Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005340.1 Hibiscus syriacus cultivar Beakdansim tig00012095_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: 88880
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:470 original size:22 final size:22
Alignment explanation
Indices: 396--472 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
386 GCTACCCCAT
*
396 CAAACCGTTGAGCAT-AAACTGC
1 CAAACCTTTGAGCATCAAA-TGC
*
418 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
440 CAAACCTTTGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATGC
*
462 CAAATCTTTGA
1 CAAACCTTTGA
473 CCAAACATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 46 0.94
23 3 0.06
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:1471 original size:103 final size:102
Alignment explanation
Indices: 1262--1619 Score: 404
Period size: 103 Copynumber: 3.5 Consensus size: 102
1252 ATATCGTGCC
* * * *
1262 ACTCAAGAAAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGCCAACAAATAACTTCTC
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC-A-AAA-AACTTCT-
* *
1327 AATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGG
62 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1368 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACTTCATAAT
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAACTTC-TAAT
* * *
1433 TTCAGAGCCAATTTCAACTTCTCAGCGAATGATCTTGG
65 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
1471 ACCCAAGACAACACAAGCTCAAC-TCTCGACGAAGGGGCGGCTGATTGTCAACAAAA-TT-TCA-
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAAACTTCTAAT
* *
1532 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAG
65 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1570 AGTCGAGACAACACAAGTTCAACTTCAC-ACGAA-GGACGGCTGGTTGTCAA
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
1620 CAAATAATTT
Statistics
Matches: 215, Mismatches: 34, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
98 15 0.07
99 57 0.27
100 5 0.02
102 26 0.12
103 64 0.30
104 3 0.01
105 1 0.00
106 44 0.20
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (102 bp):
ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAACTTCTAATT
TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:1558 original size:99 final size:101
Alignment explanation
Indices: 1262--1623 Score: 365
Period size: 99 Copynumber: 3.5 Consensus size: 101
1252 ATATCGTGCC
* * * * * * *
1262 ACTCAAGAAAACACAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGCCAACAAATAACTTCTC
1 ACTCAAGACAACACAAGTTCAAC-TCTCGACGAAGGGACGGCTGGTTGTCAAC-AA-AA-TTAT-
*
1327 AATTTCAGA-TCCAATTTCAACTTCACAACGAAGGATATTGG
61 AATTTCAGAGT-CAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
1368 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACTTCATAAT
1 ACTCAAGACAACACAAGTTCAAC-TCTCGACGAAGGGACGGCTGGTTGTCAACAAAATT-ATAAT
* * * *
1433 TTCAGAGCCAATTTCAACTTCTCAGCGAATGATCTTGG
64 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
1471 ACCCAAGACAACACAAGCTCAACTCTCGACGAAGGGGCGGCTGATTGTCAACAAAATT-TCA-TT
1 ACTCAAGACAACACAAGTTCAACTCTCGACGAAGGGACGGCTGGTTGTCAACAAAATTATAATTT
*
1534 CAGAGTCAATTTCAACTTCACAGCGAAGGATATTAG
66 CAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1570 AGTCGAGACAACACAAGTTCAACT-TCACACGAA-GGACGGCTGGTTGTCAACAAA
1 ACTCAAGACAACACAAGTTCAACTCTC-GACGAAGGGACGGCTGGTTGTCAACAAA
1624 TAATTTCCCG
Statistics
Matches: 216, Mismatches: 37, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
98 21 0.10
99 58 0.27
100 2 0.01
102 29 0.13
103 56 0.26
104 2 0.01
105 2 0.01
106 46 0.21
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (101 bp):
ACTCAAGACAACACAAGTTCAACTCTCGACGAAGGGACGGCTGGTTGTCAACAAAATTATAATTT
CAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:13518 original size:17 final size:16
Alignment explanation
Indices: 13487--13520 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
13477 CACGTGAGGA
13487 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
13503 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
13520 T
1 T
13521 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:14372 original size:36 final size:36
Alignment explanation
Indices: 14325--14416 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 36
14315 TTCGTCCTAT
* *
14325 TAGGATTCAAACTCCTAAAATAGGATAGAATTTTGC
1 TAGGATTCAAACTCCTAAAATAGGATAGAATTCTAC
*
14361 TAGGATTCAAACTCCTTAAAATAGGATAGAGTTCTAC
1 TAGGATTCAAACTCC-TAAAATAGGATAGAATTCTAC
* *
14398 TATGATTTAAACTCCTAAA
1 TAGGATTCAAACTCCTAAA
14417 GATATGATCC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
36 19 0.38
37 31 0.62
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (36 bp):
TAGGATTCAAACTCCTAAAATAGGATAGAATTCTAC
Found at i:15030 original size:2 final size:2
Alignment explanation
Indices: 15023--15071 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
