Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold133
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: 2564099
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17052 characters in sequence are not A, C, G, or T
File 1 of 17
Found at i:2112 original size:18 final size:19
Alignment explanation
Indices: 2074--2117 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
2064 ATATAAAAAC
2074 AATATAAATAAAATAATTAA
1 AATAT-AATAAAATAATTAA
*
2094 AATATAATATAAT-ATTAA
1 AATATAATAAAATAATTAA
2112 AATATA
1 AATATA
2118 TCTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATATAATAAAATAATTAA
Found at i:3990 original size:2 final size:2
Alignment explanation
Indices: 3983--4013 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3973 TTTATTTTCC
3983 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 A
4014 AAATTTATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5264 original size:2 final size:2
Alignment explanation
Indices: 5257--5282 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5247 AATTTGCTGC
5257 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
5283 GGTGATGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5702 original size:245 final size:245
Alignment explanation
Indices: 5261--5719 Score: 616
Period size: 245 Copynumber: 1.9 Consensus size: 245
5251 TGCTGCATAT
** * ** *
5261 ATATATATATATATATATATATGGTGATGGATTGTATAGATTTAAAAATTTTTAATTATTTAAAT
1 ATATATATATATATATATATATAATAATGGATAATATAGATTTAAAAATTTATAATTATTTAAAT
** * * * *
5326 TGTTTTTTAACATTTAGAGTGAATATGAATTCATATATTATAATTATTATTTACAATAAATTTTG
66 CATTTTTTAACATTCAAAGTGAATATGAATTCATATATTATAATTACTATTTAAAATAAATTTTG
** * * * *
5391 AGTAGATGTAAATATAAATTTTTGAATATTTATGATCTGAAATTTATATTACTATTATAGATAAT
131 AACAGATATAAATATAAATTTTTGAATATTCATGATCTGAAATTCATATTACTATTATAAATAAT
*
5456 AAATTCGAATATCTAAATCCGAGTTTATGATGATAGTAATATAGATTTAG
196 AAATTCAAATATCTAAATCCGAGTTTATGATGATAGTAATATAGATTTAG
* * *
5506 ATATTTATATATATATATATATAATAATGGATAATATAGATTTAGATATTTATAATTATTTAAAT
1 ATATATATATATATATATATATAATAATGGATAATATAGATTTAAAAATTTATAATTATTTAAAT
** * *
5571 CATTTTTGT-TTATTCAAAGTCG-ATATGGATTCATATATTATAATTGCTATTTAAAATAAATTT
66 CATTTTT-TAACATTCAAAGT-GAATATGAATTCATATATTATAATTACTATTTAAAATAAATTT
* *
5634 TGAACAGATATAATTATAAATTTTTGAATATTCATTATCTGAAATTCATATTACTATTATAAATA
129 TGAACAGATATAAATATAAATTTTTGAATATTCATGATCTGAAATTCATATTACTATTATAAATA
* *
5699 ATAAATTTAAATATTTAAATC
194 ATAAATTCAAATATCTAAATC
5720 TACCATTCTA
Statistics
Matches: 182, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
245 180 0.99
246 2 0.01
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (245 bp):
ATATATATATATATATATATATAATAATGGATAATATAGATTTAAAAATTTATAATTATTTAAAT
CATTTTTTAACATTCAAAGTGAATATGAATTCATATATTATAATTACTATTTAAAATAAATTTTG
AACAGATATAAATATAAATTTTTGAATATTCATGATCTGAAATTCATATTACTATTATAAATAAT
AAATTCAAATATCTAAATCCGAGTTTATGATGATAGTAATATAGATTTAG
Found at i:6211 original size:37 final size:37
Alignment explanation
Indices: 6162--6241 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
6152 TACCTTTGTG
6162 GCACC-TTTTCATCCTATTGTTTTTGCATTTCAATCT
1 GCACCATTTTCATCCTATTGTTTTTGCATTTCAATCT
6198 GCACCATTTTCATCCTATTGTTTTTGCATTTCAATCT
1 GCACCATTTTCATCCTATTGTTTTTGCATTTCAATCT
6235 GCACCAT
1 GCACCAT
6242 GCTTGAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 5 0.12
37 38 0.88
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.46
Consensus pattern (37 bp):
GCACCATTTTCATCCTATTGTTTTTGCATTTCAATCT
Found at i:9657 original size:20 final size:21
Alignment explanation
Indices: 9634--9677 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
9624 ACATTTAAAA
9634 ATTTAAAATTATATTTAAT-C
1 ATTTAAAATTATATTTAATGC
** *
9654 ATTTTTATTTATATTTAATGC
1 ATTTAAAATTATATTTAATGC
9675 ATT
1 ATT
9678 AAGTATTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTAAAATTATATTTAATGC
Found at i:9963 original size:20 final size:21
Alignment explanation
Indices: 9930--9990 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
9920 AAAAAAATTA
9930 AATATTAAATTATATAATT-TT
1 AATATTAAA-TATATAATTATT
9951 AATATTAAATATAATAAATTATT
1 AATATTAAATAT-AT-AATTATT
* *
9974 ACTA-AAAATATATAATT
1 AATATTAAATATATAATT
9991 CACTTATTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 7 0.20
21 13 0.37
22 10 0.29
23 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AATATTAAATATATAATTATT
Found at i:10100 original size:20 final size:20
Alignment explanation
Indices: 10072--10111 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10062 ATAAGCTTAA
*
10072 AATTTATTTTTTAATGATTT
1 AATTGATTTTTTAATGATTT
*
10092 AATTGATTTTTTATTGATTT
1 AATTGATTTTTTAATGATTT
10112 TTAAAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (20 bp):
AATTGATTTTTTAATGATTT
Found at i:10757 original size:22 final size:22
Alignment explanation
Indices: 10710--10753 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10700 AATTATAAAA
*
10710 TATAAAATATAAAAATTATTAT
1 TATAAAATATAAAAATTAATAT
10732 TATAAAA-ATCAAAAA-TAATAT
1 TATAAAATAT-AAAAATTAATAT
10753 T
1 T
10754 TATAGTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TATAAAATATAAAAATTAATAT
Found at i:10850 original size:22 final size:23
Alignment explanation
Indices: 10807--10850 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10797 TGTCAAATTT
*
10807 AATTTTCTTTCTATTTTTTAATG
1 AATTTTCTTTCTATATTTTAATG
*
10830 AATTTTTTTTCTA-ATTTTAAT
1 AATTTTCTTTCTATATTTTAAT
10851 AATAATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (23 bp):
AATTTTCTTTCTATATTTTAATG
Found at i:11333 original size:14 final size:15
Alignment explanation
Indices: 11314--11351 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
11304 ATTTACATTT
11314 TTTAAAAAATT-TTA
1 TTTAAAAAATTATTA
11328 TTTAAATTAAATTATTA
1 TTTAAA--AAATTATTA
11345 TTTAAAA
1 TTTAAAA
11352 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
16 5 0.24
17 9 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAAAAAATTATTA
Found at i:11345 original size:17 final size:16
Alignment explanation
Indices: 11320--11355 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
11310 ATTTTTTAAA
*
11320 AAATTTTATTTAAATT
1 AAATTTTATTTAAAAT
11336 AAATTATTATTTAAAAT
1 AAATT-TTATTTAAAAT
11353 AAA
1 AAA
11356 AATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTTTATTTAAAAT
Found at i:11565 original size:2 final size:2
Alignment explanation
Indices: 11558--11600 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
11548 ATTTCATTAA
* * *
11558 AT AT AT AT AT AT AT AT AT AT GT AT AC AT AT -T AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11599 AT
1 AT
11601 TATTAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15854 original size:24 final size:24
Alignment explanation
Indices: 15813--15859 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
15803 CAGGGAAAAG
***
15813 ATGAAGATGACTCTGATGATGATA
1 ATGAAGATGACGAGGATGATGATA
15837 ATGAAGATGACGAGGATGATGAT
1 ATGAAGATGACGAGGATGATGAT
15860 GATGGTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.30, T:0.26
Consensus pattern (24 bp):
ATGAAGATGACGAGGATGATGATA
Found at i:17449 original size:21 final size:21
Alignment explanation
Indices: 17425--17468 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17415 TTTTTATGAT
*
17425 ATTTATTTAAGATAT-TATATA
1 ATTTATGTAA-ATATGTATATA
*
17446 ATTTATGTAAATTTGTATATA
1 ATTTATGTAAATATGTATATA
17467 AT
1 AT
17469 AATAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (21 bp):
