Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168329.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_552, 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: 23155
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Found at i:3182 original size:23 final size:23
Alignment explanation
Indices: 3152--3226 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
3142 TCTCTTAAAA
* *
3152 AATTTCACGAACTTCACATAATG
1 AATTTCACTAATTTCACATAATG
3175 AATTTCACTAATTTCACATAATG
1 AATTTCACTAATTTCACATAATG
*
3198 AATTTCACTAATTTCACATAAAG
1 AATTTCACTAATTTCACATAATG
3221 AATTTC
1 AATTTC
3227 GTCTAAGTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (23 bp):
AATTTCACTAATTTCACATAATG
Found at i:4249 original size:30 final size:30
Alignment explanation
Indices: 4215--4281 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
4205 TAATTAAGTA
* *
4215 AAAATATATATTTAAAAATTCAATT-AGATG
1 AAAATAAACATTTAAAAATTCAATTGA-ATG
**
4245 AAAATAAACATTTAAGGATTCAATTGAATG
1 AAAATAAACATTTAAAAATTCAATTGAATG
4275 AAAATAA
1 AAAATAA
4282 TTATTTGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.31
Consensus pattern (30 bp):
AAAATAAACATTTAAAAATTCAATTGAATG
Found at i:4645 original size:29 final size:28
Alignment explanation
Indices: 4586--4688 Score: 73
Period size: 29 Copynumber: 3.5 Consensus size: 28
4576 AATAATAAAA
** *
4586 AAATCTTTAGATTTTATTATTTTATTTAAAT
1 AAATCTTTA-A-TTT-TTATTGCATTCAAAT
4617 AAATCTTTATATTTTTATTGCATTCAAAT
1 AAATCTTTA-ATTTTTATTGCATTCAAAT
* * * *
4646 TAATCCTTAATTTTTAATTTACA-ACAAAT
1 AAATCTTTAATTTTT-A-TTGCATTCAAAT
*
4675 AAATTTTTAATTTT
1 AAATCTTTAATTTT
4689 AATTTATATT
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 6 0.10
29 36 0.61
30 7 0.12
31 10 0.17
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (28 bp):
AAATCTTTAATTTTTATTGCATTCAAAT
Found at i:4721 original size:30 final size:30
Alignment explanation
Indices: 4642--4744 Score: 102
Period size: 30 Copynumber: 3.5 Consensus size: 30
4632 TATTGCATTC
* * * * *
4642 AAATTAATCCTTAATTTTTAATTTACAAC-
1 AAATAAATTCTTAACTTTTAATTTATATCT
* *
4671 AAATAAATTTTTAA-TTTTAATTTATATTT
1 AAATAAATTCTTAACTTTTAATTTATATCT
*
4700 AAATAAATTCTTAACTTTTAATTTTTATCT
1 AAATAAATTCTTAACTTTTAATTTATATCT
* *
4730 CAATAAACTCTTAAC
1 AAATAAATTCTTAAC
4745 ATAAATCAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.18
29 24 0.39
30 26 0.43
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (30 bp):
AAATAAATTCTTAACTTTTAATTTATATCT
Found at i:5504 original size:234 final size:234
Alignment explanation
Indices: 5166--6102 Score: 994
Period size: 234 Copynumber: 4.0 Consensus size: 234
5156 AAATTTATTT
* * * * *
5166 CTAAATTTATTTGGTAAAAATTTTTTTGTGACA-TTTTTTATTTT--GTTATGTTGTAATTCTGT
1 CTAAATTTATTTGGAAAAAATTTTTTT-TGA-ATTTTTTTATTTTAGGTGACGTTATAATTTTGT
* * * * *
5228 CATCAATTTAAAATTTTATATATGACAAATTTTTTTTAATAGATTTTAGATGACGTTATTAATTT
