Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001248.1 Corchorus capsularis cultivar CVL-1 contig01248, 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, 1000

Length: 10311
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37


Found at i:950 original size:18 final size:19

Alignment explanation


    Indices: 927--963  Score: 58
    Period size: 20  Copynumber: 1.9  Consensus size: 19

        917 TTCGGGCAGC

                               
        927 AGCAGAAT-GATGAGGTAT
          1 AGCAGAATAGATGAGGTAT

                               
        945 AGCAGAATAGGATGAGGTA
          1 AGCAGAATA-GATGAGGTA

        964 GTGCTGTAGC


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  18    8  0.47
  20    9  0.53

ACGTcount: A:0.41, C:0.05, G:0.35, T:0.19


Consensus pattern (19 bp):   
AGCAGAATAGATGAGGTAT

Found at i:2650 original size:148 final size:148

Alignment explanation


    Indices: 2382--2665  Score: 471
    Period size: 148  Copynumber: 1.9  Consensus size: 148

       2372 ATTACGCGTC

                                                                             
       2382 ATGTTTCTATAGATTTGGAAAATGCATATAAAGACCTTATACAAAGTCAGTTGCAGGGCATGATT
          1 ATGTTTCTATAGATTTGGAAAATGCATATAAAGACCTTATACAAAGTCAGTTGCAGGGCATGATT

                                               *                             
       2447 ACAGCATTTAAGATTTTACTTAAGTTTAATTCTAAGGACTGATGTGAATTAGTGCTTCTGTACTT
         66 ACAGCATTTAAGATTTTACTTAAGTTTAATTCTAACGACTGATGTGAATTAGTGCTTCTGTACTT

                              
       2512 ACCACCTAAAAAATTACA
        131 ACCACCTAAAAAATTACA

                    *  *                              *           *          
       2530 ATGTTTCTCTATATTTGGAAAATGCATATAATA-ACCTTATATAAAGTCAGTTGTAGGGCATGAT
          1 ATGTTTCTATAGATTTGGAAAATGCATATAA-AGACCTTATACAAAGTCAGTTGCAGGGCATGAT

                                         *                *               *  
       2594 TACAGCATTTAAGATTTTACTTAAGTTTAGTTCTAACGACTGATGTTAATTAGTGCTTCTGTGCT
         65 TACAGCATTTAAGATTTTACTTAAGTTTAATTCTAACGACTGATGTGAATTAGTGCTTCTGTACT

             *     
       2659 TGCCACC
        130 TACCACC

       2666 CAAATACTTA


Statistics
Matches: 126,  Mismatches: 9, Indels: 2
        0.92            0.07        0.01

Matches are distributed among these distances:
 148  125  0.99
 149    1  0.01

ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37


Consensus pattern (148 bp):   
ATGTTTCTATAGATTTGGAAAATGCATATAAAGACCTTATACAAAGTCAGTTGCAGGGCATGATT
ACAGCATTTAAGATTTTACTTAAGTTTAATTCTAACGACTGATGTGAATTAGTGCTTCTGTACTT
ACCACCTAAAAAATTACA
Done.