Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold426
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: 634051
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 1 of 6
Found at i:761 original size:4 final size:4
Alignment explanation
Indices: 754--780 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
744 ATGAATAGCA
754 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
781 AATGAACATC
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:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:4121 original size:20 final size:20
Alignment explanation
Indices: 4098--4146 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
4088 CTGGACATGT
*
4098 TAAATATGCATGAAACATAA
1 TAAAAATGCATGAAACATAA
4118 TAAAAAAAATGCATGAAACATAA
1 T---AAAAATGCATGAAACATAA
4141 TAAAAA
1 TAAAAA
4147 AAATGCATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.24
23 19 0.76
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.20
Consensus pattern (20 bp):
TAAAAATGCATGAAACATAA
Found at i:4133 original size:23 final size:23
Alignment explanation
Indices: 4103--4155 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
4093 CATGTTAAAT
4103 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
4126 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
4149 ATGCATG
1 ATGCATG
4156 GTCAAAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.19
Consensus pattern (23 bp):
ATGCATGAAACATAATAAAAAAA
Found at i:5111 original size:20 final size:20
Alignment explanation
Indices: 5064--5138 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
5054 AAAAAGACAT
*
5064 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
5083 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
5104 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
5124 AATGTATCGATACAT
1 AATGTATCGATACAT
5139 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:5132 original size:40 final size:39
Alignment explanation
Indices: 5061--5138 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
5051 GGTAAAAAGA
* *
5061 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
5100 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
5139 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:6554 original size:16 final size:16
Alignment explanation
Indices: 6535--6573 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
6525 CAAAAAATTA
*
6535 AAATAATTTAAATTTC
1 AAATAATTTAAACTTC
6551 AAATAATTTAAACTTC
1 AAATAATTTAAACTTC
6567 AAATAAT
1 AAATAAT
6574 CTAACTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAATTTAAACTTC
Found at i:10596 original size:17 final size:17
Alignment explanation
Indices: 10576--10615 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
10566 TTTTAATTTG
10576 AATTATTATTTAATAA-T
1 AATTATTATTTAA-AATT
*
10593 AATTTTTATTTAAAATT
1 AATTATTATTTAAAATT
10610 AATTAT
1 AATTAT
10616 AAAATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTATTATTTAAAATT
Found at i:11016 original size:27 final size:28
Alignment explanation
Indices: 10950--11012 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
10940 ATTTTACTAC
* *
10950 TTTATTGAAATAAATTTTATATTTTTAT
1 TTTATTTAAATAAATTTTATATTTTAAT
10978 TTTATTTAAATAAATTTTA-ACTTTTAAT
1 TTTATTTAAATAAATTTTATA-TTTTAAT
11006 TTGTATT
1 TT-TATT
11013 AATACATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.03
28 26 0.84
29 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTATTTAAATAAATTTTATATTTTAAT
Found at i:14889 original size:31 final size:31
Alignment explanation
Indices: 14853--14920 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
14843 AAATATTAAA
* * * *
14853 ATTTAATCTCTAATTTAATTTTAAATAAAAT
1 ATTTAAACTCCAATTCAATTTTAAACAAAAT
14884 ATTTAAACTCCAATTCAATTTTAAACAAAAT
1 ATTTAAACTCCAATTCAATTTTAAACAAAAT
14915 ATTTAA
1 ATTTAA
14921 GGTGGGTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (31 bp):
ATTTAAACTCCAATTCAATTTTAAACAAAAT
Found at i:15483 original size:13 final size:12
Alignment explanation
Indices: 15451--15506 Score: 60
Period size: 13 Copynumber: 4.5 Consensus size: 12
15441 TAATTATGAA
15451 TATAATAAATAT
1 TATAATAAATAT
*
15463 TATTATAAATAAT
1 TATAATAAAT-AT
15476 TATAATAAAT-T
1 TATAATAAATAT
*
15487 TAATCATAAATAT
1 T-ATAATAAATAT
15500 TAATAAT
1 T-ATAAT
15507 TAAAAAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 2 0.05
12 17 0.46
13 18 0.49
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATAATAAATAT
Found at i:15483 original size:25 final size:24
Alignment explanation
Indices: 15451--15506 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
15441 TAATTATGAA
*
15451 TATAATAAATATT-ATTATAAATAAT
1 TATAATAAAT-TTAATCATAAAT-AT
15476 TATAATAAATTTAATCATAAATAT
1 TATAATAAATTTAATCATAAATAT
15500 TAATAAT
1 T-ATAAT
15507 TAAAAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TATAATAAATTTAATCATAAATAT
Found at i:15486 original size:10 final size:11
Alignment explanation
Indices: 15440--15508 Score: 51
Period size: 10 Copynumber: 6.6 Consensus size: 11
15430 TATATTTATC
15440 ATAATTATGAAT
1 ATAATTAT-AAT
15452 ATAA-TA-AAT
1 ATAATTATAAT
*
15461 ATTATTATAA-
1 ATAATTATAAT
15471 ATAATTATAAT
1 ATAATTATAAT
15482 A-AATT-TAAT
1 ATAATTATAAT
* *
15491 CATAAATATTA-
1 -ATAATTATAAT
15502 ATAATTA
1 ATAATTA
15509 AAAAATTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
9 10 0.22
10 22 0.48
11 8 0.17
12 6 0.13
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
ATAATTATAAT
Found at i:17404 original size:97 final size:98
Alignment explanation
Indices: 17256--17496 Score: 335
Period size: 97 Copynumber: 2.5 Consensus size: 98
17246 TTTTTGATTG
* * *
17256 AAAATCGGGGTTGGAGTATCCCCTCGAAGGAATGAGGTTTGAGTATACCCGATGATAACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGAGGATTGAGTATACCCGATGATAACAATTTA
17321 AGTGAGAATAAAATTTAAACTTTGAT-GCGTTT
66 AGTGAGAATAAAATTTAAACTTTGATAGCGTTT
* * * *
17353 AAAAGCGGGGTTAGAGTATCCCCTCGGAGGAATG-GGATTGAAGTGTCCCCGATGATGACAATTT
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGAGGATTG-AGTATACCCGATGATAACAATTT
* *
17417 AAGTGAGAATAAGATTTAAACTTTGATAGTGTTT
65 AAGTGAGAATAAAATTTAAACTTTGATAGCGTTT
* * *
17451 AAAAGCGAGGTTGGAATATCCCCTCGGAGGAAT-AGGGTTGGAGTAT
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGAGGATT-GAGTAT
17497 CCTGATAAAT
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
96 5 0.04
97 77 0.61
98 43 0.34
99 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (98 bp):
AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGAGGATTGAGTATACCCGATGATAACAATTTA
AGTGAGAATAAAATTTAAACTTTGATAGCGTTT
Found at i:19653 original size:20 final size:20
Alignment explanation
Indices: 19610--19657 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
19600 TAACTAGATG
* *
19610 TATCGATACATTGAAGAATG
1 TATCGATACATTGAAAAATA
19630 TATCGATACATT-AACAAATA
1 TATCGATACATTGAA-AAATA
19650 TATCGATA
1 TATCGATA
19658 TATTTGAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (20 bp):
TATCGATACATTGAAAAATA
Found at i:19706 original size:20 final size:20
Alignment explanation
Indices: 19681--19732 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
19671 AGATAGAATT
* * *
19681 TATCGATATATTCATACATG
1 TATCGATATATTAAAAAATG
*
19701 TATCGATACATTAAAAAATG
1 TATCGATATATTAAAAAATG
*
19721 TATCGACATATT
1 TATCGATATATT
19733 TGGATAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (20 bp):