64 CACCAATTTAAAATTTTATCTATGACAAATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTT
* * * * * *
5293 TTATCACAAATTGAATACTTTAATTAATTATTAATAACATTATAATTTTGTCATGTTAATATATA
129 TTATCACAAATTGAATACTTTAGTTAACTATTAATGACATTATAATTTCGTCACGTCAATATATA
* * * * *
5358 GTGTTATATGACAATAATATAAATTTCTCAAACTTTTACTA
194 GTATTATATAACAATAACATAAATGTCACAAACTTTTACTA
** * *
5399 CTAAATTTATTTGGTCAACATTTTTTTTTAATTTTTTTATTTTAGGTGACGTTATAATTTTGTCA
1 CTAAATTTATTTGGAAAAAATTTTTTTTGAATTTTTTTATTTTAGGTGACGTTATAATTTTGTCA
* * * * *
5464 CTAATTTAAAATTTTATTTGTAACGAATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTTTT
66 CCAATTTAAAATTTTATCTATGACAAATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTTTT
* * * * * * * * *
5529 GTTATAAATTGAATATTTTAGTTAACTACTAATGTCATTACAATTTCGTCACATCAATGTAT-GA
131 ATCACAAATTGAATACTTTAGTTAACTATTAATGACATTATAATTTCGTCACGTCAATATATAG-
* * *
5593 TATTATATGATAATAACATAAATGTCACAAACTTCTA-TCA
195 TATTATATAACAATAACATAAATGTCACAAACTTTTACT-A
* * * *
5633 CAAAATTTATTT-GACGAAAAATTTTTTGTGACA--TTTTTATTTTAGGGGACATTATAATTTTG
1 CTAAATTTATTTGGA--AAAAATTTTTTTTGA-ATTTTTTTATTTTAGGTGACGTTATAATTTTG
5695 TCACCAATTTAAAATTTTATCTATGACAAATTTTTT-TAATAGATTTTAGGTGATGTTATTAATT
63 TCACCAATTTAAAATTTTATCTATGACAAATTTTTTCTAATAGATTTTAGGTGATGTTATTAATT
* ** * *
5759 TTTATCACAAATTGAATACTTTAGTTAACTATTAATGACGTTATAATTTTTTCACGTTAATAAAT
128 TTTATCACAAATTGAATACTTTAGTTAACTATTAATGACATTATAATTTCGTCACGTCAATATAT
* * ** * *
5824 GGTATTATATAACGATAACATAAATGTCATGAATTTTTACCA
193 AGTATTATATAACAATAACATAAATGTCACAAACTTTTACTA
* * * * *
5866 -TCAAATTTATTTGATGAAAAAAAATTTTTGTAATGATTTTTTTTATTTTAAGTAATGTTATAAT
1 CT-AAATTTATTTG--G--AAAAAATTTTT-T-TTGAATTTTTTTATTTTAGGTGACGTTATAAT
* * * *
5930 TTTGTAACCAATTTAAAATTTTATCTATGACATATGTTTTCTAATAGATTTTAGGTGATGTTATG
59 TTTGTCACCAATTTAAAATTTTATCTATGACAAATTTTTTCTAATAGATTTTAGGTGATGTTATT
* * * * *
5995 AATTTTTATCACAAATTAAATACTTTAGTTAACTATTAATGATATTGTAATTTCATCATGTCAAT
124 AATTTTTATCACAAATTGAATACTTTAGTTAACTATTAATGACATTATAATTTCGTCACGTCAAT
* * * * *
6060 GTATAATGTTATATAACAATAATATAAATTTCACAAACTTTTA
189 ATATAGTATTATATAACAATAACATAAATGTCACAAACTTTTA
6103 AATAATATTA
Statistics
Matches: 580, Mismatches: 103, Indels: 35
0.81 0.14 0.05
Matches are distributed among these distances:
231 1 0.00
232 13 0.02
233 148 0.26
234 221 0.38
235 11 0.02
236 12 0.02
237 1 0.00
238 4 0.01
239 57 0.10
240 112 0.19
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.47
Consensus pattern (234 bp):
CTAAATTTATTTGGAAAAAATTTTTTTTGAATTTTTTTATTTTAGGTGACGTTATAATTTTGTCA
CCAATTTAAAATTTTATCTATGACAAATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTTTT
ATCACAAATTGAATACTTTAGTTAACTATTAATGACATTATAATTTCGTCACGTCAATATATAGT
ATTATATAACAATAACATAAATGTCACAAACTTTTACTA
Found at i:8709 original size:17 final size:17
Alignment explanation
Indices: 8689--8722 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8679 TCCTCTTCCC
8689 TTTCTCTCTCTTTCTCT
1 TTTCTCTCTCTTTCTCT
