Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022606.1 Corchorus olitorius cultivar O-4 contig22639, 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: 5964
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35


Found at i:2551 original size:81 final size:82

Alignment explanation


    Indices: 2396--2559  Score: 287
    Period size: 81  Copynumber: 2.0  Consensus size: 82

       2386 TCCTCGTAGC

                                                                             
       2396 ACCAATTCGTTACCCACCATAAAATAGAAAGTCTTTTTTTTTTCTGGCAACCCATAAAATAAAAA
          1 ACCAATTCGTTACCCACCATAAAATAGAAAGTC-TTTTTTTTTCTGGCAACCCATAAAATAAAAA

                              
       2461 GTCTAAAGGCATTGTTTT
         65 GTCTAAAGGCATTGTTTT

                                                                         *   
       2479 ACCAA-TCTGTTACCCACCATAAAATAGAAAGTC-TTTTTTTTCTGGCAACCCATAAAATAGAAA
          1 ACCAATTC-GTTACCCACCATAAAATAGAAAGTCTTTTTTTTTCTGGCAACCCATAAAATAAAAA

                              
       2542 GTCTAAAGGCATTGTTTT
         65 GTCTAAAGGCATTGTTTT

       2560 CTACAAATAA


Statistics
Matches: 79,  Mismatches: 1, Indels: 4
        0.94            0.01        0.05

Matches are distributed among these distances:
  81   47  0.59
  82    2  0.03
  83   30  0.38

ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33


Consensus pattern (82 bp):   
ACCAATTCGTTACCCACCATAAAATAGAAAGTCTTTTTTTTTCTGGCAACCCATAAAATAAAAAG
TCTAAAGGCATTGTTTT

Found at i:3072 original size:2 final size:2

Alignment explanation


    Indices: 3067--3098  Score: 55
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       3057 ACACATTTAA

                                       *                   
       3067 AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       3099 CCCATGATAA


Statistics
Matches: 28,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   2   28  1.00

ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.