Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007888.1 Hibiscus syriacus cultivar Beakdansim tig00110270_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1558302
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:1802 original size:31 final size:31
Alignment explanation
Indices: 1767--1835 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
1757 AATTTGAGTC
*
1767 TTAAACTTT-AGATGAAATATCATTTTGATAA
1 TTAAA-TTTCAGATAAAATATCATTTTGATAA
*
1798 TTAAATTTCAGATAAAATATTATTTTGAT-A
1 TTAAATTTCAGATAAAATATCATTTTGATAA
*
1828 TTGAATTT
1 TTAAATTT
1836 GACGAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (31 bp):
TTAAATTTCAGATAAAATATCATTTTGATAA
Found at i:2389 original size:27 final size:28
Alignment explanation
Indices: 2359--2411 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
2349 TTTCGTTTAG
*
2359 CATTTATGAACATGTTCATTT-ATGTAA
1 CATTCATGAACATGTTCATTTGATGTAA
*
2386 CATTCATGAACATGTTCCTTTGATGT
1 CATTCATGAACATGTTCATTTGATGT
2412 TCAACAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (28 bp):
CATTCATGAACATGTTCATTTGATGTAA
Found at i:3905 original size:29 final size:28
Alignment explanation
Indices: 3844--3910 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 28
3834 ACAAGAGATC
*
3844 AAATTGATATTTTATAAAATTTATGAATT
1 AAATTAATATTTTATAAAATTTATG-ATT
3873 AAATTAATATTTTAACTAAAATTTA-G-TT
1 AAATTAATATTTT-A-TAAAATTTATGATT
3901 AAAATTAATA
1 -AAATTAATA
3911 ATATTAGATC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 2 0.06
29 21 0.62
30 2 0.06
31 9 0.26
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (28 bp):
AAATTAATATTTTATAAAATTTATGATT
Found at i:17441 original size:2 final size:2
Alignment explanation
Indices: 17434--17507 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
17424 TAGAAACTTC
17434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17508 GAGATTCTGG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28033 original size:31 final size:31
Alignment explanation
Indices: 27993--28078 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
27983 TTGGGATTCC
* *
27993 TCATTATAATTTATGTTATGTGTTTAGGGTT
1 TCATCATAATTTATGTCATGTGTTTAGGGTT
* *
28024 TTATCATAATGTATGTCATGTGTTTAGGGTT
1 TCATCATAATTTATGTCATGTGTTTAGGGTT
*
28055 TCATCATAATTTATATCATGTGTT
1 TCATCATAATTTATGTCATGTGTT
28079 GTAACTGGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.51
Consensus pattern (31 bp):
TCATCATAATTTATGTCATGTGTTTAGGGTT
Found at i:29062 original size:143 final size:142
Alignment explanation
Indices: 28803--29095 Score: 390
Period size: 143 Copynumber: 2.1 Consensus size: 142
28793 ACTTTTCAGT
*
28803 AGAAACTTTTCAATGCCTAATTAATTATCTTAAGCAACTTTTCAGTGATATATCAACGCATTTCA
1 AGAAACTTTTCAATGCCCAATTAATTATCTTAAGCAACTTTTCAGTGATATATCAACGCATTTCA
* * ** *** * **
28868 GCATACTTTTCAGTGGCGATATATCACTTCATATAAGAAAATTTTGTATTTCTTGTAGGAAAAAT
66 ACAAACTTTTCAGAAGCGATATATCACTTCATATAAGAAAAACATGCATTTCTCATAGG-AAAAT
*
28933 AATGCACTATAGC
130 AATGCACCATAGC
* * *
28946 AGAAACTTTT-AAGTGCCCAATTAATTATCTTCAGCAACTTTTCAGTGGTATATCAACTCATTTC
1 AGAAACTTTTCAA-TGCCCAATTAATTATCTTAAGCAACTTTTCAGTGATATATCAACGCATTTC
* *
29010 AACAAACTTTTCAGAAGTGATATATCACTTCATATAAGAAAAACATGCATTTCTCATAGGCAAAT
65 AACAAACTTTTCAGAAGCGATATATCACTTCATATAAGAAAAACATGCATTTCTCATAGGAAAAT
*
29075 AATGCACCATGGC
130 AATGCACCATAGC
*
29088 ATAAACTT
1 AGAAACTT
29096 ATCAGTTTAC
Statistics
Matches: 130, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
142 24 0.18
143 106 0.82
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (142 bp):
AGAAACTTTTCAATGCCCAATTAATTATCTTAAGCAACTTTTCAGTGATATATCAACGCATTTCA
ACAAACTTTTCAGAAGCGATATATCACTTCATATAAGAAAAACATGCATTTCTCATAGGAAAATA
ATGCACCATAGC
Found at i:30753 original size:29 final size:29
Alignment explanation
Indices: 30691--30811 Score: 136
Period size: 29 Copynumber: 4.1 Consensus size: 29
30681 ATAGCGGTTT
***
30691 TAAATTCCACTAAATGT-TTTGTCAAAAA
1 TAAATTCCACTAAATGTGAAAGTCAAAAA
30719 TAAATTCCACTAAATGTGAAAGTCAAAAA
1 TAAATTCCACTAAATGTGAAAGTCAAAAA
* *
30748 TAAATTCCACTGAACGTGAAAGTCAAAAA
1 TAAATTCCACTAAATGTGAAAGTCAAAAA
***
30777 TAAAATAATACTAAATGTGAAAGTCAGAAAGA
1 T-AAATTCCACTAAATGTGAAAGTCA-AAA-A
30809 TAA
1 TAA
30812 TTATCCAATT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 17 0.22
29 36 0.46
30 19 0.24
31 5 0.06
32 2 0.03
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (29 bp):
TAAATTCCACTAAATGTGAAAGTCAAAAA
Found at i:31385 original size:18 final size:19
Alignment explanation
Indices: 31339--31377 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31329 CTATAATTAG
31339 TTACAAATAGTCATCCGTT
1 TTACAAATAGTCATCCGTT
31358 TTACAAATAGTCATCCGTT
1 TTACAAATAGTCATCCGTT
31377 T
1 T
31378 ACAGATAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (19 bp):
TTACAAATAGTCATCCGTT
Found at i:31777 original size:14 final size:15
Alignment explanation
Indices: 31746--31782 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
31736 ATAAATTAGT
31746 TAAAA-ATTTAAAAG
1 TAAAATATTTAAAAG
*
31760 TAAATTATTTAAAA-
1 TAAAATATTTAAAAG
31774 TAAAATATT
1 TAAAATATT
31783 AATTATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TAAAATATTTAAAAG
Found at i:34596 original size:31 final size:31
Alignment explanation
Indices: 34561--34633 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
34551 TTAAAAGTAT
34561 GGTGGTCATATCTACAACAATCCTATAGTTA
1 GGTGGTCATATCTACAACAATCCTATAGTTA
*
34592 GGTGGTTATATCTACAACAATCCTATAGTTA
1 GGTGGTCATATCTACAACAATCCTATAGTTA
*
34623 AGTGGTCATAT
1 GGTGGTCATAT
34634 GAATAGTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (31 bp):
GGTGGTCATATCTACAACAATCCTATAGTTA
Found at i:36195 original size:89 final size:86
Alignment explanation
Indices: 36087--36339 Score: 231
Period size: 87 Copynumber: 2.9 Consensus size: 86
36077 AAGAGTGTTA
* * *
36087 TTTTTGTCCTAAATTGAAACGTTGGGGCAAAAATGCTCAAATAAAAAAGAATAAGAG-ATAAGTT
1 TTTTTGTCCTAAACTGAAACGTTGAGACAAAAATGCTCAAAT--AAAA-AATAAGAGTA-AAGTT
36151 ACTATTTAGTCAAACGTTATAAATT
62 ACTATTTAGTCAAACGTTATAAATT
* * * *
36176 TTTTTGTCTTAAACTGAAACGTTGAGACTAAAATGCTCCAATAGAAAATAAGAGTCAAAGTTACT
1 TTTTTGTCCTAAACTGAAACGTTGAGACAAAAATGCTCAAATAAAAAATAAGAGT-AAAGTTACT
* ** * *
36241 ATTTAGTCAAA-ATTGGAGATA
65 ATTTAGTCAAACGTTATAAATT
** * * * * * * * *
36262 TTTTTAACCAAAATTAAAACATTAGAGGCTAAAATGCTCCAATAGAAAATAAGAGTCAAAGTTAC
1 TTTTTGTCCTAAACTGAAACGTT-GAGACAAAAATGCTCAAATAAAAAATAAGAGT-AAAGTTAC
36327 TATTTAGTCAAAC
64 TATTTAGTCAAAC
36340 ATTGGAGATA
Statistics
Matches: 140, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
86 29 0.21
87 74 0.53
88 1 0.01
89 36 0.26
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (86 bp):
TTTTTGTCCTAAACTGAAACGTTGAGACAAAAATGCTCAAATAAAAAATAAGAGTAAAGTTACTA
TTTAGTCAAACGTTATAAATT
Found at i:36294 original size:87 final size:88
Alignment explanation
Indices: 36203--36388 Score: 347
Period size: 87 Copynumber: 2.1 Consensus size: 88
36193 AACGTTGAGA
36203 CTAAAATGCTCCAATAGAAAATAAGAGTCAAAGTTACTATTTAGTCAAA-ATTGGAGATATTTTT
1 CTAAAATGCTCCAATAGAAAATAAGAGTCAAAGTTACTATTTAGTCAAACATTGGAGATATTTTT
36267 AACCAAAATTAAAACATTAGAGG
66 AACCAAAATTAAAACATTAGAGG
36290 CTAAAATGCTCCAATAGAAAATAAGAGTCAAAGTTACTATTTAGTCAAACATTGGAGATATTTTT
1 CTAAAATGCTCCAATAGAAAATAAGAGTCAAAGTTACTATTTAGTCAAACATTGGAGATATTTTT
**
36355 GCCCAAAATTAAAACATTAGAGG
66 AACCAAAATTAAAACATTAGAGG
36378 CTAAAATGCTC
1 CTAAAATGCTC
36389 TGAAAAATAA
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 49 0.51
88 47 0.49
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.28
Consensus pattern (88 bp):
CTAAAATGCTCCAATAGAAAATAAGAGTCAAAGTTACTATTTAGTCAAACATTGGAGATATTTTT
AACCAAAATTAAAACATTAGAGG
Found at i:36421 original size:88 final size:87
Alignment explanation
Indices: 36203--36423 Score: 311
Period size: 88 Copynumber: 2.5 Consensus size: 87
36193 AACGTTGAGA
* *
36203 CTAAAATGCTCCAATAGAAAATAAGAGTCAAAGTTACTATTTAGTCAAAATTGGAGATATTTTTA
1 CTAAAATGCTCCAATAGAAAATAAGAGCCAAAATTACTATTTAGTCAAAATTGGAGATATTTTTA
36268 ACCAAAATTAAAACATTAGAGG
66 ACCAAAATTAAAACATTAGAGG
* *
36290 CTAAAATGCTCCAATAGAAAATAAGAGTCAAAGTTACTATTTAGTCAAACATTGGAGATATTTTT
1 CTAAAATGCTCCAATAGAAAATAAGAGCCAAAATTACTATTTAGTCAAA-ATTGGAGATATTTTT
**
36355 GCCCAAAATTAAAACATTAGAGG
65 AACCAAAATTAAAACATTAGAGG
* * * *
36378 CTAAAATGCTCTGAA-A-AATAATATGAGCCAAAATTATTGTTTAGTC
1 CTAAAATGCTC-CAATAGAA-AATAAGAGCCAAAATTACTATTTAGTC
36424 CAATGTTAAA
Statistics
Matches: 123, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
87 51 0.41
88 70 0.57
89 2 0.02
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (87 bp):
CTAAAATGCTCCAATAGAAAATAAGAGCCAAAATTACTATTTAGTCAAAATTGGAGATATTTTTA
ACCAAAATTAAAACATTAGAGG
Found at i:37327 original size:29 final size:29
Alignment explanation
Indices: 37285--37343 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
37275 ATTTTCACCT
37285 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
37314 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
