Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014193.1 Corchorus capsularis cultivar CVL-1 contig14214, 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: 9121
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30


Found at i:3371 original size:28 final size:29

Alignment explanation


    Indices: 3336--3401  Score: 100
    Period size: 28  Copynumber: 2.3  Consensus size: 29

       3326 TTGAAACCCT

                                         
       3336 AGGGTTGTCGCACACCTCTATAGCTAGAG
          1 AGGGTTGTCGCACACCTCTATAGCTAGAG

                         *       *       
       3365 -GGGTTGTCGCACCCCTCTATGGCTAGAG
          1 AGGGTTGTCGCACACCTCTATAGCTAGAG

                      
       3393 AGGG-TGTCG
          1 AGGGTTGTCG

       3402 ACTTCCCCCT


Statistics
Matches: 34,  Mismatches: 2, Indels: 3
        0.87            0.05        0.08

Matches are distributed among these distances:
  28   31  0.91
  29    3  0.09

ACGTcount: A:0.18, C:0.24, G:0.33, T:0.24


Consensus pattern (29 bp):   
AGGGTTGTCGCACACCTCTATAGCTAGAG

Found at i:4063 original size:11 final size:10

Alignment explanation


    Indices: 4045--4078  Score: 50
    Period size: 11  Copynumber: 3.2  Consensus size: 10

       4035 AATTGTCTTC

                      
       4045 AAATCTTCAA
          1 AAATCTTCAA

                       
       4055 AATATCTTCAA
          1 AA-ATCTTCAA

                       
       4066 GAAATCTTCAA
          1 -AAATCTTCAA

              
       4077 AA
          1 AA

       4079 CACGAACTTC


Statistics
Matches: 22,  Mismatches: 0, Indels: 4
        0.85            0.00        0.15

Matches are distributed among these distances:
  10    4  0.18
  11   16  0.73
  12    2  0.09

ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29


Consensus pattern (10 bp):   
AAATCTTCAA
Done.