Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold174
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: 2085601
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 15
Found at i:5470 original size:20 final size:19
Alignment explanation
Indices: 5447--5538 Score: 96
Period size: 20 Copynumber: 4.7 Consensus size: 19
5437 CACATCCAGA
*
5447 TGTATCGATACAT-TATGAT
1 TGTATCGATACATGT-TCAT
5466 CTGTATCGATACATGTTCAT
1 -TGTATCGATACATGTTCAT
**
5486 TGTATCGATACATACTCAAT
1 TGTATCGATACATGTTC-AT
**
5506 TGTATCGATACATACTCAAT
1 TGTATCGATACATGTTC-AT
5526 TGTATCGATACAT
1 TGTATCGATACAT
5539 AAATTAGTAG
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 15 0.22
20 51 0.76
21 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:5496 original size:39 final size:41
Alignment explanation
Indices: 5447--5538 Score: 120
Period size: 39 Copynumber: 2.3 Consensus size: 41
5437 CACATCCAGA
* **
5447 TGTATCGATACATTA-T-GATCTGTATCGATACATGTTC-AT
1 TGTATCGATACATTACTCAAT-TGTATCGATACATACTCAAT
5486 TGTATCGATACA-TACTCAATTGTATCGATACATACTCAAT
1 TGTATCGATACATTACTCAATTGTATCGATACATACTCAAT
5526 TGTATCGATACAT
1 TGTATCGATACAT
5539 AAATTAGTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 2 0.04
39 28 0.61
40 16 0.35
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (41 bp):
TGTATCGATACATTACTCAATTGTATCGATACATACTCAAT
Found at i:5539 original size:20 final size:20
Alignment explanation
Indices: 5467--5539 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
5457 CATTATGATC
**
5467 TGTATCGATACATGTTC-AT
1 TGTATCGATACATACTCAAT
5486 TGTATCGATACATACTCAAT
1 TGTATCGATACATACTCAAT
5506 TGTATCGATACATACTCAAT
1 TGTATCGATACATACTCAAT
5526 TGTATCGATACATA
1 TGTATCGATACATA
5540 AATTAGTAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 15 0.29
20 36 0.71
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATACTCAAT
Found at i:7091 original size:2 final size:2
Alignment explanation
Indices: 7086--7117 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7076 ATATATATAT
7086 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7118 GTTTGAAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7363 original size:16 final size:16
Alignment explanation
Indices: 7338--7428 Score: 96
Period size: 16 Copynumber: 5.7 Consensus size: 16
7328 TCCGGATTAG
* *
7338 GTTTAGATTTATTTGA
1 GTTTAAATTTATTTAA
7354 GTTTAAATTTATTTAA
1 GTTTAAATTTATTTAA
*
7370 ATTTAAATTTATTTAA
1 GTTTAAATTTATTTAA
7386 GTTTAAATTT-TTT-A
1 GTTTAAATTTATTTAA
* *
7400 GATTTAGATTTAGATTAA
1 G-TTTAAATTTA-TTTAA
*
7418 TTTTAAATTTA
1 GTTTAAATTTA
7429 AATTTATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
14 2 0.03
15 11 0.17
16 38 0.60
17 11 0.17
18 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
GTTTAAATTTATTTAA
Found at i:7364 original size:6 final size:6
Alignment explanation
Indices: 7355--7434 Score: 59
Period size: 6 Copynumber: 14.7 Consensus size: 6
7345 TTTATTTGAG
*
7355 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TTTAAG TTTAAA TTT---
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
7396 TTTAGA TTTAGA TTTAGA -TTAAT TTTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
7435 TTTTATATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
3 3 0.05
4 8 0.13
5 3 0.05
6 47 0.77
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:7389 original size:32 final size:32
Alignment explanation
Indices: 7339--7428 Score: 119
Period size: 32 Copynumber: 2.8 Consensus size: 32
7329 CCGGATTAGG
*
7339 TTTAGATTTATTTGAGTTTAAATTTATTTAAA
1 TTTAGATTTATTTAAGTTTAAATTTATTTAAA
* *
7371 TTTAAATTTATTTAAGTTTAAATTT-TTTAGA
1 TTTAGATTTATTTAAGTTTAAATTTATTTAAA
* *
7402 TTTAGATTTAGATTAATTTTAAATTTA
1 TTTAGATTTA-TTTAAGTTTAAATTTA
7429 AATTTATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
31 14 0.28
32 36 0.72
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (32 bp):
TTTAGATTTATTTAAGTTTAAATTTATTTAAA
Found at i:7500 original size:37 final size:39
Alignment explanation
Indices: 7417--7496 Score: 94
Period size: 37 Copynumber: 2.1 Consensus size: 39
7407 ATTTAGATTA
* * **
7417 ATTTTAAATTTAAATTTATTTTATATTATTTTTTATTTT
1 ATTTTAAATATAAATTTATTTTATATAATTTAATATTTT
*
7456 ATATTAAATAT-AA-TTATTTTATATAATTTAATA-TTT
1 ATTTTAAATATAAATTTATTTTATATAATTTAATATTTT
7492 ATTTT
1 ATTTT
7497 TAAAAAGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
36 7 0.20
37 17 0.49
38 2 0.06
39 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (39 bp):
ATTTTAAATATAAATTTATTTTATATAATTTAATATTTT
Found at i:7566 original size:19 final size:19
Alignment explanation
Indices: 7526--7567 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7516 TTTTAAGTAA
* *
7526 ATTTTTATTATATTATTAT
1 ATTTTTAATATATTAATAT
7545 ATTTTTAATATATTTAAT-T
1 ATTTTTAATATA-TTAATAT
7564 ATTT
1 ATTT
7568 ATTGAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTAATATATTAATAT
Found at i:7607 original size:20 final size:18
Alignment explanation
Indices: 7580--7618 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
7570 TGAAAACTAT
7580 ATTTA-TATATAAAATTA
1 ATTTATTATATAAAATTA
7597 ATTTATTATATAAAATTA
1 ATTTATTATATAAAATTA
7615 ATTT
1 ATTT
7619 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTATTATATAAAATTA
Found at i:7627 original size:18 final size:18
Alignment explanation
Indices: 7588--7623 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7578 ATATTTATAT
*
7588 ATAAAATTAATTTATTAT
1 ATAAAATTAATTTATTAA
7606 ATAAAATTAATTT-TTAA
1 ATAAAATTAATTTATTAA
7623 A
1 A
7624 ATAATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAAAATTAATTTATTAA
Found at i:8838 original size:16 final size:16
Alignment explanation
Indices: 8817--8901 Score: 55
Period size: 16 Copynumber: 5.3 Consensus size: 16
8807 AAAATTTGAG
8817 TTTTTTTAAGTTTAAA
1 TTTTTTTAAGTTTAAA
* *
8833 TTTTTTTAAATTCAAA
1 TTTTTTTAAGTTTAAA
* * *
8849 -TTATCTCAGATTTAAA
1 TTTTTTTAAG-TTTAAA
* **
8865 TTCTTTCGAGTTTAAA
1 TTTTTTTAAGTTTAAA
** *
8881 TAATTTTAAATTTAAA
1 TTTTTTTAAGTTTAAA
8897 TTTTT
1 TTTTT
8902 AATTTTTAAA
Statistics
Matches: 48, Mismatches: 19, Indels: 4
0.68 0.27 0.06
Matches are distributed among these distances:
15 5 0.10
16 39 0.81
17 4 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (16 bp):
TTTTTTTAAGTTTAAA
Found at i:8906 original size:20 final size:20
Alignment explanation
Indices: 8884--8957 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 20
8874 GTTTAAATAA
8884 TTTTAAATTTAAATTTTTAAT
1 TTTTAAA-TTAAATTTTTAAT
8905 TTTTAAATTAAATTCAATTTAAATTT
1 TTTTAAATTAAATT---TTT-AA--T
8931 TTTTAAA-TAAATTTTTAA-
1 TTTTAAATTAAATTTTTAAT
*
8949 ATTTAAATT
1 TTTTAAATT
8958 TATTTTATCA
Statistics
Matches: 45, Mismatches: 1, Indels: 16
0.73 0.02 0.26
Matches are distributed among these distances:
18 6 0.13
19 1 0.02
20 7 0.16
21 9 0.20
22 3 0.07
23 3 0.07
24 2 0.04
25 6 0.13
26 8 0.18
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTAAATTAAATTTTTAAT
Found at i:8987 original size:2 final size:2
Alignment explanation
Indices: 8980--9008 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8970 TTTAATAATC
8980 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9009 GGGGTTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9671 original size:41 final size:41
Alignment explanation
Indices: 9626--9704 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
9616 ATGAAATTGA
* *
9626 TTTATGATTTTTTA-TTATTTTGATATATTAATTATTAATTT
1 TTTAT-ATTTTATATTTATTTTGATATATTAATAATTAATTT
* *
9667 TTTATATTTTATATTTATTTTTATATATTTATAATTAA
1 TTTATATTTTATATTTATTTTGATATATTAATAATTAA
9705 ATTAAGTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 7 0.21
41 26 0.79
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (41 bp):
TTTATATTTTATATTTATTTTGATATATTAATAATTAATTT
Found at i:9681 original size:20 final size:21
Alignment explanation
Indices: 9632--9704 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 21
9622 TTGATTTATG
* *
9632 ATTTTTTATT-ATTTTGATAT
1 ATTTTATATTAATTTTTATAT
*
9652 A-TTAATTATTAATTTTT-TAT
1 ATTTTA-TATTAATTTTTATAT
*
9672 ATTTTATATTTATTTTTATAT
1 ATTTTATATTAATTTTTATAT
9693 A-TTTATAATTAA
1 ATTTTAT-ATTAA
9705 ATTAAGTCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
19 2 0.05
20 24 0.57
21 16 0.38
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (21 bp):
ATTTTATATTAATTTTTATAT
Found at i:12367 original size:30 final size:30
Alignment explanation
Indices: 12333--12390 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
12323 TTAAAGATAG
12333 TTTTAAAACTAATTAAATTATCATTATTAA
1 TTTTAAAACTAATTAAATTATCATTATTAA
12363 TTTTAAAACTAATTAAATTATCATTATT
1 TTTTAAAACTAATTAAATTATCATTATT
12391 TTATAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTTAAAACTAATTAAATTATCATTATTAA
Found at i:14050 original size:29 final size:32
Alignment explanation
Indices: 13999--14062 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 32
