
Alignment explanation
Indices: 20062651--20062733 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 17
20062641 ATTTCTTAGA
20062651 ATTTTTAAA-ATTTTATGT
1 ATTTTTAAATATTTT-T-T
20062669 -TTTTTAAATACTTTTTAT
1 ATTTTTAAATA-TTTTT-T
20062687 ATTTTTAAA-ATTTTTT
1 ATTTTTAAATATTTTTT
*
20062703 A----T-GATATTTTTT
1 ATTTTTAAATATTTTTT
20062715 ATTTTTAAATATTTTTT
1 ATTTTTAAATATTTTTT
20062732 AT
1 AT
20062734 GGAAAAACAT
Statistics
Matches: 53, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
11 1 0.02
12 9 0.17
16 3 0.06
17 24 0.45
18 4 0.08
19 12 0.23
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (17 bp):
ATTTTTAAATATTTTTT
Found at i:20071432 original size:15 final size:15
Alignment explanation
Indices: 20071378--20071435 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
20071368 TTAAGTCCAT
20071378 CATTTAGATTTTT-AA
1 CATTTA-ATTTTTCAA
* * *
20071393 TATTTATTTTTTCGA
1 CATTTAATTTTTCAA
*
20071408 CACTT-A-TTTTCAA
1 CATTTAATTTTTCAA
20071421 CATTTAATTTTTCAA
1 CATTTAATTTTTCAA
20071436 TTTTTCAAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
13 10 0.31
14 6 0.19
15 16 0.50
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.55
Consensus pattern (15 bp):
CATTTAATTTTTCAA
Found at i:20074257 original size:42 final size:43
Alignment explanation
Indices: 20074167--20074310 Score: 114
Period size: 43 Copynumber: 3.3 Consensus size: 43
20074157 GTCCCGGACG
* *
20074167 TGGTCTTACATGTAATCAAATATCGATGTCATTGTCCCAAATA
1 TGGTCTTACATGAAATCAAATATCGATGTCATTGTCCCAAACA
* * * *
20074210 GGGTCTTACATGAAATTAAATA-CGATGTCGA-TGTCCTAGACA
1 TGGTCTTACATGAAATCAAATATCGATGTC-ATTGTCCCAAACA
* * * *** *
20074252 TGGTCTTACACGTAAATCATAA-GTCGATGCCAAAATCCCAAACG
1 TGGTCTTACATG-AAATCA-AATATCGATGTCATTGTCCCAAACA
*
20074296 TGGTCTTACACGAAA
1 TGGTCTTACATGAAA
20074311 ACACATGTCG
Statistics
Matches: 80, Mismatches: 16, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
42 25 0.31
43 29 0.36
44 26 0.32
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAATATCGATGTCATTGTCCCAAACA
Found at i:20084821 original size:24 final size:24
Alignment explanation
Indices: 20084784--20084845 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
20084774 TTAGGGTTTA
* *
20084784 GGTTTTAGGATTTA-AAGTTTTATAT
1 GGTTTAAGG-TTTAGAA-TTTTATAG
*
20084809 GGTTTAAGGTTTAGTATTTTATAG
1 GGTTTAAGGTTTAGAATTTTATAG
*
20084833 GGTTTAGGGTTTA
1 GGTTTAAGGTTTA
20084846 TGTCTTTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (24 bp):
GGTTTAAGGTTTAGAATTTTATAG
Found at i:20084853 original size:24 final size:24
Alignment explanation
Indices: 20084802--20084870 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
20084792 GATTTAAAGT
* * *
20084802 TTTATATGGTTTAAGGTTTAGTAT
1 TTTATAGGGTTTAGGGTTTAGTAC
20084826 TTTATAGGGTTTAGGGTTTATGT-C
1 TTTATAGGGTTTAGGGTTTA-GTAC
*
20084850 TTTAT-GAGGTTTAGGATTTAG
1 TTTATAG-GGTTTAGGGTTTAG
20084871 GGTTTATGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 2 0.05
24 35 0.90
25 2 0.05
ACGTcount: A:0.22, C:0.01, G:0.26, T:0.51
Consensus pattern (24 bp):
TTTATAGGGTTTAGGGTTTAGTAC
Found at i:20085171 original size:183 final size:180
Alignment explanation
Indices: 20084856--20085233 Score: 423
Period size: 183 Copynumber: 2.1 Consensus size: 180
20084846 TGTCTTTATG
* *
20084856 AGGTTTAGGATTTAGGGTTTATGGTTTATGATTTTATGAGGTTTAAGGTTTTTAGGGTTTAGGGT
1 AGGTTTAGG-TTTAGGGTTTAGGGTTTATGAGTTTAT-AGGTTTAAGGTTTTTAGGGTTTAGGGT
* * * **
20084921 TTATGGTTTATGGTTTAGGATTTATGGTTTGTGGTTTATGGTAATGGTTTAAGGTTTTAGGGTTT
64 TTATGGTTGATGGTTTAGGATTTATGGTTTATGGTTTATGGTAA-GGTTTAAGGGTTTAAAGTTT
* * * * * *
20084986 AT-GGTTTATGGTTTAGTGTTTTTAGGTTTTATG-GTTTAGTGTTTTTGGGTTTA
128 ATGGGTTTAGGGTCTAGGGTTTAT-GCTTTTA-GAGTTTAGGGTTTTTGGGTTTA
20085039 AGGTTTAAGGTTTAGGGTTTAGGGTTTAT-AGTTTAT-GGTTTAAGGTTTGGCTTAGGGTTTAGG
1 AGGTTT-AGGTTTAGGGTTTAGGGTTTATGAGTTTATAGGTTTAAGGTTT---TTAGGGTTTAGG
20085102 GTTTA-GTGTTGA-GTGTTTAAGG-TTTATGGTTTATGGTTTCATGGTTTAA-GTTT-AGGGTTT
62 GTTTATG-GTTGATG-GTTT-AGGATTTATGGTTTATGGTTT-ATGG--TAAGGTTTAAGGGTTT
*
20085162 AAAGTTTATGGGTTTAGGGTCTAGGGTTTATGCTTTTAGAGTTTAGGGTTTTTGGTTTTA
121 AAAGTTTATGGGTTTAGGGTCTAGGGTTTATGCTTTTAGAGTTTAGGGTTTTTGGGTTTA
*
20085222 GGGTTTAGGTTT
1 AGGTTTAGGTTT
20085234 TAGTGTTTTA
Statistics
Matches: 168, Mismatches: 15, Indels: 25
0.81 0.07 0.12
Matches are distributed among these distances:
180 12 0.07
182 15 0.09
183 107 0.64
184 31 0.18
186 3 0.02
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.50
Consensus pattern (180 bp):
AGGTTTAGGTTTAGGGTTTAGGGTTTATGAGTTTATAGGTTTAAGGTTTTTAGGGTTTAGGGTTT
ATGGTTGATGGTTTAGGATTTATGGTTTATGGTTTATGGTAAGGTTTAAGGGTTTAAAGTTTATG
GGTTTAGGGTCTAGGGTTTATGCTTTTAGAGTTTAGGGTTTTTGGGTTTA
Found at i:20085232 original size:6 final size:7
Alignment explanation
Indices: 20084830--20085299 Score: 239
Period size: 7 Copynumber: 65.3 Consensus size: 7
20084820 TAGTATTTTA
20084830 TAGGGTT
1 TAGGGTT
20084837 TAGGGTT
1 TAGGGTT
**
20084844 TATGTCTT
1 TA-GGGTT
20084852 TATGAGGTT
1 TA-G-GGTT
*
20084861 TAGGATT
1 TAGGGTT
20084868 TAGGGTT
1 TAGGGTT
*
20084875 TATGGTT
1 TAGGGTT
**
20084882 TATGATTT
1 TA-GGGTT
20084890 TATGAGGTT
1 TA-G-GGTT
*
20084899 TAAGGTTTT
1 T-AGG-GTT
20084908 TAGGGTT
1 TAGGGTT
20084915 TAGGGTT
1 TAGGGTT
*
20084922 TATGGTT
1 TAGGGTT
*
20084929 TATGGTT
1 TAGGGTT
*
20084936 TAGGATT
1 TAGGGTT
*
20084943 TATGGTT