37343 A
1 A
37344 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:42010 original size:29 final size:29
Alignment explanation
Indices: 41968--42026 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
41958 ATTTTCACCT
*
41968 AACTAAATTGATGTAAGCAATGATATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
41997 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
42026 A
1 A
42027 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:43685 original size:2 final size:2
Alignment explanation
Indices: 43678--43703 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43668 ATGAGTAATT
43678 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
43704 ACGTTGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51886 original size:29 final size:30
Alignment explanation
Indices: 51840--51897 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
51830 ATTTCAAAAT
51840 TATAATTATGAAAAAAAATATTAATTTATA
1 TATAATTATGAAAAAAAATATTAATTTATA
* * *
51870 TATATTTAT-AAATAAAATATTTATTTAT
1 TATAATTATGAAAAAAAATATTAATTTAT
51898 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TATAATTATGAAAAAAAATATTAATTTATA
Found at i:52103 original size:118 final size:117
Alignment explanation
Indices: 51862--52094 Score: 285
Period size: 118 Copynumber: 2.0 Consensus size: 117
51852 AAAAAATATT
* * * *
51862 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGT
1 AATTAATATA-ATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGT
* * *
51927 GCCTTAAGATAGTTCTTTTCTTTGATATTAAAAAATAAATAAATAATTAAAAC
65 GCCTTAAGATAGTCCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAAC
** *
51980 AATTAATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGT
1 AATTAATATAATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCCAGG
** *
52045 TGTTTTAAGACT-G-CCCTTTC-TTAATATTGAAAAATAAATAAAT-ATTAAAA
64 TGCCTTAAGA-TAGTCCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAA
52095 TAGGATTAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
116 7 0.07
117 27 0.27
118 48 0.48
119 16 0.16
120 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.39
Consensus pattern (117 bp):
AATTAATATAATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAGGTG
CCTTAAGATAGTCCCTTTCTTTAATATTAAAAAATAAATAAATAATTAAAAC
Found at i:53660 original size:3 final size:3
Alignment explanation
Indices: 53654--53706 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
53644 ATTATTTATT
* *
53654 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
53698 TAA TAA TAA
1 TAA TAA TAA
53707 ATAAAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:53676 original size:19 final size:18
Alignment explanation
Indices: 53654--53709 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
53644 ATTATTTATT
53654 TAATAATAATAATATAATA
1 TAATAATAATAATA-AATA
* *
53673 TAATAATAATATTAAAACA
1 TAATAATAATAAT-AAATA
*
53692 AAATAATAATAATAAATA
1 TAATAATAATAATAAATA
53710 AAACAAATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 4 0.13
19 26 0.84
20 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATAATAATAATAAATA
Found at i:53679 original size:22 final size:21
Alignment explanation
Indices: 53632--53710 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 21
53622 TGTAAAAATG
* * *
53632 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
53654 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
*
53676 TAATAATATTAAA-ACA-A-AA
1 TAATAATAATAAATA-ATATAA
53695 TAATAATAATAAATAA
1 TAATAATAATAAATAA
53711 AACAAATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.31
20 3 0.06
21 2 0.04
22 23 0.47
23 6 0.12
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:53717 original size:22 final size:22
Alignment explanation
Indices: 53654--53732 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
53644 ATTATTTATT
* *
53654 TAATAAT-AATAATATAATATAA
1 TAATAATAAATAAAACAA-ATAA
*
53676 TAATAATA-TTAAAACAAAATAA
1 TAATAATAAATAAAAC-AAATAA
*
53698 TAATAATAAATAAAACAAATGA
1 TAATAATAAATAAAACAAATAA
53720 -AATAA-AAA-AAAAC
1 TAATAATAAATAAAAC
53733 TAGTGTCTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.10
20 3 0.06
21 5 0.10
22 28 0.57
23 8 0.16
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (22 bp):
TAATAATAAATAAAACAAATAA
Found at i:54540 original size:114 final size:114
Alignment explanation
Indices: 54059--54966 Score: 1403
Period size: 114 Copynumber: 8.0 Consensus size: 114
54049 ATAGAGTTAT
* * * * *
54059 GCAAAAGGTTAAACAAGTTCTTTTCATTATGAACTTCCTCTTTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** * * * *
54124 ATTATGAACACT-TCTGG-CAATGCTGATCCATCAAATGAT-GAATTGAA
66 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTG-A
* *
54171 ACAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
54236 ATTATGAACTTCCTTTGG-AAATGTTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGA
** *
54284 GCAAAAGGTTGAACAAGCTCTTCTCATTACGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
54349 ATTATGAACTTTCTCTGG-AAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGA
** ** *
54397 GCAAAATATTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTATTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
54462 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGA
* * *
54511 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAAATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
54576 ATTATGAACTTTCTTTGGAAAAAGTTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGA
* * *
54625 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTATTATTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
54690 ATTATGAACTTTCTCTGGAAAAAACTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGA
* * * *
54739 GCAAAAGGTTGAATAAATTCCTCTCATTATGAATTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
54804 ATTATGAACTTTCTCTGGAAAAAGATGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGA
* *
54853 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
54918 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGA
54967 ATCTTTGCTA
Statistics
Matches: 739, Mismatches: 54, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
112 67 0.09
113 207 0.28
114 465 0.63
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (114 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAAGCTGATCCATCAAGTGATGGATTTGA
Found at i:55394 original size:22 final size:22
Alignment explanation
Indices: 55369--55421 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
55359 TAAAGCTTTT
55369 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
*
55391 ATCTTTAAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
55413 ATCTTTGAA
1 ATCTTTGAA
55422 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:58185 original size:114 final size:114
Alignment explanation
Indices: 57985--58204 Score: 377
Period size: 114 Copynumber: 1.9 Consensus size: 114
57975 GATCATGCAG
* * *
57985 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
58050 ACACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGTAAA
66 ACACTTCCAAAAGATGCTATTGGATCTCCTTATTTCTACTATGAGTAAA
* *
58099 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
58164 ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTA
66 ACACTTCCAAAAGATGCTATTGGATCTCCTTATTTCTACTA
58205 CGAGAACGTG
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAAAAGATGCTATTGGATCTCCTTATTTCTACTATGAGTAAA
Found at i:60349 original size:10 final size:10
Alignment explanation
Indices: 60334--60369 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
60324 CCTTTTTTCC
60334 TTTTTGTTTG
1 TTTTTGTTTG
60344 TTTTTGTTTG
1 TTTTTGTTTG
60354 TTTTTTGTTTG
1 -TTTTTGTTTG
60365 TTTTT
1 TTTTT
60370 TTCATTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (10 bp):
TTTTTGTTTG
Found at i:60358 original size:11 final size:11
Alignment explanation
Indices: 60334--60370 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
60324 CCTTTTTTCC
60334 TTTTTGTTTG-
1 TTTTTGTTTGT
60344 TTTTTGTTTGT
1 TTTTTGTTTGT
60355 TTTTTGTTTGT
1 TTTTTGTTTGT
60366 TTTTT
1 TTTTT
60371 TCATTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
TTTTTGTTTGT
Found at i:62349 original size:14 final size:14
Alignment explanation
Indices: 62332--62393 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 14
62322 AATGTAATTT
62332 TGCAAATATGAAAA
1 TGCAAATATGAAAA
*
62346 TGCAAAAATGAAAA
1 TGCAAATATGAAAA
** * *
62360 TATAAACATAAAAA
1 TGCAAATATGAAAA
* *
62374 TGCAAA-ATGTAGA
1 TGCAAATATGAAAA
62387 TGCAAAT
1 TGCAAAT
62394 GTAAATATGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 10 0.27
14 27 0.73
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (14 bp):
TGCAAATATGAAAA
Found at i:64795 original size:20 final size:20
Alignment explanation
Indices: 64770--64818 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
64760 TTAAAATAGG
64770 ATTAAAATAAG-TTTAAAGTA
1 ATTAAAATAAGATTTAAA-TA
*
64790 ATT-AAATAAGATTTTAATA
1 ATTAAAATAAGATTTAAATA
*
64809 AATAAAATAA
