Locus 5422

Sequence ID 2R_DroMel_CAF1
Location 17,470,500 – 17,470,608
Length 108
Max. P 0.734772
window8649

overview

Window 9

Location 17,470,500 – 17,470,608
Length 108
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 93.57
Mean single sequence MFE -34.40
Consensus MFE -27.77
Energy contribution -28.10
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.81
SVM decision value 0.43
SVM RNA-class probability 0.734772
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17470500 108 + 20766785
UUGUGGAGUGGAUUUCAGUUG---CGGACCGAAGGGUCUGG------GCCUGAAUGGGGUCAUUUACUUUGAGUGUUCGACGCUCAUUUAAAUGCAAAUUUAAAUGAAAUUUUAAUC
....(((((((((........---((((((....))))))(------((((.....))))))))))))))(((((.....)))))((((((((....))))))))............ ( -32.70)
>DroSim_CAF1 6794 108 + 1
UUGUGGAGUGGAUUUCAGUUG---CGGACCGAAGGGUCUGG------GCCUGAAUGGGGUCAUUUACUUUGAGUGUUCGACGCUCAUUUAAAUGCAAAUUUAAAUGAAAUUUUAAUC
....(((((((((........---((((((....))))))(------((((.....))))))))))))))(((((.....)))))((((((((....))))))))............ ( -32.70)
>DroYak_CAF1 6490 117 + 1
UUGUGGAGUGGAUUUCAGUUGGGUCGGUCCAAAGGGUCUGGGCCUGGGCCUGAAUGGGGUCAUUUACUUUGAGUGUUCGACGCUCAUUUAAAUGCAAAUUUAAAUGAAAUUUUAAUC
..(((((...(((..((.(..((((((((((.......))))))..))))..).))..))).)))))...(((((.....)))))((((((((....))))))))............ ( -37.80)
>consensus
UUGUGGAGUGGAUUUCAGUUG___CGGACCGAAGGGUCUGG______GCCUGAAUGGGGUCAUUUACUUUGAGUGUUCGACGCUCAUUUAAAUGCAAAUUUAAAUGAAAUUUUAAUC
.....((..((((((((.......((((((....))))))..........(((((...(.((((((...((((((.....))))))..)))))))..)))))..))))))))...)) (-27.77 = -28.10 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:24 2006