Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold79
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: 4189514
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 5041 characters in sequence are not A, C, G, or T
File 23 of 26
Found at i:3269964 original size:2 final size:2
Alignment explanation
Indices: 3269957--3269987 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3269947 CTGATTGCTT
3269957 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3269988 GTGTATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3270367 original size:2 final size:2
Alignment explanation
Indices: 3270362--3270390 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3270352 TATATATATT
3270362 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
3270391 GCACGCCGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3270981 original size:24 final size:24
Alignment explanation
Indices: 3270918--3270990 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
3270908 TGTATTATAA
* *
3270918 TAATATTTTTTATATAAGATAAAAT
1 TAATATATTTTATA-AATATAAAAT
* *
3270943 T-ATATAGTGTAATAAATATAAAAT
1 TAATATA-TTTTATAAATATAAAAT
* *
3270967 TAATATATTTTATAATTAAAAAAT
1 TAATATATTTTATAAATATAAAAT
3270991 AAATCAGAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
24 27 0.71
25 11 0.29
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
TAATATATTTTATAAATATAAAAT
Found at i:3271164 original size:2 final size:2
Alignment explanation
Indices: 3271157--3271198 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3271147 TTCAAAGAAA
3271157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3271199 GTGTGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3271203 original size:2 final size:2
Alignment explanation
Indices: 3271198--3271232 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3271188 TATATATATA
3271198 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
3271233 ATGTTGTCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:3271638 original size:33 final size:33
Alignment explanation
Indices: 3271601--3271664 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
3271591 ATATAGTAGT
3271601 TACAAAAATAGGTTGGTCAACCTATATATCAGG
1 TACAAAAATAGGTTGGTCAACCTATATATCAGG
3271634 TACAAAAATAGGTTGGTCAACCTATATATCA
1 TACAAAAATAGGTTGGTCAACCTATATATCA
3271665 TGAATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (33 bp):
TACAAAAATAGGTTGGTCAACCTATATATCAGG
Found at i:3271763 original size:2 final size:2
Alignment explanation
Indices: 3271756--3271797 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3271746 TTTTGACTTT
3271756 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3271798 CACACACACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3274973 original size:14 final size:14
Alignment explanation
Indices: 3274954--3274983 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3274944 TACTTTGGTT
3274954 CCCTTAGTTTCCTG
1 CCCTTAGTTTCCTG
3274968 CCCTTAGTTTCCTG
1 CCCTTAGTTTCCTG
3274982 CC
1 CC
3274984 TATATATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.40, G:0.13, T:0.40
Consensus pattern (14 bp):
CCCTTAGTTTCCTG
Found at i:3275772 original size:22 final size:22
Alignment explanation
Indices: 3275727--3275768 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3275717 AATGATAAAT
*
3275727 TTTAATTATTTAAATTTGATTA
1 TTTAATTATTTAAATTTAATTA
*
3275749 TTTAATTTTTTAAA-TTAATT
1 TTTAATTATTTAAATTTAATT
3275769 TATTCGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTAATTATTTAAATTTAATTA
Found at i:3275894 original size:23 final size:23
Alignment explanation
Indices: 3275868--3275916 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
3275858 AACATATAGT
* *
3275868 ATAA-ATAAAATTATATCTATATA
1 ATAATATAAAAATATAT-AATATA
*
3275891 ATAATTTAAAAATATATAATATA
1 ATAATATAAAAATATATAATATA
3275914 ATA
1 ATA
3275917 TATCCCTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAATATAAAAATATATAATATA
Found at i:3278787 original size:15 final size:16
Alignment explanation
Indices: 3278760--3278789 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3278750 AAGTAAATTT
3278760 TAATTTATTCTTAATA
1 TAATTTATTCTTAATA
3278776 TAATTT-TTCTTAAT
1 TAATTTATTCTTAAT
3278790 TTGTATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (16 bp):
TAATTTATTCTTAATA
Found at i:3285247 original size:83 final size:82
Alignment explanation
Indices: 3285029--3285325 Score: 326
Period size: 82 Copynumber: 3.6 Consensus size: 82
3285019 TATGTTATAA
* * ** *
3285029 TTTTTATCATAATCATATTTAAAGTATTGTAAATTTATTATAAATTTTGATACATTAATATTTTA
1 TTTTTATCATAATCGTATTTAAAGTATTATAAATTTATTATAAATTTTGATGTATTAATAATTTA
*
3285094 TATTATATAGATTATGT
66 TATTATATAAATTATGT
* * * *
3285111 TTTTCATCTTAATCGTATTT-AAGATGTTATAAATTTATTATAAATTTTAATGTATTAATAATTT
1 TTTTTATCATAATCGTATTTAAAG-TATTATAAATTTATTATAAATTTTGATGTATTAATAATTT
*
3285175 ATATTATATAAATTATATT
65 ATATTATATAAATTAT-GT
* * * *
3285194 TTTTTATCATAATCGTATTTAAAGTATTATATATTTATTATAATTTTTGATGTATTGATAATATA
1 TTTTTATCATAATCGTATTTAAAGTATTATAAATTTATTATAAATTTTGATGTATTAATAATTTA
* **
3285259 TATTAAATAGGTTATGT
66 TATTATATAAATTATGT
* * * * * * *
3285276 TTTTCATTATAATCATAGTTAAAGTGTTATTAATTTTTTATGAATATTTT
1 TTTTTATCATAATCGTATTTAAAGTATTATAAATTTATTAT-AA-ATTTT
3285326 TAAAAATTAC
Statistics
Matches: 178, Mismatches: 32, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
81 3 0.02
82 100 0.56
83 68 0.38
84 7 0.04
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.53
Consensus pattern (82 bp):
TTTTTATCATAATCGTATTTAAAGTATTATAAATTTATTATAAATTTTGATGTATTAATAATTTA
TATTATATAAATTATGT
Found at i:3287960 original size:12 final size:11
Alignment explanation
Indices: 3287937--3288001 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 11
3287927 TTTATAAAAA
3287937 ATTAATTTTAT
1 ATTAATTTTAT
3287948 ATTAATATTTAT
1 ATTAAT-TTTAT
*
3287960 A-TATTTTTAT
1 ATTAATTTTAT
3287970 AATTAAATTTTAAAT
1 -ATT-AATTTT--AT
*
3287985 ATTTATTTTATT
1 ATTAATTTTA-T
3287997 ATTAA
1 ATTAA
3288002 ATAATAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
10 5 0.12
11 11 0.26
12 12 0.28
13 10 0.23
14 3 0.07
15 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTAATTTTAT
Found at i:3287981 original size:23 final size:22
Alignment explanation
Indices: 3287942--3287997 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
3287932 AAAAAATTAA
*
3287942 TTTTATATTAATATTTATATAT
1 TTTTATATTAATATTTAAATAT
3287964 TTTTATAATTAA-ATTTTAAATAT
1 TTTTAT-ATTAATA-TTTAAATAT
*
3287987 TTATTTTATTA
1 TT-TTATATTA
3287998 TTAAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 7 0.24
23 19 0.66
24 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTATATTAATATTTAAATAT
Found at i:3288134 original size:2 final size:2
Alignment explanation
Indices: 3288127--3288154 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3288117 CTATTACTTC
3288127 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
3288155 AACATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:3288163 original size:2 final size:2
Alignment explanation
Indices: 3288158--3288189 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3288148 ACACACAAAC
3288158 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
3288190 CAAAGGATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3290513 original size:143 final size:143
