Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168152.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_393, 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: 29191
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Found at i:2850 original size:111 final size:112
Alignment explanation
Indices: 2735--2938 Score: 270
Period size: 112 Copynumber: 1.8 Consensus size: 112
2725 GCCAGAAACA
* **** * * * *
2735 CCTTCAATAACCCTATTAATTTTTTTTTTA-GATTTTTCAGGGTATTTTTGGCTAAAAATGC-T-
1 CCTTCAATAACCCCATTAAAAAATTTTTTAGGATTATTCAAGATATTTTTAGCTAAAAA--CATA
2797 TTGAGTAATCACCTCATAAAAATTTATGAGGCGTTTTTGGTCAAAAATG
64 TTGAGTAATCACCTCATAAAAATTTATGAGGCGTTTTTGGTCAAAAATG
*
2846 CCTTCAGTAACCCCATTAAAAAATTTTTTAGGATTATTCAAGATATTTTTAGCTAAAAACATATT
1 CCTTCAATAACCCCATTAAAAAATTTTTTAGGATTATTCAAGATATTTTTAGCTAAAAACATATT
*
2911 GAGTAATTACCTCATAAAAATTTATGAG
66 GAGTAATCACCTCATAAAAATTTATGAG
2939 TGGATTATTG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
110 1 0.01
111 25 0.32
112 53 0.67
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (112 bp):
CCTTCAATAACCCCATTAAAAAATTTTTTAGGATTATTCAAGATATTTTTAGCTAAAAACATATT
GAGTAATCACCTCATAAAAATTTATGAGGCGTTTTTGGTCAAAAATG
Found at i:3718 original size:12 final size:12
Alignment explanation
Indices: 3698--3732 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
3688 AACATGTATA
*
3698 TATGGGCTCTCT
1 TATGTGCTCTCT
3710 TATGTGCTCTCT
1 TATGTGCTCTCT
3722 TATGTGCTCTC
1 TATGTGCTCTC
3733 ATAGGCTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.26, G:0.20, T:0.46
Consensus pattern (12 bp):
TATGTGCTCTCT
Found at i:3823 original size:4 final size:4
Alignment explanation
Indices: 3814--3858 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
3804 TGACCAAAAA
* * *
3814 TATT TATT TATT TACT TATT TATT TATT TATC TATT TATT CATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT T
3859 TGATGTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:4361 original size:25 final size:24
Alignment explanation
Indices: 4325--4372 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
4315 CTAATTTAAA
4325 AAATATATAAAATAAGTGAAAAGAT
1 AAATATATAAAATAA-TGAAAAGAT
4350 AAATA-ATGAAAATAATGAAAAGA
1 AAATATAT-AAAATAATGAAAAGA
4373 AAAAAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (24 bp):
AAATATATAAAATAATGAAAAGAT
Found at i:5332 original size:85 final size:86
Alignment explanation
Indices: 5166--5341 Score: 241
Period size: 85 Copynumber: 2.1 Consensus size: 86
5156 GTAATTTTTG
* * *
5166 TAATTATGGTTAGAGGGTATTATAGTAATTTTAGTCAATTATAATATGAGGAGTATTTTTGTTAT
1 TAATTATGGTTAGAGGGTATTATAGTAATTTTAGTAAAATATAATATGAGGAGTATTTTTGTAAT
* *
5231 TATGGTTAAAAGGCATTTTCA
66 TATGGTTAAAAGGCATTATAA
5252 TAATTATGGTTAG-GGGTATTATAGTAATTTT-GATAAAATATAATATGAGG-GTATTTTTGTAA
1 TAATTATGGTTAGAGGGTATTATAGTAATTTTAG-TAAAATATAATATGAGGAGTATTTTTGTAA
* **
5314 TTATGGTTGATGGAGCATTATAA
65 TTATGGTTAAAAG-GCATTATAA
5337 TAATT
1 TAATT
5342 TTGACAAATG
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
84 22 0.28
85 45 0.56
86 13 0.16
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (86 bp):
TAATTATGGTTAGAGGGTATTATAGTAATTTTAGTAAAATATAATATGAGGAGTATTTTTGTAAT
TATGGTTAAAAGGCATTATAA
Found at i:6970 original size:26 final size:25
Alignment explanation
Indices: 6933--6994 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
6923 TTTTTGTAAC
*
6933 TTTAGCCAATTATGGTAAGAGAGGTAT
1 TTTAG-CAATTATGGTAAG-GAGATAT
*
6960 TTTAGCAATTATGTTAAGGAGATAT
1 TTTAGCAATTATGGTAAGGAGATAT
* *
