Locus 1016

Sequence ID 3L_DroMel_CAF1
Location 3,011,499 – 3,011,606
Length 107
Max. P 0.739684
window1570

overview

Window 0

Location 3,011,499 – 3,011,606
Length 107
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 89.36
Mean single sequence MFE -31.00
Consensus MFE -27.07
Energy contribution -27.30
Covariance contribution 0.23
Combinations/Pair 1.07
Mean z-score -1.95
Structure conservation index 0.87
SVM decision value 0.45
SVM RNA-class probability 0.739684
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3011499 107 + 23771897
AACUG------------GCUAAAUGUUGAACGGCACACGCAAGCGUGUUAAAAAAAAAGGUUUGCUCAGUGAACCUAAAAAAUCGAGUUCAAAGAGUGAGGGGUGUUUUAAAUGGGCGU
..((.------------(((.....(((((((((((.(....).)))))........(((((..(...)..)))))..........))))))..))).))....((((.....)))).. ( -27.20)
>DroSec_CAF1 45770 118 + 1
AACUGGCUUUUGUUCUGGCUAAAUGUUGAACGGCACACGCAAGCGUGUUAAAA-AAAAGCUUUGCUCAAUGAACCUAAAAAAUCGAGUUCAAAGAGCCAGGGGCGUUUAAAAUGGGCGU
..(((((((((((((.(((.....)))))))(((((.(....).)))))....-))))))...((((..((((((.........).)))))..)))))))..((((((.....)))))) ( -32.30)
>DroSim_CAF1 46394 119 + 1
AACUGGCUUUUGUUCUGGCUAAAUGUUGAACGGCACACGCAAGCGUGUUAAAAAAAAAGCUUUGCUCAGUGAACCUAAAAAAUCGAGUUCAAAGAGCCAGGGGCGUUUAAAAUGGGCGU
..(((((((((((((.(((.....)))))))(((((.(....).))))).....))))))...((((..((((((.........).)))))..)))))))..((((((.....)))))) ( -33.50)
>consensus
AACUGGCUUUUGUUCUGGCUAAAUGUUGAACGGCACACGCAAGCGUGUUAAAAAAAAAGCUUUGCUCAGUGAACCUAAAAAAUCGAGUUCAAAGAGCCAGGGGCGUUUAAAAUGGGCGU
.................(((.....(((((((.((((((....)))))...........(((.((((..((((((.........).)))))..)))).)))).)))))))....))).. (-27.07 = -27.30 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:55 2006