Alignment explanation
Indices: 3290321--3290611 Score: 573
Period size: 143 Copynumber: 2.0 Consensus size: 143
3290311 ACACATATGC
3290321 ATGTCGAATATGAAAAGACGTTAGAACTAAATGACTGCTCGAAATATGACAACATAATGACTTGC
1 ATGTCGAATATGAAAAGACGTTAGAACTAAATGACTGCTCGAAATATGACAACATAATGACTTGC
3290386 AGTTGTATTAGGTTGACAATGGCTATGATACAGAGGGATTATAACAACATAATGACATGCAGTTG
66 AGTTGTATTAGGTTGACAATGGCTATGATACAGAGGGATTATAACAACATAATGACATGCAGTTG
3290451 TATTAGGTTGACT
131 TATTAGGTTGACT
3290464 ATGTCGAATATGAAAAGACGTTAGAACTAAATGACTGCTCGAAATATGACAACATAATGACTTGC
1 ATGTCGAATATGAAAAGACGTTAGAACTAAATGACTGCTCGAAATATGACAACATAATGACTTGC
*
3290529 AGTTGTATTAGGTTGACAATGTCTATGATACAGAGGGATTATAACAACATAATGACATGCAGTTG
66 AGTTGTATTAGGTTGACAATGGCTATGATACAGAGGGATTATAACAACATAATGACATGCAGTTG
3290594 TATTAGGTTGACT
131 TATTAGGTTGACT
3290607 ATGTC
1 ATGTC
3290612 TATGAATCAG
Statistics
Matches: 147, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 147 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (143 bp):
ATGTCGAATATGAAAAGACGTTAGAACTAAATGACTGCTCGAAATATGACAACATAATGACTTGC
AGTTGTATTAGGTTGACAATGGCTATGATACAGAGGGATTATAACAACATAATGACATGCAGTTG
TATTAGGTTGACT
Found at i:3290605 original size:60 final size:60
Alignment explanation
Indices: 3290512--3290628 Score: 200
Period size: 60 Copynumber: 1.9 Consensus size: 60
3290502 TCGAAATATG
*
3290512 ACAACATAATGACTTGCAGTTGTATTAGGTTGACAATGTCTATG-ATACAGAGGGATTATA
1 ACAACATAATGACATGCAGTTGTATTAGGTTGACAATGTCTATGAAT-CAGAGGGATTATA
*
3290572 ACAACATAATGACATGCAGTTGTATTAGGTTGACTATGTCTATGAATCAGAGGGATT
1 ACAACATAATGACATGCAGTTGTATTAGGTTGACAATGTCTATGAATCAGAGGGATT
3290629 TCCCCAATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
60 52 0.96
61 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (60 bp):
ACAACATAATGACATGCAGTTGTATTAGGTTGACAATGTCTATGAATCAGAGGGATTATA
Found at i:3294420 original size:2 final size:2
Alignment explanation
Indices: 3294409--3294451 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
3294399 TCAAGGGGTT
3294409 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3294450 TA
1 TA
3294452 ATTAAACAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3298673 original size:17 final size:18
Alignment explanation
Indices: 3298645--3298682 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
3298635 TCTAAACTCA
3298645 ATCAATACTAAATAAATT
1 ATCAATACTAAATAAATT
3298663 ATCAA-ACTAAATAAATT
1 ATCAATACTAAATAAATT
3298680 ATC
1 ATC
3298683 TGATCTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (18 bp):
ATCAATACTAAATAAATT
Found at i:3299336 original size:20 final size:20
Alignment explanation
Indices: 3299299--3299337 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3299289 ACTTACACAT
* *
3299299 ATATATATTATATTTATTAC
1 ATATATATTAAATATATTAC
*
3299319 ATATTTATTAAATATATTA
1 ATATATATTAAATATATTA
3299338 TTTTTATATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATATTAAATATATTAC
Found at i:3306605 original size:2 final size:2
Alignment explanation
Indices: 3306598--3306631 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3306588 AAATAATCTA
3306598 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
3306632 GGAGGTCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3310669 original size:16 final size:17
Alignment explanation
Indices: 3310629--3310670 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
3310619 ATTAAAATAT
*
3310629 AATATAAATATTTATAT
1 AATATAAATATTTATAC
* *
3310646 ATTTTAAA-ATTTATAC
1 AATATAAATATTTATAC
3310662 AATATAAAT
1 AATATAAAT
3310671 TATTAATATA
Statistics
Matches: 19, Mismatches: 5, Indels: 2
0.73 0.19 0.08
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAAATATTTATAC
Found at i:3310699 original size:33 final size:33
Alignment explanation
Indices: 3310625--3310701 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
3310615 AATAATTAAA
*
3310625 ATATAATATAAATATTTATATATTTTAAAATTT
1 ATATAATATAAATATTTATATATATTAAAATTT
* *
3310658 ATACAATATAAAT-TATTA-ATATATTAAATTTT
1 ATATAATATAAATAT-TTATATATATTAAAATTT
3310690 ATATAAATATAA
1 ATAT-AATATAA
3310702 TAATTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 16 0.42
33 22 0.58
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (33 bp):
ATATAATATAAATATTTATATATATTAAAATTT
Found at i:3312611 original size:12 final size:12
Alignment explanation
Indices: 3312580--3312616 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
3312570 CAAGATGCTT
3312580 GTTGGAAATAAA
1 GTTGGAAATAAA
3312592 GTT-G--ATAAA
1 GTTGGAAATAAA
3312601 GTTGGAAATAAA
1 GTTGGAAATAAA
3312613 GTTG
1 GTTG
3312617 TTGAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 8 0.36
10 1 0.05
11 1 0.05
12 12 0.55
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (12 bp):
GTTGGAAATAAA
Found at i:3314674 original size:32 final size:33
Alignment explanation
Indices: 3314633--3314699 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 33
3314623 ATTTTATATA
3314633 TTTATATAAATTTTAATATATTAA-TAATTTAT
1 TTTATATAAATTTTAATATATTAATTAATTTAT
*
3314665 TTTATATAAATTTTAATATATTAATTATTTTAT
1 TTTATATAAATTTTAATATATTAATTAATTTAT
3314698 TT
1 TT
3314700 GTATTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 24 0.73
33 9 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
TTTATATAAATTTTAATATATTAATTAATTTAT
Found at i:3314696 original size:17 final size:16
Alignment explanation
Indices: 3314642--3314696 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
3314632 ATTTATATAA
3314642 ATTTTAATATATTAAT
1 ATTTTAATATATTAAT
* * *
3314658 AATTTATTTTATATAA-
1 ATTTTAATATAT-TAAT
3314674 ATTTTAATATATTAATT
1 ATTTTAATATATTAA-T
3314691 ATTTTA
1 ATTTTA
3314697 TTTGTATTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 3 0.10
16 18 0.60
17 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTAATATATTAAT
Found at i:3315306 original size:16 final size:15
Alignment explanation
Indices: 3315281--3315320 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
3315271 AATATAAATA
3315281 TAAAATATAATTCTT
1 TAAAATATAATTCTT
*
3315296 TAAATATATAATTTTT
1 TAAA-ATATAATTCTT
3315312 TAAACATAT
1 TAAA-ATAT
3315321 TTATATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAATATAATTCTT
Found at i:3315377 original size:21 final size:21
Alignment explanation
Indices: 3315317--3315377 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
3315307 TTTTTTAAAC
*
3315317 ATATTTATATATGAAATATA-
1 ATATTTATATATAAAATATAT
* *
3315337 AGT-TTTA-A-A-AAATTAAAT
1 A-TATTTATATATAAAATATAT
3315355 ATATTTATATATAAAATATAT
1 ATATTTATATATAAAATATAT
3315376 AT
1 AT
3315378 TTATATTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 11
0.65 0.11 0.24
Matches are distributed among these distances:
17 6 0.20
18 6 0.20
19 2 0.07
20 6 0.20
21 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
ATATTTATATATAAAATATAT
Found at i:3318445 original size:2 final size:2
Alignment explanation
Indices: 3318440--3318466 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3318430 ATGGGTAATC
3318440 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3318467 CATTCTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3319068 original size:2 final size:2
Alignment explanation
Indices: 3319061--3319091 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3319051 TCAGATTGAG
*
