Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015925.1 Corchorus olitorius cultivar O-4 contig15958, 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: 8586
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31


Found at i:7163 original size:40 final size:40

Alignment explanation


    Indices: 7089--7177  Score: 110
    Period size: 40  Copynumber: 2.2  Consensus size: 40

       7079 TTGTTATCTA

                             *      *    **          
       7089 TGCT-AAAAATAATGGTTAAACTCTGCAAGTTGTTCT-TAG
          1 TGCTAAAAAATAATGGTAAAACTCGGCAACCTGTTCTAT-G

                                 *                  
       7128 TGCTAAAAAATAATGGTAAAATTCGGCAACCTGTTCTATG
          1 TGCTAAAAAATAATGGTAAAACTCGGCAACCTGTTCTATG

                      
       7168 TGCTAAAAAA
          1 TGCTAAAAAA

       7178 GAATCTTAAT


Statistics
Matches: 43,  Mismatches: 5, Indels: 3
        0.84            0.10        0.06

Matches are distributed among these distances:
  39    4  0.09
  40   38  0.88
  41    1  0.02

ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31


Consensus pattern (40 bp):   
TGCTAAAAAATAATGGTAAAACTCGGCAACCTGTTCTATG

Found at i:8540 original size:2 final size:2

Alignment explanation


    Indices: 8533--8579  Score: 94
    Period size: 2  Copynumber: 23.5  Consensus size: 2

       8523 AGGAAAAGGA

                                                                          
       8533 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

                   
       8575 AT AT A
          1 AT AT A

       8580 CTAACTA


Statistics
Matches: 45,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   45  1.00

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
AT

Done.