Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 15 of 56
Found at i:2804752 original size:27 final size:26
Alignment explanation
Indices: 2804722--2804775 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
2804712 TTAATACTTT
*
2804722 AAATATATAAAAAATAATATAAATATA
1 AAATATATAAAAAATAATACAAA-ATA
* *
2804749 AAATTTTTAAAAAATAATACAAAATA
1 AAATATATAAAAAATAATACAAAATA
2804775 A
1 A
2804776 CCGTACAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (26 bp):
AAATATATAAAAAATAATACAAAATA
Found at i:2804758 original size:35 final size:34
Alignment explanation
Indices: 2804663--2804759 Score: 108
Period size: 35 Copynumber: 2.8 Consensus size: 34
2804653 AATATGACAT
** *
2804663 AAAAATAATATAAATAT-AATTTTTATCTGTATA
1 AAAAATAATATAAATATAAATTTTTAAATATATA
* *
2804696 AAAAATAA-ATAAATTATTAATACTTTAAATATATA
1 AAAAATAATATAAA-TATAAAT-TTTTAAATATATA
2804731 AAAAATAATATAAATATAAAATTTTTAAA
1 AAAAATAATATAAATAT-AAATTTTTAAA
2804760 AAATAATACA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
32 5 0.09
33 11 0.21
34 3 0.06
35 26 0.49
36 8 0.15
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (34 bp):
AAAAATAATATAAATATAAATTTTTAAATATATA
Found at i:2804816 original size:24 final size:23
Alignment explanation
Indices: 2804799--2804843 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
2804789 TTCTCTTTCC
*
2804799 TTTCTTTTTTTTCTTTCTTCTCTT
1 TTTCTTTTTTTCCTTTC-TCTCTT
2804823 TTTCTTTTTTTCCTTTCTCTC
1 TTTCTTTTTTTCCTTTCTCTC
2804844 CTAATCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTCTTTTTTTCCTTTCTCTCTT
Found at i:2804838 original size:15 final size:15
Alignment explanation
Indices: 2804789--2804829 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
2804779 TACAATTTTA
*
2804789 TTCTC-TTTCCTTTC
1 TTCTCTTTTTCTTTC
2804803 TT-T-TTTTTCTTTC
1 TTCTCTTTTTCTTTC
2804816 TTCTCTTTTTCTTT
1 TTCTCTTTTTCTTT
2804830 TTTTCCTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 11 0.48
14 3 0.13
15 9 0.39
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTCTTTTTCTTTC
Found at i:2804851 original size:23 final size:24
Alignment explanation
Indices: 2804801--2804851 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
2804791 CTCTTTCCTT
* * **
2804801 TCTTTTTTTTCTTTCTTCTCTTTT
1 TCTTTTTTTCCTTTCTTCTCCTAA
2804825 TCTTTTTTTCCTTTC-TCTCCTAA
1 TCTTTTTTTCCTTTCTTCTCCTAA
2804848 TCTT
1 TCTT
2804852 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (24 bp):
TCTTTTTTTCCTTTCTTCTCCTAA
Found at i:2805482 original size:20 final size:19
Alignment explanation
Indices: 2805457--2805496 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
2805447 ATATAAACTT
2805457 TTTAAATT-TTGATTAACTAA
1 TTTAAATTATT-ATTAA-TAA
2805477 TTTAAATTATTATTAATAA
1 TTTAAATTATTATTAATAA
2805496 T
1 T
2805497 AAAAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 13 0.68
21 2 0.11
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTAAATTATTATTAATAA
Found at i:2807655 original size:34 final size:34
Alignment explanation
Indices: 2807612--2807680 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
2807602 CTACTTTCCA
*
2807612 TTCATTGATGTTGGAAGGTTCTCAGCTGAAGCCT
1 TTCATTGATGTTGAAAGGTTCTCAGCTGAAGCCT
2807646 TTCATTGATGTTGAAAGGTTCTCAGCTGAAGCCT
1 TTCATTGATGTTGAAAGGTTCTCAGCTGAAGCCT
2807680 T
1 T
2807681 ACAAGACCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (34 bp):
TTCATTGATGTTGAAAGGTTCTCAGCTGAAGCCT
Found at i:2812539 original size:2 final size:2
Alignment explanation
Indices: 2812522--2812568 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
2812512 TTCCCTATTA
* *
2812522 AT AT AT AC AT AA 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
2812564 AT AT A
1 AT AT A
2812569 AATCTCCGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2819832 original size:20 final size:18
Alignment explanation
Indices: 2819791--2819833 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
2819781 AATTTATTTA
2819791 ATTAAAATAATTTTAAAT
1 ATTAAAATAATTTTAAAT
*
2819809 -TTAAAATAATATATTTAAT
1 ATTAAAATAAT-T-TTAAAT
2819828 ATTAAA
1 ATTAAA
2819834 TATGTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.48
18 1 0.05
19 5 0.24
20 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAAAATAATTTTAAAT
Found at i:2821590 original size:5 final size:5
Alignment explanation
Indices: 2821580--2821605 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2821570 AATGTTAATG
2821580 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
2821606 ACTTGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:2828199 original size:2 final size:2
Alignment explanation
Indices: 2828192--2828227 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2828182 CGTTCACGAA
2828192 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
2828228 TTACGATCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:2829453 original size:19 final size:21
Alignment explanation
Indices: 2829429--2829491 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 21
2829419 ACAATTTAAA
2829429 ATATTAAAAATT-T-ATTTTT
1 ATATTAAAAATTATAATTTTT
*
2829448 ATATTAATAATTATAATTTTT
1 ATATTAAAAATTATAATTTTT
**
2829469 ATAATTAAATTTATATAATTTTT
1 AT-ATTAAAAAT-TATAATTTTT
2829492 TTTTAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.31
20 1 0.03
21 8 0.22
22 6 0.17
23 10 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTAAAAATTATAATTTTT
Found at i:2829485 original size:14 final size:15
Alignment explanation
Indices: 2829454--2829488 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
2829444 TTTTATATTA
*
2829454 ATAATTATAATTTTT
1 ATAATTATAATTTAT
2829469 ATAATTA-AATTTAT
1 ATAATTATAATTTAT
2829483 ATAATT
1 ATAATT
2829489 TTTTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATAATTATAATTTAT
Found at i:2830859 original size:17 final size:18
Alignment explanation
Indices: 2830832--2830880 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
2830822 TATAATTAAA
*
2830832 ATTACATATTTAATATAT
1 ATTATATATTTAATATAT
*
2830850 ATT-TATATTTAAT-TTT
1 ATTATATATTTAATATAT
*
2830866 TTTATATATTTAATA
1 ATTATATATTTAATA
2830881 ATTTAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
17 19 0.73
18 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATATATTTAATATAT
Found at i:2832143 original size:14 final size:14
Alignment explanation
Indices: 2832124--2832173 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
2832114 TAATTTTTTA
*
2832124 AAATATAAAAAAAT
1 AAATATATAAAAAT
* *
2832138 AAATATTTAAATAT
1 AAATATATAAAAAT
*
2832152 AACTATATAAAAAT
1 AAATATATAAAAAT
*
2832166 AAACATAT
1 AAATATAT
2832174 TTAATTAAGC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATATATAAAAAT
Found at i:2832243 original size:14 final size:14