15013 GTATTATTAC
*
15023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15065 TA TA TA T
1 TA TA TA T
15072 TGTAATTATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15233 original size:19 final size:21
Alignment explanation
Indices: 15211--15254 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
15201 TTTTTTTGGT
*
15211 TTTTTTATATTA-TATTA-TA
1 TTTTTCATATTACTATTATTA
15230 -TTTTCATATTACTATTATTA
1 TTTTTCATATTACTATTATTA
15250 TTTTT
1 TTTTT
15255 ATGATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.48
19 5 0.24
20 2 0.10
21 4 0.19
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTCATATTACTATTATTA
Found at i:15291 original size:2 final size:2
Alignment explanation
Indices: 15284--15332 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
15274 TTTACTCATT
15284 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15326 TA TA TA T
1 TA TA TA T
15333 TTCATTTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15343 original size:4 final size:4
Alignment explanation
Indices: 15330--15379 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
15320 TATATATATA
*
15330 TATT TCATT TATT TATT TATT TATT T-TT CCT-TT TATT TTTT TATT TATT
1 TATT T-ATT TATT TATT TATT TATT TATT --TATT TATT TATT TATT TATT
15379 T
1 T
15380 TTATTCTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 3 0.08
4 30 0.75
5 7 0.17
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:15380 original size:12 final size:12
Alignment explanation
Indices: 15336--15403 Score: 66
Period size: 12 Copynumber: 5.6 Consensus size: 12
15326 TATATATTTC
*
15336 ATTTATTTATTT
1 ATTTATTTTTTT
*
15348 ATTTATTTTTCCT
1 ATTTATTTTT-TT
15361 -TTTATTTTTTT
1 ATTTATTTTTTT
15372 ATTTATTTTTATT
1 ATTTATTTTT-TT
* * *
15385 CTTCATTTTTTC
1 ATTTATTTTTTT
15397 ATTTATT
1 ATTTATT
15404 CATTTTTTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
11 1 0.02
12 33 0.73
13 11 0.24
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (12 bp):
ATTTATTTTTTT
Found at i:21592 original size:20 final size:22
Alignment explanation
Indices: 21567--21624 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
21557 TTCCCCTTGA
21567 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
21587 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
21610 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
21625 CTACCCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:21699 original size:64 final size:63
Alignment explanation
Indices: 21614--21772 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 63
21604 TTTAACATGT
* * *
21614 GCATCGATGCACTACCCATGCATCGATACACCAATCACCTTCGATGTTTTCA-TTTTAAGGGGG
1 GCATCGATGCACT-CCTATGCATCGATACACCAATCACATTCGACGTTTTCATTTTTAAGGGGG
* * ** * *
21677 GTCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGACGTTTTCATTTTTAATGGGT
1 G-CATCGATGCACTCC-TATGCATCGATACACCAATCACATTCGACGTTTTCATTTTTAAGGGGG
*
21742 GCATCGATGCACTTCCTGTGCATCGATACAC
1 GCATCGATGCAC-TCCTATGCATCGATACAC
21773 ACTGAACAGT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
63 3 0.04
64 65 0.80
65 13 0.16
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (63 bp):
GCATCGATGCACTCCTATGCATCGATACACCAATCACATTCGACGTTTTCATTTTTAAGGGGG
Found at i:27562 original size:31 final size:31
Alignment explanation
Indices: 27522--27589 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
27512 AAACTACACC
* *
27522 TTAGT-ACCCAACTATTACTTTTGTTCCATT
1 TTAGTCACCCAACAATTACTTTTGTTACATT
*
27552 TTAGTCACCCAACAATTATTTTTGTTACATT
1 TTAGTCACCCAACAATTACTTTTGTTACATT
*
27583 TTGGTCA
1 TTAGTCA
27590 TCTACCGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.46
Consensus pattern (31 bp):
TTAGTCACCCAACAATTACTTTTGTTACATT
Found at i:29733 original size:2 final size:2
Alignment explanation
Indices: 29726--29753 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29716 ACCTGTGCAA
29726 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
29754 GAGTTATAAA
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:30322 original size:31 final size:31
Alignment explanation
Indices: 30286--30350 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
30276 TTTGAATTTT
*
30286 AAAATTATCTCAGTCAAAATATCCTATTAAA
1 AAAATTATCTCAATCAAAATATCCTATTAAA
30317 AAAATTATCTCAATCAAAATATCCTATTAAA
1 AAAATTATCTCAATCAAAATATCCTATTAAA
30348 AAA
1 AAA
30351 TTAACAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (31 bp):
AAAATTATCTCAATCAAAATATCCTATTAAA
Found at i:39863 original size:51 final size:52
Alignment explanation
Indices: 39750--39864 Score: 133
Period size: 52 Copynumber: 2.2 Consensus size: 52
39740 ATGAAGACCA
* * * * * *
39750 AATTTAAGAATGAAATTTAAATATTTAAATATCAATTTAAAATAAGAATTAT
1 AATTTAAAAATAAAATTTAAAGATTTAAAGATCAATTAAAAATAAGAATAAT
* * * *
39802 AATTTGAAAATAAAATTTAAAGATTTAAGGATTAATTAAAAATGA-AATAAT
