Locus 5777

Sequence ID 3L_DroMel_CAF1
Location 15,659,355 – 15,659,472
Length 117
Max. P 0.510857
window9177

overview

Window 7

Location 15,659,355 – 15,659,472
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 81.38
Mean single sequence MFE -25.61
Consensus MFE -17.78
Energy contribution -18.14
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -1.52
Structure conservation index 0.69
SVM decision value -0.04
SVM RNA-class probability 0.510857
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15659355 117 + 23771897
GGAAAAUUGAUUUUCAGGUAGUUGGAUUUCAGUGUUCAGCAUCUGUGUGCAAAGAUACAGCAUUCCAAUUAAUAUCUUUUUGUGGUCAGCCGCAAACCAGGCAAGCAGAACUAUAGU
.(((.(((((..(((((....)))))..))))).)))....(((((.((((((((((...............)))))))((((((....)))))).....))).)))))........ ( -29.06)
>DroSec_CAF1 19174 102 + 1
GUAAAAUUGAUUUU---------------CAGUAUUCAGCAUCUGUGUGCAAAGAUACAGCAUUCAAAUUAUUAUCUUUUUGUGGUCUGCCACAAACCAGGCAAGCAGAACUAUAGU
.....((((.....---------------))))........(((((.((((((((((...............)))))))((((((....)))))).....))).)))))........ ( -21.26)
>DroSim_CAF1 19152 102 + 1
GGAAAAUUGAUUUU---------------CAGUAUUCAGCAUCUGUGUGCAAAGAUACAGCAUUCAAAUUAUUAUCUUUUUGUGGUCUGCCACAAACCAGGCAAGCAGAACUAUAGU
.(((.((((.....---------------)))).)))....(((((.((((((((((...............)))))))((((((....)))))).....))).)))))........ ( -24.06)
>DroEre_CAF1 19042 92 + 1
GGAAAAUUGAUUUUCAGC-------------------------UGUGUGCAAAGAUACAGCAUUCAAAUGAAUAUCUUUUUGUGGUCUGCCGCCAGCCAGGCAAGCAGAACUCUAGU
((((((..(((.((((((-------------------------(((((......))))))).......)))).)))..)))....(((((.(((.....)))..)))))..)))... ( -23.31)
>DroYak_CAF1 19205 117 + 1
GGAAAAUUGAUUUUCAGCUACGUUGAUUUUAAUAUUCCGUAUCUGUGUGCAAAGAUACAGCAUUCAAAUUAAUAUCUUUUUGUGGUCCGCCGCAAACCAGGCAAGCAGAACUCUAGU
((((.(((((...(((((...)))))..))))).))))((.(((((.((((((((((...............)))))))((((((....)))))).....))).)))))))...... ( -30.36)
>consensus
GGAAAAUUGAUUUUCAG____________CAGUAUUCAGCAUCUGUGUGCAAAGAUACAGCAUUCAAAUUAAUAUCUUUUUGUGGUCUGCCGCAAACCAGGCAAGCAGAACUAUAGU
.........................................(((((.((((((((((...............)))))))((((((....)))))).....))).)))))........ (-17.78 = -18.14 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:39 2006