Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2485
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: 359192
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 1 of 4
Found at i:7982 original size:20 final size:20
Alignment explanation
Indices: 7935--8006 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
7925 AAAAAGACAT
7935 AATGTATCGATACATT-ATA
1 AATGTATCGATACATTCATA
*
7954 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
7975 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
7995 AATGTATCGATA
1 AATGTATCGATA
8007 TATCAGGGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 41 0.93
21 3 0.07
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:9364 original size:2 final size:2
Alignment explanation
Indices: 9357--9395 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9347 TTTAGCTTAC
9357 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
9396 TCTTTCGCTC
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:11600 original size:15 final size:14
Alignment explanation
Indices: 11582--11611 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
11572 AATATAATAT
11582 TGTTATATATTTTAA
1 TGTTATAT-TTTTAA
11597 TGTTATATTTTTAA
1 TGTTATATTTTTAA
11611 T
1 T
11612 TATCTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TGTTATATTTTTAA
Found at i:12258 original size:27 final size:29
Alignment explanation
Indices: 12219--12273 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
12209 TGTCTATAGA
* *
12219 TCGAGTTATGCTCGAAT-ATTT-TTTTAT
1 TCGAGTTAAGCTCAAATAATTTATTTTAT
12246 TCGAGTTAAGCTCAAATAATTTATTTTA
1 TCGAGTTAAGCTCAAATAATTTATTTTA
12274 AGTTTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 15 0.62
28 4 0.17
29 5 0.21
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (29 bp):
TCGAGTTAAGCTCAAATAATTTATTTTAT
Found at i:13443 original size:17 final size:17
Alignment explanation
Indices: 13421--13477 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
13411 ACTTGTTTCT
13421 TATATTTGTACCTAATA
1 TATATTTGTACCTAATA
* **
13438 TATATTCAGTAGTTTAAGATA
1 TATATT-TGTA-CCT-A-ATA
13459 TATATTTGTACCTAATA
1 TATATTTGTACCTAATA
13476 TA
1 TA
13478 GGTATAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
17 11 0.37
18 4 0.13
19 2 0.07
20 4 0.13
21 9 0.30
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (17 bp):
TATATTTGTACCTAATA
Found at i:14144 original size:3 final size:3
Alignment explanation
Indices: 14136--14179 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
14126 TGATAACACC
14136 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14180 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14514 original size:24 final size:25
Alignment explanation
Indices: 14471--14520 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
14461 TTTTATGTCT
14471 ATTTTAATAATATTCAATTTT-TAAA
1 ATTTTAATAATATT-AATTTTATAAA
14496 ATTTTAATATATATT-ATTTTATAAA
1 ATTTTAATA-ATATTAATTTTATAAA
14521 TTTATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.22
25 13 0.57
26 5 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTTAATAATATTAATTTTATAAA
Found at i:14555 original size:19 final size:18
Alignment explanation
Indices: 14526--14587 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
14516 ATAAATTTAT
*
14526 TTAAATATTTTTAATTAA
1 TTAAATATTTTTTATTAA
14544 TTAAATATTTTTTATATAA
1 TTAAATATTTTTTAT-TAA
* *
14563 TTATATAAATTATTTATTAA
1 TTA-A-ATATTTTTTATTAA
14583 TTAAA
1 TTAAA
14588 AATATAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 15 0.39
19 7 0.18
20 7 0.18
21 9 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAAATATTTTTTATTAA
Found at i:14591 original size:41 final size:41
Alignment explanation
Indices: 14499--14592 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
14489 TTTTAAAATT
* *
14499 TTAATATATATTATTTTATAAATTTATTTAAATATTTTTAA
1 TTAATAAATATTATTTTATAAATTTATATAAATATTTTTAA
14540 TTAATTAAATATT-TTTTATATAA-TTATATAAATTATTTATTAA
1 TTAA-TAAATATTATTTTATA-AATTTATATAAA-TATTT-TTAA
14583 TTAA-AAATAT
1 TTAATAAATAT
14593 AAATAATTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
41 25 0.53
42 14 0.30
43 8 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (41 bp):
TTAATAAATATTATTTTATAAATTTATATAAATATTTTTAA
Found at i:14677 original size:15 final size:15
Alignment explanation
Indices: 14612--14677 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 15
14602 GAAAATTTTT
*
14612 AAATAAAAATTTAAA
1 AAATTAAAATTTAAA
*
14627 AAA-T-AAA-CTAAA
1 AAATTAAAATTTAAA
* *
14639 AAA-TAAGAGTTAAA
1 AAATTAAAATTTAAA
*
14653 AGATTAAAATTTAAA
1 AAATTAAAATTTAAA
*
14668 AAATTTAAAT
1 AAATTAAAAT
14678 AAAAATAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
12 8 0.21
13 5 0.13
14 6 0.15
15 20 0.51
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (15 bp):
AAATTAAAATTTAAA
Found at i:14682 original size:41 final size:39
Alignment explanation
Indices: 14612--14710 Score: 105
Period size: 41 Copynumber: 2.4 Consensus size: 39
14602 GAAAATTTTT
14612 AAATAAAAATTTAAAAAATAAACTAAAAAATAAGAGTTAA-A
1 AAAT-AAAATTTAAAAAATAAACTAAAAAATAA-A-TTAATA
*
14653 AGATTAAAATTTAAAAAATTTAAA-T-AAAAATAAATTAATA
1 A-AATAAAATTTAAAAAA--TAAACTAAAAAATAAATTAATA
14693 AAATAAAATTGTAAAAAA
1 AAATAAAATT-TAAAAAA
14711 AAAAGACTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
39 12 0.24
40 10 0.20
41 22 0.43
42 3 0.06
43 4 0.08
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (39 bp):
AAATAAAATTTAAAAAATAAACTAAAAAATAAATTAATA
Found at i:18140 original size:42 final size:43
Alignment explanation
Indices: 18093--18175 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 43
18083 CCTTGAGTAG
*
18093 TATATAAGATGAATGAAGCTTGGCAATAAG-TTTATCAATACT
1 TATATAAAATGAATGAAGCTTGGCAATAAGTTTTATCAATACT
18135 TATATAAAATGAATGAAGCTTGGCAATAAGTTTTATCAATA
1 TATATAAAATGAATGAAGCTTGGCAATAAGTTTTATCAATA
18176 ACTAGTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 29 0.74
43 10 0.26
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (43 bp):
TATATAAAATGAATGAAGCTTGGCAATAAGTTTTATCAATACT
Found at i:23692 original size:39 final size:39
Alignment explanation
Indices: 23621--23701 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
23611 GCAAAGACCC
* * * *
23621 AAAAAAAAATGTAAATTGCTAATGAATTAAAGGTAATAG
1 AAAAAAAAATGTAAACTGCAAAAGAATCAAAGGTAATAG
*
23660 AAAAAAAAATGTAAACTGCAAAAGAATCAAAGGTGATAG
1 AAAAAAAAATGTAAACTGCAAAAGAATCAAAGGTAATAG
23699 AAA
1 AAA
23702 TCAAGGCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.20
Consensus pattern (39 bp):
AAAAAAAAATGTAAACTGCAAAAGAATCAAAGGTAATAG
Found at i:24725 original size:21 final size:21
Alignment explanation
Indices: 24701--24743 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
24691 TTAATAAAAA
24701 ATATATTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
24722 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
24743 A
1 A
24744 AATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:24754 original size:35 final size:35
Alignment explanation
Indices: 24715--24781 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
24705 ATTTTATATT
24715 AATATTTATATATT-TTATAAT-TAAATTTAAATAAA
1 AATATTTATA-ATTATTA-AATATAAATTTAAATAAA
* *
24750 AATATTTTTAATTATTAAATATTAATTTAAAT
1 AATATTTATAATTATTAAATATAAATTTAAAT
24782 CGAGCCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 6 0.21
35 22 0.79
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
AATATTTATAATTATTAAATATAAATTTAAATAAA
Found at i:24937 original size:22 final size:21
Alignment explanation
Indices: 24896--24952 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 21
24886 TTTTTATTTG
24896 AATTAAATTTAAATATTATTTT-T
1 AATTAAATTT--ATA-TATTTTAT
24919 ATATTAATATTTATATATTTTAT
1 A-ATTAA-ATTTATATATTTTAT
24942 AATTAAATTTA
1 AATTAAATTTA
24953 AATAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 5 0.16
22 11 0.35
23 6 0.19
24 5 0.16
25 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTAAATTTATATATTTTAT
Found at i:24996 original size:21 final size:21
Alignment explanation
Indices: 24950--25001 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
24940 ATAATTAAAT
* **
24950 TTAAATAAA-AATTATTTTTA
1 TTAAATAAATAATAATTTGAA
*
24970 TAAAATAAATAATAATTTGAA
1 TTAAATAAATAATAATTTGAA
24991 TTAAATTAAAT
1 TTAAA-TAAAT
25002 TGATCTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 8 0.32
21 12 0.48
22 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TTAAATAAATAATAATTTGAA
Found at i:25774 original size:12 final size:12
Alignment explanation
Indices: 25757--25786 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
25747 TAATTTAATT
25757 AATAAAAATTTA
1 AATAAAAATTTA
25769 AAT-AAAATTTA
1 AATAAAAATTTA
25780 AATAAAA
1 AATAAAA
25787 TTAATTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAAAAATTTA
Found at i:25775 original size:11 final size:11
Alignment explanation
Indices: 25761--25788 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
25751 TTAATTAATA
25761 AAAATTTAAAT
1 AAAATTTAAAT
25772 AAAATTTAAAT