*
8706 TTTCTTTCTCTTTCTCT
1 TTTCTCTCTCTTTCTCT
8723 CTAATCGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTCTCTCTCTTTCTCT
Found at i:9418 original size:39 final size:39
Alignment explanation
Indices: 9370--9444 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
9360 TTTAAATAAA
*
9370 GCTCCTCTAAACAGAAGCTTAACAATTTTAAAAAATTAT
1 GCTCCTCTAAACAGAAGCTCAACAATTTTAAAAAATTAT
* * * *
9409 GCTCCTCTAAATAGAGGCTCAATAATTTTGAAAAAT
1 GCTCCTCTAAACAGAAGCTCAACAATTTTAAAAAAT
9445 AAAAGGCTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (39 bp):
GCTCCTCTAAACAGAAGCTCAACAATTTTAAAAAATTAT
Found at i:10018 original size:43 final size:42
Alignment explanation
Indices: 9951--10208 Score: 273
Period size: 43 Copynumber: 5.9 Consensus size: 42
9941 GTTTCACATA
* *
9951 TCAAAGATTCTCATTTAAAACTCAAAGATTCTTATTTGAAAC
1 TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAAC
* * * *
9993 TAAAAAAATTCTCATTTGAAACTCAAATATTCTTATTTGAAAAC
1 T-CAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTG-AAAC
* * * * *
10037 TCAAAGATTCTTATTTAAAGATTTCTTAAAGATTCTCGTTTAAAAC
1 TCAAAGATTCTCATTTGAA-A---CTCAAAGATTCTCATTTGAAAC
** * *
10083 TCAAAGATTCTTGTTTGAAACTCAAAGATTTTTATTTGAAGAC
1 TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAA-AC
*
10126 CCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGATAATTTC
1 TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGA-AA---C
10172 TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTT
1 TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTT
10209 AAGGATTTCT
Statistics
Matches: 179, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
42 16 0.09
43 84 0.47
44 7 0.04
45 1 0.01
46 58 0.32
47 13 0.07
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (42 bp):
TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAAC
Found at i:10175 original size:89 final size:87
Alignment explanation
Indices: 9951--10347 Score: 315
Period size: 89 Copynumber: 4.4 Consensus size: 87
9941 GTTTCACATA
* * *
9951 TCAAAGATTCTCATTTAAA-ACTCAAAGATTCTTATTTGAAA-CTAAAAAAATTCTCATTTGAAA
1 TCAAAGATTCTCATTTAAAGACTCAAAGATTCTCATTTGAAATCT-CAAAGATTCTCATTTGAAA
* * *
10014 CTCAAATATTCTTATTTGAAAAC
65 CTCAAAGATTCTCATTTGAAGAC
* * * * **
10037 TCAAAGATTCTTATTTAAAGATTTCTTAAAGATTCTCGTTT-AAAACTCAAAGATTCTTGTTTGA
1 TCAAAGATTCTCATTTAAAGA---CTCAAAGATTCTCATTTGAAATCTCAAAGATTCTCATTTGA
* *
10101 AACTCAAAGATTTTTATTTGAAGAC
63 AACTCAAAGATTCTCATTTGAAGAC
* *
10126 CCAAAGATTCTCATTTGAA-ACTCAAAGATTCTCATTTGATAATTTCTCAAAGATTCTCATTTGA
1 TCAAAGATTCTCATTTAAAGACTCAAAGATTCTCATTTGA-AA--TCTCAAAGATTCTCATTTGA
10190 AACTCAAAGATTCTCATTT-AAGGATTTC
63 AACTCAAAGATTCTCATTTGAA-GA---C
* * * * *
10218 TTAAATATTCTCATTT-AAGACTCAAAAATTCTCATTTAAAAAATTTCTTAAAGATTCTCATTT-
1 TCAAAGATTCTCATTTAAAGACTCAAAGATTCTCATTT--GAAA--TCTCAAAGATTCTCATTTG
* * * *
10281 AAGTCTCAAAGATTTTCATTTGAGGATTTT
62 AA-ACTCAAAGATTCTCATTTGAAGA---C
* * *