1 TAGGGTT
20084950 T-GTGGTT
1 TAG-GGTT
*
20084957 TATGG-T
1 TAGGGTT
* *
20084963 AATGGTT
1 TAGGGTT
*
20084970 TAAGGTTT
1 T-AGGGTT
20084978 TAGGGTT
1 TAGGGTT
*
20084985 TATGGTT
1 TAGGGTT
*
20084992 TATGGTT
1 TAGGGTT
*
20084999 TAGTGTTTT
1 TAG-G-GTT
*
20085008 TAGGTTT
1 TAGGGTT
*
20085015 TATGGTT
1 TAGGGTT
*
20085022 TAGTGTTT
1 TAG-GGTT
*
20085030 TTGGGTT
1 TAGGGTT
*
20085037 TAAGGTT
1 TAGGGTT
*
20085044 TAAGGTT
1 TAGGGTT
20085051 TAGGGTT
1 TAGGGTT
20085058 TAGGGTT
1 TAGGGTT
**
20085065 TATAGTT
1 TAGGGTT
*
20085072 TATGGTT
1 TAGGGTT
*
20085079 TAAGGTT
1 TAGGGTT
*
20085086 T--GGCT
1 TAGGGTT
20085091 TAGGGTT
1 TAGGGTT
20085098 TAGGGTT
1 TAGGGTT
*
20085105 TAGTGTT
1 TAGGGTT
* *
20085112 GAGTGTT
1 TAGGGTT
*
20085119 TAAGGTT
1 TAGGGTT
*
20085126 TATGGTT
1 TAGGGTT
*
20085133 TATGGTT
1 TAGGGTT
*
20085140 TCATGGTT
1 T-AGGGTT
*
20085148 TA-AGTT
1 TAGGGTT
20085154 TAGGGTT
1 TAGGGTT
**
20085161 TAAAGTT
1 TAGGGTT
20085168 TATGGGTT
1 TA-GGGTT
*
20085176 TAGGGTC
1 TAGGGTT
20085183 TAGGGTT
1 TAGGGTT
**
20085190 TATGCTTT
1 TA-GGGTT
*
20085198 TAGAGTT
1 TAGGGTT
20085205 TAGGGTTT
1 TAGGG-TT
* *
20085213 TTGGTTT
1 TAGGGTT
20085220 TAGGGTT
1 TAGGGTT
*
20085227 TAGGTTT
1 TAGGGTT
*
20085234 TAGTGTTT
1 TAG-GGTT
*
20085242 TATGGTT
1 TAGGGTT
* *
20085249 TAAGGTC
1 TAGGGTT
* *
20085256 TATGGTC
1 TAGGGTT
*
20085263 TAGGGTC
1 TAGGGTT
**
20085270 CGGGGTT
1 TAGGGTT
20085277 TAGGGTT
1 TAGGGTT
*
20085284 TATGGTT
1 TAGGGTT
20085291 TAGGGTT
1 TAGGGTT
20085298 TA
1 TA
20085300 AAGTTTTATA
Statistics
Matches: 361, Mismatches: 81, Indels: 42
0.75 0.17 0.09
Matches are distributed among these distances:
5 4 0.01
6 10 0.03
7 272 0.75
8 58 0.16
9 16 0.04
10 1 0.00
ACGTcount: A:0.17, C:0.02, G:0.32, T:0.49
Consensus pattern (7 bp):
TAGGGTT
Found at i:20086456 original size:41 final size:41
Alignment explanation
Indices: 20086411--20086566 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
20086401 ACCGGCTCTT
*
20086411 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
20086452 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
20086493 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
20086534 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
20086567 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:20093771 original size:33 final size:33
Alignment explanation
Indices: 20093702--20093799 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
20093692 CTATACCCAT
* * *
20093702 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
20093739 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
20093772 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
20093800 ATACATATCT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:20094061 original size:41 final size:41
Alignment explanation
Indices: 20094016--20094171 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
20094006 ACCGGCTCTT
*
20094016 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
20094057 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
20094098 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
20094139 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
20094172 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:20096206 original size:23 final size:25
Alignment explanation
Indices: 20096180--20096226 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
20096170 TATCATTCAT
*
20096180 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
20096203 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
20096227 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:20096593 original size:46 final size:46
Alignment explanation
Indices: 20096487--20096659 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
20096477 TTTGACGTGA
* * * *
20096487 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TG-CATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
*
20096532 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
* * * * *
20096578 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
* * *
20096624 TGCCATGG--T-TATCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCAT
20096660 ATCAGAGAGC
Statistics
Matches: 113, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
43 25 0.22
44 6 0.05
45 30 0.27
46 52 0.46
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:20101663 original size:4 final size:4
Alignment explanation
Indices: 20101654--20101685 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
20101644 ACTCTTATAT
20101654 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA
20101686 AGCGAGCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:20106606 original size:16 final size:17
Alignment explanation
Indices: 20106585--20106617 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
20106575 ATTCGTGATT
20106585 TTATTTTTT-AATAATA
1 TTATTTTTTAAATAATA
20106601 TTATTTTTTAAATAATA
1 TTATTTTTTAAATAATA
20106618 AAGTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTTTTTAAATAATA
Found at i:20118755 original size:49 final size:48
Alignment explanation
Indices: 20118643--20118755 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 48
20118633 TTAGTTTACG
* * * *
20118643 GTGGTTATACGATCACGGGTTGAAGTATAACTAGGGCTTCTAGTTGACA
1 GTGGTTATATGATCACGAGTTGAAGCATAACTAGGGC-TCTAGTTGAAA
* *
