Locus 6136

Sequence ID 2R_DroMel_CAF1
Location 19,321,789 – 19,321,884
Length 95
Max. P 0.689900
window9823

overview

Window 3

Location 19,321,789 – 19,321,884
Length 95
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 84.51
Mean single sequence MFE -42.20
Consensus MFE -35.10
Energy contribution -36.66
Covariance contribution 1.56
Combinations/Pair 1.14
Mean z-score -1.60
Structure conservation index 0.83
SVM decision value 0.33
SVM RNA-class probability 0.689900
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19321789 95 + 20766785
AGCGCCAUUUGGGGGAGUUCAAGGCUCCGCCGAUUACGGUUAAUGGGUCACUCGAACAAUCCGGUUCCGCGUUGUCC------------------GGGUGUUUCGGGUGAUCC
...(((..((((.(((((.....))))).))))....)))....((((((((((((..((((((...........))------------------))))..)))))))))))) ( -42.30)
>DroSec_CAF1 73718 113 + 1
AGCGCCAUUUGGGGGAGUUCAAGGCUCCGCCGAUUACGGUUAAUGGGUCACUCGAACAAUCCGGUUCCGCGUAGUCCGGCUGUUCCGGGUAUUCCGGGUGUUUCUGGUGAUCC
...(((..((((.(((((.....))))).))))....)))....((((((((.(((..((((((.((((..(((.....)))...))))....))))))..))).)))))))) ( -43.70)
>DroSim_CAF1 60370 113 + 1
AGCGCCAUUUGGGGGAGUUCAAGGCUCCGCCGAUUACGGUUAAUGGGUCACUCGAACAAUCCGGUUCCGCGUAGUCCGGCUGUUCCGGGUAUUCCGGGUGUUUCGGGUGAUCC
...(((..((((.(((((.....))))).))))....)))....((((((((((((..((((((.((((..(((.....)))...))))....))))))..)))))))))))) ( -48.70)
>DroYak_CAF1 65642 110 + 1
AGCGCCAUUUGGGGGAGUUCAAGGCUCCGCCGAUUACGGUUAAUGGGUCACUCGGACAAUCCGGUUCCGCAUAAUCUGCGUAAUGCGGGUAUUCUUGGUAUUCUGGGU-AU--
...(((..((((.(((((.....))))).))))....))).........(((((((..(((.((.(((((((.((....)).)))))))....)).)))..)))))))-..-- ( -34.10)
>consensus
AGCGCCAUUUGGGGGAGUUCAAGGCUCCGCCGAUUACGGUUAAUGGGUCACUCGAACAAUCCGGUUCCGCGUAGUCCGGCUGUUCCGGGUAUUCCGGGUGUUUCGGGUGAUCC
...(((..((((.(((((.....))))).))))....)))....((((((((((((..((((((..........(((((.....)))))....))))))..)))))))))))) (-35.10 = -36.66 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:37 2006