Locus 4737

Sequence ID 3R_DroMel_CAF1
Location 12,423,186 – 12,423,294
Length 108
Max. P 0.688208
window7778

overview

Window 8

Location 12,423,186 – 12,423,294
Length 108
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 90.03
Mean single sequence MFE -43.87
Consensus MFE -36.03
Energy contribution -36.28
Covariance contribution 0.25
Combinations/Pair 1.07
Mean z-score -2.08
Structure conservation index 0.82
SVM decision value 0.32
SVM RNA-class probability 0.688208
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12423186 108 + 27905053
GAACUG---CCUGGCUGUUGGCCAAAAGCAAAGCAACAGGGCGCUGCACAGCUGGUAAACGCCGGCCAGCAGCAUUCCCAAGGCAGCGCUCCACUGCAGCAGCGGGAAGCC
...(((---(((.((((((((((....(((..((......))..)))......(((....))))))))))))).......)))))).(((.(.((((....))))).))). ( -46.20)
>DroSec_CAF1 22076 108 + 1
GAACUG---CUUCGCUGUUGGCCAAAAGCAAAGCAACAGGGCGCUGCACAGCUGGUAAACGCCGGCCAGCAGCAUUCCCAAGGCAGCGCUCCACUGCAGCAGCGGGAAGCC
.....(---((((.((((((((.....))...(((...(((((((((...((((((........))))))..(........))))))))))...)))..))))))))))). ( -45.10)
>DroSim_CAF1 21813 108 + 1
GAACUG---CUUGGCUGUUGGCCAAAAGCAAAGCAACAGGGCGCUGCACAGCUGGUAAACGCCGGCCAGCAGCAUUCCCAAGGCAGCGCUCCACUGCAGCAGCGGGAAACC
...(((---((((((.....))))).......(((...(((((((((...((((((........))))))..(........))))))))))...))).)))).((....)) ( -44.90)
>DroEre_CAF1 22413 108 + 1
GAACUG---GUUGGCUGUUGGCCAAAAGCUGAGCAACAGGGCGCUGCACAGAUGGUAAACGCCGGCCAGCAGCAUUCCCAGAGCAGCGCUCCACUGCAGCAGCGGGAAGCC
...(((---(...((((((((((.....(((.....)))((((.(((.(....))))..))))))))))))))....))))......(((.(.((((....))))).))). ( -43.60)
>DroYak_CAF1 22749 108 + 1
GAACUG---CUUGGCUGUUGGCCAAAAGCAGAGCAACAGGGCGCUGCACAGCUGGUAAACGCCGGCCAGCAGCAUUCCCAAAGCAGCGCUCCACUGCAGCAGCGGGAAGCC
...(((---(((.((((((((((....((((.((......)).))))......(((....))))))))))))).......)))))).(((.(.((((....))))).))). ( -46.90)
>DroAna_CAF1 21743 111 + 1
GAACUGUUGUUUGUUUGAUGGCCAAAAGCAGAGCAUCAGGGCGGCGCAAAGGUGGUAUAUUCCGGCCAUCAGCAUUCCCAGGGCGGCGCCCCACUCGAUCAGCGGGAAGGC
...((((((.(((..(((((((.....))....)))))(((((.(((...((((((........))))))......(....)))).)))))....))).))))))...... ( -36.50)
>consensus
GAACUG___CUUGGCUGUUGGCCAAAAGCAAAGCAACAGGGCGCUGCACAGCUGGUAAACGCCGGCCAGCAGCAUUCCCAAGGCAGCGCUCCACUGCAGCAGCGGGAAGCC
.............((((((((((....((...((......))...))......((......)))))))))))).(((((...((.((((......)).)).)))))))... (-36.03 = -36.28 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:44 2006