10311 TTAAATATTCTTATTT-AAGACTCAAAGATTCTCATTT
1 TCAAAGATTCTCATTTAAAGACTCAAAGATTCTCATTT
10348 AAGGATTCAT
Statistics
Matches: 260, Mismatches: 33, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
85 15 0.06
86 19 0.07
87 3 0.01
88 3 0.01
89 90 0.35
90 16 0.06
91 2 0.01
92 33 0.13
93 77 0.30
94 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (87 bp):
TCAAAGATTCTCATTTAAAGACTCAAAGATTCTCATTTGAAATCTCAAAGATTCTCATTTGAAAC
TCAAAGATTCTCATTTGAAGAC
Found at i:10194 original size:46 final size:43
Alignment explanation
Indices: 9951--10347 Score: 277
Period size: 46 Copynumber: 8.9 Consensus size: 43
9941 GTTTCACATA
* *
9951 TCAAAGATTCTCATTTAAAACTCAAAGATTCTTATTTGAAA-C
1 TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAATC
* * * * *
9993 TAAAAAAATTCTCATTTGAAACTCAAATATTCTTATTTGAAAAC
1 T-CAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAATC
* * * * *
10037 TCAAAGATTCTTATTTAAAGATTTCTTAAAGATTCTCGTTT-AAAAC
1 TCAAAGATTCTCATTTGAA-A---CTCAAAGATTCTCATTTGAAATC
** * *
10083 TCAAAGATTCTTGTTTGAAACTCAAAGATTTTTATTTGAAGA-C
1 TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAA-ATC
*
10126 CCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGATAATTTC
1 TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGA-AA--TC
10172 TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTT-AAGGATTTC
1 TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAA--A--TC
* * * *
10218 TTAAATATTCTCATTT-AAGACTCAAAAATTCTCATTTAAAAAATTTC
1 TCAAAGATTCTCATTTGAA-ACTCAAAGATTCTCATTT--GAAA--TC
* * * * *
10265 TTAAAGATTCTCATTT-AAGTCTCAAAGATTTTCATTTGAGGATTTT
1 TCAAAGATTCTCATTTGAA-ACTCAAAGATTCTCATTTGA--A-ATC
* * *
10311 TTAAATATTCTTATTT-AAGACTCAAAGATTCTCATTT
1 TCAAAGATTCTCATTTGAA-ACTCAAAGATTCTCATTT
10348 AAGGATTCAT
Statistics
Matches: 296, Mismatches: 38, Indels: 38
0.80 0.10 0.10
Matches are distributed among these distances:
42 14 0.05
43 88 0.30
44 6 0.02
45 5 0.02
46 129 0.44
47 52 0.18
49 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (43 bp):
TCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAATC
Found at i:10290 original size:93 final size:93
Alignment explanation
Indices: 10082--10349 Score: 316
Period size: 93 Copynumber: 2.9 Consensus size: 93
10072 TCGTTTAAAA
** * * ** *
10082 CTCAAAGATTCTTGTTTGAAACTCAAAGATTTTTATTTGAA-GA---CCCAAAGATTCTCATTTG
1 CTCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTT-AAGGATTTCTTAAATATTCTCATTT-
* *
10143 AA-ACTCAAAGATTCTCATTT-GATAATTT
64 AAGACTCAAAGATTCTCATTTAAAAAATTT
10171 CTCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTAAGGATTTCTTAAATATTCTCATTTAA
1 CTCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTAAGGATTTCTTAAATATTCTCATTTAA
*
10236 GACTCAAAAATTCTCATTTAAAAAATTT
66 GACTCAAAGATTCTCATTTAAAAAATTT
* * * * * *
10264 CTTAAAGATTCTCATTT-AAGTCTCAAAGATTTTCATTTGAGGATTTTTTAAATATTCTTATTTA
1 CTCAAAGATTCTCATTTGAA-ACTCAAAGATTCTCATTTAAGGATTTCTTAAATATTCTCATTTA