3319061 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3319092 AACTTTACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3319227 original size:44 final size:44
Alignment explanation
Indices: 3319151--3319264 Score: 187
Period size: 44 Copynumber: 2.6 Consensus size: 44
3319141 GATTTAAGTT
*
3319151 CAAATTCAAAGA-TCATGTGAAATTTTTCAACATGCTTCTTGC-A
1 CAAATTCAAAGATTCACGTGAAATTTTTCAACATGCTTCTT-CTA
*
3319194 CAAATTCAAAGATTCACGTGAAATTTTTTAACATGCTTCTTCTA
1 CAAATTCAAAGATTCACGTGAAATTTTTCAACATGCTTCTTCTA
3319238 CAAATTCAAAGATTCACGTGAAATTTT
1 CAAATTCAAAGATTCACGTGAAATTTT
3319265 GCTAATAAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
43 13 0.19
44 54 0.81
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (44 bp):
CAAATTCAAAGATTCACGTGAAATTTTTCAACATGCTTCTTCTA
Found at i:3323178 original size:2 final size:2
Alignment explanation
Indices: 3323171--3323197 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3323161 ATAATCGCCG
3323171 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
3323198 GGAGTAACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3323549 original size:27 final size:26
Alignment explanation
Indices: 3323491--3323554 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
3323481 AACGTAAAAA
3323491 ATAATAAAATATAAATATATAAATAT
1 ATAATAAAATATAAATATATAAATAT
* *
3323517 AAAATAAATATATTAATATATTAAA-AT
1 ATAATAAA-ATATAAATATA-TAAATAT
*
3323544 TTAATAAAATA
1 ATAATAAAATA
3323555 ATGCATCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 10 0.31
27 18 0.56
28 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
ATAATAAAATATAAATATATAAATAT
Found at i:3323962 original size:19 final size:17
Alignment explanation
Indices: 3323947--3323995 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
3323937 CATATTTTCC
3323947 TTTTATTTTAATATTTT
1 TTTTATTTTAATATTTT
3323964 TTTTA---TAATATTTTAT
1 TTTTATTTTAATA-TTT-T
3323980 TTTTATTTT-ATATTTT
1 TTTTATTTTAATATTTT
3323996 AAAATAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 11
0.71 0.00 0.29
Matches are distributed among these distances:
14 5 0.19
15 3 0.11
16 7 0.26
17 8 0.30
18 3 0.11
19 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTAATATTTT
Found at i:3323972 original size:14 final size:15
Alignment explanation
Indices: 3323947--3323982 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
3323937 CATATTTTCC
3323947 TTTTA-TTT-TAATA
1 TTTTATTTTATAATA
3323960 TTTT-TTTTATAATA
1 TTTTATTTTATAATA
3323974 TTTTATTTT
1 TTTTATTTT
3323983 TATTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.35
14 9 0.45
15 4 0.20
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTATTTTATAATA
Found at i:3323986 original size:11 final size:12
Alignment explanation
Indices: 3323947--3323996 Score: 54
Period size: 11 Copynumber: 4.4 Consensus size: 12
3323937 CATATTTTCC
3323947 TTTTATTTTAATA
1 TTTTATTTT-ATA
3323960 TTTT-TTTTATA
1 TTTTATTTTATA
*
3323971 --ATATTTTAT-
1 TTTTATTTTATA
3323980 TTTTATTTTATA
1 TTTTATTTTATA
3323992 TTTTA
1 TTTTA
3323997 AAATAATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
9 1 0.03
10 6 0.19
11 11 0.35
12 9 0.29
13 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTATTTTATA
Found at i:3323990 original size:21 final size:22
Alignment explanation
Indices: 3323950--3323991 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
3323940 ATTTTCCTTT
3323950 TATTTTAATATTTTTTTTATAA
1 TATTTTAATATTTTTTTTATAA
3323972 TATTTT-AT-TTTTATTTTATA
1 TATTTTAATATTTT-TTTTATA
3323992 TTTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTTAATATTTTTTTTATAA
Found at i:3323995 original size:28 final size:27
Alignment explanation
Indices: 3323947--3324001 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
3323937 CATATTTTCC
*
3323947 TTTTATTTTAATATTTTTTTTATAATA
1 TTTTATTTTAATATTTTTTTTAAAATA
*
3323974 TTTTATTTTTAT-TTTATATTTTAAAATA
1 TTTTATTTTAATATTT-T-TTTTAAAATA
3324002 ATGATTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 12 0.50
28 9 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTATTTTAATATTTTTTTTAAAATA
Found at i:3324540 original size:11 final size:11
Alignment explanation
Indices: 3324522--3324558 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
3324512 ATGCATATTT
3324522 AATAAATATAA
1 AATAAATATAA
*
3324533 AATTAATAT--
1 AATAAATATAA
3324542 AATAAATATAA
1 AATAAATATAA
3324553 AATAAA
1 AATAAA
3324559 ATATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAAATATAA
Found at i:3324546 original size:20 final size:20
Alignment explanation
Indices: 3324521--3324583 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
3324511 GATGCATATT
3324521 TAATAAATATAAAATTAATA
1 TAATAAATATAAAATTAATA
*
3324541 TAATAAATATAAAA-TAAAA
1 TAATAAATATAAAATTAATA
*
3324560 TATTTAAATAT--AATTAATA
1 TA-ATAAATATAAAATTAATA
3324579 TAATA
1 TAATA
3324584 TATTTTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 21 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAATAAATATAAAATTAATA
Found at i:3324569 original size:24 final size:23
Alignment explanation
Indices: 3324516--3324593 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 23
3324506 AGTATGATGC
*
3324516 ATATTTAATAAATATAAAAT-TA
1 ATATTTAATAAATATAAAATAAA
3324538 ATA--TAATAAATATAAAATAAA
1 ATATTTAATAAATATAAAATAAA
* *
3324559 ATATTTAAATATAAT-TAATATAAT
1 ATATTT-AATA-AATATAAAATAAA
3324583 ATATTTTAATA
1 ATA-TTTAATA
3324594 TATGTATCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 15 0.32
21 4 0.09
22 3 0.06
23 1 0.02
24 18 0.38
25 6 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATATTTAATAAATATAAAATAAA
Found at i:3325515 original size:2 final size:2
Alignment explanation
Indices: 3325508--3325538 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3325498 TTCAATTAAG
3325508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3325539 TGTGGAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3331402 original size:23 final size:23
Alignment explanation
Indices: 3331359--3331417 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
3331349 TAAAATTTAA
* *
3331359 ACAATAATTA-TAATATAATATT
1 ACAATTATTATTATTATAATATT
3331381 ACAATTATTATTATTATAATATT
1 ACAATTATTATTATTATAATATT
* * *
3331404 TCATTTATTTTTAT
1 ACAATTATTATTAT
3331418 CGTTGCATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 9 0.29
23 22 0.71
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (23 bp):
ACAATTATTATTATTATAATATT
Found at i:3341508 original size:13 final size:13
Alignment explanation
Indices: 3341484--3341522 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
3341474 TATATTTATT
3341484 TTAAATAT--ATA
1 TTAAATATAAATA
3341495 TTAAATATAAATA
1 TTAAATATAAATA
*
3341508 TTAAGTATAAATA
1 TTAAATATAAATA
3341521 TT
1 TT
3341523 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
13 17 0.68
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:3341853 original size:34 final size:34
Alignment explanation
Indices: 3341815--3341916 Score: 84
Period size: 34 Copynumber: 3.0 Consensus size: 34
3341805 ATATAAATAT
3341815 AATATAAAAATAATTAAAATATGATA-AATATAAA
1 AATATAAAAATAATTAAAAT-TGATATAATATAAA
* ** *
3341849 AATATAAATATTTTTAAAATTTATATAATAT-AA
1 AATATAAAAATAATTAAAATTGATATAATATAAA
* * ** *
3341882 ATTATTAACGT-ATTAAAATTAATATAAATATAAA
1 AATATAAAAATAATTAAAATTGATAT-AATATAAA
3341916 A
1 A