1 ATTAAAATAA
64819 ATATTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (20 bp):
ATTAAAATAAGATTTAAATA
Found at i:64864 original size:3 final size:3
Alignment explanation
Indices: 64856--64891 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
64846 TTTATGGCTA
*
64856 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
64892 TAAAAGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:66316 original size:3 final size:3
Alignment explanation
Indices: 66310--66367 Score: 63
Period size: 3 Copynumber: 21.0 Consensus size: 3
66300 ATTATTTATT
* *
66310 TAA TAA TAA TAA T-A TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
66354 -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
66368 ATAAAACAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 10 0.21
3 38 0.79
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:66328 original size:5 final size:5
Alignment explanation
Indices: 66312--66345 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
66302 TATTTATTTA
66312 ATAAT AATAAT ATAAT ATAAT ATAAT AATAAT AT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT -ATAAT AT
66346 TAAAACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 17 0.63
6 10 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:66369 original size:13 final size:13
Alignment explanation
Indices: 66310--66371 Score: 53
Period size: 13 Copynumber: 5.0 Consensus size: 13
66300 ATTATTTATT
66310 TAATAAT-AATAA
1 TAATAATAAATAA
66322 T-ATAATATAAT-A
1 TAATAATA-AATAA
*
66334 TAATAAT-AATAT
1 TAATAATAAATAA
*
66346 TAA-AACAAAATAA
1 TAATAA-TAAATAA
66359 TAATAATAAATAA
1 TAATAATAAATAA
66372 AACAAATGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
11 10 0.26
12 6 0.15
13 21 0.54
14 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (13 bp):
TAATAATAAATAA
Found at i:75973 original size:3 final size:3
Alignment explanation
Indices: 75960--76021 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
75950 GTAATATGTA
** *
75960 AAT AA- AAT AAT AAT AAT AAT GCT AAT AAT AAT AATT AA- AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
76004 GAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT A-AT AA
76022 AAAAGACCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:76022 original size:24 final size:23
Alignment explanation
Indices: 75960--76023 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
75950 GTAATATGTA
* *
75960 AATAA-AATAATAATAATAATGCT
1 AATAATAATAATAA-AATAACGAT
75983 AATAATAATAATTAAAATAACGAT
1 AATAATAATAA-TAAAATAACGAT
76007 AATAATAATATATAAAA
1 AATAATAATA-ATAAAA
76024 AAGACCCGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 5 0.14
24 27 0.75
25 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AATAATAATAATAAAATAACGAT
Found at i:76332 original size:91 final size:90
Alignment explanation
Indices: 76171--76430 Score: 334
Period size: 91 Copynumber: 2.9 Consensus size: 90
76161 TGGTGGGGAC
* * * * * ** * *
76171 GACACTGCTCATACGTGATGAAGAGGTCTGGTCGTCTAAGGGTGGATGATAACTCGGTTCCTACG
1 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTAGGAAGGGTGATAACACGGTTCCTACG
76236 TGATGAGGACGACTGGTTGGTGG-AT
66 TGATGAGGACGACTGGTTGG-GGAAT
*
76261 GACATGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACACGGTTCCTAC
1 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATC-TTAGGAAGGGTGATAACACGGTTCCTAC
* *
76326 GTGATGAAGA-GATCTGGTCGGGGAAT
65 GTGATGAGGACGA-CTGGTTGGGGAAT
76352 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATC-TA--AA-GGTGATAACACGGTTCCTACG
1 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTAGGAAGGGTGATAACACGGTTCCTACG
*
76413 TGATGAGAACGACTGGTT
66 TGATGAGGACGACTGGTT
76431 ATCTATGGTT
Statistics
Matches: 150, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
86 33 0.22
87 4 0.03
89 2 0.01
90 35 0.23
91 76 0.51
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (90 bp):
GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTAGGAAGGGTGATAACACGGTTCCTACG
TGATGAGGACGACTGGTTGGGGAAT
Found at i:76472 original size:43 final size:45
Alignment explanation
Indices: 76350--76473 Score: 128
Period size: 46 Copynumber: 2.8 Consensus size: 45
76340 TGGTCGGGGA
* * * *
76350 ATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 ATGACACGGCTCCTACGTGATGAGGAGATCTGGTCATCTAAAGGT
* * * * *
76395 GATAACACGGTTCCTACGTGATGAGAACGA-CTGGTTATCT-ATGGT
1 -ATGACACGGCTCCTACGTGATGAGGA-GATCTGGTCATCTAAAGGT
76440 -TGACACGGCTCCTACGTGATGAGGAGATCTGGTC
1 ATGACACGGCTCCTACGTGATGAGGAGATCTGGTC
76474 TGGGGATGAC
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
42 2 0.03
43 27 0.43
45 4 0.06
46 29 0.46
47 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (45 bp):
ATGACACGGCTCCTACGTGATGAGGAGATCTGGTCATCTAAAGGT
Found at i:76500 original size:40 final size:41
Alignment explanation
Indices: 76313--76504 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 41
76303 AAGGGTGATA
*
76313 ACACGGTTCCTACGTGATGAAGAGATCTGG-TC-GGGGAATG
1 ACACGGTTCCTACGTGATGAGGAGATCTGGATCTGGGG-ATG
* * * * * *
76353 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGTTCCTACGTGATGAGGAGATCTGG--ATCT---GGGGATG
* ** *
76399 ACACGGTTCCTACGTGATGAGAACGA-CTGGTTATCTATGGTTG
1 ACACGGTTCCTACGTGATGAGGA-GATCTGG--ATCTGGGGATG
*
76442 ACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGGGATG
1 ACACGGTTCCTACGTGATGAGGAGATCTGGATCTGGGGATG
*
76482 ACACGGTTCCTACATGATGAGGA
1 ACACGGTTCCTACGTGATGAGGA
76505 CGGCTGGCCA
Statistics
Matches: 119, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
40 55 0.46
42 2 0.02
43 29 0.24
46 29 0.24
47 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (41 bp):
ACACGGTTCCTACGTGATGAGGAGATCTGGATCTGGGGATG
Found at i:76581 original size:28 final size:28
Alignment explanation
Indices: 76530--76583 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
76520 AGGAGTTATG
*
76530 GTTTCAAGAGAAACCAAATTAAAGATGT
1 GTTTCAAGAGAAACCAAATCAAAGATGT
*
76558 GTTTCAATAGAAA-CAAACTCAAAGAT
1 GTTTCAAGAGAAACCAAA-TCAAAGAT
76584 TGGATTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (28 bp):
GTTTCAAGAGAAACCAAATCAAAGATGT
Found at i:76887 original size:35 final size:35
Alignment explanation
Indices: 76846--76941 Score: 90
Period size: 35 Copynumber: 2.7 Consensus size: 35
76836 GACAAAATTC
***
76846 GTTTCAAGAGAAACGATCTCAAAGAT-GTTTGTTTT
1 GTTTCAAGAGAAACGA-CTCAAAGATAGTAAATTTT
*
76881 GTTTCAAG-GGAACAGACTCAAAGATAGTAAATTTT
1 GTTTCAAGAGAAAC-GACTCAAAGATAGTAAATTTT
*
76916 GTTTCCAA-AGAAACAAACTCAAAGAT
1 GTTT-CAAGAGAAAC-GACTCAAAGAT
76942 TTTTTCCAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 13 0.25
35 20 0.39
36 18 0.35
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (35 bp):
GTTTCAAGAGAAACGACTCAAAGATAGTAAATTTT
Found at i:77387 original size:64 final size:66
Alignment explanation
Indices: 77309--77435 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 66
77299 TTAGAAACTA
** * *
77309 TCTCAAGAGAGACAAAA-TTTGTTTTTAAAGAAATATACTCAAAGA-TGATTTTCAAAAGAAATT
1 TCTCAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTGATTTTCAAAAGAAATT
77372 G
66 G
**
77373 TCTCAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTTTTCAAAAGAAA
1 TCTCAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTGATTTTCAAAAGAAA
77436 CAACTCAAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 17 0.31
65 24 0.44
66 14 0.25
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (66 bp):
TCTCAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTGATTTTCAAAAGAAATT
G
Found at i:77443 original size:65 final size:62
Alignment explanation
Indices: 77251--77443 Score: 181
Period size: 66 Copynumber: 3.0 Consensus size: 62
77241 CGTCTTAAGT
* * * **
77251 GAGACGAAATTTGTTTCAAAGGAAACAATCCCAAAGGTTATTTTTTCATTAGAAACTATCTCAAG
1 GAGACAAAATTTGTTTCAAA-GAAACAA-CTCAAAGATT-TTTTTTCAAAAGAAAC-ATCTCAAG
77316 A
62 A
* * ** **
77317 GAGACAAAATTTGTTTTTAAAGAAATATACTCAAAGA-TGATTTTCAAAAGAAATTGTCTCAAGA
1 GAGACAAAATTTG-TTTCAAAGAAACA-ACTCAAAGATTTTTTTTCAAAAGAAA-CATCTCAAGA
*
77381 GAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTTTTCAAAAGAAACAACTCAA
1 GAGACAAAA-TTTGTTT-CAAAGAAACA-ACTCAAAGATTTTTTTTCAAAAGAAACATCTCAA
77444 AGATTTTTTC
Statistics
Matches: 102, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
64 31 0.30
65 27 0.26
66 37 0.36
67 7 0.07
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (62 bp):
GAGACAAAATTTGTTTCAAAGAAACAACTCAAAGATTTTTTTTCAAAAGAAACATCTCAAGA
Found at i:77451 original size:29 final size:29
Alignment explanation
Indices: 77385--77630 Score: 110
Period size: 29 Copynumber: 8.3 Consensus size: 29
77375 TCAAGAGAGA
* *
77385 CAAA-ATTTTGTTTCCAAAGAAACAGACT
1 CAAAGATTTTTTTTCAAAAGAAACAGACT
77413 CAAAGATTTTTTTTCAAAAGAAACA-ACT
1 CAAAGATTTTTTTTCAAAAGAAACAGACT
** * * * **
77441 CAAAGATTTTTTCACGAAATTGTCTCAAGAGAGA
1 CAAAGATTTTTTTTC-AAA-AG---AAACAGACT
* * * *
77475 C-AA-ACTTTGTTTCAAAATAAATAGACT
1 CAAAGATTTTTTTTCAAAAGAAACAGACT
* * * * **
