Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold8
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: 6381039
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 22487 characters in sequence are not A, C, G, or T
File 19 of 33
Found at i:2806896 original size:3 final size:3
Alignment explanation
Indices: 2806888--2806916 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2806878 TAATTGTGTT
2806888 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2806917 TTGTCTCTCC
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:2815112 original size:1 final size:1
Alignment explanation
Indices: 2815054--2815103 Score: 100
Period size: 1 Copynumber: 50.0 Consensus size: 1
2815044 AGGCAAAAGG
2815054 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2815104 CTTAAAAAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2816581 original size:18 final size:19
Alignment explanation
Indices: 2816549--2816584 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2816539 TTGAATTAAT
2816549 AATAATATTTCTATTTATA
1 AATAATATTTCTATTTATA
*
2816568 AATATTATTT-TATTTAT
1 AATAATATTTCTATTTAT
2816585 TAGAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
AATAATATTTCTATTTATA
Found at i:2818343 original size:1 final size:1
Alignment explanation
Indices: 2818337--2818361 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2818327 TCTTAATGTT
2818337 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2818362 CACCTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2819309 original size:18 final size:18
Alignment explanation
Indices: 2819291--2819324 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2819281 AAATTTTATA
*
2819291 AATAAAA-ATTATTAAAT
1 AATAAAAGATTAATAAAT
2819308 AATAAAAGATTAATAAA
1 AATAAAAGATTAATAAA
2819325 ATATATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AATAAAAGATTAATAAAT
Found at i:2819811 original size:15 final size:15
Alignment explanation
Indices: 2819791--2819821 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2819781 ATTTATATTT
2819791 TAAAAAAAATTTAAA
1 TAAAAAAAATTTAAA
*
2819806 TAAAAAATATTTAAA
1 TAAAAAAAATTTAAA
2819821 T
1 T
2819822 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAAAAATTTAAA
Found at i:2820122 original size:15 final size:15
Alignment explanation
Indices: 2820082--2820123 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
2820072 AATATTAAAT
2820082 TAATTTCTAAAAAAC
1 TAATTTCTAAAAAAC
2820097 TAAATTT-TAAAAAATC
1 T-AATTTCTAAAAAA-C
2820113 T-ATTTCTAAAA
1 TAATTTCTAAAA
2820124 TATAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATTTCTAAAAAAC
Found at i:2821022 original size:21 final size:19
Alignment explanation
Indices: 2820957--2821055 Score: 92
Period size: 19 Copynumber: 4.9 Consensus size: 19
2820947 AAAATAATTT
2820957 TATTTTTTAAAATTTAATTA
1 TATTTTTTAAAATTTAA-TA
*
2820977 TTATACTATATTATAAATTTAATA
1 -TAT--T-TTTTA-AAATTTAATA
*
2821001 TA-ATTTTAAAATTATAATA
1 TATTTTTTAAAATT-TAATA
* *
2821020 TATTTTTTAAAAATTAATG
1 TATTTTTTAAAATTTAATA
2821039 TATTTTTTAAAATTTAA
1 TATTTTTTAAAATTTAA
2821056 ATAAAAATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.08
19 31 0.48
20 9 0.14
21 3 0.05
23 3 0.05
24 6 0.09
25 8 0.12
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (19 bp):
TATTTTTTAAAATTTAATA
Found at i:2821674 original size:1 final size:1
Alignment explanation
Indices: 2821663--2821708 Score: 83
Period size: 1 Copynumber: 46.0 Consensus size: 1
2821653 GTTGCTATAT
*
2821663 AAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2821709 CAAAGAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.98, C:0.02, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2822793 original size:12 final size:12
Alignment explanation
Indices: 2822776--2822808 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2822766 TTAAGTAATT
2822776 AAAAATAAAATA
1 AAAAATAAAATA
2822788 AAAAAT-AAATA
1 AAAAATAAAATA
*
2822799 AAAAGTAAAA
1 AAAAATAAAA
2822809 AAATTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:2826228 original size:15 final size:16
Alignment explanation
Indices: 2826210--2826253 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
2826200 TCTATTTTTA
2826210 TTATTTATATTA-GGT
1 TTATTTATATTATGGT
2826225 TTATTTATTATTATGGT
1 TTATTTA-TATTATGGT
*
2826242 TTTTTTAT-TTAT
1 TTATTTATATTAT
2826254 TATTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 11 0.42
16 6 0.23
17 9 0.35
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (16 bp):
TTATTTATATTATGGT
Found at i:2826235 original size:18 final size:18
Alignment explanation
Indices: 2826217--2826256 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2826207 TTATTATTTA
2826217 TATTA-GGTTTATTTA-T
1 TATTATGGTTTATTTATT
*
2826233 TATTATGGTTTTTTTATT
1 TATTATGGTTTATTTATT
2826251 TATTAT
1 TATTAT
2826257 TATTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 7 0.33
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (18 bp):
TATTATGGTTTATTTATT
Found at i:2826262 original size:18 final size:17
Alignment explanation
Indices: 2826196--2826294 Score: 71
Period size: 18 Copynumber: 5.6 Consensus size: 17
2826186 TTCTCCGGTA
2826196 ATTATCTATTTTTATTATT
1 ATTAT-TATTTTT-TTATT
*
2826215 -TATATTAGGTTTATTTATT
1 AT-TATTA--TTTTTTTATT
**
2826234 ATTATGGTTTTTTTATTT
1 ATTATTATTTTTTTA-TT
2826252 ATTATTATTTTTTTATT
1 ATTATTATTTTTTTATT
*
2826269 ATGTA--ATTTATTTATT
1 AT-TATTATTTTTTTATT
2826285 ATT-TTATTTT
1 ATTATTATTTT
2826295 CTATATTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
15 1 0.02
16 16 0.25
17 11 0.17
18 20 0.31
19 11 0.17
20 5 0.08
ACGTcount: A:0.24, C:0.01, G:0.05, T:0.70
Consensus pattern (17 bp):
ATTATTATTTTTTTATT
Found at i:2826265 original size:21 final size:21
Alignment explanation
Indices: 2826224--2826293 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
2826214 TTATATTAGG
**
2826224 TTTATTTATTATTATGGTTTT
1 TTTATTTATTATTATTTTTTT
2826245 TTTATTTATTATTATTTTTTT
1 TTTATTTATTATTATTTTTTT
* * * *
2826266 ATTATGTAAT-TTATTTATTAT
1 TTTATTTATTATTATTT-TTTT
2826287 TTTATTT
1 TTTATTT
2826294 TCTATATTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 6 0.15
21 34 0.85
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTATTTATTATTATTTTTTT
Found at i:2826277 original size:16 final size:14
Alignment explanation
Indices: 2826244--2826287 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
2826234 ATTATGGTTT
2826244 TTTTATTTATTATTA
1 TTTT-TTTATTATTA
2826259 TTTTTTTATTATGTAA
1 TTTTTTTATTAT-T-A
*
2826275 TTTATTTATTATT
1 TTTTTTTATTATT
2826288 TTATTTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 8 0.31
15 6 0.23
16 12 0.46
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTTTTATTATTA
Found at i:2833781 original size:22 final size:23
Alignment explanation
Indices: 2833754--2833812 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 23
2833744 CTTTTTTTGA
2833754 ATTAAATAATAATATTTTTATTT
1 ATTAAATAATAATATTTTTATTT
2833777 A-TAAAT-AT--TA-TTTTATTT
1 ATTAAATAATAATATTTTTATTT
*
