Locus 3883

Sequence ID 2R_DroMel_CAF1
Location 12,858,280 – 12,858,385
Length 105
Max. P 0.679832
window6270

overview

Window 0

Location 12,858,280 – 12,858,385
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.24
Mean single sequence MFE -26.60
Consensus MFE -22.23
Energy contribution -21.88
Covariance contribution -0.35
Combinations/Pair 1.22
Mean z-score -1.61
Structure conservation index 0.84
SVM decision value 0.30
SVM RNA-class probability 0.679832
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12858280 105 + 20766785
--CUUCGUUGGCC-UCCUUUCACAUUA---CAUUAU---GAUGAUUAUUUUUAUCGCCGCGUCACGCGAUAUUUUCCUGAUGUCGCCGCCUU-CUGCUCAAAU-GGCUUACAACGG----
--...(((((...-.............---......---(((((......)))))((((......((((((((.....)))))))).((...-..)).....)-)))...))))).---- ( -24.10)
>DroGri_CAF1 242680 112 + 1
GCUGUUGUUGGUCCCCAUUUCAUAUUACUACAUUAUGAUGAUGAUUAUUUUUAUCGUCGCGUCACGCGAUGU--------UGUCGCCGCAGUGCCGCACUGUUAGGCUGACGAGGGCAGG
(((.((((..(((.......................((((((((......))))))))(((.((((((.((.--------...)).))).))).))).......)))..)))).)))... ( -37.10)
>DroSim_CAF1 213616 107 + 1
CCCUACGUUGGCC-UCCUUUCACAUUA---CAUUAU---GAUGAUUAUUUUUAUCGCCGCGUCACGCGAUAUUUUCCUGAUGUCGCCGCCUU-CUGCUCAAAU-GGCUUACAACGG----
.....(((((...-.............---......---(((((......)))))((((......((((((((.....)))))))).((...-..)).....)-)))...))))).---- ( -24.50)
>DroEre_CAF1 205790 107 + 1
CCCCUCGUUGGCC-UCCUUUCACAUUA---CAUUAU---GAUGAUUAUUUUUAUCGCCGCGUCACGCGAUAUUUUCCUGAUGUCGCCGCCUU-CUGCUCAAAU-GGCUUACAGCGC----
.....(((((...-.............---......---(((((......)))))((((......((((((((.....)))))))).((...-..)).....)-)))...))))).---- ( -23.20)
>DroYak_CAF1 211433 107 + 1
CCCAUCGUUGGCC-UCCUUUCACAUUA---CAUUAU---GAUGAUUAUUUUUAUCGCCGCGUCACGCGAUAUUUUCCUGAUGUCGCCGCCUU-CUGCUCAAAU-GGCUUACAACGG----
.....(((((...-.............---......---(((((......)))))((((......((((((((.....)))))))).((...-..)).....)-)))...))))).---- ( -24.10)
>consensus
CCCUUCGUUGGCC_UCCUUUCACAUUA___CAUUAU___GAUGAUUAUUUUUAUCGCCGCGUCACGCGAUAUUUUCCUGAUGUCGCCGCCUU_CUGCUCAAAU_GGCUUACAACGG____
.....(((((.............................(((((......)))))(((.......((((((((.....)))))))).((......)).......)))...)))))..... (-22.23 = -21.88 +  -0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:22 2006