Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 152 of 210
Found at i:46280060 original size:34 final size:34
Alignment explanation
Indices: 46280016--46280083 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
46280006 GCACAGTTGA
* *
46280016 ACAGTCTTGGGCATAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCATAAGCCCATCTCAGTA-CAGTG
* *
46280051 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCATAAGCCCATCTCAGTACAGTG
46280084 TCAAAAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCATAAGCCCATCTCAGTACAGTG
Found at i:46283518 original size:20 final size:21
Alignment explanation
Indices: 46283462--46283518 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
46283452 TTCATGTAAT
*
46283462 TAAATTGTA-AATTTATATGTTT
1 TAAATTGTATAA-TT-TATGTTG
* *
46283484 TAAATTGAATTATTTAT-TTG
1 TAAATTGTATAATTTATGTTG
46283504 TAAATTGTATAATTT
1 TAAATTGTATAATTT
46283519 CCATGAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 15 0.52
21 3 0.10
22 10 0.34
23 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (21 bp):
TAAATTGTATAATTTATGTTG
Found at i:46283733 original size:25 final size:25
Alignment explanation
Indices: 46283628--46283757 Score: 122
Period size: 25 Copynumber: 5.2 Consensus size: 25
46283618 TTTAGCTCTT
* * *
46283628 ATGAGCTTCCCGATACTCAGCTCGC
1 ATGAGCTTTCCGTTATTCAGCTCGC
* *
46283653 ATGAGCTTCCCGTTATTAAGCTCGC
1 ATGAGCTTTCCGTTATTCAGCTCGC
* *
46283678 ATGAGCTTTCCATTATTCAGGC-CGT
1 ATGAGCTTTCCGTTATTCA-GCTCGC
46283703 ATGAGCTTTCCGTTATTCAGCTCAG-
1 ATGAGCTTTCCGTTATTCAGCTC-GC
* * * *
46283728 AGGAGCTTACCGTT-TACAGCTCGT
1 ATGAGCTTTCCGTTATTCAGCTCGC
46283752 ATGAGC
1 ATGAGC
46283758 ATACATGTAC
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.01
24 14 0.16
25 71 0.80
26 3 0.03
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.31
Consensus pattern (25 bp):
ATGAGCTTTCCGTTATTCAGCTCGC
Found at i:46293580 original size:9 final size:9
Alignment explanation
Indices: 46293566--46293650 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
46293556 TTTGGTTAAA
46293566 AATTAACCG
1 AATTAACCG
*
46293575 AATTAACTG
1 AATTAACCG
46293584 AATTAACCG
1 AATTAACCG
*
46293593 AATTAACCA
1 AATTAACCG
46293602 AATTAACCG
1 AATTAACCG
*
46293611 AATTAACCA
1 AATTAACCG
*
46293620 AATTAATCG
1 AATTAACCG
*
46293629 AATTACCCG
1 AATTAACCG
*
46293638 AATTACCCG
1 AATTAACCG
46293647 AATT
1 AATT
46293651 GAATCACTAC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 67 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:46293680 original size:17 final size:17
Alignment explanation
Indices: 46293658--46293720 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
46293648 ATTGAATCAC
46293658 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
46293675 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
46293695 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
46293712 TACATAATT
1 TACATAATT
46293721 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 5 0.15
20 8 0.24
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:46293695 original size:37 final size:37
Alignment explanation
Indices: 46293649--46293723 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
46293639 ATTACCCGAA
*
46293649 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
46293686 TTGAATCACTACATAATTAAAAACATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
46293723 T
1 T
46293724 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:46293897 original size:38 final size:39
Alignment explanation
Indices: 46293853--46293969 Score: 164
Period size: 39 Copynumber: 3.0 Consensus size: 39
46293843 ACTTAAGAGT
*
46293853 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
* * *
46293891 TAGACTTTAGTTTTAGTTTTATTGGGTTAGATAATTTGA
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
* * *
46293930 TAGACTTTAGTTTTAGTTTTATTGGTTTGGGTAAATGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
46293969 T
1 T
46293970 TGGGTTGGGT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 27 0.40
39 41 0.60
ACGTcount: A:0.21, C:0.03, G:0.25, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
Found at i:46294290 original size:21 final size:20
Alignment explanation
Indices: 46294266--46294308 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
46294256 TTAAATATTT
46294266 TTAATAATGTCATTTT-TTAAA
1 TTAATAATGT--TTTTCTTAAA
*
46294287 TTAATTATGTTTTTCTTAAA
1 TTAATAATGTTTTTCTTAAA
46294307 TT
1 TT
46294309 TTAAACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TTAATAATGTTTTTCTTAAA
Found at i:46295203 original size:21 final size:21
Alignment explanation
Indices: 46295174--46295225 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
46295164 AGGTGCTCAT
* *
46295174 GGGCCGGGCCGGGCCGTGTTC
1 GGGCTGGGCCGGGCCGGGTTC
*
46295195 GGGCTGGGCCGGGCCGGGTTT
1 GGGCTGGGCCGGGCCGGGTTC
46295216 GGGCTGGGCC
1 GGGCTGGGCC
46295226 CATAAAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.00, C:0.29, G:0.56, T:0.15
Consensus pattern (21 bp):
GGGCTGGGCCGGGCCGGGTTC
Found at i:46295456 original size:17 final size:17
Alignment explanation
Indices: 46295387--46295438 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
46295377 AAAAAGTATT
46295387 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
46295404 TTAAAAA-AATTTAAAA
1 TTAAAAATATTTTAAAA
*
46295420 GTTAAAAGTATTTTAAAA
1 -TTAAAAATATTTTAAAA
46295438 T
1 T
46295439 ATTTTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.27
17 14 0.47
18 8 0.27
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:46297863 original size:17 final size:17
Alignment explanation
Indices: 46297837--46297871 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
46297827 AAATAATAGT
*
46297837 AATAATAATAATAAATA
1 AATAACAATAATAAATA
46297854 AATAACAATAATAAATA
1 AATAACAATAATAAATA
46297871 A
1 A
46297872 CGTAAATACG
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAACAATAATAAATA
Found at i:46297872 original size:13 final size:13
Alignment explanation
Indices: 46297825--46297872 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
46297815 ATAAGATAAG
* *
46297825 ATAAATAATAGTA
1 ATAAATAACAATA
*
46297838 AT-AATAATAATAA
1 ATAAATAACAAT-A
46297851 ATAAATAACAATA
1 ATAAATAACAATA
46297864 ATAAATAAC
1 ATAAATAAC
46297873 GTAAATACGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 8 0.26
13 15 0.48
14 8 0.26
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAATAACAATA
Found at i:46298090 original size:17 final size:16
Alignment explanation
Indices: 46298052--46298090 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
46298042 TTTTTTTTCA
46298052 ATTTATTCAATTTTTT
1 ATTTATTCAATTTTTT
46298068 AGTTTATTCAATTTTTT
1 A-TTTATTCAATTTTTT
46298085 GATTTA
1 -ATTTA
46298091 ATCTATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTCAATTTTTT
Found at i:46299351 original size:20 final size:20
Alignment explanation
Indices: 46299322--46299365 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
46299312 GTGTACTTCT
*
46299322 TTTTTTTAATTTTT-ATGAA
1 TTTTTATAATTTTTAATGAA
46299341 CTTTTTATAATTTTTAATGAA
1 -TTTTTATAATTTTTAATGAA
46299362 TTTT
1 TTTT
46299366 GATTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTATAATTTTTAATGAA
Found at i:46299384 original size:19 final size:20
Alignment explanation
Indices: 46299362--46299401 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
46299352 TTTTAATGAA
*
46299362 TTTTGATTTTTTAAA-TATT
1 TTTTGAATTTTTAAATTATT
46299381 TTTTGAATTTTTAAATTATT
1 TTTTGAATTTTTAAATTATT
46299401 T
1 T
46299402 GATGATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTGAATTTTTAAATTATT
Found at i:46300069 original size:23 final size:25
Alignment explanation
Indices: 46300042--46300093 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
46300032 ATAATACATC
*
46300042 AAATATATTACAA-ATATT-AAAAT
1 AAATATATTACAACAAATTAAAAAT
* *
46300065 AAATATTTTTCAACAAATTAAAAAT
1 AAATATATTACAACAAATTAAAAAT
46300090 AAAT
1 AAAT
46300094 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.46
24 4 0.17
25 9 0.38
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
AAATATATTACAACAAATTAAAAAT
Found at i:46302349 original size:20 final size:19
Alignment explanation
Indices: 46302324--46302372 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
46302314 AGCAATGAAT
46302324 TTGTTCACCAAGAGATACAA
1 TTGTTCA-CAAGAGATACAA
46302344 TTGTTCA-AA-AGATACAA
1 TTGTTCACAAGAGATACAA
*
46302361 CTGTTCATCAAG
1 TTGTTCA-CAAG
46302373 TGAAAGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 14 0.56
18 2 0.08
19 2 0.08
20 7 0.28
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (19 bp):
TTGTTCACAAGAGATACAA
Found at i:46308034 original size:42 final size:42
Alignment explanation
Indices: 46307974--46308076 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 42
46307964 GGATACTGAG
* **
46307974 ATGTGATTACGTGTAAGACCATGTATGGGACATTGTTATCG-T
1 ATGTGATT-CGTGTAAGACAATGTATGGGACATTGGCATCGAT
*
46308016 CATGTGATTCGTGTAAGACAATGTTTGGGACATTGGCATCGAT
1 -ATGTGATTCGTGTAAGACAATGTATGGGACATTGGCATCGAT
*
46308059 ATGAGATTCGTGTAAGAC
1 ATGTGATTCGTGTAAGAC
46308077 TATAGCAGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 45 0.83
43 9 0.17
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (42 bp):
ATGTGATTCGTGTAAGACAATGTATGGGACATTGGCATCGAT
Found at i:46313330 original size:19 final size:20
Alignment explanation
Indices: 46313294--46313331 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46313284 ATTCGTGAAA
**
46313294 ATAAAAAAATATGTATATAT
1 ATAAAAAAATATCAATATAT
46313314 ATAAAAAAATA-CAATATA
1 ATAAAAAAATATCAATATA
46313332 AAAATATACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
ATAAAAAAATATCAATATAT
Found at i:46313596 original size:45 final size:43
Alignment explanation
Indices: 46313509--46313595 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 43
46313499 TAGCAAATAT
*
46313509 GTATATAGGTATAAATATATGTATATATAAATTATAAAAAAATGA
1 GTATATAGGTATAAATATATATATATATAAATTAT--AAAAATGA
* *
46313554 GTATATATGTATACATATATATATACGTATAAAGTTATAAAA
1 GTATATAGGTATAAATATATATATA--TATAAA-TTATAAAA
46313596 TATATAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
45 22 0.61
46 4 0.11
47 6 0.17
48 4 0.11
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (43 bp):
GTATATAGGTATAAATATATATATATATAAATTATAAAAATGA
Found at i:46314343 original size:12 final size:12
Alignment explanation
Indices: 46314328--46314354 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46314318 GAAAAAAACA
46314328 AAGAAAAAGGAG
1 AAGAAAAAGGAG
46314340 AAGAAAAAGGAG
1 AAGAAAAAGGAG
46314352 AAG
1 AAG
46314355 GAGCCACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGGAG
Found at i:46318730 original size:17 final size:19
Alignment explanation
Indices: 46318697--46318731 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46318687 AATTTAATAT
46318697 TTTTTATAAAAATAATTAC
1 TTTTTATAAAAATAATTAC
46318716 TTTTT-TAAAAA-AATTA
1 TTTTTATAAAAATAATTA