20118692 --GGTTATATGGTCACGAGTTGGAGCATAACTCAGGAGC-CTAGTTGAAA
1 GTGGTTATATGATCACGAGTTGAAGCATAACT-AGG-GCTCTAGTTGAAA
20118739 GTGGTTATATGATCACG
1 GTGGTTATATGATCACG
20118756 GATTTAAGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
47 34 0.64
48 3 0.06
49 16 0.30
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.29
Consensus pattern (48 bp):
GTGGTTATATGATCACGAGTTGAAGCATAACTAGGGCTCTAGTTGAAA
Found at i:20122004 original size:19 final size:19
Alignment explanation
Indices: 20121982--20122035 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 19
20121972 GGTTGAACCG
20121982 ATTTAATAAATTTTTTTAT
1 ATTTAATAAATTTTTTTAT
* *
20122001 ATTTTAA-AAATTTTATGA-
1 A-TTTAATAAATTTTTTTAT
20122019 A-TT-ATAAATTTTTTTAT
1 ATTTAATAAATTTTTTTAT
20122036 TTAATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 1 0.04
16 11 0.39
18 1 0.04
19 10 0.36
20 5 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTAATAAATTTTTTTAT
Found at i:20124084 original size:19 final size:20
Alignment explanation
Indices: 20124003--20124087 Score: 95
Period size: 20 Copynumber: 4.2 Consensus size: 20
20123993 TTTATAATTT
*
20124003 TTTTTAAAAATAAGGTTTTGAAA
1 TTTTTAAAAATTA--TTTTG-AA
*
20124026 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
20124045 -ATTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
20124064 TTTTTAAAAATTATTTT-AA
1 TTTTTAAAAATTATTTTGAA
20124083 TTTTT
1 TTTTT
20124088 TTGTAATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
18 7 0.13
19 18 0.33
20 20 0.36
22 1 0.02
23 9 0.16
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:20124708 original size:31 final size:31
Alignment explanation
Indices: 20124673--20124731 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
20124663 AAATATATAA
*
20124673 TTGAATCAAAA-CTAAAGTTTCATGTATACGT
1 TTGAACCAAAATC-AAAGTTTCATGTATACGT
*
20124704 TTGAACCACAATCAAAGTTTCATGTATA
1 TTGAACCAAAATCAAAGTTTCATGTATA
20124732 AAATTGCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (31 bp):
TTGAACCAAAATCAAAGTTTCATGTATACGT
Found at i:20124749 original size:30 final size:31
Alignment explanation
Indices: 20124686--20124760 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
20124676 AATCAAAACT
***
20124686 AAAGTTTCATGTATACGTTTGAACCACAATC
1 AAAGTTTCATGTATAAAATTGAACCACAATC
* *
20124717 AAAGTTTCATGTATAAAATTGCACTA-AATC
1 AAAGTTTCATGTATAAAATTGAACCACAATC
*
20124747 AAAG-TTCATATATA
1 AAAGTTTCATGTATA
20124761 TATCAAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 9 0.24
30 8 0.21
31 21 0.55
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (31 bp):
AAAGTTTCATGTATAAAATTGAACCACAATC
Found at i:20125693 original size:30 final size:30
Alignment explanation
Indices: 20125659--20125720 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
20125649 TAACTTAACA
20125659 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
* * *
20125689 AACAAATGTCTTTAAAATAATAATAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
20125719 AA
1 AA
20125721 TAATAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:20125723 original size:12 final size:12
Alignment explanation
Indices: 20125701--20125729 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20125691 CAAATGTCTT
20125701 TAAAA-TAATAA
1 TAAAATTAATAA
20125712 TAAAATTAATAA
1 TAAAATTAATAA
20125724 TAAAAT
1 TAAAAT
20125730 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:20126386 original size:30 final size:30
Alignment explanation
Indices: 20126350--20126410 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
20126340 TAATTTAACA
*
20126350 AGCAAATGCCTCTAAAATAA-AAACAAAATT
1 AGCAAATACCTCTAAAATAATAAA-AAAATT
* *
20126380 AGCAAATATCTTTAAAATAATAAAAAAATT
1 AGCAAATACCTCTAAAATAATAAAAAAATT
20126410 A
1 A
20126411 ACAATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
AGCAAATACCTCTAAAATAATAAAAAAATT
Found at i:20126466 original size:11 final size:11
Alignment explanation
Indices: 20126452--20126479 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
20126442 CAATAACAAC
20126452 AAAATAGGGAG
1 AAAATAGGGAG
20126463 AAAATAGGGAG
1 AAAATAGGGAG
20126474 AAAATA
1 AAAATA
20126480 ATATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.11
Consensus pattern (11 bp):
AAAATAGGGAG
Found at i:20127921 original size:20 final size:20
Alignment explanation
Indices: 20127888--20127926 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20127878 TCTATTCTTC
*
20127888 TCTTTTATTCTTATTATAAT
1 TCTTTTATTCTTATAATAAT
20127908 TCTTTTAGTT-TTATAATAA
1 TCTTTTA-TTCTTATAATAA
20127927 ATACAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (20 bp):
TCTTTTATTCTTATAATAAT
Found at i:20134286 original size:24 final size:24
Alignment explanation
Indices: 20134258--20134343 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 24
20134248 AGTCAATAAT
20134258 TTAAATTATATAAAATTTTATTTA
1 TTAAATTATATAAAATTTTATTTA
** *
20134282 TTAAATTATATTACCATTTTCCCTTTAA
1 TTAAATTATA-TAAAATTTT--ATTT-A
* *
20134310 TTTAAATTAAAT-AATTTTTATTTA
1 -TTAAATTATATAAAATTTTATTTA
20134334 TTAAATTATA
1 TTAAATTATA
20134344 CACTATTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
23 9 0.19
24 11 0.23
25 10 0.21
27 7 0.15
28 2 0.04
29 9 0.19
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAATTATATAAAATTTTATTTA
Found at i:20134585 original size:13 final size:14
Alignment explanation
