Locus 3134

Sequence ID 2R_DroMel_CAF1
Location 10,693,818 – 10,693,934
Length 116
Max. P 0.836502
window5169

overview

Window 9

Location 10,693,818 – 10,693,934
Length 116
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 91.06
Mean single sequence MFE -20.12
Consensus MFE -16.19
Energy contribution -16.62
Covariance contribution 0.44
Combinations/Pair 1.12
Mean z-score -1.98
Structure conservation index 0.80
SVM decision value 0.73
SVM RNA-class probability 0.836502
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10693818 116 + 20766785
UCCAAUUAAAUAUGAAAUGAAAACUUCUGCAAAAUGCGACCAAAAACAAAGCCAUGUUUGACUCUUGCAUUUUUAAUUUAUUGAGCACAUAUU---UCUUUGUGCACUUAAAUAUUUCA
............(((((((...........(((((((((....(((((......))))).....)))))))))...........(((((....---....))))).......))))))) ( -21.10)
>DroSec_CAF1 30780 116 + 1
UCCAAUUAAAUAUGAAAUGAAAACUUCUGCAAAAUGCGACCAAACACAAAGCCAUGUUUGACUCUUGCAUUUUUAAUUUAUUGAGCACAUAUU---UCUUUGUGCACUUAAAUAUUUCA
............(((((((...........(((((((((.((((((........))))))....)))))))))...........(((((....---....))))).......))))))) ( -22.00)
>DroSim_CAF1 30631 116 + 1
UCCAAUUAAAUAUGAAAUGAAAACUUCUGCAAAAUGCGACCAAAAACAAAGCCAUGUUUGACUCUUGCAUUUUUAAUUUAUUGAGCACAUAUU---UCUUUGUGCACUUAAAUAUUUCA
............(((((((...........(((((((((....(((((......))))).....)))))))))...........(((((....---....))))).......))))))) ( -21.10)
>DroEre_CAF1 31015 113 + 1
UCUAAUUAAAAAUGAAAUGAAAACUU--GCGAUAUGCGGCCAAAAACAAAGCACUGUUUGACUCUUGCAUUUUUAAUUUAUCGAACACAUAUUGUUUCAUUGU----UUAAAUAUUUUA
.....((((((((((((..(......--.((((((((((....(((((......))))).....))))).........)))))........)..))))))).)----))))........ ( -16.26)
>consensus
UCCAAUUAAAUAUGAAAUGAAAACUUCUGCAAAAUGCGACCAAAAACAAAGCCAUGUUUGACUCUUGCAUUUUUAAUUUAUUGAGCACAUAUU___UCUUUGUGCACUUAAAUAUUUCA
............(((((((...........(((((((((....(((((......))))).....)))))))))...........(((((...........))))).......))))))) (-16.19 = -16.62 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:21 2006