46318732 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTTATAAAAATAATTAC
Found at i:46318755 original size:9 final size:9
Alignment explanation
Indices: 46318724--46318948 Score: 74
Period size: 9 Copynumber: 24.6 Consensus size: 9
46318714 ACTTTTTTAA
46318724 AAAAATTAT
1 AAAAATTAT
* *
46318733 AAAAAATAAG
1 -AAAAATTAT
46318743 AAAAATTAT
1 AAAAATTAT
*
46318752 AAAAAATATT
1 AAAAATTA-T
* *
46318762 AAAACTAAT
1 AAAAATTAT
* *
46318771 ATAAACT-T
1 AAAAATTAT
46318779 -AAAATTAT
1 AAAAATTAT
46318787 -AAAA-TAT
1 AAAAATTAT
46318794 AAAAATCTA-
1 AAAAAT-TAT
*
46318803 ATAAATTAT
1 AAAAATTAT
46318812 ACAAGAATT-T
1 A-AA-AATTAT
46318822 ATAAAATTAAT
1 A-AAAATT-AT
*
46318833 AAAACTTATTT
1 AAAAATTA--T
46318844 AAAATATT-T
1 AAAA-ATTAT
*
46318853 -AAAATTAG
1 AAAAATTAT
46318861 AAAAATGTAT
1 AAAAAT-TAT
* * *
46318871 TAGAATTCT
1 AAAAATTAT
* *
46318880 -TAAATAAT
1 AAAAATTAT
*
46318888 AATAAATTGTT
1 AA-AAATT-AT
*
46318899 AAAATTTAT
1 AAAAATTAT
46318908 AAAAA-TAT
1 AAAAATTAT
*
46318916 TAAAATTAT
1 AAAAATTAT
* *
46318925 ATAAACTTAC
1 A-AAAATTAT
46318935 AAAAATTAT
1 AAAAATTAT
46318944 AAAAA
1 AAAAA
46318949 AAAATAAAAA
Statistics
Matches: 154, Mismatches: 40, Indels: 43
0.65 0.17 0.18
Matches are distributed among these distances:
7 10 0.06
8 26 0.17
9 56 0.36
10 46 0.30
11 14 0.09
12 2 0.01
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:46321360 original size:11 final size:11
Alignment explanation
Indices: 46321346--46321393 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
46321336 ATTAATCATT
46321346 TAATAATAAAA
1 TAATAATAAAA
*
46321357 TAATACTAAAAA
1 TAATAAT-AAAA
**
46321369 TCTTAATAAAA
1 TAATAATAAAA
*
46321380 TAATAATTAAA
1 TAATAATAAAA
46321391 TAA
1 TAA
46321394 CATTTATCTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:46322500 original size:10 final size:9
Alignment explanation
Indices: 46322465--46322554 Score: 53
Period size: 9 Copynumber: 9.7 Consensus size: 9
46322455 ATTTTTACAA
46322465 AATTTTAA-
1 AATTTTAAT
46322473 ATATTTTAA-
1 A-ATTTTAAT
46322482 ATATGTTTAATT
1 A-AT-TTTAA-T
46322494 AATTTT-AT
1 AATTTTAAT
* *
46322502 ATTTTTTAT
1 AATTTTAAT
46322511 AATTGTTAAT
1 AATT-TTAAT
46322521 AATTTT-AT
1 AATTTTAAT
* *
46322529 GATTTTTAT
1 AATTTTAAT
46322538 AATTTTATAT
1 AATTTTA-AT
46322548 CAATTTT
1 -AATTTT
46322555 CATTTTTTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
8 14 0.21
9 26 0.39
10 18 0.27
11 8 0.12
12 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (9 bp):
AATTTTAAT
Found at i:46322520 original size:28 final size:28
Alignment explanation
Indices: 46322465--46322563 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 28
46322455 ATTTTTACAA
* *
46322465 AATTTTAAATATTTTA-AATATGTTTAATT
1 AATTTTATATTTTTTATAAT-TG-TTAATT
46322494 AATTTTATATTTTTTATAATTGTTAA-T
1 AATTTTATATTTTTTATAATTGTTAATT
*
46322521 AATTTTATGA-TTTTTATAATT-TTATATC
1 AATTTTAT-ATTTTTTATAATTGTTA-ATT
*
46322549 AATTTT-CATTTTTTA
1 AATTTTATATTTTTTA
46322564 ATATTTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
26 4 0.07
27 27 0.44
28 11 0.18
29 16 0.26
30 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (28 bp):
AATTTTATATTTTTTATAATTGTTAATT
Found at i:46322536 original size:36 final size:34
Alignment explanation
Indices: 46322475--46322586 Score: 91
Period size: 37 Copynumber: 3.1 Consensus size: 34
46322465 AATTTTAAAT
*
46322475 ATTTTAAATATGTTTAATTAATTTTATATTTTTTATA
1 ATTTT-AATAT-TTTAA-TATTTTTATATTTTTTATA
*
46322512 ATTGTTAATAATTTT-ATGATTTTTATAATTTTATATCA
1 ATT-TTAAT-ATTTTAAT-ATTTTTAT-ATTTTTTAT-A
* * *
46322550 ATTTTCATTTTTTAATATTTTTTTATTTTTCTATA
1 ATTTTAATATTTTAATATTTTTATATTTTT-TATA
46322585 AT
1 AT
46322587 ATTTTCTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
35 9 0.15
36 22 0.35
37 23 0.37
38 8 0.13
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (34 bp):
ATTTTAATATTTTAATATTTTTATATTTTTTATA
Found at i:46322541 original size:17 final size:18
Alignment explanation
Indices: 46322505--46322546 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
46322495 ATTTTATATT
46322505 TTTTATAATTGTTAATAA
1 TTTTATAATTGTTAATAA
* *
46322523 TTTTATGATT-TTTATAA
1 TTTTATAATTGTTAATAA
46322540 TTTTATA
1 TTTTATA
46322547 TCAATTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTATAATTGTTAATAA
Found at i:46322554 original size:11 final size:9
Alignment explanation
Indices: 46322496--46322611 Score: 62
Period size: 9 Copynumber: 12.7 Consensus size: 9
46322486 GTTTAATTAA
*
46322496 TTTTATATT
1 TTTTATAAT
46322505 TTTTATAAT
1 TTTTATAAT
*
46322514 TGTTAATAA-
1 T-TTTATAAT
*
46322523 TTTTATGAT
1 TTTTATAAT
46322532 TTTTATAAT
1 TTTTATAAT
46322541 TTTATATCAAT
1 TTT-TAT-AAT
*
46322552 TTTCAT--T
1 TTTTATAAT
46322559 TTTTA-ATAT
1 TTTTATA-AT
* *
46322568 TTTTTTATT
1 TTTTATAAT
46322577 TTTCTATAAT
1 TTT-TATAAT
* *
46322587 ATTTTCTTAT
1 -TTTTATAAT
46322597 TTTT-TAAT
1 TTTTATAAT
46322605 ATTTTAT
1 -TTTTAT
46322612 GGGAAAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
7 5 0.06
8 8 0.10
9 38 0.47
10 21 0.26
11 9 0.11
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:46327430 original size:9 final size:9
Alignment explanation
Indices: 46327418--46327503 Score: 111
Period size: 9 Copynumber: 9.4 Consensus size: 9
46327408 AAAATAAAAA
46327418 AATTCGGGT
1 AATTCGGGT
46327427 AATTCGGGT
1 AATTCGGGT
*
46327436 ATTTTTC-GGT
1 A--ATTCGGGT
*
46327446 AATTCGGTT
1 AATTCGGGT
*
46327455 AATTCGGTT
1 AATTCGGGT
46327464 AATTCGGGT
1 AATTCGGGT
*
46327473 AATTCGGTT
1 AATTCGGGT
46327482 AATTCGGGT
1 AATTCGGGT
46327491 AATTCGGGT
1 AATTCGGGT
46327500 AATT
1 AATT
46327504 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
8 3 0.04
9 58 0.85
10 4 0.06
11 3 0.04
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:46327681 original size:12 final size:12
Alignment explanation
Indices: 46327664--46327688 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46327654 AGTAATTTCG
46327664 GGTCGGTTAACC
1 GGTCGGTTAACC
46327676 GGTCGGTTAACC
1 GGTCGGTTAACC
46327688 G
1 G
46327689 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:46327785 original size:18 final size:18
Alignment explanation
Indices: 46327762--46327797 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
46327752 GGTAAATGAT
46327762 ATCCTCTCATTAGCATTA
1 ATCCTCTCATTAGCATTA
46327780 ATCCTCTCATTAGCATTA
1 ATCCTCTCATTAGCATTA
46327798 CATGGTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (18 bp):
ATCCTCTCATTAGCATTA
Found at i:46329523 original size:27 final size:27
Alignment explanation
Indices: 46329493--46329547 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
46329483 AGAAATGGAT
*
46329493 ATGAGATGGGAAATGGAATA-TGAAATG
1 ATGAAATGGGAAAT-GAATATTGAAATG
*
46329520 ATGAAATGGGATATGAATATTGAAATG
1 ATGAAATGGGAAATGAATATTGAAATG
46329547 A
1 A
46329548 ATTCATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.25
Consensus pattern (27 bp):
ATGAAATGGGAAATGAATATTGAAATG
Found at i:46329527 original size:20 final size:18
Alignment explanation
Indices: 46329480--46329536 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
46329470 GATGACAAGG
*
46329480 ATGAGAAATGGATATGAG
1 ATGAGAAATGGATATGAA
*
46329498 ATGGGAAATGGAATATGAA
1 ATGAGAAATGG-ATATGAA
46329517 ATGATGAAATGGGATATGAA
1 ATGA-GAAAT-GGATATGAA
46329537 TATTGAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 12 0.36
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.23
Consensus pattern (18 bp):
ATGAGAAATGGATATGAA
Found at i:46334269 original size:87 final size:87
Alignment explanation
Indices: 46334116--46334441 Score: 471
Period size: 87 Copynumber: 3.8 Consensus size: 87
46334106 ATTTTATATC
* * *
46334116 AGGCAAGATCTGCTATCTTTAACCAGCTCTACTGCAACCGATGGAGGCAAGACTTTGTTTTCGAT
1 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGAT
46334181 CTGCTTCGCTGTTAACGCAGGA
66 CTGCTTCGCTGTTAACGCAGGA
* * * *
46334203 AGACAAGATCTG-TCATCTCTAACCAGCTCCACTGCAACCAATAGAGGCAAGGCTTTGTTTTTGA
1 AGGCAAGATCTGCT-ATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGA
* *
46334267 TCTGCTTCGCTG--ATCTGTAGGA
65 TCTGCTTCGCTGTTAAC-GCAGGA
* * *
46334289 AGGCAAAATCTGCT-TCTTTAACCAGCTCCACTGCAATCGATAGAGGCAAGGCTTTGTTTTCAAT
1 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGAT
46334353 CTGCTTCGCTGTTAACGCAGGA
66 CTGCTTCGCTGTTAACGCAGGA
* * *
46334375 AGGTAAGATCTGCTATCTTTAACCAGCTCCACTGCAACTGATGGAGGCAAGGCTTTGTTTTCGAT
1 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGAT
46334440 CT
66 CT
46334442 TCACTGATCT
Statistics
Matches: 209, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
85 58 0.28
86 33 0.16
87 118 0.56
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGAT
CTGCTTCGCTGTTAACGCAGGA
Found at i:46334424 original size:172 final size:173
Alignment explanation
Indices: 46334116--46334441 Score: 512
Period size: 172 Copynumber: 1.9 Consensus size: 173
46334106 ATTTTATATC
* * * *
46334116 AGGCAAGATCTGCTATCTTTAACCAGCTCTACTGCAACCGATGGAGGCAAGACTTTGTTTTCGAT
1 AGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGACTTTGTTTTCAAT
46334181 CTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGTCATCTCTAACCAGCTCCACTGCAACCAATA
66 CTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGTCATCTCTAACCAGCTCCACTGCAACCAATA
*
46334246 GAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGATCTGTAGGA
131 GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGATCTGTAGGA
* *
46334289 AGGCAAAATCTGCT-TCTTTAACCAGCTCCACTGCAATCGATAGAGGCAAGGCTTTGTTTTCAAT
1 AGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGACTTTGTTTTCAAT
** * **
46334353 CTGCTTCGCTGTTAACGCAGGAAGGTAAGATCTG-CTATCTTTAACCAGCTCCACTGCAACTGAT
66 CTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGTC-ATCTCTAACCAGCTCCACTGCAACCAAT
*
46334417 GGAGGCAAGGCTTTGTTTTCGATCT
130 AGAGGCAAGGCTTTGTTTTCGATCT
46334442 TCACTGATCT
Statistics
Matches: 139, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
171 1 0.01
172 125 0.90
173 13 0.09
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (173 bp):
AGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGACTTTGTTTTCAAT
CTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGTCATCTCTAACCAGCTCCACTGCAACCAATA
GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGATCTGTAGGA
Found at i:46335682 original size:14 final size:14
Alignment explanation
Indices: 46335663--46335736 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 14
46335653 TTAGCCTCTC
46335663 CATTTTTACTCTTT
1 CATTTTTACTCTTT
*
46335677 CATTTTTTA-TTTTT
1 CA-TTTTTACTCTTT
46335691 CATTTTT-CAT-TTT
1 CATTTTTAC-TCTTT
* *
46335704 CATTTTCA-TTTTT
1 CATTTTTACTCTTT
46335717 CATTTTT-CATCTTT
1 CATTTTTAC-TCTTT
46335731 C-TTTTT
1 CATTTTT
46335737 TTTTGAAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 1 0.02
13 28 0.57
14 14 0.29
15 6 0.12
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (14 bp):
CATTTTTACTCTTT
Found at i:46335688 original size:21 final size:21
Alignment explanation
Indices: 46335664--46335723 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
46335654 TAGCCTCTCC
