Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168231.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_464, 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: 26043
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Found at i:1110 original size:2 final size:2
Alignment explanation
Indices: 1103--1132 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1093 AGCTAGAGAT
1103 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1133 CTATCAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6567 original size:15 final size:14
Alignment explanation
Indices: 6539--6580 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 14
6529 ACTCAAGATA
6539 TTTAATTCTTTTTGCT
1 TTTAATT-TTTTTG-T
6555 TTTAATTTTTTTGT
1 TTTAATTTTTTTGT
6569 TTT--TTTTTTTGT
1 TTTAATTTTTTTGT
6581 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 9 0.35
14 4 0.15
15 6 0.23
16 7 0.27
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTAATTTTTTTGT
Found at i:6586 original size:9 final size:8
Alignment explanation
Indices: 6554--6608 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
6544 TTCTTTTTGC
6554 TTTTAATT
1 TTTTAATT
**
6562 TTTTTGTT
1 TTTTAATT
6570 TTTT--TT
1 TTTTAATT
6576 TTTGTAATT
1 TTT-TAATT
6585 TTTTATATT
1 TTTTA-ATT
*
6594 TTTTAATA
1 TTTTAATT
6602 TTTTAAT
1 TTTTAAT
6609 AAATAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 5 0.12
7 1 0.03
8 21 0.52
9 13 0.32
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (8 bp):
TTTTAATT
Found at i:6870 original size:38 final size:35
Alignment explanation
Indices: 6790--6876 Score: 97
Period size: 38 Copynumber: 2.4 Consensus size: 35
6780 TTCCAAAATA
*
6790 CAAAAAA-TAACAAAATATAAAAATTTATGAAAAAG
1 CAAAAAATTAA-AAAATATAAAAATTTATGAAAAAC
6825 CATAAAAATTAAAAAATATAGAAAATTTTAT-AAAAATTC
1 CA-AAAAATTAAAAAATATA-AAAA-TTTATGAAAAA--C
6864 CAAAAAATTAAAA
1 CAAAAAATTAAAA
6877 TTAAATATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
35 2 0.04
36 13 0.29
37 12 0.27
38 16 0.36
39 2 0.04
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (35 bp):
CAAAAAATTAAAAAATATAAAAATTTATGAAAAAC
Found at i:7044 original size:24 final size:23
Alignment explanation
Indices: 7017--7065 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
7007 TTAGAAAAAT
*
7017 AAAATCAT-ATTTTATAAAATTCAA
1 AAAAT-ATGATTTTAAAAAATT-AA
7041 AAAATATGATTTTAAAAAATTAA
1 AAAATATGATTTTAAAAAATTAA
7064 AA
1 AA
7066 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAATATGATTTTAAAAAATTAA
Found at i:7065 original size:21 final size:20
Alignment explanation
Indices: 7005--7097 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 20
6995 TATTGAATTT
7005 TTTTAGAAAAA-TAAAATCATA
1 TTTTA-AAAAATTAAAAT-ATA
*
7026 TTTTATAAAATTCAAAAAATATGA
1 TTTTAAAAAATT---AAAATAT-A
7050 TTTTAAAAAATT-AAA-ATA
1 TTTTAAAAAATTAAAATATA
* **
7068 TTTTAAAATATTAATTTTATA
1 TTTTAAAAAATTAA-AATATA
7089 TTTTAAAAA
1 TTTTAAAAA
7098 TATGAAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
18 12 0.21
19 3 0.05
20 7 0.12
21 17 0.29
23 2 0.03
24 17 0.29
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTTAAAAAATTAAAATATA
Found at i:12760 original size:31 final size:31
Alignment explanation
Indices: 12719--12785 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
12709 ATGGTTATTA
* *
12719 TTGTTGGGGAACATCACAGCTCTGATACCAT
1 TTGTTAGGGAACACCACAGCTCTGATACCAT
*
12750 TTGTTAGGGAACACCACAGTTCTGATACCAT
1 TTGTTAGGGAACACCACAGCTCTGATACCAT
12781 TTGTT
1 TTGTT
12786 GGGCTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (31 bp):
TTGTTAGGGAACACCACAGCTCTGATACCAT
Found at i:13358 original size:52 final size:52
Alignment explanation
Indices: 13272--13428 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
13262 TATAACCATA
* * * * *
13272 CAAACTTGCCCACTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