TATCGATATATTAAAAAATG
Found at i:19867 original size:20 final size:20
Alignment explanation
Indices: 19842--19880 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
19832 TAATCTAAAA
19842 GTTCGTCCCTACACATCTCC
1 GTTCGTCCCTACACATCTCC
19862 GTTCGTCCCTACACATCTC
1 GTTCGTCCCTACACATCTC
19881 AGATCATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.44, G:0.10, T:0.31
Consensus pattern (20 bp):
GTTCGTCCCTACACATCTCC
Found at i:20460 original size:13 final size:12
Alignment explanation
Indices: 20426--20461 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
20416 TTTTCTTTCC
20426 TTTTTTTTTAAT
1 TTTTTTTTTAAT
20438 TTTATTTTTTAAT
1 TTT-TTTTTTAAT
20451 TTTTTATTTTA
1 TTTTT-TTTTA
20462 GTTAATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTAAT
Found at i:20565 original size:22 final size:22
Alignment explanation
Indices: 20526--20567 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20516 CGAAACTTAA
*
20526 AATAATTTGATGTAATATTTAT
1 AATAATTTAATGTAATATTTAT
20548 AATAATTTAATTGT-ATATTT
1 AATAATTTAA-TGTAATATTT
20568 TGTCAACGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
AATAATTTAATGTAATATTTAT
Found at i:21307 original size:15 final size:15
Alignment explanation
Indices: 21287--21331 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
21277 TTATCTTTAA
21287 AAAATTTTAAATATT
1 AAAATTTTAAATATT
21302 AAAATTTTAAAT-TT
1 AAAATTTTAAATATT
*
21316 -AATTTATTAAATATT
1 AAAATT-TTAAATATT
21331 A
1 A
21332 TTTATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 4 0.15
14 8 0.31
15 14 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAAATTTTAAATATT
Found at i:21325 original size:14 final size:14
Alignment explanation
Indices: 21308--21340 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21298 TATTAAAATT
21308 TTAAAT-TTAATTTA
1 TTAAATATT-ATTTA
21322 TTAAATATTATTTA
1 TTAAATATTATTTA
21336 TTAAA
1 TTAAA
21341 ATAATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAATATTATTTA
Found at i:21738 original size:3 final size:3
Alignment explanation
Indices: 21725--21764 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
21715 TAAAGGAAAG
21725 GAA GAAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
21765 ACTAATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:23039 original size:24 final size:24
Alignment explanation
Indices: 23007--23054 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
22997 AAAAGAATAA
*
23007 TAAATAAATTTTTATTCTTTTATT
1 TAAATAAATTTTTATACTTTTATT
23031 TAAATAAATTTTTATACTTTTATT
1 TAAATAAATTTTTATACTTTTATT
23055 ACATTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TAAATAAATTTTTATACTTTTATT
Found at i:23964 original size:2 final size:2
Alignment explanation
Indices: 23957--23989 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23947 TATCTTTCTT
*
23957 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23990 TTGTTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:25356 original size:6 final size:6
Alignment explanation
Indices: 25340--25402 Score: 60
Period size: 6 Copynumber: 10.3 Consensus size: 6
25330 TATAGATCTA
*
25340 ATATATT ATATTT ATATTTT AAATTT -TA-TT ATATTT AATAATTT ATA-TT
1 ATAT-TT ATATTT ATA-TTT ATATTT ATATTT ATATTT -AT-ATTT ATATTT
25389 ATATTT ATATTT AT
1 ATATTT ATATTT AT
25403 GTAATTAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
4 2 0.04
5 8 0.17
6 21 0.44
7 13 0.27
8 4 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATATTT
Found at i:25373 original size:17 final size:19
Alignment explanation
Indices: 25345--25395 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
25335 ATCTAATATA
*
25345 TTATATTTATATTTTA-AAT
1 TTATA-TTATATTTAATAAT
25364 TT-TATTATATTTAATAAT
1 TTATATTATATTTAATAAT
25382 TTATATTATATTTA
1 TTATATTATATTTA
25396 TATTTATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 9 0.31
18 7 0.24
19 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATATTATATTTAATAAT
Found at i:40130 original size:103 final size:102
Alignment explanation
Indices: 39881--40243 Score: 467
Period size: 103 Copynumber: 3.5 Consensus size: 102
39871 AAAGACATCA
* *
39881 TATTTAAATATGTAATTTTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAAAATA
1 TATTTAAATATGTAATTTTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAGAGT-
* * *
39946 TACATTATATAAATTTATTTTAAAATTAAT-AATTTTT
65 TACATGATATTAATTTAATTTAAAATTAATAAATTTTT
* * * *
39983 TATTTAAATATGTAATTTTATTAATTGATTTAAATTTAAATTAATAGATACTTGAAAATAGAGTC
1 TATTTAAATATGTAATTTTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAGAGT-
* *
40048 TACATGATATTAATTTACTTTAAATTTAATAAATTTTT
65 TACATGATATTAATTTAATTTAAAATTAATAAATTTTT
40086 TATTTAAATATGTAATTTTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAGAGTT
1 TATTTAAATATGTAATTTTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAGAGTT
* * * **
40151 CACGTGATATTAAATAAATTTAAAATTAATAAATTATCCC
66 -ACATGATATTAATTTAATTTAAAATTAATAAATT-T-TT
* * * * *
40191 TATTTAAATATATAACCTTTATTAACTTATTTAAGTTTAAATCAAATAAATAT
1 TATTTAAATATGTAA-TTTTATTAATTTATTTAAATTTAAAT-TAATAAATAT
40244 AAAAAAGTCT
Statistics
Matches: 228, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
102 85 0.37
103 96 0.42
104 1 0.00
105 14 0.06
106 23 0.10
107 9 0.04
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (102 bp):
TATTTAAATATGTAATTTTATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAGAGTT
ACATGATATTAATTTAATTTAAAATTAATAAATTTTT
Found at i:40163 original size:54 final size:53
Alignment explanation
Indices: 39899--40163 Score: 132
Period size: 54 Copynumber: 5.1 Consensus size: 53
39889 TATGTAATTT
* * *
39899 TATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAAAATAT-ACATTA
1 TATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAGAGT-TCAC-TGA
* * *** * *
39953 TATAAATTTATTTTAAAATT-AA-TAATTTTTTATTTAAATAT-GTAATT---T--
1 TATTAATTTA-TTTAAATTTAAATTAA-TAAATATTTAAAAATAG-AGTTCACTGA
* * * *
40001 TATTAATTGATTTAAATTTAAATTAATAGATACTTGAAAATAGAG-TCTACATGA
1 TATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAGAGTTC-AC-TGA
* *** * *
40055 TATTAATTTACTTTAAATTT-AATAAATTTTTTATTTAAATAT-GTAATT---T--
1 TATTAATTTA-TTTAAATTTAAATTAA-TAAATATTTAAAAATAG-AGTTCACTGA
40104 TATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAGAGTTCACGTGA
1 TATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAGAGTTCAC-TGA
40158 TATTAA
1 TATTAA
40164 ATAAATTTAA
Statistics
Matches: 154, Mismatches: 32, Indels: 50
0.65 0.14 0.21
Matches are distributed among these distances:
47 9 0.06
48 43 0.28
49 20 0.13
50 1 0.01
51 1 0.01
52 2 0.01
53 4 0.03
54 46 0.30
55 27 0.18
56 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (53 bp):
TATTAATTTATTTAAATTTAAATTAATAAATATTTAAAAATAGAGTTCACTGA
Found at i:42304 original size:17 final size:16
Alignment explanation
Indices: 42277--42318 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
42267 CAAAATTAAA
* *
42277 TTAATTTTATATTTTT
1 TTAAATTTATATTTAT
42293 TTATAATTTATATTTAT
1 TTA-AATTTATATTTAT
42310 TTAAATTTA
1 TTAAATTTA
42319 ATTATTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTAAATTTATATTTAT
Found at i:42536 original size:27 final size:29
Alignment explanation
Indices: 42492--42554 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 29
42482 TAAATACATT
*
42492 ATAAATATAATTATATT-ATAATATTTAATA
1 ATAAA-ATAATTATATTAATAA-ATTAAATA
*
