Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003207.1 Corchorus capsularis cultivar CVL-1 contig03215, 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, 651

Length: 1086
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32


Found at i:473 original size:30 final size:29

Alignment explanation


    Indices: 404--483  Score: 115
    Period size: 29  Copynumber: 2.7  Consensus size: 29

        394 GTAGCGTTTA

                          *              
        404 GACGTTTTGCCCCCCGAACTTCAATCTTG
          1 GACGTTTTGCCCCCTGAACTTCAATCTTG

               *                     *    
        433 GACATTTTGCCCCCTGAACTTCAATTTTGG
          1 GACGTTTTGCCCCCTGAACTTCAATCTT-G

                           *     
        463 GACGTTTTGCCCCCTCAACTT
          1 GACGTTTTGCCCCCTGAACTT

        484 AACGGTACCG


Statistics
Matches: 45,  Mismatches: 5, Indels: 1
        0.88            0.10        0.02

Matches are distributed among these distances:
  29   25  0.56
  30   20  0.44

ACGTcount: A:0.17, C:0.33, G:0.16, T:0.34


Consensus pattern (29 bp):   
GACGTTTTGCCCCCTGAACTTCAATCTTG

Found at i:554 original size:29 final size:30

Alignment explanation


    Indices: 502--574  Score: 96
    Period size: 29  Copynumber: 2.5  Consensus size: 30

        492 CGTTAAGTTG

                *                         
        502 AGGGAGCAAAACGTCCCAAAATTGAAATTC
          1 AGGGGGCAAAACGTCCCAAAATTGAAATTC

                       *       *      *   
        532 AGGGGGCAAAATGT-CCAAGATTGAAGTTC
          1 AGGGGGCAAAACGTCCCAAAATTGAAATTC

                           
        561 -GGGGGCAAAACGTC
          1 AGGGGGCAAAACGTC

        575 TAAACACTAC


Statistics
Matches: 37,  Mismatches: 5, Indels: 3
        0.82            0.11        0.07

Matches are distributed among these distances:
  28   12  0.32
  29   13  0.35
  30   12  0.32

ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16


Consensus pattern (30 bp):   
AGGGGGCAAAACGTCCCAAAATTGAAATTC
Done.