Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012954.1 Kokia drynarioides strain JFW-HI SEQ_127972, 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: 43408
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:71 original size:19 final size:19
Alignment explanation
Indices: 47--85 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37 CAAAACATTT
47 AATGCAAGACA-TAATTAAA
1 AATGCAA-ACACTAATTAAA
*
66 AATGCAAACACTTATTAAA
1 AATGCAAACACTAATTAAA
85 A
1 A
86 TGAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (19 bp):
AATGCAAACACTAATTAAA
Found at i:13117 original size:15 final size:15
Alignment explanation
Indices: 13097--13144 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
13087 TCCAATGTTT
13097 GCAACATGAGTGCTC
1 GCAACATGAGTGCTC
* ** * *
13112 GTAACACCAATGTTC
1 GCAACATGAGTGCTC
13127 GCAACATGAGTGCTC
1 GCAACATGAGTGCTC
13142 GCA
1 GCA
13145 TCTTCCAAGC
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (15 bp):
GCAACATGAGTGCTC
Found at i:13160 original size:30 final size:30
Alignment explanation
Indices: 13061--13144 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
13051 CTCTTCATCC
* * * * *
13061 ATGCTCGCAACATCAGTGTTTGCAGCTCCA
1 ATGCTCGCAACATGAGTGCTCGCAACACCA
* * *
13091 ATGTTTGCAACATGAGTGCTCGTAACACCA
1 ATGCTCGCAACATGAGTGCTCGCAACACCA
*
13121 ATGTTCGCAACATGAGTGCTCGCA
1 ATGCTCGCAACATGAGTGCTCGCA
13145 TCTTCCAAGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (30 bp):
ATGCTCGCAACATGAGTGCTCGCAACACCA
Found at i:17221 original size:24 final size:24
Alignment explanation
Indices: 17192--17327 Score: 146
Period size: 24 Copynumber: 5.7 Consensus size: 24
17182 CTTGTCAAAT
* **
17192 ACTTTAGGTTTATGCTCATCAGCC
1 ACTTTACGTTTATGCTTGTCAGCC
* **
17216 ATTTTACGTTTATGCTTGTCAAAC
1 ACTTTACGTTTATGCTTGTCAGCC
*
17240 ACTTTACGTTTACGCTTGTCAGCC
1 ACTTTACGTTTATGCTTGTCAGCC
* * *
17264 ATTTTACGTTTTTGCTCGTCAGCC
1 ACTTTACGTTTATGCTTGTCAGCC
*
17288 ACTTTACGTTTATGCTTATCAGCC
1 ACTTTACGTTTATGCTTGTCAGCC
* * *
17312 ACCTTACATTTGTGCT
1 ACTTTACGTTTATGCT
17328 CAAAGGAATG
Statistics
Matches: 91, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 91 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (24 bp):
ACTTTACGTTTATGCTTGTCAGCC
Found at i:17244 original size:48 final size:48
Alignment explanation
Indices: 17182--17312 Score: 181
Period size: 48 Copynumber: 2.7 Consensus size: 48
17172 TTTTGCTTTA
* * *
17182 CTTGTCAAATACTTTAGGTTTATGCTCATCAGCCATTTTACGTTTATG
1 CTTGTCAAACACTTTACGTTTATGCTTATCAGCCATTTTACGTTTATG
* * *
17230 CTTGTCAAACACTTTACGTTTACGCTTGTCAGCCATTTTACGTTTTTG
1 CTTGTCAAACACTTTACGTTTATGCTTATCAGCCATTTTACGTTTATG
* **
17278 CTCGTCAGCCACTTTACGTTTATGCTTATCAGCCA
1 CTTGTCAAACACTTTACGTTTATGCTTATCAGCCA
17313 CCTTACATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (48 bp):
CTTGTCAAACACTTTACGTTTATGCTTATCAGCCATTTTACGTTTATG
Found at i:17716 original size:213 final size:216
Alignment explanation
Indices: 17442--17857 Score: 506
Period size: 216 Copynumber: 1.9 Consensus size: 216
17432 ATTTTCATGT
* * * * * *
17442 AAATAAGTTTTTAATTCAAAGACTAAAAGGTGTTTACGAAACGACAAACTATTTTGACCAAAT-A
1 AAATAAGTTTTTAATTCAAACACCAAAAGGTGTTTACAAAACAACAAAATATTTAGACCAAATGA
* *
17506 -AT-ATATCCCGAGCATGGAATG-TTCAAAAAATTACTCGAAGGAATGGATCGTATTAAATACTT
66 TATGATATCCCGAGCATGCAATGCTT-AAAAAATTACTCGAAGGAATGGATCATATTAAATACTT
* *
17568 TAAGGAA-CTACAGTTATAAAAGAACC-CGTAAAAGTTTGACTAA-TTC-GAAAGTTCGGTGAAA
