Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000583.1 Hibiscus syriacus cultivar Beakdansim tig00001138_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: 110917
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:659 original size:62 final size:56
Alignment explanation
Indices: 569--688 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 56
559 CATTTGAAAC
569 CAAAACTCATATGTTTTATAGTCTTTAATACTCAACCTAAACTTTTAAGATTAAAAACTAT
1 CAAAACTCATATGTTTTATAGTCTTTAATACT---CCTAAACTTTT-A-ATTAAAAACTAT
* *
630 CAAAACTCATGTGTTTTTATAGTCTTTAATACTCCTAAACTTTTAATTAAAAATTAT
1 CAAAACTCATATG-TTTTATAGTCTTTAATACTCCTAAACTTTTAATTAAAAACTAT
687 CA
1 CA
689 TTTTAACCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
57 13 0.23
58 1 0.02
59 11 0.20
61 12 0.21
62 19 0.34
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (56 bp):
CAAAACTCATATGTTTTATAGTCTTTAATACTCCTAAACTTTTAATTAAAAACTAT
Found at i:20247 original size:2 final size:2
Alignment explanation
Indices: 20240--20273 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
20230 CCAAGAATAC
20240 AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
20274 AACCTAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24209 original size:16 final size:16
Alignment explanation
Indices: 24190--24223 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24180 CAATATACGA
24190 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
24206 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
24222 AT
1 AT
24224 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:24297 original size:16 final size:18
Alignment explanation
Indices: 24265--24298 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
24255 TATTAATGTA
24265 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
24283 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
24299 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:24970 original size:130 final size:130
Alignment explanation
Indices: 24766--25013 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
24756 AATTTTCTTC
* *
24766 TAATTAGGTGGTGACAAGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACAAGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
24831 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
24896 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACAAGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
24961 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
25014 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACAAGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:25464 original size:35 final size:35
Alignment explanation
Indices: 25414--25489 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
25404 AATTGAATTT
* *
25414 AATTGAATTATTTTGG-AATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTGA-GGTTTAGAATGA
*
25449 AATTGAATTACTTTGGAAATTGAGGTTTATAATGA
1 AATTGAATTACTTTGGAAATTGAGGTTTAGAATGA
25484 AATTGA
1 AATTGA
25490 GGACTGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 32 0.86
36 5 0.14
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTGAGGTTTAGAATGA
Found at i:27231 original size:17 final size:18
Alignment explanation
Indices: 27209--27244 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27199 AATATTATTG
27209 AAATAAA-TTATATAGTA
1 AAATAAAGTTATATAGTA
*
27226 AAATAAAGTTATCTAGTA
1 AAATAAAGTTATATAGTA
27244 A
1 A
27245 TGTAAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (18 bp):
AAATAAAGTTATATAGTA
Found at i:28268 original size:90 final size:90
Alignment explanation