42522 ATAAAAT-ATTA-ATTAATAAATTAAATC
1 ATAAAATAATTATATTAATAAATTAAATA
42549 ATAAAA
1 ATAAAA
42555 CATATAACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 15 0.50
28 8 0.27
29 2 0.07
30 5 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
ATAAAATAATTATATTAATAAATTAAATA
Found at i:42850 original size:3 final size:3
Alignment explanation
Indices: 42842--42876 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
42832 CTCTCTCTCT
42842 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
42877 GTATTCTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:45853 original size:35 final size:35
Alignment explanation
Indices: 45808--45874 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
45798 AAATAATATA
* *
45808 TTTTATTAAAATAAAATTATTTATATTT-TTAAAAT
1 TTTTAATAAAATAAAATGATTTAT-TTTATTAAAAT
*
45843 TTTTAATAAAATAATATGATTTATTTTATTAA
1 TTTTAATAAAATAAAATGATTTATTTTATTAA
45875 TGGTATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 3 0.11
35 25 0.89
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (35 bp):
TTTTAATAAAATAAAATGATTTATTTTATTAAAAT
Found at i:47881 original size:20 final size:21
Alignment explanation
Indices: 47829--47868 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
47819 ATTTTTATTT
47829 TAATA-TAATTATAAAAATATA
1 TAATATTAA-TATAAAAATATA
47850 TAATATTAATATAAAAATA
1 TAATATTAATATAAAAATA
47869 ATATTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATATAAAAATATA
Found at i:48227 original size:2 final size:2
Alignment explanation
Indices: 48222--48248 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48212 CGATTTTTTA
48222 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
48249 CCAGTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49095 original size:2 final size:2
Alignment explanation
Indices: 49088--49116 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49078 TAGACTGTTA
49088 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
49117 AGGAGGAAAG
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:49512 original size:26 final size:26
Alignment explanation
Indices: 49442--49514 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
49432 TCATACATTG
*
49442 AATT-TTAAATAAATTAAAAATATTT
1 AATTATTAAATAATTTAAAAATATTT
** *
49467 AATTAATTATTTAATATAAAAAT-TTT
1 AATT-ATTAAATAATTTAAAAATATTT
49493 AATTATTAAATATATTTAAAAA
1 AATTATTAAATA-ATTTAAAAA
49515 ACTAATATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 10 0.26
26 15 0.39
27 13 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTATTAAATAATTTAAAAATATTT
Found at i:49610 original size:17 final size:16
Alignment explanation
Indices: 49588--49621 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49578 TAAAATTATA
49588 TTATTAAATATAATAAT
1 TTATTAAA-ATAATAAT
*
49605 TTATTAAAATATTAAT
1 TTATTAAAATAATAAT
49621 T
1 T
49622 ATGTAGGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTAAAATAATAAT
Found at i:49760 original size:2 final size:2
Alignment explanation
Indices: 49753--49778 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49743 TCTAGTGTGC
49753 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
49779 TTTTGTAAAA
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:51578 original size:13 final size:13
Alignment explanation
Indices: 51560--51584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51550 ATCTGTTACG
51560 AGATCGAATTATA
1 AGATCGAATTATA
51573 AGATCGAATTAT
1 AGATCGAATTAT
51585 TTAGATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AGATCGAATTATA
Found at i:51942 original size:22 final size:23
Alignment explanation
Indices: 51917--51964 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
51907 AATATTTTTA
51917 ATTAA-ATTAA-ATAATAAAAAAT
1 ATTAATATTAATATAA-AAAAAAT
*
51939 ATTAATATTAATATAAAAATAAT
1 ATTAATATTAATATAAAAAAAAT
51962 ATT
1 ATT
51965 TTAATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 14 0.61
24 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTAATATTAATATAAAAAAAAT
Found at i:51986 original size:19 final size:19
Alignment explanation
Indices: 51928--51974 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
51918 TTAAATTAAA
* *
51928 TAATA-AAAAATATTAATAT
1 TAATATAAAAATAAT-ATTT
51947 TAATATAAAAATAATATTT
1 TAATATAAAAATAATATTT
51966 TAATATAAA
1 TAATATAAA
51975 TTTATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATATAAAAATAATATTT
Found at i:53490 original size:2 final size:2
Alignment explanation
Indices: 53483--53507 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
53473 TTCAAAAACT
53483 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
53508 GAGATTGAAA
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:54049 original size:7 final size:7
Alignment explanation
Indices: 54004--54061 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
53994 TTATTTTTTA
*
54004 TAAAAAT
1 TAAAATT
*
54011 TATAATT
1 TAAAATT
*
54018 TAAAAAT
1 TAAAATT
* *
54025 AAAAAAT
1 TAAAATT
54032 TAAAATAT
1 TAAAAT-T
54040 TAAAATT
1 TAAAATT
54047 TAAAATT
1 TAAAATT
54054 T-AAATT
1 TAAAATT
54060 TA
1 TA
54062 TTAAATATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
6 6 0.14
7 29 0.69
8 7 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
TAAAATT
Found at i:54060 original size:13 final size:15
Alignment explanation
Indices: 54004--54072 Score: 65
Period size: 14 Copynumber: 4.7 Consensus size: 15
53994 TTATTTTTTA
*
54004 TAAAA-ATTATAATT
1 TAAAATATTAAAATT
* *
54018 TAAAA-ATAAAAAAT
1 TAAAATATTAAAATT
54032 TAAAATATTAAAATT
1 TAAAATATTAAAATT
54047 TAAAAT-TT-AAATT
1 TAAAATATTAAAATT
54060 TATTAAATATTAA
1 TA--AAATATTAA
54073 TTAATTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 7 0.16
14 18 0.40
15 17 0.38
16 2 0.04
17 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAAATATTAAAATT
Found at i:54087 original size:13 final size:14
Alignment explanation
Indices: 54054--54102 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
54044 ATTTAAAATT
*
54054 TAAATTTATTAAATA
1 TAAATTAATT-AATA
*
54069 TTAATTAATT-ATA
1 TAAATTAATTAATA
*
54082 TAAATTAATTAAAA
1 TAAATTAATTAATA
54096 TAAATTA
1 TAAATTA
54103 TAAATTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 12 0.41
14 9 0.31
15 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATTAATTAATA
Found at i:55233 original size:25 final size:26
Alignment explanation
Indices: 55204--55254 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
55194 TGGTGTAACG
55204 AATATTATA-AT-TTGAAAATATAAAA
1 AATATTATATATATT-AAAATATAAAA
*
55229 AATATTATATATATTAAAATTTAAAA
1 AATATTATATATATTAAAATATAAAA
55255 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 9 0.39
26 12 0.52
27 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
AATATTATATATATTAAAATATAAAA
Found at i:55675 original size:21 final size:21
Alignment explanation
Indices: 55650--55690 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55640 TTTAAAAATA
*
55650 ATTAATTTTTATAAAATTTAG
1 ATTAATTATTATAAAATTTAG
*
55671 ATTAATTATTATAAATTTTA
1 ATTAATTATTATAAAATTTA
55691 TTTTTTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTAATTATTATAAAATTTAG
Found at i:56045 original size:13 final size:13
Alignment explanation
Indices: 56027--56052 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56017 TAAAAATAAA
56027 ATTAAATATATAT
1 ATTAAATATATAT
56040 ATTAAATATATAT
1 ATTAAATATATAT