2833795 ATTAGAATAAAAATATTT
1 ATTA-AATAATAATATTT
2833813 AAAAATAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 11
0.71 0.02 0.27
Matches are distributed among these distances:
18 9 0.31
19 4 0.14
20 3 0.10
21 3 0.10
22 5 0.17
23 3 0.10
24 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTAAATAATAATATTTTTATTT
Found at i:2834568 original size:55 final size:56
Alignment explanation
Indices: 2834504--2834608 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
2834494 TGATTTGAAA
* * *
2834504 AAAATTAAATTAAATTT-GATATTTTAAAATTTAAATTTAAATAATTTTTATTTATT
1 AAAATTAAATAAAATTTAAATATTTTAAAATTT-AATTCAAATAATTTTTATTTATT
* * *
2834560 AAAA-TAAATAAAATTTAAATATTTTAATATTTGATTCAAGTAATTTTTA
1 AAAATTAAATAAAATTTAAATATTTTAAAATTTAATTCAAATAATTTTTA
2834609 AATTTAGTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 25 0.60
56 17 0.40
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (56 bp):
AAAATTAAATAAAATTTAAATATTTTAAAATTTAATTCAAATAATTTTTATTTATT
Found at i:2834634 original size:10 final size:10
Alignment explanation
Indices: 2834603--2834636 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2834593 ATTCAAGTAA
2834603 TTTTTAAATT
1 TTTTTAAATT
**
2834613 TAGTTAAATT
1 TTTTTAAATT
2834623 TTTTTAAATT
1 TTTTTAAATT
2834633 TTTT
1 TTTT
2834637 AATTAATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:2834638 original size:19 final size:20
Alignment explanation
Indices: 2834602--2834656 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
2834592 GATTCAAGTA
*
2834602 ATTTTTAAATTTAGTTAAATT
1 ATTTTTAAATTT-TTTAAATT
2834623 -TTTTTAAATTTTTT-AATT
1 ATTTTTAAATTTTTTAAATT
* *
2834641 AATATTAAATTTTTTA
1 ATTTTTAAATTTTTTA
2834657 TTAAAACTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.14
19 14 0.48
20 11 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTTAAATTTTTTAAATT
Found at i:2834659 original size:18 final size:20
Alignment explanation
Indices: 2834626--2834671 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
2834616 TTAAATTTTT
*
2834626 TTAAATTTTTTAATTAATA-
1 TTAAATTTTTTAATTAAAAC
2834645 TTAAATTTTTT-ATTAAAAC
1 TTAAATTTTTTAATTAAAAC
2834664 TTAAATTT
1 TTAAATTT
2834672 AAATATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAAATTTTTTAATTAAAAC
Found at i:2834699 original size:19 final size:19
Alignment explanation
Indices: 2834665--2834716 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
2834655 TATTAAAACT
2834665 TAAATTT-AAATATAAATAA
1 TAAATTTAAAATATAAAT-A
2834684 TAAATTTAAAAT-TAAATA
1 TAAATTTAAAATATAAATA
*
2834702 TGAAAATTAAAATAT
1 T-AAATTTAAAATAT
2834717 TTTTTATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.07
19 22 0.76
20 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAATTTAAAATATAAATA
Found at i:2834707 original size:13 final size:12
Alignment explanation
Indices: 2834665--2834712 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
2834655 TATTAAAACT
*
2834665 TAAATTTAAATA
1 TAAAATTAAATA
* *
2834677 TAAATAATAAATT
1 TAAA-ATTAAATA
2834690 TAAAATTAAATA
1 TAAAATTAAATA
2834702 TGAAAATTAAA
1 T-AAAATTAAA
2834713 ATATTTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
TAAAATTAAATA
Found at i:2836262 original size:30 final size:29
Alignment explanation
Indices: 2836169--2836264 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
2836159 ATAATTTTTA
* * *
2836169 AAAATAAT-TATTTTATACAT-TAATTAT
1 AAAATAATAAATTTTATAAATAAAATTAT
*
2836196 AAAATAACAAATTTTATAAATAAAATTAT
1 AAAATAATAAATTTTATAAATAAAATTAT
* * *
2836225 TAAATAATAAATATTTAATAAATATATTTA-
1 AAAATAATAAAT-TTT-ATAAATAAAATTAT
2836255 AAAATAATAA
1 AAAATAATAA
2836265 TAAATAAATA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 7 0.12
28 10 0.18
29 16 0.29
30 12 0.21
31 11 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
AAAATAATAAATTTTATAAATAAAATTAT
Found at i:2836267 original size:22 final size:21
Alignment explanation
Indices: 2836240--2836293 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
2836230 AATAAATATT
2836240 TAATAAATATATTTAAAAATAA
1 TAATAAATATATTT-AAAATAA
*
2836262 TAATAAATA-A-ATAAAATAA
1 TAATAAATATATTTAAAATAA
*
2836281 -AATACATATATTT
1 TAATAAATATATTT
2836294 TATAACTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 7 0.26
19 8 0.30
20 2 0.07
21 1 0.04
22 9 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TAATAAATATATTTAAAATAA
Found at i:2836685 original size:12 final size:14
Alignment explanation
Indices: 2836645--2836701 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 14
2836635 TATTTATTAG
*
2836645 TAAAAA-ATTAA-A
1 TAAAAATATTAATT
2836657 TAAAAATATTAATT
1 TAAAAATATTAATT
2836671 TAAAAATA-T-ATT
1 TAAAAATATTAATT
*
2836683 TAAATAAAATTATATT
1 TAAA-AATATTA-ATT
2836699 TAA
1 TAA
2836702 GTTAAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 13 0.35
13 9 0.24
14 9 0.24
16 6 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAAAATATTAATT
Found at i:2836686 original size:30 final size:31
Alignment explanation
Indices: 2836652--2836714 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 31
2836642 TAGTAAAAAA
*
2836652 TTAAATAAAA-ATA-TTAATTTAAAAATATAT
1 TTAAATAAAATATATTTAAGTTAAAAA-ATAT
2836682 TTAAATAAAATTATATTTAAGTTAAAAAATAT
1 TTAAATAAAA-TATATTTAAGTTAAAAAATAT
2836714 T
1 T
2836715 GAGTTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 10 0.34
32 8 0.28
33 11 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
TTAAATAAAATATATTTAAGTTAAAAAATAT
Found at i:2836690 original size:16 final size:17
Alignment explanation
Indices: 2836671--2836714 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
2836661 AATATTAATT
2836671 TAAAAATATATTTAA-A
1 TAAAAATATATTTAAGA
* *
2836687 TAAAATTATATTTAAGT
1 TAAAAATATATTTAAGA
2836704 TAAAAA-ATATT
1 TAAAAATATATT
2836715 GAGTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAAAATATATTTAAGA
Found at i:2837732 original size:18 final size:17
Alignment explanation
Indices: 2837682--2837769 Score: 81
Period size: 18 Copynumber: 4.9 Consensus size: 17
2837672 AATAATTTTA
2837682 TTTAAATTTAATTATAAT
1 TTTAAATTTAA-TATAAT
2837700 ATATTAATATTTAATATAAT
1 -T-TTAA-ATTTAATATAAT
*
2837720 TTTAAATTATAATATATTT
1 TTTAAATT-TAATATA-AT
* *
2837739 TTTAAAATTAAT-TTAT
1 TTTAAATTTAATATAAT
2837755 TTTAAATTTAA-ATAA
1 TTTAAATTTAATATAA
2837770 AAATAAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
16 13 0.22
17 4 0.07
18 15 0.26
19 10 0.17
20 10 0.17
21 6 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAATATAAT
Found at i:2838938 original size:15 final size:15
Alignment explanation
Indices: 2838920--2839011 Score: 54
Period size: 15 Copynumber: 6.3 Consensus size: 15
2838910 TAATTGGGAT
2838920 AAATTTAAATTTAAA
1 AAATTTAAATTTAAA
*
2838935 AAATATT-TATTT-AA
1 AAAT-TTAAATTTAAA
*
2838949 AAA-TT-AATTTATAC
1 AAATTTAAATTTA-AA
2838963 AAA-TTAAA--TAAA
1 AAATTTAAATTTAAA
* *
2838975 TAATTTAATATTTAGAT
1 AAATTTAA-ATTTA-AA
*
2838992 AAATTTAATTTTAAA
1 AAATTTAAATTTAAA
2839007 AAATT
1 AAATT
2839012 AGGATATTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
12 9 0.15