3341917 TATTTTAAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
32 12 0.22
33 18 0.33
34 25 0.45
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (34 bp):
AATATAAAAATAATTAAAATTGATATAATATAAA
Found at i:3341924 original size:27 final size:28
Alignment explanation
Indices: 3341841--3341930 Score: 67
Period size: 32 Copynumber: 3.0 Consensus size: 28
3341831 AAATATGATA
* *
3341841 AATATAAAAATATAAATATTTTTAAAATT
1 AATATAAATATA-AAATACTTTTAAAATT
* *
3341870 TATAT-AATATAAATTATTAACGTATTAAAATT
1 AATATAAATATAAA--A-T-AC-TTTTAAAATT
3341902 AATATAAATATAAAATA-TTTTAAATATT
1 AATATAAATATAAAATACTTTTAAA-ATT
3341930 A
1 A
3341931 TAATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
27 8 0.17
28 9 0.19
29 6 0.12
30 2 0.04
31 2 0.04
32 13 0.27
33 8 0.17
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
AATATAAATATAAAATACTTTTAAAATT
Found at i:3342469 original size:34 final size:33
Alignment explanation
Indices: 3342431--3342531 Score: 98
Period size: 34 Copynumber: 3.0 Consensus size: 33
3342421 TAATTTGACA
* *
3342431 TAAATTATTATTTAAATAATAAAATTATTTTATT
1 TAAATTATTATTTAAATAATAAAATAATATT-TT
* * *
3342465 TAAATT-TAATTATAAATATTAATAAAAATATTTT
1 TAAATTATTATT-TAAATAATAA-AATAATATTTT
* *
3342499 TAAA-TATTTTTTAAATAATAAAATAAAATTTT
1 TAAATTATTATTTAAATAATAAAATAATATTTT
3342531 T
1 T
3342532 GAATGTCGAG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
32 10 0.19
33 14 0.26
34 24 0.44
35 6 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (33 bp):
TAAATTATTATTTAAATAATAAAATAATATTTT
Found at i:3343035 original size:20 final size:22
Alignment explanation
Indices: 3343010--3343051 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3343000 AAATTTGAAG
3343010 ATTTAA-TTTTTT-AATTTTTA
1 ATTTAATTTTTTTCAATTTTTA
3343030 ATTTAATTTTTTTCAATTTTTA
1 ATTTAATTTTTTTCAATTTTTA
3343052 CATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
21 6 0.30
22 8 0.40
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTAATTTTTTTCAATTTTTA
Found at i:3343058 original size:2 final size:2
Alignment explanation
Indices: 3343053--3343082 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3343043 CAATTTTTAC
*
3343053 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3343083 TTGAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3343151 original size:19 final size:19
Alignment explanation
Indices: 3343110--3343165 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
3343100 CTATGTGGGT
* * **
3343110 AAAAAATGATATTTTTTTT
1 AAAAAATAATATATTTTAA
3343129 AAAAAATAATATATTTTAA
1 AAAAAATAATATATTTTAA
3343148 AAAATAATTAAT-TATTTT
1 AAAA-AA-TAATATATTTT
3343166 TAATAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 19 0.61
20 8 0.26
21 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
AAAAAATAATATATTTTAA
Found at i:3343159 original size:21 final size:21
Alignment explanation
Indices: 3343124--3343174 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 21
3343114 AATGATATTT
3343124 TTTTTAAAAAATAA-T-A-TA
1 TTTTTAAAAAATAATTAATTA
3343142 -TTTTAAAAAATAATTAATTA
1 TTTTTAAAAAATAATTAATTA
*
3343162 TTTTTAATAAATA
1 TTTTTAAAAAATA
3343175 TACTTGATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 1 0.04
20 2 0.07
21 11 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTTAAAAAATAATTAATTA
Found at i:3344135 original size:22 final size:21
Alignment explanation
Indices: 3344110--3344194 Score: 63
Period size: 22 Copynumber: 4.1 Consensus size: 21
3344100 TTAAAATTAA
3344110 ATAATATTAAATATGATATAAT
1 ATAATATTAAATAT-ATATAAT
*
3344132 ATAATAAT-AATA-AT-TAATT
1 ATAATATTAAATATATATAA-T
* * * *
3344151 AAAATATTATATAAAATATATT
1 ATAATATTAAAT-ATATATAAT
3344173 ATAATA-TAAATATATA-AAT
1 ATAATATTAAATATATATAAT
3344192 ATA
1 ATA
3344195 TCAAAATTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
18 3 0.06
19 14 0.29
20 6 0.12
21 9 0.18
22 15 0.31
23 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (21 bp):
ATAATATTAAATATATATAAT
Found at i:3344183 original size:28 final size:28
Alignment explanation
Indices: 3344152--3344251 Score: 68
Period size: 28 Copynumber: 3.5 Consensus size: 28
3344142 TAATTAATTA
3344152 AAATATTATATAAAATATATTATAATAT
1 AAATATTATATAAAATATATTATAATAT
*
3344180 AAATATATAAATATATCAAA-ATTTTTATAAATAT
1 AAATAT-T--ATATA--AAATA-TATTAT-AATAT
*
3344214 ATAATATT-TTTAAAATA-ATTAT-A-AT
1 A-AATATTATATAAAATATATTATAATAT
3344239 AAA-ATTATATAAA
1 AAATATTATATAAA
3344252 TATTATATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 24
0.67 0.05 0.28
Matches are distributed among these distances:
23 3 0.05
24 7 0.12
25 3 0.05
26 1 0.02
28 10 0.17
29 4 0.07
30 1 0.02
31 8 0.14
32 1 0.02
33 8 0.14
34 7 0.12
35 5 0.09
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
AAATATTATATAAAATATATTATAATAT
Found at i:3344194 original size:14 final size:16
Alignment explanation
Indices: 3344084--3344187 Score: 61
Period size: 15 Copynumber: 7.1 Consensus size: 16
3344074 TAAGTGTTAA
* *
3344084 ATTATAAAAAAAAT-T
1 ATTATAATATAAATAT
*
3344099 ATTAAAAT-TAAATAAT
1 ATTATAATATAAAT-AT
*
3344115 ATTA-AATAT-GATAT
1 ATTATAATATAAATAT
*
3344129 AATATAATA-ATAATA-
1 ATTATAATATA-AATAT
3344144 A-T-TAAT-TAAA-AT
1 ATTATAATATAAATAT
3344156 ATTAT-ATA-AAATAT
1 ATTATAATATAAATAT
3344170 ATTATAATATAAATAT
1 ATTATAATATAAATAT
3344186 AT
1 AT
3344188 AAATATATCA
Statistics
Matches: 69, Mismatches: 6, Indels: 27
0.68 0.06 0.26
Matches are distributed among these distances:
11 1 0.01
12 3 0.04
13 11 0.16
14 18 0.26
15 19 0.28
16 17 0.25
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (16 bp):
ATTATAATATAAATAT
Found at i:3344201 original size:46 final size:44
Alignment explanation
Indices: 3344113--3344269 Score: 107
Period size: 46 Copynumber: 3.6 Consensus size: 44
3344103 AAATTAAATA
* * *
3344113 ATATTAAATATGATATAATATAATAATAATAATTAATTAAAATATT
1 ATATAAAATAT-ATATAATATAATAATAATAAATAATCAAAAT-TT
3344159 ATATAAAATATATTATAATAT-A-AATATATAAATATATCAAAATTT
1 ATATAAAATATA-TATAATATAATAATA-ATAAATA-ATCAAAATTT
* * * *
3344204 TTAT-AAATATATAATATTTTTAA-AATAAT-TATAAT-AAAA-TT
1 ATATAAAATATAT-ATA-ATATAATAATAATAAATAATCAAAATTT
3344245 ATAT-AAATATTATATAA-ATACATAA
1 ATATAAAATA-TATATAATATA-ATAA
3344270 ATTTTACGGT
Statistics
Matches: 92, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 15 0.16
42 7 0.08
43 3 0.03
44 17 0.18
45 17 0.18
46 30 0.33
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (44 bp):
ATATAAAATATATATAATATAATAATAATAAATAATCAAAATTT
Found at i:3344208 original size:22 final size:20
Alignment explanation
Indices: 3344183--3344254 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
3344173 ATAATATAAA
3344183 TATATAAATATATCAAAATTT
1 TATATAAATATAT-AAAATTT
*
3344204 T-TATAAATATATAATATTT
1 TATATAAATATATAAAATTT
**
3344223 T-TA-AAATAATTATAATAAAAT
1 TATATAAAT-A-TATAA-AATTT
3344244 TATATAAATAT
1 TATATAAATAT
3344255 TATATAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 4 0.10
19 10 0.24
20 16 0.38
21 5 0.12
22 3 0.07
23 4 0.10
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (20 bp):
TATATAAATATATAAAATTT
Found at i:3344239 original size:20 final size:19
Alignment explanation
Indices: 3344185--3344230 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
3344175 AATATAAATA
*
3344185 TATAAATATATCAAAATTTT
1 TATAAATATAT-AATATTTT
3344205 TATAAATATATAATATTTT
