Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000802.1 Corchorus olitorius cultivar O-4 contig00802, 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, 691

Length: 1152
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.30


Found at i:791 original size:33 final size:33

Alignment explanation


    Indices: 594--795  Score: 212
    Period size: 33  Copynumber: 6.1  Consensus size: 33

        584 AATTAGCATC

                            *                 
        594 CAAAACAGAATTT-GTTTCATCACAAACAACAC-
          1 CAAAACAG-ATTTAGTGTCATCACAAACAACACT

                                              
        626 CTAAAACAGATTTAGTGTCATCACAAACAACACT
          1 C-AAAACAGATTTAGTGTCATCACAAACAACACT

                **  *      *       *         
        660 CAAATTAGTTTTAGTATCATCACTAACAACA-T
          1 CAAAACAGATTTAGTGTCATCACAAACAACACT

               *                  *           
        692 CTAGAACAGATTTAGTGTCATCGCAAACAACACT
          1 C-AAAACAGATTTAGTGTCATCACAAACAACACT

                **  *      *       *         
        726 CAAATTAGGTTTAGTATCATCACTAACAACACT
          1 CAAAACAGATTTAGTGTCATCACAAACAACACT

                        *       **           
        759 CAAAACAGATTTCGTGTCATTGCAAACAACACT
          1 CAAAACAGATTTAGTGTCATCACAAACAACACT

                
        792 CAAA
          1 CAAA

        796 TTAGGTTCAG


Statistics
Matches: 137,  Mismatches: 28, Indels: 9
        0.79            0.16        0.05

Matches are distributed among these distances:
  32    7  0.05
  33  127  0.93
  34    3  0.02

ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26


Consensus pattern (33 bp):   
CAAAACAGATTTAGTGTCATCACAAACAACACT

Found at i:796 original size:66 final size:67

Alignment explanation


    Indices: 610--802  Score: 311
    Period size: 66  Copynumber: 2.9  Consensus size: 67

        600 AGAATTTGTT

                   *                               *                   *     
        610 TCATCACAAACAACAC-CTAAAACAGATTTAGTGTCATCACAAACAACACTCAAATTAGTTTTAG
          1 TCATCACTAACAACACTCTAAAACAGATTTAGTGTCATCGCAAACAACACTCAAATTAGGTTTAG

              
        674 TA
         66 TA

                                *                                            
        676 TCATCACTAACAACA-TCTAGAACAGATTTAGTGTCATCGCAAACAACACTCAAATTAGGTTTAG
          1 TCATCACTAACAACACTCTAAAACAGATTTAGTGTCATCGCAAACAACACTCAAATTAGGTTTAG

              
        740 TA
         66 TA

                                          *       *                       
        742 TCATCACTAACAACACTC-AAAACAGATTTCGTGTCATTGCAAACAACACTCAAATTAGGTT
          1 TCATCACTAACAACACTCTAAAACAGATTTAGTGTCATCGCAAACAACACTCAAATTAGGTT

        803 CAGAATTACT


Statistics
Matches: 118,  Mismatches: 7, Indels: 4
        0.91            0.05        0.03

Matches are distributed among these distances:
  66  116  0.98
  67    2  0.02

ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26


Consensus pattern (67 bp):   
TCATCACTAACAACACTCTAAAACAGATTTAGTGTCATCGCAAACAACACTCAAATTAGGTTTAG
TA
Done.