Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167947.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_208, whole genome shotgun sequence
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: 51204
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
File 1 of 2
Found at i:481 original size:18 final size:18
Alignment explanation
Indices: 460--494 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
450 ATTAATTATT
460 ATAACTTAGAAATATTTC
1 ATAACTTAGAAATATTTC
* *
478 ATAATTTATAAATATTT
1 ATAACTTAGAAATATTT
495 AAATTTTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
ATAACTTAGAAATATTTC
Found at i:579 original size:20 final size:20
Alignment explanation
Indices: 551--595 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
541 TTAAATTAAC
*
551 AATATTAAAATATTGTTATT
1 AATAATAAAATATTGTTATT
* *
571 AATAATAAAATTTTTTTATT
1 AATAATAAAATATTGTTATT
591 -ATAAT
1 AATAAT
596 TATATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AATAATAAAATATTGTTATT
Found at i:1330 original size:18 final size:19
Alignment explanation
Indices: 1285--1349 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 19
1275 ATCATAATTA
*
1285 AATTATATTTAATAATAAT
1 AATTATAATTAATAATAAT
* *
1304 -ATAATAATTATTAA-AAT
1 AATTATAATTAATAATAAT
1321 AATTATAATTTAATAATAAAT
1 AATTATAA-TTAATAAT-AAT
*
1342 ATTTATAA
1 AATTATAA
1350 ATATTATATC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.08
18 17 0.47
19 6 0.17
21 10 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTATAATTAATAATAAT
Found at i:1460 original size:21 final size:21
Alignment explanation
Indices: 1436--1483 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
1426 TAGCTTATGA
* *
1436 TAATTACTATATTTATTATAT
1 TAATAACTATATTAATTATAT
* *
1457 TAATAATTTTATTAATTATAT
1 TAATAACTATATTAATTATAT
*
1478 TTATAA
1 TAATAA
1484 TTTATCTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATAACTATATTAATTATAT
Found at i:1475 original size:24 final size:22
Alignment explanation
Indices: 1448--1500 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
1438 ATTACTATAT
1448 TTATTATATTAATAATTTTAT-TAA
1 TTATTAT-TT-ATAA-TTTATCTAA
1472 TTA-TATTTATAATTTATCTAA
1 TTATTATTTATAATTTATCTAA
*
1493 TAATTATT
1 TTATTATT
1501 CAATTATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 9 0.35
22 6 0.23
23 3 0.12
24 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATTATTTATAATTTATCTAA
Found at i:1493 original size:21 final size:21
Alignment explanation
Indices: 1445--1486 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1435 ATAATTACTA
*
1445 TATTTATTATATTAATAATTT
1 TATTAATTATATTAATAATTT
*
1466 TATTAATTATATTTATAATTT
1 TATTAATTATATTAATAATTT
1487 ATCTAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTAATTATATTAATAATTT
Found at i:1984 original size:21 final size:18
Alignment explanation
Indices: 1945--1985 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 18
1935 TGTTTAATAG
1945 TTAATAATATATTATTAA
1 TTAATAATATATTATTAA
1963 TTAATAATTATATGTATATAA
1 TTAATAA-TATAT-TAT-TAA
1984 TT
1 TT
1986 TCTATTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 5 0.25
20 3 0.15
21 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTAATAATATATTATTAA
Found at i:2693 original size:181 final size:180
Alignment explanation
Indices: 2357--3229 Score: 696
Period size: 181 Copynumber: 4.8 Consensus size: 180
2347 AAAATTAATA
* * * * ** *
2357 AGATTTAAAAAATAAATATG-TTAGTTGAACTAGTTCTAATAGTTAAGACGATCAAAATAATTAT
1 AGATTTAAAAAATAAATATGTTTA-TTGAACAAGTTCAAATAGTTATGACTATTTAAACAATTAT
* * * * * * *
2421 CTATTT-CAATCATTTT-ATCATTTTGTTTAGTTATAAAATAATTATTTTAGTTCATACAAGCTT
65 CTATTTAAAATCATTTTGAT-ATTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTT
**
2484 ATTTGGAATAAAATAATACTAATTTATTAACATTCAAAAAATTAA-AAGCAAG
129 A-TTAAAATAAAATAATACTAATTTATTAACATTCAAAAAATTAATAAGCAAG
* *
2536 AGATTTTAAAAAATAAATATGTTTATTGAACAATTTCAAATA-TATATGACAATTTAAACAATTA
1 AGA-TTTAAAAAATAAATATGTTTATTGAACAAGTTCAAATAGT-TATGACTATTTAAACAATTA
* * * *
2600 TCTGTTTAAAATTATTTTGATATTTTGTTTTGTCATAAAACAATTGTTTCAGTTAATAAAAACTT
64 TCTATTTAAAATCATTTTGATATTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTT
* * *
2665 ATCTAAAATAAAATAATACTATTTTATTAATATTTC-AAAAATTATTAAGCAAG
129 AT-TAAAATAAAATAATACTAATTTATTAACA-TTCAAAAAATTAATAAGCAAG
* ** * ** * *
2718 AGATTTAAAAACTAAAGCTGTTT-TTCAAAGCAA-TTTTAATAGTTATGACTATTTGAACAAATA
1 AGATTTAAAAAATAAATATGTTTATT-GAA-CAAGTTCAAATAGTTATGACTATTTAAACAATTA
* * * * * * **
2781 T-TAATCTCAAATCGTTATGAT-CTTTGTTTTGTCATAAAACAATTATTT-TTTATCATATAAA-
64 TCT-ATTTAAAATCATTTTGATATTTTGTTTTGTCATAAAACAATTGTTTCAGT-TCATA-AAAG
* * * * * *
2842 CTGATTCAAATAAAAATAATACTAATTTAATAATATTTTAAAAAATTAATAAGTAAG
126 CTTATTAAAAT-AAAATAATACTAATTTATTAACA-TTCAAAAAATTAATAAGCAAG
* * *** * * * * *
2899 AGATTTAATAAATAAATGTGGTTTGCCGATC-AGCTCAAATAGTTAAGATTA-TTAGAATAATTA
1 AGATTTAAAAAATAAATAT-GTTTATTGAACAAGTTCAAATAGTTATGACTATTTA-AACAATTA
* * * ** ** * *
2962 TCTATTTCAAATTATTCTGACCTTTTGTTTAATCATAAAATAATTGTTTCAGTTCATACAAGCTT
64 TCTATTTAAAATCATTTTGATATTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTT
* * * ** *
3027 ATTCGAAAGAAAATAATACTAATTTATTAACTTTTGAAATATTAATAAGCAAG
129 ATT-AAAATAAAATAATACTAATTTATTAACATTCAAAAAATTAATAAGCAAG
** * * ** * *
3080 CTATTTGAAAAACTAAATTTGTTTACCGAATAAGTTCAAATAGTTATGACTATTTGAACAATTAT
1 AGATTT-AAAAAATAAATATGTTTATTGAACAAGTTCAAATAGTTATGACTATTTAAACAATTAT
* * * *
3145 CTATTTAAAATCATTGTGA-ATTTTTGTTTTGTCATAAAACAATTGTTTTAGTTCACAAAAGTTT
65 CTATTTAAAATCATTTTGATA-TTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTT
*
3209 ATCCAAAATAAAATAATACTA
129 AT-TAAAATAAAATAATACTA
3230 CTTTTCTTGA
Statistics
Matches: 548, Mismatches: 116, Indels: 57
0.76 0.16 0.08
Matches are distributed among these distances:
179 10 0.02
180 116 0.21
181 235 0.43
182 181 0.33
183 6 0.01
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (180 bp):
AGATTTAAAAAATAAATATGTTTATTGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATC
TATTTAAAATCATTTTGATATTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTAT
TAAAATAAAATAATACTAATTTATTAACATTCAAAAAATTAATAAGCAAG
Found at i:3821 original size:181 final size:180
Alignment explanation
Indices: 3531--3965 Score: 500
Period size: 181 Copynumber: 2.4 Consensus size: 180
3521 TTACCAAATA
* *
3531 AGTTCAAATAATTATGACTATTTGAAAAATTATCTATTTCAAATTGTTATAATATTTTGTTTTGT
1 AGTTTAAATAATTAAGACTATTTGAAAAATTATCTATTTCAAATTGTTATAATATTTTGTTTTGT
* ** * *
3596 CATAAAATAATTATTTTTGTACGTATAAATTTATTCAAAATAAAATAATACTAAATTAATAATAT
66 CATAAAACAATTATTTCAG-ACGTATAAACTTATTCAAAATAAAATAAAACTAAATTAATAATAT
* *
3661 TCTAGAAATTCATAACTAAGAGATTTAAAAAATAAATTTGTCTGTTAAACC
130 TCTAAAAATTCATAACTAAGAGATTTAAAAAATAAATTTATCTGTTAAACC
* * * * * *
3712 AGTTTAAATAGTTAAGACTATATGAATAATTATCTATTTTAAATTGTTATGATCTTTTGTTTTG-
1 AGTTTAAATAATTAAGACTATTTGAAAAATTATCTATTTCAAATTGTTATAATATTTTGTTTTGT
* * ** * *
3776 CTATAAAACAATTCTTTCAG-CTTATACAAGCTTATTCGTAATAAAATAAAACTAATTTATTAAT
66 C-ATAAAACAATTATTTCAGACGTATA-AA-CTTATTCAAAATAAAATAAAACTAAATTAATAAT
* * * * * *
3840 ATTTTAAAAATTTATAAGTAAGAGATTTAAAAAATAATTTTATTTGTTGAACC
128 ATTCTAAAAATTCATAACTAAGAGATTTAAAAAATAAATTTATCTGTTAAACC
* * * *
3893 AGTTTAAATAATTATA-ACTATTTGAACAATTATATATTTCAATTTGTTATAA-ACCTTTTATTT
1 AGTTTAAATAATTA-AGACTATTTGAAAAATTATCTATTTCAAATTGTTATAATA--TTTTGTTT
3956 TGTCATAAAA
63 TGTCATAAAA
3966 TAATACTAAT
Statistics
Matches: 211, Mismatches: 36, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
179 5 0.02
180 3 0.01
181 186 0.88
182 16 0.08
183 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (180 bp):
AGTTTAAATAATTAAGACTATTTGAAAAATTATCTATTTCAAATTGTTATAATATTTTGTTTTGT
CATAAAACAATTATTTCAGACGTATAAACTTATTCAAAATAAAATAAAACTAAATTAATAATATT
CTAAAAATTCATAACTAAGAGATTTAAAAAATAAATTTATCTGTTAAACC
Found at i:10113 original size:23 final size:25
Alignment explanation
Indices: 10061--10114 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
10051 ATATGGACAA
*
10061 ATTTGCTTGTGCTTGATATGCATAT
1 ATTTGATTGTGCTTGATATGCATAT
*
10086 GTTTGATTGTGCTT-ATATG-ATAT
1 ATTTGATTGTGCTTGATATGCATAT
10109 ATTTGA
1 ATTTGA
10115 CTAACATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 9 0.35
24 5 0.19
25 12 0.46
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.50
Consensus pattern (25 bp):
ATTTGATTGTGCTTGATATGCATAT
Found at i:11595 original size:15 final size:16