13 6 0.10
14 12 0.20
15 16 0.27
16 8 0.14
17 8 0.14
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (15 bp):
AAATTTAAATTTAAA
Found at i:2839387 original size:29 final size:30
Alignment explanation
Indices: 2839329--2839413 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 30
2839319 TAAAATAAAA
*
2839329 TAAATAAAAAA-TTAAATTTTTATTATTTT
1 TAAATAAAAAATTTAAATTTTTATTAATTT
2839358 TAAATAATAAAATTTAAA-TTTT-TTAATTT
1 TAAATAA-AAAATTTAAATTTTTATTAATTT
* * *
2839387 TATATTAAAAATTTAAAATATTTATTA
1 TAAATAAAAAATTT-AAATTTTTATTA
2839414 TTTAATTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
28 7 0.15
29 21 0.45
30 11 0.23
31 8 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TAAATAAAAAATTTAAATTTTTATTAATTT
Found at i:2840883 original size:14 final size:14
Alignment explanation
Indices: 2840864--2840890 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2840854 TAATTGTGTT
2840864 TTATTATTATTATA
1 TTATTATTATTATA
2840878 TTATTATTATTAT
1 TTATTATTATTAT
2840891 TTTGTCTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:2846133 original size:8 final size:9
Alignment explanation
Indices: 2846104--2846165 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 9
2846094 ATATTTTATA
2846104 AAATATAAT
1 AAATATAAT
2846113 ATAATATAA-
1 A-AATATAAT
2846122 AAATA-AAT
1 AAATATAAT
2846130 AAATAT-AT
1 AAATATAAT
*
2846138 AAATATTTTAAA
1 AAATA---TAAT
2846150 AAATAT-AT
1 AAATATAAT
2846158 AAATATAA
1 AAATATAA
2846166 AATAATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
7 2 0.05
8 23 0.53
9 4 0.09
10 7 0.16
11 1 0.02
12 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAATATAAT
Found at i:2846134 original size:16 final size:18
Alignment explanation
Indices: 2846103--2846143 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
2846093 AATATTTTAT
2846103 AAAATATAATATAATATA
1 AAAATATAATATAATATA
2846121 AAAATA-AATA-AATATA
1 AAAATATAATATAATATA
*
2846137 TAAATAT
1 AAAATAT
2846144 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.52
17 4 0.19
18 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATATAATATAATATA
Found at i:2846137 original size:28 final size:29
Alignment explanation
Indices: 2846101--2846169 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 29
2846091 AAAATATTTT
2846101 ATAAA-ATATAATATAATAT-AAAAATAA
1 ATAAATATATAATATAATATAAAAAATAA
* * *
2846128 ATAAATATATAA-ATATTTTAAAAAATAT
1 ATAAATATATAATATAATATAAAAAATAA
*
2846156 ATAAATATAAAATA
1 ATAAATATATAATA
2846170 ATTAAGCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 10 0.29
28 24 0.69
29 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
ATAAATATATAATATAATATAAAAAATAA
Found at i:2846155 original size:20 final size:21
Alignment explanation
Indices: 2846125--2846163 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2846115 AATATAAAAA
2846125 TAAATAAATATATAAATATTT
1 TAAATAAATATATAAATATTT
2846146 TAAA-AAATATATAAATAT
1 TAAATAAATATATAAATAT
2846164 AAAATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATAAATATATAAATATTT
Found at i:2846558 original size:2 final size:2
Alignment explanation
Indices: 2846551--2846590 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2846541 GATCAGAAGA
2846551 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
2846591 GAAAACCAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2847985 original size:17 final size:16
Alignment explanation
Indices: 2847944--2847986 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
2847934 AAAAACTAAC
*
2847944 TAATATATTTTTATAA
1 TAATATAATTTTATAA
*
2847960 TAATAATAATTTTATAT
1 TAAT-ATAATTTTATAA
2847977 TAAATATAAT
1 T-AATATAAT
2847987 AATTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 16 0.70
18 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATATAATTTTATAA
Found at i:2850105 original size:13 final size:13
Alignment explanation
Indices: 2850089--2850113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2850079 AATAAAACTC
2850089 AAATATAAATATT
1 AAATATAAATATT
2850102 AAATATAAATAT
1 AAATATAAATAT
2850114 ATATCTAATA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATATAAATATT
Found at i:2850106 original size:7 final size:6
Alignment explanation
Indices: 2850089--2850130 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
2850079 AATAAAACTC
* *
2850089 AAATAT AAATATT AAATAT AAATAT ATATCT -AATAT AAATAT
1 AAATAT AAATA-T AAATAT AAATAT AAATAT AAATAT AAATAT
2850131 TTTTTATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 3 0.10
6 21 0.70
7 6 0.20
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (6 bp):
AAATAT
Found at i:2853530 original size:23 final size:23
Alignment explanation
Indices: 2853507--2853550 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2853497 CAAAAACATA
2853507 AAATA-AATATAATACATTTAAT
1 AAATATAATATAATACATTTAAT
* *
2853529 AAATATAATATTATATATTTAA
1 AAATATAATATAATACATTTAA
2853551 ATATAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATATAATATAATACATTTAAT
Found at i:2853621 original size:22 final size:22
Alignment explanation
Indices: 2853575--2853615 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2853565 AAATTTGTTA
2853575 ATTTAATATATATAATATTTAT
1 ATTTAATATATATAATATTTAT
*
2853597 ATTTAATAT-TTTAATATTT
1 ATTTAATATATATAATATTT
2853616 TTTATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTAATATATATAATATTTAT
Found at i:2854805 original size:111 final size:111
Alignment explanation
Indices: 2854673--2854901 Score: 291
Period size: 111 Copynumber: 2.1 Consensus size: 111
2854663 AAATTCCACC
* * * * *
2854673 TATTTTA-TTATTCTTTTTCATTGCATATCTTCATTTCTCTTCATCCATTCTTCGAATTCTCCT-
1 TATTTTATTTATTATTTTTCATTACATATCTTCATTTCTATTCATACATTCTTCGAACTCT-CTA
* * *
2854736 TTTACGATTTAAAAATCCATCAATAATATTATAACTATAATTGATAT
65 TTTACGATTTAAAAATCCATCAACAATACTACAACTATAATTGATAT
* ** *
2854783 TATTTTATTTATTATTTTTCATTACATATCTTCATTTTTATTCATATTTTTTTCGAACTCTCTAT
1 TATTTTATTTATTATTTTTCATTACATATCTTCATTTCTATTCATACATTCTTCGAACTCTCTAT
* * * *
2854848 TTATGATTTAAAAATCCATTAACAATACTACAATTATTATTGATAT
66 TTACGATTTAAAAATCCATCAACAATACTACAACTATAATTGATAT
2854894 TATTTTAT
1 TATTTTAT
2854902 AAACTTTTAC
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
110 9 0.09
111 92 0.91
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (111 bp):
TATTTTATTTATTATTTTTCATTACATATCTTCATTTCTATTCATACATTCTTCGAACTCTCTAT
TTACGATTTAAAAATCCATCAACAATACTACAACTATAATTGATAT
Found at i:2857709 original size:2 final size:2
Alignment explanation
Indices: 2857702--2857732 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2857692 ACAAACTTAT
2857702 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
2857733 GATCAGCATC
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:2858900 original size:23 final size:23
Alignment explanation
Indices: 2858874--2858917 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2858864 TATAAGTTAT
*
2858874 TAATTTTTTA-ATTTATATTTAAA
1 TAATTTTTAATATTTA-ATTTAAA
2858897 TAATTTTTAATATTTAATTTA
1 TAATTTTTAATATTTAATTTA