ATTTATGTAAATATGTATATA
Found at i:17507 original size:16 final size:15
Alignment explanation
Indices: 17488--17546 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 15
17478 TATTATATCA
17488 ATTTTAATATATTTAT
1 ATTTTAATAT-TTTAT
17504 ATTTATAATATTTTAT
1 ATTT-TAATATTTTAT
* *
17520 ATTTTTATAATTTTTT
1 ATTTTAAT-ATTTTAT
*
17536 ATGTT-ATATTT
1 ATTTTAATATTT
17547 ATGTTTTACT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 4 0.11
15 5 0.13
16 23 0.61
17 6 0.16
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
ATTTTAATATTTTAT
Found at i:17527 original size:24 final size:25
Alignment explanation
Indices: 17468--17528 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
17458 TTGTATATAA
17468 TAATA-ATTTATATTATATCAATTT
1 TAATATATTTATATTATATCAATTT
17492 TAATATATTTATATT-TAT-AATATT
1 TAATATATTTATATTATATCAAT-TT
* *
17516 TTATATTTTTATA
1 TAATATATTTATA
17529 ATTTTTTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TAATATATTTATATTATATCAATTT
Found at i:17528 original size:18 final size:16
Alignment explanation
Indices: 17488--17537 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 16
17478 TATTATATCA
17488 ATTT-TAATATATTTAT
1 ATTTATAATAT-TTTAT
17504 ATTTATAATATTTTAT
1 ATTTATAATATTTTAT
*
17520 ATTTTTATAATTTTTTAT
1 A--TTTATAATATTTTAT
17538 GTTATATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 10 0.33
17 6 0.20
18 14 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTATAATATTTTAT
Found at i:17532 original size:41 final size:39
Alignment explanation
Indices: 17467--17548 Score: 96
Period size: 41 Copynumber: 2.1 Consensus size: 39
17457 TTTGTATATA
17467 ATAATAATTTATATTATATCAATTTTAATATAT-TTATATTT
1 ATAATAATTTATATTATATCAATTTT--T-TATGTTATATTT
* *
17508 ATAATATTTTATATTTTTAT-AATTTTTTATGTTATATTT
1 ATAATAATTTATA-TTATATCAATTTTTTATGTTATATTT
17547 AT
1 AT
17549 GTTTTACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
38 3 0.08
39 11 0.30
41 18 0.49
42 5 0.14
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (39 bp):
ATAATAATTTATATTATATCAATTTTTTATGTTATATTT
Found at i:17744 original size:5 final size:5
Alignment explanation
Indices: 17726--17782 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
17716 AAAAATTTTA
* * * *
17726 AAAAC AAAATT AAAAT AAAAT AAAAT ATAA- AAAAT AATAT AAATAT AATAT
1 AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT
17777 AAAAT A
1 AAAAT A
17783 TATTAAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
4 3 0.07
5 31 0.74
6 8 0.19
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (5 bp):
AAAAT
Found at i:17745 original size:11 final size:10
Alignment explanation
Indices: 17726--17782 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
17716 AAAAATTTTA
*
17726 AAAACAAAATT
1 AAAATAAAA-T
17737 AAAATAAAAT
1 AAAATAAAAT
*
17747 AAAATATAA-
1 AAAATAAAAT
*
17756 AAAATAATAT
1 AAAATAAAAT
*
17766 AAATATAATAT
1 AAA-ATAAAAT
17777 AAAATA
1 AAAATA
17783 TATTAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 7 0.17
10 15 0.38
11 18 0.45
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:17759 original size:30 final size:30
Alignment explanation
Indices: 17725--17784 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17715 TAAAAATTTT
17725 AAAAACAAAATTAAA-ATAAAATAAAATATA
1 AAAAACAAAA-TAAATATAAAATAAAATATA
* * *
17755 AAAAATAATATAAATATAATATAAAATATA
1 AAAAACAAAATAAATATAAAATAAAATATA
17785 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (30 bp):
AAAAACAAAATAAATATAAAATAAAATATA
Found at i:17769 original size:18 final size:19
Alignment explanation
Indices: 17737--17773 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17727 AAACAAAATT
17737 AAAATAAAATAAAATATAA
1 AAAATAAAATAAAATATAA
*
17756 AAAATAATAT-AAATATAA
1 AAAATAAAATAAAATATAA
17774 TATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAAAATAAAATATAA
Found at i:17785 original size:9 final size:10
Alignment explanation
Indices: 17736--17791 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
17726 AAAACAAAAT
*
17736 TAAAATAAAA
1 TAAAATAATA
17746 TAAAAT-ATA
1 TAAAATAATA
*
17755 AAAAATAATA
1 TAAAATAATA
17765 TAAATATAATA
1 TAAA-ATAATA
17776 TAAAAT-ATA
1 TAAAATAATA
17785 TTAAAAT
1 -TAAAAT
17792 TTATTTAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
9 10 0.25
10 20 0.50
11 10 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TAAAATAATA
Found at i:17816 original size:18 final size:17
Alignment explanation
Indices: 17786--17819 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17776 TAAAATATAT
17786 TAAAATTTATTTAATTA
1 TAAAATTTATTTAATTA
*
17803 TAAATATTTTTTTAATT
1 TAAA-ATTTATTTAATT
17820 TTTGATACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAAATTTATTTAATTA
Found at i:18439 original size:25 final size:26
Alignment explanation
Indices: 18411--18465 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 26
18401 ATTTTTTTAA
18411 ATATATAAAAAAAATA-AAT-ATATT
1 ATATATAAAAAAAATATAATAATATT
* *
18435 -TATATCAAATAAATATAATAATATT
1 ATATATAAAAAAAATATAATAATATT
18460 -TATATA
1 ATATATA
18466 CAAATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 13 0.50
24 3 0.12
25 10 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATATAAAAAAAATATAATAATATT
Found at i:18458 original size:19 final size:19
Alignment explanation
Indices: 18422--18458 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18412 TATATAAAAA
* *
18422 AAATAAATATATTTATATC
1 AAATAAATATAATAATATC
18441 AAATAAATATAATAATAT
1 AAATAAATATAATAATAT
18459 TTATATACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAAATATAATAATATC
Found at i:18476 original size:22 final size:22
Alignment explanation
Indices: 18424--18483 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 22
18414 TATAAAAAAA
18424 ATAAAT-ATATTTATATCAAAT
1 ATAAATAATATTTATATCAAAT
18445 AAATATAATAATATTTATATACAAAT
1 --ATA-AATAATATTTATAT-CAAAT
18471 -TAAATAATATTTA
1 ATAAATAATATTTA
18484 ATAATAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.32
23 5 0.15
24 3 0.09
25 10 0.29
26 5 0.15
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAAATAATATTTATATCAAAT
Found at i:18477 original size:25 final size:25
Alignment explanation
Indices: 18412--18480 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
18402 TTTTTTTAAA
*
18412 TATAT-AAAAAAAATAA-ATATATT
1 TATATCAAATAAAATAATATATATT
18435 TATATCAAATAAATATAATA-ATATT
1 TATATCAAATAAA-ATAATATATATT
*
18460 TATATACAAATTAAATAATAT
1 TATAT-CAAATAAAATAATAT
18481 TTAATAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 5 0.13
24 6 0.15
25 20 0.51
26 8 0.21
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (25 bp):
TATATCAAATAAAATAATATATATT
Found at i:20558 original size:74 final size:73
Alignment explanation
Indices: 20480--20654 Score: 199
Period size: 74 Copynumber: 2.4 Consensus size: 73
20470 AAGGTCATTG
* * *
20480 TTAGCATTTTTGCATTGCAACTTAATGTTACTCACCTATATACTTAAAAGGTAAGT-AGACCTTT
1 TTAGCATGTTTGCATTGCAACTTGATGTTACTCACCTATATACTTAAAAGGCAAGTGA-ACC-TT
*
20544 AAAGTTGTTT
64 AAAGTCGTTT
* * ** ** * * *
20554 TTAGCACGTTTGCATTGCAACTTGGTGTTGTTTGCTTATATACTTAAATGGCAAGTGAACCTTAC
1 TTAGCATGTTTGCATTGCAACTTGATGTTACTCACCTATATACTTAAAAGGCAAGTGAACCTTAA
20619 AGTCGTTT
66 AGTCGTTT
*
20627 TTAGCATGTTTGCATTGTAACTTGATGT
1 TTAGCATGTTTGCATTGCAACTTGATGT
20655 CGCATGCTTA
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
73 35 0.42
74 48 0.57
