Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007024.1 Hibiscus syriacus cultivar Beakdansim tig00018170_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: 89533
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:3718 original size:3 final size:3
Alignment explanation
Indices: 3705--3761 Score: 105
Period size: 3 Copynumber: 18.7 Consensus size: 3
3695 CAATGCTAAA
3705 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3751 AAT AAT AAT AA
1 AAT AAT AAT AA
3762 ATAAAAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3883 original size:15 final size:16
Alignment explanation
Indices: 3847--3888 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
3837 GGGTAAACTA
3847 AATTCGGGTTGCTTTC
1 AATTCGGGTTGCTTTC
* *
3863 AGTTCGGGTT-TTTTC
1 AATTCGGGTTGCTTTC
3878 AATTCGGGTTG
1 AATTCGGGTTG
3889 ATTTTGGTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.12, C:0.14, G:0.29, T:0.45
Consensus pattern (16 bp):
AATTCGGGTTGCTTTC
Found at i:7959 original size:19 final size:19
Alignment explanation
Indices: 7919--7965 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
7909 CTGGAAAACT
* *
7919 GGTTTGACCGGTTTTGATC
1 GGTTTGACCGGTTCTGACC
7938 GGTTTGACCGG-TCTGAACC
1 GGTTTGACCGGTTCTG-ACC
*
7957 GGTCTGACC
1 GGTTTGACC
7966 CGACCCGACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (19 bp):
GGTTTGACCGGTTCTGACC
Found at i:8001 original size:27 final size:27
Alignment explanation
Indices: 7961--8019 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
7951 TGAACCGGTC
* *
7961 TGACCCGACCCGACCCGACCCGACCGT
1 TGACCCAACCCGACCCGACCCGACCAT
* *
7988 TGACCCAACTCGACTCGACCCGACCAT
1 TGACCCAACCCGACCCGACCCGACCAT
8015 TGACC
1 TGACC
8020 ATTGACCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.47, G:0.19, T:0.12
Consensus pattern (27 bp):
TGACCCAACCCGACCCGACCCGACCAT
Found at i:14947 original size:9 final size:9
Alignment explanation
Indices: 14933--15001 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
14923 GTGGCTGAAA
14933 ACCGGTTTG
1 ACCGGTTTG
14942 ACCGGTTTTG
1 ACCGG-TTTG
14952 ACCGGTTTG
1 ACCGGTTTG
* *
14961 ATCGATTTCG
1 ACCGGTTT-G
**
14971 ACCGGTTCAA
1 ACCGGTT-TG
14981 ACCGGTTTG
1 ACCGGTTTG
* *
14990 CCCGGTCTG
1 ACCGGTTTG
14999 ACC
1 ACC
15002 CGACCCGACC
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
9 24 0.52
10 22 0.48
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:14957 original size:19 final size:19
Alignment explanation
Indices: 14933--14977 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
14923 GTGGCTGAAA
* *
14933 ACCGGTTTGACCGGTTTTG
1 ACCGGTTTGACCGATTTCG
*
14952 ACCGGTTTGATCGATTTCG
1 ACCGGTTTGACCGATTTCG
14971 ACCGGTT
1 ACCGGTT
14978 CAAACCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.29, T:0.36
Consensus pattern (19 bp):
ACCGGTTTGACCGATTTCG
Found at i:15022 original size:22 final size:21
Alignment explanation
Indices: 14997--15043 Score: 85
Period size: 22 Copynumber: 2.2 Consensus size: 21
14987 TTGCCCGGTC
14997 TGACCCGACCCGACCCGACCGT
1 TGACCCGACCCGA-CCGACCGT
15019 TGACCCGACCCGACCGACCGT
1 TGACCCGACCCGACCGACCGT
15040 TGAC
1 TGAC
15044 AGTGACTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.19, C:0.47, G:0.23, T:0.11
Consensus pattern (21 bp):
TGACCCGACCCGACCGACCGT
Found at i:19502 original size:10 final size:10
Alignment explanation
Indices: 19474--19510 Score: 58
Period size: 11 Copynumber: 3.7 Consensus size: 10
19464 TGAAAATCGG
19474 TTTGACCGGT
1 TTTGACCGGT