77502 CAAAGATTTTTTTACGAAATTGTCTCAAGAGAGA
1 CAAAGATTTTTTTTC-AAA-AG---AAACAGACT
* * *
77536 CAAA-ACTTTGTTTT-AACAGAAATAGACT
1 CAAAGA-TTTTTTTTCAAAAGAAACAGACT
*
77564 CAAAGATATTTGTTTCAAAAGAAACA-ACT
1 CAAAGAT-TTTTTTTCAAAAGAAACAGACT
* *
77593 CAAAGATTTTTATTCAAAAGGAACAGACT
1 CAAAGATTTTTTTTCAAAAGAAACAGACT
77622 CAAAGATTT
1 CAAAGATTT
77631 ATCTCAAGAG
Statistics
Matches: 156, Mismatches: 43, Indels: 37
0.66 0.18 0.16
Matches are distributed among these distances:
27 6 0.04
28 47 0.30
29 56 0.36
30 12 0.08
31 4 0.03
32 8 0.05
33 6 0.04
34 17 0.11
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (29 bp):
CAAAGATTTTTTTTCAAAAGAAACAGACT
Found at i:77506 original size:61 final size:62
Alignment explanation
Indices: 77424--77570 Score: 235
Period size: 61 Copynumber: 2.4 Consensus size: 62
77414 AAAGATTTTT
*
77424 TTTCAAAAGAAACA-ACTCAAAGATTTTTTCACGAAATTGTCTCAAGAGAGAC-AAACTTTG
1 TTTCAAAAGAAATAGACTCAAAGATTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTG
* *
77484 TTTCAAAATAAATAGACTCAAAGATTTTTTTACGAAATTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAAAGAAATAGACTCAAAGATTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTG
* *
77546 TTTTAACAGAAATAGACTCAAAGAT
1 TTTCAAAAGAAATAGACTCAAAGAT
77571 ATTTGTTTCA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
60 12 0.15
61 37 0.47
62 30 0.38
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (62 bp):
TTTCAAAAGAAATAGACTCAAAGATTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTG
Found at i:77603 original size:151 final size:153
Alignment explanation
Indices: 77309--77603 Score: 434
Period size: 151 Copynumber: 1.9 Consensus size: 153
77299 TTAGAAACTA
** *
77309 TCTCAAGAGAGACAAAATTTGTTTTTAAAGAAATATACTCAAAGATGATTTTCAAAAGAAATTGT
1 TCTCAAGAGAGACAAAATTTGTTTCAAAAGAAATAGACTCAAAGAT-ATTTTCAAAAGAAATTGT
* *
77374 CTCAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTTTTCAAAAGAAACAA
65 CTCAAGAGAGACAAAACTTTGTTTCCAAAGAAACAGACTCAAAGATTTTGTTTCAAAAGAAACAA
77439 CTCAAAGATTTTTTCACGAAATTG
130 CTCAAAGATTTTTTCACGAAATTG
* * ** *
77463 TCTCAAGAGAGACAAACTTTGTTTCAAAATAAATAGACTCAAAGAT-TTTT-TTACGAAATTGTC
1 TCTCAAGAGAGACAAAATTTGTTTCAAAAGAAATAGACTCAAAGATATTTTCAAAAGAAATTGTC
* *
77526 TCAAGAGAGACAAAACTTTGTTT-TAACAGAAATAGACTCAAAGATATTTGTTTCAAAAGAAACA
66 TCAAGAGAGACAAAACTTTGTTTCCAA-AGAAACAGACTCAAAGAT-TTTGTTTCAAAAGAAACA
77590 ACTCAAAGATTTTT
129 ACTCAAAGATTTTT
77604 ATTCAAAAGG
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
150 2 0.02
151 49 0.39
152 35 0.28
154 41 0.32
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (153 bp):
TCTCAAGAGAGACAAAATTTGTTTCAAAAGAAATAGACTCAAAGATATTTTCAAAAGAAATTGTC
TCAAGAGAGACAAAACTTTGTTTCCAAAGAAACAGACTCAAAGATTTTGTTTCAAAAGAAACAAC
TCAAAGATTTTTTCACGAAATTG
Found at i:77637 original size:28 final size:27
Alignment explanation
Indices: 77553--77644 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 27
77543 TTGTTTTAAC
* *
77553 AGAAATAGACTCAAAGATATTTGTTTCAAA
1 AGAAACAGACTCAAAG--ATTT-ATTCAAA
77583 AGAAACA-ACTCAAAGATTTTTATTCAAA
1 AGAAACAGACTCAAAGA--TTTATTCAAA
* *
77611 AGGAACAGACTCAAAGATTTATCTCAAG
1 AGAAACAGACTCAAAGATTTAT-TCAAA
77639 AGAAAC
1 AGAAAC
77645 TGTCTCAAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
27 6 0.11
28 21 0.40
29 20 0.38
30 6 0.11
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (27 bp):
AGAAACAGACTCAAAGATTTATTCAAA
Found at i:77967 original size:105 final size:105
Alignment explanation
Indices: 77782--78089 Score: 397
Period size: 105 Copynumber: 2.9 Consensus size: 105
77772 TTTTGAAAAA
* *
77782 CTCAAGTGATATTAATTTTGTTTCA-A-GTACAACAAATTT-AAATTTGTATCTCAGAGAAAAAA
1 CTCAAGTGATATTAATTTTGTTTCATATG-A-AACAAATTTGAAATTTGTATCTCAAAG-GAAAA
* * *
77844 ATGTCTCAAGCGAAACGAAATTTGTTTCGAAATAAACAACAAT
63 ATGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAAT
* * *
77887 CTCAAGTGAGATTAATTTTGTTTCATATGAAGCAAATTTGAAATTTGTATCTCAAAGGAAAAATA
1 CTCAAGTGATATTAATTTTGTTTCATATGAAACAAATTTGAAATTTGTATCTCAAAGGAAAAATG
* *
77952 TCTCAAGCGAGACGAAGTTTGTTTTAAAAGAAACAACAAT
66 TCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAAT
* * * * * * * * *
77992 CTCAAGTGATATTAACTTTGCTTAATGTGAAACAAATTCGAAATTTGTATATCCAAGGGAAAAGG
1 CTCAAGTGATATTAATTTTGTTTCATATGAAACAAATTTGAAATTTGTATCTCAAAGGAAAAATG
78057 TCTCAAGCGAGACGAAATTTGTTTTGAAAGAAA
66 TCTCAAGCGAGACGAAATTTGTTTTGAAAGAAA
78090 TTATCTCAAG
Statistics
Matches: 176, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
105 157 0.89
106 18 0.10
107 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (105 bp):
CTCAAGTGATATTAATTTTGTTTCATATGAAACAAATTTGAAATTTGTATCTCAAAGGAAAAATG
TCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAAT
Found at i:78142 original size:35 final size:36
Alignment explanation
Indices: 78056--78152 Score: 133
Period size: 35 Copynumber: 2.7 Consensus size: 36
78046 AAGGGAAAAG
* *
78056 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACT
* * *
78092 ATCTCAAGCGAGACAAAATTTGTTTTTAGA-AAACT
1 GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACT
*
78127 GTCTTAAGCGAGACAAAATTTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
78153 ACAAAAGAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 28 0.52
36 26 0.48
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACT
Found at i:82380 original size:31 final size:32
Alignment explanation
Indices: 82324--82385 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
82314 TGATAAAATG
82324 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
82356 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
82386 CATGTAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:85748 original size:3 final size:3
Alignment explanation
Indices: 85735--85796 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
85725 GTAATATGTA
** *
85735 AAT AA- AAT AAT AAT AAT AAT GCT AAT AAT AAT AATT AA- AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
85779 GAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT A-AT AA
85797 AAAAGACCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:85797 original size:24 final size:23
Alignment explanation
Indices: 85735--85798 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
85725 GTAATATGTA
* *
85735 AATAA-AATAATAATAATAATGCT
1 AATAATAATAATAA-AATAACGAT
85758 AATAATAATAATTAAAATAACGAT
1 AATAATAATAA-TAAAATAACGAT
85782 AATAATAATATATAAAA
1 AATAATAATA-ATAAAA
85799 AAGACCCGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 5 0.14
24 27 0.75
25 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AATAATAATAATAAAATAACGAT
Found at i:86687 original size:21 final size:21
Alignment explanation
Indices: 86663--86737 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 21
86653 CAAATATTTT
86663 TTATTTTCTAAAATTATTAAG
1 TTATTTTCTAAAATTATTAAG
* * *
86684 TTATTGTTAGAGTAAAAAAAATATTAAT
1 TTATT-TT---CT---AAAATTATTAAG
86712 TTATTTTCTAAAATTATTAAG
1 TTATTTTCTAAAATTATTAAG
86733 TTATT
1 TTATT
86738 GTTAGGGTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 20 0.49
22 2 0.05
24 1 0.02
25 1 0.02
27 2 0.05
28 15 0.37
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (21 bp):
TTATTTTCTAAAATTATTAAG
Found at i:86761 original size:43 final size:45
Alignment explanation
Indices: 86664--86768 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 45
86654 AAATATTTTT
*
86664 TATTTTCTAAAATTATTAAGTTATTGTTAGAGTAAAAAAAATATTAATT
1 TATTTTCTAAAATTATTAAGTTATTGTTAGAGT----AAAATATTAATA
* *
86713 TATTTTCTAAAATTATTAAGTTATTGTTAGGGT-AGATA-TAATA
1 TATTTTCTAAAATTATTAAGTTATTGTTAGAGTAAAATATTAATA
86756 TATTTTCTAAAAT
1 TATTTTCTAAAAT
86769 ATTCATAGAG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
43 17 0.32
44 4 0.08
49 32 0.60
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.47
Consensus pattern (45 bp):
TATTTTCTAAAATTATTAAGTTATTGTTAGAGTAAAATATTAATA
Found at i:91918 original size:21 final size:20
Alignment explanation
Indices: 91891--91952 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
91881 CAGTTTTCAT
91891 ATTCGCATTGCGATAGTCCA
1 ATTCGCATTGCGATAGTCCA
* *
91911 AGTTCGCATTGCGAT-TTACA
1 A-TTCGCATTGCGATAGTCCA
91931 TATTCGCATTGCGATAGTCCA
1 -ATTCGCATTGCGATAGTCCA
91952 A
1 A
91953 AATCGCAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 18 0.51
21 17 0.49
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (20 bp):
ATTCGCATTGCGATAGTCCA
Found at i:91964 original size:21 final size:21
Alignment explanation
Indices: 91891--91964 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
91881 CAGTTTTCAT
91891 ATTCGCATTGCGATAGTCCAA
1 ATTCGCATTGCGATAGTCCAA
* * * *
91912 GTTCGCATTGCGAT-TTACAT
1 ATTCGCATTGCGATAGTCCAA
91932 ATTCGCATTGCGATAGTCCAA
1 ATTCGCATTGCGATAGTCCAA
* *
91953 AATCGCAATGCG
1 ATTCGCATTGCG
91965 GACCACGACC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 16 0.38
21 26 0.62
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (21 bp):
ATTCGCATTGCGATAGTCCAA
Found at i:98123 original size:17 final size:17
