Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga10g00024.F2
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: 3812
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Found at i:1745 original size:36 final size:36
Alignment explanation
Indices: 1705--1816 Score: 188
Period size: 36 Copynumber: 3.1 Consensus size: 36
1695 GATGTAAAAA
* *
1705 ATGGTACTACGAATGAAGTGGTTTCATTTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
*
1741 ATGGTACAACGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
*
1777 ATGGTACTATGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
1813 ATGG
1 ATGG
1817 GGGTAATAGG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.35
Consensus pattern (36 bp):
ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
Found at i:2024 original size:285 final size:285
Alignment explanation
Indices: 1503--2029 Score: 788
Period size: 285 Copynumber: 1.8 Consensus size: 285
1493 TGATGCTACA
* *
1503 AACGCAGTGGTTGCATCTGATGTTGGTGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCC
1 AACGAAGTGGTTGCATCTGATGTTGATGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCC
* * * * *
1568 TGTTGGGACTGATGATTCGAGTACGGCGAAACAGGAATCTCAAGGATGCTCTGGTTATGATTCTC
66 TGTTGAGACTGATGATTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTCTC
* **
1633 AAAAGGATTCTTTTGATAATATTTCTGTGGGAAGTGAAGAGTCGCCTACTAAAGAACCTCAAGAT
131 AAAAGGATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGACTAAAGAACCTCAAGAT
* * * **
1698 GTAAAAAATGGTACTACGAATGAAGTGGTTTCATTTGATGTTGATGGTACAACGAACGAAGTGGT
196 ATAAAAAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGATGGTACAACGAACGAAGTGGT
1763 TTCATCTGATGTTGATGGTACTATG
261 TTCATCTGATGTTGATGGTACTATG
* * *
1788 AACGAAGTGGTTTCATCTGATGTTGATGGGGGTAATAGGATGACTTCAGACATC-AGAACCGTGC
1 AACGAAGTGGTTGCATCTGATGTTGATGGGGGTAATAAGATGACTTCAGAC-TCAAGAACCATGC
1852 CTGTTGAGACTGATGACTT-GAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTC
65 CTGTTGAGACTGATGA-TTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTC
* * * * * *
1916 TCCAAAGGATTCTTTTGATACTATTTCTGTGAGAAGTGAAGAGTTGCAGGCTAAGGAACCTCAGG
129 TCAAAAGGATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGACTAAAGAACCTCAAG
* *
1981 ATATAAAAGATGATAATACGAATGATGTGGTTTCACCTGATGTTGATGG
194 ATATAAAAAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGATGG
2030 GGGTAATAGG
Statistics
Matches: 214, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
285 210 0.98
286 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (285 bp):
AACGAAGTGGTTGCATCTGATGTTGATGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCC
TGTTGAGACTGATGATTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTCTC
AAAAGGATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGACTAAAGAACCTCAAGAT
ATAAAAAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGATGGTACAACGAACGAAGTGGT
TTCATCTGATGTTGATGGTACTATG
Done.