75 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (73 bp):
TTAGCATGTTTGCATTGCAACTTGATGTTACTCACCTATATACTTAAAAGGCAAGTGAACCTTAA
AGTCGTTT
Found at i:20663 original size:73 final size:74
Alignment explanation
Indices: 20516--20667 Score: 191
Period size: 73 Copynumber: 2.1 Consensus size: 74
20506 GTTACTCACC
* * *
20516 TATATACTTAAAAGGTAAGTAGACCTTTAAAGTTGTTTTTAGCACGTTTGCATTGCAACTTGGTG
1 TATATACTTAAAAGGCAAGTAGACCTTTAAAGTCGTTTTTAGCACGTTTGCATTGCAACTTGATG
* **
20581 TTGTTTGCT
66 TCGCATGCT
* * * *
20590 TATATACTTAAATGGCAAGT-GAACC-TTACAGTCGTTTTTAGCATGTTTGCATTGTAACTTGAT
1 TATATACTTAAAAGGCAAGTAG-ACCTTTAAAGTCGTTTTTAGCACGTTTGCATTGCAACTTGAT
20653 GTCGCATGCT
65 GTCGCATGCT
20663 TATAT
1 TATAT
20668 GCTTGATGGC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
73 46 0.69
74 21 0.31
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (74 bp):
TATATACTTAAAAGGCAAGTAGACCTTTAAAGTCGTTTTTAGCACGTTTGCATTGCAACTTGATG
TCGCATGCT
Found at i:21944 original size:52 final size:53
Alignment explanation
Indices: 21877--21987 Score: 143
Period size: 52 Copynumber: 2.1 Consensus size: 53
21867 TATTTTAGGC
* *
21877 TTTTTTATACCAATATAATTTAAAATTGGTTTCAAATTAATTTTCAAAAT-AT
1 TTTTTTATACCAATATAACTTAAAATTGATTTCAAATTAATTTTCAAAATAAT
* * * * **
21929 TTTTTTATACTAATATAACTTATAATTGATTTTAAATTATTTTTTGAAATAAT
1 TTTTTTATACCAATATAACTTAAAATTGATTTCAAATTAATTTTCAAAATAAT
21982 TTTTTT
1 TTTTTT
21988 CTAACGTATA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
52 42 0.84
53 8 0.16
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (53 bp):
TTTTTTATACCAATATAACTTAAAATTGATTTCAAATTAATTTTCAAAATAAT
Found at i:22463 original size:21 final size:21
Alignment explanation
Indices: 22438--22478 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22428 AAATTTAAAA
22438 ATATTTTAT-ATTAATATTTAT
1 ATATTTTATAATTAA-ATTTAT
22459 ATATTTTATAATTAAATTTA
1 ATATTTTATAATTAAATTTA
22479 AATACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTATAATTAAATTTAT
Found at i:23239 original size:2 final size:2
Alignment explanation
Indices: 23232--23260 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23222 GAATACATAC
23232 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23261 CTTCATAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23411 original size:2 final size:2
Alignment explanation
Indices: 23404--23442 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
23394 ATTAACTATT
23404 TA TA TA 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 TA TA TA T
23443 GTATGTGTAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24025 original size:2 final size:2
Alignment explanation
Indices: 24018--24042 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24008 GCTTAACATC
24018 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
24043 AAATCACTTA
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:26413 original size:19 final size:21
Alignment explanation
Indices: 26386--26429 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
26376 GAGTGTTGAC
*
26386 TATTTATAAATTTA-T-ATAT
1 TATTAATAAATTTATTGATAT
*
26405 TATTAATAAGTTTATTGATAT
1 TATTAATAAATTTATTGATAT
26426 TATT
1 TATT
26430 TTATTGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTAATAAATTTATTGATAT
Found at i:29180 original size:20 final size:20
Alignment explanation
Indices: 29141--29179 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
29131 AACAATTGTC
*
29141 CCTTCCCTTCCCTTTCTTTT
1 CCTTCCCATCCCTTTCTTTT
29161 CCTTCCCATCCC-TTCTTTT
1 CCTTCCCATCCCTTTCTTTT
29180 TTTTTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (20 bp):
CCTTCCCATCCCTTTCTTTT
Found at i:29193 original size:10 final size:10
Alignment explanation
Indices: 29173--29219 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
29163 TTCCCATCCC
29173 TTCTTTTTTT
1 TTCTTTTTTT
*
29183 TT-TTTTCTT
1 TTCTTTTTTT
29192 TTCTTTTCTTT
1 TTCTTTT-TTT
*
29203 TACTTTTTTT
1 TTCTTTTTTT
29213 TTCTTTT
1 TTCTTTT
29220 ATCTACCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 8 0.26
10 15 0.48
11 8 0.26
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:29220 original size:16 final size:16
Alignment explanation
Indices: 29175--29220 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
29165 CCCATCCCTT
29175 CTTTTTTTTT-TTTT-
1 CTTTTTTTTTCTTTTA
*
29189 CTTTTCTTTTCTTTTA
1 CTTTTTTTTTCTTTTA
29205 CTTTTTTTTTCTTTTA
1 CTTTTTTTTTCTTTTA
29221 TCTACCTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 9 0.32
15 4 0.14
16 15 0.54
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (16 bp):
CTTTTTTTTTCTTTTA
Found at i:30159 original size:23 final size:22
Alignment explanation
Indices: 30127--30187 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
30117 ATAAAAAATT
*
30127 AATTAATAAAA-TATTTTTATTA
1 AATTAATAAAATTA-ATTTATTA
30149 AATTTAATAAAATTAATTTATTA
1 AA-TTAATAAAATTAATTTATTA
30172 AATTAA-AAAATTAATT
1 AATTAATAAAATTAATT
30188 AGTAATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 10 0.28
22 6 0.17
23 18 0.50
24 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTAATAAAATTAATTTATTA
Found at i:30871 original size:3 final size:3
Alignment explanation
Indices: 30863--30888 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30853 CGTTCATAAA
30863 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
30889 AAACAATATG
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:31268 original size:5 final size:5
Alignment explanation
Indices: 31253--31296 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
31243 GAATCTATTA
* *
31253 AATTT AA-TT AATTT AAATT AATTT AATTT -ATTT GATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT A
31297 TTTGACTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
4 8 0.24
5 26 0.76
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:31270 original size:15 final size:15
Alignment explanation
Indices: 31250--31296 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
31240 ATTGAATCTA
31250 TTAAATTTAA-TTAAT
1 TTAAA-TTAATTTAAT
31265 TTAAATTAATTTAAT
1 TTAAATTAATTTAAT
* *
31280 TT-ATTTGATTTAAT
1 TTAAATTAATTTAAT
31294 TTA
1 TTA
31297 TTTGACTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTAATTTAAT
Found at i:31277 original size:19 final size:19
Alignment explanation
Indices: 31253--31296 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
31243 GAATCTATTA
31253 AATTTAATTAATTTAAATT
1 AATTTAATTAATTTAAATT
* * *
31272 AATTTAATTTATTTGATTT
1 AATTTAATTAATTTAAATT
31291 AATTTA
1 AATTTA
31297 TTTGACTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTTAATTAATTTAAATT
Found at i:31290 original size:14 final size:14
Alignment explanation
Indices: 31273--31301 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31263 ATTTAAATTA
31273 ATTTAATTTATTTG
1 ATTTAATTTATTTG
31287 ATTTAATTTATTTG
1 ATTTAATTTATTTG
31301 A
1 A
31302 CTTTGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (14 bp):
ATTTAATTTATTTG
Found at i:32578 original size:2 final size:2
Alignment explanation
Indices: 32567--32595 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
32557 AGAAAAAGCA
32567 AT AT -T 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
32596 GTGTGTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:32993 original size:2 final size:2
Alignment explanation
Indices: 32988--33013 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32978 TGATCTTTCC
32988 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
