Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001276.1 Hibiscus syriacus cultivar Beakdansim tig00002504_pilon, 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: 73341
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:2677 original size:2 final size:2
Alignment explanation
Indices: 2672--2700 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2662 ATAGAAATGG
2672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2701 CTACATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3164 original size:21 final size:21
Alignment explanation
Indices: 3138--3215 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
3128 GGGTTTCATA
*
3138 GGTCCTTCGGGACAATACAGT
1 GGTCCTTTGGGACAATACAGT
3159 GGTCCTTTGGGACAATACAGT
1 GGTCCTTTGGGACAATACAGT
3180 GGTCCTTTGGGACAATACAGT
1 GGTCCTTTGGGACAATACAGT
3201 GGTCCTTTGGGACAA
1 GGTCCTTTGGGACAA
3216 ATTTCATATG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (21 bp):
GGTCCTTTGGGACAATACAGT
Found at i:5918 original size:45 final size:47
Alignment explanation
Indices: 5862--6014 Score: 183
Period size: 45 Copynumber: 3.3 Consensus size: 47
5852 TGCACCAATC
**
5862 CATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATTT
1 CATGCATCGATGCACTCATGGAATATTTTGAAACATCGAATGCATTT
* *
5907 CATGCATCGATGCACTCA--GAGTTTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCATGGAATATTT-TG-AAACATCGAATGCATTT
* *
5954 GATGCATCGATGCACTC-TGG-CTATTTTGAAACATCGAATGCATTT
1 CATGCATCGATGCACTCATGGAATATTTTGAAACATCGAATGCATTT
*
5999 TATGCATCGATGCACT
1 CATGCATCGATGCACT
6015 TAGTGCACCG
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
44 4 0.04
45 49 0.52
46 4 0.04
47 36 0.38
48 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (47 bp):
CATGCATCGATGCACTCATGGAATATTTTGAAACATCGAATGCATTT
Found at i:5952 original size:47 final size:45
Alignment explanation
Indices: 5891--6014 Score: 178
Period size: 47 Copynumber: 2.7 Consensus size: 45
5881 GAATAAATTG
*
5891 AACATCGAATGCATTTCATGCATCGATGCACTCAGAG-TTTTTATGAA
1 AACATCGAATGCATTTCATGCATCGATGCACTCAG-GCTATTT-TG-A
* *
5938 AACATCGAATGCATTTGATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCACTCAGGCTATTTTGA
*
5983 AACATCGAATGCATTTTATGCATCGATGCACT
1 AACATCGAATGCATTTCATGCATCGATGCACT
6015 TAGTGCACCG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
45 32 0.44
46 3 0.04
47 37 0.51
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (45 bp):
AACATCGAATGCATTTCATGCATCGATGCACTCAGGCTATTTTGA
Found at i:18571 original size:20 final size:20
Alignment explanation
Indices: 18546--18591 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
18536 AAAAAATCTA
*
18546 TAGGTATCTAAAGTTAATTT
1 TAGGTAACTAAAGTTAATTT
18566 TAGGTAACTAAAGTTAATTT
1 TAGGTAACTAAAGTTAATTT
18586 TAGGTA
1 TAGGTA
18592 CAGTTTGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.41
Consensus pattern (20 bp):
TAGGTAACTAAAGTTAATTT
Found at i:19511 original size:2 final size:2
Alignment explanation
Indices: 19504--19531 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19494 ATATGAGATC
19504 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19532 GCTTACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20106 original size:2 final size:2
Alignment explanation
Indices: 20099--20130 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20089 TATGCGGGCA
20099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20131 GTAGTAAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21158 original size:29 final size:29
Alignment explanation
Indices: 21118--21181 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
21108 CCTATGTCTG
*
21118 TTTT-TTCAGTTTAGTGTCTAACGTTT-A
1 TTTTGTTCAGTTTAGTGCCTAACGTTTCA
