Locus 7893

Sequence ID X_DroMel_CAF1
Location 19,668,001 – 19,668,119
Length 118
Max. P 0.595433
window12950

overview

Window 0

Location 19,668,001 – 19,668,119
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.06
Mean single sequence MFE -49.88
Consensus MFE -28.74
Energy contribution -31.85
Covariance contribution 3.11
Combinations/Pair 1.14
Mean z-score -1.79
Structure conservation index 0.58
SVM decision value 0.12
SVM RNA-class probability 0.595433
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19668001 118 - 22224390
--GCCCAACAGCAACGGAUCGUUGCCCCCGGCAGUGCCGGCCAAACCCAUGAAGCCAGCAGUGAAGCAGGCGGCGGGCGGUCUCAAGGCCGCGCCACCAUACAAGGCGCCGCCGGAUUAC
--........((((((...))))))..(((((.(((((((......)).((..(((.((......)).)))((.((((((((....)))))).)).))...)).))))).)))))..... ( -52.60)
>DroSec_CAF1 41473 120 - 1
AUGCCCAACAGCAACGGAUCGUUGCCCCCGGCGGUGCCGGCCAAGCCUAUGAAGCCAGCAGUGAAGCAGGCGGCGGGCGGUCUCAAGGCCGCGCCGCCAUACAAGGCGCCGCCGGAUUAC
..........((((((...))))))..((((((((((((((...)))..((..(((.((......)).)))(((((((((((....)))))).)))))...)).)))))))))))..... ( -66.00)
>DroEre_CAF1 53566 118 - 1
--GCCCAACAGCAACGGGUCGUUGCCCCCGGCAGUGCCGGCCAAGCCCAUGAAGCCAGCAGUGAAGCAGGCGGCGGGCGGUCUCAAGGCCGCGCCACCAUACAAAGCGCCGCCGGAUUAU
--........((((((...))))))..(((((.((((.(((...)))..((..(((.((......)).)))((.((((((((....)))))).)).))...))..)))).)))))..... ( -49.90)
>DroWil_CAF1 90764 118 - 1
--GCCGAAUAGCAAUGGAUCGCUACCGCCCGCUGUACCAGCAAAGCCCAUUAAACCGGCAGUGAAACAACAGGGUGUCAUCCUGAAGGCAGCACCGCCAUAUAAAGCACCACCAGAUUAU
--((((......(((((...((....))..((((...)))).....)))))....)))).(((......((((((...))))))..(((......)))...........)))........ ( -27.60)
>DroYak_CAF1 55483 118 - 1
--GCCCAACAGCAACGGAUCGUUGCCCCCGGCGGUGCCGGCCAAGCCCAUGAAGCCAGCAGUGAAGCAGGCGGCGGGCGGUCUCAAGGCCGCGCCACCAUACAAGGCACCGCCGGAUUAC
--........((((((...))))))..((((((((((((((...)))..((..(((.((......)).)))((.((((((((....)))))).)).))...)).)))))))))))..... ( -60.60)
>DroAna_CAF1 63521 103 - 1
--GCCCAACAGCAACGGCGCCCUGCCGCCGGCCGUGCCGGCCAAGCCCGUGAAGCCCGC---------------CGGAGUGCUGAAGGCUGCUCCGCCGUAUAAGGCGCCGCCGGACUAC
--..((..(((((.(((((..((((.((((((...))))))...))......))..)))---------------))...)))))..(((.((...(((......))))).)))))..... ( -42.60)
>consensus
__GCCCAACAGCAACGGAUCGUUGCCCCCGGCAGUGCCGGCCAAGCCCAUGAAGCCAGCAGUGAAGCAGGCGGCGGGCGGUCUCAAGGCCGCGCCACCAUACAAGGCGCCGCCGGAUUAC
..........((((((...))))))..(((((.((((((((............)))...............((.((((((((....)))))).)).))......))))).)))))..... (-28.74 = -31.85 +   3.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:10 2006