Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008491.1 Corchorus capsularis cultivar CVL-1 contig08512, 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: 9425
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29


Found at i:1575 original size:13 final size:13

Alignment explanation


    Indices: 1551--1586  Score: 65
    Period size: 13  Copynumber: 2.8  Consensus size: 13

       1541 CTGAAAAACT

                         
       1551 GTCTAC-ACTACA
          1 GTCTACAACTACA

                         
       1563 GTCTACAACTACA
          1 GTCTACAACTACA

                       
       1576 GTCTACAACTA
          1 GTCTACAACTA

       1587 AAGTACCTGG


Statistics
Matches: 23,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  12    6  0.26
  13   17  0.74

ACGTcount: A:0.36, C:0.31, G:0.08, T:0.25


Consensus pattern (13 bp):   
GTCTACAACTACA

Found at i:9311 original size:2 final size:2

Alignment explanation


    Indices: 9304--9389  Score: 163
    Period size: 2  Copynumber: 43.0  Consensus size: 2

       9294 CATGATGGGG

                        *                                                 
       9304 GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
          1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA

                                                                          
       9346 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
          1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA

              
       9388 GA
          1 GA

       9390 CGACGACGAA


Statistics
Matches: 82,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
   2   82  1.00

ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00


Consensus pattern (2 bp):   
GA

Found at i:9402 original size:4 final size:4

Alignment explanation


    Indices: 9395--9425  Score: 62
    Period size: 4  Copynumber: 7.8  Consensus size: 4

       9385 AGAGACGACG

                                                  
       9395 ACGA ACGA ACGA ACGA ACGA ACGA ACGA ACG
          1 ACGA ACGA ACGA ACGA ACGA ACGA ACGA ACG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   4   27  1.00

ACGTcount: A:0.48, C:0.26, G:0.26, T:0.00


Consensus pattern (4 bp):   
ACGA

Done.