Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020905.1 Corchorus olitorius cultivar O-4 contig20938, 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: 8621
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31


Found at i:5288 original size:13 final size:13

Alignment explanation


    Indices: 5270--5294  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

       5260 AACATACTTA

                         
       5270 AAAACACTTTTGG
          1 AAAACACTTTTGG

                        
       5283 AAAACACTTTTG
          1 AAAACACTTTTG

       5295 ATTTTTTTTT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32


Consensus pattern (13 bp):   
AAAACACTTTTGG

Found at i:7278 original size:30 final size:30

Alignment explanation


    Indices: 7243--7331  Score: 115
    Period size: 32  Copynumber: 2.9  Consensus size: 30

       7233 TTTATTAATG

                            *      *      
       7243 TCCAAAATCTTCTTTTTGATTTCTTTATTT
          1 TCCAAAATCTTCTTTTGGATTTCCTTATTT

                      *            *        
       7273 TCCAAAATCTCCTTTTGGGGATTACCTTATTT
          1 TCCAAAATCTTCTTTT--GGATTTCCTTATTT

                                  *    
       7305 TCCAAAATCTTCTTTTGGATTTGCTTA
          1 TCCAAAATCTTCTTTTGGATTTCCTTA

       7332 AGAAAAGGTT


Statistics
Matches: 50,  Mismatches: 7, Indels: 4
        0.82            0.11        0.07

Matches are distributed among these distances:
  30   24  0.48
  32   26  0.52

ACGTcount: A:0.21, C:0.19, G:0.09, T:0.51


Consensus pattern (30 bp):   
TCCAAAATCTTCTTTTGGATTTCCTTATTT
Done.