13989 AATTTTTTAA
13999 ATTTTATAAAAATAATTAATTTAATATAAT-TT
1 ATTTTATAAAAATAATTAATTTAA-ATAATGTT
14031 ATTTTA-AAAAATAA-T-ATTTAAATAATGTT
1 ATTTTATAAAAATAATTAATTTAAATAATGTT
14060 ATT
1 ATT
14063 AAACACCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 5 0.16
29 11 0.35
30 1 0.03
31 8 0.26
32 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (32 bp):
ATTTTATAAAAATAATTAATTTAAATAATGTT
Found at i:16575 original size:24 final size:25
Alignment explanation
Indices: 16527--16580 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
16517 CTATTAAAAA
16527 AATTTTAAATAAATATAAATAATTT
1 AATTTTAAATAAATATAAATAATTT
* * * *
16552 TATTTTTAATAATTA-AAATTATTT
1 AATTTTAAATAAATATAAATAATTT
16576 AATTT
1 AATTT
16581 ATTGATAGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
AATTTTAAATAAATATAAATAATTT
Found at i:18669 original size:34 final size:34
Alignment explanation
Indices: 18631--18738 Score: 83
Period size: 34 Copynumber: 3.1 Consensus size: 34
18621 ACACAATGAA
18631 AATATATTGGTTACTAAAGTTATTACATAACAAT
1 AATATATTGGTTACTAAAGTTATTACATAACAAT
* * * * ** ** *
18665 AATATGA-TGGTTGCGAAATTTTTGTACGCAATGAG
1 AATAT-ATTGGTTACTAAAGTTAT-TACATAACAAT
* * *
18700 AATGTATTGGTTATTAAAGCTATTACATAACAAT
1 AATATATTGGTTACTAAAGTTATTACATAACAAT
18734 AATAT
1 AATAT
18739 GATTACGAAT
Statistics
Matches: 49, Mismatches: 22, Indels: 6
0.64 0.29 0.08
Matches are distributed among these distances:
34 28 0.57
35 21 0.43
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (34 bp):
AATATATTGGTTACTAAAGTTATTACATAACAAT
Found at i:18687 original size:69 final size:69
Alignment explanation
Indices: 18576--18741 Score: 251
Period size: 69 Copynumber: 2.4 Consensus size: 69
18566 ATTTTTTAAG
* * *
18576 TAAAGTTACTACATAACAACAATATGATAGTTGCGAAATTTTTTTACACAATGAAAATATATTGG
1 TAAAGTTATTACATAACAATAATATGATAGTTGCGAAATTTTTGTACACAATGAAAATATATTGG
18641 TTAC
66 TTAC
* * * *
18645 TAAAGTTATTACATAACAATAATATGATGGTTGCGAAATTTTTGTACGCAATGAGAATGTATTGG
1 TAAAGTTATTACATAACAATAATATGATAGTTGCGAAATTTTTGTACACAATGAAAATATATTGG
*
18710 TTAT
66 TTAC
*
18714 TAAAGCTATTACATAACAATAATATGAT
1 TAAAGTTATTACATAACAATAATATGAT
18742 TACGAATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 88 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (69 bp):
TAAAGTTATTACATAACAATAATATGATAGTTGCGAAATTTTTGTACACAATGAAAATATATTGG
TTAC
Found at i:21730 original size:23 final size:23
Alignment explanation
Indices: 21704--21747 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
21694 GGAGATATCT
21704 TATAAAAATATAAATTAGTATAG
1 TATAAAAATATAAATTAGTATAG
*
21727 TATAAAAATATAAGTTAGTAT
1 TATAAAAATATAAATTAGTAT
21748 TTTAATGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (23 bp):
TATAAAAATATAAATTAGTATAG
Found at i:22870 original size:21 final size:22
Alignment explanation
Indices: 22826--22870 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
22816 AGCTTCCATA
*
22826 TCACAAATGCCATCCCAAATAAT
1 TCACAAATACCATCCC-AATAAT
22849 TCACAAATACCATCCC-ATAAT
1 TCACAAATACCATCCCAATAAT
22870 T
1 T
22871 AACTATTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
23 15 0.71
ACGTcount: A:0.42, C:0.31, G:0.02, T:0.24
Consensus pattern (22 bp):
TCACAAATACCATCCCAATAAT
Found at i:31837 original size:20 final size:20
Alignment explanation
Indices: 31814--31867 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
31804 ATACATAAGT
*
31814 AAATGTATCTATACGTTTCC
1 AAATGTATCGATACGTTTCC
31834 AAATGTATCGATACGTTTCC
1 AAATGTATCGATACGTTTCC
31854 AAATGTATCGATAC
1 AAATGTATCGATAC
31868 AACTTGCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
AAATGTATCGATACGTTTCC
Found at i:39336 original size:155 final size:156
Alignment explanation
Indices: 38903--39843 Score: 638
Period size: 156 Copynumber: 6.1 Consensus size: 156
38893 TAAGTTTAAG
* * * * * * *
38903 AAAATTACAAAAATACCCCTATGAG-ATACCTTTGACGTAGAAGTATCAGATAC--CCCTAAACG
1 AAAATTACGAAAATGCCCCTA-GGGTATACCTTCGACGTAAAAGTATCACA-ACAACCCTAAAAG
* * * * *
38965 ACTTAAAAAAGACTATAAAATGGATGAACCTATCCCAAATACCCACCTTTGGCATAAAAGTGGGC
64 ACTT-AAAAAGACTAGAAAAAGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGAC
* * *
39030 C-C-AGTTATAACCTAGGACTCGATTATAA
128 CTCGA-TGATAACCTAGGACTTGATTCTAA
* * * * * ** * ** * *
39058 AAAATTACAAAAATACCCTTAGGGGATACTTTTAACGTGAAAA-TATCTCAGTACCCCTAAAAAA
1 AAAATTACGAAAATGCCCCTAGGGTATACCTTCGACGT-AAAAGTATCACAACAACCCTAAAAGA
* * * * *
39122 CTTTAAAAGGATTATAAAAAGGGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACC
65 C-TTAAAAAGACTAGAAAAAGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACC
* *
39187 T-GATAATAACCTAGGACTTGATTCTGA
129 TCGATGATAACCTAGGACTTGATTCTAA
* ** *
39214 AAAATTATGAAAATGCCTTTATGGTATACCTTCGACGTAAAAGTATCACAACAACCCTAAAAGAC
1 AAAATTACGAAAATGCCCCTAGGGTATACCTTCGACGTAAAAGTATCACAACAACCCTAAAAGAC
* * * * * *
39279 TTAAAAAGATTAGAAAAATGATGAACCTATTCTAAATACCTACCTTTGACATAAAAGCAGA-CTC
66 TTAAAAAGACTAGAAAAAGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCTC
* * *
39343 GGTGATGACCTAGGAGTT-AGTTCTAA
131 GATGATAACCTAGGACTTGA-TTCTAA
* * * * *
39369 AAAATTACGAAAATGCTCCTACGGGTATACTTTCGACGTAAAAGTATCCCGACAA-CCTTAAAGC
1 AAAATTACGAAAATGCCCCTA-GGGTATACCTTCGACGTAAAAGTATCACAACAACCCTAAAAG-
* * ** * * ** *
39433 ATTTAAAAAGACTAGAGATGGGATAAACCTATCCTAAATGCTGACCTTTGGCATAAAAGCAGA-C
64 ACTTAAAAAGACTAGAAAAAGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACC
* * ** * *
39497 TCGGTGACAACCTAAAAGTTGGTTCTAA
129 TCGATGATAACCTAGGACTTGATTCTAA
* * * * *
39525 AAAATTACGAAAATGCCCCTACGAGTATACCTTCAACATAAAAGTATC-CAGCAACTCTAAAAGA
1 AAAATTACGAAAATGCCCCTA-GGGTATACCTTCGACGTAAAAGTATCACAACAACCCTAAAAGA
* * ** * * *
39589 CTTAAAAAGGCTAGAGATGGGATGAACCTATCTTAAATGCCCACCTTCGGCATAAAAGCGGACC-
65 CTTAAAAAGACTAGAAAAAGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCT
* * * * ** * *
39653 CGGTGACAACCAAAGACTCAATTTTAG
130 CGATGATAACCTAGGACTTGATTCTAA
** * *
39680 AAAATTA-GAAAAATGCCCCTATGGGTATA----C--C-T---AGTATC-CTGGCAACCTTAAAG
1 AAAATTACG-AAAATGCCCCTA-GGGTATACCTTCGACGTAAAAGTATCAC-AACAACCCTAAAA
* ** * * * * *
39733 GACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACATTCGGCATAAAAGTGAAC
63 GACTTAAAAAGACTAGAAAAAGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGAC
* * * * *
39798 C-CAATGACAACCTAAGAGTTGATTCTAT
128 CTCGATGATAACCTAGGACTTGATTCTAA
*
39826 AAAATTACAAAAATGCCC
1 AAAATTACGAAAATGCCC
39844 TTAAAGAATA
Statistics
Matches: 646, Mismatches: 122, Indels: 45
0.79 0.15 0.06
Matches are distributed among these distances:
145 7 0.01
146 105 0.16
148 1 0.00
149 1 0.00
151 1 0.00
154 6 0.01
155 238 0.37
156 284 0.44
157 3 0.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (156 bp):
AAAATTACGAAAATGCCCCTAGGGTATACCTTCGACGTAAAAGTATCACAACAACCCTAAAAGAC
TTAAAAAGACTAGAAAAAGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCTC
GATGATAACCTAGGACTTGATTCTAA
Found at i:39466 original size:311 final size:301
Alignment explanation
Indices: 39147--39843 Score: 702
Period size: 311 Copynumber: 2.3 Consensus size: 301
39137 AAAAAGGGTG
* * * **
39147 AACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGAC-CTGATAATAACCTAGGACTTGATTC
1 AACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACTC-GATAACAACCTAAAACTTGATTC
* * ** * * *
39211 TGAAAAATTATGAAAATGCCTTTATG-GTATACCTTCGACGTAAAAGTATCACAACAACCCTAAA
65 TAAAAAATTACGAAAATGCCCCTACGAGTATACCTTCAACATAAAAGTATC-CAACAACCCTAAA
* * * *
39275 AGACTTAAAAAGATTAGAAAAATGATGAACCTAT-TCTAAATACCTACCTTTGACATAAAAGCAG
129 AGACTTAAAAAGACTAGAAAAAGGATGAACCTATCT-TAAATACCCACCTTCGACATAAAAGCAG
* ** * * * * * *
39339 ACTCGGTGATGACCTAGGAGTTAGTTCTAAAAAATTACG-AAAATGCTCCTACGGGTATACTTTC
193 ACCCGGTGACAACCAAAGACTCAATTCTAAAAAATTA-GAAAAATGCCCCTACGGGTATA----C
*
39403 GACGTAAAAGTATCCCGACAACCTTAAAGCATTTAAAAAGACTAGAGATGGGATA
253 --C-T---AGTATCCCGACAACCTTAAAGCACTTAAAAAGACTAGAGATGGGATA
** * * * * *
39458 AACCTATCCTAAATGCTGACCTTTGGCATAAAAGCAGACTCGGTGACAACCTAAAAGTTGGTTCT
1 AACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACTCGATAACAACCTAAAACTTGATTCT
* *
39523 AAAAAATTACGAAAATGCCCCTACGAGTATACCTTCAACATAAAAGTATCCAGCAACTCTAAAAG
66 AAAAAATTACGAAAATGCCCCTACGAGTATACCTTCAACATAAAAGTATCCAACAACCCTAAAAG
* * ** * * *
39588 ACTTAAAAAGGCTAGAGATGGGATGAACCTATCTTAAATGCCCACCTTCGGCATAAAAGCGGACC
131 ACTTAAAAAGACTAGAAAAAGGATGAACCTATCTTAAATACCCACCTTCGACATAAAAGCAGACC
* * *
39653 CGGTGACAACCAAAGACTCAATTTTAGAAAATTAGAAAAATGCCCCTATGGGTATACCTAGTATC
196 CGGTGACAACCAAAGACTCAATTCTAAAAAATTAGAAAAATGCCCCTACGGGTATACCTAGTATC
* * * *
39718 CTGGCAACCTTAAAGGACTTAAAAAGACTAGAGATGGGATG
261 CCGACAACCTTAAAGCACTTAAAAAGACTAGAGATGGGATA
* * * * * * *
39759 AACCTATCCTAAATGCCCACATTCGGCATAAAAG-TGAACCCAATGACAACCTAAGAGTTGATTC
1 AACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAG-ACTCGATAACAACCTAAAACTTGATTC
* *
39823 TATAAAATTACAAAAATGCCC
65 TAAAAAATTACGAAAATGCCC
39844 TTAAAGAATA