56053 TTATATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAAATATATAT
Found at i:56057 original size:17 final size:17
Alignment explanation
Indices: 56032--56065 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56022 ATAAAATTAA
56032 ATATATATATTAAATAT
1 ATATATATATTAAATAT
* *
56049 ATATTTATATTTAATAT
1 ATATATATATTAAATAT
56066 TATCCATGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATATATATTAAATAT
Found at i:56243 original size:12 final size:13
Alignment explanation
Indices: 56212--56248 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
56202 TTGATAATTT
56212 TTATATATT-TATA
1 TTAT-TATTATATA
56225 TTATTATTATATA
1 TTATTATTATATA
56238 TT-TTATTATAT
1 TTATTATTATAT
56249 TATAATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATTATTATATA
Found at i:56258 original size:21 final size:21
Alignment explanation
Indices: 56212--56261 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
56202 TTGATAATTT
*
56212 TTATATATTTATATTATTATTA
1 TTATAT-TTTATATTATTATAA
56234 -TATATTTTAT-TATATTATAA
1 TTATATTTTATAT-TATTATAA
56254 TTATATTT
1 TTATATTT
56262 AAAAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 12 0.48
21 12 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATATTTTATATTATTATAA
Found at i:56274 original size:20 final size:19
Alignment explanation
Indices: 56255--56301 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
56245 ATATTATAAT
56255 TATATTTAAAAAATTTTAA
1 TATATTTAAAAAATTTTAA
*
56274 TATA-TTAATAAATTTTAAAA
1 TATATTTAAAAAATTTT--AA
56294 TATATTTA
1 TATATTTA
56302 TATATTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 11 0.46
19 4 0.17
20 6 0.25
21 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATTTAAAAAATTTTAA
Found at i:56282 original size:28 final size:28
Alignment explanation
Indices: 56237--56308 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
56227 ATTATTATAT
*
56237 ATTTTATTATATT-ATAATTATATTTAAAAA
1 ATTTTAATATATTAATAA--AT-TTTAAAAA
*
56267 ATTTTAATATATTAATAAATTTTAAAAT
1 ATTTTAATATATTAATAAATTTTAAAAA
56295 ATATTT-ATATATTA
1 AT-TTTAATATATTA
56309 TGTGATACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 17 0.45
29 5 0.13
30 12 0.32
31 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTTTAATATATTAATAAATTTTAAAAA
Found at i:57162 original size:20 final size:20
Alignment explanation
Indices: 57116--57163 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
57106 TGAATTATTT
*
57116 ATATATTAA-ATTTTATATAA
1 ATATA-TAATATTTTAAATAA
57136 ATATATAATATTTTAAATATA
1 ATATATAATATTTTAAATA-A
57157 AT-TATAA
1 ATATATAA
57164 CATAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 19 0.76
21 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATATATAATATTTTAAATAA
Found at i:57946 original size:22 final size:22
Alignment explanation
Indices: 57921--57962 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
57911 TTCTTTTCTA
57921 TATTAGAAT-TTAATTTTTAATT
1 TATTA-AATATTAATTTTTAATT
*
57943 TATTAAATATTATTTTTTAA
1 TATTAAATATTAATTTTTAA
57963 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTAAATATTAATTTTTAATT
Found at i:58801 original size:19 final size:19
Alignment explanation
Indices: 58747--58819 Score: 59
Period size: 19 Copynumber: 3.9 Consensus size: 19
58737 TTTTATTATA
58747 TTATAATTATATTTAAAATTTT
1 TTATAATTATA--T-AAATTTT
*
58769 TTATATTTATATAAATTTT
1 TTATAATTATATAAATTTT
58788 TTATAAATTA-AT-AA---T
1 TTAT-AATTATATAAATTTT
58803 TTAT-ATTATATAAATTT
1 TTATAATTATATAAATTT
58820 AAAATAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
13 4 0.09
14 2 0.05
15 7 0.16
18 2 0.05
19 13 0.30
20 5 0.12
22 10 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATAATTATATAAATTTT
Found at i:58867 original size:25 final size:26
Alignment explanation
Indices: 58839--58942 Score: 91
Period size: 25 Copynumber: 4.2 Consensus size: 26
58829 TTATCTTATT
*
58839 TTATATTT-TAATAATTTTATTTAA-A
1 TTATATTTAT-ATAATTATATTTAATA
58864 TTATATTTATATAATTATATTTAATA
1 TTATATTTATATAATTATATTTAATA
58890 TTATCATCTTAT-T--TTATATTTTAATAA
1 TTAT-AT-TTATATAATTATA-TTTAAT-A
58917 TT-TA-TT-TA-AATTATATTTAATA
1 TTATATTTATATAATTATATTTAATA
58939 TTAT
1 TTAT
58943 TAAATTTATA
Statistics
Matches: 68, Mismatches: 1, Indels: 22
0.75 0.01 0.24
Matches are distributed among these distances:
22 4 0.06
23 9 0.13
24 5 0.07
25 27 0.40
26 13 0.19
27 6 0.09
28 4 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTATATTTATATAATTATATTTAATA
Found at i:58901 original size:64 final size:65
Alignment explanation
Indices: 58831--58955 Score: 209
Period size: 64 Copynumber: 1.9 Consensus size: 65
58821 AAATAAATTT
*
58831 ATCTTATTTTATATTTTAATAATTTTATTTAAATTATATTT-ATATAATTATATTTA-ATATTAT
1 ATCTTATTTTATATTTTAATAA-TTTATTTAAATTATATTTAATATAATTAAATTTATATATTAT
58894 C
65 C
*
58895 ATCTTATTTTATATTTTAATAATTTATTTAAATTATATTTAATATTATTAAATTTATATAT
1 ATCTTATTTTATATTTTAATAATTTATTTAAATTATATTTAATATAATTAAATTTATATAT
58956 GTATACTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
63 18 0.32
64 35 0.61
65 4 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (65 bp):
ATCTTATTTTATATTTTAATAATTTATTTAAATTATATTTAATATAATTAAATTTATATATTATC
Found at i:58923 original size:20 final size:20
Alignment explanation
Indices: 58834--58923 Score: 69
Period size: 20 Copynumber: 4.3 Consensus size: 20
58824 TAAATTTATC
58834 TTATTTTATATTTTAATAATT
1 TTATTTTATATTTTAATAA-T
*
58855 TTATTTAAATTATATTTATATAA-
1 TTATTT-TA-TAT-TTTA-ATAAT
* *
58878 TTATATTTA-ATATT-ATCAT
1 TTAT-TTTATATTTTAATAAT
58897 CTTATTTTATATTTTAATAAT
1 -TTATTTTATATTTTAATAAT
58918 TTATTT
1 TTATTT
58924 AAATTATATT
Statistics
Matches: 54, Mismatches: 6, Indels: 19
0.68 0.08 0.24
Matches are distributed among these distances:
18 3 0.06
19 4 0.07
20 16 0.30
21 12 0.22
22 1 0.02
23 8 0.15
24 6 0.11
25 4 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTTATATTTTAATAAT
Found at i:58934 original size:15 final size:15
Alignment explanation
Indices: 58854--58935 Score: 53
Period size: 15 Copynumber: 5.3 Consensus size: 15
58844 TTTTAATAAT
58854 TTTATTTAAATTATA
1 TTTATTTAAATTATA
*
58869 TTTATAT-AATTATA
1 TTTATTTAAATTATA
* *
58883 TTTAATATTATCATCTTATT
1 TTT-AT-TTA--A-ATTATA
*
58903 TTATATTTTAA-TA-A
1 TT-TATTTAAATTATA
58917 TTTATTTAAATTATA
1 TTTATTTAAATTATA
58932 TTTA
1 TTTA
58936 ATATTATTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 18
0.66 0.11 0.24
Matches are distributed among these distances:
13 7 0.14
14 14 0.28
15 15 0.30
16 1 0.02
17 1 0.02
19 3 0.06
20 8 0.16
21 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTATTTAAATTATA
Found at i:59167 original size:18 final size:19
Alignment explanation
Indices: 59135--59187 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
59125 TTTGTCCTTA
*
59135 ATTTATTTATAAATTAAATT
1 ATTTATTTA-AATTTAAATT
*
59155 ATTTATTTAAATTTAAA-A
1 ATTTATTTAAATTTAAATT
59173 ATTTATTTAATATTT
1 ATTTATTTAA-ATTT
59188 TAAAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 10 0.33
19 11 0.37
20 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTATTTAAATTTAAATT
Found at i:59193 original size:21 final size:18
Alignment explanation
Indices: 59134--59204 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 18
59124 ATTTGTCCTT
*
59134 AATTTATTTATAAATTAAA
1 AATTTATTTA-AATTTAAA
*
59153 TTATTTATTTAAATTTAAA
1 -AATTTATTTAAATTTAAA
59172 AATTTATTTAATATTTTAAAA
