Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015350.1 Corchorus capsularis cultivar CVL-1 contig15371, 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: 5285
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32


Found at i:2455 original size:6 final size:6

Alignment explanation


    Indices: 2444--2470  Score: 54
    Period size: 6  Copynumber: 4.5  Consensus size: 6

       2434 AAAGCAAAAC

                                           
       2444 AAATCT AAATCT AAATCT AAATCT AAA
          1 AAATCT AAATCT AAATCT AAATCT AAA

       2471 GCAAAATATT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   21  1.00

ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30


Consensus pattern (6 bp):   
AAATCT

Found at i:2477 original size:18 final size:17

Alignment explanation


    Indices: 2429--2477  Score: 57
    Period size: 18  Copynumber: 2.9  Consensus size: 17

       2419 ATTAAACTAA

                             
       2429 AAATC-AAAGCAAAA-C
          1 AAATCTAAAGCAAAATC

                     * *     
       2444 AAATCTAAATCTAAATC
          1 AAATCTAAAGCAAAATC

                             
       2461 TAAATCTAAAGCAAAAT
          1 -AAATCTAAAGCAAAAT

       2478 ATTAAAGCAA


Statistics
Matches: 27,  Mismatches: 4, Indels: 3
        0.79            0.12        0.09

Matches are distributed among these distances:
  15    5  0.19
  16    7  0.26
  17    1  0.04
  18   14  0.52

ACGTcount: A:0.59, C:0.16, G:0.04, T:0.20


Consensus pattern (17 bp):   
AAATCTAAAGCAAAATC

Found at i:3404 original size:10 final size:10

Alignment explanation


    Indices: 3389--3413  Score: 50
    Period size: 10  Copynumber: 2.5  Consensus size: 10

       3379 GAGGACTCTA

                      
       3389 GAATTTTCTG
          1 GAATTTTCTG

                      
       3399 GAATTTTCTG
          1 GAATTTTCTG

                 
       3409 GAATT
          1 GAATT

       3414 GTGCAGAAAC


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
Done.