Locus 1133

Sequence ID 3R_DroMel_CAF1
Location 3,396,765 – 3,396,885
Length 120
Max. P 0.837063
window1863

overview

Window 3

Location 3,396,765 – 3,396,885
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.65
Mean single sequence MFE -24.88
Consensus MFE -23.16
Energy contribution -22.60
Covariance contribution -0.56
Combinations/Pair 1.09
Mean z-score -1.90
Structure conservation index 0.93
SVM decision value 0.74
SVM RNA-class probability 0.837063
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3396765 120 + 27905053
UCUCGCAGCUGGAAAUUUUGUAUAGCUAUAUAGAGGAAAGUAUUGUUUUUUAUUUUGUGUGGGCUUAUAUACGCAUUUAAUUUUAAUAGCUAUAUAAAUAUUUAUUUAGUUACAUAACAA
....(.(((((((...(((((((((((((.(((((.((((((........))))))(((((........)))))......))))))))))))))))))......))))))).)....... ( -24.40)
>DroSim_CAF1 5694 119 + 1
UCUCGCAGCUGGAAAU-UUGUAUAGCUAUAUAGAGGAAAUUAUUGUUUUUUGUUUUGUGUGGGCUUAUAUACGCAUUUAAUUUUAAUAGCUAUAUAAAUAUUUAUUUAGUUACAUAACAA
....(.(((((((.((-((((((((((((....(((((((....)))))))....((((((........))))))..........)))))))))))))).....))))))).)....... ( -24.60)
>DroEre_CAF1 4057 119 + 1
UCUCGCAGCUGGAAAU-UUGUAUAGCUAUAUAGAGGAAAUUAUUGUUUUUUAUUUUGUGUGGGCUUAUGUACGCAUUUAAUUUUAAUAGCUAUAUAAAUAUUUAUUUAGUUACAUAACAA
....(.(((((((.((-((((((((((((....(((((((....)))))))(((..(((((..(....)..)))))..)))....)))))))))))))).....))))))).)....... ( -26.20)
>DroYak_CAF1 9393 118 + 1
-CCCGCAGCUGGAAAU-UUGUGUAGCUAUAUAGAGGAAAUUAUUGUUUUUUAUUUUGUGUGGGCUUAUAUACGCAUUUAAUUUUAAUGGCUAUAUAAAUAUUUAUUUAGUUACAUAACAA
-...(.(((((((.((-((((((((((((....(((((((....)))))))....((((((........))))))..........)))))))))))))).....))))))).)....... ( -24.30)
>consensus
UCUCGCAGCUGGAAAU_UUGUAUAGCUAUAUAGAGGAAAUUAUUGUUUUUUAUUUUGUGUGGGCUUAUAUACGCAUUUAAUUUUAAUAGCUAUAUAAAUAUUUAUUUAGUUACAUAACAA
....(.(((((((....((((((((((((((((((((........))))))))..((((((........))))))..........)))))))))))).......))))))).)....... (-23.16 = -22.60 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:53 2006