Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003509.1 Hibiscus syriacus cultivar Beakdansim tig00007416_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: 59063
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4270 original size:25 final size:25
Alignment explanation
Indices: 4236--4288 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
4226 CCCTTCTCTG
4236 ACCATACATGAATACTTATATATTA
1 ACCATACATGAATACTTATATATTA
4261 ACCATACATGAATACTTATATATTA
1 ACCATACATGAATACTTATATATTA
4286 ACC
1 ACC
4289 CTTAGAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (25 bp):
ACCATACATGAATACTTATATATTA
Found at i:8564 original size:16 final size:16
Alignment explanation
Indices: 8543--8577 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8533 AATTTATATA
8543 TTTAATA-TAATTTTGG
1 TTTAATAGT-ATTTTGG
8559 TTTAATAGTATTTTGG
1 TTTAATAGTATTTTGG
8575 TTT
1 TTT
8578 CATGTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (16 bp):
TTTAATAGTATTTTGG
Found at i:12256 original size:16 final size:17
Alignment explanation
Indices: 12206--12256 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
12196 AATAAGAGAC
*
12206 AAAAATATATTATTAGTT
1 AAAAATATA-TATTAATT
* **
12224 AAAAATATAAAAAAATT
1 AAAAATATATATTAATT
12241 -AAAATATATATTAATT
1 AAAAATATATATTAATT
12257 TTTTTAAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
16 13 0.50
17 4 0.15
18 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AAAAATATATATTAATT
Found at i:12523 original size:26 final size:24
Alignment explanation
Indices: 12476--12524 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12466 AATCATGTTT
*
12476 ACAGTTATAACATTTTTTTTACAA
1 ACAGTTATAACATTTTTATTACAA
*
12500 ACAGTTGTAACATATTTTGATTACA
1 ACAGTTATAACAT-TTTT-ATTACA
12525 TTTGTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (24 bp):
ACAGTTATAACATTTTTATTACAA
Found at i:13924 original size:11 final size:12
Alignment explanation
Indices: 13897--13922 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13887 ATTTTTTTCA
13897 TTTAAATTCTTT
1 TTTAAATTCTTT
13909 TTTAAATTCTTT
1 TTTAAATTCTTT
13921 TT
1 TT
13923 AATCAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTAAATTCTTT
Found at i:22867 original size:13 final size:13
Alignment explanation
Indices: 22849--22880 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
22839 ACGATGTGTT
22849 TGCATCAGTAGCA
1 TGCATCAGTAGCA
22862 TGCATCAGTAGCA
1 TGCATCAGTAGCA
22875 TGCATC
1 TGCATC
22881 CCTTGCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (13 bp):
TGCATCAGTAGCA
Found at i:39781 original size:21 final size:21
Alignment explanation
Indices: 39757--39820 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
39747 TTCACTTTTT
39757 TAAAAATCAATAAAAATATAA
1 TAAAAATCAATAAAAATATAA
** * *
39778 TAAAAAAGAATTAAAAGT-GAA
1 TAAAAATCAA-TAAAAATATAA
* *
39799 TAAAATTCAATAAAAAAATAA
1 TAAAAATCAATAAAAATATAA
39820 T
1 T
39821 GTAAAGCTAA
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
20 5 0.16
21 20 0.65
22 6 0.19
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAAAATCAATAAAAATATAA
Found at i:40418 original size:320 final size:327
Alignment explanation
Indices: 39892--40554 Score: 1038
Period size: 323 Copynumber: 2.0 Consensus size: 327
39882 ATATAAAATC
* *
39892 AAAATCAAAATAATTTTATTAAAAATAAATAAACATTATTAATTGTTGTTAAAAATAATAATTAA
1 AAAATCAAAATAATTTTATTAAAAATAAATAAACATTATCAACTGTTGTTAAAAATAATAATTAA
*
39957 TGAATAATAATTCAATTAATCACTCAATTGTAATTAAAAGTTTATTTTAATATTTTTTATATTTT
66 TGAATAATAATTCAATTAATCACTCAATTGTAATGAAAA---TA--TTAATATTTTTTATATTTT
* * * * *
