Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000893.1 Corchorus capsularis cultivar CVL-1 contig00893, 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: 17402
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34


Found at i:790 original size:31 final size:31

Alignment explanation


    Indices: 755--813  Score: 100
    Period size: 31  Copynumber: 1.9  Consensus size: 31

        745 AGTTTTGAGA

                   *           *           
        755 AACTTTTGAAATACCTATTGTATCCTTATTT
          1 AACTTTTAAAATACCTATTATATCCTTATTT

                                        
        786 AACTTTTAAAATACCTATTATATCCTTA
          1 AACTTTTAAAATACCTATTATATCCTTA

        814 CTTATCTAAT


Statistics
Matches: 26,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  31   26  1.00

ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46


Consensus pattern (31 bp):   
AACTTTTAAAATACCTATTATATCCTTATTT

Found at i:1925 original size:3 final size:3

Alignment explanation


    Indices: 1919--1947  Score: 58
    Period size: 3  Copynumber: 9.7  Consensus size: 3

       1909 GGTTTAATGC

                                                  
       1919 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT

       1948 TTCTCTGTTA


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

Matches are distributed among these distances:
   3   26  1.00

ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69


Consensus pattern (3 bp):   
TTA

Found at i:7637 original size:39 final size:39

Alignment explanation


    Indices: 7594--7678  Score: 109
    Period size: 39  Copynumber: 2.2  Consensus size: 39

       7584 CAGGAGAATG

                                  *  *   *          
       7594 CCACCATCATCATCATGAGGAGGACTCC-CAGACTGAGCA
          1 CCACCATCATCATCATGAGGAGCACACCAAAGA-TGAGCA

                         *    *                    
       7633 CCACCATCATCATGATGATGAGCACACCAAAGATGAGCA
          1 CCACCATCATCATCATGAGGAGCACACCAAAGATGAGCA

                   
       7672 CCACCAT
          1 CCACCAT

       7679 GCTCATGAAG


Statistics
Matches: 40,  Mismatches: 5, Indels: 2
        0.85            0.11        0.04

Matches are distributed among these distances:
  39   37  0.93
  40    3  0.08

ACGTcount: A:0.34, C:0.33, G:0.18, T:0.15


Consensus pattern (39 bp):   
CCACCATCATCATCATGAGGAGCACACCAAAGATGAGCA
Done.