Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014957.1 Corchorus olitorius cultivar O-4 contig14990, 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: 31881
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:16218 original size:3 final size:3

Alignment explanation


    Indices: 16212--16245  Score: 68
    Period size: 3  Copynumber: 11.3  Consensus size: 3

      16202 CTGCTGGTAT

                                                         
      16212 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
          1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T

      16246 TTTTTTAAAT


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   31  1.00

ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35


Consensus pattern (3 bp):   
TAA

Found at i:17806 original size:36 final size:36

Alignment explanation


    Indices: 17766--17835  Score: 113
    Period size: 36  Copynumber: 1.9  Consensus size: 36

      17756 TTGGGTTTAG

                  *               *             
      17766 TTTGTAGGTAATTTATTTAAGGTAATTTCTTAGTGT
          1 TTTGTAAGTAATTTATTTAAGGCAATTTCTTAGTGT

                                        *     
      17802 TTTGTAAGTAATTTATTTAAGGCAATTTTTTAGT
          1 TTTGTAAGTAATTTATTTAAGGCAATTTCTTAGT

      17836 TTGGATCGGC


Statistics
Matches: 31,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  36   31  1.00

ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53


Consensus pattern (36 bp):   
TTTGTAAGTAATTTATTTAAGGCAATTTCTTAGTGT

Found at i:31814 original size:154 final size:154

Alignment explanation


    Indices: 31530--31881  Score: 575
    Period size: 154  Copynumber: 2.3  Consensus size: 154

      31520 ATTCGTATCA

                                                                             
      31530 CTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTATGGTGAGATTAATCCACTG
          1 CTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTATGGTGAGATTAATCCACTG

                       *                                                *    
      31595 TGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCAATTAGTTCTGTTT
         66 TGAAGTTTTTAACTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCAATTAGTTCCGTTT

                  *                 
      31660 TGAATCGTCTTCGATTTGGCAAAC
        131 TGAATCATCTTCGATTTGGCAAAC

                                      *                               *      
      31684 CTCAATGCTTTTCTTTCCATTGTTTAAGGCCTAACTATAATCACTT-TGGTGAGATTAGTCCACT
          1 CTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCA-TTATGGTGAGATTAATCCACT

                                                           *                 
      31748 GTGAAGTTTTTAACTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCAATTAGTTCCGTT
         65 GTGAAGTTTTTAACTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCAATTAGTTCCGTT

                  *                * 
      31813 TTGAATTATCTTCGATTTGGCAATC
        130 TTGAATCATCTTCGATTTGGCAAAC

                              *                           
      31838 CTCGAA-GCTTTTCTTT-AAGTTGTTTATGGCCTAACTATAATCAT
          1 CTC-AATGCTTTTCTTTCCA-TTGTTTATGGCCTAACTATAATCAT


Statistics
Matches: 185,  Mismatches: 10, Indels: 7
        0.92            0.05        0.03

Matches are distributed among these distances:
 153    2  0.01
 154  179  0.97
 155    4  0.02

ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41


Consensus pattern (154 bp):   
CTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTATGGTGAGATTAATCCACTG
TGAAGTTTTTAACTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCAATTAGTTCCGTTT
TGAATCATCTTCGATTTGGCAAAC
Done.