Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010875.1 Corchorus olitorius cultivar O-4 contig10907, 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, 677

Length: 1129
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30


Found at i:524 original size:16 final size:17

Alignment explanation


    Indices: 498--544  Score: 78
    Period size: 16  Copynumber: 2.8  Consensus size: 17

        488 GATTGTTTGT

                             
        498 GAATCTTGTGTTCTAGA
          1 GAATCTTGTGTTCTAGA

              *              
        515 GACT-TTGTGTTCTAGA
          1 GAATCTTGTGTTCTAGA

                          
        531 GAATCTTGTGTTCT
          1 GAATCTTGTGTTCT

        545 CCAATTGCAG


Statistics
Matches: 27,  Mismatches: 2, Indels: 2
        0.87            0.06        0.06

Matches are distributed among these distances:
  16   15  0.56
  17   12  0.44

ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45


Consensus pattern (17 bp):   
GAATCTTGTGTTCTAGA

Found at i:1001 original size:154 final size:154

Alignment explanation


    Indices: 721--1128  Score: 717
    Period size: 154  Copynumber: 2.6  Consensus size: 154

        711 CGATAGGTTG

                           *                                       *         
        721 CAAATGAGCTAAAAATTTCTCAGTGGACTAATCTCACCAAAATGATTATAGTTAGACCATAAACA
          1 CAAATGAGCTAAAAACTTCTCAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA

                                                                             
        786 ATGTAAAGAAAAGCATTGAGGGTTGCCCAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCG
         66 ATGTAAAGAAAAGCATTGAGGGTTGCCCAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCG

                                    
        851 ATAGGCCCAAAATAACAAGTGTTC
        131 ATAGGCCCAAAATAACAAGTGTTC

                               *  *                          *               
        875 CAAATGAGCTAAAAACTTCACAATGGACTAATCTCACCAAAATGATTATGGTTAGGCCATAAACA
          1 CAAATGAGCTAAAAACTTCTCAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA

               *  *             **     *                   *                 
        940 ATGGAACGAAAAGCATTGAGAATTGCCAAATCGAAGACGATTCAAAATGTCACTAATGGGCCCCG
         66 ATGTAAAGAAAAGCATTGAGGGTTGCCCAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCG

                                    
       1005 ATAGGCCCAAAATAACAAGTGTTC
        131 ATAGGCCCAAAATAACAAGTGTTC

                                                                             
       1029 CAAATGAGCTAAAAACTTCTCAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
          1 CAAATGAGCTAAAAACTTCTCAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA

                                               
       1094 ATGTAAAGAAAAGCATTGAGGGTTGCCCAATCGAA
         66 ATGTAAAGAAAAGCATTGAGGGTTGCCCAATCGAA

       1129 A


Statistics
Matches: 235,  Mismatches: 19, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
 154  235  1.00

ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22


Consensus pattern (154 bp):   
CAAATGAGCTAAAAACTTCTCAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
ATGTAAAGAAAAGCATTGAGGGTTGCCCAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCG
ATAGGCCCAAAATAACAAGTGTTC
Done.