46335664 ATTTTT-ACTCTTTCATTTTTT
1 ATTTTTCA-TCTTTCATTTTTT
* *
46335685 ATTTTTCATTTTTCA-TTTTC
1 ATTTTTCATCTTTCATTTTTT
*
46335705 A-TTTTCATTTTTCATTTTT
1 ATTTTTCATCTTTCATTTTT
46335724 CATCTTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 13 0.37
20 9 0.26
21 12 0.34
22 1 0.03
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTTTCATCTTTCATTTTTT
Found at i:46335690 original size:7 final size:7
Alignment explanation
Indices: 46335674--46335736 Score: 87
Period size: 7 Copynumber: 9.4 Consensus size: 7
46335664 ATTTTTACTC
46335674 TTTCATT
1 TTTCATT
*
46335681 TTTTATT
1 TTTCATT
46335688 TTTCATT
1 TTTCATT
46335695 TTTCA-T
1 TTTCATT
46335701 TTTCA-T
1 TTTCATT
46335707 TTTCATT
1 TTTCATT
46335714 TTTCATT
1 TTTCATT
*
46335721 TTTCATC
1 TTTCATT
46335728 TTTC-TT
1 TTTCATT
46335734 TTT
1 TTT
46335737 TTTTGAAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
6 16 0.31
7 35 0.69
ACGTcount: A:0.13, C:0.14, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTCATT
Found at i:46335712 original size:33 final size:33
Alignment explanation
Indices: 46335674--46335736 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
46335664 ATTTTTACTC
* *
46335674 TTTCATTTTTTATTTTTCATTTTTCATTTTCAT
1 TTTCATTTTTCATTTTTCATCTTTCATTTTCAT
*
46335707 TTTCATTTTTCATTTTTCATCTTTCTTTTT
1 TTTCATTTTTCATTTTTCATCTTTCATTTT
46335737 TTTTGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.13, C:0.14, G:0.00, T:0.73
Consensus pattern (33 bp):
TTTCATTTTTCATTTTTCATCTTTCATTTTCAT
Found at i:46335737 original size:14 final size:14
Alignment explanation
Indices: 46335663--46335736 Score: 84
Period size: 14 Copynumber: 5.5 Consensus size: 14
46335653 TTAGCCTCTC
46335663 CATTTTT-ACTCTTT
1 CATTTTTCA-TCTTT
* *
46335677 CATTTTTTATTTTT
1 CATTTTTCATCTTT
46335691 CATTTTTCAT-TTT
1 CATTTTTCATCTTT
*
46335704 CA-TTTTCATTTTT
1 CATTTTTCATCTTT
46335717 CATTTTTCATCTTT
1 CATTTTTCATCTTT
46335731 C-TTTTT
1 CATTTTT
46335737 TTTTGAAATC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
12 7 0.13
13 15 0.28
14 31 0.57
15 1 0.02
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (14 bp):
CATTTTTCATCTTT
Found at i:46341907 original size:24 final size:23
Alignment explanation
Indices: 46341869--46341914 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
46341859 TACAGAACTA
*
46341869 AAAAAAATAAATAAATGAAACCT
1 AAAAAAATAAATAAAAGAAACCT
*
46341892 AAAAAAATGAACTAAAAGAAACC
1 AAAAAAAT-AAATAAAAGAAACC
46341915 CTAGCCCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.70, C:0.11, G:0.07, T:0.13
Consensus pattern (23 bp):
AAAAAAATAAATAAAAGAAACCT
Found at i:46343403 original size:51 final size:51
Alignment explanation
Indices: 46343281--46343415 Score: 186
Period size: 51 Copynumber: 2.6 Consensus size: 51
46343271 CATGTCACTA
46343281 GTGGCT-CAAGTGTGGTACTATGTGAATGCCACTTTGTGAAGAAAGATAGCT
1 GTGGCTACAAGTGTGGTACTATGTGAA-GCCACTTTGTGAAGAAAGATAGCT
*
46343332 GTGG-TCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCT
1 GTGGCT-ACAAGTGTGGTACTATGTGAA-GCCACTTTGTGAAGAAAGATAGCT
* *
46343383 TTGGCTACAAGGGTGGTACTATGTGTAAGCCAC
1 GTGGCTACAAGTGTGGTACTATGTG-AAGCCAC
46343416 CGGGTATCCG
Statistics
Matches: 76, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
50 1 0.01
51 38 0.50
52 37 0.49
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (51 bp):
GTGGCTACAAGTGTGGTACTATGTGAAGCCACTTTGTGAAGAAAGATAGCT
Found at i:46345494 original size:8 final size:8
Alignment explanation
Indices: 46345481--46345534 Score: 81
Period size: 8 Copynumber: 6.8 Consensus size: 8
46345471 TTAAATGAAT
46345481 TGAAATGG
1 TGAAATGG
46345489 TGAAATGG
1 TGAAATGG
46345497 TGAAATGG
1 TGAAATGG
46345505 TGAAATGG
1 TGAAATGG
*
46345513 TGAAATAG
1 TGAAATGG
*
46345521 AGAAATGG
1 TGAAATGG
*
46345529 AGAAAT
1 TGAAAT
46345535 AGGAAACATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 43 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (8 bp):
TGAAATGG
Found at i:46345535 original size:16 final size:15
Alignment explanation
Indices: 46345490--46345540 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
46345480 TTGAAATGGT
*
46345490 GAAATGGTGAAATGG
1 GAAATGGTGAAATAG
46345505 TGAAATGGTGAAATAG
1 -GAAATGGTGAAATAG
*
46345521 AGAAATGGAGAAATAG
1 -GAAATGGTGAAATAG
46345537 GAAA
1 GAAA
46345541 CATTTGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 4 0.12
16 28 0.88
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.18
Consensus pattern (15 bp):
GAAATGGTGAAATAG
Found at i:46345640 original size:6 final size:6
Alignment explanation
Indices: 46345629--46345663 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
46345619 TTCTCCAAAC
46345629 TGAAAA TGAAAA TGAAAA TTGTAAAA TGAAAA TGA
1 TGAAAA TGAAAA TGAAAA -TG-AAAA TGAAAA TGA
46345664 CTTAAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (6 bp):
TGAAAA
Found at i:46345656 original size:14 final size:13
Alignment explanation
Indices: 46345629--46345661 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
46345619 TTCTCCAAAC
46345629 TGAAAA-TGAAAA
1 TGAAAATTGAAAA
46345641 TGAAAATTGTAAAA
1 TGAAAATTG-AAAA
46345655 TGAAAAT
1 TGAAAAT
46345662 GACTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 2 0.11
14 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (13 bp):
TGAAAATTGAAAA
Found at i:46346368 original size:272 final size:272
Alignment explanation
Indices: 46345882--46346433 Score: 827
Period size: 272 Copynumber: 2.0 Consensus size: 272
46345872 ATAGAAAAAC
* * *
46345882 AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCGAAGAAGCACTTGTAATTATA
1 AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCCAAGAAGCACTTATAATTAAA
* *
46345947 CCCGATAGGAAAGAAGCCTAAAAGCCTATTATGTTATAAGGTGAGACAACAAATCATAGTATCAT
66 CCCAATAGGAAAGAAGCCTAAAAGCCTATTATCTTATAAGGTGAGACAACAAATCATAGTATCAT
* * * *
46346012 TAACTAAGGTTGTCGCCCCCTACATCCTAGTTGAACTAAGGTTTTGTTTTTCTAGTTAAAATGAA
131 TAACTAAGGTTGTCACCCCCTACATCCTAGTTGAACTAAGATTTCGTTTTTCTAGTTAAAATAAA
* **
46346077 CTTCTATAAATAAATAAGGGTTCTACATTCTCTTCGTATAAATAGATGACACCAGAAAGGCTATT
196 CTTCTATAAATAAATAAGGGTTCTACATTCTCTCCCAATAAATAGATGACACCAGAAAGGCTATT
46346142 TACACAACTTTA
261 TACACAACTTTA
** * * *
46346154 AAATATTGGGTTGGATCAAATTATAAGGTATTGGATTAAAAGCCCAAGAAGTACTTATAATTAAA
1 AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCCAAGAAGCACTTATAATTAAA
** * *
46346219 CTTAATAGGGAAGAAGCCTAAAAGCCCT-TTATCTTATAAGGTGGGACAACAAATCATAGTATCA
66 CCCAATAGGAAAGAAGCCTAAAAG-CCTATTATCTTATAAGGTGAGACAACAAATCATAGTATCA
*
46346283 TTAACTAATGTTGTCACCCCCTACATCCTAGTTGAACTAAGATTTCGTTTTTCTAGTTAAAATAA
130 TTAACTAAGGTTGTCACCCCCTACATCCTAGTTGAACTAAGATTTCGTTTTTCTAGTTAAAATAA
* * * * * * *
46346348 ACTTCTATAATTAAATAAGGGTTCTGCATTCTCTCCCAATAAATAGATGGCAGCAGCAGGGTTAT
195 ACTTCTATAAATAAATAAGGGTTCTACATTCTCTCCCAATAAATAGATGACACCAGAAAGGCTAT
46346413 TTACACAACTTTA
260 TTACACAACTTTA
46346426 AAATATTG
1 AAATATTG
46346434 TTACTCTGCT
Statistics
Matches: 250, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
272 247 0.99
273 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (272 bp):
AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCCAAGAAGCACTTATAATTAAA
CCCAATAGGAAAGAAGCCTAAAAGCCTATTATCTTATAAGGTGAGACAACAAATCATAGTATCAT
TAACTAAGGTTGTCACCCCCTACATCCTAGTTGAACTAAGATTTCGTTTTTCTAGTTAAAATAAA
CTTCTATAAATAAATAAGGGTTCTACATTCTCTCCCAATAAATAGATGACACCAGAAAGGCTATT
TACACAACTTTA
Found at i:46352475 original size:39 final size:39
Alignment explanation
Indices: 46352329--46352468 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 39
46352319 AGCGGCACTT
* *
46352329 TTAGCGGCG-TTTGGACAAAAAACGCCACTAAAAATTAAGCA
1 TTAGCGGCGCTTT-TAC-AAAAACGCCGCTAAAAA-TAAGCA
* * * * * *
46352370 TTAGTGGTGCTTTTACAAAAATGACGCTAAAGATCGAGCA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAAAT-AAGCA
**
46352410 TTAGCGGCGCATTTT-GGAAAACGCCGCTAAAAATAAGCA
1 TTAGCGGCGC-TTTTACAAAAACGCCGCTAAAAATAAGCA
*
46352449 TTAGCGGCG-TTTTCCAAAAA
1 TTAGCGGCGCTTTTACAAAAA
46352469 GTGCCGCAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
37 4 0.05
38 4 0.05
39 14 0.18
40 39 0.51
41 13 0.17
42 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCGGCGCTTTTACAAAAACGCCGCTAAAAATAAGCA
Found at i:46352582 original size:41 final size:41
Alignment explanation
Indices: 46352520--46352757 Score: 343
Period size: 41 Copynumber: 5.8 Consensus size: 41
46352510 TTTTTGGGGT
* * ***
46352520 CTTTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
46352561 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
* * *
46352602 CTTTAGCGGCGTTTTTGAAAAGGTGCCGCGAATGCTCGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
*
46352643 CTTTAGCGGCGTTTTTGAAAACGCGCCGCTAATGCTCGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
* * *
46352684 CTTTAGTGGCGTTTTT-AAAGAAGTGCCGCTAATGCTCGTAA
1 CTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCGTAC
*
46352725 CTTTTGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
46352758 AATAAAATCT
Statistics
Matches: 177, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 3 0.02
41 171 0.97
42 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
Found at i:46353618 original size:7 final size:7
Alignment explanation
Indices: 46353608--46353663 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
46353598 TTTTGAGTTC
46353608 AGGGTTT
1 AGGGTTT
46353615 AGGGTTT
1 AGGGTTT
46353622 A-GGTTT
1 AGGGTTT
*
46353628 AGGGCTT
1 AGGGTTT
*
46353635 AGGGGTT
1 AGGGTTT
46353642 -GGAGTTT
1 AGG-GTTT
*
46353649 AAGGTTT
1 AGGGTTT
*
46353656 AGAGTTT
1 AGGGTTT
46353663 A
1 A
46353664 CATTTTAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
6 8 0.20
7 31 0.77
8 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.39, T:0.39
Consensus pattern (7 bp):
AGGGTTT
Found at i:46354078 original size:20 final size:20
Alignment explanation
Indices: 46354056--46354118 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
46354046 TTTGTGATTT
46354056 AAAATTTTAAAATGAATTTTA
1 AAAATTTTAAAATG-ATTTTA
**
46354077 AAAGATTTT-AAATTTTTTTA
1 AAA-ATTTTAAAATGATTTTA
*
46354097 AAAATTTTAAAAAGATTTTA
1 AAAATTTTAAAATGATTTTA
46354117 AA
1 AA
46354119 CTTTTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.14
20 18 0.51
21 7 0.20
22 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAATTTTAAAATGATTTTA
Found at i:46354086 original size:10 final size:10
Alignment explanation
Indices: 46354059--46354118 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
46354049 GTGATTTAAA
46354059 ATTTTAAAATG
1 ATTTTAAAA-G
46354070 AATTTTAAAAG
1 -ATTTTAAAAG
**
46354081 ATTTTAAATT
1 ATTTTAAAAG
*
46354091 TTTTTAAAA-
1 ATTTTAAAAG
46354100 ATTTTAAAAAG
1 ATTTT-AAAAG
46354111 ATTTTAAA
1 ATTTTAAA
46354119 CTTTTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 4 0.10
10 22 0.54
11 6 0.15
12 9 0.22
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (10 bp):
ATTTTAAAAG
Found at i:46357592 original size:16 final size:16
Alignment explanation
Indices: 46357571--46357605 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