* *
21145 TTTTGTTCTAGTTTGGTGCCTAATGTTTCA
1 TTTTGTTC-AGTTTAGTGCCTAACGTTTCA
21175 TTTTGTT
1 TTTTGTT
21182 ACTCAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 4 0.13
28 3 0.10
29 16 0.52
30 8 0.26
ACGTcount: A:0.14, C:0.11, G:0.17, T:0.58
Consensus pattern (29 bp):
TTTTGTTCAGTTTAGTGCCTAACGTTTCA
Found at i:23110 original size:38 final size:37
Alignment explanation
Indices: 23037--23110 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
23027 ATATGTAATG
* **
23037 AAAAAGATAGTTGTTATCTTTGAGGTTTTCATATTTA
1 AAAAAGATAATTGTTATCTTAAAGGTTTTCATATTTA
23074 AAAAAGATAATTGTTATCATTAAAGGTTCTT-ATATTT
1 AAAAAGATAATTGTTATC-TTAAAGGTT-TTCATATTT
23111 GAGTATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 17 0.53
38 13 0.41
39 2 0.06
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (37 bp):
AAAAAGATAATTGTTATCTTAAAGGTTTTCATATTTA
Found at i:31313 original size:15 final size:15
Alignment explanation
Indices: 31272--31344 Score: 87
Period size: 15 Copynumber: 4.9 Consensus size: 15
31262 TTGGTTTTTC
31272 GGAAAATGAATTACT
1 GGAAAATGAATTACT
* *
31287 -GAAATTTAAATTACT
1 GGAAA-ATGAATTACT
31302 GGAAAATGAATTACT
1 GGAAAATGAATTACT
**
31317 GGAATTTGAATT-CT
1 GGAAAATGAATTACT
31331 GGAAAATGAATTAC
1 GGAAAATGAATTAC
31345 ACATTTATGG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
14 16 0.34
15 27 0.57
16 4 0.09
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.32
Consensus pattern (15 bp):
GGAAAATGAATTACT
Found at i:31342 original size:29 final size:30
Alignment explanation
Indices: 31272--31344 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
31262 TTGGTTTTTC
31272 GGAAAATGAATTACTGAAATTTAAATTACT
1 GGAAAATGAATTACTGAAATTTAAATTACT
* *
31302 GGAAAATGAATTACTGGAATTTGAATT-CT
1 GGAAAATGAATTACTGAAATTTAAATTACT
31331 GGAAAATGAATTAC
1 GGAAAATGAATTAC
31345 ACATTTATGG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 16 0.39
30 25 0.61
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.32
Consensus pattern (30 bp):
GGAAAATGAATTACTGAAATTTAAATTACT
Found at i:31721 original size:29 final size:30
Alignment explanation
Indices: 31686--31757 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 30
31676 CTTTACTAAA
*
31686 ATATTATTTAAATATATAAATAA-TATTAT
1 ATATTATTTAAATATATAAAAAATTATTAT
31715 -TCATTA-TTAAATATATAAAAAATTATTAT
1 AT-ATTATTTAAATATATAAAAAATTATTAT
*
31744 ATATTATTAAAATA
1 ATATTATTTAAATA
31758 AAAATATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 16 0.43
29 14 0.38
30 7 0.19
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
ATATTATTTAAATATATAAAAAATTATTAT
Found at i:31832 original size:22 final size:22
Alignment explanation
Indices: 31807--31849 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31797 GATTATTTTA
31807 TATAATATTAAAA-ATATAATAT
1 TATAATATTAAAATAT-TAATAT
*
31829 TATATTATTAAAATATTAATA
1 TATAATATTAAAATATTAATA
31850 AATATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAATATTAAAATATTAATAT
Found at i:31870 original size:23 final size:22
Alignment explanation
Indices: 31817--31883 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
31807 TATAATATTA
*
31817 AAAATA-TAAT-ATTATATTATT
1 AAAATATTAATAAATATATT-TT
31838 AAAATATTAATAAATATATTTT
1 AAAATATTAATAAATATATTTT
*
31860 AAATATTTTAATAAATAATATTTT
1 AAA-ATATTAATAAAT-ATATTTT
31884 GATGAAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.15
22 9 0.22
23 18 0.45
24 7 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAATATTAATAAATATATTTT
Found at i:31878 original size:52 final size:52
Alignment explanation
Indices: 31773--31920 Score: 135
Period size: 52 Copynumber: 2.9 Consensus size: 52
31763 ATAATATCTT
* ** *
31773 ATATTATATTATTATAATATAATTGATTATTTTATATAATATTAAAAATATA
