Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006700.1 Hibiscus syriacus cultivar Beakdansim tig00016682_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: 228063
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 2
Found at i:162145 original size:19 final size:19
Alignment explanation
Indices: 162110--162228 Score: 78
Period size: 19 Copynumber: 6.8 Consensus size: 19
162100 CGCGATTATA
* *
162110 GTTTCACGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTC
162129 GTTTCGCGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTC
* *
162148 ATTTCGCGTTGTGA--TTC
1 GTTTCGCGTTGCGATTTTC
*
162165 -TAT--CGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTC
* * *
162181 ATTTCTCGTTGTGA--TTC
1 GTTTCGCGTTGCGATTTTC
*
162198 ---TCTCGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTC
*
162214 ATTTCGCGTTGCGAT
1 GTTTCGCGTTGCGAT
162229 AGTCATTTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.21
16 8 0.10
17 8 0.10
19 47 0.59
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTC
Found at i:162172 original size:33 final size:33
Alignment explanation
Indices: 162135--162224 Score: 162
Period size: 33 Copynumber: 2.7 Consensus size: 33
162125 TTTGGTTTCG
162135 CGTTGCGATTTTCATTTCGCGTTGTGATTCTAT
1 CGTTGCGATTTTCATTTCGCGTTGTGATTCTAT
* *
162168 CGTTGCGATTTTCATTTCTCGTTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGTGATTCTAT
162201 CGTTGCGATTTTCATTTCGCGTTG
1 CGTTGCGATTTTCATTTCGCGTTG
162225 CGATAGTCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.10, C:0.20, G:0.21, T:0.49
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGTGATTCTAT
Found at i:162549 original size:94 final size:92
Alignment explanation
Indices: 162387--162570 Score: 296
Period size: 94 Copynumber: 2.0 Consensus size: 92
162377 AGTTTAGTTC
* * *
162387 AACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAATAATACACAGTTTAGCAGAA
1 AACCAAAAGACAAAACAAAGACAAATACTACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGAA
162452 TTGGCAGCAACCGAATAAATTTACTTT
66 TTGGCAGCAACCGAATAAATTTACTTT
*
162479 AACCAAAAGACAAAACAAAATACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAG
1 AACCAAAAGACAAAAC-AAAGACAAATACT-ACTTCACAGTGTTAAAGAATAAACAGTTTAGCAG
* *
162544 TATTGGCAGCAATCGAATAAATTTACT
64 AATTGGCAGCAACCGAATAAATTTACT
162571 AAGCAATCTA
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 16 0.19
93 12 0.14
94 56 0.67
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (92 bp):
AACCAAAAGACAAAACAAAGACAAATACTACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGAA
TTGGCAGCAACCGAATAAATTTACTTT
Found at i:164461 original size:25 final size:26
Alignment explanation
Indices: 164403--164454 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
164393 TTTCCATTTC
*
164403 TGAATGATTGTGAGGGATTTCTGACCG
1 TGAATGGTTGTGAGGGATTTC-GACCG
164430 TGAATGGTTGTGAGGGATTTC-ACCG
1 TGAATGGTTGTGAGGGATTTCGACCG
164455 GAGATGGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.17
27 20 0.83
ACGTcount: A:0.21, C:0.12, G:0.35, T:0.33
Consensus pattern (26 bp):
TGAATGGTTGTGAGGGATTTCGACCG
Found at i:164660 original size:20 final size:20
Alignment explanation
Indices: 164635--164751 Score: 121
Period size: 20 Copynumber: 5.7 Consensus size: 20
164625 CTTTAAAAAT
164635 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
164655 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
164675 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
164696 CGCGTTGCGATTTTTACGGATA
1 CGCGTTGCGA--TTTACGGATA
* * * *
164718 CTCGTTGCGATAGTAAGAAT-
1 CGCGTTGCGAT-TTACGGATA
164738 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
164752 TATGTTCGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.02
20 38 0.47
21 22 0.27
22 19 0.23
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:164694 original size:41 final size:41
Alignment explanation
Indices: 164637--164789 Score: 150
Period size: 41 Copynumber: 3.7 Consensus size: 41
164627 TTAAAAATCG
*
164637 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATAGT
* *
164678 CGTTGCGATTTACGGATACGCGTTGCGATTTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTTACGTATAGT
* * * * *
164720 CGTTGCGATAGTAAGAAT-CGCGTTGCGATTTATATGT-TCG-
1 CGTTGCGAT-TTACGGATACGCGTTGCGATTT-TACGTATAGT
* ** *
164760 CGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGTTGCGATTTACGGATACGCGTTGCGATT
164790 CTGGAAAATC
Statistics
Matches: 93, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
39 3 0.03
40 21 0.23
41 32 0.34
42 32 0.34
43 5 0.05
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATAGT
Found at i:164724 original size:42 final size:42
Alignment explanation
Indices: 164637--164750 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
164627 TTAAAAATCG
* **