1 AATTTATTTAA-A-TTT-AAA
*
59193 AATATATTTAAA
1 AATTTATTTAAA
59205 AATATTAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.23
19 8 0.18
20 13 0.30
21 13 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTATTTAAATTTAAA
Found at i:59260 original size:21 final size:23
Alignment explanation
Indices: 59226--59270 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
59216 TCAAAAATAA
*
59226 ATTTAAATAAAAAAT-AAAGCTC
1 ATTTAAATAAAAAATCAAACCTC
59248 ATTTAAA-AAAAAATCAAACCTC
1 ATTTAAATAAAAAATCAAACCTC
59270 A
1 A
59271 AATATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.24
Consensus pattern (23 bp):
ATTTAAATAAAAAATCAAACCTC
Found at i:59971 original size:20 final size:20
Alignment explanation
Indices: 59948--59985 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59938 AATTTAATCA
59948 ATTAAAAAGTAAATTAAATG
1 ATTAAAAAGTAAATTAAATG
* *
59968 ATTAAAAATTAATTTAAA
1 ATTAAAAAGTAAATTAAA
59986 AACTACATTA
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:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
ATTAAAAAGTAAATTAAATG
Found at i:65693 original size:44 final size:46
Alignment explanation
Indices: 65643--65751 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 46
65633 GTTTATATTA
*
65643 TATTTATCTATTTTATTATATT-ATAA-TTATATT-TATAAATTTT
1 TATTTATATATTTTATTATATTAATAATTTATATTATATAAATTTT
*
65686 GTATTTATATAAATTTTAATATATTAATAATTTATATTATATAAATTTT
1 -TATTTATAT--ATTTTATTATATTAATAATTTATATTATATAAATTTT
**
65735 TATAAATATATTTTATT
1 TATTTATATATTTTATT
65752 TTAATTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
44 8 0.15
46 19 0.35
47 4 0.07
48 14 0.25
49 10 0.18
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (46 bp):
TATTTATATATTTTATTATATTAATAATTTATATTATATAAATTTT
Found at i:65696 original size:29 final size:28
Alignment explanation
Indices: 65623--65697 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 28
65613 AATTTTAATA
65623 AAATTTTTATGTT-TAT-ATTATATTTAT
1 AAATTTTTAT-TTATATAATTATATTTAT
**
65650 CTA-TTTTATTATATTATAATTATATTTAT
1 AAATTTTTATT-TA-TATAATTATATTTAT
65679 AAATTTTGTATTTATATAA
1 AAATTTT-TATTTATATAA
65698 ATTTTAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
25 1 0.03
26 7 0.18
27 1 0.03
28 3 0.08
29 17 0.45
30 5 0.13
31 4 0.11
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (28 bp):
AAATTTTTATTTATATAATTATATTTAT
Found at i:65732 original size:15 final size:14
Alignment explanation
Indices: 65652--65734 Score: 60
Period size: 16 Copynumber: 5.4 Consensus size: 14
65642 ATATTTATCT
65652 ATTTTATTATATTATA
1 ATTTTATTATA-TA-A
*
65668 ATTATATT-TATAA
1 ATTTTATTATATAA
65681 ATTTTGTATTTATATAA
1 A-TTT-TA-TTATATAA
*
65698 ATTTTAATATATTAATA
1 ATTTTATTATA-T-A-A
65715 ATTTATATTATATAA
1 ATTT-TATTATATAA
65730 ATTTT
1 ATTTT
65735 TATAAATATA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
13 2 0.04
14 9 0.16
15 12 0.22
16 14 0.25
17 12 0.22
18 6 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (14 bp):
ATTTTATTATATAA
Found at i:65736 original size:17 final size:17
Alignment explanation
Indices: 65669--65738 Score: 71
Period size: 17 Copynumber: 4.3 Consensus size: 17
65659 TATATTATAA
65669 TTATATT-TATAAATTT
1 TTATATTATATAAATTT
65685 TGTAT-TTATATAAATTT
1 T-TATATTATATAAATTT
65702 TAATATATTA-AT-AA--T
1 T--TATATTATATAAATTT
65717 TTATATTATATAAATTT
1 TTATATTATATAAATTT
65734 TTATA
1 TTATA
65739 AATATATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 15
0.74 0.02 0.25
Matches are distributed among these distances:
13 7 0.16
14 2 0.04
15 4 0.09
16 3 0.07
17 21 0.47
18 5 0.11
19 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (17 bp):
TTATATTATATAAATTT
Found at i:65902 original size:27 final size:27
Alignment explanation
Indices: 65868--65927 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
65858 ATGAGTTTTT
65868 TTATTTATATTA-AATTTAATAATTTA
1 TTATTTATATTATAATTTAATAATTTA
* *
65894 TGTATTTATATTATAATTTTATATTTTA
1 T-TATTTATATTATAATTTAATAATTTA
65922 TTATTT
1 TTATTT
65928 TATAATTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 16 0.53
28 13 0.43
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TTATTTATATTATAATTTAATAATTTA
Found at i:65911 original size:20 final size:18
Alignment explanation
Indices: 65886--65925 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
65876 ATTAAATTTA
*
65886 ATAATTTATGTATTTATATT
1 ATAATTT-TATATTT-TATT
65906 ATAATTTTATATTTTATT
1 ATAATTTTATATTTTATT
65924 AT
1 AT
65926 TTTATAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATAATTTTATATTTTATT
Found at i:65929 original size:28 final size:26
Alignment explanation
Indices: 65863--65966 Score: 86
Period size: 28 Copynumber: 3.8 Consensus size: 26
65853 AAATAATGAG
*
65863 TTTTTTTATTTATATTAAATTTAATA
1 TTTTATTATTTATATTAAATTTAATA
* *
65889 ATTTATGTATTTATATTATAATTTTATA
1 TTTTAT-TATTTATATTA-AATTTAATA
**
65917 TTTTATTATTTTATAATTGTATTTAAAATA
1 TTTTATTA-TTTAT-ATTAAATTT--AATA
*
65947 TTTTA-TGTTTATA-TAAATTT
1 TTTTATTATTTATATTAAATTT
65967 TGATATGTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
26 9 0.15
27 14 0.23
28 27 0.44
29 4 0.06
30 8 0.13
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTTATTATTTATATTAAATTTAATA
Found at i:66062 original size:14 final size:14
Alignment explanation
Indices: 66029--66071 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
66019 TATTATATTT
*
66029 TAATTAT-TTTATC
1 TAATTATATTTATA
66042 TATATTATATTTATA
1 TA-ATTATATTTATA
66057 TAATTATATTT-TA
1 TAATTATATTTATA
66070 TA
1 TA
66072 TTTTGAGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 6 0.22
14 14 0.52
15 7 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATTATATTTATA
Found at i:66069 original size:15 final size:16
Alignment explanation
Indices: 66033--66072 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
66023 ATATTTTAAT
*
66033 TATTTTATCTATATTA
1 TATTTTATATATATTA
66049 TA-TTTATATA-ATTA
1 TATTTTATATATATTA
66063 TATTTTATAT
1 TATTTTATAT
66073 TTTGAGATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 6 0.27
15 14 0.64
16 2 0.09
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTATATATATTA
Found at i:74610 original size:33 final size:33
Alignment explanation
Indices: 74572--74646 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 33
74562 TTTGATATAT
*
74572 TTTATAATTATAT-AAA-TTTAAATATTTTAATAA
1 TTTAT-ATTATATAAAATTTTAAATATTTAAAT-A
74605 TTTATATTATATAAAATTTTAAATATTTAAATA
1 TTTATATTATATAAAATTTTAAATATTTAAATA
74638 TTTACTATT
1 TTTA-TATT
74647 TCTTATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
32 7 0.18
33 13 0.34
34 18 0.47
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (33 bp):
TTTATATTATATAAAATTTTAAATATTTAAATA
Found at i:78630 original size:21 final size:20
Alignment explanation
Indices: 78559--78632 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
78549 CACATGGTCC
* **
78559 TGTATCGATACATTTTAGGTA
1 TGTATCGATACA-TTCACTTA
78580 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
*
78600 TGTATAGATACATTGC-CTTA
1 TGTATCGATACATT-CACTTA
78620 TTGTATCGATACA
1 -TGTATCGATACA
78633 AATTATTGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 22 0.48
21 24 0.52
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:82390 original size:23 final size:23
Alignment explanation
Indices: 82333--82390 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