1 ATATTATATTATTAAAATATAATAAATTATTTTAAATAATATTAAAAATATA
* *
31825 ATATTATATTATTAAAATATTAATAAATATATTTTAAAT-ATTTTAATAA-ATA
1 ATATTATATTATTAAAATA-TAATAAAT-TATTTTAAATAATATTAAAAATATA
* * * * *
31877 ATATT-T-TGATGAAAATGATATTAAAATATTTT-ATTAATATTAAA
1 ATATTATATTATTAAAAT-ATAATAAATTATTTTAAATAATATTAAA
31921 TTCATAAAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 11
0.77 0.13 0.11
Matches are distributed among these distances:
48 2 0.03
49 12 0.15
50 14 0.18
51 2 0.03
52 26 0.33
53 14 0.18
54 9 0.11
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (52 bp):
ATATTATATTATTAAAATATAATAAATTATTTTAAATAATATTAAAAATATA
Found at i:32112 original size:42 final size:42
Alignment explanation
Indices: 32061--32211 Score: 212
Period size: 42 Copynumber: 3.6 Consensus size: 42
32051 TACATTCTGG
*
32061 AAAATGAATTACGTAAAACAAACACGGGAAAACATTTTCCGA
1 AAAACGAATTACGTAAAACAAACACGGGAAAACATTTTCCGA
* * *
32103 AAAACGAATTACGTAAAACAAACACAGGAAAATATTTTCCGG
1 AAAACGAATTACGTAAAACAAACACGGGAAAACATTTTCCGA
** * *
32145 AAAACGAATTACGTAAAACAAACACGAAAAAACATTTTTCAA
1 AAAACGAATTACGTAAAACAAACACGGGAAAACATTTTCCGA
* *
32187 AAAACGAATTACATGAAACAAACAC
1 AAAACGAATTACGTAAAACAAACAC
32212 ATAATTTCGA
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 96 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.18
Consensus pattern (42 bp):
AAAACGAATTACGTAAAACAAACACGGGAAAACATTTTCCGA
Found at i:32162 original size:84 final size:84
Alignment explanation
Indices: 32059--32212 Score: 245
Period size: 84 Copynumber: 1.8 Consensus size: 84
32049 ATTACATTCT
* ** * *
32059 GGAAAATGAATTACGTAAAACAAACACGGGAAAACATTTTCCGAAAAACGAATTACGTAAAACAA
1 GGAAAACGAATTACGTAAAACAAACACGAAAAAACATTTTCCAAAAAACGAATTACATAAAACAA
32124 ACACAGGAAAATATTTTCC
66 ACACAGGAAAATATTTTCC
* *
32143 GGAAAACGAATTACGTAAAACAAACACGAAAAAACATTTTTCAAAAAACGAATTACATGAAACAA
1 GGAAAACGAATTACGTAAAACAAACACGAAAAAACATTTTCCAAAAAACGAATTACATAAAACAA
32208 ACACA
66 ACACA
32213 TAATTTCGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.18
Consensus pattern (84 bp):
GGAAAACGAATTACGTAAAACAAACACGAAAAAACATTTTCCAAAAAACGAATTACATAAAACAA
ACACAGGAAAATATTTTCC
Found at i:33195 original size:30 final size:30
Alignment explanation
Indices: 33159--33219 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
33149 CTTTCAAGTT
33159 ATAATTTACGAC-TGTATAATTATAA-TCAAA
1 ATAATTTACGACTTGTA-AATTA-AAGTCAAA
*
33189 ATAATTTATGACTTGTAAATTAAAGTCAAA
1 ATAATTTACGACTTGTAAATTAAAGTCAAA
33219 A
1 A
33220 CCGAGACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 2 0.07
30 22 0.79
31 4 0.14
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (30 bp):
ATAATTTACGACTTGTAAATTAAAGTCAAA
Found at i:33441 original size:23 final size:22
Alignment explanation
Indices: 33394--33447 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
33384 CAATCCGATT
* *
33394 AAATATATCATATCTCTTAAAA
1 AAATATATCATATCTATAAAAA
33416 AAATAATATCATAT-TATAAAATAA
1 AAAT-ATATCATATCTAT-AAA-AA
33440 AAATATAT
1 AAATATAT
33448 ACGATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.22
23 15 0.56
24 6 0.22
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATATCATATCTATAAAAA
Found at i:43464 original size:29 final size:29
Alignment explanation
Indices: 43422--43479 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
43412 CTAAGATAGA
43422 ACTCACATTGTAGAAGATATTGTGAACAT
1 ACTCACATTGTAGAAGATATTGTGAACAT
43451 ACTCACATTGTAGAAGATATTGTGAACAT
1 ACTCACATTGTAGAAGATATTGTGAACAT
43480 TCACCCAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (29 bp):
ACTCACATTGTAGAAGATATTGTGAACAT
Found at i:47334 original size:13 final size:13
Alignment explanation
