Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015354.1 Corchorus olitorius cultivar O-4 contig15387, 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: 53254
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:1866 original size:30 final size:31
Alignment explanation
Indices: 1824--1881 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
1814 CCTTAATTAC
* *
1824 ACTTTCAAAATTTTGTCATTATGCCCCTTTA
1 ACTTTCAAAATTTTATAATTATGCCCCTTTA
*
1855 ACTTT-AAAATTTTATAATTTTGCCCCT
1 ACTTTCAAAATTTTATAATTATGCCCCT
1882 ACTCTATCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.47
Consensus pattern (31 bp):
ACTTTCAAAATTTTATAATTATGCCCCTTTA
Found at i:5613 original size:23 final size:21
Alignment explanation
Indices: 5591--5631 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
5581 ATGCAAATAA
5591 AAAATATAGCATTTGTGACAT
1 AAAATATAGCATTTGTGACAT
*
5612 AACATATAGCATTTGTGACA
1 AAAATATAGCATTTGTGACA
5632 ATCATCCGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (21 bp):
AAAATATAGCATTTGTGACAT
Found at i:10257 original size:15 final size:16
Alignment explanation
Indices: 10237--10273 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
10227 ACAACTTAAG
10237 AAAGAAAACGGATTA-
1 AAAGAAAACGGATTAT
10252 AAAG-AAACGGATTAT
1 AAAGAAAACGGATTAT
10267 AAAGAAA
1 AAAGAAA
10274 GCAATAGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 10 0.50
15 8 0.40
16 2 0.10
ACGTcount: A:0.62, C:0.05, G:0.19, T:0.14
Consensus pattern (16 bp):
AAAGAAAACGGATTAT
Found at i:10259 original size:14 final size:15
Alignment explanation
Indices: 10237--10273 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
10227 ACAACTTAAG
10237 AAAGAAAACGGATTA-
1 AAAG-AAACGGATTAT
10252 AAAGAAACGGATTAT
1 AAAGAAACGGATTAT
10267 AAAGAAA
1 AAAGAAA
10274 GCAATAGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.62, C:0.05, G:0.19, T:0.14
Consensus pattern (15 bp):
AAAGAAACGGATTAT
Found at i:10323 original size:14 final size:15
Alignment explanation
Indices: 10300--10328 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10290 GAATATAATT
10300 AAATAGAAAGCAATA
1 AAATAGAAAGCAATA
10315 AAATA-AAAGCAATA
1 AAATAGAAAGCAATA
10329 CTTCCCCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (15 bp):
AAATAGAAAGCAATA
Found at i:12440 original size:42 final size:43
Alignment explanation
Indices: 12395--12479 Score: 143
Period size: 45 Copynumber: 1.9 Consensus size: 43
12385 CTAAATTCTA
*
12395 CTCCATTTCTAGGTAATTCATCAAAATAAAGCTAATATTATACTC
1 CTCCATCTCTAGGTAATTCATCAAAATAAAGCTAATATTATA--C
12440 CTCCATCTCTAGGTAATTCATCAAAATAAAGCTAATATTA
1 CTCCATCTCTAGGTAATTCATCAAAATAAAGCTAATATTA
12480 GTTGTTGCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (43 bp):
CTCCATCTCTAGGTAATTCATCAAAATAAAGCTAATATTATAC
Found at i:26018 original size:16 final size:16
Alignment explanation
Indices: 25997--26028 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25987 TGCCCCTGTT
25997 GGGAGACTTACCCACC
1 GGGAGACTTACCCACC
26013 GGGAGACTTACCCACC
1 GGGAGACTTACCCACC
26029 ATAACCAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (16 bp):
GGGAGACTTACCCACC
Found at i:31716 original size:23 final size:23
Alignment explanation
Indices: 31681--31726 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
31671 GTAATCTGAG
* *
31681 TGACCCAAGACCCGAATAACCCA
1 TGACCCAAAACCCAAATAACCCA
*
31704 TGACCTAAAACCCAAATAACCCA
1 TGACCCAAAACCCAAATAACCCA