Alignment explanation
Indices: 98101--98135 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
98091 CAAATGTCCC
98101 ATTTATTAAACATACAA
1 ATTTATTAAACATACAA
*
98118 ATTTATTCAACATACAA
1 ATTTATTAAACATACAA
98135 A
1 A
98136 CATTCACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTTATTAAACATACAA
Found at i:102453 original size:30 final size:30
Alignment explanation
Indices: 102418--102485 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
102408 TGGGATGATT
102418 TTGAAGCTAAATGAGCTAGGGTATTTATAG
1 TTGAAGCTAAATGAGCTAGGGTATTTATAG
102448 TTGAAGCTAAATGAGCTAGGGTATTTATAG
1 TTGAAGCTAAATGAGCTAGGGTATTTATAG
102478 TTGAAGCT
1 TTGAAGCT
102486 TAAGGACTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (30 bp):
TTGAAGCTAAATGAGCTAGGGTATTTATAG
Found at i:102631 original size:35 final size:35
Alignment explanation
Indices: 102557--102658 Score: 150
Period size: 35 Copynumber: 2.9 Consensus size: 35
102547 ATATTTCAAC
* *
102557 AAACATCTATCAAACTTTGAAAAACCATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCA-TTTTCAAAG
102594 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
* *
102629 AAACATTTACTAAACTTTGAAAACTATTTT
1 AAACATTTACCAAACTTTGAAAACCATTTT
102659 TTCAAAGTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 37 0.61
36 7 0.11
37 17 0.28
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:107216 original size:35 final size:36
Alignment explanation
Indices: 107133--107235 Score: 156
Period size: 35 Copynumber: 2.9 Consensus size: 36
107123 CCATTACAAT
* *
107133 ATTTC-AATAAACATCTACCAAACTTTGAAAAACCAG
1 ATTTCAAAGAAACATTTACCAAACTTTG-AAAACCAG
*
107169 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 ATTTCAAAGAAACATTTACCAAACTTTGAAAACCAG
107204 ATTTCAAAGAAACATTTACCAAACTTTGAAAA
1 ATTTCAAAGAAACATTTACCAAACTTTGAAAA
107236 TTATTTTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 31 0.50
36 11 0.18
37 20 0.32
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (36 bp):
ATTTCAAAGAAACATTTACCAAACTTTGAAAACCAG
Found at i:108018 original size:2 final size:2
Alignment explanation
Indices: 108011--108036 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
108001 ATTTTTGAGA
108011 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
108037 TCATAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110782 original size:20 final size:20
Alignment explanation
Indices: 110757--110794 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
110747 TGGGTTTGAG
*
110757 TATCGATACTGGATGAACAA
1 TATCGATAATGGATGAACAA
110777 TATCGATAATGGATGAAC
1 TATCGATAATGGATGAAC
110795 TAAGATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (20 bp):
TATCGATAATGGATGAACAA
Found at i:115851 original size:5 final size:5
Alignment explanation
Indices: 115841--116036 Score: 392
Period size: 5 Copynumber: 39.2 Consensus size: 5
115831 GAAAGCTATC
115841 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
115891 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
115941 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
115991 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
116037 TCAGAAACAT
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 191 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:117524 original size:33 final size:35
Alignment explanation
Indices: 117477--117546 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 35
117467 TCAACAGTCT
*
117477 ATTTTCATTTATAAAAAA-ATT-AATTTGTGTAAA
1 ATTTTCATTCATAAAAAATATTAAATTTGTGTAAA
*
117510 ATTTTCATTCATAAAAAATTTTAAATTTGTGTAAA
1 ATTTTCATTCATAAAAAATATTAAATTTGTGTAAA
117545 AT
1 AT
117547 AATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 17 0.52
34 2 0.06
35 14 0.42
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (35 bp):
ATTTTCATTCATAAAAAATATTAAATTTGTGTAAA
Found at i:124274 original size:76 final size:78
Alignment explanation
Indices: 124146--124300 Score: 260
Period size: 76 Copynumber: 2.0 Consensus size: 78
124136 ATAGCACCTA
124146 ATTTTTTTCCCAAAAAGATTTAACTTTCCCTAAGCTGAACTATTTATGAAGGACAACACCTGTGG
1 ATTTTTTTCCCAAAAAGATTTAACTTTCCCTAAGCTGAACTATTTATGAAGGACAACACCTGTGG
*
124211 ATTAAGAAAGCAC
66 ATCAAGAAAGCAC
* * *
124224 ATTTTTTT-CCAAAAAGA-TTAACTTTTCCTAAGCTGAACTATTTATGAAGGACAATACTTGTGG
1 ATTTTTTTCCCAAAAAGATTTAACTTTCCCTAAGCTGAACTATTTATGAAGGACAACACCTGTGG
124287 ATCAAGAAAGCAC
66 ATCAAGAAAGCAC
124300 A
1 A
124301 CAATGGCTCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 56 0.77
77 9 0.12
78 8 0.11
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (78 bp):
ATTTTTTTCCCAAAAAGATTTAACTTTCCCTAAGCTGAACTATTTATGAAGGACAACACCTGTGG
ATCAAGAAAGCAC
Found at i:127252 original size:26 final size:26
Alignment explanation
Indices: 127178--127254 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
127168 ATCAAACTTT
* * *
127178 ATTTAAAAAATT-CAAGTTGAATCAA
1 ATTTATAAAATTACTAGTTGAGTCAA
* * **
127203 ATTTTTAAAATTACTACTCAAGTCAA
1 ATTTATAAAATTACTAGTTGAGTCAA
127229 ATTTATAAAATTACTAGTTGAGTCAA
1 ATTTATAAAATTACTAGTTGAGTCAA
127255 TTTTTTTAAC
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
25 10 0.25
26 30 0.75
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (26 bp):
ATTTATAAAATTACTAGTTGAGTCAA
Found at i:128176 original size:20 final size:20
Alignment explanation
Indices: 128151--128191 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
128141 TTCTTTAAGC
128151 ACCTAAAGTTAACTTGAAGT
1 ACCTAAAGTTAACTTGAAGT
*
128171 ACCTAAAGTTAACTTTAAGT
1 ACCTAAAGTTAACTTGAAGT
128191 A
1 A
128192 TAGCATGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (20 bp):
ACCTAAAGTTAACTTGAAGT
Found at i:128620 original size:83 final size:87
Alignment explanation
Indices: 128514--128680 Score: 270
Period size: 87 Copynumber: 2.0 Consensus size: 87
128504 TTCTTTATTA
*
128514 AATTGGAACTTTTTATTGAAGAA-T-TAT-ATTAATTATTTTTTTCAAAATCGACCCTTAGTTGT
1 AATTGGAACTTTTTACTGAAGAATTATATAATTAATTATTTTTTTCAAAATCGACCCTTAGTTGT
128576 AATATCTTTTAGCTATTTAACT
66 AATATCTTTTAGCTATTTAACT
*
128598 AATTGGAAC-TTTTACTGAAGAATTATATCAATTAATTTTTTTTTTCAAAATCGACCCTTAGTTG
1 AATTGGAACTTTTTACTGAAGAATTATAT-AATTAATTATTTTTTTCAAAATCGACCCTTAGTTG
*
128662 TAATATTTTTTAGCTATTT
65 TAATATCTTTTAGCTATTT
128681 GTGTCGCATG
Statistics
Matches: 76, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
83 12 0.16
84 10 0.13
85 3 0.04
87 51 0.67
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.48
Consensus pattern (87 bp):
AATTGGAACTTTTTACTGAAGAATTATATAATTAATTATTTTTTTCAAAATCGACCCTTAGTTGT
AATATCTTTTAGCTATTTAACT
Found at i:129934 original size:42 final size:42
Alignment explanation
Indices: 129882--129962 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
129872 CGTTTTAGGC
* * **
129882 CAAACGCCGCAATATAGTGATAATTTAACGGCGTTTATACCA
1 CAAACGCCGCAATAGAATGATAAAGTAACGGCGTTTATACCA
*
129924 CAAACGCCGCAATAGAATGATAAAGTAGCGGCGTTTATA
1 CAAACGCCGCAATAGAATGATAAAGTAACGGCGTTTATA
129963 TCTCAAATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (42 bp):
CAAACGCCGCAATAGAATGATAAAGTAACGGCGTTTATACCA
Found at i:132100 original size:34 final size:32
Alignment explanation
Indices: 132037--132100 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 32
132027 CTCTTAATAG
*
132037 TGTTTATAACTTCTTTCTTGTTTTGGTTGAGT
1 TGTTTATAACTTCTTTCTTGATTTGGTTGAGT
132069 TGTTTATAAGCTT-TTCTCTCTGATTTGGTTGA
1 TGTTTATAA-CTTCTT-TCT-TGATTTGGTTGA
132101 AGATGAGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.39
33 6 0.21
34 11 0.39
ACGTcount: A:0.14, C:0.11, G:0.19, T:0.56
Consensus pattern (32 bp):
TGTTTATAACTTCTTTCTTGATTTGGTTGAGT
Found at i:134413 original size:14 final size:15
Alignment explanation
Indices: 134383--134413 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
134373 TGAAAGTGAT
134383 TAGTTCTATACTATG
1 TAGTTCTATACTATG
134398 TAGTTCTATA-TATG
1 TAGTTCTATACTATG
134412 TA
1 TA
134414 CCCTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (15 bp):
TAGTTCTATACTATG
Found at i:140551 original size:43 final size:43
Alignment explanation
Indices: 140460--140541 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
140450 TTGCATCAAG
* * *
140460 AAAACGCCGCTAAATCTCAACACTTATTGCGGTGTTTGTGATA
1 AAAATGCCGCTAAATATCAACACTTATTGCGGCGTTTGTGATA
**
140503 AAAATGCCGCTAAATATCAGTACTTATTGCGGCGTTTGT
1 AAAATGCCGCTAAATATCAACACTTATTGCGGCGTTTGT
140542 TGAACAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (43 bp):
AAAATGCCGCTAAATATCAACACTTATTGCGGCGTTTGTGATA
Found at i:140563 original size:43 final size:43
Alignment explanation
Indices: 140481--140578 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 43
140471 AAATCTCAAC
* *
140481 ACTTATTGCGGTGTTTGTGATAAAAATGCCGCTAAATATCAG-T
1 ACTTATTGCGGCGTTTGTGATAAAAATGCCACTAAATATC-GTT
* ** *
140524 ACTTATTGCGGCGTTTGTTGA-ACAAATGTTACTATATATCGTT
1 ACTTATTGCGGCGTTTG-TGATAAAAATGCCACTAAATATCGTT
*
140567 ACCTATTGCGGC
1 ACTTATTGCGGC
140579 ATTTTTCGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 42 0.91