Alignment explanation
Indices: 2832224--2832257 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2832214 ATCATTATAT
2832224 TTTTTAAAAAATAA
1 TTTTTAAAAAATAA
*
2832238 TTTTTAAATAATAA
1 TTTTTAAAAAATAA
2832252 TATTTT
1 T-TTTT
2832258 TTTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTTAAAAAATAA
Found at i:2832615 original size:11 final size:11
Alignment explanation
Indices: 2832599--2832712 Score: 56
Period size: 11 Copynumber: 9.7 Consensus size: 11
2832589 ATAATTTATG
2832599 TATTTATAATA
1 TATTTATAATA
2832610 TATTTATATATA
1 TATTTATA-ATA
2832622 TAAATTTAT--TA
1 T--ATTTATAATA
* *
2832633 TA-ATATGATA
1 TATTTATAATA
2832643 TATTTATATTATA
1 TATTTATA--ATA
*
2832656 TAATTTAAAAATATA
1 T-ATTT--ATA-ATA
2832671 TATTTATAATA
1 TATTTATAATA
2832682 TATTT-TAATTA
1 TATTTATAA-TA
* *
2832693 TCTTTATATTA
1 TATTTATAATA
2832704 TATTCTATA
1 TATT-TATA
2832713 TATTTTAATT
Statistics
Matches: 81, Mismatches: 8, Indels: 27
0.70 0.07 0.23
Matches are distributed among these distances:
8 3 0.04
9 1 0.01
10 7 0.09
11 33 0.41
12 12 0.15
13 4 0.05
14 14 0.17
15 5 0.06
16 2 0.02
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (11 bp):
TATTTATAATA
Found at i:2832629 original size:33 final size:33
Alignment explanation
Indices: 2832589--2832684 Score: 98
Period size: 33 Copynumber: 3.1 Consensus size: 33
2832579 TATAAATTTA
*
2832589 ATAATTTATGTAT-TTATAATATATTTATA-TAT
1 ATAATTTAT-TATAATATAATATATTTATATTAT
*
2832621 ATAAATTTATTATAATATGATATATTTATATTAT
1 AT-AATTTATTATAATATAATATATTTATATTAT
*
2832655 ATAATTTA--A-AA-AT-ATATATTTATAATAT
1 ATAATTTATTATAATATAATATATTTATATTAT
2832683 AT
1 AT
2832685 TTTAATTATC
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
28 16 0.28
29 2 0.03
30 2 0.03
31 1 0.02
32 5 0.09
33 27 0.47
34 5 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (33 bp):
ATAATTTATTATAATATAATATATTTATATTAT
Found at i:2832649 original size:19 final size:17
Alignment explanation
Indices: 2832613--2832662 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
2832603 TATAATATAT
2832613 TTATATATATAAATTTA
1 TTATATATATAAATTTA
*
2832630 TTATAATATGATATATTTA
1 TTAT-ATAT-ATAAATTTA
2832649 -TAT-TATAT-AATTTA
1 TTATATATATAAATTTA
2832663 AAAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 5 0.17
15 2 0.07
16 3 0.10
17 4 0.14
18 7 0.24
19 8 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTATATATATAAATTTA
Found at i:2832684 original size:15 final size:15
Alignment explanation
Indices: 2832578--2832684 Score: 87
Period size: 15 Copynumber: 7.3 Consensus size: 15
2832568 TTTTATCAAA
*
2832578 ATATAAATTTAATAAT
1 ATATATATTT-ATAAT
* *
2832594 TTATGTATTTATAAT
1 ATATATATTTATAAT
* *
2832609 ATATTTATATAT-AT
1 ATATATATTTATAAT
* *
2832623 AAATTTA-TTATAAT
1 ATATATATTTATAAT
*
2832637 ATGATATATTTATATT
1 AT-ATATATTTATAAT
*
2832653 ATATA-ATTTA-AAA
1 ATATATATTTATAAT
2832666 ATATATATTTATAAT
1 ATATATATTTATAAT
2832681 ATAT
1 ATAT
2832685 TTTAATTATC
Statistics
Matches: 72, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
13 9 0.12
14 21 0.29
15 27 0.38
16 15 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATATATATTTATAAT
Found at i:2834290 original size:21 final size:21
Alignment explanation
Indices: 2834266--2834306 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2834256 TGATATCAAA
2834266 AAATA-ATAAAAAATATAATAT
1 AAATATAT-AAAAATATAATAT
*
2834287 AAATATATAAATATATAATA
1 AAATATATAAAAATATAATA
2834307 AATTATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATATATAAAAATATAATAT
Found at i:2834294 original size:8 final size:8
Alignment explanation
Indices: 2834283--2834399 Score: 59
Period size: 8 Copynumber: 14.6 Consensus size: 8
2834273 AAAAAATATA
2834283 ATATAAAT
1 ATATAAAT
2834291 ATATAAAT
1 ATATAAAT
*
2834299 ATATAATAA
1 ATATAA-AT
2834308 ATTATTAACAT
1 A-TA-TAA-AT
2834319 ATCA-AAAT
1 AT-ATAAAT
2834327 ATATAAAT
1 ATATAAAT
*
2834335 AT-TTAAT
1 ATATAAAT
* *
2834342 ATTTTAA-
1 ATATAAAT
2834349 ATAT-AAT
1 ATATAAAT
*
2834356 -TATAATAC
1 ATATAA-AT
*
2834364 ATAAAAAT
1 ATATAAAT
*
2834372 GTATAAAT
1 ATATAAAT
2834380 ATAATAAAT
1 AT-ATAAAT
2834389 -TA-AAAT
1 ATATAAAT
2834395 ATATA
1 ATATA
2834400 TTTTTTAAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
6 9 0.11
7 14 0.16
8 39 0.46
9 14 0.16
10 3 0.04
11 6 0.07
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:2834377 original size:23 final size:23
Alignment explanation
Indices: 2834349--2834399 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2834339 AATATTTTAA
* *
2834349 ATATAATTATAATACATAAAAAT
1 ATATAAATATAATAAATAAAAAT
* *
2834372 GTATAAATATAATAAATTAAAAT
1 ATATAAATATAATAAATAAAAAT
2834395 ATATA
1 ATATA
2834400 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATAAATATAATAAATAAAAAT
Found at i:2838585 original size:21 final size:22
Alignment explanation
Indices: 2838550--2838590 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2838540 ATCATAATTA
2838550 TATTTAAAATATTTTATATTTT
1 TATTTAAAATATTTTATATTTT
*
2838572 TATTT-AAATTTTTTATATT
1 TATTTAAAATATTTTATATT
2838591 ATATTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTTAAAATATTTTATATTTT
Found at i:2838596 original size:14 final size:13
Alignment explanation
Indices: 2838563--2838610 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
2838553 TTAAAATATT
2838563 TTATATTTTTAT-
1 TTATATTTTTATA
*
2838575 TTAAATTTTTTATA
1 TTATA-TTTTTATA
*
2838589 TTATATTTATATAA
1 TTATATTTTTAT-A
2838603 TTATATTT
1 TTATATTT
2838611 AATATTATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 4 0.13
13 13 0.43
14 13 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATATTTTTATA
Found at i:2839697 original size:22 final size:21
Alignment explanation
Indices: 2839672--2839721 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
2839662 TATACTTTTT
*
2839672 ATTTTATTATTTGGTATTATAA
1 ATTTAATTATTT-GTATTATAA
* *
2839694 ATTTAATTATTTTTTTTATAA
1 ATTTAATTATTTGTATTATAA
2839715 ATTTAAT
1 ATTTAAT
2839722 AGTTAAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
ATTTAATTATTTGTATTATAA
Found at i:2843599 original size:2 final size:2
Alignment explanation
Indices: 2843592--2843624 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2843582 AGTGTGACCG
2843592 TA 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 TA T
2843625 GAATATAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2855471 original size:2 final size:2
Alignment explanation
Indices: 2855464--2855502 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2855454 ATTTTTAATG
2855464 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2855503 CATCATCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2856052 original size:3 final size:3