Alignment explanation
Indices: 11575--11609 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
11565 TATATTATCT
11575 ATATTATAA-TAAATA
1 ATATTATAACTAAATA
*
11590 ATATTATAACTAATTA
1 ATATTATAACTAAATA
11606 ATAT
1 ATAT
11610 ACAGTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTATAACTAAATA
Found at i:11873 original size:20 final size:19
Alignment explanation
Indices: 11841--11881 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
11831 TTAAATATTT
*
11841 TTTAATAAATTAATACTAA
1 TTTAATAAATTAATAATAA
*
11860 TTTACATAATTTAATAATAA
1 TTTA-ATAAATTAATAATAA
11880 TT
1 TT
11882 ATATATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAATAAATTAATAATAA
Found at i:12234 original size:21 final size:21
Alignment explanation
Indices: 12208--12275 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 21
12198 TATTATTGGT
*
12208 TAATATAAATATTATATATTA
1 TAATATAAAAATTATATATTA
*
12229 TAATATTTAAACA-TATAT-TTA
1 TAATA--TAAAAATTATATATTA
*
12250 TAATATAAAAATTA-A-AATA
1 TAATATAAAAATTATATATTA
12269 TAATATA
1 TAATATA
12276 TCTATATACT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 15 0.38
20 2 0.05
21 13 0.32
22 5 0.12
23 5 0.12
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
TAATATAAAAATTATATATTA
Found at i:12907 original size:22 final size:23
Alignment explanation
Indices: 12867--12909 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
12857 TAAAATAATC
*
12867 AGTTATAATCAAATTATTATATT
1 AGTTATAATCAAATAATTATATT
12890 AGTTATAAT-AAATAATTATA
1 AGTTATAATCAAATAATTATA
12910 ACAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (23 bp):
AGTTATAATCAAATAATTATATT
Found at i:13464 original size:14 final size:14
Alignment explanation
Indices: 13405--13461 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
13395 TGACATTATT
*
13405 TATAATTTATAATA
1 TATAATTAATAATA
* *
13419 TACTATTTGAACAATA
1 TA-TAATT-AATAATA
13435 GTATAATTAATAATA
1 -TATAATTAATAATA
13450 TATAATTCAATA
1 TATAATT-AATA
13462 TATTATCAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 9 0.26
15 14 0.41
16 9 0.26
17 2 0.06
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (14 bp):
TATAATTAATAATA
Found at i:13647 original size:18 final size:18
Alignment explanation
Indices: 13624--13675 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
13614 TTTTAACATA
13624 ATATAAAATTATTATAAT
1 ATATAAAATTATTATAAT
* *
13642 ATATAACATTATAAT-AT
1 ATATAAAATTATTATAAT
13659 ATATAATAATT-TTATAA
1 ATATAA-AATTATTATAA
13676 AATAACTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAAAATTATTATAAT
Found at i:13708 original size:22 final size:22
Alignment explanation
Indices: 13650--13714 Score: 55
Period size: 24 Copynumber: 2.9 Consensus size: 22
13640 ATATATAACA
13650 TTATAATATATATAATA--A-TT
1 TTATAATAT-TATAATACTATTT
* *
13670 TTATAAAATAACTTAATACTATTT
1 TTATAATATTA--TAATACTATTT
13694 TTATAATATTATAATAACTAT
1 TTATAATATTATAAT-ACTAT
13715 AAAATAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.03
20 8 0.23
21 5 0.14
22 4 0.11
23 6 0.17
24 11 0.31
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATAATATTATAATACTATTT
Found at i:13720 original size:41 final size:42
Alignment explanation
Indices: 13650--13755 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 42
13640 ATATATAACA
* *
13650 TTATAATATATATAATAATTTTATAAAATAACTTAATACTATT-T
1 TTATAATAT-TATAATAA-TCTATAAAATAA-ATAATACTATTGT
13694 TTATAATATTATAATAA-CTATAAAATAAATAATACTATTGT
1 TTATAATATTATAATAATCTATAAAATAAATAATACTATTGT
13735 TTATTACATAATTATAATAAT
1 TTA-TA-AT-ATTATAATAAT
13756 ATTGTATATT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
40 10 0.18
41 14 0.25
42 2 0.04
43 10 0.18
44 19 0.35
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (42 bp):
TTATAATATTATAATAATCTATAAAATAAATAATACTATTGT
Found at i:13783 original size:26 final size:26
Alignment explanation
Indices: 13721--13783 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
13711 CTATAAAATA
*
13721 AATAATACTATTGTTTATTACATAATT
1 AATAATA-TATTGTATATTACATAATT
*
13748 -ATAATAATATTGTATATTATA-AATCT
1 AATAAT-ATATTGTATATTACATAAT-T
13774 AATAATATAT
1 AATAATATAT
13784 ATAATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
25 3 0.10
26 22 0.71
27 6 0.19
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (26 bp):
AATAATATATTGTATATTACATAATT
Found at i:13886 original size:20 final size:20
Alignment explanation
Indices: 13861--13911 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 20
13851 ATACTAATAA
* *
13861 ATTAATTATTAATATTTATT
1 ATTAATTATTAATATTAAAT
13881 ATTAA-TATTAA-A-TAAAT
1 ATTAATTATTAATATTAAAT
13898 ATTAATTA-TAATAT
1 ATTAATTATTAATAT
13912 ATAATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
17 11 0.42
18 4 0.15
19 6 0.23
20 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTAATTATTAATATTAAAT
Found at i:13915 original size:20 final size:21
Alignment explanation
Indices: 13870--13934 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
13860 AATTAATTAT
*
13870 TAATAT-TTATTATTAATATTAAA
1 TAATATATTA-TATT-ATA-TATA
13893 TAA-ATATTA-ATTATAATATA
1 TAATATATTATATTAT-ATATA
13913 TAATTATATTATATTATATATA
1 TAA-TATATTATATTATATATA
13935 AATTGTTAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 13 0.36
23 11 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATATATTATATTATATATA
Found at i:13925 original size:13 final size:13
Alignment explanation
Indices: 13742--13926 Score: 65
Period size: 13 Copynumber: 14.7 Consensus size: 13
13732 TGTTTATTAC
*
13742 ATAAT-TATAATA
1 ATAATATATAATT
* *
13754 ATATTGTAT-ATT
1 ATAATATATAATT
* *
13766 ATAA-ATCTAATA
1 ATAATATATAATT
13778 AT-ATATATAATT
1 ATAATATATAATT
13790 ATTAATATATAATT
1 A-TAATATATAATT
* * *
13804 TTTATAT-TAAAT
1 ATAATATATAATT
*
13816 -TAATTTATTAATTT
1 ATAATATA-TAA-TT
13830 ATTTAA-ATA-AATT
1 A--TAATATATAATT
* * *
13843 ATAGAGATATACTA
1 ATA-ATATATAATT
13857 ATAA-AT-TAATT
1 ATAATATATAATT
*
13868 ATTAATAT-TTATT
1 A-TAATATATAATT
*
13881 ATTAATAT-TAAAT
1 A-TAATATATAATT
13894 A-AATAT-TAATT
1 ATAATATATAATT
13905 ATAATATATAATT
1 ATAATATATAATT
*
13918 ATATTATAT
1 ATAATATAT
13927 TATATATAAA
Statistics
Matches: 131, Mismatches: 24, Indels: 35
0.69 0.13 0.18
Matches are distributed among these distances:
11 23 0.18
12 35 0.27
13 50 0.38
14 18 0.14
16 2 0.02
17 3 0.02
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (13 bp):
ATAATATATAATT
Found at i:13925 original size:18 final size:18
Alignment explanation
Indices: 13885--13932 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
13875 TTTATTATTA
*
13885 ATATTA-AATAAAT-ATT
1 ATATTATAATATATAATT
13901 A-ATTATAATATATAATT
1 ATATTATAATATATAATT
*
13918 ATATTATATTATATA
1 ATATTATAATATATA
13933 TAAATTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
16 7 0.26
17 4 0.15
18 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATTATAATATATAATT
Found at i:14534 original size:39 final size:39
Alignment explanation
Indices: 14466--14544 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 39
14456 TTATTGTTCA
*
14466 TATATTATTATATAGTAAATTATTTAATTATTAAATATAAT
1 TATATTATTATATAGTAAATTATTAAATTATT--ATATAAT
*
14507 TATA-TATTATGTA-TAAATTATTAAATTATTATATAAT
1 TATATTATTATATAGTAAATTATTAAATTATTATATAAT
14544 T
1 T
14545 TAACTATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 8 0.22
39 16 0.44
40 8 0.22
41 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (39 bp):
TATATTATTATATAGTAAATTATTAAATTATTATATAAT
Found at i:16723 original size:11 final size:11
Alignment explanation
Indices: 16697--16729 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
16687 CTAATATATC
16697 ATAATTTAATT
1 ATAATTTAATT
*
16708 A-AATTTTATT
1 ATAATTTAATT
16718 ATAATTTAATT
1 ATAATTTAATT
16729 A
1 A
16730 CTTATACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATAATTTAATT
Found at i:16888 original size:19 final size:20
Alignment explanation
Indices: 16866--16910 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
16856 ATCTAATAGC
16866 TTAATTAT-ATTATAA-ATAA
1 TTAATTATAATTA-AACATAA
*
16885 TTAAATATAATTAAACATAA
1 TTAATTATAATTAAACATAA
16905 -TAATTA
1 TTAATTA
16911 ATAGTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTATAATTAAACATAA
Found at i:16906 original size:23 final size:22
Alignment explanation
Indices: 16879--16942 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
16869 ATTATATTAT