6985 TATAGTAATT
1 TTTAGCAATT
6995 TTAGTTAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 14 0.45
26 12 0.39
27 5 0.16
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (25 bp):
TTTAGCAATTATGGTAAGGAGATAT
Found at i:8129 original size:17 final size:16
Alignment explanation
Indices: 8084--8132 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
8074 ATTTTAATTC
8084 ATGAAAAGAAAAAAAA
1 ATGAAAAGAAAAAAAA
*
8100 GAT-AAAGATAAAAAAAA
1 -ATGAAA-AGAAAAAAAA
8117 ATGAAAAGCAAAAAAA
1 ATGAAAAG-AAAAAAA
8133 TTTTTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (16 bp):
ATGAAAAGAAAAAAAA
Found at i:10475 original size:2 final size:2
Alignment explanation
Indices: 10468--10493 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10458 TAGATGATGC
10468 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10494 CAAACTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13672 original size:14 final size:14
Alignment explanation
Indices: 13653--13690 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13643 AAATTTATAA
13653 AATTTAAAAAAAAT
1 AATTTAAAAAAAAT
*
13667 AATTTAATAAAAAT
1 AATTTAAAAAAAAT
*
13681 -TTTTAAAAAA
1 AATTTAAAAAA
13691 TTTAAATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTTAAAAAAAAT
Found at i:13731 original size:17 final size:18
Alignment explanation
Indices: 13717--13753 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
13707 GATATAATTT
13717 AATATAAAA-ATTAATAA
1 AATATAAAATATTAATAA
*
13734 AATATAAAATATTATTAA
1 AATATAAAATATTAATAA
13752 AA
1 AA
13754 ATATTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATATAAAATATTAATAA
Found at i:13827 original size:15 final size:15
Alignment explanation
Indices: 13807--13841 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13797 AAAATTTATC
* *
13807 AATATTTTTATTAAA
1 AATATTTATATAAAA
13822 AATATTTATATAAAA
1 AATATTTATATAAAA
13837 AATAT
1 AATAT
13842 ATTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTATATAAAA
Found at i:15068 original size:19 final size:19
Alignment explanation
Indices: 15044--15080 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15034 TTGGATGGTA
15044 ATTGAATTTTGTGTTAATT
1 ATTGAATTTTGTGTTAATT
15063 ATTGAATTTTGTGTTAAT
1 ATTGAATTTTGTGTTAAT
15081 AGGCCTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (19 bp):
ATTGAATTTTGTGTTAATT
Found at i:15282 original size:18 final size:18
Alignment explanation
Indices: 15256--15290 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15246 ATACATTGAC
*
15256 AAAACATTGATTTTATAA
1 AAAAAATTGATTTTATAA
15274 AAAAAATTGATTTTATA
1 AAAAAATTGATTTTATA
15291 GACTTGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (18 bp):
AAAAAATTGATTTTATAA
Found at i:16293 original size:22 final size:24
Alignment explanation
Indices: 16256--16312 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
16246 TTGCTCGATT
16256 AAGCTCGATTAATATA-T-AAAAA
1 AAGCTCGATTAATATACTCAAAAA
**
16278 AAGCTCGATTTTTATACTCGAAAAA
1 AAGCTCGATTAATATACTC-AAAAA
16303 AA-CTCGATTA
1 AAGCTCGATTA
16313 TTCGAGCTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 14 0.48
23 1 0.03
24 7 0.24
25 7 0.24
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (24 bp):
AAGCTCGATTAATATACTCAAAAA
Found at i:16401 original size:15 final size:15
Alignment explanation
Indices: 16381--16414 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
16371 TATTTTCAAG
16381 ATAACAACAACAACA
1 ATAACAACAACAACA
16396 ATAACAACAACAACA
1 ATAACAACAACAACA
16411 ATAA
1 ATAA