1 AAAATTTAAAT
25783 AAAATT
1 AAAATT
25789 AATTATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTTAAAT
Found at i:26963 original size:19 final size:19
Alignment explanation
Indices: 26938--26977 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
26928 TAAATATAAT
26938 TATAAAAAT-ATATATTAA
1 TATAAAAATAATATATTAA
*
26956 TATAAAAATAATATTTTAA
1 TATAAAAATAATATATTAA
26975 TAT
1 TAT
26978 TTTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAAAAATAATATATTAA
Found at i:38742 original size:24 final size:25
Alignment explanation
Indices: 38714--38761 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
38704 ATACATTATT
38714 ATTTAAAGAGAAG-TAAAAAAAATG
1 ATTTAAAGAGAAGTTAAAAAAAATG
*
38738 ATTTAATGAGAAGTTAAAAAAAAT
1 ATTTAAAGAGAAGTTAAAAAAAAT
38762 TTATCTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (25 bp):
ATTTAAAGAGAAGTTAAAAAAAATG
Found at i:39963 original size:28 final size:27
Alignment explanation
Indices: 39929--40001 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 27
39919 TAAATTTGAT
*
39929 ATTATAAATTAAAAAAAT-TTAATTTTA
1 ATTATAAATTAAAAAAATATTAA-TATA
39956 ATTGATAAATTATATAAAAATATTAATATA
1 ATT-ATAAATTA-A-AAAAATATTAATATA
39986 ATTATAATATTAAAAA
1 ATTATAA-ATTAAAAA
40002 TAAAATAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
27 3 0.08
28 11 0.28
29 6 0.15
30 16 0.40
31 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
ATTATAAATTAAAAAAATATTAATATA
Found at i:40317 original size:27 final size:29
Alignment explanation
Indices: 40262--40341 Score: 78
Period size: 31 Copynumber: 2.8 Consensus size: 29
40252 ATTTAAAAAA
* **
40262 TTTAATAAATAATAATATATTAATTATTATT
1 TTTAATAAAAAATAATAT-TTAA-TATTAAC
40293 TTTAATAAAAAATAATATTT-A-ATTAAC
1 TTTAATAAAAAATAATATTTAATATTAAC
*
40320 TTTAA-AAAAAATTATA-TTAATA
1 TTTAATAAAAAATAATATTTAATA
40342 AATTAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
25 2 0.05
26 11 0.26
27 10 0.23
29 1 0.02
30 2 0.05
31 17 0.40
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (29 bp):
TTTAATAAAAAATAATATTTAATATTAAC
Found at i:40428 original size:116 final size:115
Alignment explanation
Indices: 40300--40671 Score: 444
Period size: 116 Copynumber: 3.3 Consensus size: 115
40290 ATTTTTAATA
40300 AAAAATAATATTTAATTAACTTTAAAAAAAATTATATTAATAAATTAAAATATTAATTATTTTTT
1 AAAAATAATATTTAATTAACTTTAAAAAAAATTATATTAATAAATTAAAATATTAATTATTTTTT
40365 AATGTAAAAAATTAAATTGAAAAGTGTTTAATT-TTATTTTTTAATAAAATT
66 AAT-TAAAAAATTAAATT-AAAAGTGTTTAATTATTATTTTTTAATAAAATT
* * *
40416 AAAAATAATATTTAATTAACTTTAAAAAAATTTATATTAATAAATTAAAATATTAA-T-CTTTTA
1 AAAAATAATATTTAATTAACTTTAAAAAAAATTATATTAATAAATTAAAATATTAATTATTTTTT
* *
40479 AAATAAAAAATTAAATTAAAAAGGGTTT-ATTATTATTATTTTTAATAAAATT
66 AATTAAAAAATTAAATT-AAAAGTGTTTAATTATTA-T-TTTTTAATAAAATT
* * * *
40531 AAAAATAATATTTAATTAAGTTT-CAAAAAATTACATTAACAAATTAAAATATTAATTATTATGT
1 AAAAATAATATTTAATTAACTTTAAAAAAAATTATATTAATAAATTAAAATATTAATTATT-T-T
* * *
40595 TT--TTATAAAAA-T--A--AAAAGTATTTATTATTGTTATTTTTTAATAAAATA
64 TTAATTA-AAAAATTAAATTAAAAGTGTTTA--ATTATTATTTTTTAATAAAATT
* *
40643 AAAAATGATATTTAATTAAATTTAAAAAA
1 AAAAATAATATTTAATTAACTTTAAAAAA
40672 TTCACATTAA
Statistics
Matches: 223, Mismatches: 21, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
111 8 0.04
112 37 0.17
113 31 0.14
114 42 0.19
115 38 0.17
116 59 0.26
117 6 0.03
118 2 0.01
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (115 bp):
AAAAATAATATTTAATTAACTTTAAAAAAAATTATATTAATAAATTAAAATATTAATTATTTTTT
AATTAAAAAATTAAATTAAAAGTGTTTAATTATTATTTTTTAATAAAATT
Found at i:40429 original size:22 final size:22
Alignment explanation
Indices: 40404--40465 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 22
40394 AATTTTATTT
40404 TTTAATAAAATTAAAAATAA-TA
1 TTTAATAAAATTAAAAA-AATTA
**
40426 TTTAATTAACTTTAAAAAAATTTA
1 TTTAA-TAAAATTAAAAAAA-TTA
40450 TATTAAT-AAATTAAAA
1 T-TTAATAAAATTAAAA
40466 TATTAATCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
22 7 0.22
23 17 0.53
24 4 0.12
25 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAATAAAATTAAAAAAATTA
Found at i:40647 original size:36 final size:39
Alignment explanation
Indices: 40580--40661 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 39
40570 CAAATTAAAA
40580 TATTAATTATTATGTTTTTATAAAAATAAAAA-G-TATT
1 TATTAATTATTATGTTTTTATAAAAATAAAAATGATATT
*
40617 TATT-ATTGTTAT-TTTTTA-ATAAAATAAAAAATGATATT
1 TATTAATTATTATGTTTTTATA-AAAAT-AAAAATGATATT
40655 TAATTAA
1 T-ATTAA
40662 ATTTAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
34 1 0.03
35 11 0.29
36 12 0.32
37 5 0.13
38 5 0.13
39 3 0.08
40 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (39 bp):
TATTAATTATTATGTTTTTATAAAAATAAAAATGATATT
Found at i:40695 original size:24 final size:25
Alignment explanation
Indices: 40666--40727 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
40656 AATTAAATTT
* *
40666 AAAAAATTCACA-TTAACAAATTAA
1 AAAAAATTAACATTTAAAAAATTAA
40690 AAAAAA-TAACATTTAAAAAATTAA
1 AAAAAATTAACATTTAAAAAATTAA
*
40714 AAAAAATTATCATT
1 AAAAAATTAACATT
40728 ATTCAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.12
24 23 0.70
25 6 0.18
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAAAATTAACATTTAAAAAATTAA
Found at i:40717 original size:112 final size:112
Alignment explanation
Indices: 40398--40717 Score: 353
Period size: 112 Copynumber: 2.8 Consensus size: 112
40388 GTGTTTAATT
* * *
40398 TTATTTTTTAATAAAATTAAAAATAATATTTAATTAACTTTAAAAAAATTTATATTAATAAATTA
1 TTATTTTTTAATAAAATTAAAAATAATATTTAATTAAATTTAAAAAAA-TTACATTAACAAATTA
* *
40463 AAATATTAATCTTTTAAAATAA-AAAATTAAATTAAAAAGGGTTTATTATTA
65 AAATATTAA-CTTTTAAAA-AATTAAA--AAATTAAAAAGGATTTATTATTA
* *
40514 TTA-TTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTCAAAAAATTACATTAACAAATTAA
1 TTATTTTTTAATAAAATTAAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAA
***** * *
40578 AATATTAA-TTATTATGTTTTTATAAAAA-TAAAAAGTATTTATTATTG
66 AATATTAACTT-TTAAAAAATTA-AAAAATTAAAAAGGATTTATTATTA
* *
40625 TTATTTTTTAATAAAATAAAAAATGATATTTAATTAAATTT-AAAAAATTCACATTAACAAATTA
1 TTATTTTTTAATAAAATTAAAAATAATATTTAATTAAATTTAAAAAAATT-ACATTAACAAATT-
* * *
40689 AAAAAAATAACATTTAAAAAATTAAAAAA
64 AAAATATTAACTTTTAAAAAATTAAAAAA
40718 AATTATCATT
Statistics
Matches: 173, Mismatches: 24, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
111 27 0.16
112 57 0.33
113 18 0.10
114 26 0.15
115 42 0.24
116 3 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (112 bp):
TTATTTTTTAATAAAATTAAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAA
AATATTAACTTTTAAAAAATTAAAAAATTAAAAAGGATTTATTATTA
Found at i:40735 original size:25 final size:24
Alignment explanation
Indices: 40666--40741 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
40656 AATTAAATTT
40666 AAAAAATTCACATTA-ACAAATTAA
1 AAAAAATT-ACATTATACAAATTAA
* *
40690 AAAAAATAACATT-TAAAAAATTAA
1 AAAAAATTACATTAT-ACAAATTAA
*
40714 AAAAAATTATCATTATTCAAA-TAA
1 AAAAAATTA-CATTATACAAATTAA
40738 AAAA
1 AAAA
40742 CCCTCTATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.12
24 30 0.70
25 7 0.16
26 1 0.02
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAAAATTACATTATACAAATTAA
Found at i:40987 original size:14 final size:13
Alignment explanation
Indices: 40966--41001 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
40956 ATTTTTCTAA
40966 TAAAAAATATTTT
1 TAAAAAATATTTT
*
40979 CTCAAAAATATTTT
1 -TAAAAAATATTTT
40993 TAAAAAATA
1 TAAAAAATA
41002 AAAAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAAAATATTTT
Found at i:41230 original size:124 final size:122
Alignment explanation
Indices: 41011--41370 Score: 460
Period size: 124 Copynumber: 2.9 Consensus size: 122
41001 AAAAAATATT
* *
41011 ATTATAATAAAAAACTTTTTTAATTTAAAATTTTTTA-TTTT-TAAAAAATAACAATTAATATTT
1 ATTATAATAAAAAACTTTTTT-ATTTTAAATTTTTTATTTTTATAAAAAATAATAATTAATATTT
* *
41074 TAATTTGTTAATGTAAATTTTTTAAAACTTAATTAAATATTATTTTTTATTTTATTAACA
65 TAATTTGTTAATGT-AATTTTTT-AAACTTAATTAAATATTATTTTTAATTTTATTAAAA
41134 ATTATAATAAAAAACTTTTTTATTTTAAATTTTTGTATTTTTATAAAAACATAATAATTAATATT
1 ATTATAATAAAAAACTTTTTTATTTTAAATTTTT-TATTTTTATAAAAA-ATAATAATTAATATT
* *
41199 TTAATTTTTTAATGTAATTTTTTAAACTTAATTAACTATTATTTTTAATTTTATTAAAA
64 TTAATTTGTTAATGTAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAA
* * * * *
41258 ATAATAATAATAAACCTTTTTTATTTT-TATTTAAATTT-TTTTATTTGAAAAA-AATAATTAAT
1 ATTATAATAA-AAAACTTTTTTATTTTAAATTT---TTTATTTT-TATAAAAAATAATAATTAAT
* * *
41320 ATTTTAATTTGCTAATATAATTTTTTTAAAGTTAATTAAATATTATTTTTA
61 ATTTTAATTTGTTAATGTAA-TTTTTTAAACTTAATTAAATATTATTTTTA
41371 TTAAAAATAA
Statistics
Matches: 211, Mismatches: 16, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
122 12 0.06
123 23 0.11
124 77 0.36
125 62 0.29
126 35 0.17
127 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (122 bp):
ATTATAATAAAAAACTTTTTTATTTTAAATTTTTTATTTTTATAAAAAATAATAATTAATATTTT
AATTTGTTAATGTAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAA
Found at i:42130 original size:180 final size:180
Alignment explanation
Indices: 41827--42633 Score: 973