82323 AAACTGGAGA
* *
82333 ATATCCATCTTGATTGGTAGGGTT
1 ATATGCAT-TTGATTGGTAGGGTC
*
82357 ATA-GTATTTTGATTGGTAGGGTC
1 ATATGCA-TTTGATTGGTAGGGTC
82380 ATATGCATTTG
1 ATATGCATTTG
82391 TTTTTCCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (23 bp):
ATATGCATTTGATTGGTAGGGTC
Found at i:90170 original size:15 final size:16
Alignment explanation
Indices: 90143--90172 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
90133 CTATATTATA
90143 TAACTATTTTAATATT
1 TAACTATTTTAATATT
90159 TAACTA-TTTAATAT
1 TAACTATTTTAATAT
90173 ACCTTATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (16 bp):
TAACTATTTTAATATT
Found at i:90230 original size:27 final size:25
Alignment explanation
Indices: 90176--90230 Score: 58
Period size: 26 Copynumber: 2.1 Consensus size: 25
90166 TTAATATACC
* *
90176 TTATCATATTATTTTTAATTATTTT
1 TTATCATATTATTTTTAATCATTCT
90201 TTAT-ATATTATTTATTTAATCATGTCT
1 TTATCATATTA-TT-TTTAATCAT-TCT
90228 TTA
1 TTA
90231 CGTAATTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 6 0.24
25 6 0.24
26 8 0.32
27 5 0.20
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (25 bp):
TTATCATATTATTTTTAATCATTCT
Found at i:92542 original size:18 final size:20
Alignment explanation
Indices: 92505--92544 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
92495 GTTTTGTATT
92505 TTATGATAATTTAAATTGTA
1 TTATGATAATTTAAATTGTA
*
92525 TTAT-ATAA-TTATATTGTA
1 TTATGATAATTTAAATTGTA
92543 TT
1 TT
92545 CTAGAAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 4 0.21
20 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TTATGATAATTTAAATTGTA
Found at i:92981 original size:8 final size:8
Alignment explanation
Indices: 92951--92999 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
92941 ATACCAAATA
92951 ATATATAC
1 ATATATAC
* *
92959 CTATATGC
1 ATATATAC
*
92967 ATTTATAC
1 ATATATAC
*
92975 ATATATAT
1 ATATATAC
*
92983 ATATATAT
1 ATATATAC
92991 ATATATAC
1 ATATATAC
92999 A
1 A
93000 AAATAATATG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (8 bp):
ATATATAC
Found at i:93653 original size:19 final size:19
Alignment explanation
Indices: 93620--93692 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
93610 GATTCTTGAA
* *
93620 CTTGAATTCAATTTTGGGT
1 CTTGAATTGATTTTTGGGT
*
93639 CTTGAATTGATTTTTAGGT
1 CTTGAATTGATTTTTGGGT
* * *
93658 -TTGAAAATTAAGTTTTGGGA
1 CTTG--AATTGATTTTTGGGT
93678 CTTGGAATTGATTTT
1 CTT-GAATTGATTTT
93693 GGCCTTTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
18 3 0.07
19 16 0.39
20 19 0.46
21 2 0.05
22 1 0.02
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.48
Consensus pattern (19 bp):
CTTGAATTGATTTTTGGGT
Found at i:93661 original size:18 final size:19
Alignment explanation
Indices: 93620--93662 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
93610 GATTCTTGAA
*
93620 CTTGAATTCAATTTTGGGT
1 CTTGAATTCAATTTTAGGT
* *
93639 CTTGAATTGATTTTTAGGT
1 CTTGAATTCAATTTTAGGT
93658 -TTGAA
1 CTTGAA
93663 AATTAAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.23, C:0.07, G:0.21, T:0.49
Consensus pattern (19 bp):
CTTGAATTCAATTTTAGGT
Found at i:94459 original size:12 final size:13
Alignment explanation
Indices: 94442--94470 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
94432 AGATCGATAT
94442 AAATTTA-TTTAA
1 AAATTTATTTTAA
94454 AAATTTATTTTAA
1 AAATTTATTTTAA
94467 AAAT
1 AAAT
94471 ATAATTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTTATTTTAA
Found at i:95841 original size:24 final size:24
Alignment explanation
Indices: 95803--95865 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
95793 TCCGAACATC
**
95803 AAATAATTTTGAATAC-AAATATAA
1 AAATAATTTAAAATACAAAATAT-A
*
95827 AAATAATTTAAAATATAAAATATA
1 AAATAATTTAAAATACAAAATATA
* *
95851 ATATAATATAAAATA
1 AAATAATTTAAAATA
95866 TATTAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAATTTAAAATACAAAATATA
Found at i:95858 original size:17 final size:17
Alignment explanation
Indices: 95820--95951 Score: 65
Period size: 17 Copynumber: 7.4 Consensus size: 17
95810 TTTGAATACA
*
95820 AATATAAAA-ATAATTTAA
1 AATATAAAATATAA--TAT
95838 AATATAAAATATAATAT
1 AATATAAAATATAATAT
*
95855 AATATAAAATATATTA-
1 AATATAAAATATAATAT
**
95871 AATAT-TTATATAATAT
1 AATATAAAATATAATAT
* *
95887 AAATTATCAATATATTAAAAGAT
1 -AA-TAT-AA-A-A-TATAATAT
* * *
95910 ATTTTTAAATATAATTAT
1 AATATAAAATATAA-TAT
95928 AATATAAAA-ATAATATT
1 AATATAAAATATAATA-T
95945 AATATAA
1 AATATAA
95952 TATAAATAGC
Statistics
Matches: 86, Mismatches: 17, Indels: 23
0.68 0.13 0.18
Matches are distributed among these distances:
15 7 0.08
16 7 0.08
17 35 0.41
18 21 0.24
19 5 0.06
20 1 0.01
21 2 0.02
22 2 0.02
23 6 0.07
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (17 bp):
AATATAAAATATAATAT
Found at i:95959 original size:11 final size:11
Alignment explanation
Indices: 95820--95959 Score: 67
Period size: 11 Copynumber: 12.9 Consensus size: 11
95810 TTTGAATACA
*
95820 AATATAAAAAT
1 AATATAAATAT
*
95831 AATTTAAA-AT
1 AATATAAATAT
95841 -ATA-AAATAT
1 AATATAAATAT
95850 AATAT-AATAT
1 AATATAAATAT
* *
95860 AAAATATAT-T
1 AATATAAATAT
**
95870 AAATATTTATAT
1 -AATATAAATAT
95882 AATATAAATTAT
1 AATATAAA-TAT
* *
95894 CAATAT-ATTAA
1 -AATATAAATAT
* ** *
95905 AAGATATTTTT
1 AATATAAATAT
*
95916 AAATATAATTAT
1 -AATATAAATAT
*
95928 AATATAAAAAT
1 AATATAAATAT
*
95939 AATATTAATAT
1 AATATAAATAT
95950 AATATAAATA
1 AATATAAATA
95960 GCCTTTTGTA
Statistics
Matches: 97, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
8 3 0.03
9 4 0.04
10 19 0.20
11 53 0.55
12 13 0.13
13 5 0.05
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (11 bp):
AATATAAATAT
Found at i:96253 original size:14 final size:14
Alignment explanation
Indices: 96234--96286 Score: 58
Period size: 13 Copynumber: 3.9 Consensus size: 14
96224 TAAAGGATTA
96234 ATCAAAAACTATAT
1 ATCAAAAACTATAT
*
96248 ATC-AAAACGGAT-T
1 ATCAAAAAC-TATAT
96261 AATCAAAAACTATAT
1 -ATCAAAAACTATAT
96276 AT-AAAAACTAT
1 ATCAAAAACTAT
96287 CCCTAAGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
13 15 0.45
14 12 0.36
15 6 0.18
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (14 bp):
ATCAAAAACTATAT
Found at i:96260 original size:28 final size:28
Alignment explanation
Indices: 96228--96283 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
96218 GTTATTTAAA
*
96228 GGATTAATCAAAAACTATATATCAAAAC
1 GGATTAATCAAAAACTATATATAAAAAC
96256 GGATTAATCAAAAACTATATATAAAAAC
1 GGATTAATCAAAAACTATATATAAAAAC
96284 TATCCCTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25
Consensus pattern (28 bp):
GGATTAATCAAAAACTATATATAAAAAC
Found at i:96410 original size:21 final size:21
Alignment explanation
Indices: 96366--96426 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
96356 ATTTCAAATT
* *
96366 AGGAAGGAAAGAAAGGAAG-GA
1 AGGAA-GAAAGAAAGAAAGAAA
96387 AGGAAGAAAGAAAGAAAGAAA
1 AGGAAGAAAGAAAGAAAGAAA
* * *
96408 AGGAAAAAAAAAAAAAAGA
1 AGGAAGAAAGAAAGAAAGA
96427 GAGAGGAGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 12 0.35
21 22 0.65
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (21 bp):
AGGAAGAAAGAAAGAAAGAAA
Found at i:96470 original size:21 final size:20
Alignment explanation
Indices: 96446--96487 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
96436 GGAGGGGACG
*
96446 GGAAGGAAAGAAAAAGAAAAA
1 GGAAAGAAAGAAAAA-AAAAA
*
96467 GGAAAGAAAGGAAAAAAAAA
