Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007854.1 Corchorus capsularis cultivar CVL-1 contig07875, 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: 8476
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30


Found at i:7773 original size:13 final size:13

Alignment explanation


    Indices: 7755--7824  Score: 59
    Period size: 13  Copynumber: 4.8  Consensus size: 13

       7745 TGGTCATGGC

                         
       7755 TTTTCAAAAATGT
          1 TTTTCAAAAATGT

                        *  
       7768 TTTTCAAAAGAGAGT
          1 TTTTCAAAA-A-TGT

                              
       7783 CATGATTTTCAAAAATGT
          1 --T--TTT-CAAAAATGT

                          
       7801 TTTTCAAAAATGTT
          1 TTTTCAAAAATG-T

                      
       7815 TTTTCAAAAA
          1 TTTTCAAAAA

       7825 AAAAAATTTT


Statistics
Matches: 47,  Mismatches: 2, Indels: 15
        0.73            0.03        0.23

Matches are distributed among these distances:
  13   17  0.36
  14   15  0.32
  15    2  0.04
  16    1  0.02
  17    1  0.02
  18    2  0.04
  19    4  0.09
  20    5  0.11

ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41


Consensus pattern (13 bp):   
TTTTCAAAAATGT

Found at i:7817 original size:14 final size:13

Alignment explanation


    Indices: 7788--7824  Score: 65
    Period size: 13  Copynumber: 2.8  Consensus size: 13

       7778 AGAGTCATGA

                         
       7788 TTTTCAAAAATGT
          1 TTTTCAAAAATGT

                          
       7801 TTTTCAAAAATGTT
          1 TTTTCAAAAATG-T

                      
       7815 TTTTCAAAAA
          1 TTTTCAAAAA

       7825 AAAAAATTTT


Statistics
Matches: 23,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  13   12  0.52
  14   11  0.48

ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46


Consensus pattern (13 bp):   
TTTTCAAAAATGT
Done.