Indices: 20134567--20134600 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
20134557 ACTTTTAAAT
20134567 CTTGAAC-TCGAAC
1 CTTGAACATCGAAC
20134580 CTTGAACATCGAAC
1 CTTGAACATCGAAC
*
20134594 CTAGAAC
1 CTTGAAC
20134601 CCCAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (14 bp):
CTTGAACATCGAAC
Found at i:20138093 original size:12 final size:12
Alignment explanation
Indices: 20138078--20138108 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20138068 TTCTCTTTTA
20138078 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
20138090 TTTTTCTTTCTC
1 TTTTTCTTTCCC
20138102 TTTTTCT
1 TTTTTCT
20138109 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:20138209 original size:16 final size:16
Alignment explanation
Indices: 20138188--20138218 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20138178 TTTATTATTT
20138188 TATTAACATAATATAA
1 TATTAACATAATATAA
*
20138204 TATTAATATAATATA
1 TATTAACATAATATA
20138219 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:20154764 original size:15 final size:16
Alignment explanation
Indices: 20154744--20154773 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20154734 CATCATACAT
20154744 TTATTC-TCTTCTTTC
1 TTATTCTTCTTCTTTC
20154759 TTATTCTTCTTCTTT
1 TTATTCTTCTTCTTT
20154774 GCAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTCTTCTTCTTTC
Found at i:20155493 original size:37 final size:37
Alignment explanation
Indices: 20155452--20155524 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
20155442 ACTGGTACAG
20155452 CTAGTACCAATTGAAAATTCACATCATAACAAAACAA
1 CTAGTACCAATTGAAAATTCACATCATAACAAAACAA
20155489 CTAGTACCAATTGAAAATTCACATCATAACAAAACA
1 CTAGTACCAATTGAAAATTCACATCATAACAAAACA
20155525 GAAATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (37 bp):
CTAGTACCAATTGAAAATTCACATCATAACAAAACAA
Found at i:20160858 original size:45 final size:45
Alignment explanation
Indices: 20160794--20160885 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
20160784 AAGGTGCGGA
* *
20160794 CTCAGCTAACAATATTCGTCAGTACATAACACTTAATTTACCACC
1 CTCAGCTAACAATATTCGTCACTACATAACAATTAATTTACCACC
*
20160839 CTCAGCTAACAATATTCGTCCCTACATAACAATTAATTTACCACC
1 CTCAGCTAACAATATTCGTCACTACATAACAATTAATTTACCACC
20160884 CT
1 CT
20160886 ATGTAAAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.29
Consensus pattern (45 bp):
CTCAGCTAACAATATTCGTCACTACATAACAATTAATTTACCACC
Found at i:20165028 original size:3 final size:3
Alignment explanation
Indices: 20165017--20165104 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
20165007 ATTATTTTGT
* *
20165017 TTA TT- TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA
* * * * * *
20165062 TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
20165105 ATTTATACCT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
2 3 0.04
3 60 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:20165037 original size:12 final size:12
Alignment explanation
Indices: 20165022--20165104 Score: 85
Period size: 12 Copynumber: 6.6 Consensus size: 12
20165012 TTTGTTTATT
*
20165022 TTATTATTATTA
1 TTATTATTACTA
20165034 TTATTATTTACTA
1 TTATTA-TTACTA
20165047 TTATTATCTTTACTA
1 TTATTA---TTACTA
* *
20165062 TTATTGTTAGTA
1 TTATTATTACTA
*
20165074 TTATTACTACTA
1 TTATTATTACTA
20165086 TTATTATTACTA
1 TTATTATTACTA
*
20165098 TCATTAT
1 TTATTAT
20165105 ATTTATACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
12 37 0.62
13 11 0.18
15 12 0.20
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:20169268 original size:12 final size:13
Alignment explanation
Indices: 20169235--20169269 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
20169225 AAGAAACAAA
*
20169235 TAAAAAAATATAT
1 TAAAACAATATAT
20169248 TAAAACAAT-TAT
1 TAAAACAATATAT
20169260 TAAAACAATA
1 TAAAACAATA
20169270 CACAATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAAACAATATAT
Found at i:20169293 original size:41 final size:41
Alignment explanation
Indices: 20169207--20169293 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
20169197 CAAATACATT
*
20169207 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAATATAT
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAATATAA
* * * * **
20169248 TAAAACAATTATTAAAACAATACACAATTTGAAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAATATAA
20169289 TAAAA
1 TAAAA
20169294 ATTGATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (41 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAAATATAA
Found at i:20169314 original size:6 final size:6
Alignment explanation
Indices: 20169303--20169344 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
20169293 AATTGATTAT
* *
20169303 ATTAAA ATTAAA ATTAAA ATTAAA A-TATA ATTAAA AATAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
20169345 ATATATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATTAAA
Found at i:20169326 original size:18 final size:17
Alignment explanation
Indices: 20169303--20169344 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
20169293 AATTGATTAT
20169303 ATTAAAATTAAAATTAAA
1 ATTAAAA-TAAAATTAAA
*
20169321 ATTAAAATATAATTAAA
1 ATTAAAATAAAATTAAA
*
20169338 AATAAAA
1 ATTAAAA
20169345 ATATATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTAAAATAAAATTAAA
Found at i:20169345 original size:18 final size:18
Alignment explanation
Indices: 20169314--20169354 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