1 GGAAAGAAAGAAAAAAAAAA
96487 G
1 G
96488 AAAATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
GGAAAGAAAGAAAAAAAAAA
Found at i:96741 original size:85 final size:86
Alignment explanation
Indices: 96641--96817 Score: 198
Period size: 85 Copynumber: 2.1 Consensus size: 86
96631 ATTCTTTTTT
* * * ** * *
96641 AATTATTTTTCTTATGTTATAGTTGTATCATGTCTTAATTTATTTTATATTTTGA-ATAACTTAT
1 AATTATGTTTCTTATGTTATAGTTGTATCATGTCTCAATTCATAATATATTTT-ATATAAATGAT
* *
96705 TACT-ATGATTCAATTTAAAAAA
65 CA-TAATAATTCAATTTAAAAAA
* * *
96727 AATTATGTTT-TTATGTTTTATTTGTATCGTGTCTCAATTCATAATATATTTTATATAAATGATC
1 AATTATGTTTCTTATGTTATAGTTGTATCATGTCTCAATTCATAATATATTTTATATAAATGATC
*
96791 ATAATAATTCAATTTAGAAAA
66 ATAATAATTCAATTTAAAAAA
96812 AATTAT
1 AATTAT
96818 ATGTCATGCT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
84 2 0.03
85 65 0.86
86 9 0.12
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (86 bp):
AATTATGTTTCTTATGTTATAGTTGTATCATGTCTCAATTCATAATATATTTTATATAAATGATC
ATAATAATTCAATTTAAAAAA
Found at i:97087 original size:25 final size:25
Alignment explanation
Indices: 97031--97083 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
97021 TTTAAAATTA
97031 AATT-TATTTACTTAAAGATTAAAT
1 AATTATATTTACTTAAAGATTAAAT
* * *
97055 CATTATATTTAC-TATAGATTATAT
1 AATTATATTTACTTAAAGATTAAAT
97079 AATTA
1 AATTA
97084 ATATAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (25 bp):
AATTATATTTACTTAAAGATTAAAT
Found at i:97477 original size:2 final size:2
Alignment explanation
Indices: 97470--97503 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
97460 GAGAATTTAA
97470 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
97504 CCTTTGAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98368 original size:22 final size:21
Alignment explanation
Indices: 98323--98379 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
98313 GTAACATATG
*
98323 ATATAA-TTTAGTAATTTTTA
1 ATATAATTTTACTAATTTTTA
*
98343 ATATAATTTTACTAATATTTTT
1 ATATAATTTTACTAAT-TTTTA
98365 ATATAATTTTACTAA
1 ATATAATTTTACTAA
98380 GGTTTTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.18
21 8 0.24
22 19 0.58
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATAATTTTACTAATTTTTA
Found at i:98385 original size:22 final size:23
Alignment explanation
Indices: 98336--98385 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
98326 TAATTTAGTA
*
98336 ATTTTTAATATAATTTTACTAAT
1 ATTTTTAATATAATTTTACTAAG
98359 ATTTTT-ATATAATTTTACTAAG
1 ATTTTTAATATAATTTTACTAAG
*
98381 GTTTT
1 ATTTT
98386 ATCTAGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTTTTAATATAATTTTACTAAG
Found at i:99204 original size:20 final size:20
Alignment explanation
Indices: 99152--99209 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
99142 TATATATATT
*
99152 TATATAATATTAATAAATTAAA
1 TATATAATATT-AT-TATTAAA
*
99174 TAATATTATATTATTATTAAA
1 T-ATATAATATTATTATTAAA
99195 TATATAATATTATTA
1 TATATAATATTATTA
99210 AACGTTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 13 0.41
21 7 0.22
22 3 0.09
23 9 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATATAATATTATTATTAAA
Found at i:99205 original size:17 final size:18
Alignment explanation
Indices: 99175--99211 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
99165 TAAATTAAAT
*
99175 AATATTATATTATTATTA
1 AATATTATAATATTATTA
99193 AATA-TATAATATTATTA
1 AATATTATAATATTATTA
99210 AA
1 AA
99212 CGTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTATAATATTATTA
Found at i:100078 original size:14 final size:15
Alignment explanation
Indices: 100061--100098 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
100051 ATTAATTTTT
100061 AAAATTAACATTTAA
1 AAAATTAACATTTAA
100076 AAAATTCAA-ATTT-A
1 AAAATT-AACATTTAA
100090 AAAATTAAC
1 AAAATTAAC
100099 TTAATTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.10
14 7 0.33
15 10 0.48
16 2 0.10
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATTAACATTTAA
Found at i:104345 original size:13 final size:13
Alignment explanation
Indices: 104323--104362 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
104313 ATATCTTAGC
104323 AAAACATCAACACA
1 AAAAC-TCAACACA
104337 AAAACTC-A-ACA
1 AAAACTCAACACA
104348 AAAACTCAACA-A
1 AAAACTCAACACA
104360 AAA
1 AAA
104363 CTCCATTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 10 0.42
12 6 0.25
13 3 0.12
14 5 0.21
ACGTcount: A:0.68, C:0.25, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAACTCAACACA
Found at i:104361 original size:10 final size:11
Alignment explanation
Indices: 104334--104365 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
104324 AAACATCAAC
104334 ACAAAAACTCA
1 ACAAAAACTCA
104345 ACAAAAACTCA
1 ACAAAAACTCA
104356 ACAAAAACTC
1 ACAAAAACTC
104366 CATTCCCGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.62, C:0.28, G:0.00, T:0.09
Consensus pattern (11 bp):
ACAAAAACTCA
Found at i:108763 original size:21 final size:21
Alignment explanation
Indices: 108714--108776 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
108704 TATAATTTGG
* *
108714 TAATAATTTTAATAATATTTGA
1 TAATAATTTTGATAACATTT-A
*
108736 T-ACAATTTTGATAACATTTA
1 TAATAATTTTGATAACATTTA
* *
108756 TAATAATTCTGATACCATTTA
1 TAATAATTTTGATAACATTTA
108777 ACTTAATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.06
21 31 0.91
22 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (21 bp):
TAATAATTTTGATAACATTTA
Found at i:109023 original size:18 final size:20
Alignment explanation
Indices: 108979--109032 Score: 78
Period size: 18 Copynumber: 2.9 Consensus size: 20
108969 ATGTATTCAT
*
108979 TATATTA-ATCATATTTAAA
1 TATATTATATTATATTTAAA
108998 TATATTATATTATATTT-AA
1 TATATTATATTATATTTAAA
109017 T-TATTATATTATATTT
1 TATATTATATTATATTT
109033 TTTAGTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 15 0.45
19 10 0.30
20 8 0.24
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TATATTATATTATATTTAAA
Found at i:109041 original size:21 final size:23
Alignment explanation
Indices: 108977--109043 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 23
108967 ACATGTATTC
*
108977 ATTATATTA-ATCATATTTAA--
1 ATTATATTATATTATATTTAATT
108997 A-TATATTATATTATATTTAATT
1 ATTATATTATATTATATTTAATT
*
109019 ATTATATTATATT-T-TTTAGTT
1 ATTATATTATATTATATTTAATT
109040 ATTA
1 ATTA
109044 AATATGTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.17
20 11 0.27
21 10 0.24
22 2 0.05
23 11 0.27
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (23 bp):
ATTATATTATATTATATTTAATT
Found at i:112686 original size:7 final size:7
Alignment explanation
Indices: 112676--112732 Score: 72
Period size: 7 Copynumber: 9.0 Consensus size: 7
112666 TGGTAAGTAG
112676 TTAAAAT
1 TTAAAAT
112683 TT--AAT
1 TTAAAAT
112688 TTAAAAT
1 TTAAAAT
112695 TTAAAAT
1 TTAAAAT
112702 TTAAAA-
1 TTAAAAT
112708 TT-AAAT
1 TTAAAAT
112714 TTAAAA-
1 TTAAAAT
112720 TT-AAAT
1 TTAAAAT
112726 TTAAAAT
1 TTAAAAT
112733 CAATTAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
5 11 0.25
6 8 0.18
7 25 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAAAAT
Found at i:112693 original size:12 final size:12
Alignment explanation
Indices: 112676--112732 Score: 87
Period size: 12 Copynumber: 4.6 Consensus size: 12
112666 TGGTAAGTAG
*
112676 TTAAAATTTAAT
1 TTAAAATTAAAT
112688 TTAAAATTTAAAAT
1 TTAAAA-TT-AAAT
112702 TTAAAATTAAAT
1 TTAAAATTAAAT