130 TAAGGAATC-AAAGTTATAAAA-AACCTCGTAAAAGTGTGAC-AAGTTCAG-AAGTTCGGTGAAA
17629 AACCAAGAGAGAATATTTTCACACAA
191 AACCAAGAGAGAATATTTTCACACAA
* * * *
17655 AAATAAGTTTTTAATTCAAACACCAATAGTTGTTTACAAAACAATAAAATGTTTAGACCAAATGA
1 AAATAAGTTTTTAATTCAAACACCAAAAGGTGTTTACAAAACAACAAAATATTTAGACCAAATGA
* * * * * * *
17720 TGTGATTTCCTGAGCATGCAATGCTTGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTT
66 TATGATATCCCGAGCATGCAATGCTTAAAAAATTACTCGAAGGAATGGATCATATTAAATACTTT
* * * *
17785 AAGGAATCAAAGTTATAAAAAACCTCGTAAAAGTGTGACAAGTTCAGGAGTTTGGTGAAGAACCG
131 AAGGAATCAAAGTTATAAAAAACCTCGTAAAAGTGTGACAAGTTCAGAAGTTCGGTGAAAAACCA
17850 AGAGAGAA
196 AGAGAGAA
17858 ACAATTCTCA
Statistics
Matches: 170, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
213 53 0.31
214 1 0.01
215 7 0.04
216 105 0.62
217 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (216 bp):
AAATAAGTTTTTAATTCAAACACCAAAAGGTGTTTACAAAACAACAAAATATTTAGACCAAATGA
TATGATATCCCGAGCATGCAATGCTTAAAAAATTACTCGAAGGAATGGATCATATTAAATACTTT
AAGGAATCAAAGTTATAAAAAACCTCGTAAAAGTGTGACAAGTTCAGAAGTTCGGTGAAAAACCA
AGAGAGAATATTTTCACACAA
Found at i:24620 original size:16 final size:16
Alignment explanation
Indices: 24601--24641 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
24591 CTTATTAAAA
*
24601 TATTATTTAATAAATT
1 TATTAATTAATAAATT
*
24617 TATTAATTAATATATT
1 TATTAATTAATAAATT
24633 TATTAATTA
1 TATTAATTA
24642 TACCTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTAATTAATAAATT
Found at i:25369 original size:6 final size:6
Alignment explanation
Indices: 25358--25470 Score: 83
Period size: 6 Copynumber: 19.7 Consensus size: 6
25348 CAAATTTAAC
* * ** * *
25358 TAAATT TAAATT TAAATT TAAA-A CAAATT TAAATT TAAAAA AAAATA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * ** *
25405 TAAATT TAAATT TAAA-A TAAAGT TAAATT TAAAAA TAAATT TAAACT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
*
25452 T--ATT TAAACT T-AATT TAAA
1 TAAATT TAAATT TAAATT TAAA
25471 ATCATAAGTT
Statistics
Matches: 81, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
4 3 0.04
5 11 0.14
6 67 0.83
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.39
Consensus pattern (6 bp):
TAAATT
Found at i:25370 original size:23 final size:22
Alignment explanation
Indices: 25344--25437 Score: 90
Period size: 23 Copynumber: 4.3 Consensus size: 22
25334 GTTTAAAACC
25344 ATTTCAAATTT-AACTAAATTTAA
1 ATTT-AAATTTAAAC-AAATTTAA
25367 ATTTAAATTTAAAACAAATTTAA
1 ATTTAAATTT-AAACAAATTTAA
*
25390 ATTTAAA---AAA-AAATATAA
1 ATTTAAATTTAAACAAATTTAA
* *
25408 ATTTAAATTTAAAATAAAGTTAA
1 ATTTAAATTT-AAACAAATTTAA
25431 ATTTAAA
1 ATTTAAA
25438 AATAAATTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
18 14 0.23
19 3 0.05
22 9 0.15
23 32 0.52
24 3 0.05
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (22 bp):
ATTTAAATTTAAACAAATTTAA
Found at i:25420 original size:41 final size:41
Alignment explanation
Indices: 25359--25449 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
25349 AAATTTAACT
*
25359 AAATTTAAATTTAAATTTAAAACAAATTTAAATTTAAAAAA
1 AAATTTAAATTTAAATTTAAAACAAAGTTAAATTTAAAAAA
* * *
25400 AAATATAAATTTAAATTTAAAATAAAGTTAAATTTAAAAAT
1 AAATTTAAATTTAAATTTAAAACAAAGTTAAATTTAAAAAA
25441 AAATTTAAA
1 AAATTTAAA
25450 CTTATTTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (41 bp):
AAATTTAAATTTAAATTTAAAACAAAGTTAAATTTAAAAAA
Found at i:25430 original size:17 final size:18
Alignment explanation