20169304 TTAAAATTAA
*
20169314 AATT-AAAATTAAAATAT
1 AATTAAAAATAAAAATAT
20169331 AATTAAAAATAAAAATAT
1 AATTAAAAATAAAAATAT
20169349 ATATTA
1 A-ATTA
20169355 TATAATTCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTAAAAATAAAAATAT
Found at i:20170663 original size:13 final size:14
Alignment explanation
Indices: 20170647--20170682 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
20170637 CAATCTCATA
20170647 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
20170660 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
20170673 TCTC-ATTTCA
1 TCTCAATTTCA
20170683 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:20170672 original size:18 final size:19
Alignment explanation
Indices: 20170634--20170674 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
20170624 TGGTTCATGT
20170634 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
20170653 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
20170671 TTTC
1 TTTC
20170675 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:20170797 original size:23 final size:23
Alignment explanation
Indices: 20170767--20170815 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
20170757 TCTGATAGAT
20170767 ACCAGAATATCCAACCCAAACAC
1 ACCAGAATATCCAACCCAAACAC
20170790 ACCAGAATATCCAACCCAAACAC
1 ACCAGAATATCCAACCCAAACAC
20170813 ACC
1 ACC
20170816 CGGAATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.41, G:0.04, T:0.08
Consensus pattern (23 bp):
ACCAGAATATCCAACCCAAACAC
Found at i:20171205 original size:15 final size:15
Alignment explanation
Indices: 20171187--20171233 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
20171177 TATATTATAT
20171187 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
20171202 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
20171217 TTCAATCAATATAAA
1 TTCAATCAATATAAA
20171232 TT
1 TT
20171234 AGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:20172090 original size:13 final size:14
Alignment explanation
Indices: 20172072--20172100 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
20172062 GATTAACTTC
20172072 ATAAATATTTT-TA
1 ATAAATATTTTCTA
20172085 ATAAATATTTTCTA
1 ATAAATATTTTCTA
20172099 AT
1 AT
20172101 CCAGTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:20180021 original size:17 final size:17
Alignment explanation
Indices: 20179989--20180036 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
20179979 GTAAAAAAAC
20179989 ATATCATATATCATATTAT
1 ATAT-ATATAT-ATATTAT
*
20180008 ATATATATATATATTGT
1 ATATATATATATATTAT
* *
20180025 TTCTATATATAT
1 ATATATATATAT
20180037 TAAAATTCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 16 0.62
18 6 0.23
19 4 0.15
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (17 bp):
ATATATATATATATTAT
Found at i:20188964 original size:53 final size:53
Alignment explanation
Indices: 20188823--20188973 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
20188813 ATAAGTGCGC
* **
20188823 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
20188876 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* * *
20188929 CCGTATGAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
20188974 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:20195163 original size:24 final size:25
Alignment explanation
Indices: 20195127--20195173 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
20195117 AGAGTACCAT
* *
20195127 TTTTTTTTATAATTTATAATATATA
1 TTTTTATTATAATTAATAATATATA
20195152 TTTTTATT-TAATTAATAATATA
1 TTTTTATTATAATTAATAATATA
20195174 AATCTTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTTATTATAATTAATAATATATA
Found at i:20195181 original size:24 final size:24
Alignment explanation
Indices: 20195136--20195181 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
20195126 TTTTTTTTTA
* * *
20195136 TAATTTATAATATATATTTTTATT
1 TAATTAATAATATAAATCTTTATT
20195160 TAATTAATAATATAAATCTTTA
1 TAATTAATAATATAAATCTTTA
20195182 CTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TAATTAATAATATAAATCTTTATT
Found at i:20195209 original size:15 final size:17
Alignment explanation
Indices: 20195178--20195209 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
20195168 AATATAAATC
20195178 TTTACTGTTTATTTATT
1 TTTACTGTTTATTTATT
20195195 TTTACT-TTT-TTTATT
1 TTTACTGTTTATTTATT
20195210 AATGAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTACTGTTTATTTATT
Found at i:20195505 original size:29 final size:29
Alignment explanation
Indices: 20195440--20195505 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
20195430 TCCAAAAAGC
20195440 TAATTTTTTAAAAAATTATAAAAATAAGT
1 TAATTTTTTAAAAAATTATAAAAATAAGT
* * *
20195469 CAATTTTTTTAAAAA-TATACAGAAATTAGT
1 TAATTTTTTAAAAAATTATA-A-AAATAAGT
20195499 TAATTTT
1 TAATTTT
20195506 AGTAAAACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 4 0.13
29 14 0.45
30 13 0.42
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (29 bp):
TAATTTTTTAAAAAATTATAAAAATAAGT
Found at i:20201231 original size:13 final size:13
Alignment explanation
Indices: 20201204--20201240 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
20201194 TCTCTCTCTC
20201204 AAAAA-AAAAAA-
1 AAAAAGAAAAAAG
*
20201215 AAAAAGGAAAAAG
1 AAAAAGAAAAAAG
20201228 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