Period size: 180 Copynumber: 4.4 Consensus size: 180
41817 TAAAGTATAA
* * * * * * * *
41827 ATTGTAAATGCCAGACTG-TAAGAAATATACTAATACATGGATTATATTTGAGAATCAGATTCTT
1 ATTGTAAATGTCAGACTGCAAAG-ATTAGACTAATGCATGAATTATATCTGAGAATCGGA-T-TT
** * *
41891 TTTTATTGAAAAAAGAAAAGTTGATTGATTGTAAATTTCAGACTGCAAGGATTAGACTAATGCAT
63 TTTTATAAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTACAAGGATTAGACTAATGCAT
41956 GAATTATATCTGAGAATCAATTCTTTTTATAG-AAAAAAAGAAAAGTTGATTG
128 GAATTATATCTGAGAATCAATTCTTTTTATAGAAAAAAAAGAAAAGTTGATTG
* * * * *
42008 ATTGTAAATGTTAAACTGTAAAGATTAGACTAATGCATGAATTATATCTGGGAATTGGATTTTTT
1 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTTTTT
* * * * * *
42073 AATGAAAAAAAAGAAAAGTTGATTGATTGTAAATGTCATATTATAAGGGTTAGACTAATGTATGA
66 TAT-AAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGA
*
42138 ATTATATTTGAGAATCAATTCTTTATTATAGAAAAAAAAGAAAAGTTGATTG
130 ATTATATCTGAGAATCAATTCTTT-TTATAGAAAAAAAAGAAAAGTTGATTG
* * * *
42190 ATTGTAAATGTCAGATTACAAAGATTAGACTAATGCATGAATTATATCCGAGAATCGGTTTCTTT
1 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGG-AT-TTT
* ** * *
42255 TTTATATAAAAAAGAAAAGTTGAACGATTGTAAATATCAGACTGCAAGGATTAGACTAATGCATG
64 TTTATAAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATG
* * *
42320 AATTATATCTGAGAATTGAATTCTTTTTTATA-AAAAAAAAGAAATA-CTAATTG
129 AATTATATCTGAGAA-TCAATTC-TTTTTATAGAAAAAAAAGAAA-AGTTGATTG
* ** * *
42373 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATATATGAATTATATCTGAAAATC-AATTCTTT
1 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGATT-TTT
* **
42437 TT-TATAGAAAAA-AAAAGTTGATTGATTGTAAATGTCAGACTACAAATATTAGACTAATGCATG
65 TTATA-AAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATG
* *
42500 AATTATATTTGAGAATCAGATT-TTTTTTTATGAAAAAAAAGAAAAGTTGATTG
129 AATTATATCTGAGAATCA-ATTCTTTTTATA-GAAAAAAAAGAAAAGTTGATTG
* * * *
42553 ATTGTAAATGTCAGACTGCAAGGATTAGATTAATGCATAAATTATATCTGAGAATCAGATTTTTT
1 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGA-TTTTT
42618 TTATAAAAAAAAGAAA
65 TTATAAAAAAAAGAAA
42634 GACTGCAAGG
Statistics
Matches: 531, Mismatches: 76, Indels: 37
0.82 0.12 0.06
Matches are distributed among these distances:
178 7 0.01
179 10 0.02
180 209 0.39
181 72 0.14
182 80 0.15
183 131 0.25
184 19 0.04
185 3 0.01
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (180 bp):
ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTTTTT
TATAAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGAA
TTATATCTGAGAATCAATTCTTTTTATAGAAAAAAAAGAAAAGTTGATTG
Found at i:42198 original size:92 final size:91
Alignment explanation
Indices: 41827--42633 Score: 951
Period size: 92 Copynumber: 8.9 Consensus size: 91
41817 TAAAGTATAA
* * * * * * * *
41827 ATTGTAAATGCCAGACTGTAAGAAATATACTAATACATGGATTATATTTGAGAATCAGATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-ATTC-TT
*
41892 TTTATTG--AAAAAAGAAAAGTTGATTG
64 TTTATAGAAAAAAAAGAAAAGTTGATTG
*
41918 ATTGTAAATTTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTTT
41983 TATAG-AAAAAAAGAAAAGTTGATTG
66 TATAGAAAAAAAAGAAAAGTTGATTG
* * * * * **
42008 ATTGTAAATGTTAAACTGTAAAGATTAGACTAATGCATGAATTATATCTGGGAATTGGATT-TTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAA-TCAATTCTTT
*
42072 TAAT-GAAAAAAAAGAAAAGTTGATTG
65 TTATAGAAAAAAAAGAAAAGTTGATTG
* * ** * * *
42098 ATTGTAAATGTCATATTATAAGGGTTAGACTAATGTATGAATTATATTTGAGAATCAATTCTTTA
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTT-
42163 TTATAGAAAAAAAAGAAAAGTTGATTG
65 TTATAGAAAAAAAAGAAAAGTTGATTG
* * * * **
42190 ATTGTAAATGTCAGATTACAAAGATTAGACTAATGCATGAATTATATCCGAGAATCGGTTTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTTT
* * **
42255 TT-TATATAAAAAAGAAAAGTTGAACG
65 TTATAGAAAAAAAAGAAAAGTTGATTG
* *
42281 ATTGTAAATATCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATTGAATTCTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAA-TCAATTC-TT
* *
42346 TTTATA-AAAAAAAAGAAATA-CTAATTG
64 TTTATAGAAAAAAAAGAAA-AGTTGATTG
** *
42373 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATATATGAATTATATCTGAAAATCAATTCTTTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTC-TTT
42438 TTATAG---AAAAA-AAAAGTTGATTG
65 TTATAGAAAAAAAAGAAAAGTTGATTG
* ** *
42461 ATTGTAAATGTCAGACTACAAATATTAGACTAATGCATGAATTATATTTGAGAATCAGATT-TTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-ATTCTTT
*
42525 TTTTATGAAAAAAAAGAAAAGTTGATTG
65 TTATA-GAAAAAAAAGAAAAGTTGATTG
* *
42553 ATTGTAAATGTCAGACTGCAAGGATTAGATTAATGCATAAATTATATCTGAGAATCAGATT-TTT
1 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-ATTCTTT
*
42617 TT-TATAAAAAAAAGAAA
65 TTATAGAAAAAAAAGAAA
42634 GACTGCAAGG
Statistics
Matches: 618, Mismatches: 79, Indels: 39
0.84 0.11 0.05
Matches are distributed among these distances:
87 8 0.01
88 59 0.10
89 21 0.03
90 157 0.25
91 149 0.24
92 215 0.35
93 9 0.01
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (91 bp):
ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTTT
TATAGAAAAAAAAGAAAAGTTGATTG
Found at i:42492 original size:363 final size:362
Alignment explanation
Indices: 41855--42633 Score: 1077
Period size: 363 Copynumber: 2.1 Consensus size: 362
41845 TAAGAAATAT
* * * **
41855 ACTAATACATGGATTATATTTGAGAATCAGATTCTTTTTTAT-TGAAAAAAGAAAAGTTGATTGA
1 ACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAT-AAAAAAGAAAAGTTGAACGA
*
41919 TTGTAAATTTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTTTT
65 TTGTAAATATCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTTTT
* * * * * *
41984 ATAGAAAAAAAGAAAAGTTGATTGATTGTAAATGTTAAACTGTAAAGATTAGACTAATGCATGAA
130 ATAAAAAAAAAGAAAAGCTAATTGATTGTAAATGTCAAACTGCAAAGATTAGACTAATACATGAA
* * ** * *
42049 TTATATCTGGGAATTGGATTTTTTAATGAAAAAAAAGAAAAGTTGATTGATTGTAAATGTCATAT
195 TTATATCTGGAAAATCAATTTTTTAAT-AAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGAC
* * * *
42114 TATAAGGGTTAGACTAATGTATGAATTATATTTGAGAATCA-ATTCTTTATTATAGAAAAAAAAG
259 TACAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTTATTAT-GAAAAAAAAG
*
42178 AAAAGTTGATTGATTGTAAATGTCAGATTACAAAGATTAG
323 AAAAGTTGATTGATTGTAAATGTCAGACTACAAAGATTAG
* * *
42218 ACTAATGCATGAATTATATCCGAGAATCGGTTTCTTTTTTATATAAAAAAGAAAAGTTGAACGAT
1 ACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATATAAAAAAGAAAAGTTGAACGAT
*
42283 TGTAAATATCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATTGAATTCTTTTT
66 TGTAAATATCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAA-TCAATTC-TTTT
* * *
42348 TATAAAAAAAAAGAAATA-CTAATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATATATG
129 TATAAAAAAAAAGAAA-AGCTAATTGATTGTAAATGTCAAACTGCAAAGATTAGACTAATACATG
* *
42412 AATTATATCT-GAAAATCAATTCTTTT-TTATAGAAAAA-AAAAGTTGATTGATTGTAAATGTCA
193 AATTATATCTGGAAAATCAATT-TTTTAATA-AAAAAAAGAAAAGTTGATTGATTGTAAATGTCA
* * *
42474 GACTACAAATATTAGACTAATGCATGAATTATATTTGAGAATCAGATTTTTTTTTATGAAAAAAA
256 GACTACAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTTATTATGAAAAAAA
* *
42539 AGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTAG
321 AGAAAAGTTGATTGATTGTAAATGTCAGACTACAAAGATTAG
* * *
42581 ATTAATGCATAAATTATATCTGAGAATCAGATT-TTTTTTATAAAAAAAAGAAA
1 ACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATATAAAAAAGAAA
42634 GACTGCAAGG
Statistics
Matches: 366, Mismatches: 43, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
362 19 0.05
363 244 0.67
364 31 0.08
365 71 0.19
366 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (362 bp):
ACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATATAAAAAAGAAAAGTTGAACGAT
TGTAAATATCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTTTTA
TAAAAAAAAAGAAAAGCTAATTGATTGTAAATGTCAAACTGCAAAGATTAGACTAATACATGAAT
TATATCTGGAAAATCAATTTTTTAATAAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTA
CAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTTATTATGAAAAAAAAGAAA
AGTTGATTGATTGTAAATGTCAGACTACAAAGATTAG
Found at i:42674 original size:68 final size:70
Alignment explanation
Indices: 42565--42704 Score: 196
Period size: 68 Copynumber: 2.0 Consensus size: 70
42555 TGTAAATGTC
* * *
42565 AGACTGCAAGGATTAGATTAATGCATAAATTATATCTGAGAATCAGATTT-TTTT-TATAAAAAA
1 AGACTGCAAGGATTAGACTAATACATAAATTATATCTGAGAATCAGATTTCTTTTGTAAAAAAAA
42628 AAGAA
66 AAGAA
* *
42633 AGACTGCAAGGATTAGACTAATACATGAATTGTA-CATGAGAATCAGATTTCTTTTGGTAAAAAA
1 AGACTGCAAGGATTAGACTAATACATAAATTATATC-TGAGAATCAGATTTCTTTT-GTAAAAAA
42697 AAAAGAA
64 AAAAGAA
42704 A
1 A
42705 AGTTGGTTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
67 1 0.02
68 44 0.70
69 4 0.06
71 14 0.22
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (70 bp):
AGACTGCAAGGATTAGACTAATACATAAATTATATCTGAGAATCAGATTTCTTTTGTAAAAAAAA
AAGAA
Found at i:42861 original size:254 final size:246
Alignment explanation
Indices: 42385--42872 Score: 520
Period size: 254 Copynumber: 2.0 Consensus size: 246
42375 TGTAAATGTC
* * * *
42385 AGACTGCAAGGATTAGACTAATATATGAATTATATCTGAAAATCAATTCTTTTTTATAGAAAAAA
1 AGACTGCAAGGATTAGACTAATACATGAATTATATCTGAAAATCAATTCTTTTTAAAAAAAAAAA
* * * * * *
