Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001255.1 Corchorus capsularis cultivar CVL-1 contig01255, 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: 8482
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31


Found at i:1525 original size:61 final size:61

Alignment explanation


    Indices: 1430--1616  Score: 331
    Period size: 61  Copynumber: 3.1  Consensus size: 61

       1420 TGCAAAACTG

                  *   *                                                  
       1430 GTTATGGCAAGAGCAGTTTAAATAGATTTGAACGGTTAAATCCCTTAATCCCAAAAGTTAC
          1 GTTATGACAATAGCAGTTTAAATAGATTTGAACGGTTAAATCCCTTAATCCCAAAAGTTAC

                                                                         
       1491 GTTATGACAATAGCAGTTTAAATAGATTTGAACGGTTAAATCCCTTAATCCCAAAAGTTAC
          1 GTTATGACAATAGCAGTTTAAATAGATTTGAACGGTTAAATCCCTTAATCCCAAAAGTTAC

                                  *                                       
       1552 GTTATGACAATAGCAGTTTAAACAGATTTGAACGG-TAATATCCCTTAATCCCAAAAGTTAC
          1 GTTATGACAATAGCAGTTTAAATAGATTTGAACGGTTAA-ATCCCTTAATCCCAAAAGTTAC

                
       1613 GTTA
          1 GTTA

       1617 AGTAACTGAT


Statistics
Matches: 122,  Mismatches: 3, Indels: 2
        0.96            0.02        0.02

Matches are distributed among these distances:
  60    3  0.02
  61  119  0.98

ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30


Consensus pattern (61 bp):   
GTTATGACAATAGCAGTTTAAATAGATTTGAACGGTTAAATCCCTTAATCCCAAAAGTTAC

Found at i:5452 original size:64 final size:64

Alignment explanation


    Indices: 5351--5476  Score: 234
    Period size: 64  Copynumber: 2.0  Consensus size: 64

       5341 AAATTTACCG

                                                                            
       5351 GCTTTTGGTAGTAATAGAAGAGAGAGGGGCCAAAGAACTTATACTGCTTTTCAAGGTTTTCACA
          1 GCTTTTGGTAGTAATAGAAGAGAGAGGGGCCAAAGAACTTATACTGCTTTTCAAGGTTTTCACA

                                                    * *                   
       5415 GCTTTTGGTAGTAATAGAAGAGAGAGGGGCCAAAGAACTTCTTCTGCTTTTCAAGGTTTTCA
          1 GCTTTTGGTAGTAATAGAAGAGAGAGGGGCCAAAGAACTTATACTGCTTTTCAAGGTTTTCA

       5477 TCTGCCGACA


Statistics
Matches: 60,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  64   60  1.00

ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31


Consensus pattern (64 bp):   
GCTTTTGGTAGTAATAGAAGAGAGAGGGGCCAAAGAACTTATACTGCTTTTCAAGGTTTTCACA
Done.