Alignment explanation
Indices: 2856039--2856072 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2856029 CTTATGCTTT
*
2856039 TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2856073 CCAAGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2856375 original size:13 final size:13
Alignment explanation
Indices: 2856357--2856381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2856347 AAATTAAGAT
2856357 TTAATTTAATTAA
1 TTAATTTAATTAA
2856370 TTAATTTAATTA
1 TTAATTTAATTA
2856382 TTTTTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAATTTAATTAA
Found at i:2856558 original size:3 final size:3
Alignment explanation
Indices: 2856550--2856590 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2856540 AAAGATTAAT
2856550 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2856591 CAATAACTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2863237 original size:2 final size:2
Alignment explanation
Indices: 2863226--2863274 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
2863216 AAAGGATTAA
2863226 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2863267 AG AG AG AG
1 AG AG AG AG
2863275 CAGTGGTTGG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2866448 original size:17 final size:16
Alignment explanation
Indices: 2866401--2866448 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
2866391 TATAATATTT
*
2866401 AATTAAATTTATTTATA
1 AATTAAA-TAATTTATA
*
2866418 AATTAAATAATTTATC
1 AATTAAATAATTTATA
*
2866434 AATTCAATAAATTTA
1 AATTAAAT-AATTTA
2866449 ATTTATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAAATAATTTATA
Found at i:2868441 original size:2 final size:2
Alignment explanation
Indices: 2868434--2868461 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2868424 TTTGTTTACC
2868434 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
2868462 AAAGATTAAG
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2870238 original size:2 final size:2
Alignment explanation
Indices: 2870231--2870278 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
2870221 GTATATTTGC
2870231 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
2870273 AT AT AT
1 AT AT AT
2870279 TCCTCCTGGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2876128 original size:2 final size:2
Alignment explanation
Indices: 2876121--2876147 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2876111 CACGGATAAT
2876121 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
2876148 TTTATGATAA
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:2876628 original size:6 final size:6
Alignment explanation
Indices: 2876619--2876649 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2876609 TAAAAATTAA
2876619 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
2876650 TTAATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:2877516 original size:100 final size:100
Alignment explanation
Indices: 2877343--2877642 Score: 548
Period size: 100 Copynumber: 3.0 Consensus size: 100
2877333 CCAAAGAACC
*
2877343 GTTTGTAAATTGGTGAGGAGCTGACTAAGGGTCTCGGTTCTGGTGGGAAACCAGAAAACGGCGTG
1 GTTTGTAAATTGGTGAGGAGCTGACTAAGGGTCTCGGTTCTGGTGGGAAACCAGAAACCGGCGTG
2877408 AATGCTGCCAGTGAAAGCAGAGCAGCAATCGAGGA
66 AATGCTGCCAGTGAAAGCAGAGCAGCAATCGAGGA
* *
2877443 GTTTGTAAATTTGTGAGGAGCTGACTAAGGGTCTCGGTTCTGGTGGGAAACCAGAAGCCGGCGTG
1 GTTTGTAAATTGGTGAGGAGCTGACTAAGGGTCTCGGTTCTGGTGGGAAACCAGAAACCGGCGTG
* *
2877508 AATGCTGCCAGTGAAAGCAGAGCAGCAATAGTGGA
66 AATGCTGCCAGTGAAAGCAGAGCAGCAATCGAGGA
2877543 GTTTGTAAATTGGTGAGGAGCTGACTAAGGGT-TCGGTTCTGGTGGGAAACCAGAAACCGGCGTG
1 GTTTGTAAATTGGTGAGGAGCTGACTAAGGGTCTCGGTTCTGGTGGGAAACCAGAAACCGGCGTG
2877607 AATGCTGCCAGTGAAAGCAGAGCAGCAATCGAGGA
66 AATGCTGCCAGTGAAAGCAGAGCAGCAATCGAGGA
2877642 G
1 G
2877643 GTGGTTCATG
Statistics
Matches: 191, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
99 65 0.34
100 126 0.66
ACGTcount: A:0.28, C:0.16, G:0.35, T:0.21
Consensus pattern (100 bp):
GTTTGTAAATTGGTGAGGAGCTGACTAAGGGTCTCGGTTCTGGTGGGAAACCAGAAACCGGCGTG
AATGCTGCCAGTGAAAGCAGAGCAGCAATCGAGGA
Found at i:2878664 original size:60 final size:60
Alignment explanation
Indices: 2878566--2878686 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 60
2878556 TGCTAGAGGG
*
2878566 CATGCTAGTGATAGAAATCATGAGGTTAATAATGAAGCATTGAAAAAGGATTATTCGGGA
1 CATGCTAGTGATAGAAATCATGACGTTAATAATGAAGCATTGAAAAAGGATTATTCGGGA
* * * *
2878626 CATGTTAGTGATAGAAATCTTGACTTTAATAATGAAGCATTGAAAAAGGATTATTTGGGA
1 CATGCTAGTGATAGAAATCATGACGTTAATAATGAAGCATTGAAAAAGGATTATTCGGGA
2878686 C
1 C
2878687 GTGAAAGGCT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (60 bp):
CATGCTAGTGATAGAAATCATGACGTTAATAATGAAGCATTGAAAAAGGATTATTCGGGA
Found at i:2881393 original size:18 final size:18
Alignment explanation
Indices: 2881370--2881406 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2881360 CGCAGGGAGA
2881370 CTAAGTTTATGCACATCG
1 CTAAGTTTATGCACATCG
2881388 CTAAGTTTATGCACATCG
1 CTAAGTTTATGCACATCG
2881406 C
1 C
2881407 ATTTATCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
CTAAGTTTATGCACATCG
Found at i:2883395 original size:17 final size:20
Alignment explanation
Indices: 2883371--2883409 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2883361 ATATAATACA
2883371 TAAA-ATATTA-ATCATATT
1 TAAATATATTACATCATATT
2883389 TAAATATATTACATCATATT
1 TAAATATATTACATCATATT
2883409 T
1 T
2883410 CATATCGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 9 0.47
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATATATTACATCATATT
Found at i:2895633 original size:33 final size:34
Alignment explanation
Indices: 2895596--2895675 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 34
2895586 AATTTAATTT
* *
2895596 ATTTAAATTTAAATTACTATTTATCT-TATTAAA
1 ATTTAAATTTAAATTAATATTTATATATATTAAA
** * * *
2895629 ATTTATTTTTATATTAATATTTATATATTTTATA
1 ATTTAAATTTAAATTAATATTTATATATATTAAA
2895663 A-TTAAATTTAAAT
1 ATTTAAATTTAAAT
2895676 AAAAAATATA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
33 30 0.83
34 6 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (34 bp):
ATTTAAATTTAAATTAATATTTATATATATTAAA
Found at i:2895658 original size:22 final size:21
Alignment explanation
Indices: 2895623--2895672 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2895613 TATTTATCTT
*
2895623 ATTAAAATT-TAT-TTTTAT-
1 ATTAAATTTATATATTTTATA
2895641 ATTAATATTTATATATTTTATA
1 ATTAA-ATTTATATATTTTATA
2895663 ATTAAATTTA
1 ATTAAATTTA
2895673 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.19
19 3 0.11
20 3 0.11
21 11 0.41
22 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTAAATTTATATATTTTATA
Found at i:2896827 original size:1 final size:1