40022 TTAAATAATTAATTTTAAAAGTCAATAATTTTTTTAAAAATATATGAAATTTATAATTTTTTAAA
126 TTAAACAATTAATTTTAAAAGGCAATAAATTTCTCAAAAATATATGAAATTTATAATTTTTTAAA
40087 TTATAAAATA-TT-T-ATCATCATCATTTTGTAAAAAAAATACTAGTTATAAAACTTTTATAAAA
191 TTATAAAATATTTATCATCATCATCATTTTGTAAAAAAAATACTAGTTATAAAACTTTTATAAAA
**
40149 TTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCTTATACTAGATTATATGTATTGTGTAAT
256 TTATTCATATTTTAAAATACTTACCCTCAAAGTTTTC-TATACTAGATTATACATATTGTGTAAT
40214 TTCATACA
320 TTCATACA
*
40222 AAAATCAAAATAATTTTATTAAAAATGAATAAACATTATCAACTGTTGTTAAAAAATAATAATTA
1 AAAATCAAAATAATTTTATTAAAAATAAATAAACATTATCAACTGTTGTT-AAAAATAATAATTA
* * *
40287 ATGAATAATAATTCATTTGATCCCTCAATTGTAATGAAAA-A-T-ATA-TTTTTATA-TTTTTAA
65 ATGAATAATAATTCAATTAATCACTCAATTGTAATGAAAATATTAATATTTTTTATATTTTTTAA
40347 ACAATTAA-TTTAAAAGGCAATAAATTTCTCAAAAATATATGAAATTTATAATTTTTTAAATTAT
130 ACAATTAATTTTAAAAGGCAATAAATTTCTCAAAAATATATGAAATTTATAATTTTTTAAATTAT
* *
40411 AAAATATTTATCATCATCATCATTTTGTAAAAGAAATATTAGTTATAAAACTTTTATAAAATTAT
195 AAAATATTTATCATCATCATCATTTTGTAAAAAAAATACTAGTTATAAAACTTTTATAAAATTAT
40476 TCATATTTTAAAATACTTACCCTCAAAGTTTTCTATACTAGATTATACATATTGTGTAATTTCAT
260 TCATATTTTAAAATACTTACCCTCAAAGTTTTCTATACTAGATTATACATATTGTGTAATTTCAT
**
40541 GTA
325 ACA
40544 AAAATCAAAAT
1 AAAATCAAAAT
40555 TTGTCGAGTT
Statistics
Matches: 311, Mismatches: 18, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
320 58 0.19
321 16 0.05
322 51 0.16
323 87 0.28
324 1 0.00
327 1 0.00
330 47 0.15
331 50 0.16
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (327 bp):
AAAATCAAAATAATTTTATTAAAAATAAATAAACATTATCAACTGTTGTTAAAAATAATAATTAA
TGAATAATAATTCAATTAATCACTCAATTGTAATGAAAATATTAATATTTTTTATATTTTTTAAA
CAATTAATTTTAAAAGGCAATAAATTTCTCAAAAATATATGAAATTTATAATTTTTTAAATTATA
AAATATTTATCATCATCATCATTTTGTAAAAAAAATACTAGTTATAAAACTTTTATAAAATTATT
CATATTTTAAAATACTTACCCTCAAAGTTTTCTATACTAGATTATACATATTGTGTAATTTCATA
CA
Found at i:42524 original size:18 final size:18
Alignment explanation
Indices: 42480--42528 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
42470 GATTTTATTA
*
42480 ATAAAATTAATAAAATGT
1 ATAAAAATAATAAAATGT
* *
42498 CTAATAATAATAAAATCG-
1 ATAAAAATAATAAAAT-GT
42516 ATAAAAATAATAA
1 ATAAAAATAATAA
42529 TACTTTTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (18 bp):
ATAAAAATAATAAAATGT
Found at i:44596 original size:37 final size:37
Alignment explanation
Indices: 44555--44625 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
44545 AACATAACAT
44555 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
* * *
44592 TAGAGTTTTACTATGATTCAAATTTCTAAAAATA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATA
44626 GGATCATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
Found at i:45332 original size:3 final size:3
Alignment explanation
Indices: 45319--45355 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
45309 CTTTACTTAC
* *
45319 TAT TTT TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
45356 CTATTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:45333 original size:6 final size:6
Alignment explanation
Indices: 45285--45355 Score: 58
Period size: 6 Copynumber: 11.8 Consensus size: 6
45275 TTATACCCTT
* * *
45285 TTATTT TTATT- TTATT- TTATTA CTCT-TTA CTTACTA TTTTTA TTATTA
1 TTATTA TTATTA TTATTA TTATTA -T-TATTA -TTATTA TTATTA TTATTA
*
45333 TTAGTA TTATTA TTATTA TTATT
1 TTATTA TTATTA TTATTA TTATT
45356 CTATTTTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
5 10 0.18
6 36 0.65
7 8 0.15
8 1 0.02
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.68
Consensus pattern (6 bp):
TTATTA
