Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga14g00185.F1
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: 4570
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Found at i:947 original size:117 final size:117
Alignment explanation
Indices: 796--1029 Score: 441
Period size: 117 Copynumber: 2.0 Consensus size: 117
786 CATGAACGGA
796 GAACTAAAAGATTTATTGAATGCTAGAGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGAGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
*
861 TGGGCTATCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTATCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
*
913 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGAGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
*
978 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTATCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
1030 AGAAACTTAT
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 114 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (117 bp):
GAACTAAAAGATTTATTGAATGCTAGAGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
TAGGCTATCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
Found at i:1457 original size:174 final size:174
Alignment explanation
Indices: 1167--1519 Score: 625
Period size: 174 Copynumber: 2.0 Consensus size: 174
1157 AGGAAGCACT
* *
1167 TGAAATCAATGGTACCGGAAAAACAGAAGTTCCAGGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
1 TGAAATCAATGGTACCGGAAAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
* *
1232 ATACAGTAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGACAAGAGTGTACAGAAGTAAAA
66 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
* *
1297 GGGGCTACAGCTGGTCTTGATTCAGTGGATGGTGGAGATGAAGA
131 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
* * *
1341 TGAAATCAATGGTACCGGAGAAACAGAAGTCCCAAGGGATGAGGAAAAAATAAGTCTCAAGTCTG
1 TGAAATCAATGGTACCGGAAAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
1406 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
66 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
1471 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
131 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
1515 TGAAA
1 TGAAA
1520 AAGCAAATAA
Statistics
Matches: 170, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 170 1.00
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (174 bp):
TGAAATCAATGGTACCGGAAAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
Found at i:2184 original size:6 final size:6
Alignment explanation
Indices: 2173--2198 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2163 AAGTGTCTCT
2173 CAGGCA CAGGCA CAGGCA CAGGCA CA
1 CAGGCA CAGGCA CAGGCA CAGGCA CA
2199 ACAAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.31, T:0.00
Consensus pattern (6 bp):
CAGGCA
Done.