Locus 2142

Sequence ID 3R_DroMel_CAF1
Location 6,117,308 – 6,117,428
Length 120
Max. P 0.782071
window3494

overview

Window 4

Location 6,117,308 – 6,117,428
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 87.33
Mean single sequence MFE -32.77
Consensus MFE -27.75
Energy contribution -26.98
Covariance contribution -0.77
Combinations/Pair 1.37
Mean z-score -1.95
Structure conservation index 0.85
SVM decision value 0.56
SVM RNA-class probability 0.782071
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6117308 120 + 27905053
AGAAACUAGGACAAGGCACUUACGGCAAGGUGCAGUUAGGUAUUAAUAAGGAAACCGGCCAGGAGGUGGCUAUCAAAACCAUCAAGAAGUGCAAGAUCGAGGCCGAGGCGGAUUUGGUGC
.....((..((....((((((..(((..(((((......))))).....(....)..)))....(((((.........)))))...))))))....)).))((((((.....)))))).. ( -27.90)
>DroVir_CAF1 29005 120 + 1
AAAAGUUGGGUCAAGGCACAUAUGGCAAAGUGCAGCUUGGUAUUAAUAAGGAAACGGGCCAGGAGGUGGCCAUCAAAACGAUAAAGAAAUGUAAAAUCGAGGCUGAGGCAGAUCUCGUGC
...............((((...((((..(((((......))))).....(....)..)))).(((((.(((.(((...((((.............))))....))))))..))))))))) ( -28.52)
>DroGri_CAF1 33707 120 + 1
AGAAAUUAGGUCAAGGCACUUACGGCAAAGUGCAGCUUGGUAUUAAUAAGGAAACGGGCCAGGAGGUGGCCAUUAAAACGAUAAAGAAAUGCAAAAUCGAGGCAGAGGCGGAUCUGGUGC
....((((((((...((((((......)))))).((((.((.(((((..(....).(((((.....)))))))))).))..........(((.........))).)))).)))))))).. ( -32.90)
>DroWil_CAF1 32388 120 + 1
AGAAAUUAGGUCAGGGCACUUAUGGCAAAGUGCAGUUAGGUAUUAAUAAGGAAACGGGCCAAGAGGUGGCCAUCAAGACCAUUAAGAAAUGCAAAAUAGAAGCGGAAGCGGAUCUGGUGC
........((((...((((((......)))))).....(((........(....).(((((.....))))))))..))))..........(((...((((.((....))...)))).))) ( -35.30)
>DroMoj_CAF1 40760 120 + 1
AGAAAUUAGGUCAAGGCACUUACGGCAAGGUACAGCUCGGUAUUAAUAAGGAAACGGGCCAGGAGGUGGCAAUUAAAACCAUAAAGAAAUGCAAAAUUGAAGCCGAGGCGGACCUGGUGC
....((((((((...((((((......))))....((((((.(((((..(....)..((((.....)))).........................))))).)))))))).)))))))).. ( -32.30)
>DroAna_CAF1 25131 120 + 1
AGAAACUAGGUCAAGGCACCUACGGAAAGGUGCAGUUAGGUAUUAAUAAGGAGACCGGCCAGGAGGUGGCCAUCAAAACCAUCAAGAAGUGCAAAAUCGAGGCCGAGGCGGACCUGGUUC
...(((((((((...((((((......)))))).....(((........(....).(((((.....)))))......))).........(((....(((....))).)))))))))))). ( -39.70)
>consensus
AGAAAUUAGGUCAAGGCACUUACGGCAAAGUGCAGCUAGGUAUUAAUAAGGAAACGGGCCAGGAGGUGGCCAUCAAAACCAUAAAGAAAUGCAAAAUCGAGGCCGAGGCGGAUCUGGUGC
....((((((((...((((((......))))))......(((((.....(....).(((((.....)))))................))))).........((....)).)))))))).. (-27.75 = -26.98 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:24 2006