164637 CGTTGCGATTTACGGATACGCGTTGCGA-TTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTTACGGATACT
164678 CGTTGCGATTTACGGATACGCGTTGCGATTTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTTACGGATACT
* * *
164720 CGTTGCGATAGTAAGAAT-CGCGTTGCGATTT
1 CGTTGCGAT-TTACGGATACGCGTTGCGATTT
164751 ATATGTTCGC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 28 0.43
42 32 0.49
43 5 0.08
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (42 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTTACGGATACT
Found at i:164760 original size:20 final size:20
Alignment explanation
Indices: 164737--164789 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
164727 ATAGTAAGAA
*
164737 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
164757 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
164777 TCGCGTTGCGATT
1 TCGCGTTGCGATT
164790 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:164845 original size:19 final size:19
Alignment explanation
Indices: 164821--164872 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
164811 TTGTACTATA
164821 ACATTGTGATTTTTATTTC
1 ACATTGTGATTTTTATTTC
*
164840 ACATTGCGATTTTTTATTTC
1 ACATTGTGA-TTTTTATTTC
* *
164860 GCATTATGATTTT
1 ACATTGTGATTTT
164873 GACAAATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.56
Consensus pattern (19 bp):
ACATTGTGATTTTTATTTC
Found at i:183718 original size:20 final size:21
Alignment explanation
Indices: 183684--183723 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
183674 TATAATAAAT
183684 TTAATTTTTTATTTC-AATTA
1 TTAATTTTTTATTTCTAATTA
183704 TTAA-TTTTTATTTTCTAATT
1 TTAATTTTTTA-TTTCTAATT
183724 CAATTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTAATTTTTTATTTCTAATTA
Found at i:185033 original size:24 final size:24
Alignment explanation
Indices: 184999--185054 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
184989 ATACTACCCC
*
184999 TTGGTATCGATACCCCATTGAGTA
1 TTGGTACCGATACCCCATTGAGTA
185023 TTGGTACCGATACCCCATTGAGTA
1 TTGGTACCGATACCCCATTGAGTA
185047 TTGGTACC
1 TTGGTACC
185055 AAAATAGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (24 bp):
TTGGTACCGATACCCCATTGAGTA
Found at i:185112 original size:20 final size:20
Alignment explanation
Indices: 185087--185163 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
185077 ATGTAACCTC
185087 GAGTATCGATACTCACCCAT
1 GAGTATCGATACTCACCCAT
* * *
185107 GAGTATTGATACT-ACACAAA
1 GAGTATCGATACTCAC-CCAT
* *
185127 CAATATCGATACTC-CCCTGAT
1 GAGTATCGATACTCACCC--AT
185148 GAGTATCGATAC-CACC
1 GAGTATCGATACTCACC
185164 TCACATTCAT
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
19 3 0.07
20 26 0.62
21 13 0.31
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (20 bp):
GAGTATCGATACTCACCCAT
Found at i:189542 original size:20 final size:20
Alignment explanation
Indices: 189506--189543 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
189496 ATCCTATTCC
**
189506 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
189526 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
189544 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:190200 original size:23 final size:23
Alignment explanation
Indices: 190170--190215 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
190160 TCAGAATTAC
*
190170 TCCATTCATAATATTATGATTCA
1 TCCATTCACAATATTATGATTCA
190193 TCCATTCACAATATTATGATTCA
1 TCCATTCACAATATTATGATTCA
190216 AACATCTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (23 bp):
TCCATTCACAATATTATGATTCA
Found at i:190690 original size:13 final size:13
Alignment explanation
Indices: 190674--190702 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
190664 GTATCGTCTG
190674 ATTGTATGCCCTA
1 ATTGTATGCCCTA
190687 ATTGTATGCCCTA
1 ATTGTATGCCCTA
190700 ATT
1 ATT
190703 TTGAAGCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (13 bp):
ATTGTATGCCCTA
Found at i:195394 original size:17 final size:17
Alignment explanation
Indices: 195372--195408 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
195362 AGTTTATATA
195372 TATATAGGATAAAGTAT
1 TATATAGGATAAAGTAT
195389 TATATAGGATAAAGTAT
1 TATATAGGATAAAGTAT
195406 TAT
1 TAT
195409 TCATAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (17 bp):
TATATAGGATAAAGTAT
Found at i:196450 original size:79 final size:81
Alignment explanation
Indices: 196319--196479 Score: 218
Period size: 79 Copynumber: 2.0 Consensus size: 81
196309 ATGGCACGTG
* * * ** *
196319 CATGCATGTATGGAGCATTCATGGACGTACTCATATAGTCGCATACGGTC-TATATACA-ATTTA
1 CATGCATGTATGGAGCATGCATGGACATACTCATACAACCACATACGGTCATATATACAGATTTA
196382 AATGTATTGATTCGTA
66 AATGTATTGATTCGTA
* *
196398 CATGCATGTATGGAGCATGCATGGACATATTCATACAACCACATACGGTCTATATATATATGATT
1 CATGCATGTATGGAGCATGCATGGACATACTCATACAACCACATACGGTC-ATATATACA-GATT
196463 TAAATGTATTGATTCGT