46357561 TACAAAGGTA
*
46357571 TTGCCTTTGTTATATT
1 TTGCCTTTGTTATAAT
46357587 TTGCCTTTGTTATAAT
1 TTGCCTTTGTTATAAT
46357603 TTG
1 TTG
46357606 TCAGTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.14, T:0.60
Consensus pattern (16 bp):
TTGCCTTTGTTATAAT
Found at i:46359076 original size:43 final size:43
Alignment explanation
Indices: 46358968--46359323 Score: 349
Period size: 43 Copynumber: 8.3 Consensus size: 43
46358958 ATGATATGTT
* * * * *
46358968 TTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * * *
46359010 TATAGCGGCATTTTTGATAAAAAGCACCGTTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAGGTCATGGTC
* * * **
46359054 TTTAGTGGCGTTTGTGACAAAAGCGCCACTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * *
46359097 TTTAGCAGCGTTTCTGAGAAAAACGCCGCTAAAGGCCATGGTA
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
46359140 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGGTA
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* *
46359183 TTTAGCGGCGTTTGT-AGGAAAAACACCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * *
46359226 TATAGTGGCGTTTGTGAGGAAAGC-CCGCTAAAGGTCCTAGTA
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* **
46359268 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
46359311 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
46359324 ATTTCTAGAA
Statistics
Matches: 254, Mismatches: 55, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
42 49 0.19
43 186 0.73
44 19 0.07
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:46361251 original size:18 final size:18
Alignment explanation
Indices: 46361224--46361258 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46361214 AGCAAAAACC
*
46361224 TTAAAGAAAATGGAAGAA
1 TTAAAGAAAATAGAAGAA
*
46361242 TTAAATAAAATAGAAGA
1 TTAAAGAAAATAGAAGA
46361259 GAAGTAGAAC
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:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (18 bp):
TTAAAGAAAATAGAAGAA
Found at i:46364620 original size:23 final size:22
Alignment explanation
Indices: 46364577--46364620 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
46364567 TTTCAAGTCA
46364577 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
46364600 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
46364621 TTAATTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:46364778 original size:45 final size:45
Alignment explanation
Indices: 46364690--46364877 Score: 236
Period size: 45 Copynumber: 4.2 Consensus size: 45
46364680 AATAATAACA
* * * * *
46364690 GATACACGGTGG-ATCAGCACAGAGC-ACCACCCTTAGAGTCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
*
46364733 GATACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
* * *
46364778 GGTGCCCGGTGGAATTAGCACATAGCAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
* * * *
46364823 GGTACCCGGTGGAATTAGCACATAGCAACCACCGTTACAATCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
*
46364868 GATACTCGGT
1 GATACCCGGT
46364878 ACACGTAGTA
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
43 11 0.09
44 12 0.09
45 106 0.82
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (45 bp):
GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
Found at i:46367147 original size:19 final size:20
Alignment explanation
Indices: 46367123--46367160 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46367113 TATATAACCT
46367123 AATAAATAA-TGA-AAAAATA
1 AATAAA-AATTGATAAAAATA
46367142 AATAAAAATTGATAAAAAT
1 AATAAAAATTGATAAAAAT
46367161 TTTGAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 9 0.53
20 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AATAAAAATTGATAAAAATA
Found at i:46370401 original size:6 final size:6
Alignment explanation
Indices: 46370390--46370415 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
46370380 GCTACTATTA
46370390 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
46370416 GAAAAACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:46370947 original size:23 final size:21
Alignment explanation
Indices: 46370909--46370951 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
46370899 ATGTTTAAAA
46370909 ATAATATAAAAATAATAATAC
1 ATAATATAAAAATAATAATAC
46370930 ATAATATTAAAAACTAATAATA
1 ATAATA-TAAAAA-TAATAATA
46370952 AAATTCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 8 0.40
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAATATAAAAATAATAATAC
Found at i:46375127 original size:19 final size:20
Alignment explanation
Indices: 46375083--46375127 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
46375073 ATCATGTTCA
46375083 TATTTTTAACATAATTTAAT
1 TATTTTTAACATAATTTAAT
46375103 TA-TTTTATA-ATAA-TTAAT
1 TATTTTTA-ACATAATTTAAT
46375121 TATTTTT
1 TATTTTT
46375128 CTACAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 7 0.30
19 13 0.57
20 3 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:46378684 original size:19 final size:17
Alignment explanation
Indices: 46378655--46378703 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
46378645 AAATAATAGG
* *
46378655 AAAAGTAATAATACTAA
1 AAAAATAATAAAACTAA
*
46378672 GAAAATATAATAAAAGTAA
1 -AAAA-ATAATAAAACTAA
46378691 AAAAATAATAAAA
1 AAAAATAATAAAA
46378704 ATTGAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.33
18 8 0.30
19 10 0.37
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (17 bp):
AAAAATAATAAAACTAA
Found at i:46379789 original size:94 final size:94
Alignment explanation
Indices: 46379628--46379828 Score: 287
Period size: 94 Copynumber: 2.1 Consensus size: 94
46379618 TAAGGACACA
* *
46379628 CCCGTGTGTCCAGGTCGTGTGACCTACACGGCCATGTCTTCACACCATGTAACTCACTATAGAAC
1 CCCGTGTGTCCAGGTCGTGTGACCTACACGACCATGTCTTCACACCATATAACTCACTATAGAAC
* * *
46379693 ACTACC-TTGTGCACATGACTTGGGATATG
66 ACT-CCTTTGTGCACACGACCTGGGACATG
* * * * * *
46379722 CCCGTGTGTCCCGGTCTTGTGACTTACACGACCATGTCTTCACACCGTATAACTCATTGTAGAAC
1 CCCGTGTGTCCAGGTCGTGTGACCTACACGACCATGTCTTCACACCATATAACTCACTATAGAAC
46379787 ACTCCTTTGTGCACACGACCTGGGACATG
66 ACTCCTTTGTGCACACGACCTGGGACATG
46379816 CCCGTGTGTCCAG
1 CCCGTGTGTCCAG
46379829 CCACACAGCC
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 2 0.02
94 92 0.98
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (94 bp):
CCCGTGTGTCCAGGTCGTGTGACCTACACGACCATGTCTTCACACCATATAACTCACTATAGAAC
ACTCCTTTGTGCACACGACCTGGGACATG
Found at i:46382753 original size:21 final size:22
Alignment explanation
Indices: 46382729--46382770 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
46382719 AAAACCTGCC
46382729 AGAA-GCAAACAA-AAAAAAATT
1 AGAATGCAAA-AATAAAAAAATT
*
46382750 AGAATGTAAAAATAAAAAAAT
1 AGAATGCAAAAATAAAAAAAT
46382771 AAAAAATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.14
Consensus pattern (22 bp):
AGAATGCAAAAATAAAAAAATT
Found at i:46386460 original size:68 final size:68
Alignment explanation
Indices: 46386348--46386478 Score: 174
Period size: 68 Copynumber: 1.9 Consensus size: 68
46386338 TTTCACCATT
* * * * *
46386348 TCTATGGCCCATGTAATCACTTAGATTGGGATGTAACGTTTAGGCCCGGTTTGAGGGGTTACATT
1 TCTATAGCCCATGTAATCACTTAAATTGGGATGTAACGTCTAGGCACAGTTTGAGGGGTTACATT
46386413 TAG
66 TAG
* * *
46386416 TCTATAGCCTATGTAATCGCTTAAATTGGG-TCGTAATGTCTAGGCACAGTTTGAGGGGTTACA
1 TCTATAGCCCATGTAATCACTTAAATTGGGAT-GTAACGTCTAGGCACAGTTTGAGGGGTTACA
46386479 ACTTCTTTCC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
67 1 0.02
68 53 0.98
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (68 bp):
TCTATAGCCCATGTAATCACTTAAATTGGGATGTAACGTCTAGGCACAGTTTGAGGGGTTACATT
TAG
Found at i:46388160 original size:24 final size:24
Alignment explanation
Indices: 46388133--46388178 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
46388123 TTGCCAGTGA
46388133 ATTTATTTCCGATCATTGTTATGG
1 ATTTATTTCCGATCATTGTTATGG
*
46388157 ATTTATTTCCGATGATTGTTAT
1 ATTTATTTCCGATCATTGTTAT
46388179 AAAAACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (24 bp):
ATTTATTTCCGATCATTGTTATGG
Found at i:46389320 original size:24 final size:24
Alignment explanation
Indices: 46389291--46389340 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
46389281 GAATGCCATT
46389291 TTTGAGTCCTTGAGTATTCGACCA
1 TTTGAGTCCTTGAGTATTCGACCA
46389315 TTTGAGTCCTTGAGTATTCGACCA
1 TTTGAGTCCTTGAGTATTCGACCA
46389339 TT
1 TT
46389341 CAGTTCAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (24 bp):
TTTGAGTCCTTGAGTATTCGACCA
Found at i:46397252 original size:18 final size:18
Alignment explanation
Indices: 46397207--46397253 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
46397197 TGGTTTCTAA
* *
46397207 ATTGTTGCACATGAATGG
1 ATTGTTACATATGAATGG
46397225 ATTAGTTACATATGAATGG
1 ATT-GTTACATATGAATGG
46397244 ATTGTTACAT
1 ATTGTTACAT
46397254 GTTCAGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (18 bp):
ATTGTTACATATGAATGG
Found at i:46397932 original size:69 final size:69
Alignment explanation
Indices: 46397821--46398411 Score: 833
Period size: 69 Copynumber: 8.7 Consensus size: 69
46397811 AGATTCAGCA
*
46397821 TCTTTAAAATGTGTTCATTTACGTTCTATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
46397886 GTAG
66 GTAG
* * *
46397890 TCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGCTTAATGTGCTGTTGTAAAGGGCTGATAT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
46397955 GTAG
66 GTAG
* * *
46397959 TCTTTAAAATGTGTTCATTTACATTCGTTTTAAATGCTTAAGGTGCTGCTGTAAAGGGCTGA-TT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
46398023 GTAG
66 GTAG
* * * *
46398027 TATTTAAAATGTGTTAATCTACATTCGATTTAAATGCTTAATGTGCTAG-TGTAAAGGGCTGATT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCT-GCTGTAAAGGGCTGATT
46398091 TGTAG
65 TGTAG
* * *
46398096 TCTTTAAAATGTGTTCGTTTACGGTCGATTTAAGTGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
46398161 GTAG
66 GTAG
* * * *
46398165 TCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGTTTAATGTGCTACTGCAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
46398230 GTAG
66 GTAG
* * *
46398234 TCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTGATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
*
46398299 GTAT
66 GTAG
* * * * * *
46398303 TCTTTAAAATGTGTTCATTTACATTCGATTTAAGTTCTTAATGTGTTGTTGTATAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
46398368 -TA-
66 GTAG
*
46398370 -----AAACTGTGTTCATTTACGTTC-ATTTTAAATGCTTAATGTGCT
1 TCTTTAAAATGTGTTCATTTACGTTCGA-TTTAAATGCTTAATGTGCT
46398412 TTCCAAAAAT
Statistics
Matches: 470, Mismatches: 48, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
61 1 0.00
62 35 0.07
68 63 0.13
69 371 0.79
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (69 bp):
TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
GTAG
Found at i:46398199 original size:275 final size:276
Alignment explanation
Indices: 46397821--46398411 Score: 887
Period size: 275 Copynumber: 2.2 Consensus size: 276
46397811 AGATTCAGCA
* *
46397821 TCTTTAAAATGTGTTCATTTACGTTCTATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGGTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