Alignment explanation
Indices: 2896823--2896849 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
2896813 TCTAGGGGGG
2896823 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
2896850 CCGCAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2901784 original size:18 final size:18
Alignment explanation
Indices: 2901754--2901790 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2901744 AATTCAAATT
2901754 AAATTATTATTTATTTAA
1 AAATTATTATTTATTTAA
2901772 AAATATATT-TTTATTTAA
1 AAAT-TATTATTTATTTAA
2901790 A
1 A
2901791 TTTAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATTATTATTTATTTAA
Found at i:2901800 original size:22 final size:22
Alignment explanation
Indices: 2901719--2901800 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 22
2901709 TCTTAAATAA
* *
2901719 ATTTTT-TATAAATTT-ATTTT
1 ATTTTTATTTAAATTTAATTAT
* * *
2901739 ATTTTAATTCAAATTAAATTAT
1 ATTTTTATTTAAATTTAATTAT
*
2901761 -TATTTATTTAAA---AA-TAT
1 ATTTTTATTTAAATTTAATTAT
2901778 ATTTTTATTTAAATTTAATTAT
1 ATTTTTATTTAAATTTAATTAT
2901800 A
1 A
2901801 AAATATATAA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
17 3 0.07
18 13 0.28
20 5 0.11
21 17 0.37
22 8 0.17
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTTATTTAAATTTAATTAT
Found at i:2902131 original size:18 final size:18
Alignment explanation
Indices: 2902108--2902142 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2902098 TTAATTTAAT
*
2902108 TAAATTTTAAATTTAAAA
1 TAAATTTCAAATTTAAAA
*
2902126 TAAATTTCAGATTTAAA
1 TAAATTTCAAATTTAAA
2902143 GTTACTGAAT
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:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TAAATTTCAAATTTAAAA
Found at i:2903790 original size:17 final size:17
Alignment explanation
Indices: 2903749--2903794 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
2903739 ATATTATTTT
*
2903749 TTATTCAATAAAAATAA
1 TTATTAAATAAAAATAA
2903766 TATATTAAATACAAAA-AA
1 T-TATTAAATA-AAAATAA
2903784 TTATTAAATAA
1 TTATTAAATAA
2903795 TAATTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 1 0.04
17 10 0.38
18 11 0.42
19 4 0.15
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (17 bp):
TTATTAAATAAAAATAA
Found at i:2903832 original size:17 final size:17
Alignment explanation
Indices: 2903810--2903844 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2903800 AAATAATCTT
*
2903810 TAATCAATATTTATAAA
1 TAATCAATATTCATAAA
*
2903827 TAATCACTATTCATAAA
1 TAATCAATATTCATAAA
2903844 T
1 T
2903845 TTATTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (17 bp):
TAATCAATATTCATAAA
Found at i:2904697 original size:24 final size:26
Alignment explanation
Indices: 2904649--2904718 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
2904639 ATTGAATAAG
*
2904649 AAAAAT-ATATTAAATATAAT-TTTTTT
1 AAAAATCATA-TAAATA-AATAATTTTT
2904675 AAAAAT-A-ATAAATAAATAATTTTT
1 AAAAATCATATAAATAAATAATTTTT
* *
2904699 AAGAATCATATATATAAATA
1 AAAAATCATATAAATAAATA
2904719 TAAATGTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 3 0.08
24 16 0.42
25 2 0.05
26 17 0.45
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (26 bp):
AAAAATCATATAAATAAATAATTTTT
Found at i:2904715 original size:26 final size:24
Alignment explanation
Indices: 2904670--2904718 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2904660 AAATATAATT
2904670 TTTTTAAAAATAATAAATAAATAA
1 TTTTTAAAAATAATAAATAAATAA
* *
2904694 TTTTTAAGAATCATATATATAAATA
1 TTTTTAAAAAT-A-ATAAATAAATA
2904719 TAAATGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 1 0.05
26 10 0.48
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTTTAAAAATAATAAATAAATAA
Found at i:2911613 original size:16 final size:16
Alignment explanation
Indices: 2911592--2911622 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2911582 GAAAAGCTGT
2911592 GAAGCAAGGGTAATCG
1 GAAGCAAGGGTAATCG
2911608 GAAGCAAGGGTAATC
1 GAAGCAAGGGTAATC
2911623 TCAAAAGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.35, T:0.13
Consensus pattern (16 bp):
GAAGCAAGGGTAATCG
Found at i:2913975 original size:15 final size:14
Alignment explanation
Indices: 2913957--2913999 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
2913947 GGGAAGAATT
2913957 TGAAGAAGAAGATGA
1 TGAAGAAGAAGAT-A
* *
2913972 TGAAGTAGAAGATC
1 TGAAGAAGAAGATA
2913986 TAGAAGAAGAAGAT
1 T-GAAGAAGAAGAT
2914000 TTAATCAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.51, C:0.02, G:0.30, T:0.16
Consensus pattern (14 bp):
TGAAGAAGAAGATA
Found at i:2914108 original size:7 final size:6
Alignment explanation
Indices: 2914092--2914134 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
2914082 CCAAATATGA
* *
2914092 AAAAAA AAAAAG TAAAAAT AAAAAG AAAAAG AAAAGAG AAAAA
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAAA-AG AAAAA
2914135 TCTCTTCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 21 0.66
7 11 0.34
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:2914114 original size:13 final size:12
Alignment explanation
Indices: 2914092--2914135 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
2914082 CCAAATATGA
*
2914092 AAAAAAAAAAAG
1 AAAAATAAAAAG
2914104 TAAAAATAAAAAG
1 -AAAAATAAAAAG
*
2914117 AAAAAGAAAAGAG
1 AAAAATAAAA-AG
2914130 AAAAAT
1 AAAAAT
2914136 CTCTTCCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 9 0.33
13 18 0.67
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:2914133 original size:19 final size:19
Alignment explanation
Indices: 2914092--2914134 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2914082 CCAAATATGA
*
2914092 AAAAAAAAAAAGTAAAAAT
1 AAAAAAAAAAAGTAAAAAG
*
2914111 AAAAAGAAAAAG-AAAAGAG
1 AAAAAAAAAAAGTAAAA-AG
2914130 AAAAA
1 AAAAA
2914135 TCTCTTCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAAAGTAAAAAG
Found at i:2914814 original size:42 final size:41
Alignment explanation
Indices: 2914746--2914831 Score: 118
Period size: 42 Copynumber: 2.1 Consensus size: 41
2914736 AAATCGAATC
* *
2914746 TTAAATCTTCAATTATATTATAATATCACATTAAATAATAT
1 TTAAATCTTAAATTATATTACAATATCACATTAAATAATAT
* * *
2914787 TTAATATCTTAAATTATATTACGATATCAGATTAAATATTAT
1 TTAA-ATCTTAAATTATATTACAATATCACATTAAATAATAT
2914829 TTA
1 TTA
2914832 TTAAACGACC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 4 0.10
42 35 0.90
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (41 bp):
TTAAATCTTAAATTATATTACAATATCACATTAAATAATAT
Found at i:2915072 original size:7 final size:7
Alignment explanation
Indices: 2915035--2915069 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
2915025 TTATATTATA
2915035 TGGCACT
1 TGGCACT
2915042 TGGCACT
1 TGGCACT
2915049 TGGCACT
1 TGGCACT
*
2915056 TGGACACG
1 TGG-CACT
2915064 TGGCAC