16415 TAATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.09
Consensus pattern (15 bp):
ATAACAACAACAACA
Found at i:20097 original size:25 final size:25
Alignment explanation
Indices: 20060--20113 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
20050 TCCCCAGAAT
* *
20060 ATTCATAAGGGTATTTAATTTAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
20085 ATTCATAAAGGTATTTAATTAAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
20110 ATTC
1 ATTC
20114 TTATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (25 bp):
ATTCATAAAGGTATTTAATTAAGGC
Found at i:20325 original size:17 final size:17
Alignment explanation
Indices: 20303--20337 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20293 TACGTTGAGG
20303 GATCGGGTTCTGTTCAA
1 GATCGGGTTCTGTTCAA
20320 GATCGGGTTCTGTTCAA
1 GATCGGGTTCTGTTCAA
20337 G
1 G
20338 CTACTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (17 bp):
GATCGGGTTCTGTTCAA
Found at i:20431 original size:23 final size:23
Alignment explanation
Indices: 20401--20447 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
20391 TTCTGTTCAA
20401 GCTACTGCAAACGTCGAATGGGT
1 GCTACTGCAAACGTCGAATGGGT
*
20424 GCTACTGCAAACGTTGAATGGGT
1 GCTACTGCAAACGTCGAATGGGT
20447 G
1 G
20448 GAACGAGCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (23 bp):
GCTACTGCAAACGTCGAATGGGT
Found at i:20455 original size:87 final size:87
Alignment explanation
Indices: 20337--20575 Score: 442
Period size: 87 Copynumber: 2.7 Consensus size: 87
20327 TTCTGTTCAA
*
20337 GCTACTGCAAACATCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
20402 CTACTGCAAACGTCGAATGGGT
66 CTACTGCAAACGTCGAATGGGT
* *
20424 GCTACTGCAAACGTTGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTGAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
20489 CTACTGCAAACGTCGAATGGGT
66 CTACTGCAAACGTCGAATGGGT
*
20511 GCTACTGTAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
20576 ATCAGGTTAT
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 146 1.00
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (87 bp):
GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
CTACTGCAAACGTCGAATGGGT
Found at i:20522 original size:23 final size:23
Alignment explanation
Indices: 20488--20534 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
20478 TTCTGTTGAA
20488 GCTACTGCAAACGTCGAATGGGT
1 GCTACTGCAAACGTCGAATGGGT
*
20511 GCTACTGTAAACGTCGAATGGGT
1 GCTACTGCAAACGTCGAATGGGT
20534 G
1 G
20535 GAACGAGCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (23 bp):
GCTACTGCAAACGTCGAATGGGT
Found at i:20619 original size:20 final size:21
Alignment explanation
Indices: 20594--20638 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
20584 ATGTTGAAGC
20594 TGCTA-CAAACGTCGAATGGG
1 TGCTACCAAACGTCGAATGGG
20614 TGCTACTGCAAACGTCGAATGGG
1 TGCTAC--CAAACGTCGAATGGG
20637 TG
1 TG
20639 GAACGAGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.23
23 17 0.77
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (21 bp):
TGCTACCAAACGTCGAATGGG
Found at i:20725 original size:103 final size:104
Alignment explanation
Indices: 20471--20821 Score: 641
Period size: 104 Copynumber: 3.4 Consensus size: 104
20461 TTCGTTGAGG
* * *
20471 GATCGGGTTCTGTTGAAGCTACTGCAAACGTCGAATGGGTGCTACTGTAAACGTCGAATGGGTGG
1 GATCAGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGG
20536 AACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAA
66 AACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAA
* *
20575 GATCAGGTTATGTTGAAGCTGCTACAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGG
1 GATCAGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGG
20640 AACGAGCAGGGCTTCGTTGA-GGATCGGGTTCTGTTCAA
66 AACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAA
*
20678 GATCGGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGG
1 GATCAGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGG
20743 AACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAA
66 AACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAA
20782 GATCAGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGGT
1 GATCAGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGGT
20822 TCTGTTGAAG
Statistics
Matches: 237, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
103 100 0.42
104 137 0.58
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.26
Consensus pattern (104 bp):
GATCAGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGG
AACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAA
Found at i:20823 original size:32 final size:32
Alignment explanation
Indices: 20786--20859 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
20776 GTTCAAGATC
20786 AGGTTCTGTTGAAGCTGCTGCAAACGTCGAAT
1 AGGTTCTGTTGAAGCTGCTGCAAACGTCGAAT
* *
20818 GGGTTCTGTTGAAGCTGTTGCAAACGTCGAAT
1 AGGTTCTGTTGAAGCTGCTGCAAACGTCGAAT
20850 AGGTTCTGTT
1 AGGTTCTGTT
20860 CAAATCGGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (32 bp):
AGGTTCTGTTGAAGCTGCTGCAAACGTCGAAT
Found at i:21100 original size:14 final size:15
Alignment explanation
Indices: 21081--21118 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
21071 GTAATTTTAT
21081 AAATAAAATA-ATAA
1 AAATAAAATATATAA
21095 AAAT-AAATATATAA
1 AAATAAAATATATAA
21109 AATATAAAAT
1 AA-ATAAAAT
21119 CAATTTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 10 0.48
15 2 0.10
16 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAAATATATAA
Found at i:22954 original size:12 final size:12
Alignment explanation
Indices: 22924--22962 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
22914 TTTTGATTTT
22924 AAAAAATAAAGTAA
1 AAAAAATAAA--AA
22938 AAAAAATAAAAA
1 AAAAAATAAAAA
*
22950 TAAAAATAAAAA
1 AAAAAATAAAAA
22962 A
1 A
22963 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 13 0.57
14 10 0.43
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAAATAAAAA
Found at i:23022 original size:15 final size:15
Alignment explanation
Indices: 23004--23045 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22994 TTTTATTTTT
23004 ATTAAGTTAAAAAAA
1 ATTAAGTTAAAAAAA
*
23019 ATTAA-ATAATAAAAA
1 ATTAAGTTAA-AAAAA
23034 A-TAAGTTAAAAA
1 ATTAAGTTAAAAA
23046 TTATAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (15 bp):
ATTAAGTTAAAAAAA
Found at i:23975 original size:21 final size:21
Alignment explanation
Indices: 23934--23977 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23924 TTGAAAACCG
* *
23934 AAAAAACTCAAATTTTAATTT
1 AAAAAACTCAAACTCTAATTT
23955 AAAAAGACTCAAACTCT-ATTT
1 AAAAA-ACTCAAACTCTAATTT
23976 AA
1 AA
23978 CCAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAAAACTCAAACTCTAATTT
Found at i:25875 original size:14 final size:15
Alignment explanation
Indices: 25856--25888 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25846 ATTATAAATA
25856 TATATTC-ATTCATT
1 TATATTCAATTCATT
*
25870 TATATTCAATTTATT
1 TATATTCAATTCATT
25885 TATA
1 TATA
25889 ATCCTAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATTCAATTCATT
Done.