Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000360.1 Corchorus olitorius cultivar O-4 contig00360, 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, 770

Length: 1284
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29


Found at i:1019 original size:33 final size:34

Alignment explanation


    Indices: 949--1088  Score: 121
    Period size: 33  Copynumber: 4.2  Consensus size: 34

        939 ATGATCAACC

                                      ** *      
        949 AAAACAGAA-TT-GTTTTCATCACAATTAGCATCC-
          1 AAAACAGAATTTAG-TTTCATCACAAACAACA-CCT

                                              
        982 AAAACAGAATTT-GTTTCATCACAAACAACACCT
          1 AAAACAGAATTTAGTTTCATCACAAACAACACCT

                           *                * 
       1015 AAAACA-AATTTAGTGTCATCACAAACAACACTT
          1 AAAACAGAATTTAGTTTCATCACAAACAACACCT

               **   *      *       *       *  
       1048 AAATTAG-GTTTAGTATCATCACTAACAACATCT
          1 AAAACAGAATTTAGTTTCATCACAAACAACACCT

                    
       1081 AAAACAGA
          1 AAAACAGA

       1089 TTTCATGTCA


Statistics
Matches: 88,  Mismatches: 14, Indels: 9
        0.79            0.13        0.08

Matches are distributed among these distances:
  32    7  0.08
  33   78  0.89
  34    3  0.03

ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26


Consensus pattern (34 bp):   
AAAACAGAATTTAGTTTCATCACAAACAACACCT

Found at i:1069 original size:66 final size:66

Alignment explanation


    Indices: 997--1123  Score: 175
    Period size: 66  Copynumber: 1.9  Consensus size: 66

        987 AGAATTTGTT

                                                               *    *        
        997 TCATCACAAACAACACCTAAAACAAATTT-AGTGTCATCACAAACAACACTTAAATTAGGTTTAG
          1 TCATCACAAACAACACCTAAAACAAATTTCA-TGTCATCACAAACAACACTCAAATCAGGTTTAG

              
       1061 TA
         65 TA

                   *       *        *            **                      
       1063 TCATCACTAACAACATCTAAAACAGATTTCATGTCATTGCAAACAACACTCAAATCAGGTT
          1 TCATCACAAACAACACCTAAAACAAATTTCATGTCATCACAAACAACACTCAAATCAGGTT

       1124 CAGAATTACT


Statistics
Matches: 53,  Mismatches: 7, Indels: 2
        0.85            0.11        0.03

Matches are distributed among these distances:
  66   52  0.98
  67    1  0.02

ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26


Consensus pattern (66 bp):   
TCATCACAAACAACACCTAAAACAAATTTCATGTCATCACAAACAACACTCAAATCAGGTTTAGT
A
Done.