Locus 36

Sequence ID 2R_DroMel_CAF1
Location 1,253,059 – 1,253,173
Length 114
Max. P 0.816345
window63

overview

Window 3

Location 1,253,059 – 1,253,173
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.74
Mean single sequence MFE -35.72
Consensus MFE -29.23
Energy contribution -29.60
Covariance contribution 0.37
Combinations/Pair 1.07
Mean z-score -1.91
Structure conservation index 0.82
SVM decision value 0.67
SVM RNA-class probability 0.816345
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1253059 114 + 20766785
GGGCGCUGGCCAGGGAGCAAGAACAAAU-AGCUGAGCCAUACAC-----CGAUGUGGAACAAAACCAAUUCAGCGCUUUGCGUACAAAACGCAACUAAUGGCAAGCAGCAGCGGUACCCU
(((..(((((......))..........-.((((.(((((....-----.((..(((.......)))..))......((((((.....))))))...)))))...))))..)))..))). ( -33.40)
>DroSec_CAF1 4794 114 + 1
GGGCGCUGGCCAGGGAGCGAGAACAAAU-AGCUGAGCCAAACAC-----CGGUGUGGAACAAAACCAAUUCAGCGCUUUGCGUACAAAACGCAACUAAUGGCAAGCAGCAGCGGUACCCU
(((..(((((......))..........-.((((.((((.....-----.(((((.(((.........))).)))))((((((.....))))))....))))...))))..)))..))). ( -33.90)
>DroSim_CAF1 10918 114 + 1
GGGCGCUGGCCAGGGAGCGAGAACAAAU-AGCUGAGCCAAACAC-----CGAUGGGGAACAAAACCAAUUCAGCGCUUUGCGUACAAAACGCAACUAAUGGCAAGCAGCAGCGGUACCCU
(((..(((((......))..........-.((((.((((.....-----.((..((........))...))......((((((.....))))))....))))...))))..)))..))). ( -32.90)
>DroEre_CAF1 9050 119 + 1
GGGUGCCGGCCAAGGAGCGAGAACGAAUAAGCUGAGCCAUACACCACACCGAUGUGGAACAAUAACAAUUCAGCGCUUUGCGUAAAAA-CGCAACUAAUGGCAAGCAGCAACGGUACCCU
((((((((((......))............((((.(((((...(((((....)))))....................((((((....)-)))))...)))))...))))..)))))))). ( -42.70)
>consensus
GGGCGCUGGCCAGGGAGCGAGAACAAAU_AGCUGAGCCAAACAC_____CGAUGUGGAACAAAACCAAUUCAGCGCUUUGCGUACAAAACGCAACUAAUGGCAAGCAGCAGCGGUACCCU
(((.((((((......))............((((.((((...........((..(((.......)))..))......((((((.....))))))....))))...))))..)))).))). (-29.23 = -29.60 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:08 2006