33014 CCAAGCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33862 original size:21 final size:21
Alignment explanation
Indices: 33829--33893 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
33819 AAAGAAATCG
* * *
33829 ATTAAATTTATTTTATTTTAA
1 ATTAAAATAATTTTATATTAA
*
33850 ATTAAAATAATTTAATATTAA
1 ATTAAAATAATTTTATATTAA
* *
33871 GTT-AAATAATTTTAATAATAA
1 ATTAAAATAATTTT-ATATTAA
33892 AT
1 AT
33894 AATTAATTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 9 0.26
21 26 0.74
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTAAAATAATTTTATATTAA
Found at i:33899 original size:45 final size:44
Alignment explanation
Indices: 33849--33980 Score: 108
Period size: 48 Copynumber: 2.8 Consensus size: 44
33839 TTTTATTTTA
*
33849 AATTAAAATAATTTA-ATATTAAGTTAAATAATTTTAATAATAAAT
1 AATTAAAATAATTTAGATATTAAATTAAATAATTTT--TAATAAAT
* * * *
33894 AATTAATTAA-AATATATATATTTAATTTAATTTATAATTTTTAATATAT
1 AATTAA--AATAATTTAGATA-TTAAATTAA---ATAATTTTTAATAAAT
33943 AATTAAAATAATTTAGATA-TAAATATAAATCAATTTTT
1 AATTAAAATAATTTAGATATTAAAT-TAAAT-AATTTTT
33981 TTGTTAATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
44 2 0.03
45 13 0.18
46 9 0.13
47 10 0.14
48 16 0.23
49 13 0.18
51 8 0.11
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.46
Consensus pattern (44 bp):
AATTAAAATAATTTAGATATTAAATTAAATAATTTTTAATAAAT
Found at i:33977 original size:22 final size:20
Alignment explanation
Indices: 33939--33978 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33929 AATTTTTAAT
*
33939 ATATAATTAAAATAATTTAG
1 ATATAAATAAAATAATTTAG
33959 ATATAAATATAAATCAATTT
1 ATATAAATA-AAAT-AATTT
33979 TTTTGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 4 0.24
22 5 0.29
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
ATATAAATAAAATAATTTAG
Found at i:35068 original size:18 final size:17
Alignment explanation
Indices: 35026--35099 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 17
35016 AATTATTATA
*
35026 TTTAAATATAAATATAATTT
1 TTTATATATAAATA-AA--T
35046 TTTATTATATAAATAAAT
1 TTTA-TATATAAATAAAT
*
35064 TTTATAAATTAAATAAA-
1 TTTATATA-TAAATAAAT
* *
35081 TTTATATAAAAATATAT
1 TTTATATATAAATAAAT
35098 TT
1 TT
35100 GAATAGAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 6 0.13
17 12 0.26
18 13 0.28
20 6 0.13
21 9 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTATATATAAATAAAT
Found at i:37751 original size:17 final size:17
Alignment explanation
Indices: 37725--37760 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
37715 TTTGCAGGAT
*
37725 TTCTTGAAGAATGAACC
1 TTCTTAAAGAATGAACC
37742 TTCTTAAAGAATGAACC
1 TTCTTAAAGAATGAACC
37759 TT
1 TT
37761 TGTTAGGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (17 bp):
TTCTTAAAGAATGAACC
Found at i:38076 original size:2 final size:2
Alignment explanation
Indices: 38069--38108 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
38059 GGAAAAGAGA
38069 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
38109 TTTCTTAACA
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:43266 original size:6 final size:6
Alignment explanation
Indices: 43257--43289 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
43247 AGAACAAAAT
*
43257 CAAAGC CAAAGC CAAAGC CAAAGC CAAACC CAA
1 CAAAGC CAAAGC CAAAGC CAAAGC CAAAGC CAA
43290 CCCTTGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.52, C:0.36, G:0.12, T:0.00
Consensus pattern (6 bp):
CAAAGC
Found at i:47477 original size:15 final size:16
Alignment explanation
Indices: 47452--47481 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47442 GGTTTATTTG
47452 AGCTGAATCTTGGCAT
1 AGCTGAATCTTGGCAT
47468 AGCT-AATCTTGGCA
1 AGCTGAATCTTGGCA
47482 ATTCGTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (16 bp):
AGCTGAATCTTGGCAT
Found at i:47559 original size:25 final size:25
Alignment explanation
Indices: 47530--47577 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47520 TAATAATCGT
* * *
47530 ATTTAAAATTTTTATATTTATATAA
1 ATTTAAAATATATATATTCATATAA
47555 ATTTAAAATATATATATTCATAT
1 ATTTAAAATATATATATTCATAT
47578 CATATTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTAAAATATATATATTCATATAA
Found at i:47992 original size:2 final size:2
Alignment explanation
Indices: 47985--48009 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47975 AAAAATAAGC
47985 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 T
48010 GAAAAATATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48782 original size:2 final size:2
Alignment explanation
Indices: 48775--48806 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
48765 GATGAGTTTA
48775 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48807 GTTCTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49342 original size:3 final size:3
Alignment explanation
Indices: 49334--49375 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
49324 GCCTTTATCT
49334 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49376 TGTTGTTTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:52916 original size:13 final size:13
Alignment explanation
Indices: 52898--52922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52888 ATTTTAAAAT
52898 AAATAAAAAATTA
1 AAATAAAAAATTA
52911 AAATAAAAAATT
1 AAATAAAAAATT
52923 TTAAAAATTA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAAAATTA
Found at i:55886 original size:18 final size:16
Alignment explanation
Indices: 55863--55923 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
55853 TAAAATGAGA
55863 TATTAATATTATATAAAT
1 TATTAATA-TAT-TAAAT
55881 TATTAATATATTAAA-
1 TATTAATATATTAAAT
55896 T-TT--TATA-TAAA-
1 TATTAATATATTAAAT
55907 TATATAATATATTAAAT
1 TAT-TAATATATTAAAT
55924 ATAATTATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
11 5 0.14
12 5 0.14
13 1 0.03
14 2 0.05
15 5 0.14
16 8 0.22
17 3 0.08
18 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAATATATTAAAT
Found at i:55904 original size:27 final size:27
Alignment explanation
Indices: 55862--55925 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
55852 ATAAAATGAG
55862 ATATT-AATATTATATAAAT-TATTAAT
1 ATATTAAATATTATATAAATATA-TAAT
*
55888 ATATTAAATTTTATATAAATATATAAT
1 ATATTAAATATTATATAAATATATAAT
55915 ATATTAAATAT
1 ATATTAAATAT
55926 AATTATGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.15
27 27 0.79
28 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATATTAAATATTATATAAATATATAAT
Found at i:57451 original size:2 final size:2
Alignment explanation
Indices: 57444--57478 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
57434 TATGCGTGTC
57444 TA 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 TA T
57479 TGACTTGAAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59013 original size:88 final size:88
Alignment explanation
Indices: 58864--59127 Score: 483
Period size: 88 Copynumber: 3.0 Consensus size: 88
58854 TATTGTTCGA
*
58864 CACGTGTCTCTTGGTGTGTGTTTTGAGTTCAAACATTGATGGGTATTTTTACTTGTGATTTCTTT
1 CACGTGTCTCTTGGTGTGTGTTTTGAGTTCGAACATTGATGGGTATTTTTACTTGTGATTTCTTT
*
58929 CTTATAAAGTTTTCACAAAGCAT
66 CTTATAAAGTTTTCACAAACCAT
* *
58952 CACGTGTCTCTTGGTGTGTATTTTGAGTTCGAACATTGATGGGTGTTTTTACTTGTGATTTCTTT
1 CACGTGTCTCTTGGTGTGTGTTTTGAGTTCGAACATTGATGGGTATTTTTACTTGTGATTTCTTT
59017 CTTATAAAGTTTTCACAAACCAT
66 CTTATAAAGTTTTCACAAACCAT
*
59040 CACGTGTCTCTTGGTGTGTGTTTCGAGTTCGAACATTGATGGGTATTTTTACTTGTGATTTCTTT
