Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004717.1 Hibiscus syriacus cultivar Beakdansim tig00010637_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: 72338
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:4164 original size:21 final size:20
Alignment explanation
Indices: 4140--4199 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
4130 ACTGAATATT
4140 TGTCCCGAAGGACCATTGATA
1 TGTCCCGAAGGACCA-TGATA
* *
4161 TGTCCCGAAAGACCA--CTA
1 TGTCCCGAAGGACCATGATA
*
4179 TGTCCTGAAGGACCACTGATA
1 TGTCCCGAAGGACCA-TGATA
4200 ATCCCTCGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 15 0.48
21 16 0.52
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (20 bp):
TGTCCCGAAGGACCATGATA
Found at i:4182 original size:18 final size:18
Alignment explanation
Indices: 4159--4195 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4149 GGACCATTGA
4159 TATGTCCCGAAAGACCAC
1 TATGTCCCGAAAGACCAC
* *
4177 TATGTCCTGAAGGACCAC
1 TATGTCCCGAAAGACCAC
4195 T
1 T
4196 GATAATCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (18 bp):
TATGTCCCGAAAGACCAC
Found at i:20309 original size:23 final size:22
Alignment explanation
Indices: 20278--20338 Score: 69
Period size: 17 Copynumber: 3.0 Consensus size: 22
20268 ATACCTTGCC
*
20278 CAAAACCCGAACCCGACCCGAA
1 CAAATCCCGAACCCGACCCGAA
20300 CAAAT--C---CCCGACCCGAA
1 CAAATCCCGAACCCGACCCGAA
20317 CAAATCCCCGAACCCGACCCGA
1 CAAAT-CCCGAACCCGACCCGA
20339 CCCGAACTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
17 16 0.50
20 2 0.06
22 4 0.12
23 10 0.31
ACGTcount: A:0.36, C:0.48, G:0.13, T:0.03
Consensus pattern (22 bp):
CAAATCCCGAACCCGACCCGAA
Found at i:20333 original size:18 final size:17
Alignment explanation
Indices: 20289--20333 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
20279 AAAACCCGAA
20289 CCCGACCCGAACAAATC
1 CCCGACCCGAACAAATC
20306 CCCGACCCGAACAAATC
1 CCCGACCCGAACAAATC
20323 CCCGAACCCGA
1 CCCG-ACCCGA
20334 CCCGACCCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.33, C:0.49, G:0.13, T:0.04
Consensus pattern (17 bp):
CCCGACCCGAACAAATC
Found at i:20900 original size:86 final size:86
Alignment explanation
Indices: 20506--20917 Score: 354
Period size: 86 Copynumber: 4.8 Consensus size: 86
20496 AAAGATGATT
* * * * * * *
20506 AAATTAGGGGCCTCATTTATAAAAGTAAAAA-AGAAATTAAAAAAAATTAAGAGCCTTAATTAT-
1 AAATTAAGAGCCTCAATTATAAAGGTAAAAAGTGAGATT-AAAAAAATTAAG-GCCTCAATTATA
** *
20569 AAAGTAAAAAGTGGGATTCAAAA
64 AAAGTAAAAAGTAAGATTAAAAA
* * * **
20592 AAA-TAAG-GACCTTAATTATAAAGGTAGAAAGTGAGATTGAAAAAATTAAGGGTTTCAATTATA
1 AAATTAAGAG-CCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAA-GGCCTCAATTATA
* **
20655 AAAGTAAAAAATTGGATTGAAAAAA
64 AAAGTAAAAAGTAAGATT--AAAAA
* * * * * *
20680 AAATTTAA-AGGCCTTAGTTATAAAGGTAAAAAGTAAGACTAAAAAAAGTAGGGACCTCAATTAT
1 AAA-TTAAGA-GCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGG-CCTCAATTAT
* * * * *
20744 GAATGTAGAAATTAAGATTGAAAA
63 AAAAGTAAAAAGTAAGATTAAAAA
* * * *
20768 AAATTAAGAGCCTCAATTATAAAGGTAAAAAGTGAGATTGAGAAAATTAAAGGTCTCAATTACAA
1 AAATTAAGAGCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATT-AAGGCCTCAATTATAA
*
20833 AAGTAAGAAGTAAGA-TAAAAA
65 AAGTAAAAAGTAAGATTAAAAA
*
20854 AAATTAAGAGCCTCAATTATAAAGGTAAAAAATGAGATTAAAAAAA-TAAGAG-CTCAATTATAA
1 AAATTAAGAGCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAG-GCCTCAATTATAA
20917 A
65 A
20918 GATGCAAAGT
Statistics
Matches: 262, Mismatches: 50, Indels: 30
0.77 0.15 0.09
Matches are distributed among these distances:
84 15 0.06
85 40 0.15
86 73 0.28
87 56 0.21
88 18 0.07
89 2 0.01
90 57 0.22