2858918 TATTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAATTTTTAATATTTAATTTAAA
Found at i:2858952 original size:30 final size:30
Alignment explanation
Indices: 2858878--2858959 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
2858868 AGTTATTAAT
**
2858878 TTTTTAATTTATATTTAAAT-AATTTTTAA
1 TTTTTAATTTATATTTAAATAAATTCATAA
*
2858907 TATTTAATTTATATTTAAATAAATTCATAA
1 TTTTTAATTTATATTTAAATAAATTCATAA
2858937 TTTTTAAGTTT-TATTTAAATAAA
1 TTTTTAA-TTTATATTTAAATAAA
2858960 GATTTATTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 19 0.40
30 25 0.53
31 3 0.06
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTTTAATTTATATTTAAATAAATTCATAA
Found at i:2859044 original size:25 final size:25
Alignment explanation
Indices: 2858987--2859040 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
2858977 TATTTTATTT
2858987 AAAATAAATTTAATTAGAATCAAAGA
1 AAAAT-AATTTAATTAGAATCAAAGA
* * *
2859013 ATAATAATTTATTTAGATTC-AAGA
1 AAAATAATTTAATTAGAATCAAAGA
2859037 AAAA
1 AAAA
2859041 ATAAAGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 7 0.29
25 13 0.54
26 4 0.17
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (25 bp):
AAAATAATTTAATTAGAATCAAAGA
Found at i:2859766 original size:24 final size:23
Alignment explanation
Indices: 2859727--2859773 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
2859717 ATAATTACTA
*
2859727 TTTTATTTTTAAATATTTTATAT
1 TTTTATTTTTAAATATTATATAT
2859750 TTTTATTTTTAATATATTATATAT
1 TTTTATTTTTAA-ATATTATATAT
2859774 ACAAAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTATTTTTAAATATTATATAT
Found at i:2859789 original size:17 final size:17
Alignment explanation
Indices: 2859767--2859808 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
2859757 TTTAATATAT
2859767 TATATATACAAAAATCA
1 TATATATACAAAAATCA
* *
2859784 TATATATACTAAAATTA
1 TATATATACAAAAATCA
*
2859801 TATTTATA
1 TATATATA
2859809 AGTAAATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
TATATATACAAAAATCA
Found at i:2860401 original size:2 final size:2
Alignment explanation
Indices: 2860394--2860422 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2860384 ACCAAAAGCC
2860394 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2860423 AATATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2860967 original size:32 final size:33
Alignment explanation
Indices: 2860905--2860968 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2860895 AGATAATAAA
2860905 ATTATTTATAAAATTAGTTTTAAATTATATTTT
1 ATTATTTATAAAATTAGTTTTAAATTATATTTT
*
2860938 ATTATTTA-AAAATTA-TTTTATATTAATATTT
1 ATTATTTATAAAATTAGTTTTAAATT-ATATTT
2860969 ATATATTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 8 0.28
32 13 0.45
33 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
ATTATTTATAAAATTAGTTTTAAATTATATTTT
Found at i:2861150 original size:2 final size:2
Alignment explanation
Indices: 2861145--2861187 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
2861135 CTATACATAC
* *
2861145 AT AT AT AC AT AC 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
2861187 A
1 A
2861188 CACACACAGC
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:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:2861153 original size:12 final size:12
Alignment explanation
Indices: 2861136--2861189 Score: 72
Period size: 12 Copynumber: 4.5 Consensus size: 12
2861126 AAAAAAGCAC
2861136 TATACATACATA
1 TATACATACATA
2861148 TATACATACATA
1 TATACATACATA
* *
2861160 TATATATATATA
1 TATACATACATA
* *
2861172 TATATATATATA
1 TATACATACATA
2861184 TATACA
1 TATACA
2861190 CACACAGCCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (12 bp):
TATACATACATA
Found at i:2861422 original size:40 final size:37
Alignment explanation
Indices: 2861337--2861426 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 37
2861327 TCAAATTCGT
* *
2861337 TAAAATAAAATAAAATTATGAAAAAATAATTAATTTA
1 TAAAATAAAATAAAATAATGAAAAAATAATTAATTGA
2861374 TAAGAATAAAATAAAATAAT-AATAATAATAATTTAATTGA
1 TAA-AATAAAATAAAATAATGAA-AA-AATAA-TTAATTGA
*
2861414 GTGAAATAAAATA
1 -TAAAATAAAATA
2861427 TTATATAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
37 5 0.11
38 17 0.38
39 5 0.11
40 16 0.36
41 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (37 bp):
TAAAATAAAATAAAATAATGAAAAAATAATTAATTGA
Found at i:2863935 original size:15 final size:15
Alignment explanation
Indices: 2863915--2863957 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
2863905 TCAAGTTCTC
* *
2863915 TTTTAAATTTATTTT
1 TTTTAAATTTAATTA
2863930 TTTTAAATTTTAATTA
1 TTTTAAA-TTTAATTA
2863946 TTTTAAATTTAA
1 TTTTAAATTTAA
2863958 ATTCTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTAAATTTAATTA
Found at i:2863956 original size:22 final size:22
Alignment explanation
Indices: 2863931--2863976 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
2863921 ATTTATTTTT
2863931 TTTAAATT-TTAATTATTTTAAA
1 TTTAAATTCTTAATT-TTTTAAA
2863953 TTTAAATTCTTAATTTTTTAAA
1 TTTAAATTCTTAATTTTTTAAA
2863975 TT
1 TT
2863977 ATTTTAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTAAATTCTTAATTTTTTAAA
Found at i:2864140 original size:2 final size:2
Alignment explanation
Indices: 2864133--2864163 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2864123 GCTTCTTATT
2864133 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
2864164 TAATCTACTC
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:2864241 original size:15 final size:15
Alignment explanation
Indices: 2864221--2864254 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2864211 AAAAATATTA
*
2864221 TAAATTTAAAACTTT
1 TAAATTCAAAACTTT
*
2864236 TAAATTCATAACTTT
1 TAAATTCAAAACTTT
2864251 TAAA
1 TAAA
2864255 ATTTTAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAATTCAAAACTTT
Found at i:2867866 original size:32 final size:32
Alignment explanation
Indices: 2867830--2867902 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
2867820 TATATAAAAA
2867830 ATAAATATTTATATA-TTAATAATTTATTTTAT
1 ATAAATATTTATATATTTAATAATTT-TTTTAT
* * *
2867862 ATAAAT-TTAAATATATTTATTTATTTTTTTAT
1 ATAAATATT-TATATATTTAATAATTTTTTTAT
2867894 AT-AATATTT
1 ATAAATATTT
2867903 TTTAAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
31 5 0.15
32 21 0.62
33 8 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
ATAAATATTTATATATTTAATAATTTTTTTAT
Found at i:2868194 original size:3 final size:3
Alignment explanation
Indices: 2868186--2868217 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2868176 TTTATTGCTT
2868186 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2868218 GCCCTTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2868558 original size:23 final size:21
Alignment explanation
Indices: 2868510--2868606 Score: 65
Period size: 21 Copynumber: 4.5 Consensus size: 21
2868500 ACGATTCAAG
* *
2868510 ATATTTTTAT-TAATTAATATG
1 ATATATTTATATAA-TAATATT
*
2868531 GTATATTTAATATAATAATAGTT
1 ATATATTT-ATATAATAATA-TT
* *
2868554 ATATAATTTATATAAAAATAACT
1 ATAT-ATTTATATAATAAT-ATT
*
2868577 A-ATATGTATAT-ATAATATT
1 ATATATTTATATAATAATATT
