Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013434.1 Corchorus capsularis cultivar CVL-1 contig13455, 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: 9019
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30


Found at i:3137 original size:6 final size:6

Alignment explanation


    Indices: 3126--3157  Score: 64
    Period size: 6  Copynumber: 5.3  Consensus size: 6

       3116 AAAGCAAAGC

                                                 
       3126 AATCTA AATCTA AATCTA AATCTA AATCTA AA
          1 AATCTA AATCTA AATCTA AATCTA AATCTA AA

       3158 GCAGATTAAT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   26  1.00

ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31


Consensus pattern (6 bp):   
AATCTA

Found at i:4107 original size:10 final size:10

Alignment explanation


    Indices: 4092--4116  Score: 50
    Period size: 10  Copynumber: 2.5  Consensus size: 10

       4082 GAGGACTCTA

                      
       4092 GAATTTTCTG
          1 GAATTTTCTG

                      
       4102 GAATTTTCTG
          1 GAATTTTCTG

                 
       4112 GAATT
          1 GAATT

       4117 GTGCAGGAAC


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   15  1.00

ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48


Consensus pattern (10 bp):   
GAATTTTCTG

Found at i:7920 original size:102 final size:102

Alignment explanation


    Indices: 7790--7994  Score: 410
    Period size: 102  Copynumber: 2.0  Consensus size: 102

       7780 TCATCTCCAT

                                                                             
       7790 AGCTTCTTTGATTTGTTGTAACTCAATGGCTTATGAAGTTTGAAAATTAGGTCTTTGAAAATTCG
          1 AGCTTCTTTGATTTGTTGTAACTCAATGGCTTATGAAGTTTGAAAATTAGGTCTTTGAAAATTCG

                                                 
       7855 GCCTTCCTTGAAAATTACCTTGGTTCCCATATTGTTG
         66 GCCTTCCTTGAAAATTACCTTGGTTCCCATATTGTTG

                                                                             
       7892 AGCTTCTTTGATTTGTTGTAACTCAATGGCTTATGAAGTTTGAAAATTAGGTCTTTGAAAATTCG
          1 AGCTTCTTTGATTTGTTGTAACTCAATGGCTTATGAAGTTTGAAAATTAGGTCTTTGAAAATTCG

                                                 
       7957 GCCTTCCTTGAAAATTACCTTGGTTCCCATATTGTTG
         66 GCCTTCCTTGAAAATTACCTTGGTTCCCATATTGTTG

             
       7994 A
          1 A

       7995 CTCGGTTGAT


Statistics
Matches: 103,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
 102  103  1.00

ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41


Consensus pattern (102 bp):   
AGCTTCTTTGATTTGTTGTAACTCAATGGCTTATGAAGTTTGAAAATTAGGTCTTTGAAAATTCG
GCCTTCCTTGAAAATTACCTTGGTTCCCATATTGTTG

Done.