Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: MZ905372

Parameters: 2 7 7 80 10 50 500

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500

Length: 186034
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28


Found at i:55261 original size:19 final size:19

Alignment explanation


    Indices: 55226--55264  Score: 53
    Period size: 19  Copynumber: 2.1  Consensus size: 19

      55216 GAGCAAGCCC

                        *      
      55226 AAACAGAAGCAACAAGAAA
          1 AAACAGAAGCAAAAAGAAA

                                
      55245 AAACA-AAGCAAGAAAGAAA
          1 AAACAGAAGCAA-AAAGAAA

             
      55264 A
          1 A

      55265 CAGCTCTTTG


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  18    6  0.33
  19   12  0.67

ACGTcount: A:0.72, C:0.13, G:0.15, T:0.00


Consensus pattern (19 bp):   
AAACAGAAGCAAAAAGAAA

Left flanking sequence: Indices 54726 -- 55225
TTCACTGGTCGGAGGCTAAGAGCTTTCTTTGACTCTGAGTCATATGGGATGGGTCCCTACTCTCA
CTATGGCATAGTGGCCCAACGGTTCCTATGAAAGTCATAGCCGGACCTACTCTCCTCTCGCCGAT
GGTTTGAGAGTTGCGTTGGCGTGACGCTAATCTACTGATATTCGAGTGCTTGAGTTTCACTCATG
TAGAGATAACGAAGGGAAAGGGCATTTGAGGGAGAGCCCAACCCAAGGGAAGGGGCAAAGAAAGG
ACCTGAGCACATTGACATCGAAGAAAAGGCCAATGAAAATAGGGAAAGTCCTATTCAAGCCGCTT
TACCGACGAGGTTAAAGAGCGGTAGCCCCTCCTTCGAGCAAGCAAGCGGCACTAAAAGCAGGATG
AAAGCAAGCAAGGAGTGTAAGCCACTTGCCCGATAGGGTAAGGAGCGGAGACCCTTCCTTCATTC
ATTAAGTTTAGGGATTTGAGTCAGGGATAACAGAGGAGCAAGCCC


Right flanking sequence: Indices 55265 -- 55764
CAGCTCTTTGTCTTACTGTGCCCGAGGAAGGGAAGAAAGAAGATGACAGACAAAGCACAACGGAG
GAATGAACTTCAAGCATGGAGGGGGAAAGTAACGGCACTCAAAGCTGTCTTCCATCAACCAAGCA
TGAAACAGAAGCCATGGACTAAGATGACTGGACAGGAGCGATAAGCAGCTATCAGCCACTCGAAC
CAAGTTAGAGGTTTTTTTCATGAGAGTCTTTCTAACATTCTTCACCTGAACCCGGGAACAGCTTT
GACTTAGATACTCTATTGTCAGATAGTTGAATGGCACCGGGAATGGATTAGGGAGCAAAGGAGAT
TAGGGAAAGTCCTCTGAAAGCCCTTTTTCCAACTGAGAGGGGCAGGAGAAGGATAGAAAGGTAGT
TTCCTCCAGCAAGAGGGATGACTTCTTCCTTTCCGCAAATAACAAGCGCTTTTCTTCGCCACATC
GCGTATAACGGGAATCGAACCCCCCTGCTGCTGGCGGGCGGATGG



Found at i:177249 original size:20 final size:20

Alignment explanation


    Indices: 177213--177251  Score: 53
    Period size: 20  Copynumber: 1.9  Consensus size: 20

     177203 AAGCTACTGG

                                
     177213 TTCTGTTCTGTCATACTCTA
          1 TTCTGTTCTGTCATACTCTA

                      *         
     177233 TTCTAGTTCTTTC-TACTCT
          1 TTCT-GTTCTGTCATACTCT

     177252 CGAGTTACCT


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  20   10  0.59
  21    7  0.41

ACGTcount: A:0.13, C:0.26, G:0.08, T:0.54


Consensus pattern (20 bp):   
TTCTGTTCTGTCATACTCTA

Left flanking sequence: Indices 176713 -- 177212
ACTTTCTCTCCGGGCCAGTCCTAAAAGCCCATCAAATTACGCCTTTCCCTTCCCTCAAGAGCTAA
ATCGACTGCGGATCTTAGCAGCATCGCTTATTCCTCCATCTTCTTAAATAGAAATAGCATCGGAG
TCGTTCACTATTCTCTTTCTCGCTTTCTAGGTTTCGAAAGAGAATTAAGCAGAAGTGATCAACGA
AGACCTAAAAGCAGTTATATAAAGCACTGCTGCCATTTCCTTTGCTATCTTTCAGTCCTAAAGTG
AAAGTCAATCAAGAGGGTAAAGTAAACTCGATCTATCTTTCCGCCCGAACTTCTCACCTGGTATG
TCCTGTATGCCCTACCAGGGGAATCCTGGAGTTACTGAAGGATATTCTGATTCAAGCTCTGAACA
AAAGCTCATTCTTTTCTCTATTGTACCCTCATCGGCATCTCCTTACGCTGATTCAATAGCAGCTG
GATTGTGAACAAGAGCTGAAACACGTGAAAGCTCAAAGCTACTGG


Right flanking sequence: Indices 177252 -- 177751
CGAGTTACCTTTCGAGCAGACTCAGAAAAAGAAGAAGCCCACGAAGCGGTAGCAGCTACTTCTTC
TGCTTCTTCGGTTGTTGCCACCTAATTAGCTACGATCAATGAAAATATCGTAATATAAGAAAGCT
GTGCCACGAACAGCGCTTTGCCCCTTCTATATAAGCTGCACTACGCCGAATGATAAAGATTTCCT
GCTCCCATCTATTTGTTGTGGGGCATCCCATGCTTTCTGTTGGTCAACAACCAACAAGCAAACCT
TATCTATTGTTTACTCGTACAGGCTTGACGGAGTTAAGCGGAATCCTTTTTCTCAAATATCATGC
CTCAACTGGATAAATTTACTTATTTTACACAATTCTTCTGGTTATGCCTTTTCTTCTTTACTTTC
TATATAAAAATATGCAATGATGGAGATGGAGTACTTGGGATCAGCCGAATTCTAAAACTACGGAA
CCAACTCCTTTCACAACGGAGAAAGAAGATCTGGAGCAAGGACCC


Done.