Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold3429
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, 448
Length: 748
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Found at i:553 original size:303 final size:302
Alignment explanation
Indices: 1--740 Score: 1099
Period size: 303 Copynumber: 2.4 Consensus size: 302
* * * *
1 CGATCATACCAACACTAATGCACCGGATCCCATCAGAACTATGCTGTTAAGCGTGCTTGGGAGAG
1 CGATCATTCCAGCACTAATGAACCGGATCCCATCAGAACTATGCAGTTAAGCGTGCTTGGG-GAG
*
66 AGTAGTAGTAGGATGGGTGA-CTCCTGGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCAT
65 AGTAGTACTAGGATGGGTGACCTCCT-GGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCAT
** * * * * *
130 ATAATGTTTTTCTTTAGTTCAATTTTCTCGACGTGGTCTAACTCATTTGTTAGTGACGTTTTGTG
129 ATAAAATTTTTATTCAGTTCAATTTTCGCGACGTGGTCTAACACATTCGTTAGTGACGTTTTGTG
* * *
195 AAATAAATAATTTGAAACGATATTTGGTCTAATTTGCATTTAAATTCGCGGCGCAAGTGCGATAA
194 AAATAAATAATTTGAAACGATATTTGGACGAATTTGCATTTAAATTCGAGGCGCAAGTGCGATAA
* *
260 AGGGCAATCTTTATATGAATAGATTGCGCAACAGTTGACGGGTG
259 AGGGCAACCTTTATATGAATAGATTGCACAACAGTTGACGGGTG
*** *
304 CGATCATTCCAGCACTAATGAACCGGATCCCATCAGAACCCCGCAATTAAGCGTGCTTGGGCGAG
1 CGATCATTCCAGCACTAATGAACCGGATCCCATCAGAACTATGCAGTTAAGCGTGCTTGGG-GAG
* *
369 AGTAGTACTAGGATGGGTGACCTCCTGGAAGTCCTCGTGTTGCACCCCCTCGCA-TGTATTTCAT
65 AGTAGTACTAGGATGGGTGACCTCCTGGAAGTCCTCGTGTTGCA-CCCCTCCCATTTTATTTCAT
* * *
433 ATAAAATTTTTATTCAGTTGC-ATTTTCGCGACGTGGTGTAACACATTCGTTATTTACGTTTTGT
129 ATAAAATTTTTATTCAGTT-CAATTTTCGCGACGTGGTCTAACACATTCGTTAGTGACGTTTTGT
497 GAAATAAATAATTTGAAACGATATTTGGACGAATTTGCATTTAAATTCGAGGCGCAAGTGCGATA
193 GAAATAAATAATTTGAAACGATATTTGGACGAATTTGCATTTAAATTCGAGGCGCAAGTGCGATA
*
562 AAGGGCAGCCTTTATATGAATAGATTGCACAACAGTTGACGGGTG
258 AAGGGCAACCTTTATATGAATAGATTGCACAACAGTTGACGGGTG
* * *
607 CAATCATTCCAGCACTAATGAACCGGATCCCATCAGAACTTTGCAGTCAAGCGTGCTTGGGGAAG
1 CGATCATTCCAGCACTAATGAACCGGATCCCATCAGAACTATGCAGTTAAGCGTGCTTGGGG-AG
* * *
672 AGTAGTACTAGGATGGGTGACCTTCTGAGAAGTCCGCGTATTGCACCCCTCCCATTTTATTTCAT
65 AGTAGTACTAGGATGGGTGACCTCCTG-GAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCAT
737 ATAA
129 ATAA
741 TGTTTTTT
Statistics
Matches: 392, Mismatches: 39, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
302 1 0.00
303 349 0.89
304 42 0.11
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (302 bp):
CGATCATTCCAGCACTAATGAACCGGATCCCATCAGAACTATGCAGTTAAGCGTGCTTGGGGAGA
GTAGTACTAGGATGGGTGACCTCCTGGAAGTCCTCGTGTTGCACCCCTCCCATTTTATTTCATAT
AAAATTTTTATTCAGTTCAATTTTCGCGACGTGGTCTAACACATTCGTTAGTGACGTTTTGTGAA
ATAAATAATTTGAAACGATATTTGGACGAATTTGCATTTAAATTCGAGGCGCAAGTGCGATAAAG
GGCAACCTTTATATGAATAGATTGCACAACAGTTGACGGGTG
Done.