Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001118.1 Corchorus olitorius cultivar O-4 contig01118, 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, 748

Length: 1248
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31


Found at i:501 original size:71 final size:70

Alignment explanation


    Indices: 380--517  Score: 168
    Period size: 71  Copynumber: 2.0  Consensus size: 70

        370 TTGGAACACT

                    * *   *            * * **           **     *     *       
        380 TGTTATTTTGGGCCTATCGGGGCCCATTATTTCCGTTTTGAATCGTCTTCGCTTTGGTAACCCTC
          1 TGTTATTTCGAGCCAATCGGGGCCCATCAGTGACGTTTTGAATCAACTTCGATTT-GCAACCCTC

                  
        445 AATACA
         65 AATACA

                                                                             
        451 TGTTATTTCGAGCCAATCGGGGCCCATCAGTGACGTTTTGAATCAACTTCGATTTGCAACCCTCA
          1 TGTTATTTCGAGCCAATCGGGGCCCATCAGTGACGTTTTGAATCAACTTCGATTTGCAACCCTCA

              
        516 AT
         66 AT

        518 GCTTTTCTTT


Statistics
Matches: 56,  Mismatches: 11, Indels: 1
        0.82            0.16        0.01

Matches are distributed among these distances:
  70   11  0.20
  71   45  0.80

ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36


Consensus pattern (70 bp):   
TGTTATTTCGAGCCAATCGGGGCCCATCAGTGACGTTTTGAATCAACTTCGATTTGCAACCCTCA
ATACA

Found at i:737 original size:152 final size:151

Alignment explanation


    Indices: 451--814  Score: 552
    Period size: 152  Copynumber: 2.4  Consensus size: 151

        441 CCTCAATACA

                          *            *                *                 *  
        451 TGTTATTTCGAGCCAATCGGGGCCCATCAGTGACGTTTTGAATCAACTTCGATTTGCAACCCTCA
          1 TGTTATTTCGAGCCTATCGGGGCCCATTAGTGACGTTTTGAATCTACTTCGATTTGCAACCCGCA

                *              *         *                              *    
        516 ATGCTTTTCTTTCCATTTTTATGGCCTAATTATAACCATTTTGGAGAGATTAGTCCACTGTGAAG
         66 ATGCCTTTCTTTCCATTTTAATGGCCTAACTATAACCATTTTGGAGAGATTAGTCCACTGGGAAG

                                  
        581 TTTTTAGCTCATTTGGAACACT
        131 TTTTTAGCTCA-TTGGAACACT

                                                                     *       
        603 TGTTATTTCGAGCCTATCGGGGCCCATTAGTGACGTTTTGAATCTACTTCGATTTGCCACCCGCA
          1 TGTTATTTCGAGCCTATCGGGGCCCATTAGTGACGTTTTGAATCTACTTCGATTTGCAACCCGCA

                                                *       ***                  
        668 ATGCCTTTCTTTCCATTGTTAATGGCCTAACTATAATCATTTTGTTTAGATTAGTCCACTGGGAA
         66 ATGCCTTTCTTTCCATT-TTAATGGCCTAACTATAACCATTTTGGAGAGATTAGTCCACTGGGAA

                                  
        733 -TTTTTAGCTCATTGGAACACT
        130 GTTTTTAGCTCATTGGAACACT

                    *      *                                              
        754 TGTTATTTTGAGCCTGTCGGGGCCCATTAGTGACGTTTTGAATCGT-CTTCGATTTGCAACC
          1 TGTTATTTCGAGCCTATCGGGGCCCATTAGTGACGTTTTGAATC-TACTTCGATTTGCAACC

        815 TGATACGAAT


Statistics
Matches: 194,  Mismatches: 16, Indels: 5
        0.90            0.07        0.02

Matches are distributed among these distances:
 151   66  0.34
 152   88  0.45
 153   40  0.21

ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38


Consensus pattern (151 bp):   
TGTTATTTCGAGCCTATCGGGGCCCATTAGTGACGTTTTGAATCTACTTCGATTTGCAACCCGCA
ATGCCTTTCTTTCCATTTTAATGGCCTAACTATAACCATTTTGGAGAGATTAGTCCACTGGGAAG
TTTTTAGCTCATTGGAACACT

Done.