13324 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * **
13376 CAAACTTACCTATTAAGAATCTTCTTT-CTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-TCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
13428 C
1 C
13429 TTCTTGTCCA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 88 0.95
53 5 0.05
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:13729 original size:23 final size:25
Alignment explanation
Indices: 13703--13749 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13693 CCCATGTCTC
13703 AAACC-AT-GCACTTCCCACATCTG
1 AAACCTATAGCACTTCCCACATCTG
* *
13726 AAACCTTTAGCTCTTCCCACATCT
1 AAACCTATAGCACTTCCCACATCT
13750 CGAACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 1 0.05
25 14 0.70
ACGTcount: A:0.28, C:0.38, G:0.06, T:0.28
Consensus pattern (25 bp):
AAACCTATAGCACTTCCCACATCTG
Found at i:13742 original size:25 final size:25
Alignment explanation
Indices: 13713--13765 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
13703 AAACCATGCA
13713 CTTCCCACATCT-GAAACCTTT-AGCT
1 CTTCCCACATCTCG-AA-CTTTCAGCT
13738 CTTCCCACATCTCGAACTTTCAGCT
1 CTTCCCACATCTCGAACTTTCAGCT
13763 CTT
1 CTT
13766 TTACATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 4 0.15
25 21 0.81
26 1 0.04
ACGTcount: A:0.21, C:0.38, G:0.08, T:0.34
Consensus pattern (25 bp):
CTTCCCACATCTCGAACTTTCAGCT
Found at i:13790 original size:35 final size:36
Alignment explanation
Indices: 13743--13810 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
13733 TAGCTCTTCC
* *
13743 CACATCTCGAACTTTCAGCTCTT-TTACATTTCTTT
1 CACATCTCGAACTTTCAACTCTTCTCACATTTCTTT
*
13778 CACATCTTGAACTTTCAACTCTTCTCACATTTC
1 CACATCTCGAACTTTCAACTCTTCTCACATTTC
13811 GAACCTTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 21 0.72
36 8 0.28
ACGTcount: A:0.22, C:0.31, G:0.04, T:0.43
Consensus pattern (36 bp):
CACATCTCGAACTTTCAACTCTTCTCACATTTCTTT
Found at i:13805 original size:25 final size:24
Alignment explanation
Indices: 13773--13824 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
13763 CTTTTACATT
*
13773 TCTTTCACATCTT-GAACTTTCAAC
1 TCTTTCACAT-TTCGAACCTTCAAC
*
13797 TCTTCTCACATTTCGAACCTTCAGC
1 TCTT-TCACATTTCGAACCTTCAAC
13822 TCT
1 TCT
13825 GATACCACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.40
Consensus pattern (24 bp):
TCTTTCACATTTCGAACCTTCAAC
Found at i:13856 original size:31 final size:31
Alignment explanation
Indices: 13818--13901 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 31
13808 TTCGAACCTT
* *
13818 CAGCTCTGATACCACTTGTTGGGAAACATCA
1 CAGCTCTGATACCATTTGTTGGGAAACACCA
*
13849 CAGCTCTGATACCATTTGTTGGGGAACACCA
1 CAGCTCTGATACCATTTGTTGGGAAACACCA
13880 CAGCTCTGATACCATTTGTTGG
1 CAGCTCTGATACCATTTGTTGG
13902 CTAAAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (31 bp):
CAGCTCTGATACCATTTGTTGGGAAACACCA
Found at i:14476 original size:51 final size:52
Alignment explanation
Indices: 14391--14546 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
14381 TATAACCATA
* * * * *
14391 CAAACTTGCCCACTAAGAATCCCTCTCCTCTTAGAATTCTTCTC-TGTAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
* *
14442 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTTTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
* *
14494 CAAACTTACCTATTAAGAATCTTCTTT-CTCTT-GAAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-TCTTTCCTCTTAG-AATTCTTCTCTTGCAAGT
14546 C
1 C
14547 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
51 39 0.43
52 47 0.52
53 5 0.05
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:15705 original size:20 final size:21
Alignment explanation
Indices: 15658--15705 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
15648 TTTTTTTTTA
*
15658 TCAATAATGATCAAAATATCG
1 TCAATAATAATCAAAATATCG
