Locus 622

Sequence ID 2R_DroMel_CAF1
Location 3,146,192 – 3,146,310
Length 118
Max. P 0.659043
window1113

overview

Window 3

Location 3,146,192 – 3,146,310
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 79.13
Mean single sequence MFE -26.05
Consensus MFE -14.32
Energy contribution -18.08
Covariance contribution 3.75
Combinations/Pair 1.12
Mean z-score -2.10
Structure conservation index 0.55
SVM decision value 0.26
SVM RNA-class probability 0.659043
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3146192 118 - 20766785
CCAAUUCUUUUGCAAAUUAUACUUUGCAAAUGUGUUUGUUCGAAUUAUUUAUUAUAUGGCUAUCAAGAAGCCAGACUGUUGUUCAAACAAACGAAUAGAUUUCGGCAGAAAUGCUG--AU
...((((.((((((((......))))))))...(((((((.((((.....((....(((((.......)))))....)).)))).))))))))))).....((((((....)))))--). ( -32.90)
>DroSec_CAF1 35963 115 - 1
CAAAUUCUUUUGCAAAUAAUACUUUGCAUAGGUGUUUGUUCGAAUUAUUUAUUAUAUGGCUUUCAAGCAGCA-GAUUGUUGUUCAAACAAACGAAUAGAUUUCGGCAGAAAUGCUG----
......(((.((((((......)))))).))).(((((((((................(((....)))....-..(((((.....))))).)))))))))..(((((....)))))---- ( -25.40)
>DroSim_CAF1 36843 120 - 1
CAAAUUCGGUUGCAAAUUAUACUUUGCAAAGGUGUUUGUUCGAAUUAUUUAUUAUAUGGCUUUCAAGCAGCAAGAUUGUUGUUCAAACAAACGAAUAGAUUUCGGCAGAAAUGCUGUGAU
...((((..(((((((......)))))))....(((((((.((((.....(((.....(((....))).....)))....)))).)))))))))))..(((.(((((....))))).))) ( -27.80)
>DroYak_CAF1 36358 101 - 1
AAAAGUCCUUUCCAAAUAAUAUUUUGCAAAGGUGUAUGUUUCAUUAAUUUAUUAUAUUUCUAUGAAGAAGCAAGCUU-UU------------GAAUACAUUUCA----AAACGCUG--AU
......(((((.((((......)))).)))))(((...((((((.(((.......)))...))))))..)))(((((-((------------(((.....))))----))).))).--.. ( -18.10)
>consensus
CAAAUUCUUUUGCAAAUAAUACUUUGCAAAGGUGUUUGUUCGAAUUAUUUAUUAUAUGGCUAUCAAGAAGCAAGAUUGUUGUUCAAACAAACGAAUAGAUUUCGGCAGAAAUGCUG__AU
......((((((((((......)))))))))).(((((((((..............(((((.......)))))...((((.....))))..)))))))))..(((((....))))).... (-14.32 = -18.08 +   3.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:00 2006