Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007525.1 Corchorus olitorius cultivar O-4 contig07550, 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: 3790
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.36


Found at i:279 original size:16 final size:16

Alignment explanation


    Indices: 260--307  Score: 50
    Period size: 16  Copynumber: 3.2  Consensus size: 16

        250 GAGACTTTTT

                            
        260 TAATTATAATATAAAC
          1 TAATTATAATATAAAC

                      *      
        276 TAATT-TGAACA-AAA-
          1 TAATTAT-AATATAAAC

                            
        290 -AATTATAATATAAAC
          1 TAATTATAATATAAAC

               
        305 TAA
          1 TAA

        308 CAAAAACCTT


Statistics
Matches: 25,  Mismatches: 2, Indels: 10
        0.68            0.05        0.27

Matches are distributed among these distances:
  13    7  0.28
  14    4  0.16
  15    4  0.16
  16   10  0.40

ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33


Consensus pattern (16 bp):   
TAATTATAATATAAAC

Found at i:945 original size:21 final size:22

Alignment explanation


    Indices: 921--961  Score: 57
    Period size: 21  Copynumber: 1.9  Consensus size: 22

        911 GTTTATAATA

                *                 
        921 TTCTTGGGTCA-TCGGGTTATC
          1 TTCTCGGGTCATTCGGGTTATC

                     *          
        942 TTCTCGGGTTATTCGGGTTA
          1 TTCTCGGGTCATTCGGGTTA

        962 CGAGTTTGTC


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  21    9  0.53
  22    8  0.47

ACGTcount: A:0.10, C:0.17, G:0.29, T:0.44


Consensus pattern (22 bp):   
TTCTCGGGTCATTCGGGTTATC
Done.