Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01003596.1 Corchorus olitorius cultivar O-4 contig03604, 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, 790

Length: 1317
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35


Found at i:1029 original size:33 final size:33

Alignment explanation


    Indices: 992--1061  Score: 131
    Period size: 33  Copynumber: 2.1  Consensus size: 33

        982 ATTACCAGAA

                                             
        992 TTAAACTAACCTTTTCTCCTTTTACTATTTGCT
          1 TTAAACTAACCTTTTCTCCTTTTACTATTTGCT

                                           * 
       1025 TTAAACTAACCTTTTCTCCTTTTACTATTTGGT
          1 TTAAACTAACCTTTTCTCCTTTTACTATTTGCT

                
       1058 TTAA
          1 TTAA

       1062 TTACCCAGAA


Statistics
Matches: 36,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  33   36  1.00

ACGTcount: A:0.23, C:0.21, G:0.04, T:0.51


Consensus pattern (33 bp):   
TTAAACTAACCTTTTCTCCTTTTACTATTTGCT

Found at i:1094 original size:47 final size:47

Alignment explanation


    Indices: 1038--1317  Score: 415
    Period size: 47  Copynumber: 6.0  Consensus size: 47

       1028 AACTAACCTT

                *            *                             
       1038 TTCTCCTTTTACTATTTGGTTTAATTACCCAGAATTAAACTAATTGC
          1 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTGC

                                                           
       1085 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTGC
          1 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTGC

                                               *           
       1132 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATCAAACTAATTGC
          1 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTGC

                               *      *              *      
       1179 TTCTTCTTTTACTATTTAGCTTAATTGCCCAGAATTAAACTGATAT-C
          1 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAAT-TGC

                              *       *              *      
       1226 TTCTTCTTTTACTATTTAATTTAATTGCCCAGAATTAAACTGATCT-C
          1 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAAT-TGC

                                                           
       1273 TTCTTCTTTTACT-TTTCAGTTTAATTA-CCATGAATTAAACTAATT
          1 TTCTTCTTTTACTATTT-AGTTTAATTACCCA-GAATTAAACTAATT


Statistics
Matches: 217,  Mismatches: 13, Indels: 7
        0.92            0.05        0.03

Matches are distributed among these distances:
  46    7  0.03
  47  209  0.96
  48    1  0.00

ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46


Consensus pattern (47 bp):   
TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTGC

Done.