42450 AAAGTTGATTGATTGTAAATGTCAGACTACAAATATTAGACTAATGCATGAATTATATTTGAGAA
66 AAAGTTGATTGATTATAAATATCAGACTACAAAGATTAGACTAATGCATAAATTATATTTAAAAA
** * * * *
42515 TCAGATTTTTTTTTATGAAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGACTGCAAGGATTA
131 TCAGATTCCTTTTAATGAAAAAAAAGAAAAGTTGATTGATTGTAAATATCACACTGCAAAGATTA
** * *
42580 GATTAATGCATAAATTATATCTGAGAATCAGATTTTTTTTATAAAAAAAAGAA
196 GACAAATGCAGAAATTATATATGAGAAT-A-ATTTTTTTTATAAAAAAAAGAA
* *
42633 AGACTGCAAGGATTAGACTAATACATGAATTGTA-CATGAGAATCAGATTTCTTTTGGTAAAAAA
1 AGACTGCAAGGATTAGACTAATACATGAATTATATC-TGAAAATCA-A-TTCTTTT--TAAAAAA
* * * * *
42697 AAAAGAAAAGTTGGTTGATTATAAGTATGATACTGCAAAAGATTAGACTAATGCATAAATTATAT
61 AAAA-AAAAGTTGATTGATTATAAATATCAGACTAC-AAAGATTAGACTAATGCATAAATTATAT
** *
42762 TTAAAAATCAGATTCCTTTTAATAGAAAAGCTAA-AAAA-TTGATTGATTGTAAATATCACAGTT
124 TTAAAAATCAGATTCCTTTTAAT-GAAAA-AAAAGAAAAGTTGATTGATTGTAAATATCACA-CT
* *
42825 G-AAAGA-TAGGACAAATGCAGATATTTTGA-ATGAGAATAATTTTTTTTA
186 GCAAAGATTA-GACAAATGCAGAAATTAT-ATATGAGAATAATTTTTTTTA
42873 ATAATCTCAT
Statistics
Matches: 196, Mismatches: 32, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
247 1 0.01
248 40 0.20
249 1 0.01
250 7 0.04
252 18 0.09
253 27 0.14
254 88 0.45
255 12 0.06
256 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.34
Consensus pattern (246 bp):
AGACTGCAAGGATTAGACTAATACATGAATTATATCTGAAAATCAATTCTTTTTAAAAAAAAAAA
AAAGTTGATTGATTATAAATATCAGACTACAAAGATTAGACTAATGCATAAATTATATTTAAAAA
TCAGATTCCTTTTAATGAAAAAAAAGAAAAGTTGATTGATTGTAAATATCACACTGCAAAGATTA
GACAAATGCAGAAATTATATATGAGAATAATTTTTTTTATAAAAAAAAGAA
Found at i:46327 original size:35 final size:35
Alignment explanation
Indices: 46262--46329 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
46252 TCTATCAATT
* *
46262 ATAAATATGTATAATATTAATTAATTTTAAAAAAA
1 ATAAATATGTATAATATTAAATAATATTAAAAAAA
* *
46297 ATAAATTTGTATAATTTATAAATAA-ATTAAAAA
1 ATAAATATGTATAATAT-TAAATAATATTAAAAA
46330 TAATTTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 22 0.79
36 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (35 bp):
ATAAATATGTATAATATTAAATAATATTAAAAAAA
Found at i:46487 original size:291 final size:292
Alignment explanation
Indices: 46111--46763 Score: 927
Period size: 291 Copynumber: 2.2 Consensus size: 292
46101 AAATTGAGGA
* * * *
46111 AAATTTTTTCTTTGTCATTTTACAAATAAAGGAAAGCATGTATTTAAGTCATTACCGAAAAATAA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGC-TATATTTAAGTCATTACCAAAAAATAA
* ** ** **
46176 AATGTGTACATTTGTAAATCCGAAATAAATCGTTATCGAAAAAAGTAATTTATTATTGGCTAACA
65 AATGTATACACCTGTAAATCCGAAATAAATCGTTATAAAAAAAAGTAAAATATTATTGGCTAACA
*
46241 TAAATTTAAGTTCTATCAATTAT-A-AAT-ATGTATAATATTAATTAATTTTAAA-AAAAATAAA
130 TAAATTTAAGTTCTATCAATTATAATAATAATGTACAATATTAATTAA-TTTAAATAAAAATAAA
** *
46302 TTTGTATAATTTATAAATAAATTAAAAATAATTTATAAATAAAAAGTAATAATTTATGCATAATA
194 TTTGTATAATTTATAAATAAATTAAAAATAATTTAT-AATAAAAAGTAATAATACATGCACAATA
46367 TTAATTAAGTTTAATAAAAATAATACATGTACAAT
258 TTAATTAAGTTTAATAAAAATAATACATGTACAAT
* *
46402 AAATTTTTTCTTGGTCATTTTACAGATAAAAGAAAGCTCATATTTAAGTCGTTACCAAAAAATAA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCT-ATATTTAAGTCATTACCAAAAAATAA
*** * *
46467 AATGTATGGGCCTGTAAATCCGAAATAAGTTGTTATAAAAAAAAGTAAAATATTATTGGCTAACA
65 AATGTATACACCTGTAAATCCGAAATAAATCGTTATAAAAAAAAGTAAAATATTATTGGCTAACA
* *
46532 TAAATTTAAGTTTTATCAATTATAAAAATAATACATTTACAATATTAATTAATTTAAATAAAAAT
130 TAAATTTAAGTTCTATCAATTAT---AATAATA-ATGTACAATATTAATTAATTTAAATAAAAAT
*
46597 AAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAATAAAAAGTAATAATACATGTACAA
191 AAATTTGTATAATTTATAAATAAATTAAAAATAATTTATAATAAAAAGTAATAATACATGCACAA
*
46662 TATTAATTAATTTTAATAAAAATAATACATGTACAAT
256 TATTAATTAAGTTTAATAAAAATAATACATGTACAAT
* * **
46699 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAACTAATATTTAAGTTATTACTGAAAAATAA
1 AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCT-ATATTTAAGTCATTACCAAAAAATAA
46764 TACATATAAA
Statistics
Matches: 320, Mismatches: 33, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
290 1 0.00
291 132 0.41
295 1 0.00
296 3 0.01
297 122 0.38
298 61 0.19
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.37
Consensus pattern (292 bp):
AAATTTTTTCTTGGTCATTTTACAGATAAAGGAAAGCTATATTTAAGTCATTACCAAAAAATAAA
ATGTATACACCTGTAAATCCGAAATAAATCGTTATAAAAAAAAGTAAAATATTATTGGCTAACAT
AAATTTAAGTTCTATCAATTATAATAATAATGTACAATATTAATTAATTTAAATAAAAATAAATT
TGTATAATTTATAAATAAATTAAAAATAATTTATAATAAAAAGTAATAATACATGCACAATATTA
ATTAAGTTTAATAAAAATAATACATGTACAAT
Found at i:46599 original size:42 final size:42
Alignment explanation
Indices: 46553--46686 Score: 105
Period size: 42 Copynumber: 3.1 Consensus size: 42
46543 TTTATCAATT
46553 ATAAAAATAATACATTTACAATATTAATTAATTTAAATAAAA
1 ATAAAAATAATACATTTACAATATTAATTAATTTAAATAAAA
** * * *
46595 ATAAATTTGTATA-ATTTATAAATAAATTAAAAATAATTTATAATAAAA
1 ATAAAAAT-AATACATTTA-CAAT--ATT--AATTAATTTA-AATAAAA
* *
46643 AGT---AATAATACATGTACAATATTAATTAATTTTAATAAAA
1 A-TAAAAATAATACATTTACAATATTAATTAATTTAAATAAAA
46683 ATAA
1 ATAA
46687 TACATGTACA
Statistics
Matches: 69, Mismatches: 12, Indels: 23
0.66 0.12 0.22
Matches are distributed among these distances:
39 1 0.01
40 8 0.12
41 8 0.12
42 11 0.16
43 9 0.13
45 9 0.13
46 5 0.07
47 9 0.13
48 8 0.12
49 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.37
Consensus pattern (42 bp):
ATAAAAATAATACATTTACAATATTAATTAATTTAAATAAAA
Found at i:47667 original size:14 final size:15
Alignment explanation
Indices: 47650--47746 Score: 69
Period size: 14 Copynumber: 6.6 Consensus size: 15
47640 AAATTTAATA
47650 ATTTATATTT-TTAT
1 ATTTATATTTATTAT
*
47664 ATTTATATGTCA-TA-
1 ATTTATAT-TTATTAT
** *
47678 A-TTATATTTAAAAA
1 ATTTATATTTATTAT
*
47692 ATTATATATATATATAT
1 ATT-TATATTTAT-TAT
*
47709 ATTTTTATTTATTA-
1 ATTTATATTTATTAT
*
47723 ATTTATTTTTATTAT
1 ATTTATATTTATTAT
47738 ATTTATATT
1 ATTTATATT
47747 ATTTTTACAT
Statistics
Matches: 63, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
12 2 0.03
13 7 0.11
14 22 0.35
15 14 0.22
16 14 0.22
17 4 0.06
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (15 bp):
ATTTATATTTATTAT
Found at i:47668 original size:6 final size:6
Alignment explanation
Indices: 47627--47772 Score: 54
Period size: 6 Copynumber: 24.0 Consensus size: 6
47617 GATAAGGATC
* * * * *
47627 TATATT CATATG TAAATT TAATAATT TATATTTT TATATT TATATGT CATAAT
1 TATATT TATATT TATATT T-AT-ATT TATA--TT TATATT TATAT-T TATATT
* * * * *
47680 TATATT TAAAAAAT TATATA TATATA TATATT TTTATT TATTAATT TAT-TT
1 TATATT T--ATATT TATATT TATATT TATATT TATATT TA-T-ATT TATATT
* *
47731 T-TA-T TATATT TATA-T TATTTT TACA-T TATA-T TATATT T-TATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
47773 AAAATTATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 29
0.67 0.14 0.19
Matches are distributed among these distances:
4 3 0.03
5 22 0.21
6 51 0.49
7 9 0.09
8 19 0.18
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (6 bp):
TATATT
Found at i:48163 original size:17 final size:17
Alignment explanation
Indices: 48135--48169 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48125 AAAAAATTAA
48135 AATTTAAATTAAAATTTG
1 AATTTAAATT-AAATTTG
48153 AATTT-AATTAAATTTG
1 AATTTAAATTAAATTTG
48169 A
1 A
48170 TAGGTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
AATTTAAATTAAATTTG
Found at i:49987 original size:24 final size:24
Alignment explanation
Indices: 49935--50027 Score: 100
Period size: 26 Copynumber: 3.7 Consensus size: 24
49925 TTCTTTAATT
*
49935 TAAATTTAAATCA-AATAATTATATA
1 TAAATTTAAAT-ATAA-AATAATATA
*
49960 TAAATTT-AATATATGAATAATATA
1 TAAATTTAAATATA-AAATAATATA
49984 TAAATTTAAATTATAAAATAATTATA
1 TAAATTTAAA-TATAAAATAA-TATA
50010 TAAATTTAAATATTAAAA
1 TAAATTTAAATA-TAAAA
50028 AAAAATAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
23 1 0.02
24 19 0.32
25 16 0.27
26 23 0.39
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (24 bp):
TAAATTTAAATATAAAATAATATA
Found at i:50026 original size:13 final size:14
Alignment explanation
Indices: 49955--50026 Score: 68
Period size: 13 Copynumber: 5.6 Consensus size: 14
49945 TCAAATAATT
49955 ATATATAAATTT-A
1 ATATATAAATTTAA
*
49968 ATATATGAA--T-A
1 ATATATAAATTTAA
49979 ATATATAAATTTAA
1 ATATATAAATTTAA
*
49993 AT-TATAAA-ATAA
1 ATATATAAATTTAA
*
50005 TTATATAAATTTAA
1 ATATATAAATTTAA
50019 ATAT-TAAA
1 ATATATAAA
50027 AAAAAATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
11 10 0.21
12 4 0.08
13 25 0.52
14 9 0.19
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (14 bp):
ATATATAAATTTAA
Found at i:50036 original size:49 final size:49
Alignment explanation
Indices: 49935--50037 Score: 120
Period size: 49 Copynumber: 2.1 Consensus size: 49
49925 TTCTTTAATT
* * * *
49935 TAAATTTAAATCAAATAATTATATATAAATTTAATATATGAATAATATA
1 TAAATTTAAATCAAATAATAATATATAAATTTAATATATGAAAAAAAAA
* *
49984 TAAATTTAAATTATAA-AATAATTATATAAATTTAA-ATATTAAAAAAAAA
1 TAAATTTAAATCA-AATAATAA-TATATAAATTTAATATATGAAAAAAAAA
50033 TAAAT
1 TAAAT
50038 ATCCGATAGC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