1 TATAAATATATAATATTTT
3344224 TA-AAATA
1 TATAAATA
3344231 ATTATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.20
19 9 0.36
20 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TATAAATATATAATATTTT
Found at i:3344263 original size:11 final size:11
Alignment explanation
Indices: 3344152--3344264 Score: 64
Period size: 11 Copynumber: 10.5 Consensus size: 11
3344142 TAATTAATTA
3344152 AAATATTATAT
1 AAATATTATAT
3344163 AAA-ATATATTAT
1 AAATAT-TA-TAT
*
3344175 AATATAAATATAT
1 AA-AT-ATTATAT
3344188 AAATA-TATCA-
1 AAATATTAT-AT
*
3344198 AAAT-TTTTAT
1 AAATATTATAT
3344208 AAATA-TATA-
1 AAATATTATAT
* *
3344217 ATAT-TTTTA-
1 AAATATTATAT
3344226 AAATAATTATAAT
1 AAAT-ATTAT-AT
3344239 AAA-ATTATAT
1 AAATATTATAT
3344249 AAATATTATAT
1 AAATATTATAT
3344260 AAATA
1 AAATA
3344265 CATAAATTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 30
0.68 0.06 0.26
Matches are distributed among these distances:
9 10 0.12
10 23 0.29
11 27 0.34
12 8 0.10
13 9 0.11
14 2 0.03
15 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATATTATAT
Found at i:3345515 original size:13 final size:12
Alignment explanation
Indices: 3345494--3345523 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
3345484 GACACTTGAA
3345494 TTTTTTTTTTAT
1 TTTTTTTTTTAT
3345506 TTTTTATTTTTAT
1 TTTTT-TTTTTAT
3345519 TTTTT
1 TTTTT
3345524 GCCTTTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTAT
Found at i:3346220 original size:25 final size:24
Alignment explanation
Indices: 3346174--3346220 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
3346164 TTCTCTAAAA
*
3346174 TATTTATTTGTAATATATATATCT
1 TATTTATTTGTAATATAAATATCT
3346198 TATTTATATT-TAGATATAAATAT
1 TATTTAT-TTGTA-ATATAAATAT
3346221 AAAATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
TATTTATTTGTAATATAAATATCT
Found at i:3349502 original size:13 final size:14
Alignment explanation
Indices: 3349484--3349519 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
3349474 TTTCTTAAAT
3349484 ATTTAAAA-TATAA
1 ATTTAAAAGTATAA
3349497 ATTTAAAAGTATAA
1 ATTTAAAAGTATAA
3349511 ATCTTAAAA
1 AT-TTAAAA
3349520 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 7 0.33
15 6 0.29
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
ATTTAAAAGTATAA
Found at i:3349975 original size:2 final size:2
Alignment explanation
Indices: 3349963--3350005 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
3349953 TTCATTCATC
* *
3349963 AT AT AT GT AT AT AT AT GT 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
3350005 A
1 A
3350006 AACAAAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3353233 original size:2 final size:2
Alignment explanation
Indices: 3353226--3353284 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
3353216 CAAATTTAAA
3353226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3353268 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
3353285 ACCCAAAGAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3355893 original size:13 final size:12
Alignment explanation
Indices: 3355851--3355894 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
3355841 TTATATTTAT
3355851 ATTTAAATATAA
1 ATTTAAATATAA
*
3355863 A-TTAAATATTA
1 ATTTAAATATAA
3355874 ATATTAAATATAAA
1 AT-TTAAATAT-AA
3355888 ATTTAAA
1 ATTTAAA
3355895 AAATAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 10 0.37
12 1 0.04
13 13 0.48
14 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATTTAAATATAA
Found at i:3355919 original size:20 final size:21
Alignment explanation
Indices: 3355873--3355919 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
3355863 ATTAAATATT
* * *
3355873 AATATTAAATATAAAATTTAA
1 AATAATAAATATAAAAATCAA
3355894 AA-AATAAATA-AAAAATCAA
1 AATAATAAATATAAAAATCAA
3355913 AATAATA
1 AATAATA
3355920 CAACTAGTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 9 0.41
20 11 0.50
21 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAATAAATATAAAAATCAA
Found at i:3366088 original size:20 final size:18
Alignment explanation
Indices: 3366046--3366091 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
3366036 TTTCAATCAT
*
3366046 ATAAATATATATAATTTA
1 ATAAATATATATAATGTA
3366064 ATAAATATATAATATATGTA
1 ATAAATATAT-ATA-ATGTA
*
3366084 TTAAATAT
1 ATAAATAT
3366092 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.42
19 3 0.12
20 11 0.46
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAAATATATATAATGTA
Found at i:3366349 original size:21 final size:20
Alignment explanation
Indices: 3366325--3366368 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3366315 ATATTTTATA
3366325 ATTAAATTTAAATAAAAATAT
1 ATTAAATTTAAATAAAAAT-T
* *
3366346 ATT-ATTTTAATTAAAAATT
1 ATTAAATTTAAATAAAAATT
3366365 ATTA
1 ATTA
3366369 TTTCAAATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAATTTAAATAAAAATT
Found at i:3366360 original size:20 final size:19
Alignment explanation
Indices: 3366331--3366376 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
3366321 TATAATTAAA
3366331 TTTAAATAAAAATATATTAT
1 TTTAAATAAAAAT-TATTAT
*
3366351 TTTAATTAAAAATTATTAT
1 TTTAAATAAAAATTATTAT
*
3366370 TTCAAAT
1 TTTAAAT
3366377 CGAATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAAATAAAAATTATTAT
Found at i:3366919 original size:20 final size:20
Alignment explanation
Indices: 3366894--3366931 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3366884 GCTATTGTTT
3366894 TTGTCTGATGTTCGCTAATC
1 TTGTCTGATGTTCGCTAATC
3366914 TTGTCTGATGTTCGCTAA
1 TTGTCTGATGTTCGCTAA
3366932 GCATAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (20 bp):
TTGTCTGATGTTCGCTAATC
Found at i:3367553 original size:4 final size:4
Alignment explanation
Indices: 3367539--3367572 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
3367529 ACAAAGTTCC
*
3367539 AAAG TAAG AAAG AAAG AAAG AAAG AAAG ATAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A-AAG A
3367573 GCAATCCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.06
Consensus pattern (4 bp):
AAAG
Found at i:3369472 original size:3 final size:3
Alignment explanation
Indices: 3369464--3369492 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3369454 CAATGCACTG
3369464 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3369493 GTAACCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3382899 original size:33 final size:35
Alignment explanation
Indices: 3382862--3382930 Score: 106
Period size: 33 Copynumber: 2.0 Consensus size: 35
3382852 TTTCACTATT
*
3382862 TATTATGTTATAAAAA-TATTATTTTTA-TATTAA
1 TATTATGTAATAAAAATTATTATTTTTATTATTAA
3382895 TATTATGTAATAAAAATTTATTATTTTTATTATTAA
1 TATTATGTAATAAAAA-TTATTATTTTTATTATTAA
3382931 ATAGTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 15 0.47
35 11 0.34
36 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (35 bp):
TATTATGTAATAAAAATTATTATTTTTATTATTAA
Found at i:3383582 original size:18 final size:18
Alignment explanation
Indices: 3383559--3383670 Score: 70
Period size: 15 Copynumber: 6.9 Consensus size: 18
3383549 CTGTGTATTT
* *
3383559 ATATTATTTTTTTATATA
1 ATATTATATATTTATATA
3383577 ATATTATATATTTATATA
1 ATATTATATATTTATATA
* *
3383595 A-ATTTTA-ATATAT-TA
1 ATATTATATATTTATATA
*
3383610 AT-TTAT-TATTTA-AAA
1 ATATTATATATTTATATA
3383625 ATATT-TATA--TAT-TA
1 ATATTATATATTTATATA
*