** *
15679 TTGATAATAAT-AAAATTTCG
1 TCAATAATAATCAAAATATCG
15699 TCAATAA
1 TCAATAA
15706 ATTCCGTTGA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (21 bp):
TCAATAATAATCAAAATATCG
Found at i:15944 original size:14 final size:14
Alignment explanation
Indices: 15925--15966 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
15915 ATCTATAAAA
15925 CATCATAAAATATC
1 CATCATAAAATATC
15939 CATCAT-AAA-A--
1 CATCATAAAATATC
15949 CATCATAAAATATC
1 CATCATAAAATATC
15963 CATC
1 CATC
15967 CACAAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 2 0.08
13 3 0.12
14 10 0.42
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (14 bp):
CATCATAAAATATC
Found at i:15947 original size:24 final size:24
Alignment explanation
Indices: 15914--15976 Score: 99
Period size: 24 Copynumber: 2.5 Consensus size: 24
15904 ACATACATAG
15914 CATCTATAAAACATCATAAAATATC
1 CATC-ATAAAACATCATAAAATATC
15939 CATCATAAAACATCATAAAATATC
1 CATCATAAAACATCATAAAATATC
*
15963 CATCCACAAAACAT
1 CAT-CATAAAACAT
15977 TTATAGCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (24 bp):
CATCATAAAACATCATAAAATATC
Found at i:18553 original size:24 final size:26
Alignment explanation
Indices: 18526--18578 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
18516 AAACCAAAAT
*
18526 ATTTCAAT-AATTAGT-AATATATAA
1 ATTTCAATAAACTAGTAAATATATAA
* *
18550 ATTTCACTAAACTATTAAATATATAA
1 ATTTCAATAAACTAGTAAATATATAA
18576 ATT
1 ATT
18579 ATTTGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 5 0.21
26 12 0.50
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTTCAATAAACTAGTAAATATATAA
Found at i:19622 original size:17 final size:18
Alignment explanation
Indices: 19589--19633 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
19579 GTTTATAAGT
19589 TAAATAATTTATCAAATA
1 TAAATAATTTATCAAATA
19607 TAAA-AATTTGAT-AAAT-
1 TAAATAATTT-ATCAAATA
*
19623 TATATAATTTA
1 TAAATAATTTA
19634 CTAATACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 4 0.17
17 14 0.58
18 6 0.25
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
TAAATAATTTATCAAATA
Found at i:21618 original size:26 final size:26
Alignment explanation
Indices: 21582--21631 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
21572 TGACACAAGA
21582 AGTCAATCTGATATTATATATATAGG
1 AGTCAATCTGATATTATATATATAGG
21608 AGTCAATCTGATATTATATATATA
1 AGTCAATCTGATATTATATATATA
21632 TATATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (26 bp):
AGTCAATCTGATATTATATATATAGG
Found at i:21918 original size:11 final size:11
Alignment explanation
Indices: 21900--21934 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
21890 TATTTTTATA
21900 TATTAAAATAT
1 TATTAAAATAT
* *
21911 TTTTAAAAAAT
1 TATTAAAATAT
21922 TATTAAAATAT
1 TATTAAAATAT
21933 TA
1 TA
21935 ATATTTTATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:25424 original size:26 final size:26
Alignment explanation
Indices: 25394--25506 Score: 83
Period size: 25 Copynumber: 4.4 Consensus size: 26
25384 CTCATATTTT
*
25394 ATATATATTTATATATAATTAATA-AA
1 ATATATATTTATAT-TAAATAATATAA
*
25420 ATATAT-TTTTTATTAAATAATATAA
1 ATATATATTTATATTAAATAATATAA
* * * *
25445 AT-TATTATTTTAGATTAATTAAAATTA
1 ATATA-TA-TTTATATTAAATAATATAA
* *
25472 ATATAT-TTT-TATTAAAAAAATATTA
1 ATATATATTTATATT-AAATAATATAA
25497 ATATATATTT
1 ATATATATTT
25507 TGTAAAAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
24 13 0.19
25 28 0.41
26 9 0.13
27 17 0.25
28 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (26 bp):
ATATATATTTATATTAAATAATATAA
Found at i:25440 original size:24 final size:24
Alignment explanation
Indices: 25394--25487 Score: 68
Period size: 24 Copynumber: 3.7 Consensus size: 24
25384 CTCATATTTT
* *
25394 ATATATATTTATATATAATTAATAAA
1 ATATAT-TTTTTAT-TAAATAATAAA
25420 ATATATTTTTTATTAAATAATATAA
