Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008398.1 Corchorus olitorius cultivar O-4 contig08425, 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, 892

Length: 1487
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29


Found at i:1335 original size:151 final size:153

Alignment explanation


    Indices: 1060--1487  Score: 632
    Period size: 153  Copynumber: 2.8  Consensus size: 153

       1050 TTTAGGAATT

                  *                 *                                *       
       1060 GAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTGACAAATGC
          1 GAAGACAATTCAAAACGTCACTAAAGGGCCCCGATAGGCCCAAAATAACAAGTGTT-CCAAATGC

                                                            *        *       
       1125 GACTAAAAACATTACAGTGGACTAATCTGACC-AAATGATTATAG-TAAGCCAT-AATAATGG-A
         65 G-CT-AAAACATTACAGTGGACTAATCTGACCAAAATGATTATAGTTAGGCCATAAACAATGGAA

                                      
       1186 AG-AAAGCATTGAGGGTTGCCAAATC
        128 AGAAAAGCATTGAGGGTTGCCAAATC

                                                   *    *                    
       1211 GAAGACAATTCAAAACGTCACTAAAGGGCCCCGATAGGCTCAAATTAACAAGTGTTCCAAATGCG
          1 GAAGACAATTCAAAACGTCACTAAAGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGCG

                                                                             
       1276 CTAAAACATTACAGTGGACTAATCTGACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGA
         66 CTAAAACATTACAGTGGACTAATCTGACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGA

                                   
       1341 AAAGCATTGAGGGTTGCCAAATC
        131 AAAGCATTGAGGGTTGCCAAATC

                                           *                                *
       1364 GAAGACAATTCAAAACGTCACTAAAGGGCCCTGATAGGCCCAAAAATAACAAGTGTTCCAAATGA
          1 GAAGACAATTCAAAACGTCACTAAAGGGCCCCGATAGGCCC-AAAATAACAAGTGTTCCAAATGC

             **     *       *          *                   *           
       1429 GAAAAAACCTTCACAGGGGACTAATCTTACCAAAATGATTATAGTTTTGGCCATAAACA
         65 GCTAAAACATT-ACAGTGGACTAATCTGACCAAAATGATTATAG-TTAGGCCATAAACA


Statistics
Matches: 252,  Mismatches: 17, Indels: 11
        0.90            0.06        0.04

Matches are distributed among these distances:
 148   27  0.11
 149   14  0.06
 150   15  0.06
 151   59  0.23
 152    3  0.01
 153   62  0.25
 154   29  0.12
 155   30  0.12
 156   13  0.05

ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21


Consensus pattern (153 bp):   
GAAGACAATTCAAAACGTCACTAAAGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGCG
CTAAAACATTACAGTGGACTAATCTGACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGA
AAAGCATTGAGGGTTGCCAAATC

Done.