31727 AGAAGTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.37, G:0.09, T:0.11
Consensus pattern (23 bp):
TGACCCAAAACCCAAATAACCCA
Found at i:32373 original size:16 final size:16
Alignment explanation
Indices: 32354--32387 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
32344 AACCCGCACA
*
32354 ACCCGAGACCCGTATG
1 ACCCGAAACCCGTATG
32370 ACCCGAAACCCGTATG
1 ACCCGAAACCCGTATG
32386 AC
1 AC
32388 TTGAACCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.38, G:0.21, T:0.12
Consensus pattern (16 bp):
ACCCGAAACCCGTATG
Found at i:34850 original size:2 final size:2
Alignment explanation
Indices: 34845--34881 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
34835 ACATACACAC
34845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34882 ACAGTTTGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:40516 original size:14 final size:15
Alignment explanation
Indices: 40497--40527 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
40487 GCTTTTTTGA
40497 TTAAAAAATAT-TTT
1 TTAAAAAATATGTTT
40511 TTAAAAAATATGTTT
1 TTAAAAAATATGTTT
40526 TT
1 TT
40528 TTGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TTAAAAAATATGTTT
Found at i:40529 original size:19 final size:20
Alignment explanation
Indices: 40505--40550 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
40495 GATTAAAAAA
* *
40505 TATTTTTTAAAAAATATGTT
1 TATTTTTAAAAAAATATATT
*
40525 T-TTTTGAAAAAAATATATT
1 TATTTTTAAAAAAATATATT
40544 TATTTTT
1 TATTTTT
40551 CCATTTTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
TATTTTTAAAAAAATATATT
Found at i:40807 original size:11 final size:11
Alignment explanation
Indices: 40787--40833 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
40777 AGTTCAAAAA
40787 TAAA-TTTTTT
1 TAAATTTTTTT
*
40797 TCAATTTTTTT
1 TAAATTTTTTT
40808 TAAATTTATTTTT
1 TAAA-TT-TTTTT
40821 TGAAATTTTTTT
1 T-AAATTTTTTT
40833 T
1 T
40834 TAAAAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 3 0.10
11 9 0.29
12 8 0.26
13 8 0.26
14 3 0.10
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (11 bp):
TAAATTTTTTT
Found at i:40812 original size:25 final size:25
Alignment explanation
Indices: 40784--40833 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
40774 TTTAGTTCAA
**
40784 AAATAAATTTTTTTCAATTTTTTTT
1 AAATAAATTTTTTGAAATTTTTTTT
**
40809 AAATTTATTTTTTGAAATTTTTTTT
1 AAATAAATTTTTTGAAATTTTTTTT
40834 TAAAAAAAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (25 bp):
AAATAAATTTTTTGAAATTTTTTTT
Found at i:40819 original size:13 final size:12
Alignment explanation
Indices: 40791--40837 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
40781 CAAAAATAAA
*
40791 TTTTTTTCAA-T
1 TTTTTTTAAATT
40802 TTTTTTTAAATT
1 TTTTTTTAAATT
40814 TATTTTTTGAAATT
1 T-TTTTTT-AAATT
40828 TTTTTTTAAA
1 TTTTTTTAAA
40838 AAAAGGTGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 9 0.28
12 5 0.16
13 12 0.38
14 6 0.19
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTTTTTAAATT
Found at i:44001 original size:35 final size:35
Alignment explanation
Indices: 43947--44441 Score: 541
Period size: 35 Copynumber: 13.8 Consensus size: 35
43937 CTTCAATCAA
** *
43947 TAGTCAACTTAATTCAGGGTAATTAAAAAAGTTAGT
1 TAGT-AACTTAATTCAGGGTAATTAAGTAAGTCAGT
* *
43983 TAGTAATTTAATTTAGGGTAATTAAGTAAGTCAGT
1 TAGTAACTTAATTCAGGGTAATTAAGTAAGTCAGT
* * *
44018 CAGTAACTTAATTCAGGGTAATTAAGTACGTTAGT
1 TAGTAACTTAATTCAGGGTAATTAAGTAAGTCAGT
*
44053 CA-TCAACTTAATTCAGGGTAATTAAGTAAGTCAGT