2868596 ATTATATTTAT
1 A-TATATTTAT
2868607 TTTTATGATG
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.05
20 4 0.07
21 20 0.34
22 9 0.15
23 18 0.31
24 5 0.08
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (21 bp):
ATATATTTATATAATAATATT
Found at i:2869741 original size:2 final size:2
Alignment explanation
Indices: 2869734--2869758 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2869724 AATTTGAAAC
2869734 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 A
2869759 CACATATCGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2869917 original size:10 final size:11
Alignment explanation
Indices: 2869886--2869917 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
2869876 ATTGGGAAGT
2869886 GTGGGGT-GGG
1 GTGGGGTGGGG
2869896 GTGGGGTGGGG
1 GTGGGGTGGGG
2869907 GT-GGGTGGGG
1 GTGGGGTGGGG
2869917 G
1 G
2869918 GGAAAGGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 16 0.76
11 5 0.24
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (11 bp):
GTGGGGTGGGG
Found at i:2870140 original size:13 final size:12
Alignment explanation
Indices: 2870115--2870171 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
2870105 CGTTTTTAAT
*
2870115 ATATTTA-AAAA
1 ATATTTATATAA
2870126 ATAATTTATATAA
1 AT-ATTTATATAA
*
2870139 ATAATTTACATAA
1 AT-ATTTATATAA
*
2870152 ATATTAGATATAA
1 ATATT-TATATAA
2870165 ATATTTA
1 ATATTTA
2870172 CAAAAATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
11 2 0.05
12 9 0.24
13 27 0.71
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
ATATTTATATAA
Found at i:2870141 original size:26 final size:27
Alignment explanation
Indices: 2870112--2870178 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 27
2870102 TTACGTTTTT
*
2870112 AATATATTTA-AAAAATAATT-TATATA
1 AATATATTTACAAAAAT-ATTAGATATA
*
2870138 AATA-ATTTACATAAATATTAGATAT-
1 AATATATTTACAAAAATATTAGATATA
2870163 AA-ATATTTACAAAAAT
1 AATATATTTACAAAAAT
2870179 TAAGATAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
24 1 0.03
25 21 0.60
26 13 0.37
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (27 bp):
AATATATTTACAAAAATATTAGATATA
Found at i:2870170 original size:25 final size:25
Alignment explanation
Indices: 2870133--2870185 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 25
2870123 AAAATAATTT
2870133 ATATAAATAATTTACATAAATATT-AG
1 ATATAAATAATTTACA-AAA-ATTAAG
2870159 ATATAAAT-ATTTACAAAAATTAAG
1 ATATAAATAATTTACAAAAATTAAG
2870183 ATA
1 ATA
2870186 ACATTGTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 3 0.12
24 8 0.31
25 7 0.27
26 8 0.31
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (25 bp):
ATATAAATAATTTACAAAAATTAAG
Found at i:2872905 original size:21 final size:19
Alignment explanation
Indices: 2872869--2872907 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
2872859 AAAATTTGAT
2872869 TAAATTAAAATTTAAACTC
1 TAAATTAAAATTTAAACTC
2872888 TAAACTTAAAAGTTTAAACT
1 TAAA-TTAAAA-TTTAAACT
2872908 TAATTAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (19 bp):
TAAATTAAAATTTAAACTC
Found at i:2875211 original size:26 final size:25
Alignment explanation
Indices: 2875182--2875242 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
2875172 ATGTATTTAA
*
2875182 AAATATGATATAAA-ATAAAATATTTT
1 AAATAT-ATATAAACATAAAA-ATATT
* *
2875208 AAATATAAATAAACTTAAAAATATT
1 AAATATATATAAACATAAAAATATT
2875233 AAATATATAT
1 AAATATATAT
2875243 TTATATTCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 19 0.63
26 11 0.37
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
AAATATATATAAACATAAAAATATT
Found at i:2876744 original size:5 final size:5
Alignment explanation
Indices: 2876733--2876771 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
2876723 AGAAATTTAA
*
2876733 TTATT TTGTT TTATT TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTAT
2876772 AATTAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:2881537 original size:2 final size:2
Alignment explanation
Indices: 2881530--2881557 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2881520 TGCCCACTAC
2881530 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
2881558 CACACAAGAT
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:2881720 original size:21 final size:21
Alignment explanation
Indices: 2881683--2881722 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2881673 AATAATATAT
*
2881683 TTTTTATTATTAAATTTTTAA
1 TTTTTATTATCAAATTTTTAA
2881704 TTTTTA-TATCAATATTTTT
1 TTTTTATTATCAA-ATTTTT
2881723 TACTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTATTATCAAATTTTTAA
Found at i:2893598 original size:16 final size:16
Alignment explanation
Indices: 2893577--2893610 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2893567 TCGAATGCTT
2893577 TAAAA-TAAATAAATAA
1 TAAAATTAAATAAA-AA
2893593 TAAAATTAAATAAAAA
1 TAAAATTAAATAAAAA
2893609 TA
1 TA
2893611 TTATGCTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAATTAAATAAAAA
Found at i:2894134 original size:14 final size:14
Alignment explanation
Indices: 2894115--2894157 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
2894105 ATTAAAATAT
2894115 TATTTATATATTAA
1 TATTTATATATTAA
2894129 TATTTATATA-T-A
1 TATTTATATATTAA
2894141 T-TTTATA-ATTAA
1 TATTTATATATTAA
2894153 -ATTTA
1 TATTTA
2894158 AAAAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 1 0.04
11 7 0.27
12 7 0.27
13 1 0.04
14 10 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTATATATTAA
Found at i:2909156 original size:1 final size:1
Alignment explanation
Indices: 2909150--2909174 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2909140 GAAGGATCAG
2909150 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
2909175 TTTTTCCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:2916776 original size:14 final size:14
Alignment explanation
Indices: 2916759--2916808 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
2916749 AAAAATAATT
2916759 TTTAAAAATTTTTA
1 TTTAAAAATTTTTA
2916773 TTT--AAATTTTT-
1 TTTAAAAATTTTTA
*
2916784 TTTAAAAATTTATA
1 TTTAAAAATTTTTA
2916798 TTTAAAAATTT
1 TTTAAAAATTT
2916809 ATAATTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 3 0.09
12 8 0.25
13 7 0.22
14 14 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAAAAATTTTTA
Found at i:2916779 original size:25 final size:25
Alignment explanation
Indices: 2916751--2916808 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
2916741 ACATAATAAA
*
2916751 AAATAATTTTTAAAAATTTTTATTT
1 AAATAATTTTTAAAAATTTATATTT
**
2916776 AAATTTTTTTTAAAAATTTATATTT
1 AAATAATTTTTAAAAATTTATATTT
2916801 AAA-AATTT
1 AAATAATTT
2916809 ATAATTTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATAATTTTTAAAAATTTATATTT
Found at i:2916822 original size:14 final size:14
Alignment explanation
Indices: 2916759--2916816 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
2916749 AAAAATAATT
*
2916759 TTTAAAAATTTTTA
1 TTTAAAAATTTATA
*
2916773 TTT--AAATTT-TT
1 TTTAAAAATTTATA
2916784 TTTAAAAATTTATA
1 TTTAAAAATTTATA
2916798 TTTAAAAATTTATAA
