Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012541.1 Corchorus capsularis cultivar CVL-1 contig12562, 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: 4733
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34


Found at i:778 original size:2 final size:2

Alignment explanation


    Indices: 771--795  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

        761 TAAATACTAG

                                                 
        771 TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA T

        796 CTAACCTTGT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:1429 original size:28 final size:28

Alignment explanation


    Indices: 1389--1442  Score: 108
    Period size: 28  Copynumber: 1.9  Consensus size: 28

       1379 ACTGTAGGTT

                                        
       1389 TCTTCAACATCATCTCCAATTTATCCTG
          1 TCTTCAACATCATCTCCAATTTATCCTG

                                      
       1417 TCTTCAACATCATCTCCAATTTATCC
          1 TCTTCAACATCATCTCCAATTTATCC

       1443 AGAAAACTGT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  28   26  1.00

ACGTcount: A:0.26, C:0.33, G:0.02, T:0.39


Consensus pattern (28 bp):   
TCTTCAACATCATCTCCAATTTATCCTG

Found at i:3574 original size:2 final size:2

Alignment explanation


    Indices: 3567--3598  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       3557 AGTAATGTGA

                                                           
       3567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       3599 GTGGTCAAAC


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   30  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.