Locus 1217

Sequence ID 3R_DroMel_CAF1
Location 3,665,676 – 3,665,791
Length 115
Max. P 0.596237
window1988

overview

Window 8

Location 3,665,676 – 3,665,791
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.35
Mean single sequence MFE -25.40
Consensus MFE -20.87
Energy contribution -20.06
Covariance contribution -0.81
Combinations/Pair 1.12
Mean z-score -1.52
Structure conservation index 0.82
SVM decision value 0.13
SVM RNA-class probability 0.596237
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3665676 115 - 27905053
UCAUUGAGUUGGCAGUUUCCACGGAAUCCAUCUGCAAAUGUUAAUUA---A--UCAAGAAGAUUGACUUUAUGGUGAGUGCACUAAUUAUUUACGCAUUGCCACAUGACAUUUAACAUCU
.......(((.((((.(((....))).....))))((((((((.(((---(--((.....)))))).....((((.(((((.............)))))))))..))))))))))).... ( -23.92)
>DroSec_CAF1 24333 115 - 1
CCAUUGAGUAGGCAGUUUCCACGAAAUCCAUCUGCAGAUGUUAAUUA---A--UCAAGAAGAUUGACUUUAUGGUGAGUGCACUAAUUAUUUACGCACUGCCACAUGACAUUUAACAAUU
..((((.(((((..(((((...)))))...)))))((((((((.(((---(--((.....)))))).....((((.(((((.............)))))))))..))))))))..)))). ( -25.12)
>DroSim_CAF1 26586 115 - 1
CCAUUGAGUAGGCAGUUUCCACGAAAUCCAUCUGCAGAUGUUAAUUA---A--UCAAGAAGAUUGACUUUAUGGUGAGUGCACUAAUUAUUUACGCACUGCCACAUGACAUUUAACAACU
...(((.(((((..(((((...)))))...)))))((((((((.(((---(--((.....)))))).....((((.(((((.............)))))))))..))))))))..))).. ( -24.42)
>DroEre_CAF1 23499 119 - 1
CCACUGAGUAGGCAGUUUCCAAGAAA-CCAUCUGCGAAUGUUAAUUAUCAAAUUGAAGAAGAUUAACUUUUUGGUGAGUGCACUAAUUAUUUACGCACUGCCACAUGACAUUCAACAACU
.......(((((..(((((...))))-)..)))))((((((((............((((((.....))))))(((.(((((.............))))))))...))))))))....... ( -28.12)
>consensus
CCAUUGAGUAGGCAGUUUCCACGAAAUCCAUCUGCAAAUGUUAAUUA___A__UCAAGAAGAUUGACUUUAUGGUGAGUGCACUAAUUAUUUACGCACUGCCACAUGACAUUUAACAACU
...........((((................))))((((((((..............((((.....)))).((((.(((((.............)))))))))..))))))))....... (-20.87 = -20.06 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:51 2006