Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006788.1 Corchorus olitorius cultivar O-4 contig06813, 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, 665

Length: 1109
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37


Found at i:230 original size:115 final size:116

Alignment explanation


    Indices: 83--310  Score: 307
    Period size: 116  Copynumber: 2.0  Consensus size: 116

         73 ATAACATTAG

                          *                                           *      
         83 TAAACTTTCATCAATGGTGAAGATTTTCCA-TTTTTTTCCTCAAAAGTTACCGAAAAAGCTATAA
          1 TAAACTTTCATCAACGGTGAAGATTTTCCATTTTTTTTCCTCAAAAGTTACCGAAAAACCTATAA

                  *      *    **               *               
        147 TAATCATAAAAAATGTATTGTACTATCAACTAATTTAATAACCTTACACAA
         66 TAATCACAAAAAAGGTATAATACTATCAACTAATTCAATAACCTTACACAA

                                 *                 *            *            
        198 TAAACTTTCATCAACGGTGAATATTTGT-CATTTTTTTTTCTCAAAAGTTACTGAAAAACCTATA
          1 TAAACTTTCATCAACGGTGAAGATTT-TCCATTTTTTTTCCTCAAAAGTTACCGAAAAACCTATA

              *        **               *                    
        262 ATGATCACAAATGAGGTATAATACTATCCACTAATTCAATAACCTTACA
         65 ATAATCACAAAAAAGGTATAATACTATCAACTAATTCAATAACCTTACA

        311 TCTTTTGTGA


Statistics
Matches: 97,  Mismatches: 14, Indels: 3
        0.85            0.12        0.03

Matches are distributed among these distances:
 115   26  0.27
 116   71  0.73

ACGTcount: A:0.39, C:0.17, G:0.08, T:0.35


Consensus pattern (116 bp):   
TAAACTTTCATCAACGGTGAAGATTTTCCATTTTTTTTCCTCAAAAGTTACCGAAAAACCTATAA
TAATCACAAAAAAGGTATAATACTATCAACTAATTCAATAACCTTACACAA

Found at i:353 original size:36 final size:36

Alignment explanation


    Indices: 306--375  Score: 113
    Period size: 36  Copynumber: 1.9  Consensus size: 36

        296 TTCAATAACC

                         *      *               
        306 TTACATCTTTTGTGATTTTGGTTATCATATTTCTTA
          1 TTACATCTTTTGTAATTTTGATTATCATATTTCTTA

                  *                           
        342 TTACATTTTTTGTAATTTTGATTATCATATTTCT
          1 TTACATCTTTTGTAATTTTGATTATCATATTTCT

        376 CCAAAATCTC


Statistics
Matches: 31,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  36   31  1.00

ACGTcount: A:0.21, C:0.10, G:0.09, T:0.60


Consensus pattern (36 bp):   
TTACATCTTTTGTAATTTTGATTATCATATTTCTTA
Done.