49 31 0.67
50 15 0.33
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (49 bp):
TAAATTTAAATCAAATAATAATATATAAATTTAATATATGAAAAAAAAA
Found at i:50854 original size:23 final size:23
Alignment explanation
Indices: 50788--50865 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 23
50778 AAAAATTTTA
*
50788 ATATTA-AATATTAAAATATAATT
1 ATATTATAATATAAAAATAT-ATT
*
50811 ATGATATATAAATATAAAAATATTTT
1 AT-AT-TAT-AATATAAAAATATATT
50837 AATATTATAA-ATAAAAATTATATT
1 -ATATTATAATATAAAAA-TATATT
50861 ATATT
1 ATATT
50866 TTAAATTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
23 14 0.30
24 9 0.20
25 5 0.11
26 4 0.09
27 14 0.30
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (23 bp):
ATATTATAATATAAAAATATATT
Found at i:50870 original size:23 final size:23
Alignment explanation
Indices: 50776--50871 Score: 65
Period size: 23 Copynumber: 4.0 Consensus size: 23
50766 TTAATTTTTT
*
50776 TAAAAA-ATTTTAATATTA-AATA
1 TAAAAATATATTAATATTATAA-A
*
50798 TTAAAATATAATT-ATGATATATAAATA
1 TAAAAATAT-ATTAAT-AT-TAT-AA-A
*
50825 TAAAAATATTTTAATATTATAAA
1 TAAAAATATATTAATATTATAAA
*
50848 TAAAAATTATATT-ATATTTTAAA
1 TAAAAA-TATATTAATATTATAAA
50871 T
1 T
50872 TATATTTCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
22 5 0.08
23 21 0.35
24 11 0.18
25 5 0.08
26 4 0.07
27 14 0.23
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (23 bp):
TAAAAATATATTAATATTATAAA
Found at i:50873 original size:17 final size:16
Alignment explanation
Indices: 50851--50886 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
50841 TTATAAATAA
50851 AAATTATATTATATTTT
1 AAATTATATT-TATTTT
*
50868 AAATTATATTTCTTTT
1 AAATTATATTTATTTT
50884 AAA
1 AAA
50887 AAAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATTATATTTATTTT
Found at i:53914 original size:10 final size:11
Alignment explanation
Indices: 53895--53926 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
53885 CAAACTTAAA
53895 TTTAATAATAT
1 TTTAATAATAT
53906 TTTAA-AATA-
1 TTTAATAATAT
53915 TTTAATAATAT
1 TTTAATAATAT
53926 T
1 T
53927 ATAAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.26
10 8 0.42
11 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:53919 original size:20 final size:19
Alignment explanation
Indices: 53894--53935 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
53884 ACAAACTTAA
*
53894 ATTTAATAATATTTTAAAAT
1 ATTTAATAATATTAT-AAAT
53914 ATTTAATAATATTATAAAT
1 ATTTAATAATATTATAAAT
53933 ATT
1 ATT
53936 ATATATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAATAATATTATAAAT
Found at i:54274 original size:40 final size:40
Alignment explanation
Indices: 54230--54319 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
54220 AATTTTTTAT
* * *
54230 TATTTAAATTTATTTTATTTTTATA-AAA-AATATATTTAGA
1 TATTTAAATTTA-TAT-TTTTTATACAAATAATAAATTTAAA
54270 TATTTAAATTTATATTTTTTATACAAATAATAAATTTAAA
1 TATTTAAATTTATATTTTTTATACAAATAATAAATTTAAA
54310 TATTTAAATT
1 TATTTAAATT
54320 CGTTATTCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 8 0.18
39 5 0.11
40 32 0.71
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (40 bp):
TATTTAAATTTATATTTTTTATACAAATAATAAATTTAAA
Found at i:55363 original size:20 final size:20
Alignment explanation
Indices: 55327--55364 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55317 AAATTTTTTA
* *
55327 TTAATTTAATTTGATATTAT
1 TTAATTTAAATTAATATTAT
55347 TTAATTTAAATTAATATT
1 TTAATTTAAATTAATATT
55365 TAATAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTAATTTAAATTAATATTAT
Found at i:55399 original size:21 final size:20
Alignment explanation
Indices: 55370--55423 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
55360 ATATTTAATA
*
55370 ATTAAAAAATTATTTAAATTT
1 ATTAAAAAA-TATATAAATTT
*
55391 ATTATAAAATATATAAATATTT
1 ATTAAAAAATATAT-AA-ATTT
55413 ATATAAAAAAT
1 AT-TAAAAAAT
55424 TTATTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 10 0.37
22 6 0.22
23 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTAAAAAATATATAAATTT
Found at i:55649 original size:21 final size:23
Alignment explanation
Indices: 55639--55728 Score: 80
Period size: 22 Copynumber: 3.9 Consensus size: 23
55629 AGTTATACTT
55639 AAATAAA-ATAAAAATATAATTA
1 AAATAAATATAAAAATATAATTA
*
55661 AAATAAATAT-AAAATATTATATA
1 AAATAAATATAAAAATATAAT-TA
*
55684 ATATAAA-A-AATAAATATAAATATA
1 AAATAAATATAA-AAATAT-AAT-TA
* *
55708 ATATAAATATATAAATATAAT
1 AAATAAATATAAAAATATAAT
55729 AAATTTATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
22 18 0.32
23 16 0.28
24 15 0.26
25 7 0.12
26 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATAAATATAAAAATATAATTA
Found at i:55663 original size:11 final size:11
Alignment explanation
Indices: 55639--55721 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
55629 AGTTATACTT
* *
55639 AAATAAAATAA
1 AAATATAATTA
55650 AAATATAATTA
1 AAATATAATTA
55661 AAATA-AATATA
1 AAATATAAT-TA
*
55672 AAATATTA-TA
1 AAATATAATTA
*
55682 TAATATAA--A
1 AAATATAATTA
55691 AAATA-AA-TA
1 AAATATAATTA
55700 TAAATATAATATA
1 -AAATATAAT-TA
55713 AATATATAA
1 AA-ATATAA
55722 ATATAATAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
8 2 0.03
9 6 0.10
10 16 0.28
11 23 0.40
12 3 0.05
13 8 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATATAATTA
Found at i:55686 original size:17 final size:17
Alignment explanation
Indices: 55666--55784 Score: 72
Period size: 17 Copynumber: 6.9 Consensus size: 17
55656 AATTAAAATA
55666 AATATAAAATATTATAT
1 AATATAAAATATTATAT
55683 AATATAAAA-A--ATA-
1 AATATAAAATATTATAT
*
55696 AATAT-AAATATAATAT
1 AATATAAAATATTATAT
*
55712 AAATATATAAATATAATA-
1 -AATATA-AAATATTATAT
* *
55730 AATTTATTAATATTAATTAT
1 AATATA-AAATATT-A-TAT
55750 ATATATTAAAAT-TTATAT
1 A-ATA-TAAAATATTATAT
*
55768 AAATATATAATATTATA
1 -AATATAAAATATTATA
55785 AACTTAACAT
Statistics
Matches: 82, Mismatches: 6, Indels: 27
0.71 0.05 0.23
Matches are distributed among these distances:
12 3 0.04
13 6 0.07
14 3 0.04
15 3 0.04
16 1 0.01
17 30 0.37
18 12 0.15
19 14 0.17
20 3 0.04
21 5 0.06
22 2 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATAAAATATTATAT
Found at i:55695 original size:41 final size:38
Alignment explanation
Indices: 55641--55732 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 38
55631 TTATACTTAA
*
55641 ATAAA-ATAAAAATATAATTA-AAATA-AATATAAAATATT
1 ATAAATATAAAAA-ATAAATATAAATATAATAT-AAATA-T
55679 ATATAATATAAAAAATAAATATAAATATAATATAAATAT
1 ATA-AATATAAAAAATAAATATAAATATAATATAAATAT
*
55718 ATAAATATAATAAAT
1 ATAAATATAAAAAAT
55733 TTATTAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
38 14 0.29
39 12 0.25
40 17 0.35
41 5 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (38 bp):
ATAAATATAAAAAATAAATATAAATATAATATAAATAT
Found at i:55696 original size:30 final size:30
Alignment explanation
Indices: 55638--55727 Score: 101
Period size: 30 Copynumber: 2.9 Consensus size: 30
55628 AAGTTATACT
* *
55638 TAAATAAAATAAAAATATAATTAAAATAAATA
1 TAAATATAATATAAATATAA--AAAATAAATA
*
55670 TAAA-ATATTATATAATATAAAAAATAAATA
1 TAAATATAATATA-AATATAAAAAATAAATA
*
55700 TAAATATAATATAAATATATAAATATAA
1 TAAATATAATATAAATATA-AAAAATAA
55728 TAAATTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
30 20 0.40
31 19 0.38
32 11 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
TAAATATAATATAAATATAAAAAATAAATA
Found at i:55741 original size:25 final size:26
Alignment explanation
Indices: 55661--55823 Score: 86
Period size: 29 Copynumber: 5.9 Consensus size: 26
55651 AATATAATTA
* *
55661 AAATAAATATAAAATATTATATAATATAAA
1 AAATATATAT-AAAT-TTAT-TAATAT-AT
* *
55691 AAATAAATATAAATATAATATAAATATAT
1 AAATATATATAAAT-T--TATTAATATAT
55720 AAATATA-ATAAATTTATTAATAT-T
1 AAATATATATAAATTTATTAATATAT
55744 AATTATATATATTAAAATTTATATAA-ATAT
1 AA--ATATATA-T-AAATTTAT-TAATATAT
*
55774 ATAATAT-TATAAACTTA--ACATATAT
1 A-AATATATATAAATTTATTA-ATATAT
* *
55799 AAAAATGATATAAATTTATAAATAT
1 AAATAT-ATATAAATTTATTAATAT
55824 TTAATGTAGA
Statistics
Matches: 110, Mismatches: 7, Indels: 35
0.72 0.05 0.23
Matches are distributed among these distances:
23 1 0.01
24 8 0.07
25 13 0.12
26 20 0.18
27 7 0.06
28 10 0.09
29 27 0.25
30 20 0.18
31 4 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (26 bp):
AAATATATATAAATTTATTAATATAT
Found at i:55758 original size:19 final size:18
Alignment explanation
Indices: 55693--55782 Score: 69
Period size: 19 Copynumber: 4.9 Consensus size: 18
55683 AATATAAAAA
*
55693 ATAAATATAAATA-TAAT
1 ATAAATATTAATATTAAT
55710 ATAAATATATAA-ATATAAT
1 ATAAATAT-TAATAT-TAAT
*
55729 A-AATTTATTAATATTAATT
1 ATAA-ATATTAATATTAA-T
* * *
55748 ATATATATTAAAATTTAT
1 ATAAATATTAATATTAAT
55766 ATAAATATATAATATTA
1 ATAAATAT-TAATATTA
55783 TAAACTTAAC
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
17 9 0.16
18 18 0.32
19 28 0.50
20 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAAATATTAATATTAAT
Found at i:55967 original size:3 final size:3
Alignment explanation
Indices: 55959--55989 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
