Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007814.1 Corchorus olitorius cultivar O-4 contig07841, 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, 894

Length: 1491
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32


Found at i:404 original size:58 final size:58

Alignment explanation


    Indices: 342--516  Score: 314
    Period size: 58  Copynumber: 3.0  Consensus size: 58

        332 TGAAATAAAC

                  *                                                   
        342 TTTTTTTATGGTTTTTTCACTTTTCACAGCAGCTCTTTCCACACCTCCGGATATCTGG
          1 TTTTTTGATGGTTTTTTCACTTTTCACAGCAGCTCTTTCCACACCTCCGGATATCTGG

                                       *                  *           
        400 TTTTTTGATGGTTTTTTCACTTTTCACGGCAGCTCTTTCCACACCTTCGGATATCTGG
          1 TTTTTTGATGGTTTTTTCACTTTTCACAGCAGCTCTTTCCACACCTCCGGATATCTGG

                                                            *         
        458 TTTTTTGATGGTTTTTTCACTTTTCACAGCAGCTCTTTCCACACCTCCAGATATCTGG
          1 TTTTTTGATGGTTTTTTCACTTTTCACAGCAGCTCTTTCCACACCTCCGGATATCTGG

             
        516 T
          1 T

        517 GCCAAATCGT


Statistics
Matches: 111,  Mismatches: 6, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  58  111  1.00

ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45


Consensus pattern (58 bp):   
TTTTTTGATGGTTTTTTCACTTTTCACAGCAGCTCTTTCCACACCTCCGGATATCTGG

Found at i:1309 original size:35 final size:35

Alignment explanation


    Indices: 1268--1367  Score: 141
    Period size: 35  Copynumber: 2.9  Consensus size: 35

       1258 AAGGCAAAAC

                                    *  **        
       1268 TCTTCTCCATCAAGCAAAGCAA-ATCTGCAGCAAAGT
          1 TCTTCTCCATCAA-CAAAGCAACAAC-AAAGCAAAGT

                                               
       1304 T-TTCTCCATCAACAAAGCAACAACAAAGCAAAGT
          1 TCTTCTCCATCAACAAAGCAACAACAAAGCAAAGT

                                          
       1338 TCTTCTCCATCAACAAAGCAACAACAAAGC
          1 TCTTCTCCATCAACAAAGCAACAACAAAGC

       1368 CTACGAAAGT


Statistics
Matches: 59,  Mismatches: 3, Indels: 5
        0.88            0.04        0.07

Matches are distributed among these distances:
  34   17  0.29
  35   41  0.69
  36    1  0.02

ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19


Consensus pattern (35 bp):   
TCTTCTCCATCAACAAAGCAACAACAAAGCAAAGT

Done.