1 CACGTGTCTCTTGGTGTGTGTTTTGAGTTCGAACATTGATGGGTATTTTTACTTGTGATTTCTTT
59105 CTTATAAAGTTTTCACAAACCAT
66 CTTATAAAGTTTTCACAAACCAT
59128 TTGTATTTTT
Statistics
Matches: 169, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 169 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (88 bp):
CACGTGTCTCTTGGTGTGTGTTTTGAGTTCGAACATTGATGGGTATTTTTACTTGTGATTTCTTT
CTTATAAAGTTTTCACAAACCAT
Found at i:62587 original size:67 final size:67
Alignment explanation
Indices: 62479--62606 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 67
62469 AGTCGTTTAG
* **
62479 TAGCATAAGTGATTTGGTGTCACTTGCTTATTTACTAAGATGTCGATCAGACCTTTAAGGTTATT
1 TAGCATAAGTGACTTGGTGTCACTTGCTTATACACTAAGATGTCGATCAGACCTTTAAGGTTATT
62544 AT
66 AT
* *
62546 TAGCATAAGTGACTTGGTGTCACTTG-TTCATACATTGAGATGTCGATCAGACCTTTAAGGT
1 TAGCATAAGTGACTTGGTGTCACTTGCTT-ATACACTAAGATGTCGATCAGACCTTTAAGGT
62607 CAGTTTTAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 2 0.04
67 53 0.96
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (67 bp):
TAGCATAAGTGACTTGGTGTCACTTGCTTATACACTAAGATGTCGATCAGACCTTTAAGGTTATT
AT
Found at i:63006 original size:52 final size:52
Alignment explanation
Indices: 62932--63175 Score: 310
Period size: 52 Copynumber: 4.7 Consensus size: 52
62922 TTTGGAAAGA
** * * * *
62932 AAATGTATCGATGCATTTTTTATTATATCGATACATTCTAGGTTTTTGGTCT
1 AAATGTATCGATATATTCTTTATTGTATCGATACATTCTAGGTTTTTGATCC
* * * *
62984 AAATGTATCGATGTATTCTTTATTGTATCGATACATTATAGGTTTTTGGTCT
1 AAATGTATCGATATATTCTTTATTGTATCGATACATTCTAGGTTTTTGATCC
*
63036 AAATGTATCGATATATT-TTTCATTGTATCGATACATTCTGGGTTTTTGATCC
1 AAATGTATCGATATATTCTTT-ATTGTATCGATACATTCTAGGTTTTTGATCC
* * * * *
63088 AAATGTATCGTTATATTCCTCATTGTATCGATACATTCTGGGTTTTTGACCC
1 AAATGTATCGATATATTCTTTATTGTATCGATACATTCTAGGTTTTTGATCC
* *
63140 AAATGTATTGATATATTCTTTAATGTATCGATACAT
1 AAATGTATCGATATATTCTTTATTGTATCGATACAT
63176 CCAGTTAAAT
Statistics
Matches: 172, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
51 3 0.02
52 168 0.98
53 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (52 bp):
AAATGTATCGATATATTCTTTATTGTATCGATACATTCTAGGTTTTTGATCC
Found at i:68059 original size:16 final size:18
Alignment explanation
Indices: 68040--68077 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
68030 AATAAAAACA
68040 TAAAAAAA-A-AAAATCT
1 TAAAAAAACATAAAATCT
*
68056 TAAAAAAACATAAAATTT
1 TAAAAAAACATAAAATCT
68074 TAAA
1 TAAA
68078 TAATTTAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAAAAACATAAAATCT
Found at i:68433 original size:28 final size:26
Alignment explanation
Indices: 68415--68487 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 26
68405 AATATATTTA
68415 AATATTTTATATTTATATAAATTTATT
1 AATATTTTATATTTATATAAATTT-TT
*
68442 AATAATTTATATTATATATAAATTTTTTT
1 AATATTTTATATT-TATATAAA--TTTTT
68471 AATATTTATATATTTAT
1 AATATTT-TATATTTAT
68488 TTAATATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 12 0.30
28 8 0.20
29 11 0.28
30 9 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
AATATTTTATATTTATATAAATTTTT
Found at i:68458 original size:47 final size:46
Alignment explanation
Indices: 68380--68502 Score: 121
Period size: 47 Copynumber: 2.7 Consensus size: 46
68370 CTGTCTATAT
** * *
68380 ATATTTATTATATTTATTT--TGCTATAATATATTTAAA-TATTTT-
1 ATATTTA-TATATTTATTTAATATTATATTATATATAAATTATTTTA
*
68423 ATATTTATATAAATTTA-TTAATAATTTATATTATATATAAATTTTTTTA
1 ATATTTATAT--ATTTATTTAAT-A-TTATATTATATATAAATTATTTTA
68472 ATATTTATATATTTATTTAATATTATATTAT
1 ATATTTATATATTTATTTAATATTATATTAT
68503 TTTTTATATC
Statistics
Matches: 66, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
42 3 0.05
43 9 0.14
44 5 0.08
45 1 0.02
46 9 0.14
47 19 0.29
48 10 0.15
49 10 0.15
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (46 bp):
ATATTTATATATTTATTTAATATTATATTATATATAAATTATTTTA
Found at i:68485 original size:19 final size:18
Alignment explanation
Indices: 68458--68507 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
68448 TTATATTATA
*
68458 TATAAATTTTTTTAATATT
1 TATATATTTTTTTAATA-T
*
68477 TATATATTTATTTAATAT
1 TATATATTTTTTTAATAT
68495 TATATTATTTTTT
1 TATA-TATTTTTT
68508 ATATCAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATATTTTTTTAATAT
Found at i:69045 original size:22 final size:22
Alignment explanation
Indices: 69018--69069 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
69008 TAATTTATTG
69018 ATAATATATAAAAT-T-AATATT
1 ATAATATATAAAATATAAAT-TT
*
69039 ATCAATATATTAAATATAAATTT
1 AT-AATATATAAAATATAAATTT
69062 ATAATATA
1 ATAATATA
69070 ATACAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 2 0.07
22 17 0.63
23 5 0.19
24 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAATATATAAAATATAAATTT
Found at i:71160 original size:3 final size:3
Alignment explanation
Indices: 71152--71194 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
71142 TTAATTCCCT
71152 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
71195 ACAAAAGGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:73553 original size:28 final size:28
Alignment explanation
Indices: 73470--73553 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 28
73460 CATCTATTAT
* * * *
73470 TTTAATATTTTTATATATTAAAATTATA
1 TTTAATATATTTATATATTTATATAATA
* * *
73498 TTAAAAATA-TTATAT-TATATA-AAT-
1 TTTAATATATTTATATATTTATATAATA
*
73522 TTTAATATATTTATATATTTATATCATA
1 TTTAATATATTTATATATTTATATAATA
73550 TTTA
1 TTTA
73554 TTTTTTTACA
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
24 7 0.17
25 8 0.20
26 8 0.20
27 8 0.20
28 10 0.24
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTAATATATTTATATATTTATATAATA
Found at i:74498 original size:19 final size:19
Alignment explanation
Indices: 74471--74516 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
74461 AAATTTAATA
74471 ATTTAAATATTTATTTAT-T
1 ATTTAAATATTT-TTTATGT
*
74490 ATTTTAATATTTTTTATGT
1 ATTTAAATATTTTTTATGT
*
74509 ATTAAAAT
1 ATTTAAAT
74517 TATATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTAAATATTTTTTATGT
Found at i:74546 original size:20 final size:20
Alignment explanation
Indices: 74525--74562 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
74515 ATTATATTTA
74525 AAATATT-ATATATTAATAT
1 AAATATTAATATATTAATAT
*
74544 AAATTTTAATATATTAATA
1 AAATATTAATATATTAATA
74563 ATTTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATTAATATATTAATAT
Found at i:74575 original size:20 final size:19
Alignment explanation
Indices: 74525--74576 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
74515 ATTATATTTA
74525 AAATATTATATATTAATAT
1 AAATATTATATATTAATAT
*
74544 AAATTTTAATATATTAATAAT
1 AAATATT-ATATATTAAT-AT
**
74565 TTATATTATATA
1 AAATATTATATA
74577 AAAAATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.22
20 15 0.56
21 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATATTATATATTAATAT
Found at i:75011 original size:4 final size:4
Alignment explanation
Indices: 75002--75030 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
74992 GTTATATACT
75002 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
75031 CATATCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:79440 original size:27 final size:27
Alignment explanation
Indices: 79409--79500 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
79399 CTACCAAATA
* * *
79409 TAAATTTTGCCCATTATACCCAATTGC
1 TAAATTTTGCCCACTAAAACCAATTGC
79436 TAAATTTTGCCCACTAAAACCAATTGC
1 TAAATTTTGCCCACTAAAACCAATTGC
*
79463 TAAATGTTGCCCACTAAAACCAATTGC
