Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015256.1 Corchorus capsularis cultivar CVL-1 contig15277, 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: 2715
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31


Found at i:414 original size:32 final size:32

Alignment explanation


    Indices: 360--423  Score: 76
    Period size: 32  Copynumber: 2.0  Consensus size: 32

        350 GGGTATCATG

                       ***   *               
        360 TTCCCATTAGTTGTATTGGTCATAGT-CATATC
          1 TTCCCATTAGTCACATTAGTCAT-GTACATATC

                                            
        392 TTCCCATTAGTCACATTAGTCATGTACATATC
          1 TTCCCATTAGTCACATTAGTCATGTACATATC

        424 CATTTTCATT


Statistics
Matches: 27,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  31    2  0.07
  32   25  0.93

ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41


Consensus pattern (32 bp):   
TTCCCATTAGTCACATTAGTCATGTACATATC

Found at i:2184 original size:35 final size:34

Alignment explanation


    Indices: 2138--2223  Score: 102
    Period size: 34  Copynumber: 2.5  Consensus size: 34

       2128 CATTCAGTTG

                                      *         
       2138 ATTGACCCAGGGCGG-CCCCCATTCAGTAAATTTCA
          1 ATTGACCCAGGGCGGTCCCCC-TTCAAT-AATTTCA

                 *           * *              
       2173 ATTGATCCAGGGCGGTCTCTCTTCAATAATTTCA
          1 ATTGACCCAGGGCGGTCCCCCTTCAATAATTTCA

                     *       
       2207 ATTGACCCAAGGCGGTC
          1 ATTGACCCAGGGCGGTC

       2224 TTTATTCAGT


Statistics
Matches: 44,  Mismatches: 6, Indels: 3
        0.83            0.11        0.06

Matches are distributed among these distances:
  34   22  0.50
  35   19  0.43
  36    3  0.07

ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27


Consensus pattern (34 bp):   
ATTGACCCAGGGCGGTCCCCCTTCAATAATTTCA
Done.