3383639 ATATTATAT-TTT-TATT
1 ATATTATATATTTATATA
*
3383655 ATATT-TATAATTATAT
1 ATATTATATATTTATAT
3383671 TTAAGTTGTG
Statistics
Matches: 72, Mismatches: 10, Indels: 25
0.67 0.09 0.23
Matches are distributed among these distances:
14 8 0.11
15 21 0.29
16 18 0.25
17 8 0.11
18 17 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTATATATTTATATA
Found at i:3383592 original size:31 final size:32
Alignment explanation
Indices: 3383554--3383653 Score: 109
Period size: 31 Copynumber: 3.2 Consensus size: 32
3383544 GCAATCTGTG
* *
3383554 TATTTATATTATTTTTTTATA-TAATATTATA
1 TATTTATATAATTTTTATATATTAATATTATA
*
3383585 TATTTATATAAATTTTAATATATTAAT-TTAT-
1 TATTTATAT-AATTTTTATATATTAATATTATA
* *
3383616 TATTTA-AAAATATTTATATATTAATATTATA
1 TATTTATATAATTTTTATATATTAATATTATA
*
3383647 TTTTTAT
1 TATTTAT
3383654 TATATTTATA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
29 15 0.26
30 5 0.09
31 20 0.35
32 13 0.23
33 4 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTTATATAATTTTTATATATTAATATTATA
Found at i:3383648 original size:11 final size:11
Alignment explanation
Indices: 3383632--3383673 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
3383622 AAAATATTTA
*
3383632 TATATTAATAT
1 TATATTTATAT
*
3383643 TATATTTTTAT
1 TATATTTATAT
3383654 TATATTTATAAT
1 TATATTTAT-AT
3383666 TATATTTA
1 TATATTTA
3383674 AGTTGTGTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTTATAT
Found at i:3383671 original size:17 final size:17
Alignment explanation
Indices: 3383570--3383671 Score: 53
Period size: 17 Copynumber: 6.4 Consensus size: 17
3383560 TATTATTTTT
3383570 TTATA-TAATATTATATA
1 TTATATTAATATTATA-A
*
3383587 TT-TATATAA-ATTTTAA
1 TTATAT-TAATATTATAA
*
3383603 -TATATTAAT-TTATTA
1 TTATATTAATATTATAA
**
3383618 TT-TAAAAATATT-T-A
1 TTATATTAATATTATAA
*
3383632 -TATATTAATATTATAT
1 TTATATTAATATTATAA
*
3383648 TTTTATT-ATATTTATAA
1 TTATATTAATA-TTATAA
3383665 TTATATT
1 TTATATT
3383672 TAAGTTGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 22
0.66 0.11 0.23
Matches are distributed among these distances:
13 1 0.02
14 9 0.14
15 15 0.24
16 12 0.19
17 23 0.37
18 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATTAATATTATAA
Found at i:3384488 original size:17 final size:17
Alignment explanation
Indices: 3384466--3384510 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
3384456 AATTTAAAAT
3384466 ATTTTATAT-TTATATAA
1 ATTTTATATATTA-ATAA
3384483 ATTTTAATATATTAATAA
1 ATTTT-ATATATTAATAA
*
3384501 TTTTTATATA
1 ATTTTATATA
3384511 AATTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 12 0.48
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTATATATTAATAA
Found at i:3384488 original size:27 final size:27
Alignment explanation
Indices: 3384436--3384514 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 27
3384426 TTTATTTATT
3384436 TATTTTATAATATTATATAGAA-TTTAAAA
1 TATTTTAT-AT-TTATATA-AATTTTAAAA
*
3384465 TATTTTATATTTATATAAATTTTAATA
1 TATTTTATATTTATATAAATTTTAAAA
* *
3384492 TATTAATAATTTTTATATAAATT
1 TATT--TTATATTTATATAAATT
3384515 AAAAAATTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.05
27 17 0.39
28 2 0.05
29 23 0.52
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
TATTTTATATTTATATAAATTTTAAAA
Found at i:3396346 original size:23 final size:22
Alignment explanation
Indices: 3396304--3396350 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
3396294 TCATAAATGT
*
3396304 TAAAATAAATTTATTAATTATA
1 TAAAATAAATTTAATAATTATA
3396326 TAAAA-AAATATTAATATATTATA
1 TAAAATAAAT-TTAATA-ATTATA
3396349 TA
1 TA
3396351 TATTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 10 0.45
23 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAAATAAATTTAATAATTATA
Found at i:3396376 original size:17 final size:16
Alignment explanation
Indices: 3396331--3396377 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
3396321 TTATATAAAA
3396331 AAATAT-TAATATATT
1 AAATATATAATATATT
* *
3396346 ATATATAT-TTATATT
1 AAATATATAATATATT
3396361 AAATATATAATCATATT
1 AAATATATAAT-ATATT
3396378 TAAAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 18 0.72
16 2 0.08
17 5 0.20
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATATATAATATATT
Found at i:3397737 original size:17 final size:15
Alignment explanation
Indices: 3397693--3397743 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 15
3397683 ATTCATAAGT
*
3397693 AAATTTATATTTTATA
1 AAATTTA-ATTTTTTA
3397709 AAATTTAATTTTTTA
1 AAATTTAATTTTTTA
3397724 AATATTTAATTTTTTTA
1 AA-ATTTAA-TTTTTTA
3397741 AAA
1 AAA
3397744 AAGTAATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 9 0.28
16 14 0.44
17 9 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATTTAATTTTTTA
Found at i:3399676 original size:14 final size:14
Alignment explanation
Indices: 3399643--3399676 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
3399633 ATTTTGAAAG
*
3399643 ATATATTTAAAAAA
1 ATATAATTAAAAAA
3399657 AT-TAATTAAAAAA
1 ATATAATTAAAAAA
3399670 ATATAAT
1 ATATAAT
3399677 ACGTGACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATAATTAAAAAA
Found at i:3400809 original size:14 final size:14
Alignment explanation
Indices: 3400790--3400820 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3400780 ATTTTTAAAA
3400790 TATTATATTATATT
1 TATTATATTATATT
*
3400804 TATTATATTATTTT
1 TATTATATTATATT
3400818 TAT
1 TAT
3400821 ATTTATTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATTATATT
Found at i:3400836 original size:20 final size:20
Alignment explanation
Indices: 3400797--3400836 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3400787 AAATATTATA
**
3400797 TTATATTTATTATATTATTT
1 TTATATTTATTATAGAATTT
*
3400817 TTATATTTATTATCGAATTT
1 TTATATTTATTATAGAATTT
3400837 AATATCACGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (20 bp):
TTATATTTATTATAGAATTT
Found at i:3402584 original size:21 final size:20
Alignment explanation
Indices: 3402558--3402610 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
3402548 TATATTTAAA
3402558 TTTAAAATTTAATTTAATTTT
1 TTTAAAATTTAA-TTAATTTT
* *
3402579 TTTAAATAATTAATTGATTTT
1 TTTAAA-ATTTAATTAATTTT
*
3402600 ATT-AAATTTAA
1 TTTAAAATTTAA
3402611 AATTCGAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.19
20 2 0.07
21 15 0.56
22 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAAATTTAATTAATTTT
Found at i:3402686 original size:2 final size:2
Alignment explanation
Indices: 3402673--3402714 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
3402663 TTGTTCCAAA
*
3402673 AT AT AC 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
3402715 TCCTACATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3403266 original size:14 final size:13
Alignment explanation
Indices: 3403234--3403282 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
3403224 TAAATAATAA
3403234 AAATATTTTATTT
1 AAATATTTTATTT
3403247 -AA-ATTTTATTAT
1 AAATATTTTATT-T
3403259 AAATATTTT-TTT
1 AAATATTTTATTT
3403271 AATATTATTTTA
1 AA-A-TATTTTA
3403283 AACAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
11 8 0.27
12 6 0.20
13 5 0.17
14 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
AAATATTTTATTT
Found at i:3403274 original size:11 final size:12
Alignment explanation
Indices: 3403235--3403276 Score: 52
Period size: 11 Copynumber: 3.5 Consensus size: 12