44 3 0.07
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (43 bp):
ACTTATTGCGGCGTTTGTGATAAAAATGCCACTAAATATCGTT
Found at i:142642 original size:58 final size:58
Alignment explanation
Indices: 142568--142690 Score: 203
Period size: 58 Copynumber: 2.1 Consensus size: 58
142558 TTACTCCTTG
* * *
142568 CCAATACTTCCTTATTTTAACACATCCGAA-AAATAATATTGATATTGTTCTTCTAGTA
1 CCAATACCTCCTTATTTTAACACATCC-AACAAACAATATAGATATTGTTCTTCTAGTA
142626 CCAATACCTCCTTATTTTAACACATCCAACAAACAATATAGATATTGTTCTTCTAGTA
1 CCAATACCTCCTTATTTTAACACATCCAACAAACAATATAGATATTGTTCTTCTAGTA
142684 CCAATAC
1 CCAATAC
142691 TCAAACTTAG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 2 0.03
58 59 0.97
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (58 bp):
CCAATACCTCCTTATTTTAACACATCCAACAAACAATATAGATATTGTTCTTCTAGTA
Found at i:150848 original size:21 final size:21
Alignment explanation
Indices: 150822--150883 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
150812 GAATGACCGC
150822 TATGTCCCGAAGGACCACTGA
1 TATGTCCCGAAGGACCACTGA
*
150843 TATGTCCCAAAGGACCAC---
1 TATGTCCCGAAGGACCACTGA
150861 TATGTCCCGAAGGACCACTGA
1 TATGTCCCGAAGGACCACTGA
150882 TA
1 TA
150884 ATCCCTCGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 17 0.47
21 19 0.53
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (21 bp):
TATGTCCCGAAGGACCACTGA
Found at i:150877 original size:18 final size:18
Alignment explanation
Indices: 150806--150879 Score: 85
Period size: 18 Copynumber: 3.9 Consensus size: 18
150796 ATTGAATATT
* * *
150806 TGTCCTGAATGACCGCTA
1 TGTCCCGAAGGACCACTA
150824 TGTCCCGAAGGACCACTGATA
1 TGTCCCGAAGGACCAC---TA
*
150845 TGTCCCAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
150863 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
150880 GATAATCCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
18 31 0.65
21 17 0.35
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:157025 original size:18 final size:18
Alignment explanation
Indices: 157002--157054 Score: 106
Period size: 18 Copynumber: 2.9 Consensus size: 18
156992 AATGAATATT
157002 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
157020 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
157038 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
157055 GATAATCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:159090 original size:2 final size:2
Alignment explanation
Indices: 159085--159113 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
159075 TTAATCATTA
159085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
159114 ACGATATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:160830 original size:21 final size:21
Alignment explanation
Indices: 160758--160815 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
160748 TGTGAAATCA
160758 GTATCGATACTCCTTCTACAT
1 GTATCGATACTCCTTCTACAT
160779 GTATCGATACTCCTTCTACAT
1 GTATCGATACTCCTTCTACAT
160800 GTATCGATACT-CTTCT
1 GTATCGATACTCCTTCT
160816 TGCGAGTATC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.22, C:0.28, G:0.10, T:0.40
Consensus pattern (21 bp):
GTATCGATACTCCTTCTACAT
Found at i:160845 original size:41 final size:41
Alignment explanation
Indices: 160756--160849 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 41
160746 TATGTGAAAT
**
160756 CAGTATCGATACTCCTTCTACATGTATCGATACTCCTTCTA
1 CAGTATCGATACTCCTTCTACATGTATCGATACTCCAACTA
*
160797 CATGTATCGATACT-CTTCTTGCGA-GTATCGATAC-CCAACTA
1 CA-GTATCGATACTCCTTC-TAC-ATGTATCGATACTCCAACTA
160838 GCAGTATCGATA
1 -CAGTATCGATA
160850 ACCTATGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
41 20 0.43
42 25 0.54
43 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (41 bp):
CAGTATCGATACTCCTTCTACATGTATCGATACTCCAACTA
Found at i:162934 original size:41 final size:41
Alignment explanation
Indices: 162891--163026 Score: 114
Period size: 41 Copynumber: 3.3 Consensus size: 41
162881 TAGCTAAAAT
* *
162891 GCCGCAATAGAGATGTCTATAGTGGCGTTTTTTCAACAAAT
1 GCCGCAATAGAGATGTATATAGTGGCGTTTTTTCAACAAAC
* * * *
162932 GCCGTAATAGAG-TGGTAATTTAGCGGCGTTTTTAC-ACAAAC
1 GCCGCAATAGAGAT-GT-ATATAGTGGCGTTTTTTCAACAAAC
* * * * * *
162973 GCCGCTATAGTGTTATTTATAGTGGCGTTTGTTCAACAAAC
1 GCCGCAATAGAGATGTATATAGTGGCGTTTTTTCAACAAAC
* *
163014 GACGCTATAGAGA
1 GCCGCAATAGAGA
163027 AGTAATTTCA
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
40 14 0.19
41 44 0.60
42 15 0.21
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (41 bp):
GCCGCAATAGAGATGTATATAGTGGCGTTTTTTCAACAAAC
Found at i:163024 original size:82 final size:81
Alignment explanation
Indices: 162832--163166 Score: 252
Period size: 82 Copynumber: 4.1 Consensus size: 81
162822 ATGATACTTC
* * * * *
162832 GGCGTTT-TTAAACAAACGCTG-TAATAGAGTGGTAATTTAGCGGCCTTTATAGCTA-AAATGCC
1 GGCGTTTGTTCAACAAACGC-GCT-ATAGAGTAGTAATTTAGCGGCGTTTTTA-CTACAAACGCC
* * *
162894 GCAATAGAGATGTCTATAGT
63 GCAATA-TGTTGTTTATAGT
* * *
162914 GGCGTTTTTTCAACAAATGC-CGTAATAGAGTGGTAATTTAGCGGCGTTTTTAC-ACAAACGCCG
1 GGCGTTTGTTCAACAAACGCGC-T-ATAGAGTAGTAATTTAGCGGCGTTTTTACTACAAACGCCG
* *
162977 CTATAGTGTTATTTATAGT
64 CAATA-TGTTGTTTATAGT
* * * * *
162996 GGCGTTTGTTCAACAAACGACGCTATAGAGAAGTAATTTCA-CGGCGTTTAT-CAAACAAATGCT
1 GGCGTTTGTTCAACAAACG-CGCTATAGAGTAGTAATTT-AGCGGCGTTTTTAC-TACAAACGCC
*
163059 GCAATATATTGTTTATAGT
63 GCAATATGTTGTTTATAGT
* * * * * * * * * *
163078 GGCGTTTGTGCAAAAAACGCTTCAATAGAGTAATAATATATCGGCATTTGTCCTACAAACGCCGC
1 GGCGTTTGTTCAACAAACGC-GCTATAGAGTAGTAATTTAGCGGCGTTTTTACTACAAACGCCGC
*
163143 AATATGTTGTTTATCGT
65 AATATGTTGTTTATAGT
163160 GGCGTTT
1 GGCGTTT
163167 ATATAAAACG
Statistics
Matches: 207, Mismatches: 34, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
81 4 0.02
82 148 0.71
83 54 0.26
84 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (81 bp):
GGCGTTTGTTCAACAAACGCGCTATAGAGTAGTAATTTAGCGGCGTTTTTACTACAAACGCCGCA
ATATGTTGTTTATAGT
Found at i:164667 original size:41 final size:41
Alignment explanation
Indices: 164581--164675 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
164571 TTAGCGGCAT
** * *
164581 TTGTATCAAAAACGCCGCCATAGACCTAACTTTTGCGGCGT
1 TTGTATCAAAAAAACCGCCATAGACATAACTTTTGCGGCGC
*
164622 TTGTATCAAAAAAACCGCCATAGACATAACTTTTGCGGTGC
1 TTGTATCAAAAAAACCGCCATAGACATAACTTTTGCGGCGC
164663 TTGTAT-AAAAAAA
1 TTGTATCAAAAAAA
164676 TGCCGCAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 7 0.14
41 42 0.86
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (41 bp):
TTGTATCAAAAAAACCGCCATAGACATAACTTTTGCGGCGC
Found at i:165262 original size:40 final size:40
Alignment explanation
Indices: 165206--165298 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
165196 CATATCGGTT
*
165206 CTCCACCATCGGCGACAGTCACAAAGGTAAGAACATCTTC
1 CTCCACCATCGACGACAGTCACAAAGGTAAGAACATCTTC
*
165246 CTCCACCATCGACGACAGTCACAAAGGTATGAACATCTTC
1 CTCCACCATCGACGACAGTCACAAAGGTAAGAACATCTTC
165286 CTCCACCATCGAC
1 CTCCACCATCGAC
165299 ATTTTCGTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.18
Consensus pattern (40 bp):
CTCCACCATCGACGACAGTCACAAAGGTAAGAACATCTTC
Found at i:168055 original size:44 final size:44
Alignment explanation
Indices: 167959--168117 Score: 153
Period size: 44 Copynumber: 3.7 Consensus size: 44
167949 CTGTGTTATT
* * * * *
167959 TAGCGGCGTTTGTAT--GAAGAAATGCCGCTATATACCA-ACTTT
1 TAGCGGCGTTTGTATCCTAA-AAACGCCGCTATACACCAGACCTA
*
168001 TAGCGGCGTTTATATCCTAAAAACGCCGCTATACACCAGACCTA
1 TAGCGGCGTTTGTATCCTAAAAACGCCGCTATACACCAGACCTA
* ** * * *
168045 TCGCGGCGTTTGTATCCTAAAAACATCTCTATATACCAGTCCTA
1 TAGCGGCGTTTGTATCCTAAAAACGCCGCTATACACCAGACCTA
* * *
168089 TAGCGGTGTTTGTACCCTAAAAATGCCGC
1 TAGCGGCGTTTGTATCCTAAAAACGCCGC
168118 GAAATATCAA
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 14 0.15
43 16 0.17
44 64 0.68
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
TAGCGGCGTTTGTATCCTAAAAACGCCGCTATACACCAGACCTA
Found at i:168160 original size:43 final size:43
Alignment explanation
Indices: 168106--168294 Score: 164
Period size: 43 Copynumber: 4.3 Consensus size: 43
168096 GTTTGTACCC
* * *
168106 TAAAAATGCCGCGAAATATCAACACTTATTGCGGCGTTTGTGA
1 TAAAAACGCCGCGAAATATCGACACCTATTGCGGCGTTTGTGA
* * * * *
168149 TAAAAACGCCGCTAAATATTGACACCTATTGCGGCATTTTTAA
1 TAAAAACGCCGCGAAATATCGACACCTATTGCGGCGTTTGTGA
* * * * *
168192 GACAAACGCCGCAAAATATCGATACCTATTGCGGCGTTTGTTA
1 TAAAAACGCCGCGAAATATCGACACCTATTGCGGCGTTTGTGA
* * * ** * *
168235 -AACAAACTCCGCTATATATCGTTACCTATTGCGGCGTTTTTTGT
1 TAA-AAACGCCGCGAAATATCGACACCTATTGCGGCG-TTTGTGA
168279 TAACAAACGCCGCGAA
1 TAA-AAACGCCGCGAA
168295 CTTTAGCGGT
Statistics
Matches: 116, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 1 0.01
43 99 0.85
44 4 0.03
45 12 0.10
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (43 bp):
TAAAAACGCCGCGAAATATCGACACCTATTGCGGCGTTTGTGA
Found at i:168210 original size:86 final size:86
Alignment explanation
Indices: 168113--168275 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 86
