Locus 3277

Sequence ID 2L_DroMel_CAF1
Location 9,487,973 – 9,488,085
Length 112
Max. P 0.802382
window5204

overview

Window 4

Location 9,487,973 – 9,488,085
Length 112
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 79.65
Mean single sequence MFE -28.40
Consensus MFE -18.85
Energy contribution -19.36
Covariance contribution 0.50
Combinations/Pair 1.28
Mean z-score -1.72
Structure conservation index 0.66
SVM decision value 0.62
SVM RNA-class probability 0.802382
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9487973 112 + 22407834
GGUUGCGGAUGAUGUUGCACAGUGUCGCAAGCGAUAAUGAAGUUGUUGACAAGCUCGUGGGCCA----AAGGCAAGAAAAUGCAAGGCAACAGCA---GCCGUGACAAUGGGAAUAGGA
.((..(((.((.((((((.((.(((((....))))).))...(((((.....(((....)))..----..)))))...........)))))).))---.)))..))............. ( -32.80)
>DroPse_CAF1 45173 107 + 1
CA------AGGAUGUUUUACAGUGUCGAAAGCAAUAAUGAAGUUGUUGCCCAGCUCU--GGCCAAAAGAAGGCACUACAAUG----GCAAUGGAAAUGGAAAUGACAAAGAGCAUAAUA
..------...(((((((....(((((...((((((((...))))))))(((..(((--.((((..((......))....))----))...)))..)))...))))).))))))).... ( -25.00)
>DroSec_CAF1 45645 106 + 1
GGU------UGAUGUUGCACAGUGUCGCAAGCGAUAAUGAAGUUGUUGACAAGCUCGUGGGCCA----AAGGCAAGAAAAUGCAAGGCAACAGCA---GCUGUGACAAUGGGAAUAGGA
.((------(..(((((((((((((((....))))......(((((((.(..(((....)))..----...(((......)))..).))))))).---)))))).)))))..))).... ( -29.90)
>DroEre_CAF1 46480 106 + 1
GG------AUGAUGUUGCACAGUGUCGCAAGCGAUAAUGAAGUUGUUGACAAGCUCGUGGUCCA----AAGGCAGGAAAAUGCAAGGCAACAGCA---GCCGUGACAAUGGGAAUAGGA
..------....(((..(.((.(((((....))))).))..(((((((....((((((..(((.----......)))..)))...)))..)))))---)).)..)))............ ( -26.00)
>DroYak_CAF1 47301 109 + 1
GC------AUGAUGUUGCACAGUGUCGCAAGCGAUAAUGGAGUUGUUGACAAGCUCGUGGGCCAG-AAAAGGCAAGAAAAUGCAAGGCAACAGCA---GCCGUGACAAUGGGAAUAGCA
((------.((.((((((.((.(((((....))))).))(((((.......)))))....(((..-....))).............)))))).))---.((((....)))).....)). ( -30.30)
>DroAna_CAF1 63920 106 + 1
GA------AUGAUAUGGCACAGUGUCGCAAGCGAUAAUGAAGUUGUUGACAAGCUCUUGGGCCA----AUGGCAAGAAAAUGCUAAACAACAAUA---ACAACGGCCGAGGCAAUAGGA
..------.((...((((.((.(((((....))))).))..(((((((....(((....)))..----.(((((......))))).....)))))---))....))))...))...... ( -26.40)
>consensus
GG______AUGAUGUUGCACAGUGUCGCAAGCGAUAAUGAAGUUGUUGACAAGCUCGUGGGCCA____AAGGCAAGAAAAUGCAAGGCAACAGCA___GCCGUGACAAUGGGAAUAGGA
............((((((.((.(((((....))))).))..(((((((....((......(((.......)))........))....))))))).......))))))............ (-18.85 = -19.36 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:39 2006