16879 AAATAATTAAATATAATTAAAC
1 AAATAATTAAATATAATTAAAC
16901 ATAATAATTAATAGTATAATT-AAC
1 A-AATAATTAA-A-TATAATTAAAC
*
16925 AAAT-ATTAAA-ATTATTAA
1 AAATAATTAAATATAATTAA
16943 TTATGAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 5 0.14
20 1 0.03
21 1 0.03
22 6 0.16
23 12 0.32
24 5 0.14
25 7 0.19
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATAATTAAATATAATTAAAC
Found at i:17371 original size:20 final size:21
Alignment explanation
Indices: 17328--17382 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
17318 AATTTATTAT
* *
17328 TAAAATAATATAATTATTTGA
1 TAAAATAATATAATTATATAA
*
17349 TAAAATACTA-AATTATATAA
1 TAAAATAATATAATTATATAA
* *
17369 TAATACAATATAAT
1 TAAAATAATATAAT
17383 AAAATTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAATAATATAATTATATAA
Found at i:17575 original size:27 final size:28
Alignment explanation
Indices: 17545--17640 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 28
17535 TAATCTTTAT
*
17545 TTAAATTAATTTAA-ATAATATTATTAT
1 TTAAATTAATTTAAGATAATATTATTAA
* * *
17572 TTAATAATAAATTAAGTATAATATAATTAA
1 TTAA-ATTAATTTAAG-ATAATATTATTAA
*
17602 TAAAATTATATTATATTAGATAATATTATTAA
1 TTAAATTA-ATT-TA--AGATAATATTATTAA
17634 TTAAATT
1 TTAAATT
17641 GTTTATTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
27 4 0.08
28 8 0.15
29 3 0.06
30 16 0.30
31 2 0.04
32 18 0.34
33 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
TTAAATTAATTTAAGATAATATTATTAA
Found at i:17616 original size:20 final size:20
Alignment explanation
Indices: 17588--17630 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
17578 ATAAATTAAG
17588 TATAATATAATTA-ATAAAAT
1 TATAATAT-ATTAGATAAAAT
* *
17608 TATATTATATTAGATAATAT
1 TATAATATATTAGATAAAAT
17628 TAT
1 TAT
17631 TAATTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TATAATATATTAGATAAAAT
Found at i:17617 original size:22 final size:22
Alignment explanation
Indices: 17566--17626 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
17556 TAAATAATAT
*
17566 TATTATTTAATAATAAATTAAG
1 TATTATATAATAATAAATTAAG
*
17588 TATAATATAATTAATAAAATT-A-
1 TATTATATAA-TAAT-AAATTAAG
17610 TATTATATTAGATAATA
1 TATTATA-TA-ATAATA
17627 TTATTAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 15 0.47
23 11 0.34
24 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (22 bp):
TATTATATAATAATAAATTAAG
Found at i:17821 original size:22 final size:23
Alignment explanation
Indices: 17775--17821 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
17765 ACATATATTA
* * *
17775 TAAATATAATTTTTTAAATAGAT
1 TAAATATAATTTATTAAAAACAT
17798 TAAATATAA-TTATTAAAAACAT
1 TAAATATAATTTATTAAAAACAT
17820 TA
1 TA
17822 TATCTATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAATATAATTTATTAAAAACAT
Found at i:18563 original size:25 final size:26
Alignment explanation
Indices: 18516--18609 Score: 79
Period size: 28 Copynumber: 3.5 Consensus size: 26
18506 GTCAATTATC
18516 ATTATATA-TAATGATATATATATAAAAT
1 ATTATATATTAAT-AT-T-TATATAAAAT
*
18544 ATTATA-ATTAATATTTATAT-AACT
1 ATTATATATTAATATTTATATAAAAT
*
18568 ATTAAATATTAA-ATTTATAATAAATATT
1 ATTATATATTAATATTTAT-ATAAA-A-T
18596 ATTATATATATAAT
1 ATTATATAT-TAAT
18610 TAGTAATATT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
24 14 0.26
25 12 0.22
26 3 0.06
27 3 0.06
28 19 0.35
29 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (26 bp):
ATTATATATTAATATTTATATAAAAT
Found at i:18607 original size:21 final size:23
Alignment explanation
Indices: 18574--18623 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
18564 AACTATTAAA
*
18574 TATTAAATTTATAA-TA-AATAT
1 TATTAAATATATAATTAGAATAT
*
18595 TATTATATATATAATTAGTAATAT
1 TATTAAATATATAATTAG-AATAT
18619 TATTA
1 TATTA
18624 GTTATACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.50
22 2 0.08
24 10 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTAAATATATAATTAGAATAT
Found at i:18622 original size:24 final size:24
Alignment explanation
Indices: 18590--18667 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 24
18580 ATTTATAATA
18590 AATATTATTATATATATAATTAGT
1 AATATTATTATATATATAATTAGT
18614 AATATTATTAGT-TATACTAATTAAGTT
1 AATATTATTA-TATATA-TAATT-AG-T
* * *
18641 AAGATTAATAATATAAATAATTA-T
1 AATATT-ATTATATATATAATTAGT
18665 AAT
1 AAT
18668 TATTTAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
24 17 0.39
25 6 0.14
26 3 0.07
27 12 0.27
28 6 0.14
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (24 bp):
AATATTATTATATATATAATTAGT
Found at i:19044 original size:22 final size:21
Alignment explanation
Indices: 18988--19044 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
18978 TATAATCTAA
*
18988 ATAAT-ATAATATTTTATTAT
1 ATAATAATAATATTTTACTAT
*
19008 -TAATAATTTATTATTTTACTAGT
1 ATAATAA--TAATATTTTACTA-T
19031 ATAATAATAATATT
1 ATAATAATAATATT
19045 ATTATAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
19 4 0.14
20 1 0.03
22 17 0.59
23 1 0.03
24 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAATAATAATATTTTACTAT
Found at i:19272 original size:15 final size:17
Alignment explanation
Indices: 19242--19278 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
19232 TTATATAGAT
19242 ATAATATAAGTATTATA
1 ATAATATAAGTATTATA
19259 ATAAT-TAA-TATTATA
1 ATAATATAAGTATTATA
*
19274 CTAAT
1 ATAAT
19279 GTTAATTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 11 0.58
16 3 0.16
17 5 0.26
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAATATAAGTATTATA
Found at i:19512 original size:13 final size:12
Alignment explanation
Indices: 19463--19524 Score: 54
Period size: 13 Copynumber: 5.0 Consensus size: 12
19453 ATAGTCATTA
19463 ATAATAATACTAT
1 ATAATAATA-TAT
* *
19476 ATATTAATATTT
1 ATAATAATATAT
*
19488 ATTAATATTATAT
1 A-TAATAATATAT
19501 ATAAATAATATA-
1 AT-AATAATATAT
*
19513 ATTATAATATAT
1 ATAATAATATAT
19525 TATACAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
11 8 0.21
12 6 0.15
13 25 0.64
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:19549 original size:29 final size:29
Alignment explanation
Indices: 19459--19586 Score: 81
Period size: 29 Copynumber: 4.4 Consensus size: 29
19449 TATTATAGTC
* *
19459 ATTAATA-ATAATACTATA-TATTAATATTT
1 ATTAATATATTATACAATATTATTAA-A-TT
*
19488 ATTAATATTATATATA-AATAATA-T-AATT
1 ATTAATA-TAT-TATACAATATTATTAAATT
19516 A-TAATATATTATACAATATTATTAAATT
1 ATTAATATATTATACAATATTATTAAATT
* * *
19544 ATTAATA-ATAAATACATTATTTACTTAATTAT
1 ATTAATATAT-TATACAATA-TTA-TTAAAT-T
19576 ATTAATATATT
1 ATTAATATATT
19587 TTGTTTAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
25 4 0.05
26 9 0.11
27 6 0.08
28 10 0.13
29 20 0.25
30 4 0.05
31 11 0.14
32 13 0.16
33 2 0.03
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTAATATATTATACAATATTATTAAATT
Found at i:19717 original size:16 final size:16
Alignment explanation
Indices: 19696--19736 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
19686 TATTCTTGTA
19696 TTATAATTATAGATAT
1 TTATAATTATAGATAT
**
19712 TTATAATTATATTTAT
1 TTATAATTATAGATAT
19728 TTATTAATT
1 TTA-TAATT
19737 CAATTCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTATAATTATAGATAT
Found at i:20307 original size:180 final size:180
Alignment explanation
Indices: 19917--20421 Score: 466
Period size: 180 Copynumber: 2.8 Consensus size: 180
19907 TTTATAGCAG
* * ** * *
19917 AACAAAAAGTTATAACGATTTAAAATAAATAATTTATTA-AATAGTCAT-AATAATTT-AACT-A
1 AACAAAAAGTCATAAGGATTTAAAATGCATAA-TTGTTATAATAGTCATAAAT-ATTTAAACTGG
* * * * *
19978 ACTTGATAAATAGATTTATTTTTTAAA--TC-T-CTTATTAGTTTTCAAAATATTAGTAGATTAG
64 A-TTGATAAACAAATTTA-TTTTTAAATCTCTTACTTATTAATTTTCAAAATATTAATAAATTAG
* * * ** * *
20039 TATTACTTTA-TTCTAAACAAACTTA-TATGAA-CAAAAACATTTGTTTTATGACAA
127 TATTATTTTATTTC-AAATAAGC-TAGTATGAATTGAAAA-TTTTGCTTTATGACAA
* * * *
20093 AACAAAAGGTCATAAGGATTTAAAATGCATAATTGTTCA-AATAGTCATAATTATTTGAATTGG-
1 AACAAAAAGTCATAAGGATTTAAAATGCATAATTGTT-ATAATAGTCATAAATATTTAAACTGGA
* **
20156 TTAGGTAAACATAATTT-TTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTTA-
65 TT-GATAAACA-AATTTATTTTTAAATCTCTTACTTATTAATTTTCAAAATATTAATAAA-TTAG
* *
20219 TTTTATTTTATTTCAAATAAGCTAGTATGAATTGAAAATTTTGCTTTATGATAA
127 TATTATTTTATTTCAAATAAGCTAGTATGAATTGAAAATTTTGCTTTATGACAA
* * * * *
20273 AACAAAAAGTCATAATGTTTTGAAATAG-ATAATTGTTATTATAGTCTTAAATATTTAAACTGGA
1 AACAAAAAGTCATAAGGATTTAAAAT-GCATAATTGTTATAATAGTCATAAATATTTAAACTGGA
