Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_019168370.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_59, 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: 143476
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27


File 2 of 2

Found at i:143042 original size:27 final size:26

Alignment explanation


    Indices: 142988--143084  Score: 80
    Period size: 27  Copynumber: 3.8  Consensus size: 26

     142978 CAAGATAAAA

                                      
     142988 AAATAATAATAAATAAATAAATTAAT
          1 AAATAATAATAAATAAATAAATTAAT

                            *     *     
     143014 AATATAATAATAAATATAT-AACTATAT
          1 AA-ATAATAATAAATAAATAAATTA-AT

                        *              *
     143041 AAATAA-AATACCAT--ATAATATTAAC
          1 AAATAATAATA-AATAAATAA-ATTAAT

                                 
     143066 AAA-AA-AATAAATAAATAAA
          1 AAATAATAATAAATAAATAAA

     143085 GATATACATA


Statistics
Matches: 58,  Mismatches: 6, Indels: 16
        0.73            0.08        0.20

Matches are distributed among these distances:
  23    2  0.03
  24    9  0.16
  25   13  0.22
  26   15  0.26
  27   19  0.33

ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29


Consensus pattern (26 bp):   
AAATAATAATAAATAAATAAATTAAT

Found at i:143154 original size:15 final size:16

Alignment explanation


    Indices: 143134--143178  Score: 60
    Period size: 15  Copynumber: 2.9  Consensus size: 16

     143124 ATAAAATGCC

                            
     143134 TAAAATACAAAA-AAA
          1 TAAAATACAAAATAAA

                            
     143149 TAAAATA-AAAATAAA
          1 TAAAATACAAAATAAA

                            
     143164 -AATAATACAAAATAA
          1 TAA-AATACAAAATAA

     143179 GAACCCGAAT


Statistics
Matches: 27,  Mismatches: 0, Indels: 5
        0.84            0.00        0.16

Matches are distributed among these distances:
  14    6  0.22
  15   14  0.52
  16    7  0.26

ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18


Consensus pattern (16 bp):   
TAAAATACAAAATAAA

Found at i:143353 original size:17 final size:17

Alignment explanation


    Indices: 143333--143378  Score: 60
    Period size: 16  Copynumber: 2.8  Consensus size: 17

     143323 CATTTTCATC

                           * 
     143333 GTTTTTTTGTTTTTTGT
          1 GTTTTTTTGTTTTTTCT

                             
     143350 GTTTTTTT-TTTTTTCT
          1 GTTTTTTTGTTTTTTCT

                          
     143366 -TTGTTTTTGTTTT
          1 GTT-TTTTTGTTTT

     143379 GCCAAGCTCC


Statistics
Matches: 26,  Mismatches: 1, Indels: 4
        0.84            0.03        0.13

Matches are distributed among these distances:
  15    2  0.08
  16   12  0.46
  17   12  0.46

ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85


Consensus pattern (17 bp):   
GTTTTTTTGTTTTTTCT

Found at i:143355 original size:18 final size:18

Alignment explanation


    Indices: 143333--143378  Score: 58
    Period size: 17  Copynumber: 2.6  Consensus size: 18

     143323 CATTTTCATC

                    *         
     143333 GTTTTTTTGTTTTT-TGT
          1 GTTTTTTTTTTTTTCTGT

                            * 
     143350 GTTTTTTTTTTTTTCTTT
          1 GTTTTTTTTTTTTTCTGT

                       
     143368 GTTTTTGTTTT
          1 GTTTTT-TTTT

     143379 GCCAAGCTCC


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  17   13  0.52
  18    8  0.32
  19    4  0.16

ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85


Consensus pattern (18 bp):   
GTTTTTTTTTTTTTCTGT

Found at i:143359 original size:20 final size:19

Alignment explanation


    Indices: 143334--143379  Score: 58
    Period size: 19  Copynumber: 2.4  Consensus size: 19

     143324 ATTTTCATCG

                                
     143334 TTTTTTTGTTT-TTTGTGTT
          1 TTTTTTTGTTTCTTTGT-TT

                   *           
     143353 TTTTTTTTTTTCTTTGTTT
          1 TTTTTTTGTTTCTTTGTTT

              *     
     143372 TTGTTTTG
          1 TTTTTTTG

     143380 CCAAGCTCCT


Statistics
Matches: 23,  Mismatches: 3, Indels: 2
        0.82            0.11        0.07

Matches are distributed among these distances:
  19   18  0.78
  20    5  0.22

ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85


Consensus pattern (19 bp):   
TTTTTTTGTTTCTTTGTTT

Done.