Locus 821

Sequence ID 3L_DroMel_CAF1
Location 2,503,935 – 2,504,027
Length 92
Max. P 0.542086
window1262

overview

Window 2

Location 2,503,935 – 2,504,027
Length 92
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 81.89
Mean single sequence MFE -25.65
Consensus MFE -14.10
Energy contribution -15.07
Covariance contribution 0.96
Combinations/Pair 1.17
Mean z-score -2.21
Structure conservation index 0.55
SVM decision value 0.02
SVM RNA-class probability 0.542086
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2503935 92 + 23771897
GCUGUCGCUGCUGCAAUUUAUGUAAAUUGCGGGCUAGUCCGA-AAGAGCCAGU-GCCAGAGAGAAAGAGUUGUAUGCCAAAAAGGCAAGAUCAG
.(((.((((((((((((((....)))))))))....(..(..-..)..)))))-).)))...............((((.....))))....... ( -26.40)
>DroSec_CAF1 127079 89 + 1
GCUGUCGCUGCUGCAAUUUAUGUAAAUUGCGGGCUAGU-CGA-AAGAGCCAGU-GCCAGAGAG--AGAGUUGUAUGCCAAAAAGGCGAGAUCAG
.(((.((((((((((((((....))))))))).....(-(..-..))..))))-).)))....--.........((((.....))))....... ( -25.60)
>DroSim_CAF1 122418 89 + 1
GCUGUCGCUGCUGCAAUUUAUGUAAAUUGCGGGCUAGU-CGA-AAGAGCCAGU-GCCAGAGAG--AGAGUUGUAUGCCAAAAAGGCGAGAUCAG
.(((.((((((((((((((....))))))))).....(-(..-..))..))))-).)))....--.........((((.....))))....... ( -25.60)
>DroEre_CAF1 127595 87 + 1
GCUGUCGCUGCUGCAAUUUAUGUAAAUUGCGGGCUAGU-CGA-AAGAGCCAGU-GCCAGAG----AGAGUUGAAUGCCAAAAAGGCGAGAUCAG
(((.((.((((((((((((....)))))))))(((.((-(..-..)).).)))-..))).)----).)))(((.((((.....))))...))). ( -26.00)
>DroYak_CAF1 125997 89 + 1
GCUGUCGCUGCUGCAAUUUAUGUAAAUUGCGGGCUAGU-AGAAAAGAGCCAGCAGAGAGAG----AGUGUUGAAUGCCAAAAAGGCGAGAUCAG
(((.((.((((((((((((....))))))).((((..(-....)..)))))))))...)).----)))..(((.((((.....))))...))). ( -28.40)
>DroAna_CAF1 106069 71 + 1
GCU-UCUUCCCAGCAAUUUAUGUAAAUUGUUGGACCGA-C---AAGAG------G--AAAGGC--AAAGUUGAAUGC--AAGAGGCAA------
(((-((((.((((((((((....)))))))))).((..-.---....)------)--....((--(........)))--)))))))..------ ( -21.90)
>consensus
GCUGUCGCUGCUGCAAUUUAUGUAAAUUGCGGGCUAGU_CGA_AAGAGCCAGU_GCCAGAGAG__AGAGUUGAAUGCCAAAAAGGCGAGAUCAG
.(((..(((((((((((((....)))))))))(((...........)))))))...)))...............((((.....))))....... (-14.10 = -15.07 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:00 2006