Locus 7340

Sequence ID	3L_DroMel_CAF1
Location	19,701,183 – 19,701,281
Length	98
Max. P	0.577890

overview

Window 0

Location	19,701,183 – 19,701,281
Length	98
Sequences	4
Columns	114
Reading direction	forward
Mean pairwise identity	89.30
Mean single sequence MFE	-24.95
Consensus MFE	-18.55
Energy contribution	-20.30
Covariance contribution	1.75
Combinations/Pair	1.00
Mean z-score	-1.57
Structure conservation index	0.74
SVM decision value	0.09
SVM RNA-class probability	0.577890
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19701183 98 + 23771897
GCAACGGCCGCCAAAAGGCACAAAAUACAACAGCAAGAAGGCACAACAACU--CAAGUCAAGCCGAGUUGCAGAGCUCUCGUCUUGGCAAACUUAAAC--------------UC
......((((((....)))...........(.....)..))).........--...((((((.((((..((...)).)))).))))))..........--------------.. ( -21.80)
>DroSec_CAF1 15279 111 + 1
GCAACGGCCGCCAAAAGGCACAAAAUACAACAGCAAGAAGGCACAACAACUCUCAAGACAAGCCAAGUUGCAGAGCUCUCGUCUUGGCAAACUUCAACUCGGAAGC---AGCUC
((((((((.(((....))).............((......))...................)))..)))))...(((..((..((((......))))..))..)))---..... ( -25.90)
>DroSim_CAF1 17346 111 + 1
GCAACGGCCGCCAAAAGGCACAAAAUACAACAGCAAGAAGGCACAACAACUCUCAAGACAAGCCGAGUUGCAGAGCUCUCGUCUUGGCAAACUUCAACUCGGAAGC---AGCUC
((((((((.(((....))).............((......))...................)))..)))))...(((..((..((((......))))..))..)))---..... ( -25.90)
>DroEre_CAF1 16368 112 + 1
GCAACGGCCGCCAAAAGGCACAAAAUACAACAGCAAAAAAGCACAACAACU--CAAGUCAAGCCGAGUUGCAGAGCUCUCGUCUUUGCAAACUUCAGCUCGGAAGCAUCAGCUC
((...(((.(((....))).............((......)).........--...)))...((((((((((((((....).))))))).......))))))..))........ ( -26.21)
>consensus
GCAACGGCCGCCAAAAGGCACAAAAUACAACAGCAAGAAGGCACAACAACU__CAAGACAAGCCGAGUUGCAGAGCUCUCGUCUUGGCAAACUUCAACUCGGAAGC___AGCUC
((((((((.(((....))).............((......))...................)))..))))).(((((...((....))...((((......))))....))))) (-18.55 = -20.30 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:22 2006