Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003188.1 Corchorus capsularis cultivar CVL-1 contig03196, 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: 7116
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29


Found at i:1153 original size:34 final size:34

Alignment explanation


    Indices: 1113--1179  Score: 107
    Period size: 34  Copynumber: 2.0  Consensus size: 34

       1103 GAGCAACCTC

                        *                     
       1113 ATGGGACACATGTCATGATTTGGAGAGAGGTGGA
          1 ATGGGACACATGCCATGATTTGGAGAGAGGTGGA

                             *     *         
       1147 ATGGGACACATGCCATGTTTTGGGGAGAGGTGG
          1 ATGGGACACATGCCATGATTTGGAGAGAGGTGG

       1180 GCCTTGTATC


Statistics
Matches: 30,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  34   30  1.00

ACGTcount: A:0.25, C:0.10, G:0.40, T:0.24


Consensus pattern (34 bp):   
ATGGGACACATGCCATGATTTGGAGAGAGGTGGA

Found at i:1285 original size:45 final size:45

Alignment explanation


    Indices: 1218--1304  Score: 140
    Period size: 45  Copynumber: 1.9  Consensus size: 45

       1208 ATAGATAGTG

                             *                            
       1218 GAATTACTAAAAGATCCTTACCCCGA-ATTAATGATAAGCTGGGTA
          1 GAATTACTAAAAGATCCCTA-CCCGAGATTAATGATAAGCTGGGTA

                                               *      
       1263 GAATTACTAAAAGATCCCTACCCGAGATTAATGATGAGCTGG
          1 GAATTACTAAAAGATCCCTACCCGAGATTAATGATAAGCTGG

       1305 AGAAGTAATT


Statistics
Matches: 39,  Mismatches: 2, Indels: 2
        0.91            0.05        0.05

Matches are distributed among these distances:
  44    5  0.13
  45   34  0.87

ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25


Consensus pattern (45 bp):   
GAATTACTAAAAGATCCCTACCCGAGATTAATGATAAGCTGGGTA
Done.