** *
46397886 GTAGTCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGCTTAATGTGCTGTTGTAAAGGGCTG
66 GTAGTCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGCTTAATGTGCTACTGCAAAGGGCTG
* *
46397951 ATATGTAGTCTTTAAAATGTGTTCATTTACATTCGTTTTAAATGCTTAAGGTGCTGCTGTAAAGG
131 ATATGTAGTCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTAAGGTGCTGCTGTAAAGG
46398016 GCTGA-TTGTAGTATTTAAAATGTGTTAATCTACATTCGATTTAAATGCTTAATGTGCTAG-TGT
196 GCTGATTTGTAGTATTTAAAATGTGTTAATCTACATTCGATTTAAATGCTTAATGTG-TAGTTGT
46398079 AAAGGGCTGATTTGTAG
260 AAAGGGCTGATTTGTAG
* *
46398096 TCTTTAAAATGTGTTCGTTTACGGTCGATTTAAGTGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGGTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
*
46398161 GTAGTCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGTTTAATGTGCTACTGCAAAGGGCTG
66 GTAGTCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGCTTAATGTGCTACTGCAAAGGGCTG
* * *
46398226 ATTTGTAGTCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTGATGTGCTGCTGTAAAGG
131 ATATGTAGTCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTAAGGTGCTGCTGTAAAGG
* * * * * * *
46398291 GCTGATTTGTATTCTTTAAAATGTGTTCATTTACATTCGATTTAAGTTCTTAATGTGTTGTTGTA
196 GCTGATTTGTAGTATTTAAAATGTGTTAATCTACATTCGATTTAAATGCTTAATGTGTAGTTGTA
*
46398356 TAGGGCTGATTT-TA-
261 AAGGGCTGATTTGTAG
* *
46398370 -----AAACTGTGTTCATTTACGTTC-ATTTTAAATGCTTAATGTGCT
1 TCTTTAAAATGTGTTCATTTACGGTCGA-TTTAAATGCTTAATGTGCT
46398412 TTCCAAAAAT
Statistics
Matches: 288, Mismatches: 25, Indels: 12
0.89 0.08 0.04
Matches are distributed among these distances:
268 1 0.00
269 36 0.12
275 191 0.66
276 60 0.21
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (276 bp):
TCTTTAAAATGTGTTCATTTACGGTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
GTAGTCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGCTTAATGTGCTACTGCAAAGGGCTG
ATATGTAGTCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTAAGGTGCTGCTGTAAAGG
GCTGATTTGTAGTATTTAAAATGTGTTAATCTACATTCGATTTAAATGCTTAATGTGTAGTTGTA
AAGGGCTGATTTGTAG
Found at i:46402944 original size:16 final size:16
Alignment explanation
Indices: 46402923--46402957 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
46402913 ATGAAATGCC
46402923 TCAAAATTATATGCTT
1 TCAAAATTATATGCTT
46402939 TCAAAATTATATGCTT
1 TCAAAATTATATGCTT
46402955 TCA
1 TCA
46402958 TGTGAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (16 bp):
TCAAAATTATATGCTT
Found at i:46404942 original size:3 final size:3
Alignment explanation
Indices: 46404934--46404963 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
46404924 GCATTTCTAC
46404934 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
46404964 TTACCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:46415655 original size:2 final size:2
Alignment explanation
Indices: 46415642--46415687 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
46415632 GAAAACAAAC
*
46415642 AT AT AG 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
46415684 AT AT
1 AT AT
46415688 GTATCCTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46417101 original size:19 final size:20
Alignment explanation
Indices: 46417064--46417101 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46417054 TTGCTTTTAT
46417064 TCAAAAAAAAAACCGTTGAA
1 TCAAAAAAAAAACCGTTGAA
* *
46417084 TCAAGAAAATAACC-TTGA
1 TCAAAAAAAAAACCGTTGA
46417102 TGTATGGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (20 bp):
TCAAAAAAAAAACCGTTGAA
Found at i:46418326 original size:16 final size:16
Alignment explanation
Indices: 46418305--46418335 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46418295 TTTATAGCCG
46418305 AAAAATAAAAAATCTA
1 AAAAATAAAAAATCTA
*
46418321 AAAAATCAAAAATCT
1 AAAAATAAAAAATCT
46418336 CACTTGTTTT
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:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATAAAAAATCTA
Found at i:46419299 original size:44 final size:44
Alignment explanation
Indices: 46419249--46420100 Score: 205
Period size: 44 Copynumber: 19.4 Consensus size: 44
46419239 CACTGCCGAC
*
46419249 CAGGGAGATAGAAT-TACTGGCTTCAATATACTCCACTGTAACCT
1 CAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT-ACCT
* * * *** * * *
46419293 CAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCT
1 CAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACT-GTACCT
* * *
46419338 -AGGGAGATA-AGATCTGTAAT--CTTCAATCTATTCCACTGCTGCC-
1 CAGGGAGATAGA-ATC--TACTGGCTTCAATCTACTCCACTG-TACCT
*
46419381 CAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT-ACCT
* * * * * * *
46419425 CAGGGAGGTAAAATCTGCCAGCCTT-GATCTGCTCCAC--TACTGCT
1 CAGGGAGATAGAATCT-ACTGGCTTCAATCTACTCCACTGTAC--CT
* * *
46419469 TAGGGAGATA-AGATCTGTAAT--CTTCAATCTATTCCACTGCTACCT
1 CAGGGAGATAGA-ATC--TACTGGCTTCAATCTACTCCACTG-TACCT
*
46419514 -AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT-ACCT
* * ** * * *
46419557 CAGGGAGGTAAAATCCGCCAT-CCTT-GATCTGCTCCAC--TACTGCT
1 CAGGGAGATAGAAT-CTAC-TGGCTTCAATCTACTCCACTGTAC--CT
* * * *
46419601 TAGGGAGATA-AGATCTGTAAT--CTTCAATCTATTCCACTGCTGCC-
1 CAGGGAGATAGA-ATC--TACTGGCTTCAATCTACTCCACTG-TACCT
*
46419645 CAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT-ACCT
* * * *** * * *
46419689 CAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCT
1 CAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACT-GTACCT
* * * *
46419734 -AAGGAGATA-AGATCTGTAAT--CTTCAATCTATTCCACTGCTGCC-
1 CAGGGAGATAGA-ATC--TACTGGCTTCAATCTACTCCACTG-TACCT
* * * *
46419777 CAGGGAGATAGCAT-TACTAGCTTTAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT-ACCT
* * * * * * *
46419821 CAGGGAGGTAAAATCTGCCAGCCTT-GATCTGCTCCAC--TACTGCT
1 CAGGGAGATAGAATCT-ACTGGCTTCAATCTACTCCACTGTAC--CT
* * * * *
46419865 TAGGGCGATA-AGATCTGTAAT--CTTCAATCTATTCCACTGCTGCC-
1 CAGGGAGATAGA-ATC--TACTGGCTTCAATCTACTCCACTG-TACCT
* *
46419909 CAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTATAACCT
1 CAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT-ACCT
* * ** * * *
46419953 CAGGGAGGTAAAATCCGCCAT-CCTT-GATCTGCTCCAC--TACTGCT
1 CAGGGAGATAGAAT-CTAC-TGGCTTCAATCTACTCCACTGTAC--CT
* * * *
46419997 TAGGGAGATA-AGATCTGTAAT--CTTCAATCTATTCCACTGCTGCC-
1 CAGGGAGATAGA-ATC--TACTGGCTTCAATCTACTCCACTG-TACCT
* *
46420041 CAGGGAGATAGAAT-TATTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGT-ACCT
* *
46420085 CAGGGAGGTAAAATCT
1 CAGGGAGATAGAATCT
46420101 GCCATCCTTG
Statistics
Matches: 579, Mismatches: 138, Indels: 181
0.64 0.15 0.20
Matches are distributed among these distances:
41 18 0.03
42 14 0.02
43 132 0.23
44 292 0.50
45 89 0.15
46 23 0.04
47 11 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
CAGGGAGATAGAATCTACTGGCTTCAATCTACTCCACTGTACCT
Found at i:46419423 original size:132 final size:131
Alignment explanation
Indices: 46419235--46420386 Score: 1939
Period size: 132 Copynumber: 8.7 Consensus size: 131
46419225 TCTTCGATAG
* * *
46419235 ATTCCACTGCCGACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
* *
46419300 GTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAAT
66 GTAAAATCTGCCATCTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
46419365 CT
130 CT
46419367 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
*
46419432 GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
66 GTAAAATCTGCCA-TCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
46419497 CT
130 CT
* *
46419499 ATTCCACTGCTACCTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
*
46419564 GTAAAATCCGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
66 GTAAAATCTGCCAT-CTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
46419629 CT
130 CT
46419631 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
* * *
46419696 GTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAAGGAGATAAGATCTGTAATCTTCAAT
66 GTAAAATCTGCCATCTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
46419761 CT
130 CT
* * *
46419763 ATTCCACTGCTGCCCAGGGAGATAGCATTACTAGCTTTAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
* *
46419828 GTAAAATCTGCCAGCCTTGATCTGCTCCACTACTGCTTAGGGCGATAAGATCTGTAATCTTCAAT
66 GTAAAATCTGCCA-TCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
46419893 CT
130 CT
*
46419895 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
*
46419960 GTAAAATCCGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
66 GTAAAATCTGCCAT-CTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
46420025 CT
130 CT
*
46420027 ATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
46420092 GTAAAATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
66 GTAAAATCTGCCAT-CTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
46420157 CT
130 CT
* * *
46420159 ATTCTACTGCTGCCCAGGGAGATAGAATTAGTGGCTTCAATGTACTCCACTGTAAGCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
*
46420224 GTAAAAT-TCGTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
66 GTAAAATCT-GCCATC-TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAA
*
46420288 TTT
129 TCT
* *
46420291 ATTCCACTGCTGCCCAGGGAGATTGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
*
46420356 GTAAAAT-TCGCCATCCTTGATTTGCTCCACT
66 GTAAAATCT-GCCAT-CTTGATCTGCTCCACT
46420387 GCCACCGAGA
Statistics
Matches: 966, Mismatches: 46, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
131 5 0.01
132 954 0.99
133 7 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (131 bp):
ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
GTAAAATCTGCCATCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATC
T
Found at i:46421742 original size:21 final size:21
Alignment explanation
Indices: 46421718--46421759 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
46421708 TTAGCCTCTC
46421718 CATTTTTA-CTTTTTCATTTTT
1 CATTTTTATC-TTTTCATTTTT
46421739 CATTTTTATCTTTTCATTTTT
1 CATTTTTATCTTTTCATTTTT
46421760 TCACATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (21 bp):
CATTTTTATCTTTTCATTTTT
Found at i:46421762 original size:8 final size:7
Alignment explanation
Indices: 46421718--46421759 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
46421708 TTAGCCTCTC
46421718 CATTTTT
1 CATTTTT
46421725 -ACTTTTT
1 CA-TTTTT
46421732 CATTTTT
1 CATTTTT
46421739 CATTTTT
1 CATTTTT
46421746 -ATCTTTT
1 CAT-TTTT
46421753 CATTTTT
1 CATTTTT
46421760 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 3 0.10
7 25 0.81
8 3 0.10
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:46424659 original size:19 final size:20
Alignment explanation
Indices: 46424635--46424674 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
46424625 AACTTTGTTT
* *
46424635 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
46424654 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
46424674 A
1 A
46424675 TGCGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:46424725 original size:13 final size:13
Alignment explanation
Indices: 46424707--46424732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46424697 TTTTCAATTT