* * * *
20337 TTGATAAACAAATTTATTTTTAATTCTCTTAGTTATTAATTTTCAAAATATTATTATATTAGTAT
65 TTGATAAACAAATTTATTTTTAAATCTCTTACTTATTAATTTTCAAAATATTAATAAATTAGTAT
20402 TATTTTATTTCAAATAAGCT
130 TATTTTATTTCAAATAAGCT
20422 TTCTATGAAC
Statistics
Matches: 267, Mismatches: 43, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
175 4 0.01
176 51 0.19
177 11 0.04
178 6 0.02
179 12 0.04
180 170 0.64
181 13 0.05
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (180 bp):
AACAAAAAGTCATAAGGATTTAAAATGCATAATTGTTATAATAGTCATAAATATTTAAACTGGAT
TGATAAACAAATTTATTTTTAAATCTCTTACTTATTAATTTTCAAAATATTAATAAATTAGTATT
ATTTTATTTCAAATAAGCTAGTATGAATTGAAAATTTTGCTTTATGACAA
Found at i:20542 original size:20 final size:20
Alignment explanation
Indices: 20517--20564 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
20507 TTAGTATAAA
20517 TATTAATAT-ATTATAAATAT
1 TATTAATATAATTA-AAATAT
20537 TATTAA-ATTAATTAAAATAT
1 TATTAATA-TAATTAAAATAT
20557 TA-TAATAT
1 TATTAATAT
20565 TATACTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 5 0.20
20 16 0.64
21 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTAATATAATTAAAATAT
Found at i:20546 original size:17 final size:16
Alignment explanation
Indices: 20511--20568 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 16
20501 ATTTATTTAG
*
20511 TATAAATATTAATATAT
1 TATAAATATT-ATAAAT
20528 TATAAATATTATTAAAT
1 TATAAATATTA-TAAAT
20545 TAATTAAAATATTATAATAT
1 T-A-T-AAATATTATAA-AT
20565 TATA
1 TATA
20569 CTTATAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 1 0.03
17 16 0.46
18 2 0.06
19 5 0.14
20 11 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAAATATTATAAAT
Found at i:20631 original size:17 final size:19
Alignment explanation
Indices: 20587--20634 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
20577 TATATTATAG
20587 TTATTATTTATAAATTAGT
1 TTATTATTTATAAATTAGT
*
20606 ATACCTTATTTAT-AATTA-T
1 TTA--TTATTTATAAATTAGT
20625 TTATTATTTA
1 TTATTATTTA
20635 AATAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 7 0.28
19 5 0.20
20 5 0.20
21 8 0.32
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
TTATTATTTATAAATTAGT
Found at i:20951 original size:18 final size:18
Alignment explanation
Indices: 20909--20951 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
20899 AATATATTTA
* *
20909 AATAATTAAATTAATTTAT
1 AATAA-TAAAATAATTAAT
*
20928 ATTAATAAAATAATTAAT
1 AATAATAAAATAATTAAT
20946 AATAAT
1 AATAAT
20952 CGAAGATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATAAAATAATTAAT
Found at i:21258 original size:20 final size:19
Alignment explanation
Indices: 21235--21289 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
21225 TAATATTCTT
*
21235 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
21255 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
21275 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
21290 CTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:21411 original size:21 final size:21
Alignment explanation
Indices: 21387--21441 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
21377 TAATAATTTC
21387 TTAATATTATTAACATAATGA
1 TTAATATTATTAACATAATGA
** *
21408 TTAATATTATTAGGATAATTA
1 TTAATATTATTAACATAATGA
21429 TATAATATTATTA
1 T-TAATATTATTA
21442 TATTTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (21 bp):
TTAATATTATTAACATAATGA
Found at i:21601 original size:13 final size:14
Alignment explanation
Indices: 21583--21631 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
21573 AATATTTAGA
21583 TAATTAA-TAATAT
1 TAATTAATTAATAT
21596 TAATTAATTAATAT
1 TAATTAATTAATAT
*
21610 TCTATTATATTAA-A-
1 T-AATTA-ATTAATAT
21624 TAATTAAT
1 TAATTAAT
21632 AAGAACGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 11 0.35
14 8 0.26
15 5 0.16
16 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTAATTAATAT
Found at i:22255 original size:20 final size:19
Alignment explanation
Indices: 22228--22281 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
22218 ATATAGTTAT
22228 TAATATTAATAAATTAATA
1 TAATATTAATAAATTAATA
22247 TAATCATTAATAAATTAA-A
1 TAAT-ATTAATAAATTAATA
22266 T-AT-TTAAT-AATTAATA
1 TAATATTAATAAATTAATA
22282 ATTTATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
18 2 0.06
19 6 0.18
20 13 0.39
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATATTAATAAATTAATA
Found at i:22278 original size:23 final size:23
Alignment explanation
Indices: 22227--22301 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
22217 TATATAGTTA
22227 TTAAT-ATTAATAAATT-AATA-
1 TTAATAATTAATAAATTAAATAT
*
22247 -TAATCATTAATAAATTAAATAT
1 TTAATAATTAATAAATTAAATAT
* *
22269 TTAATAATTAATAATTTATATAT
1 TTAATAATTAATAAATTAAATAT
22292 TT--TAATTAAT
1 TTAATAATTAAT
22302 TTATATTAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
19 4 0.08
20 11 0.23
21 12 0.25
23 21 0.44
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAATAATTAATAAATTAAATAT
Found at i:22483 original size:23 final size:23
Alignment explanation
Indices: 22448--22492 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
22438 TTATTAAATG
*
22448 AATTAAATAATAATTAAATATTT
1 AATTAAATAATAAATAAATATTT
* * *
22471 AATTAATTTATAAATAATTATT
1 AATTAAATAATAAATAAATATT
22493 AAAATTACTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTAAATAATAAATAAATATTT
Found at i:22776 original size:10 final size:10
Alignment explanation
Indices: 22761--22785 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22751 ACCAGTCATA
22761 TTAATTATCT
1 TTAATTATCT
22771 TTAATTATCT
1 TTAATTATCT
22781 TTAAT
1 TTAAT
22786 ATTAATTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
TTAATTATCT
Found at i:22936 original size:24 final size:26
Alignment explanation
Indices: 22877--22938 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
22867 TTTAATTATC
*
22877 TATTTTAATTGT-A-ATTATATAACTA
1 TATTTTAATT-TAATATTATATAACAA
*
22902 TATTTTTATTTAATATTATATAA-AA
1 TATTTTAATTTAATATTATATAACAA
22927 TA-TTTAATTTAA
1 TATTTTAATTTAA
22939 CAATTCAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 10 0.31
25 13 0.41
26 9 0.28
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
TATTTTAATTTAATATTATATAACAA
Found at i:24198 original size:16 final size:14
Alignment explanation
Indices: 24169--24214 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 14
24159 TACAAACTAG
24169 ATTAATTAAAATTA
1 ATTAATTAAAATTA
24183 ATTAATTACTAAATTA
1 ATTAATTA--AAATTA
*
24199 ATT-ACT-AAATTA
1 ATTAATTAAAATTA
24211 ATTA
1 ATTA
24215 TATAATAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 9 0.32
14 8 0.29
15 2 0.07
16 9 0.32
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTAATTAAAATTA
Found at i:24199 original size:12 final size:12
Alignment explanation
Indices: 24182--24214 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
24172 AATTAAAATT
24182 AATTAATTACTA
1 AATTAATTACTA
24194 AATTAATTACTA
1 AATTAATTACTA
24206 AATTAATTA
1 AATTAATTA
24215 TATAATAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTAATTACTA
Found at i:24254 original size:14 final size:14
Alignment explanation
Indices: 24237--24269 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
24227 TTATATATAA
*
24237 TAAATTATTATAGT
1 TAAATTATTATACT
24251 TAAA-TATTATACT
1 TAAATTATTATACT
24264 TAAATT
1 TAAATT
24270 TAATAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAATTATTATACT
Found at i:24453 original size:19 final size:18
Alignment explanation
Indices: 24430--24484 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
24420 ACAAATTGAT
24430 TTTAATATCATTAAATAA
1 TTTAATATCATTAAATAA
*
24448 TATTAATAAT-ATTTAATAA
1 T-TTAAT-ATCATTAAATAA
*
24467 TTT-TTATCA-TAAATAA
1 TTTAATATCATTAAATAA
24483 TT
1 TT
24485 AATTAGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 10 0.32
17 2 0.06
18 3 0.10
19 14 0.45
20 2 0.06
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAATATCATTAAATAA
Found at i:24628 original size:20 final size:19
Alignment explanation
Indices: 24588--24629 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 19
24578 TAATTATCAA
24588 AATATTATTAAATTAGTATT
1 AATATTATTAAATTAG-ATT
24608 AATATTATTTAATATTA-ATT
1 AATATTA-TTAA-ATTAGATT
24628 AA
1 AA
24630 AACAATAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 12 0.60
21 4 0.20
22 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AATATTATTAAATTAGATT