Statistics
Matches: 320, Mismatches: 61, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
300 1 0.00
301 113 0.35
304 1 0.00
305 1 0.00
307 1 0.00
310 1 0.00
311 178 0.56
312 24 0.08
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (301 bp):
AACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACTCGATAACAACCTAAAACTTGATTCT
AAAAAATTACGAAAATGCCCCTACGAGTATACCTTCAACATAAAAGTATCCAACAACCCTAAAAG
ACTTAAAAAGACTAGAAAAAGGATGAACCTATCTTAAATACCCACCTTCGACATAAAAGCAGACC
CGGTGACAACCAAAGACTCAATTCTAAAAAATTAGAAAAATGCCCCTACGGGTATACCTAGTATC
CCGACAACCTTAAAGCACTTAAAAAGACTAGAGATGGGATA
Found at i:41176 original size:12 final size:12
Alignment explanation
Indices: 41159--41188 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41149 TAATTTTGTC
*
41159 TTTTTTCTTTCT
1 TTTTTTCTCTCT
41171 TTTTTTCTCTCT
1 TTTTTTCTCTCT
41183 TTTTTT
1 TTTTTT
41189 TTCCAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:41485 original size:14 final size:12
Alignment explanation
Indices: 41466--41534 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 12
41456 TATTATTTGT
41466 AAAATTATATCATA
1 AAAATTA-AT-ATA
41480 AAAATTAATA-A
1 AAAATTAATATA
41491 AAATATTAAATTATA
1 AAA-ATT-AA-TATA
*
41506 AAAATTAAAATTTA
1 AAAATT--AATATA
*
41520 AAAATTAAGATA
1 AAAATTAATATA
41532 AAA
1 AAA
41535 TTTATATGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
11 4 0.09
12 11 0.23
13 4 0.09
14 21 0.45
15 7 0.15
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:41508 original size:16 final size:15
Alignment explanation
Indices: 41480--41527 Score: 62
Period size: 14 Copynumber: 3.1 Consensus size: 15
41470 TTATATCATA
41480 AAAATTAATAAAAATAT
1 AAAATT-ATAAAAAT-T
*
41497 TAAATTATAAAAATT
1 AAAATTATAAAAATT
41512 AAAATT-TAAAAATT
1 AAAATTATAAAAATT
41526 AA
1 AA
41528 GATAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.34
15 6 0.21
16 8 0.28
17 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTATAAAAATT
Found at i:44028 original size:52 final size:52
Alignment explanation
Indices: 43907--44119 Score: 164
Period size: 52 Copynumber: 4.1 Consensus size: 52
43897 TGTATATTTG
* *
43907 GTCACTCTAAATCTGACCGCCAC-A-ATGACACCACAACTTTAAGTGACAGCAA
1 GTCACTCTAAATCTGATCACCACTACA-G-CACCACAACTTTAAGTGACAGCAA
* *
43959 GTCACTCTAAATCTGATCGCCACTACAGCACCATAACTTTAAGTGACA-CTAA
1 GTCACTCTAAATCTGATCACCACTACAGCACCACAACTTTAAGTGACAGC-AA
* * * * ** * * * *
44011 GTCACTCTGATTTTGATCACCACCATGGCATCACAAATTTAAGAGA-TGCCAA
1 GTCACTCTAAATCTGATCACCACTACAGCACCACAACTTTAAGTGACAG-CAA
* * * ** * * *
44063 GTCACTCTAAATGTGATCACTATTATGGCATCACAACTTTAAGCGACACCAA
1 GTCACTCTAAATCTGATCACCACTACAGCACCACAACTTTAAGTGACAGCAA
44115 GTCAC
1 GTCAC
44120 CCGATTCTAA
Statistics
Matches: 131, Mismatches: 24, Indels: 12
0.78 0.14 0.07
Matches are distributed among these distances:
51 1 0.01
52 126 0.96
53 3 0.02
54 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (52 bp):
GTCACTCTAAATCTGATCACCACTACAGCACCACAACTTTAAGTGACAGCAA
Found at i:44656 original size:30 final size:30
Alignment explanation
Indices: 44636--44692 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
44626 TTCTCGGTAG
*
44636 CTACCCCCTCAGTGGCAGCTTCCCCCATAA
1 CTACCCCCTCAGTGGCAGCTTTCCCCATAA
* *
44666 CTGCCCCCTCAGTGGCAGCTTTTCCCA
1 CTACCCCCTCAGTGGCAGCTTTCCCCA
44693 CTGTTACCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.46, G:0.16, T:0.23
Consensus pattern (30 bp):
CTACCCCCTCAGTGGCAGCTTTCCCCATAA
Found at i:48537 original size:22 final size:22
Alignment explanation
Indices: 48512--48563 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
48502 TATATTTATT
*
48512 TAAAAAAT-ATAAATAAATTAAA
1 TAAAAAATAAT-AATAAAGTAAA
**
48534 TAAATTATAATAATAAAGTAAA
1 TAAAAAATAATAATAAAGTAAA
48556 TAATAAAA
1 TAA-AAAA
48564 ATATTCATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAAAATAATAATAAAGTAAA
Found at i:51243 original size:5 final size:5
Alignment explanation
Indices: 51233--51268 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
51223 TGTTGACAAA
*
51233 AAAAC AAAAC AAAAC AAAAC AAAAA AAAAGC AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAA-C AAAAC
51269 GAGAGTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.81, C:0.17, G:0.03, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:51613 original size:30 final size:30
Alignment explanation
Indices: 51557--51613 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
51547 CCGAATGATT
**
51557 ATTTAATAATTAAAATATATTTATATTTAA
1 ATTTAATAATTAAAATATATAAATATTTAA
*
51587 ATTTAATTA-TAAAATTATATAAATATT
1 ATTTAATAATTAAAA-TATATAAATATT
51614 AATATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.22
30 18 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTTAATAATTAAAATATATAAATATTTAA
Found at i:52510 original size:10 final size:10
Alignment explanation
Indices: 52497--52530 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
52487 TTTAAAAAAT
52497 AAAAAAATAA
1 AAAAAAATAA
*
52507 AAAAACATAA
1 AAAAAAATAA
*
52517 AATAAAATAA
1 AAAAAAATAA
52527 AAAA
1 AAAA
52531 GTAAAACTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:52535 original size:18 final size:16
Alignment explanation
Indices: 52489--52536 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
52479 ATTAAGTATT
52489 TAAAAAATAAAAAAATA
1 TAAAAAATAAAAAAA-A
*
52506 AAAAAACATAAAATAAAA
1 TAAAAA-ATAAAA-AAAA
52524 TAAAAAAGTAAAA
1 TAAAAAA-TAAAA
52537 CTGTCAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.23
18 17 0.65
19 3 0.12
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (16 bp):
TAAAAAATAAAAAAAA
Found at i:53020 original size:13 final size:13
Alignment explanation
Indices: 53004--53062 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
52994 ATAGCAAAGA
53004 AAAAAAGAAAGGG
1 AAAAAAGAAAGGG
**
53017 AAAAAA-AAATTTG
1 AAAAAAGAAA-GGG
*
53030 AAAAATAGCAAA-GA
1 AAAAA-AG-AAAGGG
53044 AAAAAAGAAAGGG
1 AAAAAAGAAAGGG
53057 AAAAAA
1 AAAAAA
53063 AATGAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
12 6 0.17
13 21 0.58
14 6 0.17
16 3 0.08
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.07
Consensus pattern (13 bp):
AAAAAAGAAAGGG
Found at i:53044 original size:40 final size:40
Alignment explanation
Indices: 52989--53064 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
52979 GTCGAATTCA
52989 GAAAAATAGCAAAGAAAAAAAGAAAGGGAAAAAAAAATTT
1 GAAAAATAGCAAAGAAAAAAAGAAAGGGAAAAAAAAATTT
53029 GAAAAATAGCAAAGAAAAAAAGAAAGGGAAAAAAAA
1 GAAAAATAGCAAAGAAAAAAAGAAAGGGAAAAAAAA
53065 TGAAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.07
Consensus pattern (40 bp):
GAAAAATAGCAAAGAAAAAAAGAAAGGGAAAAAAAAATTT
Found at i:53074 original size:40 final size:40
Alignment explanation
Indices: 52990--53074 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
52980 TCGAATTCAG
***
52990 AAAAATAGCAAAGAAAAAAAGAAAGGGAAAAAAAAATTTG
1 AAAAATAGCAAAGAAAAAAAGAAAGGGAAAAAAAAATAAA
53030 AAAAATAGCAAAGAAAAAAAGAAAGGG-AAAAAAAATGAAA
1 AAAAATAGCAAAGAAAAAAAGAAAGGGAAAAAAAAAT-AAA
53070 AAAAA
1 AAAAA
53075 AAAAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 9 0.22
40 32 0.78
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.07
Consensus pattern (40 bp):
AAAAATAGCAAAGAAAAAAAGAAAGGGAAAAAAAAATAAA
Found at i:53083 original size:40 final size:40
Alignment explanation
Indices: 52999--53083 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
52989 GAAAAATAGC
*** * **
52999 AAAGAAAAAAAGAAAGGGAAAAAAAAATTTGAAAAATAGC
1 AAAGAAAAAAAGAAAGGGAAAAAAAAATAAAAAAAAAAAA
53039 AAAGAAAAAAAGAAAGGG-AAAAAAAATGAAAAAAAAAAAA
1 AAAGAAAAAAAGAAAGGGAAAAAAAAAT-AAAAAAAAAAAA
53079 AAAGA
1 AAAGA
53084 GAGAAATGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 9 0.24
40 29 0.76
ACGTcount: A:0.76, C:0.01, G:0.16, T:0.06
Consensus pattern (40 bp):
AAAGAAAAAAAGAAAGGGAAAAAAAAATAAAAAAAAAAAA
Found at i:53363 original size:6 final size:6
Alignment explanation
Indices: 53352--53390 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
53342 TTGGATGATA
53352 TTATTT TTA-TT TTA-TT TTA-TT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
53391 AATATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 15 0.47
6 17 0.53
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:53366 original size:5 final size:5
Alignment explanation
Indices: 53356--53390 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
53346 ATGATATTAT
53356 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA TTT
53391 AATATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:54055 original size:108 final size:107
Alignment explanation
Indices: 53904--54282 Score: 289
Period size: 108 Copynumber: 3.5 Consensus size: 107
53894 ATTGCATAGT
* * * *
53904 ATTCGGGCACCAAAAGATTGGTCTCGAAATA-AGTCATTGTCTAGAGTCATAAAGTGATATATGA
1 ATTCGGGCACCAAAAGATT-GACTCGAAATAGA-TCATTATCTAGAGTCATAAAGTGACATACGA
* * *