1 TTTAAAAATTTAT-A
2916813 TTTA
1 TTTA
2916817 TAATTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
11 4 0.11
12 6 0.16
13 6 0.16
14 17 0.45
15 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAAAAATTTATA
Found at i:2916826 original size:39 final size:39
Alignment explanation
Indices: 2916754--2916840 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 39
2916744 TAATAAAAAA
* *
2916754 TAATTTTTAAAAATTTTTATTTAAATTTTTTTTAAAAATT
1 TAATATTTAAAAATTTTAATTTAAA-TTTTTTTAAAAATT
*
2916794 T-ATATTTAAAAATTTATAATTTATAA-TTTTTTAATAATT
1 TAATATTTAAAAATTT-TAATTTA-AATTTTTTTAAAAATT
2916833 TAATATTT
1 TAATATTT
2916841 TTATTATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
39 26 0.63
40 13 0.32
41 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (39 bp):
TAATATTTAAAAATTTTAATTTAAATTTTTTTAAAAATT
Found at i:2928302 original size:15 final size:18
Alignment explanation
Indices: 2928267--2928316 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
2928257 ATTTAAATAA
2928267 AATTAAATTATTATATAT
1 AATTAAATTATTATATAT
2928285 AATTAAATTATT-T-T-T
1 AATTAAATTATTATATAT
2928300 AATTAAAATTAATTATA
1 AATT-AAATT-ATTATA
2928317 AAAATATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 4 0.14
18 13 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTAAATTATTATATAT
Found at i:2929005 original size:2 final size:2
Alignment explanation
Indices: 2929000--2929032 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2928990 CTAATCCCAA
2929000 TC TC 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 TC TC T
2929033 TTCGTCTTTC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2931312 original size:84 final size:85
Alignment explanation
Indices: 2931167--2931410 Score: 409
Period size: 88 Copynumber: 2.8 Consensus size: 85
2931157 ATTTTAATCT
*
2931167 AGCTCATTGTAGACTCTGGAAGTACCTATCTGATACTGCAATCTTTTTCTTTCTTTCCTTTTTTT
1 AGCTCATTGTAGACTCTGGAAGTAGCTATCTGATACTGCAATCTTTTTCTTTCTTTCCTTTTTTT
2931232 TTTTTTTTT-AATTTATATA
66 TTTTTTTTTAAATTTATATA
*
2931251 AGCTCATTGTAGACTCTGGAAGTAGCTATCTGATACTGCAATCTTTTTCTTTCTTTTCTTTTTTT
1 AGCTCATTGTAGACTCTGGAAGTAGCTATCTGATACTGCAATCTTTTTCTTTC-TTTC-CTTTTT
*
2931316 TTTTTTTTTTTAAAATTTATCTA
64 TTTTTTTTTTT-AAATTTATATA
* *
2931339 AGCTCATTGTAGATTCTGGAAGTAGCTATCTGATACTGCAATCTTTTTCTTTCTTTCCTTTTTTA
1 AGCTCATTGTAGACTCTGGAAGTAGCTATCTGATACTGCAATCTTTTTCTTTCTTTCCTTTTTTT
2931404 TTTTTTT
66 TTTTTTT
2931411 CCAATTTGGT
Statistics
Matches: 150, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
84 52 0.35
85 4 0.03
86 29 0.19
87 4 0.03
88 61 0.41
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.54
Consensus pattern (85 bp):
AGCTCATTGTAGACTCTGGAAGTAGCTATCTGATACTGCAATCTTTTTCTTTCTTTCCTTTTTTT
TTTTTTTTTAAATTTATATA
Found at i:2934212 original size:16 final size:17
Alignment explanation
Indices: 2934191--2934224 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2934181 ATATATAAAA
2934191 AAATTAAA-AAAAATTT
1 AAATTAAATAAAAATTT
*
2934207 AAATTAAATAAATATTT
1 AAATTAAATAAAAATTT
2934224 A
1 A
2934225 TATTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTAAATAAAAATTT
Found at i:2942327 original size:19 final size:19
Alignment explanation
Indices: 2942305--2942347 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
2942295 AAAATATTTT
2942305 TATTTAAT-TTAATTATAAA
1 TATTTAATATTAA-TATAAA
2942324 TA-TTAATATTAATATAAA
1 TATTTAATATTAATATAAA
*
2942342 AATTTA
1 TATTTA
2942348 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTTAATATTAATATAAA
Found at i:2951488 original size:15 final size:15
Alignment explanation
Indices: 2951468--2951499 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2951458 ATTTGCTAGA
2951468 GTATGAAAGAGTGTT
1 GTATGAAAGAGTGTT
2951483 GTATGAAAGAGTGTT
1 GTATGAAAGAGTGTT
2951498 GT
1 GT
2951500 CCGTATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (15 bp):
GTATGAAAGAGTGTT
Found at i:2953381 original size:17 final size:19
Alignment explanation
Indices: 2953361--2953400 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
2953351 TAAATTTTAT
2953361 TTATAAATCGA-TTTGA-G
1 TTATAAATCGAGTTTGAGG
*
2953378 TTATAAATTGAGTTTGAGG
1 TTATAAATCGAGTTTGAGG
2953397 TTAT
1 TTAT
2953401 TTTTTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 5 0.25
19 5 0.25
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (19 bp):
TTATAAATCGAGTTTGAGG
Found at i:2954139 original size:2 final size:2
Alignment explanation
Indices: 2954132--2954160 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2954122 TCACATAAAT
2954132 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
2954161 TTAGCCTATG
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:2970550 original size:21 final size:20
Alignment explanation
Indices: 2970524--2970583 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
2970514 TTTTCTTTTC
2970524 TAAAATTAAAATATTATATCA
1 TAAAATTAAAATATTATAT-A
* * *
2970545 TAAAATTTTTATATTTTATATA
1 TAAAA--TTAAAATATTATATA
*
2970567 TAATATTAAAATATTAT
1 TAAAATTAAAATATTAT
2970584 TTACTTTTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
20 9 0.30
21 5 0.17
22 5 0.17
23 11 0.37
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAAATTAAAATATTATATA
Found at i:2985705 original size:5 final size:5
Alignment explanation
Indices: 2985689--2985756 Score: 56
Period size: 5 Copynumber: 14.2 Consensus size: 5
2985679 ATCGTAATTT
*
2985689 TTATA TTTATA TTATA TTA-A -TATA TTTTA TTATA TTATAA TTATA -TATA
1 TTATA -TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A TTATA TTATA
* *
2985738 ATATA TTTTA -TAT- TTATA T
1 TTATA TTATA TTATA TTATA T
2985757 AAATTTTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
3 2 0.04
4 11 0.22
5 28 0.55
6 10 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:2985716 original size:27 final size:26
Alignment explanation
Indices: 2985687--2985771 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 26
2985677 ATATCGTAAT
2985687 TTTTATATTTATATTATATTAATATA
1 TTTTATATTTATATTATATTAATATA
2985713 TTTTATTATATTATAATTATATATAATATA
1 TTTTA-TAT-TTAT-ATTATAT-TAATATA
* *
2985743 TTTTATATTTATATAAATTTTAATATA
1 TTTTATATTTATAT-TATATTAATATA
2985770 TT
1 TT
2985772 AATATTTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.10
27 14 0.27
28 11 0.21
29 10 0.19
30 12 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTATATTTATATTATATTAATATA
Found at i:2985717 original size:20 final size:21
Alignment explanation
Indices: 2985690--2985780 Score: 66
Period size: 22 Copynumber: 4.4 Consensus size: 21
2985680 TCGTAATTTT
2985690 TATA-TTTATATTATATTAATA
1 TATATTTTATATTATATT-ATA
*
2985711 TATTTTATTATATTATAATTATA
1 TATATT-TTATATTAT-ATTATA
* * *
2985734 TATAATATATTTTATATTTATA
1 TATATTTTATATTATA-TTATA
*
2985756 TAAATTTTA-A-TATATTA-A
1 TATATTTTATATTATATTATA
2985774 TAT-TTTT
1 TATATTTT
2985781 CGTTATATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
17 4 0.07
18 3 0.05
19 3 0.05
20 4 0.07
21 4 0.07
22 19 0.34
23 16 0.29
24 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATTTTATATTATATTATA
Found at i:2985721 original size:18 final size:18
Alignment explanation
Indices: 2985690--2985826 Score: 86
Period size: 18 Copynumber: 8.2 Consensus size: 18
2985680 TCGTAATTTT
2985690 TATATTTATATTATATTAA
1 TATATTT-TATTATATTAA
2985709 TATATTTTATTATATT-A
1 TATATTTTATTATATTAA
2985726 TA-A--TTA-TATA-TAA
1 TATATTTTATTATATTAA
2985739 TATATTTTA-TAT-TTATA
1 TATATTTTATTATATTA-A
* *
2985756 TAAATTTTAATATATTAA
1 TATATTTTATTATATTAA
*
2985774 TAT-TTTTCGTTATA-T-A
1 TATATTTT-ATTATATTAA
** *
2985790 -A-ATTTTAAAATATTTA
1 TATATTTTATTATATTAA
2985806 TATATTTATATTATA-TAA
1 TATATTT-TATTATATTAA
2985824 TAT
1 TAT
2985827 TTTGTTAGTA
Statistics
Matches: 93, Mismatches: 10, Indels: 31
0.69 0.07 0.23
Matches are distributed among these distances:
12 1 0.01
13 7 0.08
14 7 0.08
15 6 0.06
16 11 0.12
17 18 0.19
18 28 0.30
19 15 0.16
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (18 bp):
TATATTTTATTATATTAA
Found at i:2993412 original size:34 final size:34
Alignment explanation
Indices: 2993374--2993440 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
2993364 TAAATATAAA
2993374 AATAATATAATATTATCTTTATATTTA-AAAATTT
1 AATAAT-TAATATTATCTTTATATTTATAAAATTT
* * * *
2993408 AATAATTTATATTGTGTTTTTATTTATAAAATT
1 AATAATTAATATTATCTTTATATTTATAAAATT
2993441 GATATAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (34 bp):
AATAATTAATATTATCTTTATATTTATAAAATTT
Found at i:2995337 original size:21 final size:21
Alignment explanation
Indices: 2995306--2995355 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2995296 CCATTAATCC
2995306 ATAATTAT-TTTT-ATATGT-T
1 ATAATTATATTTTAATAT-TAT
2995325 ATAATTATATTTTAATATTAT
1 ATAATTATATTTTAATATTAT
*
2995346 ATATTTATAT
1 ATAATTATAT
2995356 AAATTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 8 0.30
20 5 0.19
21 14 0.52
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATAATTATATTTTAATATTAT
Found at i:2995345 original size:19 final size:19
Alignment explanation
Indices: 2995306--2995346 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2995296 CCATTAATCC
*
2995306 ATAATTATTTTTATATGTT
1 ATAATTATTTTTATATATT
2995325 ATAATTATATTTTA-ATATT
1 ATAATTAT-TTTTATATATT
2995344 ATA
1 ATA
2995347 TATTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
ATAATTATTTTTATATATT
Found at i:2996333 original size:20 final size:20
Alignment explanation
Indices: 2996280--2996333 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
2996270 ATTTAAATTT
2996280 TTTTAAAAATACTAATATCATA
1 TTTTAAAAATA--AATATCATA
* ** *
2996302 ATTTAATTATAAATATCATC
1 TTTTAAAAATAAATATCATA
2996322 TTTTAAAAATAA
1 TTTTAAAAATAA
2996334 TTTTTTAATA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
20 17 0.68
22 8 0.32
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTTAAAAATAAATATCATA
Found at i:2997020 original size:2 final size:2
Alignment explanation
Indices: 2997013--2997041 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2997003 TTGACCAGAT
2997013 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
2997042 TTTGTTTGAA
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:2998884 original size:20 final size:20
Alignment explanation
Indices: 2998859--2998903 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
2998849 TATGACCTTC
2998859 AATTTATATTATATTAAAAT
1 AATTTATATTATATTAAAAT
2998879 AATTTATATTATATTAAAAT
1 AATTTATATTATATTAAAAT
2998899 AATTT
1 AATTT
2998904 TTCATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTATATTATATTAAAAT
Found at i:3001264 original size:16 final size:15
Alignment explanation
Indices: 3001233--3001266 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3001223 AGTAATAAAA
*
3001233 TTAAAAATTTTATAT
1 TTAAAAATTATATAT
3001248 TTAAAAGATTATATAT
1 TTAAAA-ATTATATAT
3001264 TTA
1 TTA
3001267 TATAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAAAAATTATATAT
Found at i:3001315 original size:34 final size:33
Alignment explanation
Indices: 3001278--3001387 Score: 104
Period size: 34 Copynumber: 3.3 Consensus size: 33
3001268 ATAAATTTAA
3001278 ATATTTATATAATATTTTTTATATTAATATATT
1 ATATTTATATAATATTTTTTATATTAATATATT
*
3001311 A-ATATTATGTTAATATTTTTTAATATT-ATAT-TT
1 ATAT-TTAT-ATAATATTTTTT-ATATTAATATATT
*
3001344 AT-TTAATATAATATTTTAATTAT-TTATATTATATT
1 ATATTTATATAATATTTT--TTATATTA-A-TATATT
3001379 ATATTTATA
1 ATATTTATA
3001388 CCATTGTGCA
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
31 11 0.18
32 7 0.11
33 12 0.19
34 18 0.29
35 9 0.15
36 5 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
ATATTTATATAATATTTTTTATATTAATATATT
Found at i:3001350 original size:16 final size:15
Alignment explanation
Indices: 3001321--3001360 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
3001311 AATATTATGT
3001321 TAATATTTTTTAATA
1 TAATATTTTTTAATA
*
3001336 TTATATTTATTTAATA
1 TAATATTT-TTTAATA
3001352 TAATATTTT
1 TAATATTTT
3001361 AATTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATATTTTTTAATA
Found at i:3001375 original size:5 final size:5
Alignment explanation
Indices: 3001282--3001383 Score: 58
Period size: 5 Copynumber: 21.4 Consensus size: 5
3001272 ATTTAAATAT
* * * *
3001282 TTATA TAATA TT-TT TTATA TTA-A -TATA TTAATA TTATG TTAATA TT-TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TT-ATA TTATA TT-ATA TTATA
* * *
3001330 TTAATA TTATA TT-TA TT-TA ATATA ATATT TTA-A TTAT- TTATA TTATA
1 TT-ATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
3001377 TTATA TT
1 TTATA TT
3001384 TATACCATTG
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
3 2 0.03
4 22 0.29
5 39 0.52
6 12 0.16
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:3002149 original size:13 final size:13
Alignment explanation
Indices: 3002131--3002156 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3002121 CCCAAAAATT
3002131 TTCTTTTAAGAAA
1 TTCTTTTAAGAAA
3002144 TTCTTTTAAGAAA
1 TTCTTTTAAGAAA
3002157 CAAAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TTCTTTTAAGAAA
Found at i:3002696 original size:21 final size:21
Alignment explanation
Indices: 3002672--3002715 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
3002662 TTAAAAAAGC
3002672 TTTTAAATTATTTAACTAAAT
1 TTTTAAATTATTTAACTAAAT
* * *
3002693 TTTTATATTTTTTAATTAAAT
1 TTTTAAATTATTTAACTAAAT
3002714 TT
1 TT
3002716 AAATATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAATTATTTAACTAAAT
Found at i:3002721 original size:21 final size:21
Alignment explanation
Indices: 3002682--3002721 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3002672 TTTTAAATTA
**
3002682 TTTAACTAAATTTTTATATTT
1 TTTAACTAAATTTAAATATTT
*
3002703 TTTAATTAAATTTAAATAT
1 TTTAACTAAATTTAAATAT
3002722 AATATTAACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAACTAAATTTAAATATTT
Found at i:3003385 original size:15 final size:16
Alignment explanation
Indices: 3003365--3003403 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
3003355 ATTAAAAATT
3003365 TAATTTTAATTGTT-A
1 TAATTTTAATTGTTAA
*
3003380 TAA-TTTAATTTTTAA
1 TAATTTTAATTGTTAA
3003395 TAATTTTAA
1 TAATTTTAA