Indices: 28114--28294 Score: 335
Period size: 90 Copynumber: 2.0 Consensus size: 90
28104 ATTATTTTTC
*
28114 AAATTTAGGCTTAAGGGTCACCTTTGTCCCTATAGTAGATACAATTTATCATTTTCGCCTCTATC
1 AAATTTAGGCTTAAGGGTCACCTTTGTCCCTATAGTAGATACAATTTATCATTTTCGCCCCTATC
28179 GTATTTTCAAATCAATTTAGCTCTT
66 GTATTTTCAAATCAATTTAGCTCTT
* *
28204 AAATTTAGGCTTAAGGGTCACCTTTTTCCCTATAGTAGATACAATTTATCATTTTTGCCCCTATC
1 AAATTTAGGCTTAAGGGTCACCTTTGTCCCTATAGTAGATACAATTTATCATTTTCGCCCCTATC
28269 GTATTTTCAAATCAATTTAGCTCTT
66 GTATTTTCAAATCAATTTAGCTCTT
28294 A
1 A
28295 GGGTTGTTTA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (90 bp):
AAATTTAGGCTTAAGGGTCACCTTTGTCCCTATAGTAGATACAATTTATCATTTTCGCCCCTATC
GTATTTTCAAATCAATTTAGCTCTT
Found at i:40109 original size:55 final size:55
Alignment explanation
Indices: 40016--40133 Score: 218
Period size: 55 Copynumber: 2.1 Consensus size: 55
40006 AAAATTGTAT
*
40016 CTGAGACATAATTGATGATATGAGATAAGACTCTTGCATCCTTCATCTCATCATCA
1 CTGA-ACACAATTGATGATATGAGATAAGACTCTTGCATCCTTCATCTCATCATCA
40072 CTGAACACAATTGATGATATGAGATAAGACTCTTGCATCCTTCATCTCATCATCA
1 CTGAACACAATTGATGATATGAGATAAGACTCTTGCATCCTTCATCTCATCATCA
40127 CTGAACA
1 CTGAACA
40134 TTTTTAATTC
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 57 0.93
56 4 0.07
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (55 bp):
CTGAACACAATTGATGATATGAGATAAGACTCTTGCATCCTTCATCTCATCATCA
Found at i:45187 original size:28 final size:30
Alignment explanation
Indices: 45137--45194 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
45127 AAAAAATCAA
*
45137 AATTGAATAATAATTTCAATAGTATTTATTAT
1 AATTGAATAATAATTT--ATAGTAATTATTAT
45169 AATT-AATAATAATTT-TAGTAATTATT
1 AATTGAATAATAATTTATAGTAATTATT
45195 TTATTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 10 0.40
31 11 0.44
32 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (30 bp):
AATTGAATAATAATTTATAGTAATTATTAT
Found at i:55797 original size:16 final size:17
Alignment explanation
Indices: 55772--55804 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
55762 AATAATAATA
55772 TCTTGATTAAT-TTTTT
1 TCTTGATTAATATTTTT
*
55788 TCTTGGTTAATATTTTT
1 TCTTGATTAATATTTTT
55805 AAAATTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.67
Consensus pattern (17 bp):
TCTTGATTAATATTTTT
Found at i:57590 original size:24 final size:24
Alignment explanation
Indices: 57549--57594 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
57539 TCATTAGGGC
* *
57549 CATGGCCGTGGCCGTGATCATGGT
1 CATGGCCGTGACCATGATCATGGT
*
57573 CATGGCTGTGACCATGATCATG
1 CATGGCCGTGACCATGATCATG
57595 TCCCAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.26
Consensus pattern (24 bp):
CATGGCCGTGACCATGATCATGGT
Found at i:71903 original size:20 final size:21
Alignment explanation
Indices: 71870--71909 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
71860 TAATTTAAAT
* *
71870 AAATATTTTTAATAT-TTTTA
1 AAATATTATAAATATATTTTA
71890 AAATATTATAAATATATTTT
1 AAATATTATAAATATATTTT
71910 TAGAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATATTATAAATATATTTTA
Found at i:71909 original size:22 final size:22
Alignment explanation
Indices: 71881--71945 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
71871 AATATTTTTA
71881 ATATTTTTAAAATATTATAAAT
1 ATATTTTTAAAATATTATAAAT
*
71903 ATATTTTTAGAATTATT-TAATAT
1 ATATTTTTA-AAATATTATAA-AT
*
71926 AAATTTTATAAAA-A-TATAAA
1 ATATTTT-TAAAATATTATAAA
71946 AATAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.06
22 16 0.44
23 16 0.44
24 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATTTTTAAAATATTATAAAT
Found at i:71919 original size:23 final size:22
Alignment explanation
Indices: 71881--71938 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
71871 AATATTTTTA
71881 ATATTTTTAAAATATTATAA-AT
1 ATATTTTTAAAATATT-TAATAT
*
71903 ATATTTTTAGAATTATTTAATAT
1 ATATTTTTA-AAATATTTAATAT
*
71926 AAATTTTATAAAA
1 ATATTTT-TAAAA
71939 ATATAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 12 0.40
23 16 0.53
24 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATATTTTTAAAATATTTAATAT
Found at i:85154 original size:103 final size:103
Alignment explanation
Indices: 84976--85183 Score: 330
Period size: 103 Copynumber: 2.0 Consensus size: 103
84966 CAGAAGAATA
*
84976 TTGCCTTGCATTTAAATTGTCTTTAACAGAAGAGCAAGGTTAAGCAATATTAAAGAGGCATATAA
1 TTGCCTTACATTTAAATTGTCTTTAACAGAAGAGCAAGGTTAAGCAATATTAAAGAGGCATATAA
* *
85041 TTCTGCAGAAATGCGA-TCAAA-GGGGACAAAATTAAAG
66 TTCTGCAGAAATGCAACT-AAAGGGGGAAAAAATTAAAG
* *
85078 TTGCCTTACATTTAAATTTGTCTTTAACAGAAGAGCAGGGTTAAGCAATATTAAAGAGGCATATG
1 TTGCCTTACATTTAAA-TTGTCTTTAACAGAAGAGCAAGGTTAAGCAATATTAAAGAGGCATATA
85143 ATTCTGCAGAAATGCAACTAAAGGGGGGAAAAAATTAAAG
65 ATTCTGCAGAAATGCAACTAAA-GGGGGAAAAAATTAAAG
85183 T
1 T
85184 GCCAGGGCAA
Statistics
Matches: 97, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
102 15 0.15
103 65 0.67
104 1 0.01
105 16 0.16
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (103 bp):
TTGCCTTACATTTAAATTGTCTTTAACAGAAGAGCAAGGTTAAGCAATATTAAAGAGGCATATAA
TTCTGCAGAAATGCAACTAAAGGGGGAAAAAATTAAAG
Found at i:98386 original size:64 final size:62
Alignment explanation
Indices: 98311--98449 Score: 163
Period size: 63 Copynumber: 2.2 Consensus size: 62
98301 TTGTTTAAGG
* * *
98311 TGCATCGATGCACATGCAGTGCATCAATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCACAAGAAGTGCATCAATGCATCCAA-TT-AAAA-AAAACATCGAATAGGATTTA
* * * * *
98375 TGCATCGATGCATAAGAAGTGCATCGATGCATCCCCATTAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCACAAGAAGTGCATCAATGCAT-CCAATTAAAAAAAACATCGAATAGGATTTA
98438 TGCATCGATGCA
1 TGCATCGATGCA
98450 TGGTGTAGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
63 31 0.48
64 31 0.48
65 2 0.03
66 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (62 bp):
TGCATCGATGCACAAGAAGTGCATCAATGCATCCAATTAAAAAAAACATCGAATAGGATTTA
Found at i:98444 original size:63 final size:66
Alignment explanation
Indices: 98356--98481 Score: 204
Period size: 63 Copynumber: 2.0 Consensus size: 66
98346 TTTAAAAAGA
98356 AAACATCGAATAGGATTTATGCATCGATGCAT-AAGAAGTGCATCGATGCAT-CC-CCATTAATA
1 AAACATCGAATAGGATTTATGCATCGATGCATGAAGAAGTGCATCGATGCATACCTCCATTAATA
98418 C
66 C
** *
98419 AAACATCGAATAGGATTTATGCATCGATGCATGGTGTAGTGCATCGATGCATACCTCCATTAA
1 AAACATCGAATAGGATTTATGCATCGATGCATGAAGAAGTGCATCGATGCATACCTCCATTAA
98482 AAGATGAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
63 32 0.56
64 16 0.28
65 2 0.04
66 7 0.12
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (66 bp):
AAACATCGAATAGGATTTATGCATCGATGCATGAAGAAGTGCATCGATGCATACCTCCATTAATA
C
Found at i:99099 original size:101 final size:96
Alignment explanation
Indices: 98929--99133 Score: 338
Period size: 101 Copynumber: 2.1 Consensus size: 96
98919 AGGGTCTATG
* *
98929 TGGTCCTTCGGGACATATATGTATTCTTTGGATGTGATGTCTGGTGAGACACATACTTGATCTTT
1 TGGTCCTTCGGGACATATATGTATTCTTTGGATGTGAGGTCTGGTGAGACACATACTTGATCCTT
98994 GGCATATGTATATGATTCTTAAGGAATGATA
66 GGCATATGTATATGATTCTTAAGGAATGATA
99025 TGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
1 TGGTCCTTCGGGACATATATGTATTCTTTGG---A--TGTGAGGTCTGGTGAGACACATACTTGA