Indices: 47318--47342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47308 ATTAAAATGT
47318 TTTTTTAATTAAA
1 TTTTTTAATTAAA
47331 TTTTTTAATTAA
1 TTTTTTAATTAA
47343 GGTTTGAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTTAATTAAA
Found at i:47609 original size:21 final size:22
Alignment explanation
Indices: 47570--47623 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
47560 CCAAAATAAT
*
47570 AATAAAAATATTATTTTTATTC
1 AATAAAAATATTATTTTAATTC
47592 AATAAAAATAGTTA-TTTAATTC
1 AATAAAAATA-TTATTTTAATTC
47614 AA-AAAAATAT
1 AATAAAAATAT
47624 ATATAGAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 7 0.23
22 19 0.63
23 3 0.10
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (22 bp):
AATAAAAATATTATTTTAATTC
Found at i:49012 original size:12 final size:12
Alignment explanation
Indices: 48982--49015 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48972 CATCTGCACA
*
48982 ATACATACATAC
1 ATACATGCATAC
48994 ATACATGCATAC
1 ATACATGCATAC
*
49006 ATTCATGCAT
1 ATACATGCAT
49016 GATGATGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (12 bp):
ATACATGCATAC
Found at i:54439 original size:2 final size:2
Alignment explanation
Indices: 54432--54462 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
54422 AAAAATAGTG
54432 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
54463 GTGTGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59905 original size:4 final size:4
Alignment explanation
Indices: 59896--59981 Score: 100
Period size: 4 Copynumber: 21.5 Consensus size: 4
59886 TAAAACTTTG
* * * *
59896 CTCT CTCT CTCT CTCC CTCT CTCT CTCT CTCT CGCT CGCT CACT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * *
59944 CTCT CTCT CTCT CGCT CGCT CACT CTCT CTGT CTCT CT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CT
59982 TCTTGGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 72 1.00
ACGTcount: A:0.02, C:0.50, G:0.06, T:0.42
Consensus pattern (4 bp):
CTCT
Found at i:59943 original size:28 final size:28
Alignment explanation
Indices: 59896--59981 Score: 122
Period size: 28 Copynumber: 3.1 Consensus size: 28
59886 TAAAACTTTG
* * *
59896 CTCTCTCTCTCTCTCCCTCTCTCTCTCT
1 CTCTCTCGCTCGCTCACTCTCTCTCTCT
59924 --CTCTCGCTCGCTCACTCTCTCTCTCT
1 CTCTCTCGCTCGCTCACTCTCTCTCTCT
*
59950 CTCTCTCGCTCGCTCACTCTCTCTGTCT
1 CTCTCTCGCTCGCTCACTCTCTCTCTCT
59978 CTCT
1 CTCT
59982 TCTTGGATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 23 0.44
28 29 0.56
ACGTcount: A:0.02, C:0.50, G:0.06, T:0.42
Consensus pattern (28 bp):
CTCTCTCGCTCGCTCACTCTCTCTCTCT
Found at i:66116 original size:33 final size:33
Alignment explanation
Indices: 66070--66135 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
66060 ATTTTAATGC
*
66070 TTTAAAACTTAATCAAGAAGATCAATATAAAAT
1 TTTAAAACATAATCAAGAAGATCAATATAAAAT
66103 TTTAAAACATAATCAAGAAGATCAATATAAAAT
1 TTTAAAACATAATCAAGAAGATCAATATAAAAT
66136 ATAAAAAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (33 bp):
TTTAAAACATAATCAAGAAGATCAATATAAAAT
Found at i:67160 original size:2 final size:2
Alignment explanation
Indices: 67153--67180 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
67143 TCTCTAATGA
67153 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67181 GCAGGTGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69452 original size:28 final size:28
Alignment explanation
Indices: 69417--69474 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
69407 AACCATATAT
69417 AAAACATATATATTTCTTCATATATTAA
1 AAAACATATATATTTCTTCATATATTAA
69445 AAAACATATATATTTCTTCATATATTAA
1 AAAACATATATATTTCTTCATATATTAA
69473 AA
1 AA
69475 GAAAGCCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAACATATATATTTCTTCATATATTAA
Done.