3003404 AATGTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 9 0.43
15 7 0.33
16 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TAATTTTAATTGTTAA
Found at i:3004057 original size:20 final size:21
Alignment explanation
Indices: 3004032--3004073 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
3004022 GTACATTGGT
3004032 TTTTTTAT-TCAAAAATA-AAA
1 TTTTTTATAT-AAAAATATAAA
3004052 TTTTTTATATAAAAATATAAA
1 TTTTTTATATAAAAATATAAA
3004073 T
1 T
3004074 AAAATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTTATATAAAAATATAAA
Found at i:3004483 original size:6 final size:6
Alignment explanation
Indices: 3004464--3004503 Score: 53
Period size: 6 Copynumber: 6.2 Consensus size: 6
3004454 TTCAAAAGAG
3004464 AATTTT AATTATTT AAATTTT AATTTT AATTTT AATTTT A
1 AATTTT AA-T-TTT -AATTTT AATTTT AATTTT AATTTT A
3004504 TAATTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 21 0.68
7 4 0.13
8 4 0.13
9 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:3005377 original size:14 final size:14
Alignment explanation
Indices: 3005358--3005387 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3005348 ATGGATTAGA
*
3005358 TAATAATAGTAAAT
1 TAATAATAATAAAT
3005372 TAATAATAATAAAT
1 TAATAATAATAAAT
3005386 TA
1 TA
3005388 TTATTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:3005390 original size:3 final size:3
Alignment explanation
Indices: 3005384--3005420 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3005374 ATAATAATAA
3005384 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
3005421 ATAATATAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:3006085 original size:2 final size:2
Alignment explanation
Indices: 3006078--3006104 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3006068 TCCAACAAAA
3006078 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 T
3006105 ATGTTTTGTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3006507 original size:26 final size:26
Alignment explanation
Indices: 3006461--3006522 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
3006451 AAATTAATTT
**
3006461 TTTTATTTATAAAATTTAAATTTAAAA
1 TTTTATTTA-AAAAAATAAATTTAAAA
*
3006488 TTTTATTTAAAAAAATAAATTTTAAA
1 TTTTATTTAAAAAAATAAATTTAAAA
3006514 --TTATTTAAA
1 TTTTATTTAAA
3006523 TTAATCAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.28
26 14 0.44
27 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTATTTAAAAAAATAAATTTAAAA
Found at i:3007185 original size:16 final size:18
Alignment explanation
Indices: 3007152--3007185 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3007142 TTATATAAAA
3007152 TTTAAAATATTGATATTT
1 TTTAAAATATTGATATTT
3007170 TTTAAAA-ATT-ATATTT
1 TTTAAAATATTGATATTT
3007186 ATATAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAAAATATTGATATTT
Found at i:3015413 original size:2 final size:2
Alignment explanation
Indices: 3015406--3015441 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3015396 CGTAAAAGAA
3015406 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
3015442 GGAAAACCTC
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3016263 original size:27 final size:27
Alignment explanation
Indices: 3016223--3016279 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
3016213 GTGTAAAATT
* *
3016223 AATTTTATTTTATATCATTAT-AAGTA
1 AATTTTATTTTATATAAATATAAAGTA
*
3016249 AATTTTTTTTATATATAAATATAAAGTA
1 AATTTTATTT-TATATAAATATAAAGTA
3016277 AAT
1 AAT
3016280 ATAATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 9 0.35
27 9 0.35
28 8 0.31
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (27 bp):
AATTTTATTTTATATAAATATAAAGTA
Found at i:3028203 original size:2 final size:2
Alignment explanation
Indices: 3028196--3028228 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3028186 AAAGAAAGAC
3028196 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3028229 GCTATCGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3028631 original size:35 final size:35
Alignment explanation
Indices: 3028591--3028671 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
3028581 ATTAAATTAA
*
3028591 ATTTAAATATTTTAATAATT-T-TTTATATAATTTAT
1 ATTTAAATATTTGAATAATTATATTT-TAT-ATTTAT
* *
3028626 ATTTAATTAATTGAATAATTATATTTTATATTTAT
1 ATTTAAATATTTGAATAATTATATTTTATATTTAT
* *
3028661 ATATATATATT
1 ATTTAAATATT
3028672 ATATATTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
35 30 0.81
36 4 0.11
37 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (35 bp):
ATTTAAATATTTGAATAATTATATTTTATATTTAT
Found at i:3028679 original size:7 final size:7
Alignment explanation
Indices: 3028643--3028679 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
3028633 TAATTGAATA
3028643 ATTATAT
1 ATTATAT
*
3028650 TTTATAT
1 ATTATAT
3028657 -TTATAT
1 ATTATAT
3028663 A-TATAT
1 ATTATAT
3028669 ATTATAT
1 ATTATAT
3028676 ATTA
1 ATTA
3028680 AATTTTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTATAT
Found at i:3037833 original size:35 final size:34
Alignment explanation
Indices: 3037745--3037841 Score: 80
Period size: 34 Copynumber: 2.9 Consensus size: 34
3037735 TAATATTTTT
* *
3037745 ATTAAAATTTAATTATA--AAATATATAAATATTA
1 ATTAAAA-TTATTTATATTAAATATATAAATAATA
* *
3037778 ATTAAAAATAATATT-T-TTAAATATTTTAAATAATA
1 ATT-AAAATTAT-TTATATTAAATA-TATAAATAATA
3037813 ATTAAAATTATTTATATTAAAT-T-TAAATA
1 ATTAAAATTATTTATATTAAATATATAAATA
3037842 TAAATTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
32 6 0.12
33 9 0.17
34 19 0.37
35 18 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (34 bp):
ATTAAAATTATTTATATTAAATATATAAATAATA
Found at i:3037925 original size:16 final size:18
Alignment explanation
Indices: 3037904--3037943 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3037894 GAAAACAATT
3037904 ATAATTAT-A-AAAGTGA
1 ATAATTATCACAAAGTGA
*
3037920 ATAATTTTCACAAAGTGA
1 ATAATTATCACAAAGTGA
3037938 ATAATT
1 ATAATT
3037944 TTTGGATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 1 0.05
18 13 0.62
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (18 bp):
ATAATTATCACAAAGTGA
Found at i:3044337 original size:24 final size:24
Alignment explanation
Indices: 3044282--3044350 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
3044272 ATGAAATAAA
* *
3044282 AATTTAAATATTAAATT-AATATT
1 AATTAAAATATTAAATTAAAAATT
**
3044305 TTTTAAAAATATTAAATTAAAAATT
1 AATT-AAAATATTAAATTAAAAATT
*
3044330 AATTAAAATATAAGAATTAAA
1 AATTAAAATATTA-AATTAAA
3044351 TGAGTTTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 2 0.06
24 20 0.56
25 14 0.39
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (24 bp):
AATTAAAATATTAAATTAAAAATT
Found at i:3045884 original size:20 final size:20
Alignment explanation
Indices: 3045855--3045895 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3045845 TAAAAAAAAA
*
3045855 TTATATAAAT-ATTTATATAT
1 TTATAAAAATAATTTAT-TAT
3045875 TTATAAAAATAATTTATTAT
1 TTATAAAAATAATTTATTAT
3045895 T
1 T
3045896 AATTAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATAAAAATAATTTATTAT
Done.