19484 TTTGAACCGGT
1 TTTG-ACCGGT
19495 TTTGACCGG-
1 TTTGACCGGT
19504 TTTGACC
1 TTTGACC
19511 AATTTCAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 7 0.27
10 9 0.35
11 10 0.38
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.38
Consensus pattern (10 bp):
TTTGACCGGT
Found at i:19588 original size:17 final size:17
Alignment explanation
Indices: 19558--19593 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19548 CAACCCGACC
19558 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
* *
19575 GACCCTACCTGACCGTT
1 GACCCGACCCGACCGTT
19592 GA
1 GA
19594 TCGTGACTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.42, G:0.22, T:0.17
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:22280 original size:17 final size:16
Alignment explanation
Indices: 22243--22281 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
22233 TTTAAATTTT
*
22243 AATTTAAAACATTATA
1 AATTTAAAACATTAAA
*
22259 TATTTAAATACATTAAA
1 AATTTAAA-ACATTAAA
22276 AATTTA
1 AATTTA
22282 TCACTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTTAAAACATTAAA
Found at i:36059 original size:62 final size:62
Alignment explanation
Indices: 35962--36083 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
35952 AAACAATAAT
* *
35962 GATTCTTTTAACTACTGAGGTAAGATGATTCGTGCTAGTAACCTAACTATTTAAAACATCCC
1 GATTCCTTTAACAACTGAGGTAAGATGATTCGTGCTAGTAACCTAACTATTTAAAACATCCC
36024 GATTCCTTTAACAACTGAGGTAAGATGATTCGTGCTAGTAACCTAACTATTTAAAACATC
1 GATTCCTTTAACAACTGAGGTAAGATGATTCGTGCTAGTAACCTAACTATTTAAAACATC
36084 GTTAGGTTCT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (62 bp):
GATTCCTTTAACAACTGAGGTAAGATGATTCGTGCTAGTAACCTAACTATTTAAAACATCCC
Found at i:40557 original size:68 final size:68
Alignment explanation
Indices: 40463--40799 Score: 454
Period size: 68 Copynumber: 5.0 Consensus size: 68
40453 TTAGGGGTTT
* *
40463 TTTAAGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGCCACTCGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
40528 TTA
66 TTA
** * * * *
40531 TTTAGGGTAAACTGTCTGTTTTGTCACTTATATATTGTCTAATTTATGTTTTGATCACTCGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
40596 TTA
66 TTA
* *
40599 TTTAGGGTAAACTACCAATTTGGTCACTTATATATCT-TCTAATTTATGTTTTGGTCACTCGATA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATAT-TATCTAATTTATGTTTTGGTCACTCGATT
40663 ATTA
65 ATTA
* * ** *
40667 TTTAGGGTAAACTAGCTATTTGGTCACTTATATATTATCTAATATAAT-TCAT-AT-A-T--ATT
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAAT-TTATGTTTTGGTCACTCGATT
*
40726 TTTA
65 ATTA
*
40730 TATAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
40795 TTA
66 TTA
40798 TT
1 TT
40800 ATTTTTTTTA
Statistics
Matches: 229, Mismatches: 31, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
62 3 0.01
63 48 0.21
64 1 0.00
65 2 0.01
66 2 0.01
67 2 0.01
68 167 0.73
69 4 0.02
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (68 bp):
TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
TTA
Found at i:42584 original size:29 final size:29
Alignment explanation
Indices: 42558--42624 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
42548 TTTGACTGGC
42558 GTGTCACGGTCCAAATTAGTTGGACTGTA
1 GTGTCACGGTCCAAATTAGTTGGACTGTA
* *
42587 GTGTCACGATCCAAATTAGTTGCACTGTA
1 GTGTCACGGTCCAAATTAGTTGGACTGTA
42616 GTGTCACGG
1 GTGTCACGG
42625 GTGAGCTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (29 bp):
GTGTCACGGTCCAAATTAGTTGGACTGTA
Found at i:43437 original size:12 final size:12
Alignment explanation
