Locus 1166

Sequence ID 2R_DroMel_CAF1
Location 4,630,290 – 4,630,382
Length 92
Max. P 0.853618
window2044

overview

Window 4

Location 4,630,290 – 4,630,382
Length 92
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 77.94
Mean single sequence MFE -23.79
Consensus MFE -15.10
Energy contribution -15.63
Covariance contribution 0.53
Combinations/Pair 1.30
Mean z-score -1.75
Structure conservation index 0.63
SVM decision value 0.80
SVM RNA-class probability 0.853618
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4630290 92 + 20766785
UUGUAACUGAUUAAAC-UCUGUUUU---CCAGCUACUUCCAGGAGGUGUUGGGCUCGUCGCUUCUAAAGAGUGAUGAUACUGAGAUUCAACUUCAU
...............(-((.((..(---(((((.(((((...))))))))))).(((((((((.....))))))))).)).)))............ ( -22.90)
>DroVir_CAF1 3998 94 + 1
UA--UAUUUAUGUAGUUUAUCUUUUCCUGCAGCUAUUUUCAAGAGGUAUUAGGCUCGUCGCUGCUGAAAAGCGACGACACUGAGAUUCAGCUGCAU
..--.......................(((((((..(((((.(((.(....).)))((((.((((....)))).))))..)))))...))))))). ( -29.00)
>DroSim_CAF1 1302 92 + 1
UGGUAACUAAUUAAAC-UCUGUUUU---CCAGCUACUUCCAGGAGGUGUUGGGCUCGUCGCUUCUAAAGAGUGAUGAUACUGAGAUUCAACUUCAU
...............(-((.((..(---(((((.(((((...))))))))))).(((((((((.....))))))))).)).)))............ ( -22.90)
>DroEre_CAF1 1800 92 + 1
AGUUAACUGAUUUAAC-UCUCUUUG---CCAGCUACUUCCAGGAGGUGUUGGGUUCGUCGCUUCUAAAGAGUGAUGAUACUGAGAUUCAACUUCAU
.(((((.....)))))-((((....---(((((.(((((...))))))))))(((((((((((.....))))))))).)).))))........... ( -24.90)
>DroYak_CAF1 1298 92 + 1
AGAUAACUGAUUUAAU-UUUCUUUU---CCAGCUACUUCCAGGAGGUGUUGGGAUCGUCGCUUUUAAAGAGCGACGAUACUGAGAUUCAACUUCAU
.......(((......-((((...(---(((((.(((((...)))))))))))((((((((((.....))))))))))...)))).......))). ( -28.02)
>DroMoj_CAF1 2671 92 + 1
AU--ACUUUAUCAAU--UUUCUAUUCAAAUAGCUAUUUCCAAGAGGUAUUAGGAUCCUCGUUGCUAAAGAGCGAUGAUACCGAGAUUCAGUUGCAU
((--(((((......--...((((....))))..........)))))))..((((((((((((((....))))))))....).)))))........ ( -15.01)
>consensus
AG_UAACUGAUUAAAC_UCUCUUUU___CCAGCUACUUCCAGGAGGUGUUGGGCUCGUCGCUUCUAAAGAGCGAUGAUACUGAGAUUCAACUUCAU
.................((((.......(((((.(((((...))))))))))..(((((((((.....)))))))))....))))........... (-15.10 = -15.63 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:05 2006