20201241 TACATAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 5 0.23
12 5 0.23
13 12 0.55
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:20202672 original size:13 final size:13
Alignment explanation
Indices: 20202654--20202681 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20202644 GAAGATTATG
20202654 AGCTTAATGGTTA
1 AGCTTAATGGTTA
20202667 AGCTTAATGGTTA
1 AGCTTAATGGTTA
20202680 AG
1 AG
20202682 ACAACCGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (13 bp):
AGCTTAATGGTTA
Found at i:20216255 original size:36 final size:36
Alignment explanation
Indices: 20216208--20216280 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
20216198 GGGATGGATG
20216208 TTTCAGCTTAATGTTACATTTGAGCAACTAGATTTC
1 TTTCAGCTTAATGTTACATTTGAGCAACTAGATTTC
20216244 TTTCAGCTTAATGTTACATTTGAGCAACTAGATTTC
1 TTTCAGCTTAATGTTACATTTGAGCAACTAGATTTC
20216280 T
1 T
20216281 AGTGTTTGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCAGCTTAATGTTACATTTGAGCAACTAGATTTC
Found at i:20230955 original size:23 final size:23
Alignment explanation
Indices: 20230911--20230956 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
20230901 TACCCAAATT
* *
20230911 TAATTTTAGAAATTATTTTTATA
1 TAATTTTAAAAATTATTATTATA
20230934 TAATTTATAAAAATTA-TATTATA
1 TAATTT-TAAAAATTATTATTATA
20230957 ATCATGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAATTTTAAAAATTATTATTATA
Found at i:20231705 original size:20 final size:20
Alignment explanation
Indices: 20231667--20231705 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20231657 TTTGGTTGAG
* *
20231667 AAGATATTTATTATTTTAAA
1 AAGATATTTATCATATTAAA
*
20231687 AAGATATTTCTCATATTAA
1 AAGATATTTATCATATTAA
20231706 CATCACATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
AAGATATTTATCATATTAAA
Found at i:20240037 original size:47 final size:46
Alignment explanation
Indices: 20239986--20240118 Score: 158
Period size: 46 Copynumber: 2.9 Consensus size: 46
20239976 GAATTATGAG
*
20239986 GCATCCAAACTCGTTGAGTTGCGTTCCGAGTTCACCTATGGATGCAA
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCA-CTATGGATGCAA
* * *
20240033 GCATCTGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCAA
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGGATGCAA
* * * * * * *
20240079 ACACCCGAGCTTGTTAAGTTGCATTCCGAGTTCATTATGG
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGG
20240119 GTGAGATTAT
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 43 0.58
47 31 0.42
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGGATGCAA
Found at i:20245330 original size:33 final size:33
Alignment explanation
Indices: 20245293--20245361 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
20245283 AAACCAGTCT
20245293 AAAATAGCCCTTAATTTCTTAATTTTTCAAGAA
1 AAAATAGCCCTTAATTTCTTAATTTTTCAAGAA
*
20245326 AAAATAGCCTTTAATTTCTTAATTTTTCAAGAA
1 AAAATAGCCCTTAATTTCTTAATTTTTCAAGAA
20245359 AAA
1 AAA
20245362 CCATGTCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (33 bp):
AAAATAGCCCTTAATTTCTTAATTTTTCAAGAA
Found at i:20251095 original size:18 final size:19
Alignment explanation
Indices: 20251072--20251109 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
20251062 ATAACTCAAT
*
20251072 TAAAAA-TAATTTTAAATA
1 TAAAAACTAATTTAAAATA
20251090 TAAAAACTAATTTAAAATA
1 TAAAAACTAATTTAAAATA
20251109 T
1 T
20251110 GAATATAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAAACTAATTTAAAATA
Found at i:20254707 original size:14 final size:14
Alignment explanation
Indices: 20254673--20254706 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
20254663 TACGTTTTAA
*
20254673 TCTTCTTCTTTTTT
1 TCTTTTTCTTTTTT
20254687 TCTTTTTCTTTTTT
1 TCTTTTTCTTTTTT
20254701 T-TTTTT
1 TCTTTTT
20254707 TAAGAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:20257955 original size:11 final size:11
Alignment explanation
Indices: 20257936--20257983 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
20257926 ATTTGATAAA
20257936 TAATATTTTAT
1 TAATATTTTAT
*
20257947 TATTATTTTAAT
1 TAATATTTT-AT
* *
20257959 GAGATATTTTAC
1 TA-ATATTTTAT
20257971 TAATATTTTAT
1 TAATATTTTAT
20257982 TA
1 TA
20257984 TAAATAGCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
11 18 0.62
12 5 0.17
13 6 0.21
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (11 bp):
TAATATTTTAT
Found at i:20260660 original size:22 final size:21
Alignment explanation
Indices: 20260635--20260677 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20260625 TAGTCATATA
20260635 ATAAATTATTAATATAATAAAT
1 ATAAATTATT-ATATAATAAAT
* *
20260657 ATAATTTATTATTTAATAAAT
1 ATAAATTATTATATAATAAAT
20260678 TATTTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAATTATTATATAATAAAT
Found at i:20260723 original size:16 final size:14
Alignment explanation
Indices: 20260697--20260737 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
20260687 TTTTAATTTT
20260697 ATTTT-AATAATAA
1 ATTTTAAATAATAA
20260710 ATTTTGAAAATAAT-A
1 ATTTT--AAATAATAA
20260725 ATTTTAAATAATA
1 ATTTTAAATAATA
20260738 TTATTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:20260790 original size:15 final size:15
Alignment explanation
Indices: 20260770--20260825 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
20260760 ATTCAATAGT
20260770 AATATTTTAATAATA
1 AATATTTTAATAATA
*
20260785 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
