Locus 1891

Sequence ID 3R_DroMel_CAF1
Location 5,418,171 – 5,418,275
Length 104
Max. P 0.768028
window3102

overview

Window 2

Location 5,418,171 – 5,418,275
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.37
Mean single sequence MFE -23.94
Consensus MFE -18.16
Energy contribution -17.72
Covariance contribution -0.44
Combinations/Pair 1.26
Mean z-score -1.60
Structure conservation index 0.76
SVM decision value 0.52
SVM RNA-class probability 0.768028
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5418171 104 + 27905053
---------------UAUUUGGUGCUAUUUUUGGAGUGGCUUGUA-CAUGUGAAUUUGCUGAUUUCAAGUAGCUCCAAAUGUUAUUUAUUGUUACCAAUAUAAUUUGUGUUGGGCAUUUC
---------------(((((((.(((((..((((((((((..((.-(....).))..))).)))))))))))).))))))).............(((((((.....)))))))....... ( -27.60)
>DroSec_CAF1 5131 105 + 1
---------------UAUUUGGUGUUAUUUUUGGAGAGGCUUGUAUCAAAUGAAUUUGCUGAUUUCAAGUAGUUCUGAAUGUUAUUUAUUGUUACCAAUACAAUUUGUGUUGGGCAACUC
---------------..............((..(((..(((((.((((...........))))..)))))..)))..))...........(((.(((((((.....)))))))..))).. ( -22.30)
>DroSim_CAF1 5125 104 + 1
---------------UAUUUGGUGCUAUUUUUGGAGAGGCUUGUA-CAUAUGAAUUUGCUGAUUUCAAGUAGCUCUAAAUGUUAUUUAUUGUUACCAAUACAAUUUGUGUUGGGCAACUC
---------------(((((((.(((((..((((((.(((..((.-(....).))..)))..))))))))))).))))))).........(((.(((((((.....)))))))..))).. ( -27.40)
>DroEre_CAF1 5301 114 + 1
GUGCCACUAAUCCAUUGUAUGUUGCUAUUUUU-AAGAGACUUGUA-----UGAAUUGGCCGAUUUCAAGUAGCUUUAAAUGUUAUUUAUUGUUACCAAUACAAUUCGUGUUAGGCAACUC
.((((...............((..((......-.))..))...((-----(((((((...(....)..(((((..(((((...)))))..))))).....)))))))))...)))).... ( -19.70)
>DroYak_CAF1 5416 114 + 1
GUGCCGCUAAACCAUAAUUCGGUGCUAUAUUU-AAGAGACUUGUA-----UGAAUUUGCCGAUUUCAAGUAGCUUUAAAUGUUAUUUAUUGCUACCAAUACAAUUCGAGUUGAGCAACUC
(..(((.............)))..).......-....((.(((((-----((((.........)))..(((((..(((((...)))))..)))))..)))))).))(((((....))))) ( -22.72)
>consensus
_______________UAUUUGGUGCUAUUUUUGGAGAGGCUUGUA_CA__UGAAUUUGCUGAUUUCAAGUAGCUCUAAAUGUUAUUUAUUGUUACCAAUACAAUUUGUGUUGGGCAACUC
......................(((....(((((((..(((((........(((((....))))))))))..)))))))...............(((((((.....)))))))))).... (-18.16 = -17.72 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:00 2006