Found at i:26076 original size:22 final size:21
Alignment explanation
Indices: 26051--26127 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 21
26041 TTAATATTTA
26051 ATATTAATTAAT-TAAATTGATT
1 ATATTAATTAATAT-AATT-ATT
26073 ATATTAATTAATATAATTATT
1 ATATTAATTAATATAATTATT
*
26094 A-ATTAAGTTTAATATAA-TATA
1 ATATTAA--TTAATATAATTATT
26115 ATAATT-ATTAATA
1 AT-ATTAATTAATA
26128 AGATATAATA
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
20 11 0.22
21 8 0.16
22 26 0.53
23 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
ATATTAATTAATATAATTATT
Found at i:26078 original size:5 final size:4
Alignment explanation
Indices: 26053--26126 Score: 55
Period size: 4 Copynumber: 17.5 Consensus size: 4
26043 AATATTTAAT
*
26053 ATTA ATTA ATTAA ATTG ATTA TATTA ATTA ATATA ATT- ATTA ATTA AGTTTA
1 ATTA ATTA ATT-A ATTA ATTA -ATTA ATTA AT-TA ATTA ATTA ATTA A--TTA
26105 ATATA ATATA A-TA ATT- ATTA AT
1 AT-TA AT-TA ATTA ATTA ATTA AT
26127 AAGATATAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 18
0.75 0.03 0.23
Matches are distributed among these distances:
3 9 0.15
4 26 0.44
5 20 0.34
6 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:26111 original size:27 final size:25
Alignment explanation
Indices: 26076--26125 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
26066 ATTGATTATA
*
26076 TTAATTAATATAATTATTAATTAAGT
1 TTAATTAATATAATAATT-ATTAAGT
26102 TTAATATAATATAATAATTATTAA
1 TTAAT-TAATATAATAATTATTAA
26126 TAAGATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TTAATTAATATAATAATTATTAAGT
Found at i:26125 original size:20 final size:21
Alignment explanation
Indices: 26075--26138 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 21
26065 AATTGATTAT
*
26075 ATTAATTAATATAAT-TATTA
1 ATTAATTAATATAATATAATA
26095 ATTAAGTTTAATATAATATAATA
1 ATTAA--TTAATATAATATAATA
26118 ATT-ATTAATA-AGATATAATA
1 ATTAATTAATATA-ATATAATA
26138 A
1 A
26139 AGGATAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 20 0.51
22 11 0.28
23 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTAATTAATATAATATAATA
Found at i:26208 original size:10 final size:10
Alignment explanation
Indices: 26193--26227 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
26183 GAATAACAAT
26193 TAATTATTAA
1 TAATTATTAA
26203 TAATTATTAAA
1 TAATTATT-AA
*
26214 TAATTAATAA
1 TAATTATTAA
26224 TAAT
1 TAAT
26228 AATAATTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAATTATTAA
Found at i:26315 original size:18 final size:17
Alignment explanation
Indices: 26280--26335 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
26270 TAAATAATTG
26280 TAATTAATTATT-TATAA
1 TAATTAATTATTAT-TAA
26297 TAATTAATCTATTATTAA
1 TAATTAAT-TATTATTAA
26315 T-ATTATATTATTTATTAA
1 TAATTA-ATTA-TTATTAA
26333 TAA
1 TAA
26336 AGTAATCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
17 14 0.41
18 18 0.53
19 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATTAATTATTATTAA
Found at i:26428 original size:17 final size:17
Alignment explanation
Indices: 26406--26462 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
26396 ATTTATATTT
26406 TAATTAATTATGAATAA
1 TAATTAATTATGAATAA
* **
26423 TAATTAAAATATTCATAA
1 TAATT-AATTATGAATAA
*
26441 TTATCT-ATTATGAATAA
1 TAAT-TAATTATGAATAA
26458 TAATT
1 TAATT
26463 TAAAATTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
16 1 0.03
17 16 0.53
18 12 0.40
19 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (17 bp):
TAATTAATTATGAATAA
Found at i:26498 original size:15 final size:15
Alignment explanation
Indices: 26475--26509 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
26465 AAATTAATCT
*
26475 ATATATATTATTATA
1 ATATTTATTATTATA
26490 ATATTTATTATTATA
1 ATATTTATTATTATA
26505 ATATT
1 ATATT
26510 AAGGATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATTTATTATTATA
Found at i:27075 original size:23 final size:20
Alignment explanation
Indices: 27049--27102 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
27039 ATTAATAGTC
27049 AAATATTAACATTATTTTATTA
1 AAATATTAA-ATTA-TTTATTA
27071 AAA-A-TAAATTATTTATTA
1 AAATATTAAATTATTTATTA
27089 AAATATT-AATTATT
1 AAATATTAAATTATT
27103 AATGTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 10 0.33
19 12 0.40
20 4 0.13
21 1 0.03
22 3 0.10
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATATTAAATTATTTATTA
Found at i:27491 original size:38 final size:38
Alignment explanation
Indices: 27418--27491 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
27408 GGATAACAAA
* *
27418 ATTACTAATATTATAAAAATATTATAATAATATTAATT
1 ATTACTAATATTATAAAAATACTAGAATAATATTAATT
* *
27456 ATTAGTAATATTATAAATATTACTAGAATAA-ATTAA
1 ATTACTAATATTATAAA-AATACTAGAATAATATTAA
27492 ATAATGATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 21 0.68
39 10 0.32
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (38 bp):
ATTACTAATATTATAAAAATACTAGAATAATATTAATT
Found at i:28651 original size:21 final size:21
Alignment explanation
Indices: 28613--28652 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
28603 ATCATAAATT
*
28613 AAAATAATTTTAATTAATATG
1 AAAATAATTTTAACTAATATG
28634 AAAATAA-TTTATACTAATA
1 AAAATAATTTTA-ACTAATA
28653 ATATTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
AAAATAATTTTAACTAATATG
Found at i:29587 original size:18 final size:19
Alignment explanation
Indices: 29551--29593 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
29541 TATATAATAA
* *
29551 AATAATAAATTTAATTATT
1 AATAATAAATTAAAATATT
29570 AATAAT-AATTAAAATATT
1 AATAATAAATTAAAATATT
29588 AATAAT
1 AATAAT
29594 TTAATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAATAAATTAAAATATT
Found at i:29638 original size:29 final size:29
Alignment explanation
Indices: 29531--29669 Score: 135
Period size: 29 Copynumber: 4.7 Consensus size: 29
29521 ATTTGAATTA
* *
29531 TAATAATTTATATATAATAAAATAATAA-AT
1 TAATAA-TTATTTATAATAATATAA-AATAT
*
29561 T--TAATTATTAATAATAAT-TAAAATAT
1 TAATAATTATTTATAATAATATAAAATAT
29587 TAATAATTTAATTTATATTATAATATAAAATAT
1 TAATAA-TT-ATTTATA--ATAATATAAAATAT
29620 TGAATAATT-TTTATAATAATATAAAATAT
1 T-AATAATTATTTATAATAATATAAAATAT
*
29649 TAATATATAATTTATAATAAT
1 TAATA-ATTATTTATAATAAT
29670 TTTAATAAGA
Statistics
Matches: 93, Mismatches: 5, Indels: 22
0.77 0.04 0.18
Matches are distributed among these distances:
25 2 0.02
26 6 0.06
27 11 0.12
28 10 0.11
29 19 0.20
30 18 0.19
31 6 0.06
32 5 0.05
33 11 0.12
34 5 0.05
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (29 bp):
TAATAATTATTTATAATAATATAAAATAT
Found at i:29675 original size:9 final size:10
Alignment explanation
Indices: 29528--29677 Score: 53
Period size: 10 Copynumber: 14.9 Consensus size: 10
29518 ATTATTTGAA
29528 TTATAATAAT
1 TTATAATAAT
29538 TTATATATAAT
1 TTATA-ATAAT
** *
29549 AAAATAATAAA
1 -TTATAATAAT
*
29560 TT-TAATTAT
1 TTATAATAAT
*
29569 TAATAATAA-
1 TTATAATAAT
*
29578 TTAAAAT-AT
1 TTATAATAAT
*
29587 TAATAATTTAAT
1 TTATAA--TAAT
29599 TTATATTATAAT
1 TTATA--ATAAT
* *
29611 ATAAAAT-AT
1 TTATAATAAT
* *
29620 TGAATAAT-TT
1 T-TATAATAAT
29630 TTATAATAAT
1 TTATAATAAT
* *
29640 ATAAAAT-AT
1 TTATAATAAT
*
29649 TAATATATAAT
1 TTATA-ATAAT
29660 TTATAATAAT
1 TTATAATAAT
29670 TT-TAATAA
1 TTATAATAA
29678 GATATAATAT
Statistics
Matches: 99, Mismatches: 28, Indels: 27
0.64 0.18 0.18
Matches are distributed among these distances:
8 1 0.01
9 32 0.32
10 33 0.33
11 16 0.16
12 16 0.16
14 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (10 bp):
TTATAATAAT
Found at i:29723 original size:21 final size:21
Alignment explanation
Indices: 29680--29784 Score: 58
Period size: 21 Copynumber: 5.0 Consensus size: 21
29670 TTTAATAAGA
*
29680 TATAATATTTCTATTTTATAT
1 TATAATATTTATATTTTATAT
*
29701 TATAATATTTATTTATTTA-AT
1 TATAATATTTATAT-TTTATAT
** *
29722 TAT-ATAAATATAATTTGT-TAA
1 TATAATATTTAT-ATTT-TATAT
* *
29743 TATTATAATT-TATTTTATTAT
1 TATAATATTTATATTTTA-TAT
**
29764 TATAA-ATTTATAAATTATAT
1 TATAATATTTATATTTTATAT
29784 T
1 T
29785 TTATAATGAT
Statistics
Matches: 64, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
19 1 0.02
20 19 0.30
21 35 0.55
22 9 0.14
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (21 bp):
TATAATATTTATATTTTATAT
Found at i:29840 original size:6 final size:6
Alignment explanation
Indices: 29829--29901 Score: 66
Period size: 6 Copynumber: 12.8 Consensus size: 6