46424707 TTTACTAGAAAAC
1 TTTACTAGAAAAC
46424720 TTTACTAGAAAAC
1 TTTACTAGAAAAC
46424733 AAATATCTTT
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:46427565 original size:16 final size:16
Alignment explanation
Indices: 46427541--46427575 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
46427531 GGCTTTTTAT
*
46427541 ATCTGAAAAATCAAAA
1 ATCTAAAAAATCAAAA
46427557 ATCTAAAAAATCAAAA
1 ATCTAAAAAATCAAAA
46427573 ATC
1 ATC
46427576 CCACTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.63, C:0.14, G:0.03, T:0.20
Consensus pattern (16 bp):
ATCTAAAAAATCAAAA
Found at i:46428528 original size:20 final size:20
Alignment explanation
Indices: 46428505--46428542 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46428495 TTAATAATAA
*
46428505 TTAAGAAAAATATCATAAAT
1 TTAAAAAAAATATCATAAAT
46428525 TTAAAAAAAATATCATAA
1 TTAAAAAAAATATCATAA
46428543 GAATTAGGGA
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:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (20 bp):
TTAAAAAAAATATCATAAAT
Found at i:46431919 original size:29 final size:31
Alignment explanation
Indices: 46431864--46431921 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
46431854 AATATACATA
46431864 TTATAAAAAATAATTTATATGTATTTTAAAG
1 TTATAAAAAATAATTTATATGTATTTTAAAG
46431895 TTATAACAAAA-AA-TTATAT-TATTTTAA
1 TTATAA-AAAATAATTTATATGTATTTTAA
46431922 TCCTAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 8 0.31
30 6 0.23
31 8 0.31
32 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (31 bp):
TTATAAAAAATAATTTATATGTATTTTAAAG
Found at i:46433251 original size:27 final size:27
Alignment explanation
Indices: 46433221--46433272 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
46433211 AGGGGTGGTG
* *
46433221 CCTACCTGATAGGCGGCACTAGTGACC
1 CCTACCTGATAAGCGGCACCAGTGACC
* *
46433248 CCTATCTGATAAGTGGCACCAGTGA
1 CCTACCTGATAAGCGGCACCAGTGA
46433273 AGCAGTTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (27 bp):
CCTACCTGATAAGCGGCACCAGTGACC
Found at i:46433541 original size:105 final size:107
Alignment explanation
Indices: 46433415--46433698 Score: 304
Period size: 115 Copynumber: 2.6 Consensus size: 107
46433405 TTTATTGTTG
*
46433415 TTTTTATGTTATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTT
1 TTTTTAT-TAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTT
* * **
46433480 -TGTTTAATGTTTATTGTGATTTGTTAGGTTATGAATGTAA-A
65 AGGTTTAAGGTTTATTGTGATTTGTTAGGTTATGAATACAATA
* ** * *
46433521 TTTTTATTAATTTTTAATTTATTTTAAAATTATTTTGTTAGTAAGTTTTGTGATTAGGTTAATTG
1 TTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTG-T--T-AG-TTACT-ATTA--TAAATTA
* *
46433586 TTTGTTTAGGGTTTAGGGTTTATTGTGATTTGTTAGGTTATGAATACAATC
58 TTTGTTTA-GGTTTAAGGTTTATTGTGATTTGTTAGGTTATGAATACAATA
* * * * *
46433637 TTTTTA-TATTTTTTAATTTATTTGAAAGTTATTTTGGTAGTAACTATTATAAATTAATTGTT
1 TTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTT
46433699 AGTTAGTGAA
Statistics
Matches: 145, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
105 28 0.19
106 8 0.06
107 10 0.07
108 1 0.01
109 6 0.04
110 5 0.03
111 6 0.04
112 1 0.01
113 12 0.08
115 62 0.43
116 6 0.04
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.57
Consensus pattern (107 bp):
TTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTA
GGTTTAAGGTTTATTGTGATTTGTTAGGTTATGAATACAATA
Found at i:46436326 original size:17 final size:18
Alignment explanation
Indices: 46436312--46436395 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 18
46436302 ATAATCTTCG
46436312 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
46436330 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
*
46436349 TATGATATATGCAATCTTAGA
1 -A-G-GATATGCAATCTTAGA
* **
46436370 TATGATATATAATCTTAGA
1 -AGGATATGCAATCTTAGA
46436389 A-GATATG
1 AGGATATG
46436396 ATTTTGTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
17 5 0.09
18 1 0.02
19 32 0.58
21 17 0.31
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:46436360 original size:21 final size:21
Alignment explanation
Indices: 46436315--46436388 Score: 120
Period size: 19 Copynumber: 3.7 Consensus size: 21
46436305 ATCTTCGAGG
46436315 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
46436334 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46436355 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46436376 ATAT--AATCTTAGA
1 ATATGCAATCTTAGA
46436389 AGATATGATT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
19 28 0.53
21 25 0.47
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:46436421 original size:22 final size:23
Alignment explanation
Indices: 46436379--46436421 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
46436369 ATATGATATA
*
46436379 TAATCTTAGAAGATATGATTTTG
1 TAATCTTAGAAGATATAATTTTG
*
46436402 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
46436422 GTAGATACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTG
Found at i:46437097 original size:25 final size:25
Alignment explanation
Indices: 46437033--46437100 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
46437023 TTTTTTGTAG
*
46437033 TATA-ATATAATTATTTTTTTATTTA
1 TATATATATAATTA-TTTTTTATCTA
* *
46437058 TTTATATGTAATTATTTTTTATCTA
1 TATATATATAATTATTTTTTATCTA
* *
46437083 TATGTATATATTTATTTT
1 TATATATATAATTATTTT
46437101 AGTATACATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
25 27 0.77
26 8 0.23
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (25 bp):
TATATATATAATTATTTTTTATCTA
Found at i:46443235 original size:14 final size:14
Alignment explanation
Indices: 46443216--46443245 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46443206 AATTATTTCG
46443216 AAAAGAAAAAAAGA
1 AAAAGAAAAAAAGA
*
46443230 AAAAGAAAAGAAGA
1 AAAAGAAAAAAAGA
46443244 AA
1 AA
46443246 GAAAATGGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAGA
Found at i:46443237 original size:19 final size:18
Alignment explanation
Indices: 46443215--46443250 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46443205 AAATTATTTC
46443215 GAAAAGAAAAAAAGAAAAA
1 GAAAAG-AAAAAAGAAAAA
*
46443234 GAAAAGAAGAAAGAAAA
1 GAAAAGAAAAAAGAAAA
46443251 TGGAGAGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
GAAAAGAAAAAAGAAAAA
Found at i:46443240 original size:11 final size:12
Alignment explanation
Indices: 46443218--46443250 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
46443208 TTATTTCGAA
46443218 AAGAAA-AAAAG
1 AAGAAAGAAAAG
46443229 AA-AAAGAAAAG
1 AAGAAAGAAAAG
46443240 AAGAAAGAAAA
1 AAGAAAGAAAA
46443251 TGGAGAGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.15
11 9 0.45
12 8 0.40
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAAAG
Found at i:46444580 original size:44 final size:44
Alignment explanation
Indices: 46444485--46445121 Score: 331
Period size: 44 Copynumber: 14.7 Consensus size: 44
46444475 ATATGGCAAG
* * **
46444485 TCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCAGAT-A-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--ACCTCAGA
* *
46444529 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * **
46444573 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCCTCTAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTC-AGA
* * * * * *
46444613 TTTTATCTCCCTAAAGTTGCAGTGGAGCAAACTAAGTAAGC-AAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTCAGA
* * * * ***
46444657 TCTTATC-CTTCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-A
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCTCAGA
* * *
46444701 GTCTTATCTCCCTGAAGTTGCAATGGAGAAGATTAAAGCCGAT-A-A
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--TCAGA
* * * * * *
46444746 TCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGCCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * *** * *
46444790 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCA-TTTAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * **
46444830 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATA-GACA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCTCAGA
* *
46444873 GTCTTATCGCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT-A-A
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--TCAGA
* * * *
46444918 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * * * ** *
46444962 TCTTATCTCCCTGAACTTGCAGTGGGGCATACTAAATA-AACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCTCAGA
* * *
46445006 TCTTGTCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
* * ** *
46445050 TCTTATCTCTCTGAAGTTACAGT--AG-AG-TATATCACATC-GA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAACCTCAGA
*
46445090 GTCTTATATCCCTGAAGTTGCAGTGGAGCAGA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
46445122 CTCAAGAAAG
Statistics
Matches: 451, Mismatches: 103, Indels: 77
0.71 0.16 0.12
Matches are distributed among these distances:
40 47 0.10
41 44 0.10
42 10 0.02
43 25 0.06
44 293 0.65
45 28 0.06
46 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGA
Found at i:46444852 original size:217 final size:217
Alignment explanation
Indices: 46444463--46444984 Score: 703
Period size: 217 Copynumber: 2.4 Consensus size: 217
46444453 CATCGACAGC
* * * *
46444463 GGAGCAGATTGAATATGGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCAGATA
1 GGAGCAGATTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCGATA
*
46444528 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGC
66 ATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGC
* * * *
46444593 AGAGAGCAGATCGCCTCTAGTTTTATCTCCCTAAAGTTGCAGTGGAGCAAACTAAGTA-AGCAAG
131 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAAACTAAATAGA-CAAG
*
46444657 TCTTATC-CTTCTAAAGTTGCAGT
195 TCTTATCGC-CCTAAAGTTGCAGT
* *
46444680 -GAGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAATGGAGAAGATTAAAGCCGAT
1 GGA-GCAGATTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCGAT
* * *
46444744 AATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGCCTTAGATCTTATCTCTCTGAAGTTG
65 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTG
* * *
46444809 CAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATAGACAAG
130 CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAAACTAAATAGACAAG
*
46444874 TCTTATCGCCCTGAAGTTGCAGT
195 TCTTATCGCCCTAAAGTTGCAGT
* ** ** * ** *
46444897 GGAGCAGATTAAAGCCGATAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCC-TTA
1 GGAGCAGATTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCGATA
* *
46444960 GATCTTATCTCCCTGAACTTGCAGT
66 -ATCCTATCTCCCTGAAGTTGCAGT
46444985 GGGGCATACT
Statistics
Matches: 267, Mismatches: 33, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
215 2 0.01
216 58 0.22
217 203 0.76
218 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
GGAGCAGATTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCGATA
ATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGC
AGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAAACTAAATAGACAAGT
CTTATCGCCCTAAAGTTGCAGT
Found at i:46444914 original size:172 final size:173