Indices: 25364--25449 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 18
25354 TAACTAAATT
25364 TAAATTTAAATTT-AAAA
1 TAAATTTAAATTTAAAAA
*
25381 CAAATTTAAATTTAAAAAAAAATA
1 TAAATTTAAATTT-----AAAA-A
25405 TAAATTTAAATTT-AAAA
1 TAAATTTAAATTTAAAAA
*
25422 TAAAGTTAAATTTAAAAA
1 TAAATTTAAATTTAAAAA
25440 TAAATTTAAA
1 TAAATTTAAA
25450 CTTATTTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
17 25 0.44
18 16 0.28
23 3 0.05
24 13 0.23
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (18 bp):
TAAATTTAAATTTAAAAA
Found at i:25469 original size:11 final size:11
Alignment explanation
Indices: 25442--25470 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
25432 TTTAAAAATA
25442 AATTTAAACTT
1 AATTTAAACTT
25453 -ATTTAAACTT
1 AATTTAAACTT
25463 AATTTAAA
1 AATTTAAA
25471 ATCATAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (11 bp):
AATTTAAACTT
Found at i:26141 original size:209 final size:209
Alignment explanation
Indices: 25781--27507 Score: 2270
Period size: 209 Copynumber: 8.3 Consensus size: 209
25771 GTTTGGTGTT
* * * * * *
25781 ATTGATTTGGTCTACTTCTCAGTTTCTCATCAAGAAGATTACTGTATCATTTGTTTTGATCCACT
1 ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACT
* * * * * *
25846 TCTCCGTGTCTCATCAGGAAGATGAATCTGGTTCGCTTCTCTGTATCTCATCAAGAAGGTAACCG
66 TCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAACCA
* *
25911 CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTTTCTCACT
131 CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACT
25976 TTGAGCCTGGTTTC
196 TTGAGCCTGGTTTC
*
25990 ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGAATCACTTGTTTTGATCCACT
1 ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACT
* * * * * * *
26055 TTTCTGTGTCTCATCAGGAAGACGGACCTGGTTCACTTCTCTGTATCTCATTAGGAAGGTAACCA
66 TCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAACCA
* * **
26120 CTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTTTTCACT
131 CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACT
26185 TTGAGCCTGGTTTC
196 TTGAGCCTGGTTTC
* *
26199 GTTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATTCACT
1 ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACT
* * * *
26264 TCTCTGTGTCTCATCAGGAAGACGGACCTGGTTCACTTGTCAGTATCTCATCAGGAAGCTAACCA
66 TCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAACCA
* ** * *
26329 TTTTATTGCACCGACCTGCTTCTCAGTATGTCATCAGGAAGCTAGGGTTCGAAGATTTG----CT
131 CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACT
*
26390 TTGAGCCTGGTTTT
196 TTGAGCCTGGTTTC
* * * * *
26404 ATTGATTTTGTCTACTTCTCAATATTTCATCAAGAAGATGACCGTATCACTTGTTTTGATCCACT
1 ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACT
*
26469 TCTCTGTG--TCATCAGGAAGACGAATCTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCA
66 TCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAACCA
* * * * * *
26532 TTTTATTGCTTTGACTTGCTTCTCAGTATCTCATCAGGAAGTTAGGGTTCGATGATTTGCTCACT
131 CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACT
*
26597 TTGAACCTGGTTTC
196 TTGAGCCTGGTTTC
* * * ** **
26611 ATTGATTTGGCCTACTTCTCAGTATCTCATCAGGAAGATGACCGCCTTACTTGTTTCAATCTGCT
1 ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACT
* * * *
26676 TCT-TCGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTCATCAAGAAGCTAACC
66 TCTCT-GTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAACC
* * * * * * *
26740 ATTTTATTGCTTCGACCTGCTTCTCAGTATCTCGTCAAGATGCTAGGGTTCGAAGATTCGCTCGC