29819 ATAATAATTT
* *
29829 ATTATA ATTATA ATTAT- ATTATT A-TATT ATTATA ATTAT- -TTATA
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA
* *
29873 ATTAT- ATTCATA ACTATA TTTATA ATTAT
1 ATTATA ATT-ATA ATTATA ATTATA ATTAT
29902 TTAATATGGA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.07
5 13 0.23
6 37 0.66
7 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (6 bp):
ATTATA
Found at i:29846 original size:12 final size:11
Alignment explanation
Indices: 29829--29901 Score: 78
Period size: 12 Copynumber: 6.5 Consensus size: 11
29819 ATAATAATTT
29829 ATTATAATTATA
1 ATTAT-ATTATA
*
29841 ATTATATTATT
1 ATTATATTATA
29852 A-TATTATTATA
1 ATTA-TATTATA
29863 ATTAT-TTATA
1 ATTATATTATA
29873 ATTATATTCATA
1 ATTATATT-ATA
*
29885 ACTATATTTATA
1 ATTATA-TTATA
29897 ATTAT
1 ATTAT
29902 TTAATATGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
10 12 0.23
11 16 0.31
12 22 0.42
13 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTATATTATA
Found at i:29998 original size:15 final size:15
Alignment explanation
Indices: 29980--30031 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
29970 GTATATAAAT
* *
29980 TATTATAATTTAATA
1 TATTACAATATAATA
29995 TATTACAATATAATA
1 TATTACAATATAATA
* *
30010 TAATACATTGAGTAATA
1 TATTACAAT-A-TAATA
30027 TATTA
1 TATTA
30032 GATTACTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 20 0.67
16 1 0.03
17 9 0.30
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (15 bp):
TATTACAATATAATA
Found at i:30533 original size:30 final size:33
Alignment explanation
Indices: 30485--30550 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 33
30475 ATCAGTTCAA
*
30485 ATAATAATAATTATTATATTA-TA-TATA-AAT
1 ATAATAATAATTACTATATTATTAGTATATAAT
30515 ATAAT-ATAATTTACTATATTATTAGTATATAAT
1 ATAATAATAA-TTACTATATTATTAGTATATAAT
30548 ATA
1 ATA
30551 TTTAATTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 4 0.13
30 15 0.48
31 2 0.06
32 4 0.13
33 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (33 bp):
ATAATAATAATTACTATATTATTAGTATATAAT
Found at i:30560 original size:28 final size:28
Alignment explanation
Indices: 30513--30566 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
30503 TTATATATAA
*
30513 ATATAATATAATTTACTATATTATTAGT
1 ATATAATATAATTTACTATATAATTAGT
*
30541 ATATAATAT-ATTTAATTATATAATTA
1 ATATAATATAATTT-ACTATATAATTA
30567 AATAGTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
ATATAATATAATTTACTATATAATTAGT
Found at i:30957 original size:15 final size:15
Alignment explanation
Indices: 30930--30969 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
30920 TATATTTTTG
30930 TTAATTCAATTAA-AT
1 TTAATT-AATTAATAT
30945 ATTAATTAATTAATAT
1 -TTAATTAATTAATAT
30961 TTAATTAAT
1 TTAATTAAT
30970 AAACAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATTAATTAATAT
Found at i:31063 original size:25 final size:25
Alignment explanation
Indices: 31027--31075 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
31017 AAAAAACCTT
*
31027 ATTTTAATTATAAGCATTATTATAA
1 ATTTTAATTATAAGAATTATTATAA
*
31052 ATTTATAA-TATAATAATTATTATA
1 ATTT-TAATTATAAGAATTATTATA
31076 TTATATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
ATTTTAATTATAAGAATTATTATAA
Found at i:31353 original size:33 final size:36
Alignment explanation
Indices: 31290--31364 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 36
31280 AACTAATTTA
*
31290 ATAATAATATATAAAATATTAATTAATTAATAACTT
1 ATAATTATATATAAAATATTAATTAATTAATAACTT
* **
31326 ATAATTATATAT-AAATA-TAATT-GTTAATATTTT
1 ATAATTATATATAAAATATTAATTAATTAATAACTT
31359 ATAATT
1 ATAATT
31365 TTAAATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 14 0.40
34 5 0.14
35 5 0.14
36 11 0.31
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (36 bp):
ATAATTATATATAAAATATTAATTAATTAATAACTT
Found at i:31473 original size:15 final size:14
Alignment explanation
Indices: 31455--31512 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 14
31445 ATAAATTGTT
31455 ATATTATTAATTATA
1 ATATTA-TAATTATA
31470 ATATTAATAATTCA-A
1 ATATT-ATAATT-ATA
*
31485 ATAATTAAAATTATA
1 AT-ATTATAATTATA
31500 ATATTATAATTAT
1 ATATTATAATTAT
31513 TATAATCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 11 0.30
15 21 0.57
16 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTATAATTATA
Found at i:32658 original size:24 final size:24
Alignment explanation
Indices: 32631--32676 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
32621 CTTTATTTTG
32631 TTTATCT-AAATGTAATCAAATTAA
1 TTTATCTCAAAT-TAATCAAATTAA
* *
32655 TTTATTTCAAATTAATTAAATT
1 TTTATCTCAAATTAATCAAATT
32677 TAAATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTATCTCAAATTAATCAAATTAA
Found at i:32933 original size:27 final size:27
Alignment explanation
Indices: 32864--32938 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
32854 GTATAATTAT
32864 ATTAATTATAATTAATTAATAAATTAAGATA
1 ATTAATTA-AA-T-ATTAAT-AATTAAGATA
*
32895 ATTAATTTAATATTAATAATTAAG-TA
1 ATTAATTAAATATTAATAATTAAGATA
32921 ATTTAATTAAATA-TAATA
1 A-TTAATTAAATATTAATA
32939 TAATATAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 8 0.20
27 17 0.41
28 6 0.15
29 1 0.02
30 2 0.05
31 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
ATTAATTAAATATTAATAATTAAGATA
Found at i:33135 original size:17 final size:19
Alignment explanation
Indices: 33103--33141 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
33093 ATTTATTAAT
33103 ATTTTAATATTAATTATAA
1 ATTTTAATATTAATTATAA
33122 ATTTT-ATA-TAATTATAA
1 ATTTTAATATTAATTATAA
33139 ATT
1 ATT
33142 AGTTAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.60
18 3 0.15
19 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTAATATTAATTATAA
Found at i:33353 original size:23 final size:24
Alignment explanation
Indices: 33312--33356 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
33302 TAATATATTA
33312 ATTATTAATTAAATATTTTATAAT
1 ATTATTAATTAAATATTTTATAAT
33336 ATTATTAATT-AATATTTTATA
1 ATTATTAATTAAATATTTTATA
33357 TTGATCGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTATTAATTAAATATTTTATAAT
Found at i:34218 original size:17 final size:17
Alignment explanation
Indices: 34172--34245 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 17
34162 TCTCAATTTA
34172 TAATTATAATATAGTTAT
1 TAATTATAATATA-TTAT
34190 AACTAATTATAATATATTAT
1 ---TAATTATAATATATTAT
*
34210 TAATAATAACTATAAATTAAT
1 TAATTATAA-TAT--ATT-AT
34231 TAATTATAATA-ATTA
1 TAATTATAATATATTA
34246 ACAAACTACA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
16 1 0.02
17 11 0.23
18 3 0.06
20 9 0.19
21 23 0.49
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (17 bp):
TAATTATAATATATTAT
Found at i:34787 original size:17 final size:18
Alignment explanation
Indices: 34767--34812 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
34757 CTATTAACTT
34767 ATATATTTAATTAA-TTA
1 ATATATTTAATTAAGTTA
*
34784 ATATA-TTAAATAAGTTA
1 ATATATTTAATTAAGTTA
34801 ATATTATTTAAT
1 ATA-TATTTAAT
34813 ATGTAGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 7 0.29
17 11 0.46
18 2 0.08
19 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATATATTTAATTAAGTTA
Found at i:34881 original size:11 final size:12
Alignment explanation
Indices: 34846--34887 Score: 59
Period size: 11 Copynumber: 3.5 Consensus size: 12
34836 TATTATTTTG
*
34846 TATAATTATATAT
1 TATAATAATA-AT
34859 TATAATAATAAT
1 TATAATAATAAT
34871 TATAA-AATAAT
1 TATAATAATAAT
34882 TATAAT
1 TATAAT
34888 TTAGTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.41
12 7 0.26
13 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TATAATAATAAT
Found at i:34888 original size:6 final size:6
Alignment explanation
Indices: 34846--34888 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
34836 TATTATTTTG
* *
34846 TATAAT TATATAT TATAAT AATAAT TATAA- AATAAT TATAAT T
1 TATAAT TATA-AT TATAAT TATAAT TATAAT TATAAT TATAAT T
34889 TAGTTGATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 4 0.13
6 21 0.68
7 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TATAAT
Found at i:35334 original size:15 final size:16
Alignment explanation
Indices: 35305--35343 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
35295 TTTTTATTTA
35305 ATAATTATATATTAAAT
1 ATAA-TATATATTAAAT
*
35322 ATAATATAT-TTAATT
1 ATAATATATATTAAAT
35337 ATAATAT
1 ATAATAT
