Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013680.1 Corchorus capsularis cultivar CVL-1 contig13701, 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: 12150
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Found at i:9769 original size:307 final size:309
Alignment explanation
Indices: 9359--9931 Score: 1008
Period size: 307 Copynumber: 1.9 Consensus size: 309
9349 GAATTTTCTG
* * * *
9359 TCCATTTGGCAAGTTGACGTGGCATTTTCTGACGATTCTATTAGGGTGCCGTTCAAAAGGGCTCA
1 TCCATTTGGCAAGCTGACATGGCATTTTATGACGATTCCATTAGGGTGCCGTTCAAAAGGGCTCA
*
9424 TCTGTCTAAATTTGAGAGTTCAATGGTGCAATTGGTCAAAATTGAAGTTTATGGCTTATTTGGCC
66 TCTGTCTAAATTTGAGAGTTCAATGGTGCAATTGGTCAAAATTGAAGTTTAGGGCTTATTTGGCC
*
9489 GTTTGAAAAAAGTTTAGGGCAAAA-AAATACATTAAA-CC-AAAAAAAAACTAATTAAGGGGCGT
131 GTTTGAAAAAAGTTTAGGGCAAAATAAAAACATTAAACCCAAAAAAAAAACTAATTAAGGGGCGT
*
9551 GTGATTGTCCAATTGAAATTTGGATTACAGAGAACATTGCCTCCCTCTTTTATACTTTGTTGTAT
196 GTGATTCTCCAATTGAAATTTGGATTACAGAGAACATTGCCTCCCTCTTTTATACTTTGTTGTAT
9616 GCTTTGCGGAATTTTCTGATTTTCAGATGAGCCCTTTTCTGATGTTCCA
261 GCTTTGCGGAATTTTCTGATTTTCAGATGAGCCCTTTTCTGATGTTCCA
* *
9665 TCCATTTGGCAAGCTGATATGGCATTTTATGACGATTCCGTTAGGGTGCCGTTCAAAAAGGGCTC
1 TCCATTTGGCAAGCTGACATGGCATTTTATGACGATTCCATTAGGGTGCCGTTC-AAAAGGGCTC
*
9730 ATTTGTCTAAATTTGAGAGTTCAATGGTGCAATTGGTCAAAATTGAAGTTTAGGGCTTATTTGGC
65 ATCTGTCTAAATTTGAGAGTTCAATGGTGCAATTGGTCAAAATTGAAGTTTAGGGCTTATTTGGC
*
9795 CGTTTGAAGAAAGTTTAGGGCAAAATAAAAACATTAAACCCAAAAAAAAAACTAATTAAGGGGCG
130 CGTTTGAAAAAAGTTTAGGGCAAAATAAAAACATTAAACCCAAAAAAAAAACTAATTAAGGGGCG
*
9860 TGTGATTCTCCAATTGAAATTTGGATTATAGAGAACATTGCCTCCCTCTTTTATACTTTGTTGTA
195 TGTGATTCTCCAATTGAAATTTGGATTACAGAGAACATTGCCTCCCTCTTTTATACTTTGTTGTA
9925 TGCTTTG
260 TGCTTTG
9932 TGGCCCTCAA
Statistics
Matches: 251, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
306 48 0.19
307 97 0.39
308 11 0.04
309 2 0.01
310 93 0.37
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (309 bp):
TCCATTTGGCAAGCTGACATGGCATTTTATGACGATTCCATTAGGGTGCCGTTCAAAAGGGCTCA
TCTGTCTAAATTTGAGAGTTCAATGGTGCAATTGGTCAAAATTGAAGTTTAGGGCTTATTTGGCC
GTTTGAAAAAAGTTTAGGGCAAAATAAAAACATTAAACCCAAAAAAAAAACTAATTAAGGGGCGT
GTGATTCTCCAATTGAAATTTGGATTACAGAGAACATTGCCTCCCTCTTTTATACTTTGTTGTAT
GCTTTGCGGAATTTTCTGATTTTCAGATGAGCCCTTTTCTGATGTTCCA
Done.