168103 CCCTAAAAAT
* * *
168113 GCCGCGAAATATCAACACTTATTGCGGCGTTTGTGATAA-AAACGCCGCTAAATATTGACACCTA
1 GCCGCAAAATATCAACACCTATTGCGGCGTTTGTGA-AACAAACGCCGCTAAATATCGACACCTA
168177 TTGCGGCATTTTTAAGACAAAC
65 TTGCGGCATTTTTAAGACAAAC
* * * * * **
168199 GCCGCAAAATATCGATACCTATTGCGGCGTTTGTTAAACAAACTCCGCTATATATCGTTACCTAT
1 GCCGCAAAATATCAACACCTATTGCGGCGTTTGTGAAACAAACGCCGCTAAATATCGACACCTAT
*
168264 TGCGGCGTTTTT
66 TGCGGCATTTTT
168276 TGTTAACAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
85 2 0.03
86 63 0.97
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (86 bp):
GCCGCAAAATATCAACACCTATTGCGGCGTTTGTGAAACAAACGCCGCTAAATATCGACACCTAT
TGCGGCATTTTTAAGACAAAC
Found at i:170013 original size:20 final size:22
Alignment explanation
Indices: 169988--170028 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
169978 TATTTTTTAA
169988 AATATCAATAC-A-TCAAGAAC
1 AATATCAATACTATTCAAGAAC
170008 AATATCAATACTATTCAAGAA
1 AATATCAATACTATTCAAGAA
170029 TTAACTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 1 0.05
22 7 0.37
ACGTcount: A:0.54, C:0.17, G:0.05, T:0.24
Consensus pattern (22 bp):
AATATCAATACTATTCAAGAAC
Found at i:176691 original size:18 final size:18
Alignment explanation
Indices: 176668--176704 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
176658 TATAGCATGC
*
176668 CCCCTGATCCGCGCTATA
1 CCCCTGATCCACGCTATA
176686 CCCCTGATCCACGCTATA
1 CCCCTGATCCACGCTATA
176704 C
1 C
176705 GTCACGTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.46, G:0.14, T:0.22
Consensus pattern (18 bp):
CCCCTGATCCACGCTATA
Found at i:180413 original size:26 final size:24
Alignment explanation
Indices: 180383--180455 Score: 64
Period size: 26 Copynumber: 3.0 Consensus size: 24
180373 AAAAGTCCAA
180383 TAAATTTAACAAAATAAAGTAAGTAT
1 TAAATTTAACAAAATAAAGTAA--AT
*
180409 TAAA-TGAGA-AATAATAAA--AAAT
1 TAAATTTA-ACAA-AATAAAGTAAAT
180431 TACAATTTAACAAAATAAAGTAAAT
1 TA-AATTTAACAAAATAAAGTAAAT
180456 ACAAATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 15
0.69 0.04 0.27
Matches are distributed among these distances:
22 4 0.11
23 9 0.24
24 6 0.16
25 8 0.21
26 11 0.29
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (24 bp):
TAAATTTAACAAAATAAAGTAAAT
Found at i:180898 original size:27 final size:27
Alignment explanation
Indices: 180855--180916 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
180845 GCCTCCAAGA
* *
180855 GGGGTCATCTGTAACGGTGGCGGCGGC
1 GGGGTCATCTATAACGGTGACGGCGGC
*
180882 GGGGTCATCTATGACGGTGACGGCGGC
1 GGGGTCATCTATAACGGTGACGGCGGC
180909 GGGGTCAT
1 GGGGTCAT
180917 AAAACCAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.13, C:0.21, G:0.47, T:0.19
Consensus pattern (27 bp):
GGGGTCATCTATAACGGTGACGGCGGC
Found at i:180988 original size:18 final size:18
Alignment explanation
Indices: 180965--181000 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
180955 GTGATGACGA
* *
180965 CATCATATATGGTTGCGG
1 CATCATAAATGGCTGCGG
180983 CATCATAAATGGCTGCGG
1 CATCATAAATGGCTGCGG
181001 TGGCTGCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (18 bp):
CATCATAAATGGCTGCGG
Found at i:182722 original size:17 final size:18
Alignment explanation
Indices: 182679--182719 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
182669 AAATTATATT
182679 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
182696 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
182714 ATTAAA
1 AGTAAA
182720 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:186068 original size:100 final size:100
Alignment explanation
Indices: 185947--186160 Score: 387
Period size: 100 Copynumber: 2.2 Consensus size: 100
185937 TTTTAAATAC
*
185947 CTAAACTAT-T-TTTTGTCAAAATAAGTTCTTAAACTATTATATACTATTATATGTAATCTCTTC
1 CTAAACTATATCTTTTGTCAAAATAAGTTATTAAACTATTATATACTATTATATGTAATCTCTTC
*
186010 GAGTACCTCAACTATTTTTTGGTTAAATCAAATCT
66 GAGTAACTCAACTATTTTTTGGTTAAATCAAATCT
186045 CTAAACTATATCTTTTGTCAAAATAAGTTATTAAACTATTATATACTATTATATGTAATCTCTTC
1 CTAAACTATATCTTTTGTCAAAATAAGTTATTAAACTATTATATACTATTATATGTAATCTCTTC
*
186110 GAGTAACTCAATTATTTTTTGGTTAAATCAAATCT
66 GAGTAACTCAACTATTTTTTGGTTAAATCAAATCT
186145 CTAAACTATATCTTTT
1 CTAAACTATATCTTTT
186161 TTTTGTTTTA
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
98 9 0.08
99 1 0.01
100 101 0.91
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (100 bp):
CTAAACTATATCTTTTGTCAAAATAAGTTATTAAACTATTATATACTATTATATGTAATCTCTTC
GAGTAACTCAACTATTTTTTGGTTAAATCAAATCT
Found at i:187404 original size:36 final size:36
Alignment explanation
Indices: 187364--187462 Score: 171
Period size: 36 Copynumber: 2.8 Consensus size: 36
187354 ACGGTGCTAG
187364 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
187400 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* * *
187436 ACATTGATACATGAATATATCAAAGCT
1 ACATTGATACACGAATGTACCAAAGCT
187463 AATAATACTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.26
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:189791 original size:29 final size:30
Alignment explanation
Indices: 189737--189797 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
189727 AATTTTGGTT
* *
189737 CTAAACTTTTCAAAATTTATACTTTAGCCA
1 CTAAACTTTTCAAAACTTACACTTTAGCCA
* *
189767 CTAAAC-TTTCAAAACTTACATTTTAGTCA
1 CTAAACTTTTCAAAACTTACACTTTAGCCA
189796 CT
1 CT
189798 GGTCAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.39
Consensus pattern (30 bp):
CTAAACTTTTCAAAACTTACACTTTAGCCA
Found at i:194734 original size:18 final size:18
Alignment explanation
Indices: 194713--194747 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
194703 CTCCCTGATG
* *
194713 TGTATGTGTTCCCTATTA
1 TGTATGTATTCCATATTA
194731 TGTATGTATTCCATATT
1 TGTATGTATTCCATATT
194748 GTTGAGGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.51
Consensus pattern (18 bp):
TGTATGTATTCCATATTA
Found at i:200944 original size:23 final size:23
Alignment explanation
Indices: 200918--200969 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
200908 TTAGCTCGTG
200918 ACTTTTTGAGTCGAGTTGAGCTT
1 ACTTTTTGAGTCGAGTTGAGCTT
200941 ACTTTTTGAGTCGAGTTGAGCTT
1 ACTTTTTGAGTCGAGTTGAGCTT
200964 ACTTTT
1 ACTTTT
200970 AAAGTTTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.46
Consensus pattern (23 bp):
ACTTTTTGAGTCGAGTTGAGCTT
Found at i:202000 original size:2 final size:2
Alignment explanation
Indices: 201995--202020 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
201985 AAATGAAGAA
201995 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
202021 GTATTGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:207695 original size:40 final size:40
Alignment explanation
Indices: 207640--207720 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
207630 GATTTGGACT
*
207640 TAGTCTTCTTTTGCTTTGCAGGCCGGCAGTTGATCCATTC
1 TAGTCTTCTTTTGCTTTGCAGGACGGCAGTTGATCCATTC
*
207680 TAGTCTTCTTTTGCTTTGCAGGACGGCAGTTGATTCATTC
1 TAGTCTTCTTTTGCTTTGCAGGACGGCAGTTGATCCATTC
207720 T
1 T
207721 TTTCAGCTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.42
Consensus pattern (40 bp):
TAGTCTTCTTTTGCTTTGCAGGACGGCAGTTGATCCATTC
Found at i:208907 original size:18 final size:18
Alignment explanation
Indices: 208884--208936 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
208874 TCATGTTTAG
208884 TTTTAAAAAAAAAAATAT
1 TTTTAAAAAAAAAAATAT
* * **
208902 TTTTAAATAATATTATAT
1 TTTTAAAAAAAAAAATAT
208920 TTTTATAAAAATAAAAA
1 TTTTA-AAAAA-AAAAA
208937 ATATAAATAT
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
18 19 0.76
19 4 0.16
20 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTTAAAAAAAAAAATAT
Found at i:210838 original size:59 final size:59
Alignment explanation
Indices: 210761--210872 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
210751 ACATATTAAT
* *
210761 AGTCGGGTGACCATTTTGTGACTTTTAATAGTTGGAGGACTAGAAAAA-TAATACGCTAC
1 AGTCAGGTGACCATTTTGTGACTTTTAACAGTTGGAGGACTA-AAAAAGTAATACGCTAC
*
210820 AGTCAGGTGATCATTTTGTGACTTTTAACAGTTGGAGGACTAAAAAAGTAATA
1 AGTCAGGTGACCATTTTGTGACTTTTAACAGTTGGAGGACTAAAAAAGTAATA
210873 TCCTATAGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
58 5 0.10
59 44 0.90
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (59 bp):
AGTCAGGTGACCATTTTGTGACTTTTAACAGTTGGAGGACTAAAAAAGTAATACGCTAC
Found at i:210897 original size:59 final size:58
Alignment explanation
Indices: 210759--210897 Score: 174
Period size: 59 Copynumber: 2.3 Consensus size: 58
210749 GAACATATTA
*
210759 ATAGTCGGGTGACCATTTTGTGACTTTTAATAGTTGGAGGACTAGAAAAATAATACGCT
1 ATAGTCGGG-GACCATTTTGTGACTTTTAACAGTTGGAGGACTAGAAAAATAATACGCT
* * *
210818 ACAGTCAGGTGATCATTTTGTGACTTTTAACAGTTGGAGGACTA-AAAAAGTAATATC-CT
1 ATAGTC-GGGGACCATTTTGTGACTTTTAACAGTTGGAGGACTAGAAAAA-TAATA-CGCT
*
210877 ATAGTCGGAGGACCAATTTGT
1 ATAGTCGG-GGACCATTTTGT
210898 AGCTTTAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
58 7 0.10
59 58 0.85
60 3 0.04
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (58 bp):