3403225 AAATAATAAA
3403235 AATATTTTATTT
1 AATATTTTATTT
3403247 AA-ATTTTATTAT
1 AATATTTTATT-T
3403259 AAATATTTT-TTT
1 -AATATTTTATTT
3403271 AATATT
1 AATATT
3403277 ATTTTAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 14 0.52
12 4 0.15
13 4 0.15
14 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AATATTTTATTT
Found at i:3403284 original size:23 final size:25
Alignment explanation
Indices: 3403219--3403284 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 25
3403209 ATTTAAATTA
*
3403219 TTATTTAAATA--A-TAAAAATATT
1 TTATTTAAATATTATTATAAATATT
*
3403241 TTATTTAAATTTTATTATAAATATT
1 TTATTTAAATATTATTATAAATATT
*
3403266 TT-TTT-AATATTATTTTAAA
1 TTATTTAAATATTATTATAAA
3403285 CAATAAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 10 0.27
23 12 0.32
24 4 0.11
25 11 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATTTAAATATTATTATAAATATT
Found at i:3403819 original size:34 final size:34
Alignment explanation
Indices: 3403780--3403896 Score: 86
Period size: 34 Copynumber: 3.5 Consensus size: 34
3403770 TTTAAAATTT
3403780 TTTAAATTTTTTATTTAAATTTAAATAAATTAAA
1 TTTAAATTTTTTATTTAAATTTAAATAAATTAAA
* * * *
3403814 TTTAAA-ATTTAAATTATTATTTAAATATAA-T-AA
1 TTTAAATTTTTTATTTA-AATTTAAATA-AATTAAA
* **
3403847 -TT-AATTTTTT-TTAAATATTTTTAT-AATTAAA
1 TTTAAATTTTTTATTTAA-ATTTAAATAAATTAAA
3403878 TTTAAATTTTATTATTTAA
1 TTTAAATTTT-TTATTTAA
3403897 TATATTTTAG
Statistics
Matches: 61, Mismatches: 12, Indels: 19
0.66 0.13 0.21
Matches are distributed among these distances:
29 2 0.03
30 1 0.02
31 12 0.20
32 7 0.11
33 15 0.25
34 18 0.30
35 6 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
TTTAAATTTTTTATTTAAATTTAAATAAATTAAA
Found at i:3404181 original size:18 final size:19
Alignment explanation
Indices: 3404158--3404199 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
3404148 GAGACAATTA
3404158 AAAATTTATT-T-TTTATTT
1 AAAATTTATTATCTTT-TTT
3404176 AAAATTTATTATCTTTTTT
1 AAAATTTATTATCTTTTTT
3404195 AAAAT
1 AAAAT
3404200 AAAAATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.45
19 9 0.41
20 3 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
AAAATTTATTATCTTTTTT
Found at i:3405326 original size:2 final size:2
Alignment explanation
Indices: 3405319--3405347 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3405309 ATGTCAAATT
3405319 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3405348 GACCTTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3406278 original size:2 final size:2
Alignment explanation
Indices: 3406273--3406306 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3406263 AGAGAGATGG
*
3406273 AT AT AT AA 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
3406307 TGCCAGAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3407494 original size:2 final size:2
Alignment explanation
Indices: 3407489--3407515 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3407479 TACATGTGTG
3407489 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3407516 GCGCGTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3415432 original size:22 final size:20
Alignment explanation
Indices: 3415399--3415449 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
3415389 TTTTTTATGA
*
3415399 ATAAAAAT-TAAATTTTAATT
1 ATAAAAATATAAATATTAA-T
3415419 ATAAAATATATAAATATTAAT
1 ATAAAA-ATATAAATATTAAT
3415440 ATAAAAATAT
1 ATAAAAATAT
3415450 TTTTTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.36
21 9 0.32
22 9 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAAAATATAAATATTAAT
Found at i:3415511 original size:18 final size:18
Alignment explanation
Indices: 3415490--3415530 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
3415480 ATCAATTAAA
3415490 TTAAATTAAATTAAAATT
1 TTAAATTAAATTAAAATT
*
3415508 TTAAA-TAAATTTAAATT
1 TTAAATTAAATTAAAATT
3415525 TTAAAT
1 TTAAAT
3415531 CAACTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAATTAAATTAAAATT
Found at i:3423243 original size:2 final size:2
Alignment explanation
Indices: 3423236--3423269 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3423226 TAATTATCCA
3423236 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
3423270 TAAATGCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3428813 original size:2 final size:2
Alignment explanation
Indices: 3428806--3428855 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
3428796 TTAATCTTTC
*
3428806 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3428848 CT CT CT CT
1 CT CT CT CT
3428856 ATATATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3429254 original size:8 final size:9
Alignment explanation
Indices: 3429235--3429322 Score: 58
Period size: 8 Copynumber: 9.8 Consensus size: 9
3429225 ATATAACATC
*
3429235 AATATTTAA
1 AATATATAA
3429244 AATA-ATAA
1 AATATATAA
3429252 AATATAT-A
1 AATATATAA
3429260 AATATATTAA
1 AATATA-TAA
* *
3429270 TATTTATATA
1 AATATATA-A
* *
3429280 ATTATAATATC
1 AATAT-ATA-A
*
3429291 AATATTTAA
1 AATATATAA
3429300 AATA-ATAA
1 AATATATAA
3429308 AATATAT-A
1 AATATATAA
3429316 AATATAT
1 AATATAT
3429323 TAATATTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
8 29 0.47
9 15 0.24
10 10 0.16
11 8 0.13
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (9 bp):
AATATATAA
Found at i:3429309 original size:56 final size:56
Alignment explanation
Indices: 3429226--3429345 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
3429216 AAAATTAAAA
*
3429226 TATAACATCAATATTTAAAATAATAAAATATATAAATATATTAATATTTATATAAT
1 TATAATATCAATATTTAAAATAATAAAATATATAAATATATTAATATTTATATAAT
3429282 TATAATATCAATATTTAAAATAATAAAATATATAAATATATTAATATTTATATAAT
1 TATAATATCAATATTTAAAATAATAAAATATATAAATATATTAATATTTATATAAT
3429338 TATAATAT
1 TATAATAT
3429346 AAAAAATAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (56 bp):
TATAATATCAATATTTAAAATAATAAAATATATAAATATATTAATATTTATATAAT
Found at i:3429572 original size:2 final size:2
Alignment explanation
Indices: 3429565--3429593 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3429555 GCTGTCGCTA
3429565 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3429594 GTCCATCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3430392 original size:2 final size:2
Alignment explanation
Indices: 3430387--3430423 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
3430377 AAAAAATTCC
*
3430387 AT AT AT AT AC AT AT AT AT AT AT AT AT -T 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
3430424 TGTTATCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3434850 original size:19 final size:19
Alignment explanation
Indices: 3434826--3434888 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
3434816 AGGTTATTAA
3434826 AATATAATAAAATATTATT
1 AATATAATAAAATATTATT
*
3434845 AATATATTAAAAT-TTATAT
1 AATATAATAAAATATTAT-T
*
3434864 AA-AT-ATATAATATT-TT
1 AATATAATAAAATATTATT
3434880 AAATATAAT
1 -AATATAAT
3434889 TATAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
16 1 0.03
17 8 0.22
18 10 0.28
19 17 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATATAATAAAATATTATT
Found at i:3434894 original size:6 final size:5
Alignment explanation
Indices: 3434826--3434926 Score: 63
Period size: 5 Copynumber: 21.2 Consensus size: 5
3434816 AGGTTATTAA
* * * * *