Found at i:45354 original size:9 final size:9
Alignment explanation
Indices: 45285--45355 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
45275 TTATACCCTT
*
45285 TTATTTTTA
1 TTATTATTA
45294 TT-TTATT-
1 TTATTATTA
45301 TTATTACTCT-
1 TTATTA-T-TA
*
45311 TTACTTACTA
1 TTA-TTATTA
*
45321 TTTTTATTA
1 TTATTATTA
*
45330 TTATTAGTA
1 TTATTATTA
45339 TTATTATTA
1 TTATTATTA
45348 TTATTATT
1 TTATTATT
45356 CTATTTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
7 2 0.04
8 7 0.14
9 32 0.64
10 6 0.12
11 3 0.06
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.68
Consensus pattern (9 bp):
TTATTATTA
Found at i:45550 original size:17 final size:16
Alignment explanation
Indices: 45510--45560 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
45500 GTATATATTA
45510 TTATCATTATTATTTTT
1 TTATCATT-TTATTTTT
*
45527 TTTTCATTTTATTTTT
1 TTATCATTTTATTTTT
*
45543 CTTATCATATTCATTTTT
1 -TTATCAT-TTTATTTTT
45561 ATCTTCACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 8 0.28
17 13 0.45
18 8 0.28
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATCATTTTATTTTT
Found at i:48418 original size:23 final size:23
Alignment explanation
Indices: 48368--48418 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
48358 AATTAGAACA
*
48368 AAAAAAGAAAAGAAAAAACAAAT
1 AAAAAAGAAAAGAAAAAACAAAC
* * * *
48391 GAAAAAGCAAAGAGAAAAGAAAC
1 AAAAAAGAAAAGAAAAAACAAAC
48414 AAAAA
1 AAAAA
48419 CCAAGGAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAAAGAAAAAACAAAC
Found at i:48428 original size:33 final size:34
Alignment explanation
Indices: 48368--48449 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
48358 AATTAGAACA
*
48368 AAAAAAGAAAAGA-AAAAACAAATGAAAAAGCAAAG
1 AAAAAAG--AAGACAAAAACAAAGGAAAAAGCAAAG
* * **
48403 AGAAAAGAA-ACAAAAACCAAGGAAAAAGTGAAG
1 AAAAAAGAAGACAAAAACAAAGGAAAAAGCAAAG
48436 AAAAAAGAAGACAA
1 AAAAAAGAAGACAA
48450 GACACATATG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 1 0.03
33 28 0.72
34 4 0.10
35 6 0.15
ACGTcount: A:0.73, C:0.07, G:0.17, T:0.02
Consensus pattern (34 bp):
AAAAAAGAAGACAAAAACAAAGGAAAAAGCAAAG
Found at i:50280 original size:110 final size:110
Alignment explanation
Indices: 49878--50378 Score: 779
Period size: 109 Copynumber: 4.6 Consensus size: 110
49868 GAAAAGCTGG
* *
49878 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAATGATATTAG
1 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGG
49943 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
66 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
* *
49988 CTGTCAACAAATAACTTTTCAGTTTCATT-AGAGTTAATTTCAACTTCACAGCGAAGG--A-T--
1 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGG
* * *
50047 --TCAAGACAACACAAGCTCAAGTTCACAGCGAAGGGGCAACTGA
66 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
* *
50090 CTGTCAACAAACAACTTTTCAG-TTCATTCAGAGTCAATTTCAACTTCACATCGAATGATATTGG
1 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGG
* *
50154 ACTCGAGACAATACAAGCTCAACTTCACAGCGAAGGGACGACTGA
66 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
* *
50199 CTGTCAACAAACAATTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGG
1 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGG
*
50264 ACTCGAGACACCACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
66 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
* * *
50309 CTGTTAACAAATAAC-TTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGA
1 CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGG
50373 ACTCGA
66 ACTCGA
50379 AGCGACACAA
Statistics
Matches: 357, Mismatches: 25, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