ATAGTCGGGGACCATTTTGTGACTTTTAACAGTTGGAGGACTAGAAAAATAATACGCT
Found at i:216490 original size:32 final size:32
Alignment explanation
Indices: 216449--216511 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
216439 AAACTCACAT
216449 TTCCCCTTCAATTCTTGGTTATAGGTTGTTTG
1 TTCCCCTTCAATTCTTGGTTATAGGTTGTTTG
216481 TTCCCCTTCAATTCTTGGTTATAGGTTGTTT
1 TTCCCCTTCAATTCTTGGTTATAGGTTGTTT
216512 CGTACATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.13, C:0.19, G:0.17, T:0.51
Consensus pattern (32 bp):
TTCCCCTTCAATTCTTGGTTATAGGTTGTTTG
Found at i:229543 original size:78 final size:79
Alignment explanation
Indices: 229422--229586 Score: 196
Period size: 78 Copynumber: 2.1 Consensus size: 79
229412 CATTAGATGG
* *
229422 GTGTGATGTGATTCCTAAAGGTACAATGGCTGGTGGGTATAGACCTCAT-A-GTGTGGAA-TTTA
1 GTGTGATGTGATTCCTAAAGGTACAAAGGCTGGTGGGTATAGACCTCATCAGGT-TGAAATTTTA
* *
229484 GCTCTTTCACTAAATA
65 CCTCATTCACTAAA-A
* * *
229500 GTTGTGATGTGGTT-CT-AAGTGTACAAAGGCTTGTGGGTTTAGACCTCATCAGGTTGAAATTTT
1 G-TGTGATGTGATTCCTAAAG-GTACAAAGGCTGGTGGGTATAGACCTCATCAGGTTGAAATTTT
229563 ACCTCATTCACTAAAA
64 ACCTCATTCACTAAAA
229579 GTGTGATG
1 GTGTGATG
229587 GGTACAATGG
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
77 3 0.04
78 36 0.48
79 18 0.24
80 18 0.24
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (79 bp):
GTGTGATGTGATTCCTAAAGGTACAAAGGCTGGTGGGTATAGACCTCATCAGGTTGAAATTTTAC
CTCATTCACTAAAA
Found at i:230487 original size:30 final size:32
Alignment explanation
Indices: 230432--230493 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
230422 AGTATGCTAG
*
230432 TAATAATAAATATTGTAAAACAAATTGGACCTT
1 TAATAAAAAATATTG-AAAACAAATTGGACCTT
230465 TAATAAAAAATATTG-AAA-AAATTGGACCT
1 TAATAAAAAATATTGAAAACAAATTGGACCT
230494 ATAAAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 11 0.39
31 3 0.11
33 14 0.50
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (32 bp):
TAATAAAAAATATTGAAAACAAATTGGACCTT
Found at i:231330 original size:58 final size:58
Alignment explanation
Indices: 231200--231330 Score: 142
Period size: 58 Copynumber: 2.2 Consensus size: 58
231190 GTCAGGAGAT
* * * *
231200 CATTTCATAATTTTTAATAGTCGAGGATTCAACAAAGCAATATCCTATAGTCAGAGGAC
1 CATTTTATAATTTTTAATAGTCGAGGA-TCAACAAAACAATATCATATAATCAGAGGAC
* * *
231259 CATTTTATAATTTTTTATAGTCGAAGG-TCAATAAAACAATATCATATAATC-GATGGAT
1 CATTTTATAATTTTTAATAGTCG-AGGATCAACAAAACAATATCATATAATCAGA-GGAC
231317 CATTTGTAT-ATTTT
1 CATTT-TATAATTTT
231331 ATCAGAGTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
57 2 0.03
58 33 0.53
59 24 0.39
60 3 0.05
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (58 bp):
CATTTTATAATTTTTAATAGTCGAGGATCAACAAAACAATATCATATAATCAGAGGAC
Found at i:237353 original size:29 final size:30
Alignment explanation
Indices: 237306--237363 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
237296 TTTTAACCAG
* *
237306 TGACTAAAATGTAAGTTTTG-AAAGTTTAA
1 TGACTAAAATATAAATTTTGAAAAGTTTAA
*
237335 TGACTAAAGTATAAATTTTGAAAAGTTTA
1 TGACTAAAATATAAATTTTGAAAAGTTTA
237364 GGAACTGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (30 bp):
TGACTAAAATATAAATTTTGAAAAGTTTAA
Found at i:242952 original size:40 final size:41
Alignment explanation
Indices: 242873--242953 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 41
242863 TTTTACTCGA
*
242873 CTCAACTCGATCAAATGCTAACCCCTACATGGAAGCACTGT
1 CTCAACTCGATCAAATGCTAACCACTACATGGAAGCACTGT
*
242914 CTCAACTCGATCAAATGCT-ATCACTACATGGAAGCACTGT
1 CTCAACTCGATCAAATGCTAACCACTACATGGAAGCACTGT
242954 GTTTGAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 19 0.50
41 19 0.50
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (41 bp):
CTCAACTCGATCAAATGCTAACCACTACATGGAAGCACTGT
Found at i:247292 original size:6 final size:6
Alignment explanation
Indices: 247281--247329 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
247271 CAGTCCTATC
247281 CCAATT CCAATT CCAATT CCAATT CCAATT CCAATT CCAATT CCAATT
1 CCAATT CCAATT CCAATT CCAATT CCAATT CCAATT CCAATT CCAATT
247329 C
1 C
247330 TTTATTCCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (6 bp):
CCAATT
Found at i:254922 original size:60 final size:60
Alignment explanation
Indices: 254824--254945 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
254814 AAACAGCTGC
*
254824 ACCAAAACGACATCTACATCAATAATCGTTTGCGTCATCGTGCGATTACCGATTTAATGT
1 ACCAAAACGACATCCACATCAATAATCGTTTGCGTCATCGTGCGATTACCGATTTAATGT
* * * *
254884 ACCAAAACGACATCCGCATCAATAATTGTTTGCTTCATCGTGTGATTACCGATTTAATGT
1 ACCAAAACGACATCCACATCAATAATCGTTTGCGTCATCGTGCGATTACCGATTTAATGT
254944 AC
1 AC
254946 GATATGTGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (60 bp):
ACCAAAACGACATCCACATCAATAATCGTTTGCGTCATCGTGCGATTACCGATTTAATGT
Found at i:255199 original size:13 final size:13
Alignment explanation
Indices: 255177--255224 Score: 55
Period size: 12 Copynumber: 3.7 Consensus size: 13
255167 CCGTTTGGGG
255177 TTTTTAAAAAGTGA
1 TTTTT-AAAAGTGA
255191 TTTTTAAAAG-GA
1 TTTTTAAAAGTGA
*
255203 TATTTAAAAGT-A
1 TTTTTAAAAGTGA
255215 TTATTTAAAA
1 TT-TTTAAAA
255225 ATGCAGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 13 0.43
13 12 0.40
14 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (13 bp):
TTTTTAAAAGTGA
Found at i:255620 original size:27 final size:27
Alignment explanation
Indices: 255590--255654 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
255580 AAACTGAATT
* *
255590 TTAATATAAACAATGACTTTTAAGTTA
1 TTAAAATAAACAATGAATTTTAAGTTA
* * *
255617 TTAAAATTAACTATTAATTTTAAGTTA
1 TTAAAATAAACAATGAATTTTAAGTTA
255644 TTAAAATAAAC
1 TTAAAATAAAC
255655 TATTATGTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (27 bp):
TTAAAATAAACAATGAATTTTAAGTTA
Found at i:255655 original size:27 final size:27
Alignment explanation
Indices: 255607--255659 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
255597 AAACAATGAC
*
255607 TTTTAAGTTATTAAAATTAACTATTAA
1 TTTTAAGTTATTAAAATAAACTATTAA
255634 TTTTAAGTTATTAAAATAAACTATTA
1 TTTTAAGTTATTAAAATAAACTATTA
255660 TGTAGTAAAT
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:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (27 bp):
TTTTAAGTTATTAAAATAAACTATTAA
Found at i:262855 original size:3 final size:3
Alignment explanation
Indices: 262847--262872 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
262837 ACACCCCCTT
262847 CTG CTG CTG CTG CTG CTG CTG CTG CT
1 CTG CTG CTG CTG CTG CTG CTG CTG CT
262873 TTGGAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.31, T:0.35
Consensus pattern (3 bp):
CTG
Found at i:265532 original size:35 final size:35
Alignment explanation
Indices: 265491--265563 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
265481 ATTGAGAAAC
* *
265491 TATATAAAATTTTAGTTTTTATTTCATTTAAAAGT
1 TATATAAAATTTTAATTTTTATTTCATTTAAAAAT
265526 TATATAAAATTTTAATTTTTATTTCATTTAAAAAT
1 TATATAAAATTTTAATTTTTATTTCATTTAAAAAT
265561 TAT
1 TAT
265564 CCAATCATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
TATATAAAATTTTAATTTTTATTTCATTTAAAAAT
Found at i:267292 original size:17 final size:18
Alignment explanation
Indices: 267270--267308 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
267260 TTATTTCGTA
267270 TAAATAA-GTTTAATCAC
1 TAAATAATGTTTAATCAC
* *
267287 TAAATAATTTTTAATCAT
1 TAAATAATGTTTAATCAC
267305 TAAA
1 TAAA
267309 ATTACAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (18 bp):
TAAATAATGTTTAATCAC
Found at i:272638 original size:13 final size:13
Alignment explanation
Indices: 272620--272645 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
272610 ACAAAAGCAG
272620 AAATCACATAATT
1 AAATCACATAATT
272633 AAATCACATAATT
1 AAATCACATAATT
272646 GGCTGCAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATCACATAATT
Found at i:287791 original size:6 final size:6
Alignment explanation
Indices: 287783--287850 Score: 64
Period size: 6 Copynumber: 10.7 Consensus size: 6
287773 TGGTTTGATA
* * * *
287783 TATATA TATATA TATATG TATGTG TGTATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
287831 ATATATTG ATATATGG TATA
1 -TATA-TG -TATAT-G TATA
287851 AGGAGAGACA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
6 37 0.69
7 9 0.17
8 8 0.15
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:305271 original size:2 final size:2
Alignment explanation
Indices: 305264--305292 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
305254 ATATCATTAA
305264 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
305293 ATAAAACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:307077 original size:19 final size:20
Alignment explanation
Indices: 307020--307066 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
307010 ATCCTATGAG
307020 TACT-TGAACATAAAGAAAA
1 TACTATGAACATAAAGAAAA
307039 TACTATGAACATAAAGAAAA
1 TACTATGAACATAAAGAAAA
307059 TACTATGA
1 TACTATGA
307067 CCAACAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (20 bp):
TACTATGAACATAAAGAAAA
Done.