55949 TAATTGTCTT
55959 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
55990 CTTACATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:56119 original size:4 final size:4
Alignment explanation
Indices: 56110--56136 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
56100 TGTGGAGCGA
56110 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
56137 TAAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:56185 original size:21 final size:22
Alignment explanation
Indices: 56159--56220 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
56149 AAGTATCGGT
56159 ATTTATATTTTTTAT-TTAA-A
1 ATTTATATTTTTTATATTAATA
56179 ATATTATATTTTTATATATTAATA
1 AT-TTATATTTTT-TATATTAATA
*
56203 ATTTATTTTATTTTATAT
1 ATTTATATT-TTTTATAT
56221 ATATTTGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 2 0.06
21 10 0.28
22 3 0.08
23 15 0.42
24 6 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTATATTTTTTATATTAATA
Found at i:56208 original size:23 final size:22
Alignment explanation
Indices: 56159--56222 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 22
56149 AAGTATCGGT
56159 ATTTATATTTTT-TAT-TTAAA
1 ATTTATATTTTTATATATTAAA
56179 ATATTATATTTTTATATATTAATA
1 AT-TTATATTTTTATATATTAA-A
*
56203 ATTTATTTTATTTTATATAT
1 ATTTA-TAT-TTTTATATAT
56223 ATTTGTATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 2 0.05
21 10 0.27
22 3 0.08
23 7 0.19
24 5 0.14
25 10 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTATATTTTTATATATTAAA
Found at i:56363 original size:23 final size:22
Alignment explanation
Indices: 56326--56377 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 22
56316 TAAAATAAAT
56326 TTATATAATTTTTTATATATTAA
1 TTAT-TAATTTTTTATATATTAA
*
56349 TTATTAATTTATTTATATTTTAA
1 TTATTAATTT-TTTATATATTAA
56372 TATATT
1 T-TATT
56378 TATGTATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 6 0.23
23 16 0.62
24 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTAATTTTTTATATATTAA
Found at i:56377 original size:16 final size:16
Alignment explanation
Indices: 56335--56380 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
56325 TTTATATAAT
*
56335 TTTTTATATA-TTA-A
1 TTTTAATATATTTATA
*
56349 TTATTAATTTATTTATA
1 TT-TTAATATATTTATA
56366 TTTTAATATATTTAT
1 TTTTAATATATTTAT
56381 GTATTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 6 0.23
16 15 0.58
17 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAATATATTTATA
Found at i:56571 original size:19 final size:19
Alignment explanation
Indices: 56533--56573 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
56523 TATTCGTATT
* *
56533 AATATTATTTTTTATTTAA
1 AATATTATATTTTATATAA
*
56552 AATATTATATTTTGTATAA
1 AATATTATATTTTATATAA
56571 AAT
1 AAT
56574 TTTTATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
AATATTATATTTTATATAA
Found at i:57579 original size:18 final size:18
Alignment explanation
Indices: 57552--57591 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
57542 GGGAAAGATG
57552 GAAAGAAAAAGAAAGAGAA
1 GAAAGAAAAAGAAAGAG-A
*
57571 GAAAG-AAAAGAGAGAGA
1 GAAAGAAAAAGAAAGAGA
57588 GAAA
1 GAAA
57592 TAAATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 10 0.50
19 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAAGAAAGAGA
Found at i:57590 original size:20 final size:19
Alignment explanation
Indices: 57552--57590 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
57542 GGGAAAGATG
57552 GAAAGAAAAAGAAAGAGAA
1 GAAAGAAAAAGAAAGAGAA
*
57571 GAAAGAAAAGAGAGAGAGAA
1 GAAAGAAAA-AGAAAGAGAA
57591 ATAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
GAAAGAAAAAGAAAGAGAA
Found at i:57722 original size:20 final size:21
Alignment explanation
Indices: 57693--57743 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
57683 TTATATGTTA
*
57693 TTATATTTATGTCATATTTATT
1 TTATA-TTATGTCATAATTATT
**
57715 TT-TATTATGTTTTAATTATT
1 TTATATTATGTCATAATTATT
57735 TTATATTAT
1 TTATATTAT
57744 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 15 0.60
21 8 0.32
22 2 0.08
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
TTATATTATGTCATAATTATT
Found at i:57747 original size:20 final size:21
Alignment explanation
Indices: 57710--57761 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
57700 TATGTCATAT
57710 TTATTTT-TATTATGTTTTAA
1 TTATTTTATATTATGTTTTAA
*
57730 TTATTTTATATTAT-TTTTTA
1 TTATTTTATATTATGTTTTAA
57750 TT-TTTATATATT
1 TTATTT-TATATT
57762 TAAAGTAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 3 0.10
20 20 0.69
21 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TTATTTTATATTATGTTTTAA
Found at i:57752 original size:17 final size:17
Alignment explanation
Indices: 57709--57762 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
57699 TTATGTCATA
57709 TTTATTTTTAT-TATGTT
1 TTTATTTTTATATAT-TT
*
57726 TTAATTATTTTATATTATTT
1 TTTA-T-TTTTATA-TATTT
57746 TTTATTTTTATATATTT
1 TTTATTTTTATATATTT
57763 AAAGTAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 8 0.26
18 8 0.26
19 7 0.23
20 5 0.16
21 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTATTTTTATATATTT
Found at i:57997 original size:16 final size:16
Alignment explanation
Indices: 57961--57998 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
57951 TTTTTTAAAA
57961 TAATTAAAAATATTAC
1 TAATTAAAAATATTAC
* *
57977 AAATTAAAAATATTAT
1 TAATTAAAAATATTAC
57993 TAATTA
1 TAATTA
57999 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATTAAAAATATTAC
Found at i:58125 original size:16 final size:17
Alignment explanation
Indices: 58106--58144 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
58096 CATAATTATT
58106 TAATAAAATTTATTT-A
1 TAATAAAATTTATTTAA
* *
58122 TAATTAAATTTTTTTAA
1 TAATAAAATTTATTTAA
58139 TAATAA
1 TAATAA
58145 TTAAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATAAAATTTATTTAA
Found at i:58158 original size:20 final size:20
Alignment explanation
Indices: 58109--58163 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
58099 AATTATTTAA
58109 TAAAATTTATT--T-ATAAT
1 TAAAATTTATTAATAATAAT
* *
58126 TAAATTTTTTTAATAATAAT
1 TAAAATTTATTAATAATAAT
58146 TAAAATTTATTAA-AATAA
1 TAAAATTTATTAATAATAA
58164 AAATAAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 9 0.29
19 6 0.19
20 16 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATTTATTAATAATAAT
Found at i:58313 original size:12 final size:12
Alignment explanation
Indices: 58296--58337 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
58286 AAGAAAAGAA
*
58296 AGAAAATAAAGG
1 AGAAAATAAAAG
* *
58308 AGAAAAAAAAAA
1 AGAAAATAAAAG
58320 AGAAAA-AAAAG
1 AGAAAATAAAAG
58331 AGAAAAT
1 AGAAAAT
58338 TTTATGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.05
Consensus pattern (12 bp):
AGAAAATAAAAG
Found at i:58315 original size:23 final size:23
Alignment explanation
Indices: 58277--58336 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
58267 CAACATGCTG
*
58277 AAAT-AAGGA-AAGAAAAGAAAGA
1 AAATAAAGGAGAA-AAAAAAAAGA
58299 AAATAAAGGAGAAAAAAAAAAAGA
1 AAATAAAGGAG-AAAAAAAAAAGA
*
58323 AAA-AAAAGAGAAAA
1 AAATAAAGGAGAAAA
58337 TTTTATGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 8 0.24
23 11 0.33
24 12 0.36
25 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (23 bp):
AAATAAAGGAGAAAAAAAAAAGA
Found at i:58371 original size:19 final size:20
Alignment explanation
Indices: 58349--58387 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
58339 TTATGTATTT
58349 ATATTAT-TTTTTATATAAA
1 ATATTATATTTTTATATAAA
* *
58368 ATATTCTATTTTTGTATAAA
1 ATATTATATTTTTATATAAA
58388 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
ATATTATATTTTTATATAAA
Found at i:58741 original size:15 final size:16
Alignment explanation
Indices: 58705--58744 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
58695 TTTAATATTT
*
58705 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
58722 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
58737 ATAAAATT
1 ATAAAATT
58745 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:58747 original size:16 final size:17
Alignment explanation
Indices: 58705--58747 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
58695 TTTAATATTT
*
58705 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
58722 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
58737 ATAAAATTTAT
1 ATAAAATTTAT
58748 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:59090 original size:57 final size:59
Alignment explanation
Indices: 59027--59140 Score: 142
Period size: 57 Copynumber: 2.0 Consensus size: 59
59017 AAAAGATATA
* *
59027 ATATTTTTAATTAAATCACTATAACAAATTATG-AAAA-AAGTCATGAATTGAGATACG
1 ATATTTTAAATTAAATCACTATAACAAATTATGTAAAATAAGTCATGAATGGAGATACG
* * * * * *
59084 ATATTTTAAATTAAATTATTATGATAAATTATGTAAAATATGTCATTAATGGAGATA
1 ATATTTTAAATTAAATCACTATAACAAATTATGTAAAATAAGTCATGAATGGAGATA
59141 AAATACGAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
57 28 0.60
58 4 0.09
59 15 0.32
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (59 bp):
