Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007336.1 Corchorus capsularis cultivar CVL-1 contig07357, 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: 2527
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34


Found at i:281 original size:10 final size:10

Alignment explanation


    Indices: 266--291  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

        256 AGTTGCTGAC

                      
        266 AAATTCCAGA
          1 AAATTCCAGA

                      
        276 AAATTCCAGA
          1 AAATTCCAGA

                  
        286 AAATTC
          1 AAATTC

        292 TAGAGTCCTC


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23


Consensus pattern (10 bp):   
AAATTCCAGA

Found at i:1231 original size:6 final size:6

Alignment explanation


    Indices: 1220--1255  Score: 72
    Period size: 6  Copynumber: 6.0  Consensus size: 6

       1210 ATTAATTTGC

                                                     
       1220 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA
          1 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA

       1256 ATTGCTTTGC


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   30  1.00

ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50


Consensus pattern (6 bp):   
TTTAGA

Found at i:1554 original size:13 final size:14

Alignment explanation


    Indices: 1536--1565  Score: 53
    Period size: 14  Copynumber: 2.2  Consensus size: 14

       1526 TATCCAAAAA

                          
       1536 TTTG-TTTTCCGTT
          1 TTTGTTTTTCCGTT

                          
       1549 TTTGTTTTTCCGTT
          1 TTTGTTTTTCCGTT

               
       1563 TTT
          1 TTT

       1566 TCTAAAAAAA


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  13    4  0.25
  14   12  0.75

ACGTcount: A:0.00, C:0.13, G:0.13, T:0.73


Consensus pattern (14 bp):   
TTTGTTTTTCCGTT

Done.