91 1 0.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.24
Consensus pattern (86 bp):
AAATTAAGAGCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGCCTCAATTATAAA
AGTAAAAAGTAAGATTAAAAA
Found at i:20934 original size:41 final size:43
Alignment explanation
Indices: 20506--20938 Score: 246
Period size: 43 Copynumber: 10.0 Consensus size: 43
20496 AAAGATGATT
* * * *
20506 AAATTAGGGGCCTCATTTATAAA-AGTAAAAAA-GAAATTAAAAA
1 AAATTAAGAGCCTCAATTATAAAGA-TAAAAAATGAGATT-AAAA
* * *
20549 AAATTAAGAGCCTTAATTATAAAG-TAAAAAGTGGGATTCAAAA
1 AAATTAAGAGCCTCAATTATAAAGATAAAAAATGAGATT-AAAA
* * * * *
20592 AAA-TAAG-GACCTTAATTATAAAGGTAGAAAGTGAGATTGAAA
1 AAATTAAGAG-CCTCAATTATAAAGATAAAAAATGAGATTAAAA
* **
20634 AAATTAAGGGTTTCAATTATAAA-AGTAAAAAATTG-GATTGAAAAAA
1 AAATTAAGAGCCTCAATTATAAAGA-TAAAAAA-TGAGATT---AAAA
* * * * * *
20680 AAATTTAA-AGGCCTTAGTTATAAAGGTAAAAAGTAAGACTAAAA
1 AAA-TTAAGA-GCCTCAATTATAAAGATAAAAAATGAGATTAAAA
* * * * * *
20724 AAAGT-AGGGACCTCAATTATGAATG-TAGAAATTAAGATTGAAAA
1 AAATTAAGAG-CCTCAATTAT-AAAGATAAAAAATGAGATT-AAAA
* * * *
20768 AAATTAAGAGCCTCAATTATAAAGGTAAAAAGTGAGATTGAGA
1 AAATTAAGAGCCTCAATTATAAAGATAAAAAATGAGATTAAAA
* * * * * *
20811 AAATTAA-AGGTCTCAATTACAAA-AGTAAGAAGTAAGATAAAAA
1 AAATTAAGA-GCCTCAATTATAAAGA-TAAAAAATGAGATTAAAA
*
20854 AAATTAAGAGCCTCAATTATAAAGGTAAAAAATGAGATTAAAA
1 AAATTAAGAGCCTCAATTATAAAGATAAAAAATGAGATTAAAA
** * *
20897 AAA-TAAGAG-CTCAATTATAAAGATGCAAAGTGTGATTAAAA
1 AAATTAAGAGCCTCAATTATAAAGATAAAAAATGAGATTAAAA
20938 A
1 A
20939 GACCCAAAAC
Statistics
Matches: 302, Mismatches: 63, Indels: 52
0.72 0.15 0.12
Matches are distributed among these distances:
41 29 0.10
42 39 0.13
43 158 0.52
44 43 0.14
45 3 0.01
46 7 0.02
47 23 0.08
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.24
Consensus pattern (43 bp):
AAATTAAGAGCCTCAATTATAAAGATAAAAAATGAGATTAAAA
Found at i:22034 original size:44 final size:44
Alignment explanation
Indices: 21971--22126 Score: 213
Period size: 44 Copynumber: 3.5 Consensus size: 44
21961 TCTTGAATGA
* * *
21971 GATGATGCTGAACTAACTCCTTATGTGATGGAATCGAGCGAAAC
1 GATGATGCTGATCCAACTCCTTATGTGATGGAATCGAGCGAAAT
* * *
22015 GATGATGTTGATCCAACTCCTTATGCGATGGAATCGAGTGAAAT
1 GATGATGCTGATCCAACTCCTTATGTGATGGAATCGAGCGAAAT
* *
22059 GACGATGCTGATCCAACTCCTTATGTGATGGAATCAAGCGAAAT
1 GATGATGCTGATCCAACTCCTTATGTGATGGAATCGAGCGAAAT
* * *
22103 GGTTACGCTGATCCAACTCCTTAT
1 GATGATGCTGATCCAACTCCTTAT
22127 ACGATGGATG
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 97 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
GATGATGCTGATCCAACTCCTTATGTGATGGAATCGAGCGAAAT
Found at i:22123 original size:88 final size:88
Alignment explanation
Indices: 21974--22134 Score: 241
Period size: 88 Copynumber: 1.8 Consensus size: 88
21964 TGAATGAGAT
* * * *
21974 GATGCTGAACTAACTCCTTATGTGATGGAATCGAGCGAAACGATGATGTTGATCCAACTCCTTAT
1 GATGCTGAACCAACTCCTTATGTGATGGAATCAAGCGAAACGATGACGCTGATCCAACTCCTTAT
*
22039 GCGATGGAATCGAGTGAAATGAC
66 ACGATGGAATCGAGTGAAATGAC
* * * *
22062 GATGCTGATCCAACTCCTTATGTGATGGAATCAAGCGAAATGGTTACGCTGATCCAACTCCTTAT
1 GATGCTGAACCAACTCCTTATGTGATGGAATCAAGCGAAACGATGACGCTGATCCAACTCCTTAT
22127 ACGATGGA
66 ACGATGGA
22135 TGAGTCAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 64 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (88 bp):
GATGCTGAACCAACTCCTTATGTGATGGAATCAAGCGAAACGATGACGCTGATCCAACTCCTTAT
ACGATGGAATCGAGTGAAATGAC
Found at i:23101 original size:64 final size:64
Alignment explanation
Indices: 22955--23102 Score: 142
Period size: 64 Copynumber: 2.3 Consensus size: 64
22945 GAAGGTGTAT
* * ** * *