ATATTTTAAATTAAATCACTATAACAAATTATGTAAAATAAGTCATGAATGGAGATACG
Found at i:59198 original size:6 final size:6
Alignment explanation
Indices: 59189--59240 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
59179 AAAATATTTT
* * *
59189 TTTTAA TTTTTAA TTTTAA TTTTAT TTTTAT TTTTAA CTTTAA TTTT-A
1 TTTTAA -TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
59237 TTTT
1 TTTT
59241 CAAATAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 5 0.12
6 30 0.73
7 6 0.15
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTAA
Found at i:59215 original size:18 final size:18
Alignment explanation
Indices: 59189--59240 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
59179 AAAATATTTT
*
59189 TTTTAATTTTTAATTTTAA
1 TTTTAA-TTTTATTTTTAA
*
59208 TTTTATTTTTATTTTTAA
1 TTTTAATTTTATTTTTAA
*
59226 CTTTAATTTTATTTT
1 TTTTAATTTTATTTT
59241 CAAATAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTAATTTTATTTTTAA
Found at i:59221 original size:24 final size:24
Alignment explanation
Indices: 59184--59240 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
59174 AAATTAAAAT
*
59184 ATTTT-TTTTAATTTTTAATTTTA
1 ATTTTATTTTAATTTTTAACTTTA
*
59207 ATTTTATTTTTATTTTTAACTTTA
1 ATTTTATTTTAATTTTTAACTTTA
59231 ATTTTATTTT
1 ATTTTATTTT
59241 CAAATAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (24 bp):
ATTTTATTTTAATTTTTAACTTTA
Found at i:59369 original size:19 final size:19
Alignment explanation
Indices: 59329--59369 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
59319 TATTTTACAA
*
59329 TTAGTTTTAAATTATTATT
1 TTAGTTTTAAATTAATATT
59348 TTAGTTTT-AATTAATATAT
1 TTAGTTTTAAATTAATAT-T
59367 TTA
1 TTA
59370 AAAAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TTAGTTTTAAATTAATATT
Found at i:59571 original size:34 final size:31
Alignment explanation
Indices: 59516--59578 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 31
59506 TTTAAATTTT
59516 ATTTTGTTTAAAATTTTCTTTTAAGGTTGTA
1 ATTTTGTTTAAAATTTTCTTTTAAGGTTGTA
* *
59547 ATTTTTTTTATAAATTATATCTTTTAATGTTG
1 ATTTTGTTTA-AAATT-T-TCTTTTAAGGTTG
59579 ATTTGTACGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 9 0.33
32 5 0.19
33 1 0.04
34 12 0.44
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (31 bp):
ATTTTGTTTAAAATTTTCTTTTAAGGTTGTA
Found at i:59661 original size:17 final size:17
Alignment explanation
Indices: 59639--59672 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59629 TAAAATAATT
59639 TTTTTAATTTAATTTAA
1 TTTTTAATTTAATTTAA
*
59656 TTTTTAATTTATTTTAA
1 TTTTTAATTTAATTTAA
59673 AATATAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTAATTTAATTTAA
Found at i:60982 original size:21 final size:20
Alignment explanation
Indices: 60941--60997 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
60931 AAATATTTAA
*
60941 ATAAATAATAA-TT-ATTTT
1 ATAAATATTAATTTAATTTT
60959 ATATAAT-TTAATTTAATTTAT
1 ATA-AATATTAATTTAATTT-T
*
60980 ATAATTATTAATTTAATT
1 ATAAATATTAATTTAATT
60998 AAATATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 6 0.19
19 5 0.16
20 6 0.19
21 15 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAAATATTAATTTAATTTT
Found at i:60991 original size:26 final size:30
Alignment explanation
Indices: 60935--61015 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 30
60925 ACAAAAAAAT
* * * *
60935 ATTTAAATAAATAATAAT-TATTTTATATA
1 ATTTAATTAAATATTTATATATATTATATA
*
60964 ATTTAATT-TA-ATTTATATA-ATTAT-TA
1 ATTTAATTAAATATTTATATATATTATATA
60990 ATTTAATTAAATATTTATATATATTA
1 ATTTAATTAAATATTTATATATATTA
61016 AAAATCTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
26 10 0.24
27 9 0.21
28 12 0.29
29 11 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
ATTTAATTAAATATTTATATATATTATATA
Found at i:61016 original size:26 final size:24
Alignment explanation
Indices: 60958--61016 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 24
60948 ATAATTATTT
*
60958 TATA-TAATTTAATTTAATTTATA
1 TATATTAATTTAATTAAATTTATA
60981 TAATTATTAATTTAATTAAATATTTATA
1 T-A-TATTAATTTAATT-AA-ATTTATA
61009 TATATTAA
1 TATATTAA
61017 AAATCTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.03
24 1 0.03
25 2 0.07
26 16 0.53
27 2 0.07
28 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATTAATTTAATTAAATTTATA
Found at i:63216 original size:18 final size:18
Alignment explanation
Indices: 63193--63229 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
63183 TGGAAAATTC
63193 TCTTTTTTCTTTTTC-TTT
1 TCTTTTTT-TTTTTCATTT
63211 TCTTTTTTTTTTTCATTT
1 TCTTTTTTTTTTTCATTT
63229 T
1 T
63230 TTTAGAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (18 bp):
TCTTTTTTTTTTTCATTT
Found at i:63231 original size:13 final size:12
Alignment explanation
Indices: 63195--63232 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
63185 GAAAATTCTC
63195 TTTTTTC-TTTT
1 TTTTTTCTTTTT
*
63206 TCTTTTCTTTTT
1 TTTTTTCTTTTT
63218 TTTTTTCATTTTT
1 TTTTTTC-TTTTT
63231 TT
1 TT
63233 AGAACAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 6 0.26
12 10 0.43
13 7 0.30
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:63354 original size:20 final size:20
Alignment explanation
Indices: 63331--63369 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63321 TATATTTTAA
* *
63331 TAAATTTTTATATAATAATT
1 TAAATTTTAAAATAATAATT
63351 TAAATTTTAAAATAATAAT
1 TAAATTTTAAAATAATAAT
63370 ATATTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAATTTTAAAATAATAATT
Found at i:63388 original size:10 final size:10
Alignment explanation
Indices: 63373--63423 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
63363 TAATAATATA
63373 TTTATATTAT
1 TTTATATTAT
*
63383 TTTATAATAT
1 TTTATATTAT
*
63393 TATAT-TATAT
1 TTTATAT-TAT
63403 TTTA-ATTAT
1 TTTATATTAT
63412 TTATATATTAT
1 TT-TATATTAT
63423 T
1 T
63424 AATATTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
9 5 0.15
10 22 0.67
11 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTATATTAT
Found at i:63394 original size:13 final size:13
Alignment explanation
Indices: 63362--63434 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 13
63352 AAATTTTAAA
*
63362 ATAATAATATATT
1 ATAATATTATATT
*
63375 -T-ATATTATTTT
1 ATAATATTATATT
63386 ATAATATTATATT
1 ATAATATTATATT
*
63399 AT-ATTTTA-ATT
1 ATAATATTATATT
*
63410 AT-TTA-TATATT
1 ATAATATTATATT
63421 ATTAATATTATATT
1 A-TAATATTATATT
63435 CAAAATTATG
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
10 2 0.04
11 18 0.38
12 8 0.17
13 13 0.28
14 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATAATATTATATT
Found at i:63397 original size:18 final size:18
Alignment explanation
Indices: 63374--63434 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
63364 AATAATATAT
63374 TTATATTATTTTATAATA
1 TTATATTATTTTATAATA
63392 TTATATTATATTT-TAATTA
1 TTATATTAT-TTTATAA-TA
*
63411 TT-TA-TATATTATTAATA
1 TTATATTATTTTA-TAATA
63428 TTATATT
1 TTATATT
63435 CAAAATTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
16 2 0.06
17 7 0.19
18 19 0.53
19 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATATTATTTTATAATA
Found at i:63405 original size:20 final size:20
Alignment explanation
Indices: 63380--63434 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 20
63370 ATATTTATAT
63380 TATTTTATAATATTATATTA
1 TATTTTATAATATTATATTA
*
63400 TATTTTA-ATTATT-TA-TA
1 TATTTTATAATATTATATTA
*
63417 TATTAT-TAATATTATATT
1 TATTTTATAATATTATATT
63435 CAAAATTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 12 0.41
18 4 0.14
19 6 0.21
20 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTATAATATTATATTA
Found at i:63411 original size:24 final size:25
Alignment explanation
Indices: 63338--63411 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 25
63328 TAATAAATTT
*
63338 TTAT-ATAATA-ATTTAAATTTTAA
1 TTATAATAATATATTTATATTTTAA
*
63361 -AATAATAATATATTTATATTATT--
1 TTATAATAATATATTTATATT-TTAA
*
63384 TTATAATATTATA-TTATATTTTAA
1 TTATAATAATATATTTATATTTTAA
63408 TTAT
1 TTAT
63412 TTATATATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
22 4 0.10
23 13 0.32
24 22 0.54
25 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTATAATAATATATTTATATTTTAA
Found at i:64047 original size:13 final size:13
Alignment explanation
Indices: 64031--64093 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
64021 TAATCATATG
*
64031 TACAAAATATGAT
1 TACAAGATATGAT
*
64044 TACATGATATGAT
1 TACAAGATATGAT
*
64057 TACATGATATATGAT
1 TACA--AGATATGAT
* *
64072 TATATGATATGAT
1 TACAAGATATGAT
*
64085 TACATGATA
1 TACAAGATA
64094 ATTTTAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
13 30 0.75
15 10 0.25
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (13 bp):
TACAAGATATGAT
Found at i:64104 original size:28 final size:28
Alignment explanation
Indices: 64037--64093 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
64027 TATGTACAAA
*
64037 ATATGATTACATGATATGATTACATGAT
1 ATATGATTATATGATATGATTACATGAT
64065 ATATGATTATATGATATGATTACATGAT
1 ATATGATTATATGATATGATTACATGAT
64093 A
1 A
64094 ATTTTAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (28 bp):