20260804 AATATATTAATAATA
1 AATATTTTAATAATA
20260819 AAT-TTTT
1 AATATTTT
20260826 TGTAGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:20260824 original size:47 final size:47
Alignment explanation
Indices: 20260718--20260824 Score: 109
Period size: 48 Copynumber: 2.3 Consensus size: 47
20260708 AAATTTTGAA
20260718 AATAAT-AATTTTAAATAATATTATTCACATATTATTGAAAATATTC
1 AATAATAAATTTTAAATAATATTATTCACATATTATTGAAAATATTC
*
20260764 AATAGTAATATTTTAATAATAAATATTTATT-ACA-ATTA-T-AAATATATT-
1 AATAATAA-ATTTT-A-AAT-AATA-TTATTCACATATTATTGAAA-ATATTC
20260812 AATAATAAATTTT
1 AATAATAAATTTT
20260825 TTGTAGTATA
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
46 5 0.10
47 6 0.12
48 15 0.29
49 7 0.13
50 7 0.13
51 7 0.13
52 5 0.10
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
AATAATAAATTTTAAATAATATTATTCACATATTATTGAAAATATTC
Found at i:20261445 original size:101 final size:101
Alignment explanation
Indices: 20261328--20261530 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
20261318 TCAGTGAAAC
20261328 AAACGAAGCCTAAATTCAAATTCTTCTCCTTCTCAAATATTTTTCGATAACTATTGAAATTATAC
1 AAACGAAGCCTAAATTCAAATTCTTCTCCTTCTCAAATATTTTTCGATAACTATTGAAATTATAC
20261393 ATGAATTTTTGTCTAATATATAATGTTAATTTTATA
66 ATGAATTTTTGTCTAATATATAATGTTAATTTTATA
20261429 AAACGAAGCCTAAATTCAAATTCTTCTCCTTCTCAAATATTTTTCGATAACTATTGAAATTATAC
1 AAACGAAGCCTAAATTCAAATTCTTCTCCTTCTCAAATATTTTTCGATAACTATTGAAATTATAC
20261494 ATGAATTTTTGTCTAATATATAATGTTAATTTTATA
66 ATGAATTTTTGTCTAATATATAATGTTAATTTTATA
20261530 A
1 A
20261531 TTTTCACAAA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (101 bp):
AAACGAAGCCTAAATTCAAATTCTTCTCCTTCTCAAATATTTTTCGATAACTATTGAAATTATAC
ATGAATTTTTGTCTAATATATAATGTTAATTTTATA
Found at i:20277817 original size:32 final size:31
Alignment explanation
Indices: 20277759--20277818 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
20277749 ATTTTACATT
* *
20277759 TATTTGATTGAATTTTGTCTCTAAATTTTGA
1 TATTTGATTAAATTTTATCTCTAAATTTTGA
20277790 TATTTGATTAAAATTTTATACTC-AAATTT
1 TATTTGATT-AAATTTTAT-CTCTAAATTT
20277819 AATTCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 9 0.36
32 13 0.52
33 3 0.12
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (31 bp):
TATTTGATTAAATTTTATCTCTAAATTTTGA
Found at i:20278189 original size:29 final size:30
Alignment explanation
Indices: 20278124--20278201 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 30
20278114 TAAAAAAATG
* * *
20278124 AAAATTT-GTGGCAAAAATTAATAAAATTT
1 AAAATTTAGTGGTAAAATTTAATAAAATTA
* *
20278153 AAAGTTTAGTGGTAAAATTTAATAACA-TA
1 AAAATTTAGTGGTAAAATTTAATAAAATTA
*
20278182 AAAATTTAGT-GTCAAATTTA
1 AAAATTTAGTGGTAAAATTTA
20278202 CTTATTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 9 0.22
29 16 0.39
30 16 0.39
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.36
Consensus pattern (30 bp):
AAAATTTAGTGGTAAAATTTAATAAAATTA
Found at i:20279005 original size:27 final size:26
Alignment explanation
Indices: 20278942--20278997 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
20278932 AAATTGATAC
20278942 CAAA-TTAAAAAA-AAA-TTAAATAT
1 CAAATTTAAAAAATAAAGTTAAATAT
20278965 CAAATTTAAAAAATTAAAGTTAAATAT
1 CAAATTTAAAAAA-TAAAGTTAAATAT
*
20278992 GAAATT
1 CAAATT
20278998 ATGAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 4 0.14
24 8 0.29
26 3 0.11
27 13 0.46
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (26 bp):
CAAATTTAAAAAATAAAGTTAAATAT
Found at i:20298851 original size:3 final size:3
Alignment explanation
Indices: 20298843--20298867 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20298833 GCCATGTTAT
20298843 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
20298868 ATCTTGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:20299538 original size:18 final size:20
Alignment explanation
Indices: 20299497--20299564 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
20299487 AATCAAGCTT
20299497 AATATTAATATATTAATAATA
1 AATATTAATATATTAATAA-A
*
20299518 AATATT-ATATTTTAA-AAA
1 AATATTAATATATTAATAAA
*
20299536 AATATTTAAAATATTAATATAA
1 AATA-TTAATATATTAATA-AA
20299558 AATATTA
1 AATATTA
20299565 TATTTTTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 5 0.12
19 4 0.10
20 15 0.38
21 10 0.25
22 6 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATATTAATATATTAATAAA
Found at i:20299674 original size:20 final size:20
Alignment explanation
Indices: 20299617--20299675 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
20299607 TTTAATCATA
*
20299617 TAATAAATTA-TTAATATAAT
1 TAATAAATTATTTAATAT-TT
*
20299637 TAAT--ATTAATTTATTATTT
1 TAATAAATT-ATTTAATATTT
20299656 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
20299676 CAATTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 3 0.09
19 6 0.19
20 20 0.62
21 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Found at i:20299709 original size:16 final size:16
Alignment explanation
Indices: 20299687--20299723 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
20299677 AATTTTATTT
20299687 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
20299704 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
20299719 TAATA
1 TAATA
20299724 TTCAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:20318365 original size:59 final size:60
Alignment explanation
Indices: 20318271--20318425 Score: 154