1 TAGT-AACTTAATTCAGGGTAATTAAGTAAGTCAGT
* *
44088 TAATAACTTAATTCAGGATAATTAAGTAAGTCAGT
1 TAGTAACTTAATTCAGGGTAATTAAGTAAGTCAGT
*
44123 TAATAACTTAATTCAGGGTATTCAAGGTAATTAAGTAAAGTCAGT
1 TAGTAACTTAATTCA--G-------GGTAATTAAGT-AAGTCAGT
*
44168 TAGTAACTTAATTCAGGGTAATTAAGTAAGTCAAT
1 TAGTAACTTAATTCAGGGTAATTAAGTAAGTCAGT
44203 TAGTAACTTAATTCAGGGTAATTAAGT-A---AGT
1 TAGTAACTTAATTCAGGGTAATTAAGTAAGTCAGT
44234 TAGTAACTTAATTCAGGGTAATTAAGTAAAGTCAGT
1 TAGTAACTTAATTCAGGGTAATTAAGT-AAGTCAGT
* *
44270 CAGTAACTTAATTCAGGGTAATTAAGTTAACTCAGT
1 TAGTAACTTAATTCAGGGTAATTAAG-TAAGTCAGT
* * **
44306 CAGTAACTTAATTCTGGGTAATTAAGTAAACACAGT
1 TAGTAACTTAATTCAGGGTAATTAAGT-AAGTCAGT
* * * *
44342 CATTAACTTAATTCAAGGTAATTAAGTAAACTCAGT
1 TAGTAACTTAATTCAGGGTAATTAAGT-AAGTCAGT
* **
44378 CACAAACTTAATTCAGGGTAATTAAGTAAGTCAGT
1 TAGTAACTTAATTCAGGGTAATTAAGTAAGTCAGT
* * * *
44413 AAATAATTTAATTCAGGGTAATCAAGTAA
1 TAGTAACTTAATTCAGGGTAATTAAGTAA
44442 ATTAATAAGC
Statistics
Matches: 405, Mismatches: 35, Indels: 39
0.85 0.07 0.08
Matches are distributed among these distances:
31 29 0.07
33 1 0.00
34 2 0.00
35 199 0.49
36 139 0.34
37 2 0.00
43 1 0.00
44 10 0.02
45 22 0.05
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (35 bp):
TAGTAACTTAATTCAGGGTAATTAAGTAAGTCAGT
Found at i:44103 original size:17 final size:17
Alignment explanation
Indices: 44083--44138 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
44073 ATTAAGTAAG
44083 TCAGTTAATAACTTAAT
1 TCAGTTAATAACTTAAT
* * *
44100 TCAGGATAATTAA-GTAAG
1 TCA-GTTAA-TAACTTAAT
44118 TCAGTTAATAACTTAAT
1 TCAGTTAATAACTTAAT
44135 TCAG
1 TCAG
44139 GGTATTCAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
16 3 0.10
17 14 0.47
18 10 0.33
19 3 0.10
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (17 bp):
TCAGTTAATAACTTAAT
Found at i:44146 original size:44 final size:45
Alignment explanation
Indices: 44098--44187 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
44088 TAATAACTTA
44098 ATTC-AGGATAATTAAGT-AAGTCAGTTAATAACTTAATTCAGGGT
1 ATTCAAGG-TAATTAAGTAAAGTCAGTTAATAACTTAATTCAGGGT
*
44142 ATTCAAGGTAATTAAGTAAAGTCAGTTAGTAACTTAATTCAGGGT
1 ATTCAAGGTAATTAAGTAAAGTCAGTTAATAACTTAATTCAGGGT
44187 A
1 A
44188 ATTAAGTAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
44 13 0.30
45 30 0.70
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (45 bp):
ATTCAAGGTAATTAAGTAAAGTCAGTTAATAACTTAATTCAGGGT
Found at i:44175 original size:80 final size:79
Alignment explanation
Indices: 44063--44222 Score: 266
Period size: 80 Copynumber: 2.0 Consensus size: 79
44053 CATCAACTTA
* *
44063 ATTCAGGGTAATTAAGTAAGTCAGTTAATAACTTAATTCAGGATAATTAAGTAAGTCAGTTAATA
1 ATTCAAGGTAATTAAGTAAGTCAGTTAATAACTTAATTCAGGATAATTAAGTAAGTCAATTAATA
44128 ACTTAATTCAGGGT
66 ACTTAATTCAGGGT
* * *
44142 ATTCAAGGTAATTAAGTAAAGTCAGTTAGTAACTTAATTCAGGGTAATTAAGTAAGTCAATTAGT
1 ATTCAAGGTAATTAAGT-AAGTCAGTTAATAACTTAATTCAGGATAATTAAGTAAGTCAATTAAT
44207 AACTTAATTCAGGGT
65 AACTTAATTCAGGGT
44222 A
1 A
44223 ATTAAGTAAG
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 16 0.21
80 59 0.79
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (79 bp):
ATTCAAGGTAATTAAGTAAGTCAGTTAATAACTTAATTCAGGATAATTAAGTAAGTCAATTAATA
ACTTAATTCAGGGT
Found at i:44182 original size:36 final size:36
Alignment explanation
Indices: 44142--44442 Score: 391
Period size: 36 Copynumber: 8.6 Consensus size: 36
44132 AATTCAGGGT
* *
44142 ATTCAAGGTAATTAAGTAAAGTCAGTTAGTAACTTA