22955 CGATGCACATGTTGTGCATCGATGCACTCTTTTAAAATAAAAAGACCGAATGCAATTAGTGCAT
1 CGATGCACAAGTAGTGCATCGATGCACTCCATTAAAATAAAAACACCGAATGCAATTAGTGCAC
* * * *
23019 CGATGCATAAGGCA-TGCATCGATGCA-TCCCATTAATAAT-AAAACATCGAATGCATTTTA-TG
1 CGATGCACAA-GTAGTGCATCGATGCACT-CCATTAA-AATAAAAACACCGAATGCA-ATTAGTG
23080 CAC
62 CAC
23083 CGATGCACAAGTAGTGCATC
1 CGATGCACAAGTAGTGCATC
23103 CCATTAGAGT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
63 3 0.04
64 57 0.85
65 7 0.10
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (64 bp):
CGATGCACAAGTAGTGCATCGATGCACTCCATTAAAATAAAAACACCGAATGCAATTAGTGCAC
Found at i:23469 original size:29 final size:29
Alignment explanation
Indices: 23430--23510 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
23420 TATGTGATAT
23430 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
23460 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
23489 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
23511 ACATATGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 7 0.14
29 39 0.76
30 5 0.10
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:24484 original size:116 final size:116
Alignment explanation
Indices: 24280--24697 Score: 644
Period size: 116 Copynumber: 3.6 Consensus size: 116
24270 GGGTGTTACA
* * * *
24280 TCTTCTCATTATGAACTTCTTCTCGCTCATCAGACGAGTTCTTCTCATTATGAACTCTTCTATTG
1 TCTTCTCATTAGGAACTTCTTCTCCCTCATCAGACGAGTTCTTCTCATTATGAACCCTTCCATTG
** *
24345 GAAA-AGTGGATCCA-CATCCTTCTGTGATGGACGAGTGACGGTTGAACAAGT
66 GAAATA-TACATCCATC-TCCTTCTGTGATGGACGAGTGAGGGTTGAACAAGT
*
24396 TCTTCTCATTAGGAACTTCTTCTCCCTCATCAGACGAGTTCTTTTCATTATGAACCCTTCCATTG
1 TCTTCTCATTAGGAACTTCTTCTCCCTCATCAGACGAGTTCTTCTCATTATGAACCCTTCCATTG
24461 GAAATATACATCCATCTCCTTCTGTGATGGACGAGTGAGGGTTGAACAAGT
66 GAAATATACATCCATCTCCTTCTGTGATGGACGAGTGAGGGTTGAACAAGT
* *
24512 TCTTCTCATTAGAAACTTCTTCTCCCTCATCAGACGAGTTCTTTTCATTATGAACCCTTCCATTG
1 TCTTCTCATTAGGAACTTCTTCTCCCTCATCAGACGAGTTCTTCTCATTATGAACCCTTCCATTG
*
24577 GAAATATATATCCATCTCCTTCTGTGATGGACGAGTGAGGGTTGAACAAGT
66 GAAATATACATCCATCTCCTTCTGTGATGGACGAGTGAGGGTTGAACAAGT
* * * *
24628 TATT-TCCATTAGGAACTTTTTCTCCCTCACCAGACGAGTTCTTCTCATTATGAACCCTTCAATT
1 TCTTCT-CATTAGGAACTTCTTCTCCCTCATCAGACGAGTTCTTCTCATTATGAACCCTTCCATT
*
24692 GAAAAT
65 GGAAAT
24698 GTTTGGTCCA
Statistics
Matches: 282, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
115 1 0.00
116 279 0.99
117 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (116 bp):
TCTTCTCATTAGGAACTTCTTCTCCCTCATCAGACGAGTTCTTCTCATTATGAACCCTTCCATTG
GAAATATACATCCATCTCCTTCTGTGATGGACGAGTGAGGGTTGAACAAGT
Found at i:31063 original size:24 final size:24
Alignment explanation
Indices: 31031--31099 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
31021 ATCGAAAGAA
* * *
31031 GGATCGAGATCGAGAAAGGGAACG
1 GGATAGAGAACGAGAAAGAGAACG
* *
31055 GGATAGAGAGCGAGATAGAGAACG
1 GGATAGAGAACGAGAAAGAGAACG
* *
31079 GGAAAGAGAAAGAGAAAGAGA
1 GGATAGAGAACGAGAAAGAGA
31100 TCTCTTGAGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.46, C:0.07, G:0.41, T:0.06
Consensus pattern (24 bp):
GGATAGAGAACGAGAAAGAGAACG
Found at i:31086 original size:12 final size:12
Alignment explanation
Indices: 31036--31099 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
31026 AAGAAGGATC
*
31036 GAGATCGAGAAA
1 GAGAACGAGAAA
* * *
31048 GGGAACGGGATA
1 GAGAACGAGAAA
* *
31060 GAGAGCGAGATA
1 GAGAACGAGAAA
*
31072 GAGAACGGGAAA
1 GAGAACGAGAAA
*
31084 GAGAAAGAGAAA
1 GAGAACGAGAAA
31096 GAGA
1 GAGA
31100 TCTCTTGAGT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.48, C:0.06, G:0.41, T:0.05
Consensus pattern (12 bp):
GAGAACGAGAAA
