Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007926.1 Corchorus olitorius cultivar O-4 contig07953, 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, 759

Length: 1265
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41


Found at i:487 original size:54 final size:54

Alignment explanation


    Indices: 345--500  Score: 237
    Period size: 54  Copynumber: 2.9  Consensus size: 54

        335 AGATCTAAGC

                   *         *   *                                
        345 TGATCTTTTGATGGTCCCGGGTGACCTTTCAATCAA-TTTCAG-AAATCTATGT
          1 TGATCTTCTGATGGTCCTGGGCGACCTTTCAATCAATTTTCAGAAAATCTATGT

                                    *                              
        397 TGAT-TTCTGATGGTCCTGGGCGATCTTTCAAGTCAATTTTCAGAAAATCTATGT
          1 TGATCTTCTGATGGTCCTGGGCGACCTTTCAA-TCAATTTTCAGAAAATCTATGT

                               *                              
        451 TGATCTTCTGATGGTCCTGAGCGACCTTTCAATCAATTTTCAGAAAATCT
          1 TGATCTTCTGATGGTCCTGGGCGACCTTTCAATCAATTTTCAGAAAATCT

        501 TTGCTGATAT


Statistics
Matches: 94,  Mismatches: 6, Indels: 6
        0.89            0.06        0.06

Matches are distributed among these distances:
  51   23  0.24
  52    8  0.09
  53    6  0.06
  54   32  0.34
  55   25  0.27

ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38


Consensus pattern (54 bp):   
TGATCTTCTGATGGTCCTGGGCGACCTTTCAATCAATTTTCAGAAAATCTATGT

Found at i:1178 original size:3 final size:3

Alignment explanation


    Indices: 1164--1251  Score: 167
    Period size: 3  Copynumber: 29.3  Consensus size: 3

       1154 TTGCTTTCTC

                     *                                                     
       1164 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA

                                                                 
       1212 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T

       1252 AAATCGGTAA


Statistics
Matches: 83,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
   3   83  1.00

ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66


Consensus pattern (3 bp):   
TTA

Done.