Alignment explanation
Indices: 46444670--46444983 Score: 524
Period size: 172 Copynumber: 1.8 Consensus size: 173
46444660 TATCCTTCTA
* * *
46444670 AAGTTGCAGTGAGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAATGGAGAAGATT
1 AAGTTGCAGTGAAGCAGACTGAAGATGACAAGTCTTATCGCCCTGAAGTTGCAATGGAGAAGATT
* *
46444735 AAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGCCTTAGATCTTATCTCT
66 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGCCTTAGATCTTATCTCC
*
46444800 CTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTG
131 CTGAACTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTG
* *
46444843 AAGTTGCAGTGAAGCAGACT-AA-ATAGACAAGTCTTATCGCCCTGAAGTTGCAGTGGAGCAGAT
1 AAGTTGCAGTGAAGCAGACTGAAGAT-GACAAGTCTTATCGCCCTGAAGTTGCAATGGAGAAGAT
*
46444906 TAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCCTTAGATCTTATCTC
65 TAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGCCTTAGATCTTATCTC
46444971 CCTGAACTTGCAG
130 CCTGAACTTGCAG
46444984 TGGGGCATAC
Statistics
Matches: 131, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
171 2 0.02
172 110 0.84
173 19 0.15
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (173 bp):
AAGTTGCAGTGAAGCAGACTGAAGATGACAAGTCTTATCGCCCTGAAGTTGCAATGGAGAAGATT
AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGCCTTAGATCTTATCTCC
CTGAACTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTG
Found at i:46445020 original size:132 final size:129
Alignment explanation
Indices: 46444744--46445160 Score: 423
Period size: 132 Copynumber: 3.2 Consensus size: 129
46444734 TAAAGCCGAT
* * * *
46444744 AATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGCCTTAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCCATAGATCTTATCTCTCTGAAGTTG
* * * *
46444809 CAG-AGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATAGACA
66 CAGTAGAGCAGATAGCACTTAGTCTTATCTCCCTGAACTTGCAGTGAAGCAGACTAAATAAACA
* * * * *
46444872 AGTCTTATCGCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATA-ATCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCC-ATAGATCTTATCTCTCTGAAGTT
* * ** *
46444936 GCAGTGGAGCGGATTAAAGC-CTTAGATCTTATCTCCCTGAACTTGCAGTGGGGCATACTAAATA
65 GCAGTAGAGCAGA-T--AGCACTTAG-TCTTATCTCCCTGAACTTGCAGTGAAGCAGACTAAATA
46445000 AACA
126 AACA
* * * *
46445004 AATCTTGTCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCCATAGATCTTATCTCTCTGAAGTTG
* * * * * * * *
46445069 CAGTAGAG--TATATCACATCGAGTCTTATATCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAG
66 CAGTAGAGCAGATAGCAC-T-TAGTCTTATCTCCCTGAACTTGCAGTGAAGCAGACTAAATAAA-
46445132 C-
128 CA
* *
46445133 AATCCTTATCCCCCTGAAATTGCAGTGG
1 AAT-CTTATCTCCCTGAAGTTGCAGTGG
46445161 GGCATACTAA
Statistics
Matches: 237, Mismatches: 40, Indels: 22
0.79 0.13 0.07
Matches are distributed among these distances:
127 2 0.01
128 57 0.24
129 47 0.20
130 26 0.11
131 6 0.03
132 99 0.42
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (129 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCCATAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATAGCACTTAGTCTTATCTCCCTGAACTTGCAGTGAAGCAGACTAAATAAACA
Found at i:46445527 original size:17 final size:18
Alignment explanation
Indices: 46445513--46445596 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 18
46445503 ATAATCTTCG
46445513 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
46445531 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
*
46445550 TATGATATATGCAATCTTAGA
1 -A-G-GATATGCAATCTTAGA
* **
46445571 TATGATATATAATCTTAGA
1 -AGGATATGCAATCTTAGA
46445590 A-GATATG
1 AGGATATG
46445597 ATTTTGTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
17 5 0.09
18 1 0.02
19 32 0.58
21 17 0.31
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:46445561 original size:21 final size:21
Alignment explanation
Indices: 46445516--46445589 Score: 120
Period size: 19 Copynumber: 3.7 Consensus size: 21
46445506 ATCTTCGAGG
46445516 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
46445535 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46445556 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46445577 ATAT--AATCTTAGA
1 ATATGCAATCTTAGA
46445590 AGATATGATT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
19 28 0.53
21 25 0.47
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:46445622 original size:22 final size:23
Alignment explanation
Indices: 46445580--46445622 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
46445570 ATATGATATA
*
46445580 TAATCTTAGAAGATATGATTTTG
1 TAATCTTAGAAGATATAATTTTG
*
46445603 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
46445623 GTAGATACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTG
Found at i:46447693 original size:20 final size:20
Alignment explanation
Indices: 46447670--46447708 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
46447660 ATAAATCAAA
46447670 AACAAATAAAATTACATTAT
1 AACAAATAAAATTACATTAT
46447690 AACAAATAAAATTACATTA
1 AACAAATAAAATTACATTA
46447709 AACTAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
AACAAATAAAATTACATTAT
Found at i:46447783 original size:113 final size:113
Alignment explanation
Indices: 46447677--46448052 Score: 407
Period size: 102 Copynumber: 3.5 Consensus size: 113
46447667 AAAAACAAAT
* * * * *
46447677 AAAATTACATT-ATAACAAAT-AAAAT-TACATTAAACT-AA-ACAAATAATTTATAACCTAATC
1 AAAATTACATTCATAAAAAATCAAAATAAACACTAAACTAAACACAAAAAATTTATAACCTAATA
*
46447737 ATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAACACAAAAA
66 ATAAATTACTAACAAAATAACTTTAAAATAATTAAAAAAACACAAAAA
*
46447785 AAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAAAAATTTATAACCTAATA
1 AAAATTACATTCATAAAAAATCAAAATAAACACTAAACTAAACACAAAAAATTTATAACCTAATA
*
46447850 ATAAATTACTAACAAAATAACTTTCAAATAATT-----------AAAA
66 ATAAATTACTAACAAAATAACTTTAAAATAATTAAAAAAACACAAAAA
* * * * * * * *
46447887 AAATTTAAATTAATAAAAATTCACAATAAACACTAAACTAAACACAAACAATATATAACCTAATT
1 AAAATTACATTCATAAAAAATCAAAATAAACACTAAACTAAACACAAAAAATTTATAACCTAATA
* * * *
46447952 ATAAATTACAAACAAAATAACTTTAAAATCATTTAGAAAA-AC--AAA
66 ATAAATTACTAACAAAATAACTTTAAAATAATTAAAAAAACACAAAAA
* *
46447997 AAAATTACATTCATAAAAAATC-ACA-AAACACTAAACTAAACACAAAGAATTTATAA
1 AAAATTACATTCATAAAAAATCAAAATAAACACTAAACTAAACACAAAAAATTTATAA
46448053 TAATTACTAA
Statistics
Matches: 229, Mismatches: 25, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
102 92 0.40
108 40 0.17
109 9 0.04
110 25 0.11
111 9 0.04
112 2 0.01
113 52 0.23
ACGTcount: A:0.60, C:0.14, G:0.01, T:0.26
Consensus pattern (113 bp):
AAAATTACATTCATAAAAAATCAAAATAAACACTAAACTAAACACAAAAAATTTATAACCTAATA
ATAAATTACTAACAAAATAACTTTAAAATAATTAAAAAAACACAAAAA
Found at i:46447905 original size:19 final size:21
Alignment explanation
Indices: 46447851--46447905 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 21
46447841 AACCTAATAA
*
46447851 TAAATTACTAACAAAATAACTT
1 TAAATTAATAA-AAAATAACTT
*
46447873 TCAAA-TAATTAAAAA-AA-TT
1 T-AAATTAATAAAAAATAACTT
46447892 TAAATTAATAAAAA
1 TAAATTAATAAAAA
46447906 TTCACAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 3 0.11
19 11 0.39
20 2 0.07
21 4 0.14
22 5 0.18
23 3 0.11
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAATTAATAAAAAATAACTT
Found at i:46448130 original size:27 final size:26
Alignment explanation
Indices: 46448074--46448141 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
46448064 AAAACAACAT
* *
46448074 AAAAAAATAACTAATCCCTTCTATTTA
1 AAAAAAAT-ACTAACCCCTTCTATTAA
46448101 AAAAAAATACTAACCCCTT-TAAATTAA
1 AAAAAAATACTAACCCCTTCT--ATTAA
46448128 AAAAAAATACTAAC
1 AAAAAAATACTAAC
46448142 AAACATACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 1 0.03
26 10 0.27
27 26 0.70
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAAAAATACTAACCCCTTCTATTAA
Found at i:46460856 original size:19 final size:19
Alignment explanation
Indices: 46460828--46460877 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
46460818 AACATAATAT
*
46460828 AATATAATTTAA-TTAATTA
1 AATAT-ATTTAACTAAATTA
*
46460847 ATTAATATTTAACTAAATTA
1 AAT-ATATTTAACTAAATTA
46460867 AATATATTTAA
1 AATATATTTAA
46460878 AATATTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATATTTAACTAAATTA
Found at i:46470019 original size:30 final size:29
Alignment explanation
Indices: 46469986--46470200 Score: 159
Period size: 29 Copynumber: 7.4 Consensus size: 29
46469976 TCATCGACCA
* * *
46469986 ATGAAAAGGGACACCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* * * *
46470015 AATGAAAAGGGATATCTTTGTCTATCAATT
1 -ATGAAAAGGGATAGCTTCGGCTATCGATT
* *
46470045 ATGAAAAAGGATAGCTTCGGTTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* *
46470074 ATGAAAAAGGATAGCTTCGGTTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* * ** * * *
46470103 ATGAAAA-GGAT-GGTGACTACAATCAACT
1 ATGAAAAGGGATAGCT-TCGGCTATCGATT
* * * * *
46470131 ATGAACAA-GGAT-GGTGACGACCATCGAAT
1 ATGAA-AAGGGATAGCT-TCGGCTATCGATT
46470160 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
46470189 ATGAAAAGGGAT
1 ATGAAAAGGGAT
46470201 GGTAACGACC
Statistics
Matches: 154, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
27 2 0.01
28 17 0.11
29 108 0.70
30 27 0.18
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATT
Found at i:46470141 original size:86 final size:87
Alignment explanation
Indices: 46470067--46470244 Score: 243
Period size: 86 Copynumber: 2.1 Consensus size: 87
46470057 AGCTTCGGTT
* * * *
46470067 ATCGATTATGAAAAAGGATAGCTTCGGTTATCGATTATGAAAA-GGATGGTGACTACAATCAACT
1 ATCGAATATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACAATCAACT
* *
46470131 ATGAACAAGGATGGTGACGACC
66 ATGAAAAAGGATGCTGACGACC
* *
46470153 ATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACCATCAACT
1 ATCGAATATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACAATCAACT
* *
46470218 ATG-AAAAGCGATGGTGATGACC
66 ATGAAAAAG-GATGCTGACGACC
46470240 ATCGA
1 ATCGA
46470245 TTAATCAAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
86 44 0.54
87 38 0.46
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (87 bp):
ATCGAATATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACAATCAACT
ATGAAAAAGGATGCTGACGACC
Found at i:46470162 original size:29 final size:28
Alignment explanation
Indices: 46470096--46470244 Score: 124
Period size: 29 Copynumber: 5.2 Consensus size: 28
46470086 AGCTTCGGTT
* * *
46470096 ATCGATTATGAAAAGGATGGTGACTACA
1 ATCGAATATGAAAAGGATGGTGACGACC
46470124 ATC-AACTATGAACAAGGATGGTGACGACC
1 ATCGAA-TATGAA-AAGGATGGTGACGACC
* * * *
46470153 ATCGAATATGAAAAGGGATAGCT-TCGGCT
1 ATCGAATATGAAAA-GGAT-GGTGACGACC
* *
46470182 ATCGATTATGAAAAGGGATGGTAACGACC
1 ATCGAATATGAAAA-GGATGGTGACGACC
*
46470211 ATC-AACTATGAAAAGCGATGGTGATGACC
1 ATCGAA-TATGAAAAG-GATGGTGACGACC
46470240 ATCGA
1 ATCGA
46470245 TTAATCAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.01
28 15 0.15
29 76 0.78
30 5 0.05
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (28 bp):
ATCGAATATGAAAAGGATGGTGACGACC
Found at i:46470244 original size:58 final size:57