1 TAAATTTTGCCCACTAAAACCAATTGC
79490 TAAATTTTGCC
1 TAAATTTTGCC
79501 GCAAGATAGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.33
Consensus pattern (27 bp):
TAAATTTTGCCCACTAAAACCAATTGC
Found at i:80250 original size:73 final size:73
Alignment explanation
Indices: 80142--80285 Score: 216
Period size: 73 Copynumber: 2.0 Consensus size: 73
80132 CAGCAGCCAA
* * *
80142 GCGTAAGCCCTCATACGAACAAATTTTAACTTAATTTCAACCATTGAATAACAAAATCACCTCTC
1 GCGTAAGCCCTAATACGAACAAATCTTAACTTAATTTCAACCATTGAATAACAAAATCACCACTC
*
80207 TTTTCACG
66 ATTTCACG
* * * *
80215 GCGTAAGCGCTAATATGAACCAATCTTACCTTAATTTCAACCATTGAATAACAAAATCACCACTC
1 GCGTAAGCCCTAATACGAACAAATCTTAACTTAATTTCAACCATTGAATAACAAAATCACCACTC
80280 ATTTCA
66 ATTTCA
80286 TATTGAAACA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (73 bp):
GCGTAAGCCCTAATACGAACAAATCTTAACTTAATTTCAACCATTGAATAACAAAATCACCACTC
ATTTCACG
Found at i:81598 original size:21 final size:21
Alignment explanation
Indices: 81546--81598 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
81536 ATATTTTTTT
* *
81546 ATTAAATTATATAAACTAAAA
1 ATTATATTATAAAAACTAAAA
* *
81567 ATTATAATATAAAAATTAAAA
1 ATTATATTATAAAAACTAAAA
81588 TATT-TATTATA
1 -ATTATATTATA
81599 TTTAAAAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTATATTATAAAAACTAAAA
Found at i:81890 original size:56 final size:57
Alignment explanation
Indices: 81825--81946 Score: 137
Period size: 56 Copynumber: 2.2 Consensus size: 57
81815 ATATTTAAAA
81825 TATTATATATTTATATAAATTTTA-A-AATATTAATAATTT-ATATATATAATTT-ATTT
1 TATTATATATTTATATAAATTTTATATAATA-TAAT-ATTTAATAT-TATAATTTAATTT
* * * *
81881 TATTTTATATTTATATTATTTTTATATAATATAATATTTAATATTATATTTTAATTT
1 TATTATATATTTATATAAATTTTATATAATATAATATTTAATATTATAATTTAATTT
81938 T-TATATATA
1 TAT-TATATA
81947 GAGATGTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
56 33 0.59
57 19 0.34
58 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (57 bp):
TATTATATATTTATATAAATTTTATATAATATAATATTTAATATTATAATTTAATTT
Found at i:81899 original size:21 final size:23
Alignment explanation
Indices: 81861--81902 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
81851 ATATTAATAA
81861 TTTATATATATAATTTATTTTAT
1 TTTATATATATAATTTATTTTAT
*
81884 TTTATATTTAT-A-TTATTTT
1 TTTATATATATAATTTATTTT
81903 TATATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTATATATATAATTTATTTTAT
Found at i:81903 original size:17 final size:17
Alignment explanation
Indices: 81873--81943 Score: 56
Period size: 16 Copynumber: 4.1 Consensus size: 17
81863 TATATATATA
*
81873 ATTTATTTTA-TTTTAT
1 ATTTATATTATTTTTAT
81889 ATTTATATTATTTTTAT
1 ATTTATATTATTTTTAT
* * *
81906 A-TAATATAATATTTAAT
1 ATTTATATTAT-TTTTAT
*
81923 ATTATATTTTAATTTTTAT
1 ATT-TATATT-ATTTTTAT
81942 AT
1 AT
81944 ATAGAGATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
16 16 0.38
17 13 0.31
18 1 0.02
19 10 0.24
20 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTATATTATTTTTAT
Found at i:81907 original size:36 final size:35
Alignment explanation
Indices: 81858--81944 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 35
81848 AAAATATTAA
* *
81858 TAATTTATATATATAAT-T-TATTTTATTTTATATTT
1 TAATTT-T-TATATAATATATATTTAATATTATATTT
81893 ATATTATTTTTATATAATATAATATTTAATATTATATTT
1 -TA--ATTTTTATATAATAT-ATATTTAATATTATATTT
81932 TAATTTTTATATA
1 TAATTTTTATATA
81945 TAGAGATGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
36 21 0.48
37 2 0.05
38 6 0.14
39 15 0.34
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (35 bp):
TAATTTTTATATAATATATATTTAATATTATATTT
Found at i:81917 original size:21 final size:19
Alignment explanation
Indices: 81861--81918 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
81851 ATATTAATAA
81861 TTTATATATATAAT-TTAT
1 TTTATATATATAATATTAT
* *
81879 TTTATTTTATATTTATATTATT
1 TTTA-TATATA-TAATATTA-T
81901 TTTATATAATATAATATT
1 TTTATAT-ATATAATATT
81919 TAATATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
18 4 0.13
19 5 0.16
20 3 0.10
21 11 0.35
22 8 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTATATATATAATATTAT
Found at i:81994 original size:29 final size:30
Alignment explanation
Indices: 81953--82014 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
81943 TATAGAGATG
*
81953 TAAATAGATATTACG-AATTTAAATATTTAA
1 TAAATAGATATTACGTAATTTAAAT-TTAAA
*
81983 TAAATA-ATATTATGTAATTTAAATTTAAA
1 TAAATAGATATTACGTAATTTAAATTTAAA
82012 TAA
1 TAA
82015 CTATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (30 bp):
TAAATAGATATTACGTAATTTAAATTTAAA
Found at i:82095 original size:17 final size:18
Alignment explanation
Indices: 82057--82098 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
82047 TTAAATTTTA
*
82057 AAATATTTATACAAAATTT
1 AAATA-TTATACAAAATAT
82076 AAATATTATA-AAAATAT
1 AAATATTATACAAAATAT
82093 AAATAT
1 AAATAT
82099 CAGTTTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
18 5 0.23
19 5 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATATTATACAAAATAT
Found at i:82213 original size:3 final size:3
Alignment explanation
Indices: 82191--82244 Score: 81
Period size: 3 Copynumber: 17.3 Consensus size: 3
82181 TATTACCTTT
*
82191 TTA TTT TTA TCTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
82238 TTA TTA T
1 TTA TTA T
82245 GATGATGATG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
3 42 0.89
4 4 0.09
5 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:82249 original size:3 final size:3
Alignment explanation
Indices: 82243--82272 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
82233 TATTATTATT
82243 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
82273 TGCAGGCGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:83341 original size:12 final size:12
Alignment explanation
Indices: 83324--83348 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83314 TTTGATGTAG
83324 TCCAGATGTGAA
1 TCCAGATGTGAA
83336 TCCAGATGTGAA
1 TCCAGATGTGAA
83348 T
1 T
83349 AAGACTCATA
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:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (12 bp):
TCCAGATGTGAA
Found at i:83965 original size:73 final size:73
Alignment explanation
Indices: 83856--84000 Score: 211
Period size: 73 Copynumber: 2.0 Consensus size: 73
83846 ACAGCAGCCA
* * *
83856 AGCGTAAGCCCTCATACGAACAAATTTTAACGTAATTTCAACCATTGAATAACAAAATCACCTCT
1 AGCGTAAGCCCTAATACGAACAAATCTTAACGTAATTTCAACCATTGAATAACAAAATCACCACT
*
83921 CTTTTCAC
66 CATTTCAC
* * *
83929 AGCGTAAGCCCTAATATGAACCAAA-CTTACCTTAATTTCAACCATTGAATAACAAAATCACCAC
1 AGCGTAAGCCCTAATACGAA-CAAATCTTAACGTAATTTCAACCATTGAATAACAAAATCACCAC
83993 TCATTTCA
65 TCATTTCA
84001 TATCGAAACA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
73 60 0.94
74 4 0.06
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.28
Consensus pattern (73 bp):
AGCGTAAGCCCTAATACGAACAAATCTTAACGTAATTTCAACCATTGAATAACAAAATCACCACT
CATTTCAC
Found at i:85320 original size:21 final size:21
Alignment explanation
Indices: 85273--85320 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
85263 TTTTTTTTAA
*
85273 ATTATACAAACTAAAAATTAT
1 ATTATAAAAACTAAAAATTAT
* * * *
85294 AATATAAAAATTAAAATTTTT
1 ATTATAAAAACTAAAAATTAT
85315 ATTATA
1 ATTATA
85321 TTTAAAAAGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTATAAAAACTAAAAATTAT
Found at i:85610 original size:23 final size:22
Alignment explanation
Indices: 85584--85639 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