53968 ATATCT-TTTATATAGGA-TATTTCATTTTTACATTAATCACGTAG
64 A-AGCTCTTTATATAGGACAATTT-ATTTTTACATTAATCACGTAA
* * * * * *
54012 ATTCGGGCACCAAAAGATTAACATCGAAATAGATAATTTTCTAGAGTCGTAAAGTGGCGTACGAA
1 ATTCGGGCACCAAAAGATTGAC-TCGAAATAGATCATTATCTAGAGTCATAAAGTGACATACGAA
* * *
54077 CGCTCTTTATATAGGACAATTTATTTTTGCATTAATTACGTAA
65 AGCTCTTTATATAGGACAATTTATTTTTACATTAATCACGTAA
* * * * ** * * *
54120 ATTCGAGTATCAAAAGATTGACCCCGAAATAGATCATTATCTAGAGTTGTAAAATGGCGTAC-AA
1 ATTCGGGCACCAAAAGATTGA-CTCGAAATAGATCATTATCTAGAGTCATAAAGTGACATACGAA
* ** ** * *
54184 ACGCTCTTTATATAAGTTAATTTCACTTTTTGTATTAATTACGTAT
65 A-GCTCTTTATATAGGACAATTT-A-TTTTTACATTAATCACGTAA
** * * * * *
54230 ATTCGAACACTAAAAGATTGGCTTCGAAATAGGTCATTGTCTAGAGTAATAAA
1 ATTCGGGCACCAAAAGATTGAC-TCGAAATAGATCATTATCTAGAGTCATAAA
54283 ATCGTATACG
Statistics
Matches: 222, Mismatches: 40, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
107 5 0.02
108 150 0.68
109 8 0.04
110 59 0.27
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (107 bp):
ATTCGGGCACCAAAAGATTGACTCGAAATAGATCATTATCTAGAGTCATAAAGTGACATACGAAA
GCTCTTTATATAGGACAATTTATTTTTACATTAATCACGTAA
Found at i:54261 original size:110 final size:109
Alignment explanation
Indices: 53974--54316 Score: 361
Period size: 108 Copynumber: 3.2 Consensus size: 109
53964 ATGAATATCT
* * * * * * *
53974 TTTATATAGGAT-ATTTCATTTTTACATTAATCACGTAGATTCGGGCACCAAAAGATTAACATCG
1 TTTATATAAGATAATTTCATTTTTGCATTAATTACGTAAATTCGAGCACTAAAAGATTGACATCG
* * * *
54038 AAATAGATAATTTTCTAGAGTCGTAAAGTGGCGTACGAACGCTC
66 AAATAGATCATTATCTAGAGTAGTAAAATGGCGTACGAACGCTC
* * * **
54082 TTTATATAGGACAATTT-ATTTTTGCATTAATTACGTAAATTCGAGTA-TCAAAAGATTGACCCC
1 TTTATATAAGATAATTTCATTTTTGCATTAATTACGTAAATTCGAGCACT-AAAAGATTGACATC
* *
54145 GAAATAGATCATTATCTAGAGTTGTAAAATGGCGTACAAACGCTC
65 GAAATAGATCATTATCTAGAGTAGTAAAATGGCGTACGAACGCTC
* * * * * *
54190 TTTATATAAGTTAATTTCACTTTTTGTATTAATTACGTATATTCGAACACTAAAAGATTGGCTTC
1 TTTATATAAGATAATTTCA-TTTTTGCATTAATTACGTAAATTCGAGCACTAAAAGATTGACATC
* * * * **
54255 GAAATAGGTCATTGTCTAGAGTAATAAAATCGTATACGAACGC-C
65 GAAATAGATCATTATCTAGAGTAGTAAAATGGCGTACGAACGCTC
54299 TTTTATATAAGATAATTT
1 -TTTATATAAGATAATTT
54317 TTTTGTATAA
Statistics
Matches: 195, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
108 101 0.52
109 6 0.03
110 87 0.45
111 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (109 bp):
TTTATATAAGATAATTTCATTTTTGCATTAATTACGTAAATTCGAGCACTAAAAGATTGACATCG
AAATAGATCATTATCTAGAGTAGTAAAATGGCGTACGAACGCTC
Found at i:55895 original size:15 final size:16
Alignment explanation
Indices: 55868--56035 Score: 65
Period size: 16 Copynumber: 10.8 Consensus size: 16
55858 TTTATTTATA
55868 TTTAAATTAAATTAAT
1 TTTAAATTAAATTAAT
*
55884 TTTAAATT-AATTTAT
1 TTTAAATTAAATTAAT
*
55899 TTTAATATGTAAAATAAT
1 TTTAA-AT-TAAATTAAT
*
55917 ATTAAA--AAATT-A-
1 TTTAAATTAAATTAAT
*
55929 TTT---TTAAGTT-AT
1 TTTAAATTAAATTAAT
* *
55941 TTTATA-T-AATTAAA
1 TTTAAATTAAATTAAT
* *
55955 TTTAAATAAAAATAAT
1 TTTAAATTAAATTAAT
55971 TTTATAATTTAAATT-AT
1 TTTA-AA-TTAAATTAAT
*
55988 TTTAAATTTAAAAATTTAT
1 TTTAAA-TT--AAATTAAT
*
56007 ATTTAAATTTAATTCAA-
1 -TTTAAATTAAATT-AAT
*
56024 TATAAATTAAAT
1 TTTAAATTAAAT
56036 ATTTAATTCA
Statistics
Matches: 114, Mismatches: 19, Indels: 38
0.67 0.11 0.22
Matches are distributed among these distances:
11 5 0.04
12 5 0.04
13 4 0.04
14 11 0.10
15 11 0.10
16 34 0.30
17 14 0.12
18 20 0.18
19 4 0.04
20 6 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
TTTAAATTAAATTAAT
Found at i:56041 original size:23 final size:23
Alignment explanation
Indices: 56013--56056 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
56003 TTATATTTAA
*
56013 ATTTAATTCAATATAAATTAAAT
1 ATTTAATTCAATAAAAATTAAAT
56036 ATTTAATTCAATAAAAATTAA
1 ATTTAATTCAATAAAAATTAA
56057 CTCACTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTTAATTCAATAAAAATTAAAT
Found at i:56831 original size:5 final size:5
Alignment explanation
Indices: 56821--56945 Score: 70
Period size: 5 Copynumber: 25.4 Consensus size: 5
56811 AAATTATTAA
* *
56821 AATAT AATAT AATAT AATATT AATAT ATACATT AATATT TATAT AATAT
1 AATAT AATAT AATAT AATA-T AATAT A-ATA-T AATA-T AATAT AATAT
* * * *
56870 AA-AT TAT-T AATAT ATTAA AAT-T AAAAT AATA- ATATAAT AATAT AATA-
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT A-AT-AT AATAT AATAT
56917 AA-AT -ATAT AATTAT AATAT AA-AT -ATAT AA
1 AATAT AATAT AA-TAT AATAT AATAT AATAT AA
56946 ATTATTAGAT
Statistics
Matches: 93, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
3 3 0.03
4 17 0.18
5 48 0.52
6 22 0.24
7 3 0.03
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:56841 original size:23 final size:23
Alignment explanation
Indices: 56797--56945 Score: 71
Period size: 23 Copynumber: 6.3 Consensus size: 23
56787 GTGATGATAT
* *
56797 AAATATAATCT-ATAAAATTATTA
1 AAATATAATATAATATAA-TATTA
56820 AAATATAATATAATATAATATTA
1 AAATATAATATAATATAATATTA
* *
56843 ATATATACAT-TAATAT-TTA-TA
1 AAATATA-ATATAATATAATATTA
* *
56864 TAATATAA-ATTAT-TAATATATTA
1 AAATATAATATAATAT-A-ATATTA
*
56887 AAATTAAAATAATAATATAATAATATA
1 AAA-TATAAT-ATAATATAAT-AT-TA
*
56914 ATAAAAT-ATATAATTATAATA-TA
1 A-AATATAATATAA-TATAATATTA
56937 AATATATAA
1 AA-ATATAA
56946 ATTATTAGAT
Statistics
Matches: 95, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
19 1 0.01
20 4 0.04
21 7 0.07
22 5 0.05
23 37 0.39
24 12 0.13
25 7 0.07
26 15 0.16
27 5 0.05
28 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATAATATAATATAATATTA
Found at i:56856 original size:18 final size:18
Alignment explanation
Indices: 56835--56884 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
56825 TAATATAATA
56835 TAATATTAATATATACAT
1 TAATATTAATATATACAT
* *
56853 TAATATTTATATA-ATAT
1 TAATATTAATATATACAT
*
56870 AAATTATTAATATAT
1 TAA-TATTAATATAT
56885 TAAAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATATTAATATATACAT
Found at i:56887 original size:8 final size:8
Alignment explanation
Indices: 56815--56952 Score: 53
Period size: 8 Copynumber: 17.6 Consensus size: 8
56805 TCTATAAAAT
*
56815 TATTAAAA
1 TATTAATA
56823 TA-TAATA
1 TATTAATA
56830 TAATATAATA
1 T-AT-TAATA
*
56840 TTAATATATA
1 -TATTA-ATA
*
56850 CATTAATA
1 TATTAATA
56858 T-TTATATAA
1 TATTA-AT-A
*
56867 TATAAAT-
1 TATTAATA
56874 TATTAATA
1 TATTAATA
56882 TATTAA-A
1 TATTAATA
*
56889 -ATTAAAA
1 TATTAATA
*
56896 TAATAATA
1 TATTAATA
*
56904 TAATAATA
1 TATTAATA
* *
56912 TAATAAAA
1 TATTAATA
56920 TATATAAT-
1 TAT-TAATA
56928 TA-TAATA
1 TATTAATA
56935 TA--AATA
1 TATTAATA
*
56941 TATAAAT-
1 TATTAATA
56948 TATTA
1 TATTA
56953 GATTTTCTGT
Statistics
Matches: 102, Mismatches: 13, Indels: 31
0.70 0.09 0.21
Matches are distributed among these distances:
6 15 0.15
7 22 0.22
8 41 0.40
9 12 0.12
10 11 0.11
11 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (8 bp):
TATTAATA
Found at i:57291 original size:18 final size:20
Alignment explanation
Indices: 57253--57290 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57243 AATTATAATC
*
57253 TTTTAAAATTATATTAAAAA
1 TTTTAAAACTATATTAAAAA
57273 TTTTAAAACTAT-TTAAAA
1 TTTTAAAACTATATTAAAA
57291 TATTAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTAAAACTATATTAAAAA
Found at i:60772 original size:7 final size:6
Alignment explanation
Indices: 60744--60768 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
60734 TAATATTTAA
60744 TAAATT TAAATT TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
60769 TAAAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:62158 original size:34 final size:33
Alignment explanation
Indices: 62114--62177 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
62104 ATGTTGGGAT
* *
62114 TTAAGTTTTAAATATATTAAATTAATTAATTAAA
1 TTAAATTTTAAATATATTAAAATAA-TAATTAAA
* *
62148 TTAAATTTTAAATTTTTTAAAATAATAATT
1 TTAAATTTTAAATATATTAAAATAATAATT
62178 TAATAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 5 0.19
34 21 0.81
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (33 bp):
TTAAATTTTAAATATATTAAAATAATAATTAAA
Found at i:62785 original size:33 final size:35
Alignment explanation
Indices: 62743--62818 Score: 129
Period size: 33 Copynumber: 2.2 Consensus size: 35
62733 GTTTGTCCAA
62743 TTAGGTTTAAATTATTGTTTCTTT-CG-ATTTCAT
1 TTAGGTTTAAATTATTGTTTCTTTCCGAATTTCAT
*
62776 TTAGGTTTAAATTGTTGTTTCTTTCCGAATTTCAT
1 TTAGGTTTAAATTATTGTTTCTTTCCGAATTTCAT
62811 TTAGGTTT
1 TTAGGTTT
62819 GTTTGGTGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 23 0.57
34 2 0.05
35 15 0.38
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (35 bp):
TTAGGTTTAAATTATTGTTTCTTTCCGAATTTCAT
Found at i:63211 original size:11 final size:11
Alignment explanation
Indices: 63191--63245 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
63181 TATTATAAAA
63191 ATATTATAAATT
1 ATATT-TAAATT
*
63203 ATTTTTAAATT
1 ATATTTAAATT
*
63214 AATATTTATA-T
1 -ATATTTAAATT
*
63225 ATATTAAAATT