101 6 0.02
102 86 0.24
104 1 0.00
105 1 0.00
106 1 0.00
107 1 0.00
109 137 0.38
110 124 0.35
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (110 bp):
CTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGG
ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGA
Found at i:51550 original size:37 final size:37
Alignment explanation
Indices: 51473--51579 Score: 198
Period size: 37 Copynumber: 2.9 Consensus size: 37
51463 AACATAACAT
*
51473 TAGAGTTTTACTATGATTCAAACT-CTTAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
51509 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
51546 TAGAGTTTTACTATGATTCAAACTCCTAAAAATA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATA
51580 GGATCCATAA
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
36 24 0.35
37 45 0.65
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (37 bp):
TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
Found at i:51982 original size:19 final size:18
Alignment explanation
Indices: 51950--52007 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
51940 TATATACTTC
*
51950 TTTATTATTATTATTATAT
1 TTTATTGTT-TTATTATAT
* *
51969 TTTATATGTTTTATTTTGT
1 TTTAT-TGTTTTATTATAT
*
51988 TTTATTTTTTTAATTATAT
1 TTTATTGTTTT-ATTATAT
52007 T
1 T
52008 ATTTTTTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 5 0.16
19 23 0.74
20 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTATTGTTTTATTATAT
Found at i:52119 original size:3 final size:3
Alignment explanation
Indices: 52113--52264 Score: 53
Period size: 3 Copynumber: 48.0 Consensus size: 3
52103 ATCTATACGC
* *
52113 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATAT ATAC ATT TTT CATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT -A-TT ATT
* * *** * *
52161 TTT ATTT GTT GCA AAT ATT A-T ATTT ATT ATT ACAT ATAT ATT ATTT
1 ATT A-TT ATT ATT ATT ATT ATT A-TT ATT ATT A-TT AT-T ATT A-TT
* *
52207 ATT ATTT ATT ATT TTT ATT TTT ATT ACTCT -TT ACTT A-T ATT ATT A-T
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-T-T ATT A-TT ATT ATT ATT ATT
52253 ATT ATT ATT ATT
1 ATT ATT ATT ATT
52265 TATTTCTATT
Statistics
Matches: 113, Mismatches: 19, Indels: 34
0.68 0.11 0.20
Matches are distributed among these distances:
2 9 0.08
3 75 0.66
4 26 0.23
5 3 0.03
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:52209 original size:7 final size:7
Alignment explanation
Indices: 52181--52268 Score: 64
Period size: 7 Copynumber: 13.1 Consensus size: 7
52171 GCAAATATTA
52181 TATTTAT
1 TATTTAT
*
52188 TA-TTACA
1 TATTTA-T
*
52195 TATATAT
1 TATTTAT
52202 TATTTAT
1 TATTTAT
52209 TATTTAT
1 TATTTAT
52216 TATTT-T
1 TATTTAT
52222 TATTT-T
1 TATTTAT
*
52228 TA-TTAC
1 TATTTAT
*
52234 TCTTTACT
1 TATTTA-T
52242 TA--TAT
1 TATTTAT
52247 TATTATAT
1 TATT-TAT
52255 TA-TTAT
1 TATTTAT
52261 TATTTAT
1 TATTTAT
52268 T
1 T
52269 TCTATTTACC
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
5 5 0.08
6 20 0.31
7 31 0.48
8 8 0.12
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (7 bp):
TATTTAT
Found at i:57570 original size:33 final size:33
Alignment explanation
Indices: 57478--57570 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
57468 CTAAAAAAAA
* ** ** *
57478 TTAAAGTTACGTTATATCGGTATCTGGATAATT
1 TTAAAGTTACTTTATATCAATATCTATATAACT
* *
57511 TTAAAGGTACTTTATATCAAAATCTATATAACT
1 TTAAAGTTACTTTATATCAATATCTATATAACT
57544 TTAAAGTTACTTTATATCAATATCTAT
1 TTAAAGTTACTTTATATCAATATCTAT
57571 GTAATTTCTA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (33 bp):
TTAAAGTTACTTTATATCAATATCTATATAACT
Done.