1 AATTTAAAAATAAAATTTAAAGATTTAAAGATCAATTAAAAATAAGAATAAT
39853 AATTTAAAAATA
1 AATTTAAAAATA
39865 TATAACGATG
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
51 16 0.31
52 36 0.69
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.36
Consensus pattern (52 bp):
AATTTAAAAATAAAATTTAAAGATTTAAAGATCAATTAAAAATAAGAATAAT
Found at i:50051 original size:14 final size:14
Alignment explanation
Indices: 50037--50089 Score: 79
Period size: 14 Copynumber: 3.8 Consensus size: 14
50027 ATTATAAATT
* * *
50037 TATAGATATTTATT
1 TATATATATATATA
50051 TATATATATATATA
1 TATATATATATATA
50065 TATATATATATATA
1 TATATATATATATA
50079 TATATATATAT
1 TATATATATAT
50090 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TATATATATATATA
Found at i:50058 original size:4 final size:4
Alignment explanation
Indices: 50037--50089 Score: 79
Period size: 4 Copynumber: 13.2 Consensus size: 4
50027 ATTATAAATT
* * *
50037 TATA GATA TTTA TTTA TATA TATA TATA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
50085 TATA T
1 TATA T
50090 TAAAAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (4 bp):
TATA
Found at i:50062 original size:6 final size:6
Alignment explanation
Indices: 50037--50089 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
50027 ATTATAAATT
* * *
50037 TATAGA TATTTA TTTATA TATATA TATATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
50085 TATAT
1 TATAT
50090 TAAAAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (6 bp):
TATATA
Found at i:53725 original size:5 final size:5
Alignment explanation
Indices: 53715--53754 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
53705 TTTTATCACC
* *
53715 ATTTT CATTTC ATTTC ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
53755 ATGAGATTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:58011 original size:35 final size:35
Alignment explanation
Indices: 57965--58034 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
57955 GTCCATAATG
* *
57965 AATTACCAGCTTGATCGGTGTTGAACCTACTGAGA
1 AATTACCAGCTTGATCGGAGTTGAACCTACAGAGA
*
58000 AATTATCAGCTTGATCGGAGTTGAACCTACAGAGA
1 AATTACCAGCTTGATCGGAGTTGAACCTACAGAGA
58035 CTCAATACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (35 bp):
AATTACCAGCTTGATCGGAGTTGAACCTACAGAGA
Found at i:59747 original size:17 final size:19
Alignment explanation
Indices: 59709--59750 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
59699 TAAAATCCCT
*
59709 TAATTATTCTCAACATTTA
1 TAATTAATCTCAACATTTA
59728 TAATTAATC-CAACA-TTA
1 TAATTAATCTCAACATTTA
59745 TAATTA
1 TAATTA
59751 GATTGATACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 5 0.23
19 8 0.36
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATTAATCTCAACATTTA
Found at i:72644 original size:2 final size:2
Alignment explanation
Indices: 72637--72684 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
72627 CATGATAAGA
72637 AT AT AT AT AT 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 AT AT AT AT AT
72679 AT AT AT
1 AT AT AT
72685 TTAAATATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75390 original size:19 final size:19
Alignment explanation
Indices: 75366--75402 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75356 TAATTAAAAG
**
75366 TAAAATAATTTTTGAATTT
1 TAAAATAAGATTTGAATTT
75385 TAAAATAAGATTTGAATT
1 TAAAATAAGATTTGAATT
75403 ATTTGAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
TAAAATAAGATTTGAATTT
Found at i:83236 original size:102 final size:103
Alignment explanation
Indices: 83012--83228 Score: 391
Period size: 102 Copynumber: 2.1 Consensus size: 103
83002 GTAGAGGGTC
* *
83012 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAATAGGTGTGAGGTCTGTTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACAGGTGTGAGGTCTGTTGAGACACATAC
83077 TTGATCTTTGGCATATGTATATGATTATTAAGGAATGA
66 TTGATCTTTGGCATATGTATATGATTATTAAGGAATGA
83115 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACA-GTGTGAGGTCTGTTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACAGGTGTGAGGTCTGTTGAGACACATAC
*
83179 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCTTTGGCATATGTATATGATTATTAAGGAATGA
*
83217 TATGTTGTCCTT
1 TATGTGGTCCTT
83229 ATGGACATTA
Statistics
Matches: 110, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 73 0.66
103 37 0.34
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACAGGTGTGAGGTCTGTTGAGACACATAC
TTGATCTTTGGCATATGTATATGATTATTAAGGAATGA
Found at i:83284 original size:23 final size:23
Alignment explanation
Indices: 83245--83307 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
83235 ATTATTATAT
* *
83245 GGCACTACGGTGTAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
* *
83268 GGTACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
**
83291 GGCACTTAGGTGCAATT
1 GGCACTCCGGTGCAATT
83308 ATATGAGCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Done.