1 TGGCAC
2915070 GTGCAGGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.23
Consensus pattern (7 bp):
TGGCACT
Found at i:2915941 original size:20 final size:19
Alignment explanation
Indices: 2915897--2915942 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
2915887 GATGGTTTTT
* *
2915897 TAAACAAAAAATAATTTAA
1 TAAATAAAAAATAATTCAA
*
2915916 TCAATAAAAAATAAGTTCAA
1 TAAATAAAAAATAA-TTCAA
2915936 TAAATAA
1 TAAATAA
2915943 TTTAATCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAATAAAAAATAATTCAA
Found at i:2915951 original size:16 final size:16
Alignment explanation
Indices: 2915895--2915954 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
2915885 TTGATGGTTT
* *
2915895 TTTAAACAAAAAATAA
1 TTTAATCAATAAATAA
2915911 TTTAATCAATAAA-AA
1 TTTAATCAATAAATAA
*
2915926 -ATAAGTTCAATAAATAA
1 TTTAA--TCAATAAATAA
2915943 TTTAATCAATAA
1 TTTAATCAATAA
2915955 TTTTTAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 3 0.08
15 2 0.06
16 26 0.72
17 2 0.06
18 3 0.08
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (16 bp):
TTTAATCAATAAATAA
Found at i:2916646 original size:12 final size:12
Alignment explanation
Indices: 2916629--2916653 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2916619 CATCGGGATG
2916629 TATTCAACTATA
1 TATTCAACTATA
2916641 TATTCAACTATA
1 TATTCAACTATA
2916653 T
1 T
2916654 TCCGTGAATT
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTCAACTATA
Found at i:2921617 original size:27 final size:27
Alignment explanation
Indices: 2921587--2921642 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
2921577 ACCATAAGGT
2921587 AATTCATTAAGCCAGTTCCAAATATTA
1 AATTCATTAAGCCAGTTCCAAATATTA
*
2921614 AATTCATTGAGCCAGTTCCAAATATTA
1 AATTCATTAAGCCAGTTCCAAATATTA
2921641 AA
1 AA
2921643 CCATATTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTCATTAAGCCAGTTCCAAATATTA
Found at i:2922463 original size:3 final size:3
Alignment explanation
Indices: 2922455--2922482 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2922445 TTTTTATTTT
2922455 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2922483 GCTAGAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2922706 original size:11 final size:11
Alignment explanation
Indices: 2922690--2922722 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
2922680 TTTTATTATT
2922690 AATATTTTTTA
1 AATATTTTTTA
2922701 AATA-TTTTTA
1 AATATTTTTTA
2922711 AATAATTTTTTA
1 AAT-ATTTTTTA
2922723 TTGAGTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.45
11 5 0.25
12 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
AATATTTTTTA
Found at i:2922706 original size:20 final size:22
Alignment explanation
Indices: 2922683--2922722 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2922673 AAATTTATTT
2922683 TATTATT-AAT-ATTTTTTAAA
1 TATTATTAAATAATTTTTTAAA
*
2922703 TATTTTTAAATAATTTTTTA
1 TATTATTAAATAATTTTTTA
2922723 TTGAGTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTAAATAATTTTTTAAA
Found at i:2922924 original size:16 final size:16
Alignment explanation
Indices: 2922879--2922927 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
2922869 TAAATTTATA
2922879 TTATTATTATTAATTTT
1 TTATTA-TATTAATTTT
* *
2922896 TTAATAATTTTAATTTT
1 TT-ATTATATTAATTTT
2922913 TTATTATATTAATTT
1 TTATTATATTAATTT
2922928 AATCATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 11 0.41
17 13 0.48
18 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATATTAATTTT
Found at i:2931382 original size:16 final size:16
Alignment explanation
Indices: 2931361--2931391 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2931351 GAAAAGCTGT
2931361 GAAGCAAGGGTAATCG
1 GAAGCAAGGGTAATCG
2931377 GAAGCAAGGGTAATC
1 GAAGCAAGGGTAATC
2931392 TCAAAAGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.35, T:0.13
Consensus pattern (16 bp):
GAAGCAAGGGTAATCG
Found at i:2932655 original size:3 final size:3
Alignment explanation
Indices: 2932649--2932674 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2932639 TTTACAAAAG
2932649 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
2932675 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2932679 original size:4 final size:4
Alignment explanation
Indices: 2932670--2932706 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
2932660 TAATAATAAT
2932670 AATA AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA A
2932707 GGACCACCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:2933953 original size:12 final size:12
Alignment explanation
Indices: 2933918--2933956 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
2933908 CCCAAATATG
2933918 AAAAAAAAAA-A
1 AAAAAAAAAAGA
2933929 AAAAAAAAAAGA
1 AAAAAAAAAAGA
* *
2933941 AAAGAAAAGAGA
1 AAAAAAAAAAGA
2933953 AAAA
1 AAAA
2933957 TCTCTTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:2934877 original size:7 final size:7
Alignment explanation
Indices: 2934840--2934874 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
2934830 TTATATTATA
2934840 TGGCACT
1 TGGCACT
2934847 TGGCACT
1 TGGCACT
2934854 TGGCACT
1 TGGCACT
*
2934861 TGGACACG
1 TGG-CACT
2934869 TGGCAC
1 TGGCAC
2934875 GTGCAGGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.23
Consensus pattern (7 bp):
TGGCACT
Found at i:2935575 original size:12 final size:13
Alignment explanation
Indices: 2935548--2935578 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2935538 CATGTTTCAT
*
2935548 AAAAAGAAAGGAA
1 AAAAAAAAAGGAA
2935561 AAAAAAAAAGGAA
1 AAAAAAAAAGGAA
2935574 AAAAA
1 AAAAA
2935579 CTTTTGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGGAA
Found at i:2936362 original size:12 final size:12
Alignment explanation
Indices: 2936345--2936369 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2936335 CATCGGGATG
2936345 TATTCAACTATA
1 TATTCAACTATA
2936357 TATTCAACTATA
1 TATTCAACTATA
2936369 T
1 T
2936370 TCCGTGAATT
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTCAACTATA
Found at i:2941437 original size:27 final size:27
Alignment explanation
Indices: 2941407--2941462 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
2941397 ACCATAAGGT
2941407 AATTCATTAAGCCAGTTCCAAATATTA
1 AATTCATTAAGCCAGTTCCAAATATTA
*
2941434 AATTCATTGAGCCAGTTCCAAATATTA
1 AATTCATTAAGCCAGTTCCAAATATTA
2941461 AA
1 AA
2941463 CCATATTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTCATTAAGCCAGTTCCAAATATTA
Found at i:2942282 original size:3 final size:3
Alignment explanation
Indices: 2942274--2942298 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2942264 TTCTTTTTAT
2942274 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
2942299 GCTAGAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2942521 original size:11 final size:11