Indices: 43422--43462 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
43412 CCCTTCCACC
* *
43422 AACCCTTACCCT
1 AACCCTAACCCG
43434 AACCCTAACCCG
1 AACCCTAACCCG
*
43446 AACCCGAACCCG
1 AACCCTAACCCG
43458 AACCC
1 AACCC
43463 CACCCCAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.32, C:0.51, G:0.07, T:0.10
Consensus pattern (12 bp):
AACCCTAACCCG
Found at i:43438 original size:6 final size:6
Alignment explanation
Indices: 43429--43462 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
43419 ACCAACCCTT
* *
43429 ACCCTA ACCCTA ACCCGA ACCCGA ACCCGA ACCC
1 ACCCGA ACCCGA ACCCGA ACCCGA ACCCGA ACCC
43463 CACCCCAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.32, C:0.53, G:0.09, T:0.06
Consensus pattern (6 bp):
ACCCGA
Found at i:47838 original size:15 final size:16
Alignment explanation
Indices: 47818--47856 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
47808 GTTTACTTCA
*
47818 GAATGATT-AAGTGCT
1 GAATGATTCAAATGCT
*
47833 GAATGATTCAAATGTT
1 GAATGATTCAAATGCT
47849 GAATGATT
1 GAATGATT
47857 TAGAGGCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (16 bp):
GAATGATTCAAATGCT
Found at i:55062 original size:43 final size:43
Alignment explanation
Indices: 54996--55077 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
54986 CTCGAACTCA
* *
54996 GAATCTTAAAGAATAACAATTCTTTTACTATCAAAGTCGATCG
1 GAATATTAAAGAATAACAATTCTTTTACTACCAAAGTCGATCG
*
55039 GAATATTAAATAATAACAATTCTTTTACTACCAAAGTCG
1 GAATATTAAAGAATAACAATTCTTTTACTACCAAAGTCG
55078 TTTGATTCGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (43 bp):
GAATATTAAAGAATAACAATTCTTTTACTACCAAAGTCGATCG
Found at i:56777 original size:20 final size:19
Alignment explanation
Indices: 56719--56777 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
56709 AAATTTTATT
*
56719 TTTAAATATTTTTAAAAAA
1 TTTAAATATTTTTAATAAA
*
56738 TTATAAATATTATTAATAAA
1 TT-TAAATATTTTTAATAAA
56758 TCTTAAA-ATTTTTAAGTAAA
1 T-TTAAATATTTTTAA-TAAA
56778 CTTCACAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 9 0.26
20 24 0.71
21 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
TTTAAATATTTTTAATAAA
Found at i:57749 original size:33 final size:33
Alignment explanation
Indices: 57712--57778 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
57702 ACAGATAGAG
57712 TGGATTTGCTACATGATCATCCCTCTTAGTGTC
1 TGGATTTGCTACATGATCATCCCTCTTAGTGTC
* *
57745 TGGATTTGCTCCATGATTATCCCTCTTAGTGTC
1 TGGATTTGCTACATGATCATCCCTCTTAGTGTC
57778 T
1 T
57779 AAATGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (33 bp):
TGGATTTGCTACATGATCATCCCTCTTAGTGTC
Found at i:61299 original size:27 final size:27
Alignment explanation
Indices: 61269--61325 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
61259 CTGGATCGAA
61269 AATCTATAAATTCCTATATAAAATCTC
1 AATCTATAAATTCCTATATAAAATCTC
* *
61296 AATCTGTAAATTTCTATATAAAATCTC
1 AATCTATAAATTCCTATATAAAATCTC
61323 AAT
1 AAT
61326 TGAATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (27 bp):
AATCTATAAATTCCTATATAAAATCTC
Found at i:62834 original size:2 final size:2
Alignment explanation
Indices: 62827--62868 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
62817 TGGATCCTAA
*
62827 CT CT CT CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
62869 ATATATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:62873 original size:2 final size:2
Alignment explanation
Indices: 62868--62900 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
62858 TCTCTCTCTC