1 ATATTTAAATT
63236 ATATTTAAAT
1 ATATTTAAAT
63246 AAAAAAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
10 7 0.20
11 17 0.49
12 11 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATATTTAAATT
Found at i:63259 original size:19 final size:19
Alignment explanation
Indices: 63237--63282 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
63227 ATTAAAATTA
63237 TATTTAAATAAAAAAATAT
1 TATTTAAATAAAAAAATAT
* **
63256 TATTTTAATTTAAAAATAT
1 TATTTAAATAAAAAAATAT
63275 TATTTAAA
1 TATTTAAA
63283 GTCATATAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTTAAATAAAAAAATAT
Found at i:63484 original size:15 final size:15
Alignment explanation
Indices: 63443--63483 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
63433 AATTGAACGA
* *
63443 TATATAATATAATAT
1 TATATTATAAAATAT
63458 TATATTATAAAATAT
1 TATATTATAAAATAT
63473 T-TATTATAAAA
1 TATATTATAAAA
63484 ACTAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TATATTATAAAATAT
Found at i:64292 original size:15 final size:15
Alignment explanation
Indices: 64272--64301 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
64262 TAATATTTAA
64272 TTAAGTTTAAAAAAT
1 TTAAGTTTAAAAAAT
64287 TTAAGTTTAAAAAAT
1 TTAAGTTTAAAAAAT
64302 AATCAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
TTAAGTTTAAAAAAT
Found at i:64831 original size:29 final size:29
Alignment explanation
Indices: 64802--64884 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 29
64792 TTAATTAAAT
64802 ATTATTTTTATTTTATTAAAAATAATAATA
1 ATTATTTTTATTTTATTAAAAAT-ATAATA
64832 ATAAATACTTTTTATTTT-TTAAAAATATAATA
1 AT---TA-TTTTTATTTTATTAAAAATATAATA
*
64864 ATTAATATTTTAATTTATTAA
1 ATT-AT-TTTTATTTTATTAA
64885 CATAAATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
29 2 0.04
30 11 0.24
31 4 0.09
32 8 0.18
33 10 0.22
34 10 0.22
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
ATTATTTTTATTTTATTAAAAATATAATA
Found at i:64881 original size:35 final size:34
Alignment explanation
Indices: 64806--64884 Score: 112
Period size: 32 Copynumber: 2.4 Consensus size: 34
64796 TTAAATATTA
64806 TTTTTATTTTATTAAAAATAATAATAATAAATAC
1 TTTTTATTTTATTAAAAATAATAATAATAAATAC
*
64840 TTTTTATTTT-TTAAAAAT-ATAATAATTAATA-
1 TTTTTATTTTATTAAAAATAATAATAATAAATAC
*
64871 -TTTTAATTTATTAA
1 TTTTTATTTTATTAA
64885 CATAAATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 8 0.19
31 4 0.10
32 12 0.29
33 8 0.19
34 10 0.24
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (34 bp):
TTTTTATTTTATTAAAAATAATAATAATAAATAC
Found at i:64910 original size:109 final size:108
Alignment explanation
Indices: 64761--64962 Score: 300
Period size: 110 Copynumber: 1.9 Consensus size: 108
64751 AAATTTTATT
* ** *
64761 TTTTAATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATTATTTTT-ATTTTATTAAAAAT
1 TTTTAATTTATTAACATAAATTTTTTAAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAT
* *
64825 AATAATAATAAATACTTTTTATTTTTTAAAAATATAATAATTAATA
66 AATAATAA-AAA-ACCTTTT-TTATTTAAAAATATAATAATTAATA
64871 TTTTAATTTATTAACATAAATTTTTT-AAACTTAATTAAATATTATTTTTAATTTTATTAAAAAT
1 TTTTAATTTATTAACATAAATTTTTTAAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAT
*
64935 TATAATAAAAAACCTTTTTTATTTAAAA
66 AATAATAAAAAACCTTTTTTATTTAAAA
64963 TATTTTTATT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
107 9 0.11
108 6 0.07
109 25 0.30
110 44 0.52
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (108 bp):
TTTTAATTTATTAACATAAATTTTTTAAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAT
AATAATAAAAAACCTTTTTTATTTAAAAATATAATAATTAATA
Found at i:64918 original size:22 final size:22
Alignment explanation
Indices: 64888--64937 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
64878 TTATTAACAT
64888 AAATT-TTTTAAACTTAATTAA
1 AAATTATTTTAAACTTAATTAA
* * * *
64909 ATATTATTTTTAATTTTATTAA
1 AAATTATTTTAAACTTAATTAA
64931 AAATTAT
1 AAATTAT
64938 AATAAAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
AAATTATTTTAAACTTAATTAA
Found at i:64995 original size:126 final size:123
Alignment explanation
Indices: 64833--65166 Score: 437
Period size: 126 Copynumber: 2.7 Consensus size: 123
64823 ATAATAATAA
*
64833 TAAATACTTTTTATTTTTTAAAAATATAATAATTAATATTTTAATTTATTAACATAAATTTTTTA
1 TAAATA-TTTTTATTTTTTAAAAA-ATAATAATTAATATTTTAATTTGTTAAC-TAAATTTTTTA
*
64898 AACTTAATTAAATATTATTTTTAATTTTATT-AAAAATTATAATAAAAAACCTTTTTTATT
63 AACTTAATTAAATATTATTTTTAATTTTATTAAAAAATAATAATAAAAAACCTTTTTTATT
*
64958 TAAAATATTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATCTAATTTTTTT
1 T-AAATATTTTTATTTTT-TAAAAA-ATAATAATTAATATTTTAATTTGTTAA-CTAAATTTTTT
* * *
65023 AAACTTAATTAAATATTATTTTTTATTTTATTAAAAAATAATAATAATAAATCTTTTTTATT
62 AAACTTAATTAAATATTATTTTTAATTTTATTAAAAAATAATAATAAAAAACCTTTTTTATT
* ** * * *
65085 T--TTATTTGAATTTTTTTAAAAA-AA-AATTAATATTTTAAATTGTTAATGTAAATTTTTTAAA
1 TAAATATTTTTATTTTTTAAAAAATAATAATTAATATTTTAATTTGTTAA-CTAAATTTTTT-AA
65146 ACTTAATTAAATATT-TTTTTA
64 ACTTAATTAAATATTATTTTTA
65167 TTAAAAAATA
Statistics
Matches: 189, Mismatches: 15, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
120 36 0.19
121 19 0.10
122 1 0.01
123 5 0.03
124 11 0.06
125 12 0.06
126 77 0.41
127 28 0.15
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (123 bp):
TAAATATTTTTATTTTTTAAAAAATAATAATTAATATTTTAATTTGTTAACTAAATTTTTTAAAC
TTAATTAAATATTATTTTTAATTTTATTAAAAAATAATAATAAAAAACCTTTTTTATT
Found at i:65209 original size:121 final size:119
Alignment explanation
Indices: 64845--65209 Score: 287
Period size: 126 Copynumber: 3.0 Consensus size: 119
64835 AATACTTTTT
* * *
64845 ATTTTTTAAAAATATAATAATTAATATTTTAATTTATTAA-CATAAATTTTTT-AAACTTAATTA
1 ATTTTTTTAAAA-A-AA-AATTAATATTTTAAATTGTTAATC-T-AATTTTTTAAAACTTAATTA
* * * * ** * **
64908 AATATTATTTTTAATTT-TATTAAAAATTATAATAAAAAACCTTTTTTA-TTTAAAATATTTTT
61 AATATTATTTTTTATTTATA-AAAAAATAATAATAATAAATATTTTTAACTTT----TATTTGA
* * *
64970 ATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATCTAATTTTTTTAAACTTAATTAA
1 ATTTTT-TTAAAA-A-AA-AATTAATATTTTAAATTGTTAATCTAATTTTTTAAAACTTAATTAA
* * * *
65035 ATATTATTTTTTATTTTATTAAAAAATAATAATAATAAATCTTTTTTATTTTTATTTGA
62 ATATTATTTTTTA-TTTATAAAAAAATAATAATAATAAATATTTTTAACTTTTATTTGA
*
65094 ATTTTTTTAAAAAAAAATTAATATTTTAAATTGTTAATGTAAATTTTTTAAAACTTAATTAAATA
1 ATTTTTTTAAAAAAAAATTAATATTTTAAATTGTTAATCT-AATTTTTTAAAACTTAATTAAATA
* *
65159 -T-TTTTTTA-TTA-AAAAATAATAATTAATATATTATTATTTATTAAACTTTTA
65 TTATTTTTTATTTATAAAAA-AATAA-TAATA-ATAAATATTT-TT-AACTTTTA
65210 AATTTAATTA
Statistics
Matches: 208, Mismatches: 20, Indels: 28
0.81 0.08 0.11
Matches are distributed among these distances:
116 4 0.02
117 8 0.04
118 5 0.02
119 14 0.07
120 26 0.12
121 31 0.15
122 1 0.00
123 5 0.02
124 11 0.05
125 14 0.07
126 57 0.27
127 28 0.13
128 4 0.02
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (119 bp):
ATTTTTTTAAAAAAAAATTAATATTTTAAATTGTTAATCTAATTTTTTAAAACTTAATTAAATAT
TATTTTTTATTTATAAAAAAATAATAATAATAAATATTTTTAACTTTTATTTGA
Found at i:68641 original size:41 final size:41
Alignment explanation
Indices: 68578--68659 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
68568 TTTTTTAATG
** *
68578 GCAATCGCCTAGTTAGTGGTCAATCGGTGGTTAATGAACCA
1 GCAATCGCCTAGTTAGCAGTCAATCGATGGTTAATGAACCA
*
68619 GCAATCTCCTAGTTAGCAGTCAATCGATGGTTAATGAACCA
1 GCAATCGCCTAGTTAGCAGTCAATCGATGGTTAATGAACCA
68660 TCGACAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
GCAATCGCCTAGTTAGCAGTCAATCGATGGTTAATGAACCA
Found at i:69635 original size:28 final size:25
Alignment explanation
Indices: 69587--69650 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 25
69577 TTAAATTTGA
*
69587 TAAAAAAAATAAATTTATTAAATAT
1 TAAAAAAAATAAATTTATTAAAAAT
*
69612 TAAATAAAAATAACATATTTTTAAAAAT
1 TAAA-AAAAATAA-AT-TTATTAAAAAT
69640 TATAAAAAAAT
1 TA-AAAAAAAT
69651 TATATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 4 0.12
26 8 0.24
27 2 0.06
28 17 0.52
29 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAAAAAAATAAATTTATTAAAAAT
Found at i:71638 original size:14 final size:14
Alignment explanation
Indices: 71592--71651 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
71582 TTTTTAATAT
71592 TTAAATTTAATTTAA
1 TTAAATTT-ATTTAA
* * *
71607 -AAAATATA-TTAT
1 TTAAATTTATTTAA
*
71619 TTAAATTTATTTGA
1 TTAAATTTATTTAA
71633 TTAAATTTATTTAA
1 TTAAATTTATTTAA
71647 TTAAA
1 TTAAA
71652 AAATAATTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 25 0.71
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TTAAATTTATTTAA
Found at i:72003 original size:20 final size:21
Alignment explanation
Indices: 71967--72006 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
71957 TTAACCAATT
71967 TATTTATAAAGAAAATTTAAA
1 TATTTATAAAGAAAATTTAAA
71988 TATTT-TAAA-AATAATTTAA
1 TATTTATAAAGAA-AATTTAA
72007 TGTAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 11 0.61
21 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TATTTATAAAGAAAATTTAAA
