Locus 7832

Sequence ID 3R_DroMel_CAF1
Location 20,983,999 – 20,984,115
Length 116
Max. P 0.817083
window12625

overview

Window 5

Location 20,983,999 – 20,984,115
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.33
Mean single sequence MFE -26.38
Consensus MFE -19.25
Energy contribution -18.75
Covariance contribution -0.50
Combinations/Pair 1.17
Mean z-score -1.96
Structure conservation index 0.73
SVM decision value 0.67
SVM RNA-class probability 0.817083
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20983999 116 + 27905053
---UUUGCCCUUUGAAGUAAAAAGGUAAAUUGACAAAGCGCAAAUAUCUAAAAUUGCUUGCUAAAUUGCAGAAUAAUGUUUGUGACAUGAUUUUGUUUG-CUUUGUUAACCGUUUAGUUC
---((((((.(((......))).))))))((((((((((((((.((........)).))))......(((((((.(((((...))))).)))))))..)-)))))))))........... ( -27.40)
>DroSec_CAF1 24477 119 + 1
UUUUUUGCCCUUUGAAGUAAAAAGGUAAAUUGACAAAGAGCAAAUAUCUAAAAUUGCUUCGUAAAUUGCAGAAUAAUGUUUGCGACAUGAUUUUGUUUG-CUUUGUUAAGAGUUUAGUUA
...((((((.(((......))).))))))((((((..(((((((((....((((((..((((((((...........))))))))..))))))))))))-)))))))))........... ( -25.80)
>DroEre_CAF1 26402 110 + 1
UUUUUUGCCCUUUGAAGUAAAAAGGCAAAUUGACAAAGAGCAAAUAUCUGAAAUUGCUUAGCAAAUUGCAAAAUAAUGUUUGCGACAUGAUU----------UUGUUAACAGUUUAGUUA
...((((((.(((......))).))))))((((((((((((((..........))))))..((..(((((((......)))))))..))..)----------)))))))........... ( -23.00)
>DroYak_CAF1 25662 120 + 1
UUUUUUGGCCUUUGAAGUAAAAAGGUAAAUUGACAAAGAGCAAAUAACUGAAAUUGCUUAGUAAAUUGCAAAAUAAUGUUUGCGACUUGAUUUGCAUUGCCUUUGUCAGGAGUUUAGUUA
.......((((((.......))))))...(((((((((.((((...(((((......)))))....((((((.(((.(((...)))))).)))))))))))))))))))........... ( -29.30)
>consensus
UUUUUUGCCCUUUGAAGUAAAAAGGUAAAUUGACAAAGAGCAAAUAUCUAAAAUUGCUUAGUAAAUUGCAAAAUAAUGUUUGCGACAUGAUUUUGUUUG_CUUUGUUAACAGUUUAGUUA
...((((.(((((.......)))))))))(((((((((.((((..........))))........(((((((......)))))))...............)))))))))........... (-19.25 = -18.75 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:52 2006