62868 TA 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 TA T
62901 TGTGGGTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:67313 original size:29 final size:28
Alignment explanation
Indices: 67220--67364 Score: 96
Period size: 29 Copynumber: 5.0 Consensus size: 28
67210 CCATTCTAGA
* *
67220 TTAATTCTTAAACTTTAAATTATTTCAAT
1 TTAATCCTTAAATTTTAAA-TATTTCAAT
* * * * * *
67249 TTCATCATTAAATTATGACTCATTTGAA-
1 TTAATCCTTAAATTTTAAAT-ATTTCAAT
*
67277 TTAGTCCTTGAAATTTTAAATATTTCAAT
1 TTAATCCTT-AAATTTTAAATATTTCAAT
* * * * *
67306 TTAATCCTCAAATTATGACT-TATTCTAAA
1 TTAATCCTTAAATTTTAAATAT-TTC-AAT
67335 TTAATCCTTAAATTTTTAAATATTTCAAT
1 TTAATCCTTAAA-TTTTAAATATTTCAAT
67364 T
1 T
67365 CATCCCTAAA
Statistics
Matches: 83, Mismatches: 26, Indels: 14
0.67 0.21 0.11
Matches are distributed among these distances:
27 1 0.01
28 24 0.29
29 49 0.59
30 8 0.10
31 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.48
Consensus pattern (28 bp):
TTAATCCTTAAATTTTAAATATTTCAAT
Found at i:67352 original size:58 final size:57
Alignment explanation
Indices: 67211--67364 Score: 193
Period size: 57 Copynumber: 2.7 Consensus size: 57
67201 TCTATACTCC
* * * * *
67211 CATTCTAGATTAATTCTTAAACTTTAAATTATTTCAATTTCATCATTAAATTATGACT
1 CATTCTAAATTAATCCTTAAATTTTAAA-TATTTCAATTTAATCATCAAATTATGACT
* * *
67269 CATT-TGAATTAGTCCTTGAAATTTTAAATATTTCAATTTAATCCTCAAATTATGACT
1 CATTCTAAATTAATCCTT-AAATTTTAAATATTTCAATTTAATCATCAAATTATGACT
*
67326 TATTCTAAATTAATCCTTAAATTTTTAAATATTTCAATT
1 CATTCTAAATTAATCCTTAAA-TTTTAAATATTTCAATT
67365 CATCCCTAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
57 41 0.50
58 41 0.50
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (57 bp):
CATTCTAAATTAATCCTTAAATTTTAAATATTTCAATTTAATCATCAAATTATGACT
Found at i:71490 original size:24 final size:23
Alignment explanation
Indices: 71428--71491 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
71418 TCCCCTAGAA
*
71428 GTGCATCGATGCATCC-TATCGT
1 GTGCATCGATGCATCCTTAACGT
71450 GT--ATCGATGCATCCCTTAACGT
1 GTGCATCGATGCAT-CCTTAACGT
71472 GTGCATCGATGCACTCCTTA
1 GTGCATCGATGCA-TCCTTA
71492 TGCATCGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 10 0.28
21 2 0.06
22 9 0.25
24 14 0.39
25 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.31
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTAACGT
Found at i:75588 original size:24 final size:23
Alignment explanation
Indices: 75526--75589 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
75516 TCCCCTTGAA
*
75526 GTGCATCGATGCATCC-TATCGC
1 GTGCATCGATGCATCCTTAACGC
*
75548 GT--ATCGATGCATCCCTTAACGT
1 GTGCATCGATGCAT-CCTTAACGC
75570 GTGCATCGATGCACTCCTTA
1 GTGCATCGATGCA-TCCTTA
75590 TGCATCGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 10 0.29
21 2 0.06
22 8 0.23
24 14 0.40
25 1 0.03
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTAACGC
Found at i:85289 original size:40 final size:41
Alignment explanation
Indices: 85224--85310 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
85214 CAAATCAGAA
* * * *
85224 GAATAACATGAATTAATGTGGGAGGG-AAGGGAAAACTGGT
1 GAATAACATGAATCAATATGAGAGGGAAAGGGAAAACTGAT
*
85264 GAATAACATGAATCAATATGAGAGGGAAAAGGGAACACTGAT
1 GAATAACATGAATCAATATGAGAGGG-AAAGGGAAAACTGAT
85306 GAATA
1 GAATA
85311 GTCCCACAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 23 0.57
42 17 0.43
ACGTcount: A:0.45, C:0.07, G:0.30, T:0.18
Consensus pattern (41 bp):
GAATAACATGAATCAATATGAGAGGGAAAGGGAAAACTGAT
Done.