Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023249.1 Corchorus olitorius cultivar O-4 contig23282, 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, 1000

Length: 6488
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33


Found at i:1381 original size:59 final size:61

Alignment explanation


    Indices: 1300--1413  Score: 151
    Period size: 60  Copynumber: 1.9  Consensus size: 61

       1290 AACATTTCTT

                                          *   **        *    *           
       1300 GGGGAGAAATTATCCCGATTTTGATAG-TTTAAGGGTGAAAGTTTCAAATTAAAAGTGAAA
          1 GGGGAGAAATTATCCCGATTTTGATAGATTAAAGACTGAAAGTTCCAAAATAAAAGTGAAA

                       *    *                                      
       1360 GGGG-GAAATTGTCCCTATTTTGATAGATTAAAGACTGAAAGTTCCAAAATAAAA
          1 GGGGAGAAATTATCCCGATTTTGATAGATTAAAGACTGAAAGTTCCAAAATAAAA

       1414 ATTCAGGGGG


Statistics
Matches: 46,  Mismatches: 7, Indels: 2
        0.84            0.13        0.04

Matches are distributed among these distances:
  59   20  0.43
  60   26  0.57

ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29


Consensus pattern (61 bp):   
GGGGAGAAATTATCCCGATTTTGATAGATTAAAGACTGAAAGTTCCAAAATAAAAGTGAAA

Found at i:1422 original size:59 final size:60

Alignment explanation


    Indices: 1300--1435  Score: 141
    Period size: 60  Copynumber: 2.3  Consensus size: 60

       1290 AACATTTCTT

                *      *    *            *   **        *    *     *     
       1300 GGGGAGAAATTATCCCGATTTTGATAGTTTAAGGGTGAAAGTTTCAAATTAAAAGTGAAA
          1 GGGGGGAAATTGTCCCTATTTTGATAGTTAAAGACTGAAAGTTCCAAAATAAAAATGAAA

                                                                      ** 
       1360 -GGGGGAAATTGTCCCTATTTTGATAGATTAAAGACTGAAAGTTCCAAAATAAAAAT-TCA
          1 GGGGGGAAATTGTCCCTATTTTGATAG-TTAAAGACTGAAAGTTCCAAAATAAAAATGAAA

                     *       
       1419 GGGGGGAAAATGTCCCT
          1 GGGGGGAAATTGTCCCT

       1436 TTTGTAAAAG


Statistics
Matches: 62,  Mismatches: 12, Indels: 4
        0.79            0.15        0.05

Matches are distributed among these distances:
  59   24  0.39
  60   38  0.61

ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28


Consensus pattern (60 bp):   
GGGGGGAAATTGTCCCTATTTTGATAGTTAAAGACTGAAAGTTCCAAAATAAAAATGAAA
Done.