Locus 4475

Sequence ID 3R_DroMel_CAF1
Location 11,835,415 – 11,835,535
Length 120
Max. P 0.547756
window7317

overview

Window 7

Location 11,835,415 – 11,835,535
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.17
Mean single sequence MFE -40.55
Consensus MFE -30.67
Energy contribution -33.15
Covariance contribution 2.48
Combinations/Pair 1.12
Mean z-score -2.79
Structure conservation index 0.76
SVM decision value 0.03
SVM RNA-class probability 0.547756
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11835415 120 - 27905053
GGAGGUCCAAUUCCGCAGAAGGAGCUGGCAAGGAAAAAGUUAAGCUUUCUUUGUUUACGCUCCGAAGAGUUGUCACUUGGCUAACGAAUGUUCAUUCGUUUAUUUAUGGAUUGGACACUC
.((((((((((((.((....(((((.((((((((((.........))))))))))...)))))...((((....)))).)).(((((((....))))))).......))))))))).))) ( -40.30)
>DroSec_CAF1 15288 120 - 1
GGAGGUCCAAUUCCGCAGAAGGAGCUGGCAAGGAAAGAGUUAAGCUUUCUUUGUUUACGCUCCGAGGAGUUGUCACUUGGCUAACGAAUGCUCAUUCGUUUAUUUAUGGAUUGGACACUC
.((((((((((((.((....(((((.(((((((((((.......)))))))))))...)))))...((((....)))).)).(((((((....))))))).......))))))))).))) ( -43.80)
>DroSim_CAF1 16786 120 - 1
GGAGGUCCAAUUCCGCAGAAGGAGCUGGCAAGGAAAGAGUUAAGCUUUCUUUGUUUACGCUCCGAGGAGUUGUCACUUGGCUAACGAAUGUUCAUUCGUUUAUUUAUGGAUUGGACACUC
.((((((((((((.((....(((((.(((((((((((.......)))))))))))...)))))...((((....)))).)).(((((((....))))))).......))))))))).))) ( -43.80)
>DroEre_CAF1 19254 120 - 1
GGAGGUCCAAUUCCGCAGAAGGAGCUGGCAAGGAAAGAGUUAAGCUUUCUUUGUUUACGCUCCGAGGAGUUGUCACUUGGCUAACGAAUGUUCAUUCGUUUAUUUAUGGAUUGGACACUC
.((((((((((((.((....(((((.(((((((((((.......)))))))))))...)))))...((((....)))).)).(((((((....))))))).......))))))))).))) ( -43.80)
>DroYak_CAF1 19797 120 - 1
GGAGGCCCAAUUCCGCAGAAGGAGCUGGCAAGGAAAGAGUUAAGCUUUCUUUGUUUACGCUUCGAGGAGUUGUCAUUUGGCUAACGAAUGUUCAUUCGUUUAUUUAUGGAUUGGACACUC
(..(((((((((((...((((..(..(((((((((((.......)))))))))))..).))))..)))))))......))))..)((.(((((((((((......))))).)))))).)) ( -39.10)
>DroAna_CAF1 14458 116 - 1
CUA---CCAGGUGAGCUGCAGGAAACCCAGGUGAAAGAGUGAAGCUUUCUUUGUUUACGCUCCGAAGAGUUGUCACUUGACUAAAUAAUGCUCAUUCGUAUUCUUACGGAU-GGCGAUUC
...---.(((((((.(((..(....).)))......(((((((((.......)))).)))))..........))))))).........(((.((((((((....)))))))-)))).... ( -32.50)
>consensus
GGAGGUCCAAUUCCGCAGAAGGAGCUGGCAAGGAAAGAGUUAAGCUUUCUUUGUUUACGCUCCGAGGAGUUGUCACUUGGCUAACGAAUGUUCAUUCGUUUAUUUAUGGAUUGGACACUC
.((((((((((((.((....(((((.(((((((((((.......)))))))))))...)))))...((((....)))).)).(((((((....))))))).......))))))))).))) (-30.67 = -33.15 +   2.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:17 2006