Locus 3905

Sequence ID 3R_DroMel_CAF1
Location 10,635,895 – 10,635,989
Length 94
Max. P 0.733663
window6252

overview

Window 2

Location 10,635,895 – 10,635,989
Length 94
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 80.69
Mean single sequence MFE -23.78
Consensus MFE -14.02
Energy contribution -13.30
Covariance contribution -0.72
Combinations/Pair 1.38
Mean z-score -2.08
Structure conservation index 0.59
SVM decision value 0.43
SVM RNA-class probability 0.733663
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10635895 94 - 27905053
GAUGACAACUGUCAAGUGAC----GGAAUCGGCAAAGCC-----AAAAGUGAUAUAAAAAACAUUUGCAGUCGGCUGCGGAUGGCACCAAA-AAAAGCGGUCAC
..((((....)))).(((((----.(....(((...)))-----....(((..........(((((((((....))))))))).)))....-.....).))))) ( -26.20)
>DroPse_CAF1 9055 88 - 1
GCCGACAACUGUCAACUGGUGGCCGGAGGUGGCAAA-----------UGAAACGAAA--AACUUUUACAGUCCGCUGCGGAUGACACCAA---AAAUCGAAAUC
...(((....)))...(((((.(((..(((((....-----------(((((.....--...)))))....))))).)))....))))).---........... ( -20.90)
>DroSec_CAF1 8260 93 - 1
GAUGACAACUGUCAACUGAC----GGAAUCGGCAAAGCC-----AAAAGUGAUAUAA--AACAUUUGCAGUCGGCUGCGGAUGACACCAAAAAAAAGCGGUCAC
..((((..(((((....)))----((....(((...)))-----.............--..(((((((((....)))))))))...)).......))..)))). ( -25.70)
>DroSim_CAF1 8442 92 - 1
GAUGACAACUGUCAACUGAC----GGAAUCGGCAAAGCC-----AAAAGUGAUAUAA--AACAUUUGCAGUCGGCUGCGGAUGACACCAAA-AAAAGCGGUCAC
..((((..(((((....)))----((....(((...)))-----.............--..(((((((((....)))))))))...))...-...))..)))). ( -25.70)
>DroEre_CAF1 8315 96 - 1
GAUGACAACUGUCAACUGGC----GGAAUCGGCAAAGUGAUAUAAAAAGUGAUAUAA--AACAUUUGCAGUCGGUUGCGGAUGACACCAAA--AAAGCGGUCAC
..((((..((......(((.----(..(((.((((..((((.....(((((......--..)))))...)))).)))).)))..).)))..--..))..)))). ( -23.80)
>DroYak_CAF1 8384 85 - 1
GAUGAAAACUGUCAACUGGC----GGAAUCGGCAAAGUGA------------UAUAA--AACAUUUGCAGUCGGCUGCGGAUGACACCAAA-AAAAGCGGUCAC
(((......(((((..((.(----(....)).))...)))------------))...--..(((((((((....)))))))))........-.......))).. ( -20.40)
>consensus
GAUGACAACUGUCAACUGAC____GGAAUCGGCAAAGCC_____AAAAGUGAUAUAA__AACAUUUGCAGUCGGCUGCGGAUGACACCAAA_AAAAGCGGUCAC
(((..(....(((....)))....)..)))...............................(((((((((....)))))))))..................... (-14.02 = -13.30 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:58 2006