35344 TATCTAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAATATATATTAAAT
Found at i:36320 original size:16 final size:16
Alignment explanation
Indices: 36301--36443 Score: 51
Period size: 16 Copynumber: 9.2 Consensus size: 16
36291 ATTATTAAGT
36301 TATAATTATATATAAA
1 TATAATTATATATAAA
*
36317 TATAGA-TATA-AT--T
1 TATA-ATTATATATAAA
* *
36330 TACAATTATA-ATAAT
1 TATAATTATATATAAA
36345 TATAATTATATTATAGTAA
1 TATAATTATA-TATA--AA
36364 TAATAATTACTAGT-TACAA
1 T-ATAATTA-TA-TATA-AA
*
36383 TAT-ATTTTATA-AAA
1 TATAATTATATATAAA
*
36397 AATAA--ATA-ACT-AA
1 TATAATTATATA-TAAA
*
36410 TAT-ATTATATATTAA
1 TATAATTATATATAAA
*
36425 TATAATTATATTTAAA
1 TATAATTATATATAAA
36441 TAT
1 TAT
36444 TTAAAATTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 38
0.66 0.08 0.26
Matches are distributed among these distances:
12 3 0.03
13 15 0.16
14 8 0.08
15 21 0.22
16 23 0.24
17 7 0.07
18 2 0.02
19 5 0.05
20 9 0.09
21 3 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (16 bp):
TATAATTATATATAAA
Found at i:36359 original size:20 final size:20
Alignment explanation
Indices: 36334--36372 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36324 ATAATTTACA
*
36334 ATTATAATAATTATAATTAT
1 ATTATAATAATAATAATTAT
*
36354 ATTATAGTAATAATAATTA
1 ATTATAATAATAATAATTA
36373 CTAGTTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
ATTATAATAATAATAATTAT
Found at i:36427 original size:15 final size:14
Alignment explanation
Indices: 36407--36444 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
36397 AATAAATAAC
36407 TAATATATTATATAT
1 TAATATATTATAT-T
36422 TAATATAATTATATT
1 TAATAT-ATTATATT
36437 TAA-ATATT
1 TAATATATT
36445 TAAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 2 0.09
15 10 0.45
16 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATATATTATATT
Found at i:36920 original size:22 final size:22
Alignment explanation
Indices: 36888--36930 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36878 TATAAACAAT
*
36888 TATTATTGTATTAATTT-AATAA
1 TATTATAGTATT-ATTTGAATAA
36910 TATTATAGTATTATTTGAATA
1 TATTATAGTATTATTTGAATA
36931 TAACTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATTATAGTATTATTTGAATAA
Found at i:37110 original size:32 final size:38
Alignment explanation
Indices: 37072--37156 Score: 101
Period size: 39 Copynumber: 2.4 Consensus size: 38
37062 TGTTATTAGT
*
37072 AATAATAA-T-ATATATT-ATTATT-AAT-TT-ATTAA
1 AATAATAATTAATAAATTGATTATTAAATATTCATTAA
37104 AATAATAATTAATAAATTGATTATTAAAATATTCATTAA
1 AATAATAATTAATAAATTGATTATT-AAATATTCATTAA
*
37143 AATAATTATTAATA
1 AATAATAATTAATA
37157 TTTATAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 8 0.18
33 1 0.02
34 6 0.14
35 6 0.14
37 3 0.07
38 2 0.05
39 18 0.41
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (38 bp):
AATAATAATTAATAAATTGATTATTAAATATTCATTAA
Found at i:37141 original size:12 final size:12
Alignment explanation
Indices: 37099--37186 Score: 54
Period size: 12 Copynumber: 6.9 Consensus size: 12
37089 TTATTAATTT
*
37099 ATTAAAATAATA
1 ATTAAAATATTA
37111 ATTAATAA-ATTGA
1 ATTAA-AATATT-A
*
37124 TTATTAAAATATTC
1 --ATTAAAATATTA
37138 ATTAAAATAATT-
1 ATTAAAAT-ATTA
* *
37150 ATTAATATTTATA
1 ATTAAAATAT-TA
*
37163 ATTTAAATATTA
1 ATTAAAATATTA
37175 ATTATAAATATT
1 ATTA-AAATATT
37187 TACCTTATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
11 1 0.02
12 28 0.47
13 20 0.34
14 2 0.03
15 8 0.14
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (12 bp):
ATTAAAATATTA
Found at i:37153 original size:27 final size:27
Alignment explanation
Indices: 37097--37153 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
37087 TATTATTAAT
*
37097 TTATTAAAATAATAATTAATAAATTGA
1 TTATTAAAATAATAATTAAAAAATTGA
* *
37124 TTATTAAAATATTCATTAAAATAATT-A
1 TTATTAAAATAATAATTAAAA-AATTGA
37151 TTA
1 TTA
37154 ATATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TTATTAAAATAATAATTAAAAAATTGA
Found at i:37639 original size:15 final size:16
Alignment explanation
Indices: 37617--37660 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
37607 AACAATCTTA
37617 ATTATTAATATTTTAC-
1 ATTATTAATATTTT-CT
37633 A-TATTAATATATTTCT
1 ATTATTAATAT-TTTCT
37649 ATTATTAATATT
1 ATTATTAATATT
37661 AACAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.40
16 6 0.24
17 9 0.36
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTAATATTTTCT
Found at i:37970 original size:17 final size:18
Alignment explanation
Indices: 37948--37981 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37938 AATACAAATT
*
37948 ATTATTATTTA-ATTTAA
1 ATTATTAATTATATTTAA
37965 ATTATTAATTATATTTA
1 ATTATTAATTATATTTA
37982 TTAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATTAATTATATTTAA
Found at i:38180 original size:15 final size:15
Alignment explanation
Indices: 38160--38193 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38150 CAATATAAAA
38160 TTATTA-TTCAAATAC
1 TTATTAGTT-AAATAC
38175 TTATTAGTTAAATAC
1 TTATTAGTTAAATAC
38190 TTAT
1 TTAT
38194 AATTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (15 bp):
TTATTAGTTAAATAC
Found at i:38433 original size:16 final size:15
Alignment explanation
Indices: 38414--38470 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 15
38404 GAATATAAAC
*
38414 AATTTATAATTAGTTA
1 AATTAATAATTA-TTA
38430 AATTAATAATTA-T-
1 AATTAATAATTATTA
38443 AATT-ATAATTAATTTA
1 AATTAATAATT-A-TTA
38459 AATTAATAATTA
1 AATTAATAATTA
38471 AATTTATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 6 0.17
13 5 0.14
14 1 0.03
15 1 0.03
16 16 0.46
17 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AATTAATAATTATTA
Found at i:38459 original size:29 final size:29
Alignment explanation
Indices: 38414--38484 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
38404 GAATATAAAC
38414 AATTTATAATT-AGTTAAATTAATAATTA
1 AATTTATAATTAAGTTAAATTAATAATTA
*
38442 TAA-TTATAATTAATTTAAATTAATAATTA
1 -AATTTATAATTAAGTTAAATTAATAATTA
38471 AATTTATTAATTAA
1 AATTTA-TAATTAA
38485 CCAAATAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
28 10 0.26
29 21 0.55
30 7 0.18
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (29 bp):
AATTTATAATTAAGTTAAATTAATAATTA
Found at i:38490 original size:29 final size:29
Alignment explanation
Indices: 38429--38497 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
38419 ATAATTAGTT
**
38429 AAATTAATAATTATAATTATAATTAATTT
1 AAATTAATAATTATAATTATAATTAATCC
38458 AAATTAATAATTA-AATTTATTAATTAA-CC
1 AAATTAATAATTATAA-TTA-TAATTAATCC
*
38487 AAATAAATAAT
1 AAATTAATAAT
38498 AATTATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.06
29 26 0.74
30 7 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
AAATTAATAATTATAATTATAATTAATCC
Found at i:39287 original size:14 final size:13
Alignment explanation
Indices: 39221--39291 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 13
39211 AATAATTTAA
*
39221 ATTAATGTAA-TT
1 ATTAATATAATTT
39233 ATTAATATTAATCGTT
1 ATTAATA-TAAT--TT
39249 ATTCTAAT-TAATTT
1 A-T-TAATATAATTT
39263 ATTAATATAATTT
1 ATTAATATAATTT
*
39276 ATCTATTATAATTT
1 AT-TAATATAATTT
39290 AT
1 AT
39292 ATTAAATGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
12 10 0.20
13 12 0.24
14 15 0.31
16 7 0.14
17 1 0.02
18 4 0.08
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (13 bp):
ATTAATATAATTT
Found at i:39287 original size:27 final size:29
Alignment explanation
Indices: 39223--39291 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
39213 TAATTTAAAT
39223 TAATGTAA-TTATTAATATTAATCGTTATTC
1 TAAT-TAATTTATTAATATTAATC-TTATTC
39253 TAATTAATTTATTAATA-TAAT-TTA-TC
1 TAATTAATTTATTAATATTAATCTTATTC
*
39279 TATTATAATTTAT
1 TAAT-TAATTTAT
39292 ATTAAATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 5 0.14
27 11 0.31
29 7 0.19
30 13 0.36
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (29 bp):
TAATTAATTTATTAATATTAATCTTATTC
Found at i:39739 original size:17 final size:18
Alignment explanation
Indices: 39717--39750 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39707 GTTAAATTAG
39717 AAATTTAC-AAATTAATT
1 AAATTTACAAAATTAATT
*
39734 AAATTTTCAAAATTAAT
1 AAATTTACAAAATTAAT
39751 AAAGTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTTACAAAATTAATT
Found at i:40546 original size:20 final size:19
Alignment explanation
Indices: 40523--40577 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
40513 TAATATTATT
*
