Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001321.1 Corchorus olitorius cultivar O-4 contig01321, 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, 838

Length: 1397
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34


Found at i:1126 original size:31 final size:31

Alignment explanation


    Indices: 1091--1190  Score: 119
    Period size: 31  Copynumber: 3.2  Consensus size: 31

       1081 ACACGTGGCA

                            *         *  * 
       1091 ACATGTCACTTTTTGAAACACATGGCATGCC
          1 ACATGTCACTTTTTGATACACATGGCGTGAC

                         * *              *
       1122 ACATGTCACTTTTGGGTACACATGGCGTGAT
          1 ACATGTCACTTTTTGATACACATGGCGTGAC

                           *     *       * 
       1153 ACATGTCACTTTTTGTTACACGTGGCGTGTC
          1 ACATGTCACTTTTTGATACACATGGCGTGAC

                   
       1184 ACATGTC
          1 ACATGTC

       1191 TTTGGTACAC


Statistics
Matches: 58,  Mismatches: 11, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  31   58  1.00

ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33


Consensus pattern (31 bp):   
ACATGTCACTTTTTGATACACATGGCGTGAC

Found at i:1163 original size:62 final size:58

Alignment explanation


    Indices: 1091--1205  Score: 149
    Period size: 62  Copynumber: 1.9  Consensus size: 58

       1081 ACACGTGGCA

                                                                          
       1091 ACATGTCACTTTTTGAAACACATGGCATGCCACATGTCACTTTTGGGTACACATGGCGTGAT
          1 ACATGTCACTTTTTGAAACACATGGCATGCCACATGT--C-TTT-GGTACACATGGCGTGAT

                           **    *    *  *                       
       1153 ACATGTCACTTTTTGTTACACGTGGCGTGTCACATGTCTTTGGTACACATGGC
          1 ACATGTCACTTTTTGAAACACATGGCATGCCACATGTCTTTGGTACACATGGC

       1206 ATGCCACGTC


Statistics
Matches: 48,  Mismatches: 5, Indels: 4
        0.84            0.09        0.07

Matches are distributed among these distances:
  58   12  0.25
  59    3  0.06
  60    1  0.02
  62   32  0.67

ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33


Consensus pattern (58 bp):   
ACATGTCACTTTTTGAAACACATGGCATGCCACATGTCTTTGGTACACATGGCGTGAT

Found at i:1377 original size:2 final size:2

Alignment explanation


    Indices: 1370--1397  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

       1360 TTTATGCCGT

                                                     
       1370 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Done.