Alignment explanation
Indices: 2942505--2942537 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
2942495 ATTTATTATT
2942505 AATATTTTTTA
1 AATATTTTTTA
2942516 AATA-TTTTTA
1 AATATTTTTTA
2942526 AATAATTTTTTA
1 AAT-ATTTTTTA
2942538 TTGAGTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.45
11 5 0.25
12 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
AATATTTTTTA
Found at i:2942521 original size:20 final size:22
Alignment explanation
Indices: 2942498--2942537 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2942488 TAAATTTATT
2942498 TATTATT-AAT-ATTTTTTAAA
1 TATTATTAAATAATTTTTTAAA
*
2942518 TATTTTTAAATAATTTTTTA
1 TATTATTAAATAATTTTTTA
2942538 TTGAGTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTAAATAATTTTTTAAA
Found at i:2942738 original size:16 final size:16
Alignment explanation
Indices: 2942693--2942741 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
2942683 TAAATTTATA
*
2942693 TTATTATTAATAATTTT
1 TTATTA-TATTAATTTT
* *
2942710 TTAATAATTTTAATTTT
1 TT-ATTATATTAATTTT
2942727 TTATTATATTAATTT
1 TTATTATATTAATTT
2942742 AATCATTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 11 0.42
17 12 0.46
18 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTATATTAATTTT
Found at i:2947395 original size:13 final size:13
Alignment explanation
Indices: 2947359--2947388 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2947349 TAAAATTATT
2947359 TTATT-ATATAAA
1 TTATTCATATAAA
2947371 TTATTCATATAAA
1 TTATTCATATAAA
2947384 TTATT
1 TTATT
2947389 TTCATAATGT
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:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATTCATATAAA
Found at i:2951057 original size:20 final size:20
Alignment explanation
Indices: 2951032--2951071 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2951022 AAGAAAAAGT
2951032 TATTAGACCA-AATGTTTGTA
1 TATTAGACCACAA-GTTTGTA
2951052 TATTAGACCACAAGTTTGTA
1 TATTAGACCACAAGTTTGTA
2951072 GATTGTAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (20 bp):
TATTAGACCACAAGTTTGTA
Found at i:2951612 original size:69 final size:68
Alignment explanation
Indices: 2951498--2951632 Score: 182
Period size: 69 Copynumber: 2.0 Consensus size: 68
2951488 CCGTTTTCTC
* **
2951498 GGATACATTCTCGCTACTATATAAGCAATAATGTTACTTAATTTGTACTTAAATTTGCACCATTT
1 GGATACATTCTCACTACTATATAAGCAATAATGTTACTTAATTTGTAAGTAAATTTG-ACCATTT
2951563 TTTT
65 TTTT
* * * *
2951567 GGATACATTGTCATTACTATATAAGCAATAATGTTA-TTGATTTTGTAAGTAAATTTGATCATTT
1 GGATACATTCTCACTACTATATAAGCAATAATGTTACTT-AATTTGTAAGTAAATTTGACCATTT
2951631 TT
65 TT
2951633 AGAAACAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
68 10 0.17
69 48 0.83
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (68 bp):
GGATACATTCTCACTACTATATAAGCAATAATGTTACTTAATTTGTAAGTAAATTTGACCATTTT
TTT
Found at i:2954036 original size:17 final size:17
Alignment explanation
Indices: 2953995--2954042 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
2953985 AGAATTCAAA
*
2953995 ATAAATAAATATTAAAT
1 ATAAATATATATTAAAT
*
2954012 ATAAATATATATTTAAT
1 ATAAATATATATTAAAT
2954029 ATAAATATAT-TTAA
1 ATAAATATATATTAA
2954043 TATTTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 3 0.11
17 25 0.89
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATATATATTAAAT
Found at i:2955340 original size:2 final size:2
Alignment explanation
Indices: 2955328--2955357 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2955318 GATCAAATGG
*
2955328 TA TA CA 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
2955358 AAGTATATCC
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2957492 original size:16 final size:16
Alignment explanation
Indices: 2957467--2957503 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
2957457 AATTTTTTTA
*
2957467 AAATTTTTAAATAATAT
1 AAATTTTAAAATAA-AT
2957484 AAATTTTAAAATAAAT
1 AAATTTTAAAATAAAT
2957500 AAAT
1 AAAT
2957504 AAATTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTTAAAATAAAT
Found at i:2957596 original size:22 final size:22
Alignment explanation
Indices: 2957559--2957606 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
2957549 ATCATAAAAT
2957559 TTTTAATAATAATA-TTAAT-A
1 TTTTAATAATAATATTTAATAA
*
2957579 TTTTATATAAATACTATTTAATAA
1 TTTTA-AT-AATAATATTTAATAA
2957603 TTTT
1 TTTT
2957607 TTTTATGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 2 0.09
22 6 0.26
23 5 0.22
24 5 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTAATAATAATATTTAATAA
Found at i:2958222 original size:21 final size:22
Alignment explanation
Indices: 2958185--2958227 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2958175 TAAATATAAG
* *
2958185 TAAATAGTTTTTTAAAAGTTAT
1 TAAATAGTTTTTAAAAAATTAT
2958207 TAAATA-TTTTTAAAAAATTAT
1 TAAATAGTTTTTAAAAAATTAT
2958228 AATAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
TAAATAGTTTTTAAAAAATTAT
Found at i:2963127 original size:30 final size:30
Alignment explanation
Indices: 2963094--2963198 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
2963084 TATTAGACCC
*
2963094 AAATAAGCCCTTAACCCTTAATTTACATCC-
1 AAATAAGCCCTTAACCTTTAATTTACA-CCT
* * * **
2963124 AAATATGCTCTTCACCTTTAATTTGTACCT
1 AAATAAGCCCTTAACCTTTAATTTACACCT
*
2963154 AAATAAGCCCTTAACCTTTAATTCACACCT
1 AAATAAGCCCTTAACCTTTAATTTACACCT
* *
2963184 AACTAAACCCTTAAC
1 AAATAAGCCCTTAAC
2963199 ATAATTCAAC
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 2 0.03
30 58 0.97
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.32
Consensus pattern (30 bp):
AAATAAGCCCTTAACCTTTAATTTACACCT
Found at i:2963260 original size:29 final size:29
Alignment explanation
Indices: 2963221--2963292 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
2963211 TCTATTTGAA
* *
2963221 ATAAGGGCTTACTTGGTTACAATGAAAGG-
1 ATAAGGACTTACTTGGGTACAAT-AAAGGT
*
2963250 ATAAGGACTTATTTGGGTACAATAAAGGT
1 ATAAGGACTTACTTGGGTACAATAAAGGT
* *
2963279 ATATGGATTTACTT
1 ATAAGGACTTACTT
2963293 AAGAAAAGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (29 bp):
ATAAGGACTTACTTGGGTACAATAAAGGT
Found at i:2963502 original size:2 final size:2
Alignment explanation
Indices: 2963497--2963526 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2963487 CATTCTGTGT
*
2963497 GA GA GA GA GA GA GA GA AA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2963527 TAAATAGTTA
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:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2967941 original size:14 final size:13
Alignment explanation
Indices: 2967917--2967969 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 13
2967907 ATTAAAATAT
2967917 TATTTTATATTAA
1 TATTTTATATTAA