40523 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
40543 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
40563 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
40578 CTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:40841 original size:21 final size:21
Alignment explanation
Indices: 40794--40858 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 21
40784 TATAAAATAG
40794 ATAAT-AATAGATATAATTA-
1 ATAATCAATAGATATAATTAT
*
40813 A-ACA-CAATAGAGATAATTAT
1 ATA-ATCAATAGATATAATTAT
*
40833 ATAATCAATATATATAATTAGT
1 ATAATCAATAGATATAATTA-T
40855 ATAA
1 ATAA
40859 ATATTAAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 1 0.03
19 15 0.41
20 2 0.05
21 14 0.38
22 5 0.14
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (21 bp):
ATAATCAATAGATATAATTAT
Found at i:40951 original size:24 final size:24
Alignment explanation
Indices: 40894--40961 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
40884 TTGTTATATA
40894 AATTTATATTA-ATATAA-AATTTT
1 AATTTAT-TTATATATAATAATTTT
40917 AATATTA-TTATATATAATAATTATT
1 AAT-TTATTTATATATAATAATT-TT
* *
40942 -ATTTATTTATAAATTATAAT
1 AATTTATTTATATATAATAAT
40962 AATATATACT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 3 0.08
23 12 0.32
24 21 0.55
25 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTTATTTATATATAATAATTTT
Found at i:40975 original size:34 final size:34
Alignment explanation
Indices: 40912--41002 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 34
40902 TTAATATAAA
*
40912 ATTT-TAATATTATTAT-ATATAATAATTATTATTT
1 ATTTATAA-ATTATAATAATAT-ATAATTATTATTT
*
40946 ATTTATAAATTATAATAATATATACTTATTATTT
1 ATTTATAAATTATAATAATATATAATTATTATTT
* * *
40980 AATAACAAATTA-ATATAATATAT
1 ATTTATAAATTATA-ATAATATAT
41003 TAATATCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
33 1 0.02
34 41 0.84
35 7 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (34 bp):
ATTTATAAATTATAATAATATATAATTATTATTT
Found at i:41269 original size:25 final size:25
Alignment explanation
Indices: 41226--41277 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
41216 TATAATATAA
41226 ATAAATAATTATATAAATTTAT-ATT
1 ATAAATAATTATATAAA-TTATGATT
*
41251 ATAAATTATTATA-ATAATTATGATT
1 ATAAATAATTATATA-AATTATGATT
41276 AT
1 AT
41278 TTATTTATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATAAATAATTATATAAATTATGATT
Found at i:41280 original size:34 final size:33
Alignment explanation
Indices: 41206--41286 Score: 87
Period size: 34 Copynumber: 2.5 Consensus size: 33
41196 TAATTTATTC
41206 ATTATTTA-ATTATAATATAAATAAATAATTAT
1 ATTATTTATATTATAATATAAATAAATAATTAT
* * *
41238 ATAAATTTATATTATAA-ATTATTATAATAATTAT
1 AT-TATTTATATTATAATATAAATA-AATAATTAT
41272 GATTATTTAT-TTATA
1 -ATTATTTATATTATA
41287 GCTTAGTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
32 2 0.05
33 15 0.37
34 22 0.54
35 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (33 bp):
ATTATTTATATTATAATATAAATAAATAATTAT
Found at i:42531 original size:23 final size:24
Alignment explanation
Indices: 42505--42564 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
42495 TAATCAAATA
*
42505 AATATTAATTAT-TTAAATATTTT
1 AATATTAATTATATTAAATATTAT
* * *
42528 AATAATAA-AATATTAATTATTAT
1 AATATTAATTATATTAAATATTAT
42551 AATATTTAATTATA
1 AATA-TTAATTATA
42565 ATTATAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 2 0.07
23 20 0.71
24 3 0.11
25 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AATATTAATTATATTAAATATTAT
Found at i:42542 original size:31 final size:30
Alignment explanation
Indices: 42504--42565 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 30
42494 TTAATCAAAT
42504 AAATATTAATTATT-TAAATATTTTAATAATA
1 AAATATTAATTATTAT-AATA-TTTAATAATA
*
42535 AAATATTAATTATTATAATATTTAATTATA
1 AAATATTAATTATTATAATATTTAATAATA
42565 A
1 A
42566 TTATAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 10 0.34
31 18 0.62
32 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
AAATATTAATTATTATAATATTTAATAATA
Found at i:42575 original size:16 final size:16
Alignment explanation
Indices: 42526--42576 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
42516 TTTAAATATT
*
42526 TTAATAATAA-AAT-A
1 TTAATTATAATAATAA
* *
42540 TTAATTATTATAATAT
1 TTAATTATAATAATAA
*
42556 TTAATTATAATTATAA
1 TTAATTATAATAATAA
42572 TTAAT
1 TTAAT
42577 AAATGCTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 8 0.28
15 3 0.10
16 18 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAATTATAATAATAA
Found at i:42712 original size:22 final size:21
Alignment explanation
Indices: 42681--42721 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
42671 TTAAAATATT
42681 ATAAACATTAATAATATAATTG
1 ATAAACATTAAT-ATATAATTG
*
42703 ATAAATATTAATATATAAT
1 ATAAACATTAATATATAAT
42722 AATTAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAAACATTAATATATAATTG
Found at i:42730 original size:22 final size:21
Alignment explanation
Indices: 42678--42730 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
42668 TATTTAAAAT
*
42678 ATTATAAACATTAATAATATA
1 ATTATAAATATTAATAATATA
42699 ATTGATAAATATTAATATATAATA
1 ATT-ATAAATATTAATA-AT-ATA
42723 ATTA-AAAT
1 ATTATAAAT
42731 CATTGTGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 16 0.57
23 3 0.11
24 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTATAAATATTAATAATATA
Found at i:43293 original size:181 final size:181
Alignment explanation
Indices: 42989--43445 Score: 425
Period size: 181 Copynumber: 2.5 Consensus size: 181
42979 TCTGAACACG
* *
42989 TTCAAA-TAGTTATAACCCTTTTGTTTTGTCATAAACCAATTGTTTCTATTCATACAAATGTATT
1 TTCAAATTAGTTATGA--CTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAATGTATT
** *
43053 CAAAATAAAATAACACTAATTTCTTAATATTTCAAAAATTAATGACTAAAAAATTTAAAAAATAA
64 CAAAATAAAATAACACTAATTGATTAATATCTCAAAAATTAATGACTAAAAAATTTAAAAAATAA
* *** * **
43118 ATCT-GTTACCGAGTTAGTTTAAATCA-TCATGAT-TGTTTGAACAATTATTTAT
129 ATATAGTTACCGAACAAGTTCAAAT-AGTCATG-TCCATTTGAACAATTATTTAT
* *
43170 TTCAAATTAGTTATGATCTTTTGTTTTGTCCTAAAACAATTGTTTCTATTCATACAAGT-TCATT
1 TTCAAATTAGTTATGA-CTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAATGT-ATT
*** * * * ** *
43234 TGGAATAAAATAATACTAATTGATTAATA-CTCTAAAAATTAGT-AGGTAGGAGATTTAAAAAAT
64 CAAAATAAAATAACACTAATTGATTAATATCTC-AAAAATTAATGA-CTAAAAAATTTAAAAAAT
* **
43297 AAATATATTTGTCGAACAAGTTCAAATAGTCATGTCCATTTGAACAATTATTTAT
127 AAATATAGTTACCGAACAAGTTCAAATAGTCATGTCCATTTGAACAATTATTTAT
* *
43352 TT-TAATTCA-TTATGACATTTTTATTTTGTCATAAAACAATTGTTTCTATTCATGTA-AAAT-T
1 TTCAAATT-AGTTATGAC--TTTTGTTTTGTCATAAAACAATTGTTTCTATTCA--TACAAATGT
* * *
43413 ATTCAGAATAAAATAATACTGATCT-ATTAATAT
61 ATTCAAAATAAAATAACACTAAT-TGATTAATAT
43446 TTTGAAAATT
Statistics
Matches: 228, Mismatches: 34, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
180 5 0.02
181 111 0.49
182 105 0.46
183 5 0.02
184 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (181 bp):
TTCAAATTAGTTATGACTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAATGTATTCA
AAATAAAATAACACTAATTGATTAATATCTCAAAAATTAATGACTAAAAAATTTAAAAAATAAAT
ATAGTTACCGAACAAGTTCAAATAGTCATGTCCATTTGAACAATTATTTAT
Found at i:43682 original size:137 final size:135
Alignment explanation
Indices: 43541--43809 Score: 357
Period size: 137 Copynumber: 2.0 Consensus size: 135
43531 TATGATTTTT
* *
43541 ATTTTGTCATAAAACA-ATTGTTTCTT-TTCATACAAGCTTA-TCATATTAAAATAATACTAATT
1 ATTTTGTCATAAAACATA-TGTTT-TTATTCATACAAGCTTATTCAAAATAAAATAATACTAA-T
* * * *
43603 TAA-AAATATTCCAAAAATTAGTAAGTAAGAGATTTTAAAAATAAATGTGTTTACCAAACCAGTT
63 CAATAAATATTCCAAAAATTAATAAGTAAGAGA-TTTAAAAA-AAAT-TGTTTACCAAACAAATT
43667 TAAATAGTTAG
125 TAAATAGTTAG
*
43678 ATTTTGTCATAAAACATATGTTTTTATTCATACAAGTTTATTCAAAATAAAATAATACTAATCAA
1 ATTTTGTCATAAAACATATGTTTTTATTCATACAAGCTTATTCAAAATAAAATAATACTAATCAA
* * **
43743 TTAATATTCTAAAAATTAATAAGTTGGAGATTTAAAAAAAATTGTTTACCAAACAAATTTAAATA
66 TAAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAAATTGTTTACCAAACAAATTTAAATA
43808 GT
131 GT
43810 CATGTCCATT
Statistics
Matches: 117, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
135 23 0.20
136 6 0.05
137 45 0.38
138 43 0.37
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (135 bp):
ATTTTGTCATAAAACATATGTTTTTATTCATACAAGCTTATTCAAAATAAAATAATACTAATCAA
TAAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAAATTGTTTACCAAACAAATTTAAATA
GTTAG
Done.