ATATGATTATATGATATGATTACATGAT
Found at i:66646 original size:17 final size:17
Alignment explanation
Indices: 66621--66680 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
66611 TCAAGAGAAA
*
66621 AGTTCATTTATATTAAG
1 AGTTTATTTATATTAAG
66638 AGTTTATTTGAGTA--AAG
1 AGTTTATTT-A-TATTAAG
*
66655 -GTTTATTTAGATTAAG
1 AGTTTATTTATATTAAG
66671 AGTTTATTTA
1 AGTTTATTTA
66681 AGTATAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 1 0.03
15 1 0.03
16 11 0.31
17 20 0.56
18 1 0.03
19 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (17 bp):
AGTTTATTTATATTAAG
Found at i:66660 original size:16 final size:16
Alignment explanation
Indices: 66635--66680 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
66625 CATTTATATT
66635 AAGAGTTTATTTGAGTA
1 AAGAGTTTATTT-AGTA
*
66652 AAG-GTTTATTTAGATT
1 AAGAGTTTATTTAG-TA
66668 AAGAGTTTATTTA
1 AAGAGTTTATTTA
66681 AGTATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 12 0.46
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.46
Consensus pattern (16 bp):
AAGAGTTTATTTAGTA
Found at i:66756 original size:30 final size:30
Alignment explanation
Indices: 66666--66756 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
66656 TTTATTTAGA
* *
66666 TTAAGAGTTTATTTAAGTATAATTTAAAAGG
1 TTAAAAGTTTATTTAAGTATAAATTAAAA-G
* *
66697 TT-AAAGGTTATTTAAATATAAATTAAAAG
1 TTAAAAGTTTATTTAAGTATAAATTAAAAG
* *
66726 TTAAAAGTTTATTTGAGTACAAATTAAAAG
1 TTAAAAGTTTATTTAAGTATAAATTAAAAG
66756 T
1 T
66757 GCAAGAGTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 3 0.06
30 46 0.90
31 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.13, T:0.40
Consensus pattern (30 bp):
TTAAAAGTTTATTTAAGTATAAATTAAAAG
Found at i:66870 original size:16 final size:18
Alignment explanation
Indices: 66851--66917 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 18
66841 TGCATATTTT
66851 TATTAAATATTTA-TT-A
1 TATTAAATATTTACTTAA
* *
66867 TATTTATTATTTACTTAA
1 TATTAAATATTTACTTAA
* *
66885 TATTAAATTATTGATTTAA
1 TATTAAA-TATTTACTTAA
66904 TATTTAAATTATTT
1 TA-TTAAA-TATTT
66918 TTTAATTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 11 0.28
17 2 0.05
18 6 0.15
19 11 0.28
20 10 0.25
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (18 bp):
TATTAAATATTTACTTAA
Found at i:66921 original size:19 final size:19
Alignment explanation
Indices: 66853--66923 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
66843 CATATTTTTA
*
66853 TTAAA-TATTTATT-ATAT
1 TTAAATTATTTTTTAATAT
*
66870 TT--ATTATTTACTTAATA-
1 TTAAATTATTT-TTTAATAT
*
66887 TTAAATTATTGATTTAATAT
1 TTAAATTATT-TTTTAATAT
66907 TTAAATTATTTTTTAAT
1 TTAAATTATTTTTTAAT
66924 TATACAATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.02
16 5 0.12
17 6 0.14
18 3 0.07
19 18 0.42
20 10 0.23
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (19 bp):
TTAAATTATTTTTTAATAT
Found at i:68355 original size:3 final size:3
Alignment explanation
Indices: 68347--68379 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
68337 CACCACTCCT
*
68347 AGA AGA AGA AGA AGA AGA AGA AGA AGC AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
68380 TAATTCCTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:71707 original size:10 final size:10
Alignment explanation
Indices: 71694--71736 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
71684 AATTATATTT
71694 AATTTTTAAA
1 AATTTTTAAA
*
71704 AATTTTTTAA
1 AATTTTTAAA
*
71714 TATATTTTAAA
1 AAT-TTTTAAA
*
71725 AAATTTTAAA
1 AATTTTTAAA
71735 AA
1 AA
71737 AAAATTATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 20 0.74
11 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:72734 original size:17 final size:15
Alignment explanation
Indices: 72712--72755 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
72702 AAATAGATTC
72712 ATATATATATTTATGT
1 ATATATATATTTAT-T
72728 AATATATATATTATATT
1 -ATATATATATT-TATT
72745 ATAT-TATATTT
1 ATATATATATTT
72756 TAATTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.04
15 6 0.23
16 4 0.15
17 12 0.46
18 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
ATATATATATTTATT
Found at i:72744 original size:5 final size:5
Alignment explanation
Indices: 72729--72776 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
72719 TATTTATGTA
* *
72729 ATATAT ATATT ATATT ATATT ATATT TTAATT ATTTTT ATATT ATATT
1 ATAT-T ATATT ATATT ATATT ATATT AT-ATT A-TATT ATATT ATATT
72777 TAATTTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 25 0.69
6 10 0.28
7 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATATT
Found at i:72768 original size:17 final size:18
Alignment explanation
Indices: 72748--72785 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
72738 TTATATTATA
*
72748 TTATATTTTAATT-ATTT
1 TTATATTATAATTAATTT
*
72765 TTATATTATATTTAATTT
1 TTATATTATAATTAATTT
72783 TTA
1 TTA
72786 AAAAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATATTATAATTAATTT
Found at i:73098 original size:3 final size:3
Alignment explanation
Indices: 73090--73142 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
73080 ACGTTCGTAG
* * *
73090 TAT TAT TAT TGT TCT TAT TTT TATT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
73136 TAT TAT T
1 TAT TAT T
73143 GTTGTTGTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:77016 original size:2 final size:2
Alignment explanation
Indices: 77009--77043 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
76999 GTGAGATTGC
*
77009 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
77044 AATGCCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:81107 original size:12 final size:12
Alignment explanation
Indices: 81087--81152 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 12
81077 TGTTTAATCT
*
81087 TCATCACCACCC
1 TCATTACCACCC
*
81099 TCATTACCAACC
1 TCATTACCACCC
* *
81111 ACATTACCACCA
1 TCATTACCACCC
**
81123 TCATTACGTCCC
1 TCATTACCACCC
* * *
81135 ACATTACTACTC
1 TCATTACCACCC
81147 TCATTA
1 TCATTA
81153 TCCTTCTTAA
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.30, C:0.41, G:0.02, T:0.27
Consensus pattern (12 bp):
TCATTACCACCC
Found at i:84079 original size:20 final size:20
Alignment explanation
Indices: 84047--84085 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
84037 ATATTTTTTA
84047 AAATTTAATTATAAAAATAT
1 AAATTTAATTATAAAAATAT
84067 AAATATTAA-TATAAAAATA
1 AAAT-TTAATTATAAAAATA
84086 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTTAATTATAAAAATAT
Found at i:84098 original size:22 final size:21
Alignment explanation
Indices: 84070--84112 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
84060 AAAATATAAA
84070 TATTAATATAAAAATAATTTTT
1 TATTAATATAAAAAT-ATTTTT
* *
84092 TATTAATTTATAAATATTTTT
1 TATTAATATAAAAATATTTTT
84113 ATTTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTAATATAAAAATATTTTT
Found at i:84740 original size:20 final size:20
Alignment explanation
Indices: 84717--84754 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
84707 AATTTTTTAT
84717 AATT-TGATTTAATTAATATG
1 AATTATGATTT-ATTAATATG
*
84737 AATTATTATTTATTAATA
1 AATTATGATTTATTAATA
84755 AAATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
AATTATGATTTATTAATATG
Found at i:84791 original size:20 final size:20
Alignment explanation
Indices: 84768--84805 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
84758 TATTTTTATT
84768 TAAATATAAATATAAAAATA
1 TAAATATAAATATAAAAATA
* *
84788 TAAATATTAATGTAAAAA
1 TAAATATAAATATAAAAA
84806 AAATTATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
TAAATATAAATATAAAAATA
Found at i:86968 original size:33 final size:33
Alignment explanation
Indices: 86915--86981 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
86905 ACCCTATGAT
86915 GCCATTCACATCGCTACTAATCTTGTCTGTCAC
1 GCCATTCACATCGCTACTAATCTTGTCTGTCAC
* * * *
86948 GCCATTCGCATTGCTGCTAATCTTGTCTTTCAC
1 GCCATTCACATCGCTACTAATCTTGTCTGTCAC
86981 G
1 G
86982 AGTGCACTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.18, C:0.31, G:0.15, T:0.36
Consensus pattern (33 bp):
GCCATTCACATCGCTACTAATCTTGTCTGTCAC
Found at i:88019 original size:12 final size:13
Alignment explanation
Indices: 87993--88063 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 13
87983 ATACATAATT
87993 TATATAAATAAAA
1 TATATAAATAAAA
*
88006 TATA-AAATATAA
1 TATATAAATAAAA
* *
88018 TATTTAAATTAAA
1 TATATAAATAAAA
* *
88031 TA-A-ATATAAAT
1 TATATAAATAAAA
**
88042 TATATAAA-AATT
1 TATATAAATAAAA
88054 TATATAAATA
1 TATATAAATA
88064 TATAAAATTA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
11 7 0.16
12 22 0.50
13 15 0.34
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATATAAATAAAA
Found at i:88550 original size:18 final size:18
Alignment explanation
Indices: 88529--88567 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
88519 ACAAAACACA
*
88529 TTATA-TTAATAATAATAT
1 TTATATTTAAT-ATAAAAT
88547 TTATATTTAATATAAAAT
1 TTATATTTAATATAAAAT
88565 TTA
1 TTA
88568 ATAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATATTTAATATAAAAT
Done.