Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006614.1 Corchorus capsularis cultivar CVL-1 contig06635, 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: 1790
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29


Found at i:1424 original size:13 final size:13

Alignment explanation


    Indices: 1406--1431  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       1396 CTTTCACAAA

                         
       1406 ATTATCAACTAAT
          1 ATTATCAACTAAT

                         
       1419 ATTATCAACTAAT
          1 ATTATCAACTAAT

       1432 CATAATGGTT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38


Consensus pattern (13 bp):   
ATTATCAACTAAT

Found at i:1623 original size:24 final size:23

Alignment explanation


    Indices: 1582--1627  Score: 65
    Period size: 24  Copynumber: 2.0  Consensus size: 23

       1572 TCGAAGTTCG

                                   
       1582 AAATGAAATAAAAAAAATAGAAT
          1 AAATGAAATAAAAAAAATAGAAT

                         **        
       1605 AAATGAAAATAAATGAAATAGAA
          1 AAATG-AAATAAAAAAAATAGAA

       1628 ATATTCGAAA


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  23    5  0.25
  24   15  0.75

ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17


Consensus pattern (23 bp):   
AAATGAAATAAAAAAAATAGAAT

Found at i:1701 original size:23 final size:23

Alignment explanation


    Indices: 1640--1711  Score: 80
    Period size: 23  Copynumber: 3.2  Consensus size: 23

       1630 ATTCGAAATA

                          *     *   
       1640 TATAAATAATTAGAAATATAGAA-
          1 TATAAATAATTA-ATATATATAAT

                                   
       1663 T-T-AATAATTAATATATATAAT
          1 TATAAATAATTAATATATATAAT

                                    
       1684 TATAAATAGATTAA-ATATATAAT
          1 TATAAATA-ATTAATATATATAAT

                 
       1707 TATAA
          1 TATAA

       1712 TATTAAACAG


Statistics
Matches: 43,  Mismatches: 2, Indels: 8
        0.81            0.04        0.15

Matches are distributed among these distances:
  20    8  0.19
  21    9  0.21
  22    2  0.05
  23   19  0.44
  24    5  0.12

ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39


Consensus pattern (23 bp):   
TATAAATAATTAATATATATAAT
Done.