64 TAAATGTATTGATTCGT
196480 GAAAAGCTGA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 43 0.61
81 7 0.10
83 20 0.29
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (81 bp):
CATGCATGTATGGAGCATGCATGGACATACTCATACAACCACATACGGTCATATATACAGATTTA
AATGTATTGATTCGTA
Found at i:196561 original size:16 final size:16
Alignment explanation
Indices: 196542--196574 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
196532 ATAACACGAC
196542 TCATATAGTCACATAG
1 TCATATAGTCACATAG
196558 TCATATAGTCACATAG
1 TCATATAGTCACATAG
196574 T
1 T
196575 TAAAGATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (16 bp):
TCATATAGTCACATAG
Found at i:196820 original size:17 final size:17
Alignment explanation
Indices: 196798--196832 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
196788 TTCTCATATT
196798 TTACAACCATTTAAGAA
1 TTACAACCATTTAAGAA
196815 TTACAACCATTTAAGAA
1 TTACAACCATTTAAGAA
196832 T
1 T
196833 AAATGTTTAA
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:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (17 bp):
TTACAACCATTTAAGAA
Found at i:202428 original size:28 final size:29
Alignment explanation
Indices: 202386--202456 Score: 101
Period size: 28 Copynumber: 2.4 Consensus size: 29
202376 TATATTAAAT
*
202386 TTAATATTTAATTTTAAAATATAAAAA-CA
1 TTAA-ATTTAGTTTTAAAATATAAAAACCA
202415 TTAAATTTAGTTTTAAAATATAAAAACCA
1 TTAAATTTAGTTTTAAAATATAAAAACCA
202444 -TAAATTTATGTTT
1 TTAAATTTA-GTTT
202457 ATCGTAAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 29 0.74
29 10 0.26
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (29 bp):
TTAAATTTAGTTTTAAAATATAAAAACCA
Found at i:208810 original size:5 final size:5
Alignment explanation
Indices: 208800--208828 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
208790 ACCATTGGGG
208800 GGGAA GGGAA GGGAA GGGAA GGGAA GGGA
1 GGGAA GGGAA GGGAA GGGAA GGGAA GGGA
208829 GAAGGGGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GGGAA
Found at i:210336 original size:37 final size:37
Alignment explanation
Indices: 210266--210336 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
210256 ATTTAAACAT
* *
210266 ATAAAATTAAAATATAAATAAACAATGAGTAAAATAG
1 ATAAAATTAAAATATAAATAAAAAATGAATAAAATAG
210303 ATAAAATTAAAAT-TAAATATAAAAA-GTAATAAAA
1 ATAAAATTAAAATATAAATA-AAAAATG-AATAAAA
210337 CTTATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.77
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (37 bp):
ATAAAATTAAAATATAAATAAAAAATGAATAAAATAG
Found at i:211621 original size:3 final size:3
Alignment explanation
Indices: 211606--211661 Score: 85
Period size: 3 Copynumber: 18.3 Consensus size: 3
211596 TTGGGCTTTG
* *
211606 TAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
211652 TAA TAA TAA T
1 TAA TAA TAA T
211662 TAATTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:211631 original size:12 final size:12
Alignment explanation
Indices: 211606--211663 Score: 98
Period size: 12 Copynumber: 4.8 Consensus size: 12
211596 TTGGGCTTTG
211606 TAATAATATATAA
1 TAATAAT-TATAA
211619 TAATAATTATAA
1 TAATAATTATAA
*
211631 TAATAATAATAA
1 TAATAATTATAA
211643 TAATAATTATAA
1 TAATAATTATAA
211655 TAATAATTA
1 TAATAATTA
211664 ATTTAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
12 36 0.84
13 7 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAATAATTATAA
Found at i:215912 original size:2 final size:2
Alignment explanation
Indices: 215907--215946 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
215897 GAAAAAACAG
215907 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
215947 GAAATTTGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:223165 original size:2 final size:2
Alignment explanation
Indices: 223160--223186 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
223150 ATATATATAT
223160 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
223187 TTTTAGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:224334 original size:17 final size:17
Alignment explanation
Indices: 224307--224341 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
224297 GGTTTCGGTT
224307 GTTTGGTGTGTTGGGGGG
1 GTTTGGTGTG-TGGGGGG
224325 GTTT-GTGTGTGGGGGG
1 GTTTGGTGTGTGGGGGG
224341 G
1 G
224342 GGGGGGGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 5 0.29
18 4 0.24
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (17 bp):
GTTTGGTGTGTGGGGGG
Found at i:224342 original size:17 final size:18
Alignment explanation
Indices: 224307--224342 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
224297 GGTTTCGGTT
*
224307 GTTTGGTGTGTTGGGGGG
1 GTTTGGTGTGTGGGGGGG
224325 GTTT-GTGTGTGGGGGGG
1 GTTTGGTGTGTGGGGGGG
224342 G
1 G
224343 GGGGGGGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (18 bp):
GTTTGGTGTGTGGGGGGG
Done.