2967930 TATTTATATATTAA
1 TATTT-TATATTAA
* *
2967944 T-TTTTAAATAAA
1 TATTTTATATTAA
2967956 TATTTTA-ATTAA
1 TATTTTATATTAA
2967968 TA
1 TA
2967970 AACACTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 13 0.37
13 13 0.37
14 9 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTTTATATTAA
Found at i:2967957 original size:26 final size:24
Alignment explanation
Indices: 2967919--2967968 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
2967909 TAAAATATTA
* *
2967919 TTTTATATTAATATTTATATATTAAT
1 TTTTAAATAAATATTT-TA-ATTAAT
2967945 TTTTAAATAAATATTTTAATTAAT
1 TTTTAAATAAATATTTTAATTAAT
2967969 AAACACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 2 0.09
26 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTAAATAAATATTTTAATTAAT
Found at i:2968592 original size:20 final size:19
Alignment explanation
Indices: 2968551--2968592 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2968541 AATAAATAAA
*
2968551 TAAAGTATAAAAATATTTT
1 TAAAGTATAAAAATATTAT
2968570 TAAAG-ATAATAAATTATTAT
1 TAAAGTATAA-AAA-TATTAT
2968590 TAA
1 TAA
2968593 TTAGAATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
20 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
TAAAGTATAAAAATATTAT
Found at i:2971279 original size:24 final size:23
Alignment explanation
Indices: 2971251--2971304 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2971241 TTCACTAAAA
* * *
2971251 ATCATCTAGCATGGAAATTCTTAT
1 ATCAT-TAGCATGAAAAATCTAAT
*
2971275 ATCATTGGCATGAAAAATCTAAT
1 ATCATTAGCATGAAAAATCTAAT
2971298 ATCATTA
1 ATCATTA
2971305 TGTGCTATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (23 bp):
ATCATTAGCATGAAAAATCTAAT
Found at i:2982537 original size:2 final size:2
Alignment explanation
Indices: 2982532--2982556 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2982522 TCTATCTGTC
2982532 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 T
2982557 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2991057 original size:7 final size:7
Alignment explanation
Indices: 2991047--2991087 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
2991037 GTTATATTAA
2991047 ATATAAT
1 ATATAAT
2991054 ATATAAT
1 ATATAAT
*
2991061 ATAAAAT
1 ATATAAT
2991068 ATATAAAT
1 ATAT-AAT
2991076 ATATAA-
1 ATATAAT
2991082 ATATAA
1 ATATAA
2991088 AAAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
8 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
ATATAAT
Found at i:2991087 original size:14 final size:14
Alignment explanation
Indices: 2991039--2991088 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
2991029 ATTAAAATGT
2991039 TATATTAAATAT-AA
1 TATA-TAAATATAAA
2991053 TATAT-AATATAAAA
1 TATATAAATAT-AAA
2991067 TATATAAATATATAA
1 TATATAAATATA-AA
2991082 -ATATAAA
1 TATATAAA
2991089 AAATATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.16
13 1 0.03
14 19 0.59
15 7 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TATATAAATATAAA
Found at i:2991114 original size:9 final size:9
Alignment explanation
Indices: 2991059--2991114 Score: 64
Period size: 8 Copynumber: 6.3 Consensus size: 9
2991049 ATAATATATA
2991059 ATATAAAAT
1 ATATAAAAT
2991068 ATAT-AAAT
1 ATATAAAAT
2991076 ATAT-AAAT
1 ATATAAAAT
*
2991084 ATAAAAAAT
1 ATATAAAAT
2991093 AT-TAAAATTT
1 ATATAAAA--T
2991103 ATATAAAAT
1 ATATAAAAT
2991112 ATA
1 ATA
2991115 ATTTAAAACT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 19 0.46
9 14 0.34
10 3 0.07
11 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
ATATAAAAT
Found at i:2991119 original size:16 final size:16
Alignment explanation
Indices: 2991046--2991116 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
2991036 TGTTATATTA
*
2991046 AATATAATATATAATAT
1 AATAT-ATATAAAATAT
*
2991063 AAAATATATAAATATAT
1 AATATATATAAA-ATAT
*
2991080 AA-ATATAAAAAATATT
1 AATATATATAAAATA-T
*
2991096 AAAATTTATATAAAATAT
1 --AATATATATAAAATAT
2991114 AAT
1 AAT
2991117 TTAAAACTCG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
15 3 0.07
16 18 0.41
17 10 0.23
18 3 0.07
19 10 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATATATAAAATAT
Found at i:2997839 original size:21 final size:20
Alignment explanation
Indices: 2997808--2997848 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2997798 ATATTAATAT
2997808 TTATAATTTTTATT-TTTAGA
1 TTATAATTTTT-TTATTTAGA
2997828 TTATATATTTTTTTATTTAGA
1 TTATA-ATTTTTTTATTTAGA
2997849 GGTATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTATAATTTTTTTATTTAGA
Found at i:2997948 original size:22 final size:23
Alignment explanation
Indices: 2997896--2997949 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
2997886 CTTGTAGGCC
2997896 TATTTTTAATTAAAAATATTAAAA
1 TATTTTTAATT-AAAATATTAAAA
*
2997920 TATTTTTATAATT-AAAT-TTAAAT
1 TA-TTTT-TAATTAAAATATTAAAA
2997943 TATTTTT
1 TATTTTT
2997950 TATTTGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 1 0.04
22 4 0.15
23 7 0.26
24 6 0.22
25 4 0.15
26 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTTTAATTAAAATATTAAAA
Found at i:2999383 original size:21 final size:20
Alignment explanation
Indices: 2999328--2999397 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
2999318 CATTAATTTT
* *
2999328 TTTAAA-AATTATATTTATA
1 TTTAAATAATTATAATTAAA
* *
2999347 TTTATATATTTTATAATTAAA
1 TTTAAATA-ATTATAATTAAA
2999368 TTTAAATAATTAATAATTTAAA
1 TTTAAATAATT-ATAA-TTAAA
*
2999390 TTAAAATA
1 TTTAAATA
2999398 TCATATTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.12
20 3 0.08
21 20 0.50
22 12 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTAAATAATTATAATTAAA
Found at i:2999623 original size:19 final size:18
Alignment explanation
Indices: 2999601--2999636 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2999591 ATTATATATA
2999601 AAAAATTATTTTATAAAAG
1 AAAAA-TATTTTATAAAAG
*
2999620 AAAAATATTTTTTAAAA
1 AAAAATATTTTATAAAA
2999637 ATGGGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAAATATTTTATAAAAG
Found at i:2999637 original size:19 final size:20
Alignment explanation
Indices: 2999600--2999637 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2999590 AATTATATAT
2999600 AAAAAATTATTTTATAAAAG
1 AAAAAATTATTTTATAAAAG
2999620 AAAAATATT-TTTTA-AAAA
1 AAAAA-ATTATTTTATAAAA
2999638 TGGGTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 10 0.59
21 3 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAAAATTATTTTATAAAAG
Found at i:3000425 original size:20 final size:18
Alignment explanation
Indices: 3000387--3000429 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
3000377 ATTTACTCGC
3000387 TATTTAATTAATAAAATA
1 TATTTAATTAATAAAATA
**
3000405 TTATTTATATTAATATTATA
1 -TATTTA-ATTAATAAAATA
3000425 TATTT
1 TATTT