85574 ATATTAATAA
85584 TTTATATATATAATTTATTTTAT
1 TTTATATATATAATTTATTTT-T
*
85607 TTTATATTTAT-A-TTATTTTT
1 TTTATATATATAATTTATTTTT
*
85627 TATATA-ATATAAT
1 TTTATATATATAAT
85640 ATTTAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.11
20 7 0.25
21 7 0.25
22 1 0.04
23 10 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATATATATAATTTATTTTT
Found at i:85642 original size:19 final size:18
Alignment explanation
Indices: 85606--85670 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
85596 ATTTATTTTA
* *
85606 TTTTATATTTATATTATT
1 TTTTATATATATAATATT
85624 TTTTATATAATATAATATT
1 TTTTATAT-ATATAATATT
** ** *
85643 TAATAT-TATATTTTAAT
1 TTTTATATATATAATATT
85660 TTTTATATATA
1 TTTTATATATA
85671 GAGATGTAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
17 11 0.31
18 13 0.36
19 12 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATATATATAATATT
Found at i:85669 original size:56 final size:54
Alignment explanation
Indices: 85535--85669 Score: 130
Period size: 57 Copynumber: 2.4 Consensus size: 54
85525 ATGTGATATA
* * *
85535 ATTATATTTAAAATATTATATATTTATATAAATTTTAAAATATTAATAATTTAT
1 ATTATATTTTAATTTTTATATATTTATATAAATTTTAAAATATTAATAATTTAT
* * * **
85589 ATATATAATTTATTTTATTTTATATTTATATTATTTTTTATATAATA-TAAT-ATTTAAT
1 AT-TATATTTTAATTT-TTATATATTTATA-TAAATTTTA-A-AATATTAATAATTT-AT
85647 ATTATATTTTAATTTTTATATAT
1 ATTATATTTTAATTTTTATATAT
85670 AGAGATGTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
54 2 0.03
55 8 0.12
56 19 0.30
57 22 0.34
58 9 0.14
59 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (54 bp):
ATTATATTTTAATTTTTATATATTTATATAAATTTTAAAATATTAATAATTTAT
Found at i:85821 original size:17 final size:18
Alignment explanation
Indices: 85783--85824 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
85773 TTAAATTTTA
*
85783 AAATATTTATACAAAATTT
1 AAATA-TTATACAAAATAT
85802 AAATATTATA-AAAATAT
1 AAATATTATACAAAATAT
85819 AAATAT
1 AAATAT
85825 CAGTTTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
18 5 0.23
19 5 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATATTATACAAAATAT
Found at i:85939 original size:3 final size:3
Alignment explanation
Indices: 85917--85979 Score: 99
Period size: 3 Copynumber: 20.3 Consensus size: 3
85907 TATTACCTTT
*
85917 TTA TTT TTA TCTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85964 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
85980 GATGATGATG
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
3 51 0.91
4 4 0.07
5 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:85984 original size:3 final size:3
Alignment explanation
Indices: 85978--86007 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
85968 TATTATTATT
85978 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
86008 TGCAGGCGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:87056 original size:30 final size:30
Alignment explanation
Indices: 87006--87091 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 30
86996 ATACTTTTGT
* * *
87006 TATATTCAAAT-AAGTTTTAATATTTAATC
1 TATATCCAAATAAACTTTTAATTTTTAATC
* * *
87035 TATATCCAAATAAATTTTTAATTTTTATTT
1 TATATCCAAATAAACTTTTAATTTTTAATC
*
87065 TGTATCCAAATAAACTTTTAATTTTTA
1 TATATCCAAATAAACTTTTAATTTTTA
87092 TTTTTATTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 10 0.20
30 39 0.80
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.51
Consensus pattern (30 bp):
TATATCCAAATAAACTTTTAATTTTTAATC
Found at i:87114 original size:29 final size:30
Alignment explanation
Indices: 87037--87095 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
87027 ATTTAATCTA
87037 TATCCAAATAAATTTTTAATTTTTATTTTG
1 TATCCAAATAAATTTTTAATTTTTATTTTG
*
87067 TATCCAAATAAACTTTTAATTTTTATTTT
1 TATCCAAATAAATTTTTAATTTTTATTTT
87096 TATTTAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (30 bp):
TATCCAAATAAATTTTTAATTTTTATTTTG
Found at i:87514 original size:16 final size:15
Alignment explanation
Indices: 87493--87528 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
87483 TCCATATTAT
87493 TTTTTAAAAAATTTAA
1 TTTTT-AAAAATTTAA
*
87509 TTTTTAATAATTTAA
1 TTTTTAAAAATTTAA
87524 TTTTT
1 TTTTT
87529 TTGTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTAAAAATTTAA
Found at i:87529 original size:16 final size:17
Alignment explanation
Indices: 87491--87529 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
87481 TATCCATATT
87491 ATTTTTTAAAAAATTTA
1 ATTTTTTAAAAAATTTA
*
87508 A-TTTTT-AATAATTTA
1 ATTTTTTAAAAAATTTA
87523 ATTTTTT
1 ATTTTTT
87530 TGTTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 9 0.45
16 10 0.50
17 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTTAAAAAATTTA
Found at i:88244 original size:17 final size:17
Alignment explanation
Indices: 88222--88281 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
88212 ACGAATAGAT
88222 ATATCAAAATCTATAAA
1 ATATCAAAATCTATAAA
88239 ATATC--AAT-TATTAACA
1 ATATCAAAATCTA-TAA-A
*
88255 TTATCAAAATCTATATAA
1 ATATCAAAATCTATA-AA
88273 ATAT-AAAAT
1 ATATCAAAAT
88282 AACTTAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
14 2 0.06
15 6 0.17
16 5 0.14
17 10 0.29
18 9 0.26
19 3 0.09
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATCAAAATCTATAAA
Found at i:93966 original size:16 final size:18
Alignment explanation
Indices: 93947--94007 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 18
93937 TATATCAAAA
93947 TTATATTTAATA-T-ATT
1 TTATATTTAATATTAATT
93963 TTATATTT-ATATTAATT
1 TTATATTTAATATTAATT
93980 TTGATATTTTAATAATTCATATT
1 TT-ATA-TTTAAT-ATT-A-ATT
94003 TTATA
1 TTATA
94008 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.08
16 9 0.24
17 5 0.14
18 3 0.08
19 3 0.08
20 2 0.05
21 3 0.08
22 4 0.11
23 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
TTATATTTAATATTAATT
Found at i:93995 original size:17 final size:16
Alignment explanation
Indices: 93947--94005 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
93937 TATATCAAAA
93947 TTATA-TTTAATATATT
1 TTATATTTTAATA-ATT
*
93963 TTATATTTATATTAATT
1 TTATATTT-TAATAATT
93980 TTGATATTTTAATAA-T
1 TT-ATATTTTAATAATT
*
93996 TCATATTTTA
1 TTATATTTTA
94006 TAAATTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 8 0.22
16 7 0.19
17 12 0.32
18 10 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
TTATATTTTAATAATT
Found at i:97153 original size:2 final size:2
Alignment explanation
Indices: 97146--97176 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
97136 CACTTTGTCT
97146 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 T
97177 TAATTTTTGG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:99584 original size:58 final size:58
Alignment explanation
Indices: 99522--99704 Score: 162
Period size: 58 Copynumber: 3.1 Consensus size: 58
99512 AATAAAAATT
99522 TAGTGATAAAATTCAATCAAAAGAGTAGAGTGTCAAAATTTAATATTTAGTTAAACTA
1 TAGTGATAAAATTCAATCAAAAGAGTAGAGTGTCAAAATTTAATATTTAGTTAAACTA
* * * ** * * *
99580 TAGTGATAAATTTACACTTAATCTATAAGA-TA-A-TG--ATAAATATCAAT-TAAAAATAAAAA
1 TAGTGATAAAATT---C--AATC-AAAAGAGTAGAGTGTCA-AAAT-TTAATAT-TTAGTTAAAC
*
99639 TT
57 TA
99641 TAGTGATAAAATTCAATCAAAAGAGTAGAGTGTCAAAATTTAATATTTAGTTAAACTA
1 TAGTGATAAAATTCAATCAAAAGAGTAGAGTGTCAAAATTTAATATTTAGTTAAACTA
99699 TAGTGA
1 TAGTGA
99705 CAAATTTACA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
55 5 0.05
56 6 0.07
57 1 0.01
58 31 0.34
59 6 0.07
60 6 0.07
61 25 0.27