112714 TTAAAATTAAAT
1 TTAAAATTAAAT
112726 TTAAAAT
1 TTAAAAT
112733 CAATTAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
12 29 0.69
13 4 0.10
14 9 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAAATTAAAT
Found at i:112700 original size:19 final size:19
Alignment explanation
Indices: 112676--112732 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
112666 TGGTAAGTAG
112676 TTAAAATTTAATTTAAAAT
1 TTAAAATTTAATTTAAAAT
*
112695 TTAAAATTTAAAATT-AAAT
1 TTAAAATTT-AATTTAAAAT
*
112714 TTAAAATTAAATTTAAAAT
1 TTAAAATTTAATTTAAAAT
112733 CAATTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 4 0.12
19 25 0.76
20 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAAATTTAATTTAAAAT
Found at i:112717 original size:6 final size:6
Alignment explanation
Indices: 112679--112730 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
112669 TAAGTAGTTA
* *
112679 AAATTT -AATTT AAAATTT AAAATTT AAAATT AAATTT AAAATT AAATTT
1 AAATTT AAATTT -AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT
112728 AAA
1 AAA
112731 ATCAATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
5 5 0.12
6 23 0.57
7 12 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:113203 original size:22 final size:22
Alignment explanation
Indices: 113173--113217 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
113163 TCTAGACAGC
* *
113173 TAAACTAATCCAAAAAATTAAT
1 TAAAATAATACAAAAAATTAAT
**
113195 TAAAATAATATTAAAAATTAAT
1 TAAAATAATACAAAAAATTAAT
113217 T
1 T
113218 TTATATATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAATACAAAAAATTAAT
Found at i:113756 original size:18 final size:18
Alignment explanation
Indices: 113719--113800 Score: 60
Period size: 18 Copynumber: 4.4 Consensus size: 18
113709 ACATATAATA
* *
113719 TAAATATATTTATTTTTT
1 TAAATATATTTATATATT
*
113737 TAAATTTATTTATATATT
1 TAAATATATTTATATATT
113755 TAAAAAATTATATTT-TATATT
1 T---AAA-TATATTTATATATT
* **
113776 TATATATAAATATATA-T
1 TAAATATATTTATATATT
113793 TAAATATA
1 TAAATATA
113801 ATATTAAGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
17 13 0.25
18 22 0.43
21 10 0.20
22 6 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAATATATTTATATATT
Found at i:113773 original size:21 final size:21
Alignment explanation
Indices: 113738--113777 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
113728 TTATTTTTTT
113738 AAATTTATTTATATATTTAAA
1 AAATTTATTTATATATTTAAA
113759 AAATTATATTT-TATATTTA
1 AAATT-TATTTATATATTTA
113778 TATATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATTTATTTATATATTTAAA
Found at i:114627 original size:24 final size:24
Alignment explanation
Indices: 114591--114636 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
114581 GTGGTTATTT
114591 TTGTTTGTAAAAATTGGTGGCTTG
1 TTGTTTGTAAAAATTGGTGGCTTG
*
114615 TTGTTTGTCAAAATTGGTGGCT
1 TTGTTTGTAAAAATTGGTGGCT
114637 AATTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.46
Consensus pattern (24 bp):
TTGTTTGTAAAAATTGGTGGCTTG
Found at i:114707 original size:13 final size:13
Alignment explanation
Indices: 114689--114735 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
114679 AAGCTCCCTA
114689 ATCCCTCTCTAGT
1 ATCCCTCTCTAGT
*
114702 ATCCCTCT-TAAGC
1 ATCCCTCTCT-AGT
* *
114715 ATCTCTCTCTTGT
1 ATCCCTCTCTAGT
114728 ATCCCTCT
1 ATCCCTCT
114736 TCAATTCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
12 1 0.04
13 25 0.93
14 1 0.04
ACGTcount: A:0.15, C:0.38, G:0.06, T:0.40
Consensus pattern (13 bp):
ATCCCTCTCTAGT
Found at i:118713 original size:13 final size:13
Alignment explanation
Indices: 118695--118720 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
118685 CAATTTTTTG
118695 TGTATCGATACAT
1 TGTATCGATACAT
118708 TGTATCGATACAT
1 TGTATCGATACAT
118721 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:120350 original size:28 final size:28
Alignment explanation
Indices: 120288--120342 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
120278 CAAATGCCAC
*
120288 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGATGGTTT
120316 CCTTTGTATTTGTCAAATATGATGGTT
1 CCTTTGTATTTGTCAAATATGATGGTT
120343 ATTTTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGATGGTTT
Found at i:120462 original size:13 final size:13
Alignment explanation
Indices: 120444--120490 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
120434 AAGCTCCCTA
120444 ATCCCTCTCTAGT
1 ATCCCTCTCTAGT
120457 ATCCCTCT-TAAGT
1 ATCCCTCTCT-AGT
*
120470 ATCCCTCTCTTGT
1 ATCCCTCTCTAGT
120483 ATCCCTCT
1 ATCCCTCT
120491 TCAATTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 1 0.03
13 29 0.94
14 1 0.03
ACGTcount: A:0.15, C:0.38, G:0.06, T:0.40
Consensus pattern (13 bp):
ATCCCTCTCTAGT
Found at i:120818 original size:21 final size:21
Alignment explanation
Indices: 120794--120833 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
120784 TTAATTTTTT
120794 AAATT-TATTTATATATTTAAA
1 AAATTATATTT-TATATTTAAA
120815 AAATTATATTTTATATTTA
1 AAATTATATTTTATATTTA
120834 TATATGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATTATATTTTATATTTAAA
Found at i:125865 original size:32 final size:32
Alignment explanation
Indices: 125829--125892 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
125819 ATTGAGTAAG
125829 AATTTTGCGAAAATGAAATATGAGTTGTAAAA
1 AATTTTGCGAAAATGAAATATGAGTTGTAAAA
*
125861 AATTTTGCGAAAATGAGATATGAGTTGTAAAA
1 AATTTTGCGAAAATGAAATATGAGTTGTAAAA
125893 GTTTTCACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.31
Consensus pattern (32 bp):
AATTTTGCGAAAATGAAATATGAGTTGTAAAA
Found at i:126769 original size:15 final size:14
Alignment explanation
Indices: 126744--126777 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
126734 ATACTTGAAG
126744 ATAATATAGTATAT
1 ATAATATAGTATAT
126758 ATAATATGAGTATAT
1 ATAATAT-AGTATAT
*
126773 TTAAT
1 ATAAT
126778 TTTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (14 bp):
ATAATATAGTATAT
Found at i:126853 original size:13 final size:13
Alignment explanation
Indices: 126837--126868 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
126827 TAATATGTAA
126837 TAAAAATAAATAT
1 TAAAAATAAATAT
*
126850 TAAATATAAATAT
1 TAAAAATAAATAT
126863 TAAAAA
1 TAAAAA
126869 AATTAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAATAAATAT
Found at i:129624 original size:30 final size:30
Alignment explanation
Indices: 129525--129640 Score: 96
Period size: 30 Copynumber: 3.9 Consensus size: 30
129515 ACTTTAACGA
* *
129525 TTTATTTAAATAAGTTCTCT-AC-TTTTA-T
1 TTTATTAAAATAAGTTCT-TAACATTTAACT
* *
129553 TTTAATAAAATAAG-TCTTTAACCTTTAACT
1 TTTATTAAAATAAGTTC-TTAACATTTAACT
** *
129583 TGAATCAAAATAAGTTCTTAACATTTAACT
1 TTTATTAAAATAAGTTCTTAACATTTAACT
* * *
129613 TTTATTTAAATAAGTCCCTAACATTTAA
1 TTTATTAAAATAAGTTCTTAACATTTAA
129641 GTTATATCTA
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
27 3 0.04
28 15 0.22
29 4 0.06
30 45 0.65
31 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (30 bp):
TTTATTAAAATAAGTTCTTAACATTTAACT
Found at i:130692 original size:23 final size:23
Alignment explanation
Indices: 130647--130692 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
130637 TTTACATTTT
* *
130647 TTTATTATATTAATATTATTTAA
1 TTTATAATATTAATATTAATTAA
130670 TTTATAATATTAA-ATTTAATTAA
1 TTTATAATATTAATA-TTAATTAA
130693 AAATTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTATAATATTAATATTAATTAA
Done.