Found at i:72927 original size:27 final size:27
Alignment explanation
Indices: 72876--72963 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 27
72866 TTTATATTTT
72876 TTTATATCATAATTTTAA-AATATTATATA
1 TTTATAT-A-AATTTTAATAA-ATTATATA
72905 TTTATATAAATTTTAATAAATTA-ATA
1 TTTATATAAATTTTAATAAATTATATA
*
72931 ATTA-AT--ATTTT-ATAAATTTAATATA
1 TTTATATAAATTTTAATAAA-TT-ATATA
*
72956 TTCATATA
1 TTTATATA
72964 TTTCATATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
22 5 0.10
23 7 0.14
24 1 0.02
25 7 0.14
26 8 0.16
27 12 0.24
28 3 0.06
29 7 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTATATAAATTTTAATAAATTATATA
Found at i:72940 original size:23 final size:24
Alignment explanation
Indices: 72907--72962 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
72897 ATTATATATT
72907 TATA-TAA-ATTTTAATAAA-TTAA
1 TATATTAATATTTT-ATAAATTTAA
72929 TA-ATTAATATTTTATAAATTTAA
1 TATATTAATATTTTATAAATTTAA
*
72952 TATATTCATAT
1 TATATTAATAT
72963 ATTTCATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 1 0.03
22 10 0.34
23 11 0.38
24 7 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TATATTAATATTTTATAAATTTAA
Found at i:73237 original size:19 final size:19
Alignment explanation
Indices: 73213--73278 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
73203 ATTAGATACG
73213 ATAT-AATTATATAAATATT
1 ATATAAATTATA-AAATATT
*
73232 ATATAAAATT-TAAAATATA
1 ATAT-AAATTATAAAATATT
*
73251 ATAT-AA-TATAAAAAATT
1 ATATAAATTATAAAATATT
73268 AATATAAATTA
1 -ATATAAATTA
73279 ATATAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
16 1 0.03
17 9 0.24
18 4 0.11
19 16 0.42
20 4 0.11
21 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATAAATTATAAAATATT
Found at i:73280 original size:23 final size:23
Alignment explanation
Indices: 73217--73287 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
73207 GATACGATAT
*
73217 AATT-ATATAAA-TATTATATAAA
1 AATTAATATAAATTAATATA-AAA
* *
73239 ATTTAAAATATAATATAATATAAAA
1 AATTAATATA-AAT-TAATATAAAA
73264 AATTAATATAAATTAATATAAAA
1 AATTAATATAAATTAATATAAAA
73287 A
1 A
73288 TACGAATAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
22 3 0.08
23 15 0.38
24 5 0.12
25 11 0.28
26 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AATTAATATAAATTAATATAAAA
Found at i:73373 original size:33 final size:33
Alignment explanation
Indices: 73298--73384 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
73288 TACGAATAAG
73298 TTAATTTTATAT-AATATA-AATAATTAATATA
1 TTAATTTTATATAAATATATAATAATTAATATA
73329 TTAAATTTTATATAAATATATAATAATTTAA-ATA
1 TT-AATTTTATATAAATATATAATAA-TTAATATA
*
73363 -TAATTATTATAAAAATATATAA
1 TTAATT-TTATATAAATATATAA
73385 ATATAATATA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
31 2 0.04
32 14 0.28
33 22 0.44
34 8 0.16
35 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
TTAATTTTATATAAATATATAATAATTAATATA
Found at i:73374 original size:31 final size:31
Alignment explanation
Indices: 73298--73395 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 31
73288 TACGAATAAG
73298 TTAATTTTATATAATATA-AATAATTAATATA
1 TTAATTTTATA-AATATATAATAATTAATATA
73329 TTAAATTTTATATAAATATATAATAATTTAA-ATA
1 TT-AA-TTT-TATAAATATATAATAA-TTAATATA
*
73363 -TAATTATTATAAAAATAT-ATAAATATAATATA
1 TTAATT-TTATAAATATATAAT-AAT-TAATATA
73395 T
1 T
73396 ATATATACGA
Statistics
Matches: 56, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
30 3 0.05
31 19 0.34
32 8 0.14
33 10 0.18
34 12 0.21
35 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
TTAATTTTATAAATATATAATAATTAATATA
Found at i:73374 original size:58 final size:55
Alignment explanation
Indices: 73219--73402 Score: 153
Period size: 58 Copynumber: 3.3 Consensus size: 55
73209 TACGATATAA
*
73219 TTATATAAATATTATATAAAATTTAAAATATAATATAATATAAAAAATTAATATAAAT
1 TTATATAAATA-TATA-ATAATTT-AAATATAATATAATATAAAAAATTAATATAAAT
* * * * * * *
73277 TAATATAAAAATACGAATAAGTT-AATTTTATATAATATAAATAATTAATATATTAAATT
1 TTATATAAATATA-TAATAATTTAAATATAATATAATATAAAAAATT-A-ATA-TAAA-T
*
73336 TTATATAAATATATAATAATTTAAATATAAT-TATTAT-AAAAA-T-ATATAAAT
1 TTATATAAATATATAATAATTTAAATATAATATAATATAAAAAATTAATATAAAT
* *
73387 ATAATATATATATATA
1 -TTATATAAATATATA
73403 CGAATTTTCA
Statistics
Matches: 101, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
51 1 0.01
52 17 0.17
53 3 0.03
55 20 0.20
56 2 0.02
57 14 0.14
58 26 0.26
59 18 0.18
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (55 bp):
TTATATAAATATATAATAATTTAAATATAATATAATATAAAAAATTAATATAAAT
Found at i:73399 original size:11 final size:11
Alignment explanation
Indices: 73305--73402 Score: 54
Period size: 9 Copynumber: 9.5 Consensus size: 11
73295 AAGTTAATTT
73305 TATATAATATA
1 TATATAATATA
*
73316 AATAATTAATATA
1 TAT-A-TAATATA
*
73329 T-TA-AAT-TT
1 TATATAATATA
73337 TATATAA-ATA
1 TATATAATATA
*
73347 TATAATAATTTA
1 TAT-ATAATATA
*
73359 AATATAAT-TA
1 TATATAATATA
*
73369 T-TATAA-AAA
1 TATATAATATA
73378 TATATAA-ATA
1 TATATAATATA
73388 TA-AT-ATATA
1 TATATAATATA
73397 TATATA
1 TATATA
73403 CGAATTTTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 24
0.67 0.09 0.24
Matches are distributed among these distances:
8 3 0.05
9 19 0.29
10 19 0.29
11 12 0.18
12 6 0.09
13 7 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATATAATATA
Found at i:73640 original size:18 final size:19
Alignment explanation
Indices: 73604--73644 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
73594 TCAATTTGAT
* *
73604 TTAATTTAAATTTTATTTA
1 TTAATTAAAATATTATTTA
73623 TTAATTAAAATATT-TTTA
1 TTAATTAAAATATTATTTA
73641 TTAA
1 TTAA
73645 AATTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAATTAAAATATTATTTA
Found at i:74874 original size:2 final size:2
Alignment explanation
Indices: 74867--74898 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
74857 ATTACTTCTC
74867 AT AT AT AT AT AT A- AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74899 CACCACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:74887 original size:15 final size:15
Alignment explanation
Indices: 74867--74898 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
74857 ATTACTTCTC
74867 ATATATATATATAAT
1 ATATATATATATAAT
74882 ATATATATATATAAT
1 ATATATATATATAAT
74897 AT
1 AT
74899 CACCACATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATAAT
Found at i:74898 original size:13 final size:13
Alignment explanation
Indices: 74867--74892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
74857 ATTACTTCTC
74867 ATATATATATATA
1 ATATATATATATA
74880 ATATATATATATA
1 ATATATATATATA
74893 TAATATCACC
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):
ATATATATATATA
Found at i:76283 original size:18 final size:18
Alignment explanation
Indices: 76261--76312 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
76251 GAATTTATCC
76261 TTTTTTAAAAAAAATT-A
1 TTTTTTAAAAAAAATTAA
*
76278 TATTTTTAATAAAAATTAA
1 T-TTTTTAAAAAAAATTAA
*
76297 TTTTTTAAAAAGAATT
1 TTTTTTAAAAAAAATT
76313 GACTATCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 1 0.03
18 27 0.90
19 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTTTTAAAAAAAATTAA
Found at i:77083 original size:18 final size:19
Alignment explanation
Indices: 77055--77102 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
77045 AATTTTTTAA
77055 AAATAATA-TTTAATAATTT
1 AAATAATATTTTAAT-ATTT
77074 AAAT-ATATTTTAATATTT
1 AAATAATATTTTAATATTT
*
77092 ATTATAATATT
1 A-AATAATATT
77103 GCTGTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 8 0.32
19 12 0.48
20 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AAATAATATTTTAATATTT
Found at i:80330 original size:21 final size:20
Alignment explanation
Indices: 80282--80369 Score: 72
Period size: 20 Copynumber: 4.4 Consensus size: 20
80272 AGGATCAATA
** *
80282 TTTAAAAAAAAGAATTATTT
1 TTTAAAAAAATTAATTCTTT
*
80302 TTTTAAAAAATTAATTCTTT
1 TTTAAAAAAATTAATTCTTT
* **
80322 TTTAGAAAAATCGATATC-TT
1 TTTAAAAAAATTAAT-TCTTT
*
80342 TTTAAAAAAGATTAATT-ATT
1 TTTAAAAAA-ATTAATTCTTT
80362 TTTAAAAA
1 TTTAAAAA
80370 TAAATGATAT
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
20 48 0.89
21 6 0.11
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTAAAAAAATTAATTCTTT
Found at i:80365 original size:20 final size:20
Alignment explanation
Indices: 80262--80369 Score: 66
Period size: 20 Copynumber: 5.5 Consensus size: 20
80252 AAGAATGGTT
*
80262 TTTTTAAAAAAGGATCAA-TA
1 TTTTTAAAAAA-GATTAATTA
**
80282 TTTAAAAAAAAGAATT-ATT-
1 TTTTTAAAAAAG-ATTAATTA
*
80301 TTTTT-AAAAA-ATTAATTCT
1 TTTTTAAAAAAGATTAATT-A
* ** *
80320 TTTTTAGAAAA-ATCGATATC
1 TTTTTAAAAAAGATTAAT-TA
80340 TTTTTAAAAAAGATTAATTA
1 TTTTTAAAAAAGATTAATTA
80360 TTTTTAAAAA
1 TTTTTAAAAA
80370 TAAATGATAT
Statistics
Matches: 67, Mismatches: 13, Indels: 16
0.70 0.14 0.17
Matches are distributed among these distances:
16 3 0.04
17 3 0.04
18 5 0.07
19 10 0.15
20 41 0.61
21 5 0.07
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (20 bp):
TTTTTAAAAAAGATTAATTA
Found at i:80383 original size:39 final size:38
Alignment explanation
Indices: 80262--80384 Score: 99
Period size: 41 Copynumber: 3.2 Consensus size: 38
80252 AAGAATGGTT
* ** *
80262 TTTTTAAAAAAGGATCAA-TATTTAAAAAAAAGAATTAT-
1 TTTTTAAAAAA-GATTAATTATTTTTAAAAAA-AATGATA
* * * *
80300 TTTTTTAAAAA-ATTAATTCTTTTTTAGAAAAATCGATA
1 TTTTTAAAAAAGATTAATTATTTTTAAAAAAAAT-GATA
80338 TCTTTTTAAAAAAGATTAATTATTTTTAAAAATAAATGATA
1 --TTTTTAAAAAAGATTAATTATTTTTAAAAA-AAATGATA
80379 TTTTTA
1 TTTTTA
80385 TATATAAATT
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
36 7 0.11
37 10 0.15
38 10 0.15
39 6 0.09
40 10 0.15
41 19 0.29
42 4 0.06
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (38 bp):
TTTTTAAAAAAGATTAATTATTTTTAAAAAAAATGATA
Found at i:81813 original size:33 final size:33
Alignment explanation
Indices: 81771--81835 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
81761 AACATTTTAA
*
81771 TTTTAATATTTTTGA-ATTATATAATATATATTT
1 TTTTAATATTTAT-ATATTATATAATATATATTT
* *
81804 TTTTTATATTTATATATTATATAATTTATATT
1 TTTTAATATTTATATATTATATAATATATATT
81836 ATATAAAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (33 bp):
TTTTAATATTTATATATTATATAATATATATTT
Found at i:81825 original size:7 final size:7
Alignment explanation
Indices: 81786--81840 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
81776 ATATTTTTGA
81786 ATTATAT
1 ATTATAT
*
81793 AATATAT
1 ATTATAT
*
81800 ATT-TTT
1 ATTATAT
*
81806 TTTATAT
1 ATTATAT
81813 -TTATAT
1 ATTATAT
81819 ATTATAT
1 ATTATAT
81826 AATT-TAT
1 -ATTATAT
81833 ATTATAT
1 ATTATAT
81840 A
1 A
81841 AAGCATAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
6 13 0.33
7 23 0.59
8 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTATAT
Found at i:82204 original size:2 final size:2
Alignment explanation
Indices: 82197--82242 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
82187 TGTCACTGGG
82197 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82239 TA TA
1 TA TA
82243 AAACAGAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:82753 original size:2 final size:2
Alignment explanation
Indices: 82748--82777 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
82738 ATATGGTTTA
82748 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
82778 GACGTAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84204 original size:43 final size:43
Alignment explanation
Indices: 84143--84232 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
84133 TGGATCTTTT
*
84143 TTAATTGACTTTGTAAGTTCAAAACTTTAAACAAATAGAAAAG
1 TTAATTGACTTTATAAGTTCAAAACTTTAAACAAATAGAAAAG
*
84186 TTAATTGACTTTATAAGTTCAAAACTTTAAACAAATAGACAAG
1 TTAATTGACTTTATAAGTTCAAAACTTTAAACAAATAGAAAAG
84229 TTAA
1 TTAA
84233 ACATAGGCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (43 bp):
TTAATTGACTTTATAAGTTCAAAACTTTAAACAAATAGAAAAG
Found at i:84315 original size:7 final size:7
Alignment explanation
Indices: 84299--84389 Score: 54
Period size: 6 Copynumber: 13.9 Consensus size: 7
84289 TTAAAATATA
84299 ATATAAT
1 ATATAAT
*
84306 ATATAGT
1 ATATAAT
84313 ATA-AAT
1 ATATAAT
84319 ATA-AAT
1 ATATAAT
*
84325 ATATTAT
1 ATATAAT
*
84332 A-AT-TT
1 ATATAAT
84337 ATATAAT
1 ATATAAT
84344 ATA-AAT
1 ATATAAT
84350 -TATTAAT
1 ATA-TAAT
*
84357 ATATTAAA
1 ATA-TAAT
*
84365 AT-TTAT
1 ATATAAT
84371 ATA-AAT
1 ATATAAT
*
84377 ATAAAAT
1 ATATAAT
84384 ATATAA
1 ATATAA
84390 AACACGATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.06
6 27 0.41
7 27 0.41
8 8 0.12
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (7 bp):
ATATAAT
Found at i:84368 original size:32 final size:31
Alignment explanation
Indices: 84305--84386 Score: 110
Period size: 32 Copynumber: 2.5 Consensus size: 31
84295 TATAATATAA
* *
84305 TATATAGTATAAATATAAATATATTATAATT
1 TATATAATATAAATATAAATATATTAAAATT
*
84336 TATATAATATAAATTATTAATATATTAAAATT
1 TATATAATATAAA-TATAAATATATTAAAATT
84368 TATATAAATATAAAATATA
1 TATAT-AATAT-AAATATA
84387 TAAAACACGA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
31 12 0.27
32 21 0.48
33 8 0.18
34 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (31 bp):
TATATAATATAAATATAAATATATTAAAATT
Found at i:86274 original size:16 final size:17
Alignment explanation
Indices: 86253--86286 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
86243 TTTTTTAAAA
*
86253 TAATTATTA-TTAAATT
1 TAATTACTATTTAAATT
86269 TAATTACTATTTAAATT
1 TAATTACTATTTAAATT
86286 T
1 T
86287 TATAAAAAAT
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:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTACTATTTAAATT
Found at i:88383 original size:67 final size:68
Alignment explanation
Indices: 88247--88392 Score: 190
Period size: 68 Copynumber: 2.1 Consensus size: 68
88237 ATGAATTCCA
* * * *
88247 TAAAGAAATTTTTATTTATAAATTTTTTTTAAAAAAAATTAATAATTATTAAGATTTGAATCATC
1 TAAAAAAATTTTCATTTATAAATTTTTTATAAAAAAAATTAATAATTATTAAGAATTGAATCATC
88312 TTT
66 TTT
*
88315 TAAAAAAATTTTCATTTATAAAATTTTTTAT-AAAAAAATT-ATAATTATTAA-AATTGAAATTA
1 TAAAAAAATTTTCATTTAT-AAATTTTTTATAAAAAAAATTAATAATTATTAAGAATTG-AATCA
*
88377 TTTTT
64 TCTTT
88382 TAAAAATAATT
1 TAAAAA-AATT
88393 ATATGAATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
66 4 0.06
67 25 0.36
68 30 0.43
69 10 0.14
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (68 bp):
TAAAAAAATTTTCATTTATAAATTTTTTATAAAAAAAATTAATAATTATTAAGAATTGAATCATC
TTT
Found at i:89152 original size:19 final size:19
Alignment explanation
Indices: 89128--89165 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
89118 GAATATAAAA
*
89128 TATAATTTTTTAAATATAT
1 TATAATTATTTAAATATAT
89147 TATAATTATTTAAATATAT
1 TATAATTATTTAAATATAT
89166 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATAATTATTTAAATATAT
Found at i:89165 original size:21 final size:21
Alignment explanation
Indices: 89119--89167 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
89109 TTTAAATATG
* *
89119 AATATAAAATATAATTTTTTA
1 AATATATAATATAATTATTTA
89140 AATATAT--TATAATTATTTA
1 AATATATAATATAATTATTTA
89159 AATATATAA
1 AATATATAA
89168 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.75
21 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATATAATATAATTATTTA
Found at i:92969 original size:19 final size:19
Alignment explanation
Indices: 92933--92971 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
92923 TCTAACATGA
** *
92933 ATATATTTTTTATTTTTTT
1 ATATATTTTGAATGTTTTT
92952 ATATATTTTGAATGTTTTT
1 ATATATTTTGAATGTTTTT
92971 A
1 A
92972 AAAGATTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
ATATATTTTGAATGTTTTT
Found at i:93720 original size:37 final size:35
Alignment explanation
Indices: 93679--93762 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 35
93669 ATATCGATAG
*
93679 AAATTAAATTTAATTA-AATTTAATTTAGTTATTAAAA
1 AAATTAAATTTAATTATAAATTAATTTA---ATTAAAA
*
93716 AAATTAAAATTTTGATTATAAATTAATTTAATTAAAA
1 AAATT-AAA-TTTAATTATAAATTAATTTAATTAAAA
*
93753 TAATTAAATT
1 AAATTAAATT
93763 ACTTAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
35 2 0.05
36 3 0.07
37 16 0.39
38 3 0.07
39 7 0.17
40 10 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (35 bp):
AAATTAAATTTAATTATAAATTAATTTAATTAAAA
Found at i:93759 original size:18 final size:18
Alignment explanation
Indices: 93736--93772 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
93726 TTTGATTATA
*
93736 AATTAATTTAATTAAAAT
1 AATTAAATTAATTAAAAT
*
93754 AATTAAATTACTTAAAAT
1 AATTAAATTAATTAAAAT
93772 A
1 A
93773 TATATAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAAATTAATTAAAAT
Found at i:94010 original size:4 final size:4
Alignment explanation
Indices: 93988--94028 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
93978 AATTGATTTG
*
93988 ATTA A-TA ATTA A-AA ATTA ATTA ATTA ATTA ATTCA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT-A ATTA AT
94029 AAAATTGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 5 0.16
4 23 0.72
5 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (4 bp):
ATTA
Found at i:94246 original size:13 final size:13
Alignment explanation
Indices: 94207--94253 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
94197 TTTTTATTTT
94207 TTTAATATTTATA
1 TTTAATATTTATA
* *
94220 TTTGATGTTTATA
1 TTTAATATTTATA
*
94233 TTTAATATTCATA
1 TTTAATATTTATA
94246 TTTAATAT
1 TTTAATAT
94254 ATATTTAGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (13 bp):
TTTAATATTTATA
Found at i:94318 original size:30 final size:31
Alignment explanation
Indices: 94282--94343 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
94272 AATAATATGA
* * *
94282 TCTCTAAATA-TATAAAATTCTTTACAAAAT
1 TCTCTAAATACTAAAAAAATCTTTAAAAAAT
*
94312 TCTCTAAGTACTAAAAAAATCTTTAAAAAAT
