Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014169.1 Corchorus capsularis cultivar CVL-1 contig14190, 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: 8472
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34


Found at i:7054 original size:30 final size:30

Alignment explanation


    Indices: 7019--7076  Score: 91
    Period size: 30  Copynumber: 1.9  Consensus size: 30

       7009 CGTGTTTGGC

                                           
       7019 TTATCGTGTCTCGTGTC-TGAATCGTGTCCG
          1 TTATCGTGTCTCGTGTCGT-AATCGTGTCCG

                     *                  
       7049 TTATCGTGTTTCGTGTCGTAATCGTGTC
          1 TTATCGTGTCTCGTGTCGTAATCGTGTC

       7077 AAGGCACGAT


Statistics
Matches: 26,  Mismatches: 1, Indels: 2
        0.90            0.03        0.07

Matches are distributed among these distances:
  30   25  0.96
  31    1  0.04

ACGTcount: A:0.10, C:0.21, G:0.26, T:0.43


Consensus pattern (30 bp):   
TTATCGTGTCTCGTGTCGTAATCGTGTCCG

Found at i:7074 original size:18 final size:19

Alignment explanation


    Indices: 7040--7075  Score: 56
    Period size: 18  Copynumber: 1.9  Consensus size: 19

       7030 CGTGTCTGAA

                      *        
       7040 TCGTGTCCGTTATCGTGTT
          1 TCGTGTCCGTAATCGTGTT

                              
       7059 TCGTGT-CGTAATCGTGT
          1 TCGTGTCCGTAATCGTGT

       7076 CAAGGCACGA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18   10  0.62
  19    6  0.38

ACGTcount: A:0.08, C:0.19, G:0.28, T:0.44


Consensus pattern (19 bp):   
TCGTGTCCGTAATCGTGTT

Found at i:8096 original size:62 final size:63

Alignment explanation


    Indices: 8021--8150  Score: 190
    Period size: 65  Copynumber: 2.0  Consensus size: 63

       8011 TATATACTAG

                                           *                *              
       8021 TTTTAACTTTCACGT-ATGCACGTGGCCCAATATTTTTCAATTAAATAGTATTTTTAAAAAAT
          1 TTTTAACTTTCACGTGATGCACGTGGCCCAACATTTTTCAATTAAATAATATTTTTAAAAAAT

                              *                          *            *      
       8083 TTTTAACTTTCACGTGCGTTGCACGTGGCCCAACATTTTTCAATTGAATAATATTTTTTAAAAAT
          1 TTTTAACTTTCACGT--GATGCACGTGGCCCAACATTTTTCAATTAAATAATATTTTTAAAAAAT

               
       8148 TTT
          1 TTT

       8151 GATAATTACC


Statistics
Matches: 60,  Mismatches: 5, Indels: 3
        0.88            0.07        0.04

Matches are distributed among these distances:
  62   15  0.25
  65   45  0.75

ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43


Consensus pattern (63 bp):   
TTTTAACTTTCACGTGATGCACGTGGCCCAACATTTTTCAATTAAATAATATTTTTAAAAAAT

Done.