62 1 0.01
63 6 0.07
64 5 0.05
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (58 bp):
TAGTGATAAAATTCAATCAAAAGAGTAGAGTGTCAAAATTTAATATTTAGTTAAACTA
Found at i:99637 original size:119 final size:119
Alignment explanation
Indices: 99499--99755 Score: 473
Period size: 119 Copynumber: 2.2 Consensus size: 119
99489 TTAAGTAATA
99499 AAAT-TCAATTAAAAATAAAAATTTAGTGATAAAATTCAATCAAAAGAGTAGAGTGTCAAAATTT
1 AAATATCAATTAAAAATAAAAATTTAGTGATAAAATTCAATCAAAAGAGTAGAGTGTCAAAATTT
* *
99563 AATATTTAGTTAAACTATAGTGATAAATTTACACTTAATCTATAAGATAATGAT
66 AATATTTAGTTAAACTATAGTGACAAATTTACACTTAATCTACAAGATAATGAT
99617 AAATATCAATTAAAAATAAAAATTTAGTGATAAAATTCAATCAAAAGAGTAGAGTGTCAAAATTT
1 AAATATCAATTAAAAATAAAAATTTAGTGATAAAATTCAATCAAAAGAGTAGAGTGTCAAAATTT
*
99682 AATATTTAGTTAAACTATAGTGACAAATTTACACTTAATCTACAAGATAGTGAT
66 AATATTTAGTTAAACTATAGTGACAAATTTACACTTAATCTACAAGATAATGAT
99736 AAATATCAATT-AAAATAAAA
1 AAATATCAATTAAAAATAAAA
99756 TATAATAATA
Statistics
Matches: 135, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
118 13 0.10
119 122 0.90
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (119 bp):
AAATATCAATTAAAAATAAAAATTTAGTGATAAAATTCAATCAAAAGAGTAGAGTGTCAAAATTT
AATATTTAGTTAAACTATAGTGACAAATTTACACTTAATCTACAAGATAATGAT
Found at i:100002 original size:16 final size:17
Alignment explanation
Indices: 99960--100004 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
99950 TTTATAATAT
99960 TTTTATAATTATTATGTAC
1 TTTTAT-ATTA-TATGTAC
99979 -TTTA-ATTATAT-TAC
1 TTTTATATTATATGTAC
99993 TTTTATATTATA
1 TTTTATATTATA
100005 ATCAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.12
15 7 0.29
16 10 0.42
18 4 0.17
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTATATTATATGTAC
Found at i:101233 original size:13 final size:12
Alignment explanation
Indices: 101210--101239 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
101200 TAACACACAA
101210 ATAAAAAATATT
1 ATAAAAAATATT
101222 ATAAAAATATATT
1 ATAAAAA-ATATT
101235 ATAAA
1 ATAAA
101240 GTGATTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAAAAATATT
Found at i:102168 original size:27 final size:29
Alignment explanation
Indices: 102114--102168 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
102104 ATTTTTAGAA
*
102114 TAAAATGTATATATTATGTATAAATTAAT
1 TAAAATGTATATATGATGTATAAATTAAT
* *
102143 TAAAATTTA-ATATGAT-TATAATTTAA
1 TAAAATGTATATATGATGTATAAATTAA
102169 AAATATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 9 0.39
28 6 0.26
29 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (29 bp):
TAAAATGTATATATGATGTATAAATTAAT
Found at i:102830 original size:22 final size:22
Alignment explanation
Indices: 102783--102829 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
102773 TAAAATATGT
102783 ATTTTAT-ATTAATATTTATAA
1 ATTTTATAATTAATATTTATAA
102804 ATTTTATAATTAA-ATTTA-AA
1 ATTTTATAATTAATATTTATAA
102824 TATTTT
1 -ATTTT
102830 TTTAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.08
21 17 0.71
22 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTATAATTAATATTTATAA
Found at i:102835 original size:22 final size:22
Alignment explanation
Indices: 102769--102837 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
102759 AATTAACAAA
* *
102769 AAATTAAAATATGTATTTTATATT
1 AAATTTAAATAT-TTTTTTA-ATT
*
102793 AATATTTATAA-A-TTTTATAATT
1 AA-ATTTA-AATATTTTTTTAATT
102815 AAATTTAAATATTTTTTTAATT
1 AAATTTAAATATTTTTTTAATT
102837 A
1 A
102838 TTAAATATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
20 2 0.05
21 6 0.16
22 15 0.41
23 5 0.14
24 2 0.05
25 5 0.14
26 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (22 bp):
AAATTTAAATATTTTTTTAATT
Found at i:103208 original size:23 final size:22
Alignment explanation
Indices: 103149--103213 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
103139 ATGCTAAAAG
*
103149 AATAAAAGATTATTTTTAAAATT
1 AATAAAA-ATTATTTTTGAAATT
*
103172 AAT-TAAATTATTTTTGAAATT
1 AATAAAAATTATTTTTGAAATT
* *
103193 AGTAAAATATTATTTTAGAAA
1 AATAAAA-ATTATTTTTGAAA
103214 ATTTTTTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 16 0.46
22 4 0.11
23 15 0.43
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (22 bp):
AATAAAAATTATTTTTGAAATT
Found at i:103292 original size:14 final size:14
Alignment explanation
Indices: 103273--103308 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
103263 TGTTTATAGA
*
103273 TATTTATTAATAAT
1 TATTTATTAAAAAT
103287 TATTTATTAAAAAT
1 TATTTATTAAAAAT
*
103301 TAATTATT
1 TATTTATT
103309 TCCTTTAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTTATTAAAAAT
Found at i:105071 original size:32 final size:32
Alignment explanation
Indices: 105008--105189 Score: 95
Period size: 32 Copynumber: 5.4 Consensus size: 32
104998 AATTTAAATT
* *
105008 AATTTGATTTAAATTATTATT-TAATAA-ATAAA
1 AATTTTATTTAAATT-TAATTATAA-AATATAAA
105040 AATTTTATTTAAATTTAATTATAAAATATAAA
1 AATTTTATTTAAATTTAATTATAAAATATAAA
* * * * *
105072 ATAGTTTATTAAATATTTTAATATATTTTAATTTTAAA
1 A-ATTTTATTTAA-A-TTTAAT-TA--TAAAATATAAA
* * *
105110 TTAATTTGATTTGAATTATTATT-TAATAA-ATAAA
1 --AATTTTATTTAAATT-TAATTATAA-AATATAAA
**
105144 AATTTTATTTAGGTTTAATTATAAAATATAAA
1 AATTTTATTTAAATTTAATTATAAAATATAAA
*
105176 ATAATTTA-TTAAAT
1 A-ATTTTATTTAAAT
105190 ATTTTAATAT
Statistics
Matches: 112, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
31 12 0.11
32 47 0.42
33 14 0.12
34 7 0.06
35 7 0.06
36 2 0.02
37 3 0.03
38 12 0.11
39 7 0.06
40 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (32 bp):
AATTTTATTTAAATTTAATTATAAAATATAAA
Found at i:105102 original size:104 final size:104
Alignment explanation
Indices: 104985--105208 Score: 394
Period size: 104 Copynumber: 2.2 Consensus size: 104
104975 CAGACATAAA
*
104985 TTAATATACTTTAAATTTAAATTAATTTGATTTAAATTATTATTTAATAAATAAAAATTTTATTT
1 TTAATATATTTTAAATTTAAATTAATTTGATTTAAATTATTATTTAATAAATAAAAATTTTATTT
*
105050 AAATTTAATTATAAAATATAAAATAGTTTATTAAATATT
66 AAATTTAATTATAAAATATAAAATAATTTATTAAATATT
* *
105089 TTAATATATTTTAATTTTAAATTAATTTGATTTGAATTATTATTTAATAAATAAAAATTTTATTT
1 TTAATATATTTTAAATTTAAATTAATTTGATTTAAATTATTATTTAATAAATAAAAATTTTATTT
**
105154 AGGTTTAATTATAAAATATAAAATAATTTATTAAATATT
66 AAATTTAATTATAAAATATAAAATAATTTATTAAATATT
105193 TTAATATATTTTAAAT
1 TTAATATATTTTAAAT
105209 AATAAAATAA
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 113 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.50
Consensus pattern (104 bp):
TTAATATATTTTAAATTTAAATTAATTTGATTTAAATTATTATTTAATAAATAAAAATTTTATTT
AAATTTAATTATAAAATATAAAATAATTTATTAAATATT
Found at i:108977 original size:23 final size:23
Alignment explanation
Indices: 108949--109009 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 23
108939 AAATTAAAAT
108949 TTATTTTTATATGA-TAAAATAAA
1 TTATTTTTATAT-ATTAAAATAAA
*
108972 TTATTTATTAAAAATATTAAAATAAA
1 TTATTT-TT--ATATATTAAAATAAA
108998 TTATTTTTATAT
1 TTATTTTTATAT
109010 TAATATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
23 9 0.28
24 2 0.06
25 3 0.09
26 18 0.56
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTATTTTTATATATTAAAATAAA
Found at i:109027 original size:22 final size:22
Alignment explanation
Indices: 108999--109040 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
108989 TAAAATAAAT
108999 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
109021 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
109041 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Done.