130 ACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCAC
* *
26805 TTTGAGCCCGATTTC
195 TTTGAGCCTGGTTTC
*
26820 TTTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGACATCACTTGTTTTGATCCAC
1 ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCG-CATCACTTGTTTTGATCCAC
** * * * *
26885 TTCTCTGTGTCTCAAGAGGAAGAC-AGACCTGGTTCACTTATCTGTATCTCATCAAGAAGGTAAC
65 TTCTCTGTGTCTCATCAGGAAGACGA-ATCTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAAC
*
26949 CACTTTATTGCTTCGACCTGCTTCTTAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
129 CACTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
27014 -TTTGGAGCCTGGTTTC
194 CTTT-GAGCCTGGTTTC
* * * *
27030 GTAGATTTGGTCTACTTCTCAGTATC-CTATCAGAAAGATGACCGCATCACTTGTTTTGATCGAC
1 ATTGATTTGGTCTACTTCTCAGTATCTC-ATCAGGAAGATGACCGCATCACTTGTTTTGATCCAC
* * * * ** * *
27094 TTCTCTGTATCTCATCAAGAAGATGGATCTGGTTCACTTCTTTGTATCTCATCAGGAAGGTAA-C
65 TTCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAACC
* * * * * *
27158 AGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATTAGAAAGCTTGGGTTCTATGATTTGCTTA
130 A-CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
* *
27223 CTTTGAGCTTTGTTTC
194 CTTTGAGCCTGGTTTC
* ** *
27239 ATTGATTTGGTCTACTTCTCAGTATCTTATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCT
1 ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACT
* * *
27304 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCA
66 TCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAACCA
* * * * * *
27369 TTTTATTGATTTGACCTTCTTCTCACTATCTCATCAGGAAGCTGGGGATTTTGAAGATTTGCTCA
131 CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGG--TTCGAAGATTTGCTCA
27434 CTTTGAGCCTGGTTTC
194 CTTTGAGCCTGGTTTC
* * *
27450 ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGATCACATCGCTTGTTTTG
1 ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTG
27508 GCTAATCGCA
Statistics
Matches: 1327, Mismatches: 172, Indels: 36
0.86 0.11 0.02
Matches are distributed among these distances:
203 104 0.08
205 81 0.06
206 1 0.00
207 72 0.05
208 2 0.00
209 813 0.61
210 175 0.13
211 79 0.06
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (209 bp):
ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACT
TCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCAGTATCTCATCAAGAAGCTAACCA
CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACT
TTGAGCCTGGTTTC
Found at i:33383 original size:88 final size:88
Alignment explanation
Indices: 33230--33402 Score: 328
Period size: 88 Copynumber: 2.0 Consensus size: 88
33220 GCTCTAACCT
*
33230 AGCATCAGGGTTACTCATATTATTGAAATTCGAGGACCTATCAAGGGATGAATGGGAGGTTCAAA
1 AGCATCAGGGTTACTCATATTATTGAAATTCGAGGACCTATCAAGGGATGAATGGGAGGTCCAAA
33295 GAACATAATAAATTTACGAAAGA
66 GAACATAATAAATTTACGAAAGA
*
33318 AGCATCAGGGTTACTCATATTATTGAAATTCGAGGACCTGTCAAGGGATGAATGGGAGGTCCAAA
1 AGCATCAGGGTTACTCATATTATTGAAATTCGAGGACCTATCAAGGGATGAATGGGAGGTCCAAA
33383 GAACATAATAAATTTACGAA
66 GAACATAATAAATTTACGAA
33403 TGAATGATTA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (88 bp):
AGCATCAGGGTTACTCATATTATTGAAATTCGAGGACCTATCAAGGGATGAATGGGAGGTCCAAA
GAACATAATAAATTTACGAAAGA
Found at i:39257 original size:6 final size:6
Alignment explanation
Indices: 39246--39284 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
39236 TGATCAAAAT
* * *
39246 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
39285 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Done.