1 TCTCTAAATACTAAAAAAATCTTTAAAAAAT
94343 T
1 T
94344 AAACATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (31 bp):
TCTCTAAATACTAAAAAAATCTTTAAAAAAT
Found at i:94489 original size:26 final size:25
Alignment explanation
Indices: 94443--94504 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
94433 ATATAATTTT
* *
94443 AATAAATATTTT-ATTATTTAGTGTA
1 AATAAAT-TTTTGCTTATTTAGTATA
94468 AATATAATTTTTGCTTATTTAGTATA
1 AATA-AATTTTTGCTTATTTAGTATA
*
94494 TATAAATTTTT
1 AATAAATTTTT
94505 TAATCAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 15 0.47
26 17 0.53
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (25 bp):
AATAAATTTTTGCTTATTTAGTATA
Found at i:94505 original size:26 final size:26
Alignment explanation
Indices: 94456--94504 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
94446 AAATATTTTA
*
94456 TTATTTAGTGTAAATATAATTTTTGC
1 TTATTTAGTATAAATATAATTTTTGC
*
94482 TTATTTAGTATATATA-AATTTTT
1 TTATTTAGTATAAATATAATTTTT
94505 TAATCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (26 bp):
TTATTTAGTATAAATATAATTTTTGC
Found at i:95102 original size:39 final size:38
Alignment explanation
Indices: 95042--95120 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 38
95032 TTTATTTAAT
95042 TTAAAATATAAATTAATATTTTTTAAATTTATTTATAT
1 TTAAAATATAAATTAATATTTTTTAAATTTATTTATAT
*
95080 TTATAAATAGATAAA-TAA-ATTTTTTAAGTTTATTTATAT
1 TTA-AAAT--ATAAATTAATATTTTTTAAATTTATTTATAT
95119 TT
1 TT
95121 TTTTAGTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
38 3 0.08
39 26 0.70
40 3 0.08
41 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (38 bp):
TTAAAATATAAATTAATATTTTTTAAATTTATTTATAT
Found at i:95138 original size:20 final size:19
Alignment explanation
Indices: 95098--95133 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
95088 AGATAAATAA
*
95098 ATTTTTTAAGTTTATTTAT
1 ATTTTTTTAGTTTATTTAT
95117 ATTTTTTTAGTTT-TTTA
1 ATTTTTTTAGTTTATTTA
95134 AATATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTTTTTAGTTTATTTAT
Found at i:95893 original size:15 final size:16
Alignment explanation
Indices: 95867--95896 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
95857 TATAAAAAAT
95867 TTAATATAAATTTATA
1 TTAATATAAATTTATA
95883 TTAAT-TAAATTTAT
1 TTAATATAAATTTAT
95897 TTATTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATATAAATTTATA
Found at i:96254 original size:19 final size:21
Alignment explanation
Indices: 96232--96270 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
96222 TTTTAATATA
96232 TCAAATCAGT-TTTA-AAAAC
1 TCAAATCAGTATTTATAAAAC
*
96251 TCAAATTAGTATTTATAAAA
1 TCAAATCAGTATTTATAAAA
96271 TAATAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (21 bp):
TCAAATCAGTATTTATAAAAC
Found at i:96344 original size:22 final size:25
Alignment explanation
Indices: 96286--96358 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 25
96276 AAAGTTAAAA
*
96286 TTATATTTATTTTAATATTAATATATTT
1 TTATAATTATTTTAA-A-TAATA-ATTT
96314 TTATAATTATTTTAAATAA-AATTT
1 TTATAATTATTTTAAATAATAATTT
96338 TT-T-ATTA--TTAAATAATAATTT
1 TTATAATTATTTTAAATAATAATTT
96359 AAATTCATTC
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 8 0.19
21 5 0.12
22 4 0.09
23 1 0.02
24 6 0.14
25 1 0.02
26 3 0.07
27 1 0.02
28 14 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATAATTATTTTAAATAATAATTT
Found at i:96347 original size:25 final size:28
Alignment explanation
Indices: 96286--96347 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
96276 AAAGTTAAAA
* *
96286 TTATATTTATTTTAATATTAATATATTT
1 TTATAATTATTTTAATATTAAAATATTT
96314 TTATAATTATTTTAA-A-TAAAAT-TTT
1 TTATAATTATTTTAATATTAAAATATTT
*
96339 TTATTATTA
1 TTATAATTA
96348 AATAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.35
26 5 0.16
27 1 0.03
28 14 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TTATAATTATTTTAATATTAAAATATTT
Found at i:96350 original size:20 final size:20
Alignment explanation
Indices: 96320--96358 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
96310 ATTTTTATAA
96320 TTATTTTAAATAA-AATTTT
1 TTATTTTAAATAATAATTTT
96339 TTATTATTAAATAATAATTT
1 TTATT-TTAAATAATAATTT
96359 AAATTCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTTTAAATAATAATTTT
Found at i:96885 original size:16 final size:16
Alignment explanation
Indices: 96864--96919 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
96854 GTAAAGTTTG
* *
96864 AATTATTTTAGGTTCA
1 AATTATTTCAAGTTCA
96880 AATTATTTCAAGTTCA
1 AATTATTTCAAGTTCA
* * * *
96896 ATTTATTTCGATTTTA
1 AATTATTTCAAGTTCA
96912 AATTATTT
1 AATTATTT
96920 TAGATTTTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (16 bp):
AATTATTTCAAGTTCA
Found at i:97119 original size:16 final size:16
Alignment explanation
Indices: 97028--97119 Score: 60
Period size: 16 Copynumber: 5.8 Consensus size: 16
97018 AACAAGTTTG
* *
97028 TTATTTTAAATTTAAG
1 TTATTTTAAATTCAAA
*
97044 TTATTTCAAATTTC-AA
1 TTATTTTAAA-TTCAAA
* **
97060 TCATTTCGAATTCAAA
1 TTATTTTAAATTCAAA
* * *
97076 TCATTTTGAGTTCAAA
1 TTATTTTAAATTCAAA
* * *
97092 TTATTCTCAATTAAAA
1 TTATTTTAAATTCAAA
97108 TTATTTTAAATT
1 TTATTTTAAATT
97120 TGTGTCATTT
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
15 3 0.05
16 55 0.92
17 2 0.03
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (16 bp):
TTATTTTAAATTCAAA
Found at i:97469 original size:22 final size:22
Alignment explanation
Indices: 97456--97511 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
97446 TAATTATATT
97456 TAAAATATTATATATATTAATA
1 TAAAATATTATATATATTAATA
*
97478 T-AAAT-TTTTATATATTAATA
1 TAAAATATTATATATATTAATA
*
97498 -AATTATATTATATA
1 TAA-AATATTATATA
97512 AATTTTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 15 0.54
21 6 0.21
22 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAAATATTATATATATTAATA
Found at i:97506 original size:51 final size:49
Alignment explanation
Indices: 97427--97533 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 49
97417 TTGATGTGGT
*
97427 TATATATTTTTATATATTATAATTATATT-TA-AAATATTATATATATTAA
1 TATAAATTTTTATATATTATAATTATATTATATAAATATTA-AT-TATTAA
* *
97476 TATAAATTTTTATATATTAATAAATTATATTATATAAATTTTAATTATTTA
1 TATAAATTTTTATATATT-AT-AATTATATTATATAAATATTAATTATTAA
97527 TATAAAT
1 TATAAAT
97534 AATATAAAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
49 17 0.33
50 2 0.04
51 21 0.41
52 4 0.08
53 7 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (49 bp):
TATAAATTTTTATATATTATAATTATATTATATAAATATTAATTATTAA
Found at i:97511 original size:20 final size:19
Alignment explanation
Indices: 97442--97510 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 19
97432 ATTTTTATAT
97442 ATTATAATTATATTTAA-AA
1 ATTAT-ATTATATTTAATAA
*
97461 TATTATA-TATATTAATATAA
1 -ATTATATTATATTTA-ATAA
97481 ATT-T-TTATATATTAATAA
1 ATTATATTATAT-TTAATAA
97499 ATTATATTATAT
1 ATTATATTATAT
97511 AAATTTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
18 20 0.49
19 8 0.20
20 13 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTATATTATATTTAATAA
Found at i:97532 original size:33 final size:33
Alignment explanation
Indices: 97468--97538 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
97458 AAATATTATA
*
97468 TATATTAATATAAATTTTTATATATTAATAAAT
1 TATATTAATATAAATTTTAATATATTAATAAAT
97501 TATATT-ATATAAATTTTAAT-TATTTATATAAAT
1 TATATTAATATAAATTTTAATATA-TTA-ATAAAT
*
97534 AATAT
1 TATAT
97539 AAAAGTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 2 0.06
32 16 0.47
33 16 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TATATTAATATAAATTTTAATATATTAATAAAT
Found at i:97535 original size:37 final size:36
Alignment explanation
Indices: 97449--97535 Score: 88
Period size: 38 Copynumber: 2.4 Consensus size: 36
97439 TATATTATAA
* *
97449 TTATATTTAA-AATATTATATATATTAATATAAATTT
1 TTATATATAATAA-ATTATATATATAAATATAAATTT
* *
97485 TTATATATTAATAAATTATATTATATAAATTTTAATTAT
1 TTATATA-TAATAAATTATA-TATATAAATATAAATT-T
97524 TTATATA-AATAA
1 TTATATATAATAA
97536 TATAAAAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
36 6 0.14
37 14 0.33
38 15 0.35
39 8 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (36 bp):
TTATATATAATAAATTATATATATAAATATAAATTT
Found at i:97997 original size:19 final size:19
Alignment explanation
Indices: 97970--98008 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
97960 AAAAATTTAA
* *
97970 ATATTTATAAATTTATTTT
1 ATATCTATAAATTTAATTT
*
97989 ATATCTATAATTTTAATTT
1 ATATCTATAAATTTAATTT
98008 A
1 A
98009 ATTTTTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATCTATAAATTTAATTT
Found at i:98918 original size:14 final size:15
Alignment explanation
Indices: 98899--98927 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98889 TAATATTAAA
98899 ATTTTT-TTTTTTCT
1 ATTTTTCTTTTTTCT
98913 ATTTTTCTTTTTTCT
1 ATTTTTCTTTTTTCT
98928 GTCCCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTCTTTTTTCT
Done.