Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014522.1 Corchorus capsularis cultivar CVL-1 contig14543, 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: 14295
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31


Found at i:1152 original size:2 final size:2

Alignment explanation


    Indices: 1145--1176  Score: 57
    Period size: 2  Copynumber: 16.5  Consensus size: 2

       1135 ACAAAACTCA

                                                             
       1145 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

       1177 CTAGTAATGT


Statistics
Matches: 29,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   1    1  0.03
   2   28  0.97

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


Consensus pattern (2 bp):   
AT

Found at i:9941 original size:180 final size:180

Alignment explanation


    Indices: 9639--10002  Score: 692
    Period size: 180  Copynumber: 2.0  Consensus size: 180

       9629 GTGACTAGGG

                                                               *             
       9639 TGCATTCTTTTAGCTAAATTAGATCCTTGATCAGTATCAGATGATGAGCTTTTTGGTTGGTGCGC
          1 TGCATTCTTTTAGCTAAATTAGATCCTTGATCAGTATCAGATGATGAGCTTGTTGGTTGGTGCGC

                                                                             
       9704 TAGAGATGGACCTGTCTCCCTTGTTCCATAGCAGTTTCTCTCTCTAATTTCCCTAAGCCCTTCGG
         66 TAGAGATGGACCTGTCTCCCTTGTTCCATAGCAGTTTCTCTCTCTAATTTCCCTAAGCCCTTCGG

                             *             *                  
       9769 GTGGCAAGAGATAATCCTTTAGCTTACTAGTTACTTGAAAGATTGCATTC
        131 GTGGCAAGAGATAATCCCTTAGCTTACTAGTAACTTGAAAGATTGCATTC

                                                                         *   
       9819 TGCATTCTTTTAGCTAAATTAGATCCTTGATCAGTATCAGATGATGAGCTTGTTGGTTGGTTCGC
          1 TGCATTCTTTTAGCTAAATTAGATCCTTGATCAGTATCAGATGATGAGCTTGTTGGTTGGTGCGC

                                                                             
       9884 TAGAGATGGACCTGTCTCCCTTGTTCCATAGCAGTTTCTCTCTCTAATTTCCCTAAGCCCTTCGG
         66 TAGAGATGGACCTGTCTCCCTTGTTCCATAGCAGTTTCTCTCTCTAATTTCCCTAAGCCCTTCGG

                                                              
       9949 GTGGCAAGAGATAATCCCTTAGCTTACTAGTAACTTGAAAGATTGCATTC
        131 GTGGCAAGAGATAATCCCTTAGCTTACTAGTAACTTGAAAGATTGCATTC

                
       9999 TGCA
          1 TGCA

      10003 CGCTTTGAAA


Statistics
Matches: 180,  Mismatches: 4, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 180  180  1.00

ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36


Consensus pattern (180 bp):   
TGCATTCTTTTAGCTAAATTAGATCCTTGATCAGTATCAGATGATGAGCTTGTTGGTTGGTGCGC
TAGAGATGGACCTGTCTCCCTTGTTCCATAGCAGTTTCTCTCTCTAATTTCCCTAAGCCCTTCGG
GTGGCAAGAGATAATCCCTTAGCTTACTAGTAACTTGAAAGATTGCATTC
Done.