Locus 1530

Sequence ID X_DroMel_CAF1
Location 4,441,754 – 4,441,870
Length 116
Max. P 0.723190
window2491

overview

Window 1

Location 4,441,754 – 4,441,870
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.83
Mean single sequence MFE -19.82
Consensus MFE -15.17
Energy contribution -15.05
Covariance contribution -0.12
Combinations/Pair 1.11
Mean z-score -1.74
Structure conservation index 0.77
SVM decision value 0.40
SVM RNA-class probability 0.723190
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4441754 116 + 22224390
ACAUACAUAC----AACGAAAGGUAUUAAAAAUAAUCAAACCUGCAACCCAAUGGUCUGCCCUUAUGAUUUUUAUAAAACACCAUUUUCUCUCUAUCUCUCAAUAAAGAUGGUGAUGCAG
..........----..(....)((((....((.(((((.....((((((....))).))).....))))).))......(((((((((.................))))))))))))).. ( -17.93)
>DroSec_CAF1 43388 116 + 1
ACAUACAUAC----AACGAAAGCUAUUAAAAAUAAUCAAACCUGCAACCCAAUGGUCUGCCCUUAGGAUUUUUAUAAAACACCAUUUUCUCUCUAUCUCUCAAUAAAGAUGGUGAUGCAG
..........----..(....)...................(((((.((.((.((....)).)).))............(((((((((.................))))))))).))))) ( -18.33)
>DroSim_CAF1 44584 116 + 1
ACAUACAUAC----AACGAAAGCUAUUAAAAAUAAUAAAACCUGCAACCCAAUGGUCUGCCCUUAGGAUUUUUAUAAAACACCAUUUUCUCUCUAUCUCUCAAUAAAGAUGGUGAUGCAG
..........----..(....)...................(((((.((.((.((....)).)).))............(((((((((.................))))))))).))))) ( -18.33)
>DroEre_CAF1 45275 115 + 1
AUGUACGUAC----AUAUAAAGCUAAUAAAAAUAAUGAAACCUGCACCCAAUGGGUCUGCA-AUAAGAUUUUUAUAAAACACCAUUUUCUCUGUGUCUCUUAAUAAAGAUGGUGAUGCAG
((((....))----)).....((..((((((((.........(((((((...))))..)))-.....))))))))....(((((((((...(((........))))))))))))..)).. ( -19.34)
>DroYak_CAF1 44139 119 + 1
AUGUACAUAUGUAUAUGCAAAGCUUAUAAAAAUAAUCAAACCUGCAACCCAAUGGUCUGCC-AUAAGAUUUUUAUAAAACACCAUUUUCUCUGUAUUUCUCAACAAAAAUGGUGAUGCAG
.(((((....)))))((((....((((((((((..........((((((....))).))).-.....))))))))))..(((((((((...(((........)))))))))))).)))). ( -25.19)
>consensus
ACAUACAUAC____AACGAAAGCUAUUAAAAAUAAUCAAACCUGCAACCCAAUGGUCUGCCCUUAAGAUUUUUAUAAAACACCAUUUUCUCUCUAUCUCUCAAUAAAGAUGGUGAUGCAG
.........................................(((((.......(((((.......))))).........(((((((((.................))))))))).))))) (-15.17 = -15.05 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:24 2006