1 ATATATTTTTTATTAAATAATA-AA
*
25445 AT-TATTATTTTAGATTAATTAA-AATTA
1 ATATATT-TTTT--ATTAAATAATAA--A
25472 ATATA-TTTTTATTAAA
1 ATATATTTTTTATTAAA
25488 AAAATATTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
24 17 0.30
25 15 0.26
26 11 0.19
27 12 0.21
28 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
ATATATTTTTTATTAAATAATAAA
Found at i:25453 original size:27 final size:24
Alignment explanation
Indices: 25392--25487 Score: 61
Period size: 27 Copynumber: 3.7 Consensus size: 24
25382 TGCTCATATT
*
25392 TTATATATATTTATATATAATTAATAAA
1 TTATAT-TTTTTAT-TA-AATT-ATAAA
*
25420 ATATATTTTTTATTAAATAATATAAA
1 TTATATTTTTTATTAAAT--TATAAA
**
25446 TTATTATTTTAGATT-AATTA-AAA
1 TTA-TATTTTTTATTAAATTATAAA
25469 TTAATATATTTTTATTAAA
1 TT-ATAT-TTTTTATTAAA
25488 AAAATATTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
23 8 0.15
24 9 0.16
25 5 0.09
26 12 0.22
27 16 0.29
28 5 0.09
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
TTATATTTTTTATTAAATTATAAA
Found at i:25455 original size:25 final size:26
Alignment explanation
Indices: 25393--25456 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 26
25383 GCTCATATTT
*
25393 TATATATATTTATATATAATTAATAAAA
1 TATAT-TATTT-TATATAAATAATAAAA
25421 TATATT-TTTTAT-TAAATAATATAAA
1 TATATTATTTTATATAAATAATA-AAA
25446 T-TATTATTTTA
1 TATATTATTTTA
25457 GATTAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
24 12 0.36
25 12 0.36
26 3 0.09
27 1 0.03
28 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TATATTATTTTATATAAATAATAAAA
Found at i:25506 original size:52 final size:52
Alignment explanation
Indices: 25393--25507 Score: 130
Period size: 52 Copynumber: 2.2 Consensus size: 52
25383 GCTCATATTT
* *
25393 TATATATATTTATATATAATTAATAAAATATATTTTTTATTAAATAATATAAA
1 TATATAT-TTTAGATATAATTAATAAAATATATTTTTTATTAAAAAATATAAA
*
25446 T-TATTATTTTAGAT-TAATTAA-AATTAATATA-TTTTTATTAAAAAAATATTAA
1 TATA-TATTTTAGATATAATTAATAA--AATATATTTTTTATT-AAAAAATATAAA
25498 TATATATTTT
1 TATATATTTT
25508 GTAAAAAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
50 2 0.04
51 15 0.28
52 31 0.57
53 6 0.11
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (52 bp):
TATATATTTTAGATATAATTAATAAAATATATTTTTTATTAAAAAATATAAA
Found at i:25526 original size:27 final size:26
Alignment explanation
Indices: 25468--25530 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
25458 ATTAATTAAA
*
25468 ATTAATATAT-TTTTATTAAAAAAAT
1 ATTAATATATATTTTAGTAAAAAAAT
*
25493 ATTAATATATATTTT-GTAAAAAATT
1 ATTAATATATATTTTAGTAAAAAAAT
25518 ATCTAAATATATA
1 AT-T-AATATATA
25531 AATTAAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 20 0.61
26 5 0.15
27 8 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTAATATATATTTTAGTAAAAAAAT
Found at i:25657 original size:20 final size:20
Alignment explanation
Indices: 25629--25667 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25619 ATAGTGGAGA
* *
25629 TAAATATAATATAAAAAATT
1 TAAAAATAAAATAAAAAATT
25649 TAAAAATAAAATAAAAAAT
1 TAAAAATAAAATAAAAAAT
25668 ATTTTATTTA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAATAAAATAAAAAATT
Found at i:25661 original size:22 final size:22
Alignment explanation
Indices: 25630--25671 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25620 TAGTGGAGAT
*
25630 AAATATAATATAAAAA-ATTTAA
1 AAATAAAATA-AAAAATATTTAA
25652 AAATAAAATAAAAAATATTT
1 AAATAAAATAAAAAATATTT
25672 TATTTATCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAAAATAAAAAATATTTAA
Found at i:25968 original size:7 final size:7
Alignment explanation
Indices: 25958--25983 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25948 AATATTTAAT
25958 AATTTTA
1 AATTTTA
25965 AATTTTA
1 AATTTTA
25972 AATTTTA
1 AATTTTA
25979 AATTT
1 AATTT
25984 CATTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Done.