Period size: 59 Copynumber: 2.6 Consensus size: 60
20318261 ATTTTTCTTT
* * * * * * *
20318271 CATTAGGATTTAAAATTGTTTTTTTGTCTAAGTTAGACCCTGAATTTGGCAATTATTCTCA
1 CATTAGGACTTAAACTT-TTTTTTTGTCTAAGTTAGACCCTAAACTTGACAAATATTCCCA
* * ** *
20318332 CATTAGGACTTGAACTTTTTTTTTG-GTAAGTTAGGGCCTAAACTTGACAAATGTTCCCA
1 CATTAGGACTTAAACTTTTTTTTTGTCTAAGTTAGACCCTAAACTTGACAAATATTCCCA
* *
20318391 CATTAGGACTTAAACTATTTTTAT-TC-AAGTTAGAC
1 CATTAGGACTTAAACTTTTTTTTTGTCTAAGTTAGAC
20318426 ATTGAAAGCC
Statistics
Matches: 75, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
58 7 0.09
59 46 0.61
60 8 0.11
61 14 0.19
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (60 bp):
CATTAGGACTTAAACTTTTTTTTTGTCTAAGTTAGACCCTAAACTTGACAAATATTCCCA
Found at i:20318636 original size:30 final size:30
Alignment explanation
Indices: 20318542--20318636 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
20318532 ATTTAGATCC
* * *
20318542 TAATGTGAGAAAAATTATCAAATTCAAATCCC
1 TAAT-TGAAAAAAATTATCAAATTTAAA-CCT
* * *
20318574 AATATTG-AAATAATTATCAAGTTTAAGA-CT
1 TA-ATTGAAAAAAATTATCAAATTTAA-ACCT
20318604 TAATTGAAAAAAATTATCAAATTTAAACCT
1 TAATTGAAAAAAATTATCAAATTTAAACCT
20318634 TAA
1 TAA
20318637 ATAGTAATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
29 5 0.10
30 24 0.48
31 15 0.30
32 4 0.08
33 2 0.04
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (30 bp):
TAATTGAAAAAAATTATCAAATTTAAACCT
Found at i:20319323 original size:6 final size:6
Alignment explanation
Indices: 20319312--20319352 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
20319302 TTTTAAAGTG
*
20319312 AAGGGC AAGGGC AAGGGC AAGGGC AAGGAC AAGGGC AAGGG
1 AAGGGC AAGGGC AAGGGC AAGGGC AAGGGC AAGGGC AAGGG
20319353 GTATAAGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.49, T:0.00
Consensus pattern (6 bp):
AAGGGC
Found at i:20332016 original size:43 final size:43
Alignment explanation
Indices: 20331969--20332074 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
20331959 TTATTCAATG
* * *
20331969 ATGCACTATGCGTGTCAGTATAATTGCTCTGGTTTGTCCAACA
1 ATGCACTATGCGTGTCAATATAATTGCTCTGGCTTGCCCAACA
* * * *
20332012 ATGCACCT-TGTGTGTCAATATAATTGCTTTGGCTTGCCCGATA
1 ATGCA-CTATGCGTGTCAATATAATTGCTCTGGCTTGCCCAACA
* *
20332055 ATGCACTATGTGTGCCAATA
1 ATGCACTATGCGTGTCAATA
20332075 ACTTTTGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.04
43 49 0.92
44 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (43 bp):
ATGCACTATGCGTGTCAATATAATTGCTCTGGCTTGCCCAACA
Found at i:20332606 original size:13 final size:13
Alignment explanation
Indices: 20332571--20332599 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20332561 AATAATTAAG
20332571 TATATTATATTAT
1 TATATTATATTAT
20332584 TATATTATATTAT
1 TATATTATATTAT
20332597 TAT
1 TAT
20332600 TATATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:20333819 original size:6 final size:6
Alignment explanation
Indices: 20333808--20333838 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
20333798 ACAAATCCGA
*
20333808 AACAGT AACAGT AACAGT AACGGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
20333839 TTCGACACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:20334972 original size:5 final size:5
Alignment explanation
Indices: 20334962--20335012 Score: 79
Period size: 5 Copynumber: 10.6 Consensus size: 5
20334952 TTTATATATA
*
20334962 ATAAT ATAAT ATAAT ATAAT ATAAT AT-A- AGAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
20335010 ATA
1 ATA
20335013 CTTAATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 1 0.02
4 2 0.05
5 39 0.93
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:20334984 original size:23 final size:24
Alignment explanation
Indices: 20334955--20335012 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 24
20334945 TGTTTCTTTT
*
20334955 ATATATAATAATATAATATAATATAA
1 ATATAT-AGAATATAATATAATAT-A
20334981 TATAATATAAGAATATAATATAATATA
1 -AT-ATAT-AGAATATAATATAATATA
20335008 ATATA
1 ATATA
20335013 CTTAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 3 0.10
26 2 0.07
27 3 0.10
28 21 0.72
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATATAGAATATAATATAATATA
Found at i:20335955 original size:40 final size:40
Alignment explanation
Indices: 20335893--20335973 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
20335883 AATTATGGGA
* * *
20335893 TACTGAATATTGTTTTGAATACTGAATTGAACCGTGAAAT
1 TACTGAATAATGTTATGAATACTGAATTGAACCGTAAAAT
* * *
20335933 TACTGAATAATGTTATGTATACTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTATGAATACTGAATTGAACCGTAAAAT
20335973 T
1 T
20335974 TCTAATGAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (40 bp):
TACTGAATAATGTTATGAATACTGAATTGAACCGTAAAAT
Found at i:20336244 original size:45 final size:45
Alignment explanation
Indices: 20336166--20336271 Score: 133
Period size: 45 Copynumber: 2.4 Consensus size: 45
20336156 CGACTACTGT
* * * *
20336166 TACTATTACCGTTACTGTTACCGATTCGACACTTTCTGTGTCGAA
1 TACTGTTACTGTTACTATTACAGATTCGACACTTTCTGTGTCGAA
* *
20336211 TACTGTTACTGTTACTATTACAGATTC-AGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTATTACAGATTCGA-CACTTTCTGTGTCGAA
*
20336256 TATTGTTACTGTTACT
1 TACTGTTACTGTTACT
20336272 GCTACTGCTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 52 0.98
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTATTACAGATTCGACACTTTCTGTGTCGAA
Done.