Alignment explanation
Indices: 46470096--46470262 Score: 137
Period size: 58 Copynumber: 2.9 Consensus size: 57
46470086 AGCTTCGGTT
* * * *
46470096 ATCGATTATGAAAAGGATGGTGACT-ACAATCAACTATGAACAA-GGATGGTGACGACC
1 ATCGAATATGAAAAGGATGGTGA-TGACAATCGATTATGAA-AAGGGATGGTAACGACC
* * *
46470153 ATCGAATATGAAAAGGGATAGCT--TCGGCTATCGATTATGAAAAGGGATGGTAACGACC
1 ATCGAATATGAAAA-GGAT-GGTGAT-GACAATCGATTATGAAAAGGGATGGTAACGACC
* * *
46470211 ATC-AACTATGAAAAGCGATGGTGATGACCATCGATTAATCAAAAGGGTTGGT
1 ATCGAA-TATGAAAAG-GATGGTGATGACAATCGATT-ATGAAAAGGGATGGT
46470263 TTTGACCATT
Statistics
Matches: 88, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
56 1 0.01
57 20 0.23
58 51 0.58
59 16 0.18
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (57 bp):
ATCGAATATGAAAAGGATGGTGATGACAATCGATTATGAAAAGGGATGGTAACGACC
Found at i:46470269 original size:30 final size:30
Alignment explanation
Indices: 46470182--46470331 Score: 101
Period size: 30 Copynumber: 5.1 Consensus size: 30
46470172 AGCTTCGGCT
* ***
46470182 ATCGATT-ATGAAAAGGGATGGTAACGACC
1 ATCGATTAATCAAAAGGGATGGTTTTGACC
* * * * **
46470211 ATCAACT-ATGAAAAGCGATGGTGATGACC
1 ATCGATTAATCAAAAGGGATGGTTTTGACC
*
46470240 ATCGATTAATCAAAAGGGTTGGTTTTGACC
1 ATCGATTAATCAAAAGGGATGGTTTTGACC
* * * *
46470270 ATTGATTAATGAAAATGGATGTTTTTGACC
1 ATCGATTAATCAAAAGGGATGGTTTTGACC
* * * *
46470300 ATCGAAT-AT-GAAAGGGACGGTTATGACC
1 ATCGATTAATCAAAAGGGATGGTTTTGACC
46470328 ATCG
1 ATCG
46470332 TTTAGCACAC
Statistics
Matches: 96, Mismatches: 24, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
28 18 0.19
29 31 0.32
30 47 0.49
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (30 bp):
ATCGATTAATCAAAAGGGATGGTTTTGACC
Found at i:46470310 original size:29 final size:30
Alignment explanation
Indices: 46470149--46470331 Score: 133
Period size: 29 Copynumber: 6.3 Consensus size: 30
46470139 GGATGGTGAC
* * * *
46470149 GACCATCGAAT-ATGAAAAGGGATAGCTTC
1 GACCATCGATTAATGAAAAGGGATGGTTTT
* * ***
46470178 GGCTATCGATT-ATGAAAAGGGATGGTAAC
1 GACCATCGATTAATGAAAAGGGATGGTTTT
* * * **
46470207 GACCATCAACT-ATGAAAAGCGATGGTGAT
1 GACCATCGATTAATGAAAAGGGATGGTTTT
* *
46470236 GACCATCGATTAATCAAAAGGGTTGGTTTT
1 GACCATCGATTAATGAAAAGGGATGGTTTT
* * *
46470266 GACCATTGATTAATGAAAATGGATGTTTTT
1 GACCATCGATTAATGAAAAGGGATGGTTTT
* * *
46470296 GACCATCGAAT-ATG-AAAGGGACGGTTAT
1 GACCATCGATTAATGAAAAGGGATGGTTTT
46470324 GACCATCG
1 GACCATCG
46470332 TTTAGCACAC
Statistics
Matches: 121, Mismatches: 32, Indels: 3
0.78 0.21 0.02
Matches are distributed among these distances:
28 18 0.15
29 56 0.46
30 47 0.39
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.26
Consensus pattern (30 bp):
GACCATCGATTAATGAAAAGGGATGGTTTT
Found at i:46479855 original size:19 final size:20
Alignment explanation
Indices: 46479819--46479870 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
46479809 TATTATTAAT
* **
46479819 ATATTTATAATTGTAATA-A
1 ATATTTATTATTAAAATATA
46479838 ATATTTATTATTAAAATATTA
1 ATATTTATTATTAAAATA-TA
*
46479859 ATATTTAATATT
1 ATATTTATTATT
46479871 TTCAATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTTATTATTAAAATATA
Found at i:46481733 original size:42 final size:42
Alignment explanation
Indices: 46481611--46481722 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
46481601 ATTTATAAGC
* * *
46481611 CACAAGGCCTAGACACACGCCCATGTCCTTGCTTGTGTGGCT
1 CACACGGCCTAGACACACGCCCATGTCCTTGCTCGTGTGACT
*
46481653 CACACAGCCTAGACACACGCCCATGTCCTTGCTCGTGTGACT
1 CACACGGCCTAGACACACGCCCATGTCCTTGCTCGTGTGACT
* *
46481695 CACACGGCCTGGACA-ATGCCCATGTCCT
1 CACACGGCCTAGACACACGCCCATGTCCT
46481723 CTGACCGTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 12 0.19
42 51 0.81
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (42 bp):
CACACGGCCTAGACACACGCCCATGTCCTTGCTCGTGTGACT
Found at i:46481826 original size:42 final size:42
Alignment explanation
Indices: 46481758--46481878 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
46481748 ATAATGAGTT
*
46481758 ACACAGCCTGGACACACACCCATGTCCTTGCCCGTGTAACTC
1 ACACGGCCTGGACACACACCCATGTCCTTGCCCGTGTAACTC
* * * *
46481800 ACACGGCCTGGACACACGCTCTTGTCCTTGCTCGTGTAACTC
1 ACACGGCCTGGACACACACCCATGTCCTTGCCCGTGTAACTC
* ** *
46481842 ACACGGCCTAGACA-ATGCCCATGTCCTCTGACCGTGT
1 ACACGGCCTGGACACACACCCATGTCCT-TGCCCGTGT
46481879 GGTTCTAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 10 0.15
42 57 0.85
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.22
Consensus pattern (42 bp):
ACACGGCCTGGACACACACCCATGTCCTTGCCCGTGTAACTC
Found at i:46481894 original size:146 final size:146
Alignment explanation
Indices: 46481617--46481919 Score: 471
Period size: 146 Copynumber: 2.1 Consensus size: 146
46481607 AAGCCACAAG
* ** **
46481617 GCCTAGACACACGCCCATGTCCTTGCTTGTGTGGCTCACACAGCCTAGACACACGCCCATGTCCT
1 GCCTAGACACACACCCATGTCCTTGCCCGTGTAACTCACACAGCCTAGACACACGCCCATGTCCT
* * *
46481682 TGCTCGTGTGACTCACACGGCCTGGACAATGCCCATGTCCTCTGACCGTGTGGTTCTCAAACGTA
66 TGCTCGTGTAACTCACACGGCCTAGACAATGCCCATGTCCTCTGACCGTGTGGTTCTAAAACGTA
46481747 AATAATGAGTTACACA
131 AATAATGAGTTACACA
* * * * *
46481763 GCCTGGACACACACCCATGTCCTTGCCCGTGTAACTCACACGGCCTGGACACACGCTCTTGTCCT
1 GCCTAGACACACACCCATGTCCTTGCCCGTGTAACTCACACAGCCTAGACACACGCCCATGTCCT
*
46481828 TGCTCGTGTAACTCACACGGCCTAGACAATGCCCATGTCCTCTGACCGTGTGGTTCTAAAATGTA
66 TGCTCGTGTAACTCACACGGCCTAGACAATGCCCATGTCCTCTGACCGTGTGGTTCTAAAACGTA
46481893 AATAATGAGTTACACA
131 AATAATGAGTTACACA
*
46481909 TCCTAGACACA
1 GCCTAGACACA
46481920 TGCCCGTGTG
Statistics
Matches: 141, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
146 141 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (146 bp):
GCCTAGACACACACCCATGTCCTTGCCCGTGTAACTCACACAGCCTAGACACACGCCCATGTCCT
TGCTCGTGTAACTCACACGGCCTAGACAATGCCCATGTCCTCTGACCGTGTGGTTCTAAAACGTA
AATAATGAGTTACACA
Found at i:46483276 original size:8 final size:9
Alignment explanation
Indices: 46483260--46483303 Score: 56
Period size: 8 Copynumber: 5.0 Consensus size: 9
46483250 TGAAACAATT
46483260 TTCTCTCTC
1 TTCTCTCTC
46483269 TT-TCTCTC
1 TTCTCTCTC
*
46483277 ATGCTCTCTC
1 -TTCTCTCTC
46483287 TTC-CTCTC
1 TTCTCTCTC
46483295 TTCTCTCTC
1 TTCTCTCTC
46483304 CAACTGTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 14 0.47
9 10 0.33
10 6 0.20
ACGTcount: A:0.02, C:0.43, G:0.02, T:0.52
Consensus pattern (9 bp):
TTCTCTCTC
Found at i:46487307 original size:114 final size:113
Alignment explanation
Indices: 46487103--46487655 Score: 644
Period size: 114 Copynumber: 4.9 Consensus size: 113
46487093 AAAATAAAAA
* * * * * * **
46487103 TTAGCAGCATTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTATCAAGCTT
1 TTAGCGGCATTTTTCATAAAGCGCCGCAAAAAAACCTAAGCCAAACGA-GACGTTTTTTGAGCTT
* * *
46487167 TCGGAGATTTAATGGGGTTTTTAAGAAAGCGCCACTAATGCTCAGGGAT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGAT
* *
46487216 TTAGCGGCATTTTTCATAAAGCACCGCAAAAAAACCTAAGGCAAACGATGACGTTTTTTGAGCTT
1 TTAGCGGCATTTTTCATAAAGCGCCGCAAAAAAACCTAAGCCAAACGA-GACGTTTTTTGAGCTT
*
46487281 TCGGGGATTTAGTGGC-TTTTTAAAGAAAGCGCCGCTAATGCTCAGGGAT
65 TCGGGGATTTAGTGGCGTTTTT-AAGAAAGCGCCACTAATGCTCAGGGAT
* * * *
46487330 TTAGCGGCGTTTTTTATAAAGCGCCGCAAAAAAACCTAAGCCAAACGACATTGTTTTTTGAGCTT
1 TTAGCGGCATTTTTCATAAAGCGCCGCAAAAAAACCTAAGCCAAACGAGA-CGTTTTTTGAGCTT
* *
46487395 TCGGGGATTTAGTGACGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGAT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGAT
* * * * ** *
46487444 TTAGCGGCGTTTTTGAGAAAGCGCTGCAAAAAAACCTAAGCCAAACGACGTTGTTTTCTGAGCTT
1 TTAGCGGCATTTTTCATAAAGCGCCGCAAAAAAACCTAAGCCAAACGA-GACGTTTTTTGAGCTT
* * * ** *
46487509 TCGGGGATTTAGCGGCGTTTTTTAGAAAGCGTCACTAATGCTCAAAGCT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGAT
* *** * * *
46487558 TTAGCAGCATTTTTGGGGATA-TGCCGCAAAAAAACCTAAGCCAAACGACACCGTTTTTTGAGCT
1 TTAGCGGCATTTTT-CATAAAGCGCCGCAAAAAAACCTAAGCCAAACGAGA-CGTTTTTTGAGCT
* *
46487622 TTCGGGCATTTAGTGGCGTTTTTGAGAAAGCGCC
64 TTCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCC
46487656 GCAAAAAACC
Statistics
Matches: 383, Mismatches: 50, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
113 29 0.08
114 345 0.90
115 9 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (113 bp):
TTAGCGGCATTTTTCATAAAGCGCCGCAAAAAAACCTAAGCCAAACGAGACGTTTTTTGAGCTTT
CGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGAT
Found at i:46487692 original size:72 final size:73
Alignment explanation
Indices: 46487580--46487726 Score: 215
Period size: 72 Copynumber: 2.0 Consensus size: 73
46487570 TTGGGGATAT
* * **
46487580 GCCGCAAAAAAACCTAAGCCAAACGACACCGTTTTTTGAGCTTTCGGGCATTTAGTGGCGTTTTT
1 GCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCTTTCGGGCATTTAACGGCGTTTTT
46487645 GAGAAAGC
66 GAGAAAGC
* * *
46487653 GCCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAACGGCGTTTTT
1 GCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCTTTCGGGCATTTAACGGCGTTTTT
*
46487717 TAGAAAGC
66 GAGAAAGC
46487725 GC
1 GC
46487727 GGCTAATTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 61 0.92
73 5 0.08
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (73 bp):
GCCGCAAAAAAACCTAAGCCAAACGACACCATTTTCTGAGCTTTCGGGCATTTAACGGCGTTTTT
GAGAAAGC
Found at i:46487786 original size:116 final size:114
Alignment explanation
Indices: 46487625--46488089 Score: 623
Period size: 113 Copynumber: 4.1 Consensus size: 114
46487615 TTGAGCTTTC
* * * * *
46487625 GGGCATTTAGTGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCT
1 GGGC-TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCT
* * *
46487689 GAGCTTTCGGGGATTTAACGGCGTTTTTTAGAAAGCGCGGCTAATTCTCA
65 GAGCTTTCGGGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* * *
46487739 GGGCTTTAG-GGTGTTTTTGGG-AAGTGCCGCAAAAAATAAAAACTAAGCCCAACGGTGCCGTTT
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGC---AAA-AAAAACTAAGCCCAACGGCGCCGTTT
* * *
46487802 TCTGAGCTATCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCA
62 TCTGAGCTTTCGGGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* *
46487855 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCGAACGGCACCGTTTTCTG
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTG
* * *
46487920 AACTTTTGGGGATTTAACGGCATTTTTAA-AAAGCGCCGCTAATGCTCA
66 AGCTTTCGGGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
* * * *
46487968 GGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCTAAAGGCGCCGTTTTCTA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTG
* *
46488033 AGCTTTCGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCA
66 AGCTTTCGGGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
*
46488082 GGGATTTA
1 GGGCTTTA
46488090 AAATAATTTA
Statistics
Matches: 310, Mismatches: 33, Indels: 16
0.86 0.09 0.04
Matches are distributed among these distances:
111 8 0.03
112 10 0.03
113 108 0.35
114 82 0.26
115 5 0.02
116 78 0.25
117 11 0.04
118 8 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCTG
AGCTTTCGGGGATTTAACGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
Done.