Locus 7049

Sequence ID X_DroMel_CAF1
Location 17,660,176 – 17,660,290
Length 114
Max. P 0.824405
window11520

overview

Window 0

Location 17,660,176 – 17,660,290
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 80.17
Mean single sequence MFE -30.32
Consensus MFE -18.31
Energy contribution -19.50
Covariance contribution 1.19
Combinations/Pair 1.13
Mean z-score -2.12
Structure conservation index 0.60
SVM decision value 0.69
SVM RNA-class probability 0.824405
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17660176 114 - 22224390
AUAUAA------CGUCUAGAAGGCGACAUUCUCAUCGGUCGAUUUAAGUUCAAAUUAAGCACUCAAAUGCGCCUCAAAUAUUGCUGAUAAGUUGGUUUUUCCGCACAUUCAGCGAUAUUU
......------......((.((((.((((......(.(..((((......))))..).).....))))))))))((((((((((((...(((((.....))).))..)))))))))))) ( -26.70)
>DroSec_CAF1 6666 114 - 1
AUAUAA------CGUCUAUAAGGCAGCCUUAUAAUCGGUCGAUUUAAGUGGGACUUAUACACUCCGAUGUGCCACAAAUAUUGCUGAUAAGUUGGAUUUUCCGCACAUUCAGCGAUAUUU
......------((..(((((((...)))))))..))..........((((.((..............)).))))((((((((((((...(((((.....))).))..)))))))))))) ( -31.74)
>DroEre_CAF1 4385 113 - 1
GCAUGC------CGCCUAUAAGGCAGCCUUUCCACCGGUCGAUUUUAGAGGGCAAUAUUCACG-AAACGCGCCUCAAAUAUUGCUGAUAAGUUGGAUUUUCCGCACAUUCAGCGAUAUUU
((.(((------(........))))))....................((((((..........-....)).))))((((((((((((...(((((.....))).))..)))))))))))) ( -31.54)
>DroYak_CAF1 4085 119 - 1
ACAUACCUACAACGCCUACAAGGCAGCAUUUUCAUCGCUCGAUUUUAGUGGGAAUUAUGCACG-GAACGCGCAUCAAAUAUUGCUGAUAAGCUGCAUUUUCCGCACAUUCAGCGAUAUUU
.....(((((...(((.....)))(((.........)))........)))))....((((.((-...)).)))).((((((((((((...(.(((.......))))..)))))))))))) ( -31.30)
>consensus
ACAUAA______CGCCUAUAAGGCAGCAUUUUCAUCGGUCGAUUUAAGUGGGAAUUAUGCACG_AAACGCGCCUCAAAUAUUGCUGAUAAGUUGGAUUUUCCGCACAUUCAGCGAUAUUU
.............(((.....)))............(((((.(((.((((.........)))).))))).)))..((((((((((((.....(((.....))).....)))))))))))) (-18.31 = -19.50 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:00 2006