Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007626.1 Corchorus capsularis cultivar CVL-1 contig07647, 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: 6384
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32


Found at i:1340 original size:2 final size:2

Alignment explanation


    Indices: 1333--1373  Score: 73
    Period size: 2  Copynumber: 20.5  Consensus size: 2

       1323 CATTAGCTAG

                                     *                                   
       1333 TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       1374 GTATGGTAGT


Statistics
Matches: 37,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
   2   37  1.00

ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54


Consensus pattern (2 bp):   
TA

Found at i:1464 original size:17 final size:17

Alignment explanation


    Indices: 1442--1476  Score: 70
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       1432 TCCGAGCTGT

                             
       1442 TGCTCAATTGATGAAAC
          1 TGCTCAATTGATGAAAC

                             
       1459 TGCTCAATTGATGAAAC
          1 TGCTCAATTGATGAAAC

             
       1476 T
          1 T

       1477 AACATTCGAC


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  17   18  1.00

ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31


Consensus pattern (17 bp):   
TGCTCAATTGATGAAAC

Found at i:3268 original size:17 final size:17

Alignment explanation


    Indices: 3246--3290  Score: 90
    Period size: 17  Copynumber: 2.6  Consensus size: 17

       3236 TTTGACCCCT

                             
       3246 GCAACATAAGATAAACG
          1 GCAACATAAGATAAACG

                             
       3263 GCAACATAAGATAAACG
          1 GCAACATAAGATAAACG

                       
       3280 GCAACATAAGA
          1 GCAACATAAGA

       3291 CCAGGAAACT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  17   28  1.00

ACGTcount: A:0.53, C:0.18, G:0.18, T:0.11


Consensus pattern (17 bp):   
GCAACATAAGATAAACG
Done.