10328 AGACTCAAAGATTCTCATTTAA
65 AGACTCAAAGATTCTCATTTAA
10350 GGATTCATAA
Statistics
Matches: 155, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
88 2 0.01
89 36 0.23
91 2 0.01
92 33 0.21
93 82 0.53
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (93 bp):
CTCAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTAAGGATTTCTTAAATATTCTCATTTAA
GACTCAAAGATTCTCATTTAAAAAATTT
Found at i:10350 original size:21 final size:22
Alignment explanation
Indices: 9951--10347 Score: 269
Period size: 21 Copynumber: 17.7 Consensus size: 22
9941 GTTTCACATA
*
9951 TCAAAGATTCTCATTT-AAAAC
1 TCAAAGATTCTCATTTGAAGAC
*
9972 TCAAAGATTCTTATTTGAA-AC
1 TCAAAGATTCTCATTTGAAGAC
* *
9993 TAAAAAAATTCTCATTTGAA-AC
1 T-CAAAGATTCTCATTTGAAGAC
* * *
10015 TCAAATATTCTTATTTGAAAAC
1 TCAAAGATTCTCATTTGAAGAC
* *
10037 TCAAAGATTCTTATTTAAAGATTTC
1 TCAAAGATTCTCATTTGAAGA---C
* * *
10062 TTAAAGATTCTCGTTT-AAAAC
1 TCAAAGATTCTCATTTGAAGAC
**
10083 TCAAAGATTCTTGTTTGAA-AC
1 TCAAAGATTCTCATTTGAAGAC
* *
10104 TCAAAGATTTTTATTTGAAGAC
1 TCAAAGATTCTCATTTGAAGAC
*
10126 CCAAAGATTCTCATTTGAA-AC
1 TCAAAGATTCTCATTTGAAGAC
10147 TCAAAGATTCTCATTTGATA-ATTTC
1 TCAAAGATTCTCATTTGA-AGA---C
10172 TCAAAGATTCTCATTTGAA-AC
1 TCAAAGATTCTCATTTGAAGAC
10193 TCAAAGATTCTCATTT-AAGGATTTC
1 TCAAAGATTCTCATTTGAA-GA---C
* *
10218 TTAAATATTCTCATTT-AAGAC
1 TCAAAGATTCTCATTTGAAGAC
* * *
10239 TCAAAAATTCTCATTTAAAAAATTTC
1 TCAAAGATTCTCATTT-GAAGA---C
* *
10265 TTAAAGATTCTCATTT-AAGTC
1 TCAAAGATTCTCATTTGAAGAC
* * *
10286 TCAAAGATTTTCATTTGAGGATTTT
1 TCAAAGATTCTCATTTGAAGA---C
* * *
10311 TTAAATATTCTTATTT-AAGAC
1 TCAAAGATTCTCATTTGAAGAC
10332 TCAAAGATTCTCATTT
1 TCAAAGATTCTCATTT
10348 AAGGATTCAT
Statistics
Matches: 305, Mismatches: 45, Indels: 52
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.01
21 146 0.48
22 65 0.21
23 3 0.01
24 12 0.04
25 62 0.20
26 15 0.05
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (22 bp):
TCAAAGATTCTCATTTGAAGAC
Found at i:10353 original size:46 final size:46
Alignment explanation
Indices: 10128--10354 Score: 287
Period size: 46 Copynumber: 4.9 Consensus size: 46
10118 TTGAAGACCC
* ** *
10128 AAAGATTCTCATTTGAA-ACTCAAAGATTCTCATTTGATAATTTCTC
1 AAAGATTCTCATTT-AAGACTCAAAGATTCTCATTTAAGGATTTCTT
10174 AAAGATTCTCATTTGAA-ACTCAAAGATTCTCATTTAAGGATTTCTT
1 AAAGATTCTCATTT-AAGACTCAAAGATTCTCATTTAAGGATTTCTT
* * **
10220 AAATATTCTCATTTAAGACTCAAAAATTCTCATTTAAAAAATTTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTT-AAGGATTTCTT
* * * *
10267 AAAGATTCTCATTTAAGTCTCAAAGATTTTCATTTGAGGATTTTTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAGGATTTCTT
* *
10313 AAATATTCTTATTTAAGACTCAAAGATTCTCATTTAAGGATT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAGGATT
10355 CATAATTTTA
Statistics
Matches: 158, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
45 2 0.01
46 116 0.73
47 40 0.25
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (46 bp):
AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAGGATTTCTT
Found at i:11017 original size:79 final size:79
Alignment explanation
Indices: 10842--11028 Score: 198
Period size: 79 Copynumber: 2.4 Consensus size: 79
10832 ACTCATAGGT
* * * * *
10842 TTCTTAGCACTAACCATT-TCAGAACAAATTCTATCTTCTAATCCATATTATTTTAATCATTTGA
1 TTCTCAGCACTAACCATTCT-AAAACAAATTCTATCCTCTAATCCATATTATGTTAATCACTTGA
*
10906 TCACCATTCATAGGA
65 TCACCATTCACAGGA
* * * * *
10921 TTCTCAGTAATAACCATTCTAAAACAAATTTTATCCTCTAATCTATATTATGTTCATCACTTGAT
1 TTCTCAGCACTAACCATTCTAAAACAAATTCTATCCTCTAATCCATATTATGTTAATCACTTGAT
*
10986 CACCATTGACA-GA
66 CACCATTCACAGGA
* * * *
10999 CTTTTCAGCACTAGCCATTCCAAAATAAAT
1 -TTCTCAGCACTAACCATTCTAAAACAAAT
11029 CTTGTAAACT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 2 0.02
79 85 0.97
80 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.37
Consensus pattern (79 bp):
TTCTCAGCACTAACCATTCTAAAACAAATTCTATCCTCTAATCCATATTATGTTAATCACTTGAT
CACCATTCACAGGA
Found at i:11825 original size:16 final size:16
Alignment explanation
Indices: 11806--11838 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11796 CTTTCCTTTC
11806 CATTTTTC-TCTTTTTT
1 CATTTTTCAT-TTTTTT
11822 CATTTTTCATTTTTTT
1 CATTTTTCATTTTTTT
11838 C
1 C
11839 TTCTCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (16 bp):
CATTTTTCATTTTTTT
Found at i:11861 original size:19 final size:20
Alignment explanation
Indices: 11816--11871 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
11806 CATTTTTCTC
*
11816 TTTTT-TCATTTTTCATTTT
1 TTTTTCTCATTTTTCATATT
11835 TTTCTTCTCATTTTTCA-ATT
1 TTT-TTCTCATTTTTCATATT
11855 TTTTTCTCATTTTTCAT
1 TTTTTCTCATTTTTCAT
11872 CCATTAGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 16 0.48
20 7 0.21
21 10 0.30
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTCTCATTTTTCATATT
Found at i:17100 original size:8 final size:7
Alignment explanation
Indices: 17072--17097 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17062 TTTTCCAGCA
17072 TTTTTAT
1 TTTTTAT
17079 TTTTTAT
1 TTTTTAT
17086 TTTTTAT
1 TTTTTAT
17093 TTTTT
1 TTTTT
17098 TATATTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:20113 original size:16 final size:17
Alignment explanation
Indices: 20092--20123 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
20082 ATTATTTTTA
20092 AAATAAATATA-AAATT
1 AAATAAATATATAAATT
20108 AAATAAATATATAAAT
1 AAATAAATATATAAAT
20124 ATATATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATAAATATATAAATT
Found at i:21061 original size:22 final size:22
Alignment explanation
Indices: 21036--21078 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21026 TGTATTTCAC
*
21036 TTATAAATT-TTTTATTATAATT
1 TTAT-AATTATTTAATTATAATT
21058 TTATAATTATTTAATTATAAT
1 TTATAATTATTTAATTATAAT
21079 AAAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATAATTATTTAATTATAATT
Done.