Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01021343.1 Corchorus olitorius cultivar O-4 contig21376, 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: 4586
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Found at i:1379 original size:370 final size:370
Alignment explanation
Indices: 685--1428 Score: 1310
Period size: 370 Copynumber: 2.0 Consensus size: 370
675 TTCCCGTTCT
* * *
685 TTGACAGCGTGGGCAGGTCTTGCAATACTCATAAGAGTCTTTAAAAATTGAAGGCCAATAAAACA
1 TTGACAACGTGGACAGGTCTTGCAATACTCATAAGAGTCTTTAAAAATTAAAGGCCAATAAAACA
*
750 CGCAATCTAAGACCTTTATTGCAGTCTTCTGGTCTCCAAAGTGACCTCTACATTCATTGTTATGG
66 CGCAATCTAAGACCTTTATTGCAGTCTTCTGGTCTCCAAAGTGACCTCCACATTCATTGTTATGG
815 CAGAACTTCAGAACTGATTGAATCTCGTTATCCGGAATGCATATTCTCATGACTTGATCAGAACC
131 CAGAACTTCAGAACTGATTGAATCTCGTTATCCGGAATGCATATTCTCATGACTTGATCAGAACC
*
880 GTGTCTCCATAAATACGGATCATCCCAAAGATAATACTTGGCATCACTGATGAGCTTCAATTTCT
196 GTGTCTCCATAAATACGGATCATCCCAAAGATAATACTTGGCATCACTGATAAGCTTCAATTTCT
*
945 TTCCTTTGCTAAGATCAGAGGGTAAACGACGAGCAACTAAGAAATTGACTATATCAGCATACCAG
261 TTCCCTTGCTAAGATCAGAGGGTAAACGACGAGCAACTAAGAAATTGACTATATCAGCATACCAG
* * *
1010 GGTGGATGAGAAACGGCAAAAATTTCTTCAAAGGGTAGTGCTTCG
326 GGTGGATGAGAAACGGCAAAAATTCCTTCAAAGGGCAATGCTTCG
1055 TTGACAACGTGGACAGGTCTTGCAATACTCATAAGAGTCTTTAAAAATTAAAGGCCAATAAAATC
1 TTGACAACGTGGACAGGTCTTGCAATACTCATAAGAGTCTTTAAAAATTAAAGGCCAATAAAA-C
* * * *
1120 -CGCAATCTAAGACCTTTCTTGCAGTCTTCTGGTGTCCAAAGTGGCCTCCACATTCATTGTTGTG
65 ACGCAATCTAAGACCTTTATTGCAGTCTTCTGGTCTCCAAAGTGACCTCCACATTCATTGTTATG
*
1184 GCAGAACTTCAGAACTGATTGAATCTCGTTATCCGGAATGCATCTTCTCATGACTTGATCAGAAC
130 GCAGAACTTCAGAACTGATTGAATCTCGTTATCCGGAATGCATATTCTCATGACTTGATCAGAAC
* *
1249 CGTGTCTCCATAAATACGGATCATCCTAAAGATAATACTTGGTATCACTGATAAGCTTCAATTTC
195 CGTGTCTCCATAAATACGGATCATCCCAAAGATAATACTTGGCATCACTGATAAGCTTCAATTTC
1314 TTTCCCTTGCTAAGATCAGAGGGTAAACGACGAGCAACTAAGAAATTGACTATATCAGCATACCA
260 TTTCCCTTGCTAAGATCAGAGGGTAAACGACGAGCAACTAAGAAATTGACTATATCAGCATACCA
* *
1379 GGGTGTATGAGAAACGGCAAAAATTCCTTCAAATGGCAATGCTTCG
325 GGGTGGATGAGAAACGGCAAAAATTCCTTCAAAGGGCAATGCTTCG
1425 TTGA
1 TTGA
1429 TTGCAGTTTC
Statistics
Matches: 355, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
370 354 1.00
371 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (370 bp):
TTGACAACGTGGACAGGTCTTGCAATACTCATAAGAGTCTTTAAAAATTAAAGGCCAATAAAACA
CGCAATCTAAGACCTTTATTGCAGTCTTCTGGTCTCCAAAGTGACCTCCACATTCATTGTTATGG
CAGAACTTCAGAACTGATTGAATCTCGTTATCCGGAATGCATATTCTCATGACTTGATCAGAACC
GTGTCTCCATAAATACGGATCATCCCAAAGATAATACTTGGCATCACTGATAAGCTTCAATTTCT
TTCCCTTGCTAAGATCAGAGGGTAAACGACGAGCAACTAAGAAATTGACTATATCAGCATACCAG
GGTGGATGAGAAACGGCAAAAATTCCTTCAAAGGGCAATGCTTCG
Done.