Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007970.1 Corchorus olitorius cultivar O-4 contig07997, 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, 735

Length: 1226
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28


Found at i:1110 original size:33 final size:33

Alignment explanation


    Indices: 1073--1226  Score: 161
    Period size: 33  Copynumber: 4.7  Consensus size: 33

       1063 AGAATTTGTT

                                             *
       1073 TCATCACAAACAACAC-CTAAAACAGATTTAGTG
          1 TCATCACAAACAACACTC-AAAACAGATTTAGTA

                                 **  *    *  
       1106 TCATCACAAACAACACTCAAATTAGTTTTAATA
          1 TCATCACAAACAACACTCAAAACAGATTTAGTA

                                              *
       1139 TCATCA-ATAACAACA-TCTAAAACAGATTTAGTG
          1 TCATCACA-AACAACACTC-AAAACAGATTTAGTA

                 *               **  *       
       1172 TCATCGCAAACAACACTCAAATTAGGTTTAGTA
          1 TCATCACAAACAACACTCAAAACAGATTTAGTA

                   *              
       1205 TCATCACTAACAACACTCAAAA
          1 TCATCACAAACAACACTCAAAA


Statistics
Matches: 98,  Mismatches: 18, Indels: 10
        0.78            0.14        0.08

Matches are distributed among these distances:
  32    3  0.03
  33   91  0.93
  34    4  0.04

ACGTcount: A:0.45, C:0.23, G:0.07, T:0.25


Consensus pattern (33 bp):   
TCATCACAAACAACACTCAAAACAGATTTAGTA

Found at i:1111 original size:66 final size:66

Alignment explanation


    Indices: 1073--1220  Score: 208
    Period size: 66  Copynumber: 2.2  Consensus size: 66

       1063 AGAATTTGTT

                                                                   *   *     
       1073 TCATCACA-AACAACACCTAAAACAGATTTAGTGTCATCACAAACAACACTCAAATTAGTTTTAA
          1 TCATCA-ATAACAACACCTAAAACAGATTTAGTGTCATCACAAACAACACTCAAAATAGATTTAA

              
       1137 TA
         65 TA

                           *                      *               *   *    * 
       1139 TCATCAATAACAACATCTAAAACAGATTTAGTGTCATCGCAAACAACACTCAAATTAGGTTTAGT
          1 TCATCAATAACAACACCTAAAACAGATTTAGTGTCATCACAAACAACACTCAAAATAGATTTAAT

             
       1204 A
         66 A

                  *         
       1205 TCATCACTAACAACAC
          1 TCATCAATAACAACAC

       1221 TCAAAA


Statistics
Matches: 75,  Mismatches: 6, Indels: 2
        0.90            0.07        0.02

Matches are distributed among these distances:
  65    1  0.01
  66   74  0.99

ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26


Consensus pattern (66 bp):   
TCATCAATAACAACACCTAAAACAGATTTAGTGTCATCACAAACAACACTCAAAATAGATTTAAT
A
Done.