Found at i:45520 original size:19 final size:19
Alignment explanation
Indices: 45496--45533 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45486 CCTTAATGTG
*
45496 TGTATCGATACACTACCTA
1 TGTATCGATACACAACCTA
*
45515 TGTATCGGTACACAACCTA
1 TGTATCGATACACAACCTA
45534 CATTCGAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACAACCTA
Found at i:49068 original size:22 final size:23
Alignment explanation
Indices: 49040--49086 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
49030 TTGATTATTT
49040 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
49062 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
49085 TA
1 TA
49087 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:49091 original size:22 final size:22
Alignment explanation
Indices: 49048--49091 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
49038 TTTATTATAA
*
49048 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
49070 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
49092 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:49490 original size:2 final size:2
Alignment explanation
Indices: 49479--49568 Score: 173
Period size: 2 Copynumber: 45.5 Consensus size: 2
49469 TAAATAAGTG
49479 TA TA -A 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
49520 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
49562 TA TA TA T
1 TA TA TA T
49569 TAATTGTTTC
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 86 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60383 original size:13 final size:13
Alignment explanation
Indices: 60365--60389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60355 CCTAATTCTA
60365 AATAAGTCATGAG
1 AATAAGTCATGAG
60378 AATAAGTCATGA
1 AATAAGTCATGA
60390 AGTTTGTGAT
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:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (13 bp):
AATAAGTCATGAG
Found at i:67729 original size:19 final size:19
Alignment explanation
Indices: 67705--67743 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
67695 TCGAATGCAT
67705 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
67724 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
67743 T
1 T
67744 GCTTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:67768 original size:64 final size:65
Alignment explanation
Indices: 67660--67869 Score: 209
Period size: 64 Copynumber: 3.3 Consensus size: 65
67650 TTCATCAATA
* * * * *
67660 CCATGCATCGATGCA-TCAATG-AATAAATTGAAACATCGAATGCATTCCATGCACCGATGCACT
1 CCATGCATCGATGCACTC-AGGCTATTAATTAAAACATCGAATGCATT-CATGCATCGATGCACT
67723 CT
64 CT
* * **
67725 CCATGCATCGATGCACTC-TGCT-TTAATTAAAACATCGAATGCATTTGATGCATCGATGCACAA
1 CCATGCATCGATGCACTCAGGCTATTAATTAAAACATCGAATGCA-TTCATGCATCGATGCACTC
67788 T
65 T
* *
67789 CCATGCATCGATGCAC-CAGGCTATT-TTTCAAACATCGAATGCACTTCATGCATCGATGCACTC
1 CCATGCATCGATGCACTCAGGCTATTAATTAAAACATCGAATGCA-TTCATGCATCGATGCACTC
67852 T
65 T
* *
67853 -TAGTGCACCGATGCACT
1 CCA-TGCATCGATGCACT
67870 AGGAGTCCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
63 2 0.02
64 99 0.81
65 19 0.16
66 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
CCATGCATCGATGCACTCAGGCTATTAATTAAAACATCGAATGCATTCATGCATCGATGCACTCT
Found at i:67849 original size:17 final size:19
Alignment explanation
Indices: 67821--67869 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
67811 ATTTTTCAAA
67821 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
67839 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
67858 CACCGATGCACT
1 CATCGATGCACT
67870 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Done.