Locus 4880

Sequence ID X_DroMel_CAF1
Location 12,693,273 – 12,693,375
Length 102
Max. P 0.609169
window7965

overview

Window 5

Location 12,693,273 – 12,693,375
Length 102
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 78.12
Mean single sequence MFE -15.49
Consensus MFE -12.82
Energy contribution -12.82
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.32
Structure conservation index 0.83
SVM decision value 0.15
SVM RNA-class probability 0.609169
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12693273 102 + 22224390
AAACAAGUCAAUUUGCAUUCCGGCUUAAACGAACAUCGCCGGGUUAGUUAAUGUUGCAAAAAAGGUUAAAACAAAAAGAAAAAA----AAAAUUAAA--------UGAAAAGAA
...........((((((.((((((.............))))))...........))))))........................----.........--------......... ( -12.82)
>DroSec_CAF1 46235 88 + 1
AAACAAGUCAAUUUGCAUUCCGGCUUAAACGAACAUCGCCGGGUUAGUUAAUGUUGCAAAAAAGGUUAA------AAAAAAGAA----G----------------AGUAAGGAA
...........(((((..((((((.............))))))....(((((.((......)).)))))------.........----.----------------.)))))... ( -14.02)
>DroSim_CAF1 32328 94 + 1
AAACAAGUCAAUUUGCAUUCCGGCUUAAACGAACAUCGCCGGGUUAGUUAAUGUUGCAAAAAAGGUUAAAACAAAAAAAAAGAA----G----------------AGUAAAGAA
...........(((((...(((((.............)))))(((..(((((.((......)).))))))))............----.----------------.)))))... ( -14.42)
>DroYak_CAF1 49785 114 + 1
AAGCAAGUCAAUUUGCAUUCCGGCUUAAACGAACAUCGCCGGGUUAGUUAAUGUUGCAAAAACCGUAAAAAAAAACAAAACGAAGCGAAAAAGUAUAAGAAUUACGACUGAGAA
.....((((..(((((..((((((.............))))))...(((....((((.......)))).....)))........)))))...(((.......)))))))..... ( -20.72)
>consensus
AAACAAGUCAAUUUGCAUUCCGGCUUAAACGAACAUCGCCGGGUUAGUUAAUGUUGCAAAAAAGGUUAAAACAAAAAAAAAGAA____A________________AGUAAAGAA
...........((((((.((((((.............))))))...........))))))...................................................... (-12.82 = -12.82 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:13 2006