3000430 TATAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTAATTAATAAAATA
Found at i:3003538 original size:2 final size:2
Alignment explanation
Indices: 3003531--3003565 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3003521 AAATATGTTG
3003531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3003566 CTATCCGACT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3004232 original size:21 final size:21
Alignment explanation
Indices: 3004206--3004245 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3004196 AAAAAGTTAT
*
3004206 TTTTTAAATAAGAAATAAATA
1 TTTTTAAATAAAAAATAAATA
3004227 TTTTTAAATAAAAAATAAA
1 TTTTTAAATAAAAAATAAA
3004246 AAATTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
TTTTTAAATAAAAAATAAATA
Found at i:3004270 original size:21 final size:21
Alignment explanation
Indices: 3004236--3004278 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
3004226 ATTTTTAAAT
*
3004236 AAAAAATAAAAAATTATTATTA
1 AAAAAATAAAAAATAATT-TTA
3004258 AAAAAAT-AAAAATAATTTTA
1 AAAAAATAAAAAATAATTTTA
3004278 A
1 A
3004279 TTTTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAATAAAAAATAATTTTA
Found at i:3006525 original size:2 final size:2
Alignment explanation
Indices: 3006520--3006548 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3006510 TTTTATATAT
3006520 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3006549 GTTTTTCTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3009954 original size:13 final size:13
Alignment explanation
Indices: 3009936--3009982 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
3009926 TTATTTATAA
3009936 AATTTTTAAAGAT
1 AATTTTTAAAGAT
*
3009949 AATTTTAAAAGAT
1 AATTTTTAAAGAT
* *
3009962 GATTATTAAAGAT
1 AATTTTTAAAGAT
3009975 AATATTTT
1 AAT-TTTT
3009983 TTCATCTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 24 0.89
14 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (13 bp):
AATTTTTAAAGAT
Found at i:3013667 original size:32 final size:33
Alignment explanation
Indices: 3013630--3013691 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
3013620 TATTTTATAA
*
3013630 TTATATAAATTTGGATATATTAATA-ATTTAAT
1 TTATATAAATTTGAATATATTAATATATTTAAT
* *
3013662 TTATATAAATTTTAATATATTTATATATTT
1 TTATATAAATTTGAATATATTAATATATTT
3013692 TTATTATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (33 bp):
TTATATAAATTTGAATATATTAATATATTTAAT
Found at i:3013712 original size:20 final size:20
Alignment explanation
Indices: 3013660--3013713 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
3013650 TAATAATTTA
* *
3013660 ATTTATATAAATTTTAATAT
1 ATTTATATTATTTTTAATAT
*
3013680 ATTTATA-TATTTTTATTAT
1 ATTTATATTATTTTTAATAT
3013699 ATTTATATTATTTTT
1 ATTTATATTATTTTT
3013714 TGGGTCCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTATATTATTTTTAATAT
Found at i:3014220 original size:2 final size:2
Alignment explanation
Indices: 3014209--3014252 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
3014199 ACACACACAC
*
3014209 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
3014251 AT
1 AT
3014253 CCTCTTTCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3015649 original size:22 final size:23
Alignment explanation
Indices: 3015625--3015702 Score: 56
Period size: 22 Copynumber: 3.4 Consensus size: 23
3015615 CATATTATGT
3015625 ATATTATTTTTAATAATTAAAT-
1 ATATTATTTTTAATAATTAAATA
** **
3015647 ATATT-TTTATTAAGTTTTTAGTTA
1 ATATTATTT-TTAA-TAATTAAATA
*
3015671 ATATTATTTTTAA-AATGT-AATG
1 ATATTATTTTTAATAAT-TAAATA
3015693 ATATTATTTT
1 ATATTATTTT
3015703 CATTATAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
21 3 0.07
22 21 0.50
23 6 0.14
24 9 0.21
25 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
ATATTATTTTTAATAATTAAATA
Found at i:3015829 original size:18 final size:19
Alignment explanation
Indices: 3015806--3015842 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
3015796 TTTGAACAAG
3015806 CTTAAT-TTATTT-TTTAAA
1 CTTAATATT-TTTATTTAAA
3015824 CTTAATATTTTTATTTAAA
1 CTTAATATTTTTATTTAAA
3015843 TTCTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
CTTAATATTTTTATTTAAA
Found at i:3017080 original size:24 final size:23
Alignment explanation
Indices: 3017048--3017115 Score: 113
Period size: 22 Copynumber: 3.0 Consensus size: 23
3017038 TACGGCAAGT
3017048 TAATTTTTCTTACATTTATATATA
1 TAATTTTTCTTACA-TTATATATA
3017072 TAATTTTTCTTACATT-TATATA
1 TAATTTTTCTTACATTATATATA
3017094 TAA-TTTTCTTACATTATATATA
1 TAATTTTTCTTACATTATATATA
3017116 AATATAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.28
22 15 0.35
23 2 0.05
24 14 0.33
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (23 bp):
TAATTTTTCTTACATTATATATA
Found at i:3017094 original size:22 final size:22
Alignment explanation
Indices: 3017048--3017116 Score: 106
Period size: 24 Copynumber: 3.1 Consensus size: 22
3017038 TACGGCAAGT
3017048 TAATTTTTCTTACATTTATATATA
1 TAATTTTTCTTACA-TT-TATATA
3017072 TAATTTTTCTTACATTTATATA
1 TAATTTTTCTTACATTTATATA
3017094 TAA-TTTTCTTACA-TTATATA
1 TAATTTTTCTTACATTTATATA
3017114 TAA
1 TAA
3017117 ATATAATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.22
21 10 0.22
22 9 0.20
23 2 0.04
24 14 0.31
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTTTTCTTACATTTATATA
Found at i:3020297 original size:11 final size:11
Alignment explanation
Indices: 3020281--3020311 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3020271 CTTTGAGATC
3020281 AAATTTAAATA
1 AAATTTAAATA
*
3020292 AAATTTTAATA
1 AAATTTAAATA
3020303 AAATTTAAA
1 AAATTTAAA
3020312 CTACAACTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAATTTAAATA
Found at i:3022948 original size:16 final size:16
Alignment explanation
Indices: 3022927--3022974 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
3022917 TAATATTTTA
* *
3022927 ATTAATTATAATAAAT
1 ATTAATAATAAAAAAT
3022943 ATTAATAATAAAAAAT
1 ATTAATAATAAAAAAT
* *
3022959 A-AAATAATAAATAAT
1 ATTAATAATAAAAAAT
3022974 A
1 A
3022975 ATCACAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAATAATAAAAAAT
Found at i:3022966 original size:15 final size:15
Alignment explanation
Indices: 3022946--3022975 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3022936 AATAAATATT
3022946 AATAATAAAAAATAA
1 AATAATAAAAAATAA
*
3022961 AATAATAAATAATAA
1 AATAATAAAAAATAA
3022976 TCACAACATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAAAAATAA
Found at i:3023328 original size:2 final size:2
Alignment explanation
Indices: 3023321--3023359 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3023311 GTACATGTAC
3023321 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3023360 AAGAGACATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.