99090 TCCTTGGCATATGTATATGATTCTTAAGGAATGATA
61 TCCTTGGCATATGTATATGATTCTTAAGGAATGATA
*
99126 TGGCCCTT
1 TGGTCCTT
99134 ATGGACATTA
Statistics
Matches: 101, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
96 31 0.31
99 1 0.01
101 69 0.68
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (96 bp):
TGGTCCTTCGGGACATATATGTATTCTTTGGATGTGAGGTCTGGTGAGACACATACTTGATCCTT
GGCATATGTATATGATTCTTAAGGAATGATA
Found at i:99199 original size:23 final size:23
Alignment explanation
Indices: 99148--99201 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
99138 ACATTATTAT
*
99148 ATGGCACTACGGTGCAATTCTAC
1 ATGGCACTACGATGCAATTCTAC
* * *
99171 ACGGCACTCCGATGTAATTCTAC
1 ATGGCACTACGATGCAATTCTAC
*
99194 GTGGCACT
1 ATGGCACT
99202 TAGGTGCAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (23 bp):
ATGGCACTACGATGCAATTCTAC
Found at i:99212 original size:23 final size:23
Alignment explanation
Indices: 99148--99212 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
99138 ACATTATTAT
99148 ATGGCAC-TACGGTGCAATTCTAC
1 ATGGCACTTA-GGTGCAATTCTAC
* ** * *
99171 ACGGCACTCCGATGTAATTCTAC
1 ATGGCACTTAGGTGCAATTCTAC
*
99194 GTGGCACTTAGGTGCAATT
1 ATGGCACTTAGGTGCAATT
99213 ATATGATTGT
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (23 bp):
ATGGCACTTAGGTGCAATTCTAC
Found at i:105366 original size:64 final size:62
Alignment explanation
Indices: 105258--105380 Score: 162
Period size: 64 Copynumber: 2.0 Consensus size: 62
105248 TTAAAAAGAA
105258 AACATCGAATAGATTTATGCATCAACATAAGGAGTGCATCGATGCAT-CC-CCATTAAATAC
1 AACATCGAATAGATTTATGCATCAACATAAGGAGTGCATCGATGCATACCTCCATTAAATAC
* *
105318 AACATCGAATAGGATTTATGCATCGATGCAT-GGTGTAGTGCATCGATGCATACCTCCATTAAA
1 AACATCGAATA-GATTTATGCATC-A-ACATAAG-G-AGTGCATCGATGCATACCTCCATTAAA
105381 AGAAAATGGT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
60 11 0.20
61 12 0.22
62 2 0.04
63 4 0.07
64 15 0.28
65 2 0.04
66 8 0.15
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (62 bp):
AACATCGAATAGATTTATGCATCAACATAAGGAGTGCATCGATGCATACCTCCATTAAATAC
Found at i:105941 original size:96 final size:97
Alignment explanation
Indices: 105820--106000 Score: 312
Period size: 96 Copynumber: 1.9 Consensus size: 97
105810 GGGTAGAGGG
* *
105820 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACA-TACT
1 TATGTGGTCATTCGAGACATATATGTATTCTTTGGAACATGTGTGAGGTATGGTGAGACACTACT
*
105884 TGATCCTTGGCATATGTATATTCTTAGGAATGA
66 TGATCATTGGC-TATGTATATTCTTAGGAATGA
105917 TATGTGGTC-TTCGAGACATATATGTATTCTTTGGAACATGTGTGAGGTATGGTGAGACACTACT
1 TATGTGGTCATTCGAGACATATATGTATTCTTTGGAACATGTGTGAGGTATGGTGAGACACTACT
105981 TGATCATTGGCTATGTATAT
66 TGATCATTGGCTATGTATAT
106001 GATTCTTAAG
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
96 57 0.71
97 23 0.29
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (97 bp):
TATGTGGTCATTCGAGACATATATGTATTCTTTGGAACATGTGTGAGGTATGGTGAGACACTACT
TGATCATTGGCTATGTATATTCTTAGGAATGA
Found at i:106076 original size:23 final size:23
Alignment explanation
Indices: 106042--106126 Score: 102
Period size: 23 Copynumber: 3.8 Consensus size: 23
106032 GACATTGTTA
* *
106042 TGGCACTACGGTGCAATTCTAAG
1 TGGCACTCCGGTGCAATTCTACG
*
106065 CGGCACTCCGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
*
106088 TGGTACTCCGGT--AATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
**
106109 TGGCACTTAGGTGCAATT
1 TGGCACTCCGGTGCAATT
106127 ATATGAGTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
21 18 0.35
23 34 0.65
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTCCGGTGCAATTCTACG
Done.