3434826 AATAT AATAA AATAT TAT-T AATAT ATTAA AAT-T TATAT AA-AT -ATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
** *
3434872 AATAT TTTA- AATAT AATTAT AATAT AA-AT -ATAT AATAT AAAAT AATAT
1 AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AATAT AATAT
3434920 AAATAT A
1 -AATAT A
3434927 CGAATTTTAA
Statistics
Matches: 71, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
3 2 0.03
4 15 0.21
5 44 0.62
6 10 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AATAT
Found at i:3434919 original size:23 final size:24
Alignment explanation
Indices: 3434881--3434926 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
3434871 TAATATTTTA
*
3434881 AATATAATTATAATATAAATATAT
1 AATATAATAATAATATAAATATAT
3434905 AATATAA-AATAATATAAATATA
1 AATATAATAATAATATAAATATA
3434927 CGAATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AATATAATAATAATATAAATATAT
Found at i:3435527 original size:22 final size:22
Alignment explanation
Indices: 3435492--3435533 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
3435482 ATATTTTATT
3435492 TAAAATTAATTATAAAAATATA
1 TAAAATTAATTATAAAAATATA
3435514 TAAATATTAA-TATAAAAATA
1 TAAA-ATTAATTATAAAAATA
3435534 ATTTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAATTAATTATAAAAATATA
Found at i:3435819 original size:20 final size:19
Alignment explanation
Indices: 3435789--3435829 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
3435779 TAAGTTATAT
3435789 ATTTAAAATAAAAAAATAA
1 ATTTAAAATAAAAAAATAA
*
3435808 ATTTATAAATAAATAAATAA
1 ATTTA-AAATAAAAAAATAA
3435828 AT
1 AT
3435830 AAAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTTAAAATAAAAAAATAA
Found at i:3435854 original size:4 final size:4
Alignment explanation
Indices: 3435794--3435832 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
3435784 TATATATTTA
* **
3435794 AAAT AAAA AAAT AAAT TTAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
3435833 ATTTTATTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:3435876 original size:29 final size:29
Alignment explanation
Indices: 3435816--3435889 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 29
3435806 AAATTTATAA
3435816 ATAAATAAATAAATAAAATTTTATTTAGAT
1 ATAAATAAA-AAATAAAATTTTATTTAGAT
3435846 ATAAATAAAAAATAAAGA-TTTACTTTA-AT
1 ATAAATAAAAAATAAA-ATTTTA-TTTAGAT
3435875 AT-AATAAAAATATAA
1 ATAAATAAAAA-ATAA
3435890 TTAAAAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
28 8 0.20
29 19 0.46
30 14 0.34
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (29 bp):
ATAAATAAAAAATAAAATTTTATTTAGAT
Found at i:3442773 original size:2 final size:2
Alignment explanation
Indices: 3442761--3442792 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
3442751 ACTCAATCCA
3442761 TG TG CTG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG -TG TG TG TG TG TG TG TG TG TG TG TG TG T
3442793 AACCACTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.00, C:0.03, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:3442891 original size:94 final size:94
Alignment explanation
Indices: 3442774--3442962 Score: 378
Period size: 94 Copynumber: 2.0 Consensus size: 94
3442764 GCTGTGTGTG
3442774 TGTGTGTGTGTGTGTGTGTAACCACTATCTGTCCTAGAAACAGCCAGGGTTTGTAGGCAGAGAAA
1 TGTGTGTGTGTGTGTGTGTAACCACTATCTGTCCTAGAAACAGCCAGGGTTTGTAGGCAGAGAAA
3442839 GAGGCAACCACTACCTCTAGAAATGTTGC
66 GAGGCAACCACTACCTCTAGAAATGTTGC
3442868 TGTGTGTGTGTGTGTGTGTAACCACTATCTGTCCTAGAAACAGCCAGGGTTTGTAGGCAGAGAAA
1 TGTGTGTGTGTGTGTGTGTAACCACTATCTGTCCTAGAAACAGCCAGGGTTTGTAGGCAGAGAAA
3442933 GAGGCAACCACTACCTCTAGAAATGTTGC
66 GAGGCAACCACTACCTCTAGAAATGTTGC
3442962 T
1 T
3442963 TCAACCACAT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (94 bp):
TGTGTGTGTGTGTGTGTGTAACCACTATCTGTCCTAGAAACAGCCAGGGTTTGTAGGCAGAGAAA
GAGGCAACCACTACCTCTAGAAATGTTGC
Found at i:3443997 original size:9 final size:10
Alignment explanation
Indices: 3443972--3444007 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
3443962 CAAGACTGCA
3443972 TTTTCTTTTC
1 TTTTCTTTTC
3443982 TTTTCTTTTC
1 TTTTCTTTTC
3443992 -TTTCTTTT-
1 TTTTCTTTTC
3444000 TTTT-TTTT
1 TTTTCTTTT
3444008 TAATCCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.16
9 11 0.44
10 10 0.40
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:3444008 original size:5 final size:5
Alignment explanation
Indices: 3443972--3444007 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
3443962 CAAGACTGCA
3443972 TTTTC TTTTC TTTTC TTTTC -TTTC TTTT- TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
3444008 TAATCCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 12 0.40
5 18 0.60
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (5 bp):
TTTTC
Found at i:3447389 original size:20 final size:20
Alignment explanation
Indices: 3447352--3447402 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
3447342 TAGAGTTTTC
*
3447352 ATAAATT-TAATAATATTAA
1 ATAAATTATAATAACATTAA
* *
3447371 ATAAATTATAATTACATTAT
1 ATAAATTATAATAACATTAA
3447391 ATAAA-TATAATA
1 ATAAATTATAATA
3447403 TAATATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAATTATAATAACATTAA
Found at i:3447423 original size:19 final size:18
Alignment explanation
Indices: 3447399--3447445 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
3447389 ATATAAATAT
*
3447399 AATATAATATAAAAATTAA
1 AATATAATAT-AAAATAAA
3447418 AATATAATATAAAATAAA
1 AATATAATATAAAATAAA
*
3447436 AAAATAATAT
1 AATATAATAT
3447446 GAATAGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AATATAATATAAAATAAA
Found at i:3447450 original size:24 final size:23
Alignment explanation
Indices: 3447393--3447450 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 23
3447383 TACATTATAT
*
3447393 AAATATAATATAATATAAAAATTA
1 AAATATAATATAAAATAAAAA-TA
3447417 AAATATAATATAAAATAAAAA-A
1 AAATATAATATAAAATAAAAATA
3447439 ATAATATGAATA
1 A-AATAT-AATA
3447451 GATTATATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 2 0.06
23 5 0.16
24 24 0.77
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
AAATATAATATAAAATAAAAATA
Found at i:3447509 original size:20 final size:18
Alignment explanation
Indices: 3447486--3447536 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 18
3447476 AAAAATTATT
*
3447486 AATATATTATAATTTATTTA
1 AATATATTA-AATAT-TTTA
3447506 AATATA--AAATATTTTA
1 AATATATTAAATATTTTA
3447522 AATATATTACAATAT
1 AATATATTA-AATAT
3447537 AATACATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 10 0.37
17 4 0.15
18 2 0.07
19 5 0.19
20 6 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATATTAAATATTTTA
Found at i:3449314 original size:25 final size:25
Alignment explanation
Indices: 3449286--3449334 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3449276 ATCTATATTT
*
3449286 AATATATA-TTTAAATATAAATATAA
1 AATATAAATTTTAAA-ATAAATATAA
*
3449311 AATATAAATTTTTAAATAAATATA
1 AATATAAATTTTAAAATAAATATA
3449335 TCGTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATATAAATTTTAAAATAAATATAA
Found at i:3450840 original size:25 final size:25
Alignment explanation
Indices: 3450794--3450841 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
3450784 ATAATATTTT
* *
3450794 TATAATATTTTAATTTTAAATTTGA
1 TATAATATTTAAATTTAAAATTTGA
3450819 TATAA-ATTTAAATTTAATAATTT
1 TATAATATTTAAATTTAA-AATTT
3450842 ATACATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TATAATATTTAAATTTAAAATTTGA
Done.