1 ATTCAGGGTAATTAAGTAAAGTCAGTCAGTAACTTA
* *
44178 ATTCAGGGTAATTAAGT-AAGTCAATTAGTAACTTA
1 ATTCAGGGTAATTAAGTAAAGTCAGTCAGTAACTTA
44213 ATTCAGGGTAATTAAGT-AAGT---T-AGTAACTTA
1 ATTCAGGGTAATTAAGTAAAGTCAGTCAGTAACTTA
44244 ATTCAGGGTAATTAAGTAAAGTCAGTCAGTAACTTA
1 ATTCAGGGTAATTAAGTAAAGTCAGTCAGTAACTTA
* *
44280 ATTCAGGGTAATTAAGTTAACTCAGTCAGTAACTTA
1 ATTCAGGGTAATTAAGTAAAGTCAGTCAGTAACTTA
* ** *
44316 ATTCTGGGTAATTAAGTAAACACAGTCATTAACTTA
1 ATTCAGGGTAATTAAGTAAAGTCAGTCAGTAACTTA
* * **
44352 ATTCAAGGTAATTAAGTAAACTCAGTCACAAACTTA
1 ATTCAGGGTAATTAAGTAAAGTCAGTCAGTAACTTA
* * *
44388 ATTCAGGGTAATTAAGT-AAGTCAGTAAATAATTTA
1 ATTCAGGGTAATTAAGTAAAGTCAGTCAGTAACTTA
*
44423 ATTCAGGGTAATCAAGTAAA
1 ATTCAGGGTAATTAAGTAAA
44443 TTAATAAGCG
Statistics
Matches: 239, Mismatches: 20, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
31 26 0.11
32 5 0.02
35 68 0.28
36 140 0.59
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.32
Consensus pattern (36 bp):
ATTCAGGGTAATTAAGTAAAGTCAGTCAGTAACTTA
Found at i:45161 original size:34 final size:34
Alignment explanation
Indices: 45115--45211 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 34
45105 CCTAAACCAT
* *
45115 CAAAATATATCATTGTTTTGGTAGCTTGAATATA
1 CAAAATATATCATTGTTTTGGTAGCCTAAATATA
* *
45149 GACAATATATCATTGTTTTGGTAGCCTAAATATA
1 CAAAATATATCATTGTTTTGGTAGCCTAAATATA
*
45183 CAAAATATATCATT-TTTTGGTACCCTAAA
1 CAAAATATATCATTGTTTTGGTAGCCTAAA
45212 CCATCAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 14 0.25
34 42 0.75
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (34 bp):
CAAAATATATCATTGTTTTGGTAGCCTAAATATA
Found at i:45210 original size:33 final size:34
Alignment explanation
Indices: 45102--45211 Score: 134
Period size: 34 Copynumber: 3.3 Consensus size: 34
45092 TAGAATTTCC
*
45102 TACCCTAAACCAT-CAAAATATATCATTGTTTTGG
1 TACCCTAAA-TATACAAAATATATCATTGTTTTGG
* * * * *
45136 TAGCTTGAATATAGACAATATATCATTGTTTTGG
1 TACCCTAAATATACAAAATATATCATTGTTTTGG
*
45170 TAGCCTAAATATACAAAATATATCATT-TTTTGG
1 TACCCTAAATATACAAAATATATCATTGTTTTGG
45203 TACCCTAAA
1 TACCCTAAA
45212 CCATCAATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
33 16 0.25
34 48 0.75
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (34 bp):
TACCCTAAATATACAAAATATATCATTGTTTTGG
Found at i:45222 original size:21 final size:22
Alignment explanation
Indices: 45198--45243 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
45188 TATATCATTT
45198 TTTGGTACCCTAAACCATCA-A
1 TTTGGTACCCTAAACCATCAGA
**
45219 TTTGGTACCCTTTACCATCAGA
1 TTTGGTACCCTAAACCATCAGA
45241 TTT
1 TTT
45244 CCCAACGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (22 bp):
TTTGGTACCCTAAACCATCAGA
Found at i:47012 original size:19 final size:18
Alignment explanation
Indices: 46979--47014 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
46969 TGGAAATAAT
46979 TCTTCAATGATCTTCAAG
1 TCTTCAATGATCTTCAAG
*
46997 TCTTCAAATTATCTTCAA
1 TCTTC-AATGATCTTCAA
47015 TAAATCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (18 bp):
TCTTCAATGATCTTCAAG
Found at i:53170 original size:21 final size:21
Alignment explanation
Indices: 53146--53196 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
53136 TGCTAGAAGT
53146 TCATTGGAGAAGGTTCCAAGA
1 TCATTGGAGAAGGTTCCAAGA
* *
53167 TCATTGGAGAAGGTTTCAAGC
1 TCATTGGAGAAGGTTCCAAGA
*
53188 TCATCGGAG
1 TCATTGGAG
53197 TTGCCTAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (21 bp):
TCATTGGAGAAGGTTCCAAGA
Done.