Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01011368.1 Corchorus olitorius cultivar O-4 contig11401, 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, 805
Length: 1343
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Found at i:1213 original size:154 final size:154
Alignment explanation
Indices: 933--1343 Score: 743
Period size: 154 Copynumber: 2.7 Consensus size: 154
923 GCGCATTAGT
933 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCGA-AAAATAACAAGTG
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGC-ACAAAATAACAAGTG
997 TTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAA
65 TTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAA
1062 ACAATGGAAAGAAAAGCATTCAGGG
130 ACAATGGAAAGAAAAGCATTCAGGG
*
1087 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCACAAAATAACAAGTGT
*
1152 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCTCCAAAATGATTATAGTTAGGCCATAAA
66 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
*
1217 CAATGGAAAGAAAAGCATTGAGGG
131 CAATGGAAAGAAAAGCATTCAGGG
* **
1241 TTACCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCACAAAATAACAAGTGT
1 TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCACAAAATAACAAGTGT
*
1306 TCCAAATTAGCTAAAAACTTCACAGTGGACTAATCTCA
66 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCA
Statistics
Matches: 247, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
154 247 1.00
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.20
Consensus pattern (154 bp):
TTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCACAAAATAACAAGTGT
TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
CAATGGAAAGAAAAGCATTCAGGG
Done.