Locus 1353

Sequence ID 3L_DroMel_CAF1
Location 3,947,460 – 3,947,550
Length 90
Max. P 0.572566
window2104

overview

Window 4

Location 3,947,460 – 3,947,550
Length 90
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 75.24
Mean single sequence MFE -24.21
Consensus MFE -10.90
Energy contribution -12.02
Covariance contribution 1.11
Combinations/Pair 1.06
Mean z-score -1.88
Structure conservation index 0.45
SVM decision value 0.08
SVM RNA-class probability 0.572566
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3947460 90 - 23771897
---------GAGA------GCUUGUCCGUCGAU-UUCAAUUCACAA-AACAUUCGACAAGUGCAGAGUGA-ACAAGUUGUUGU-UGCUGAAGCAACGAACGGAAAACGA
---------....------.....(((((((((-((...(((((..-..((((.....))))....))))-).))))))((((-(((....))))))))))))...... ( -20.20)
>DroVir_CAF1 18235 85 - 1
-----GU--GUG--------CUGU----UCGUA-UUCAAUUCACAC-AACAUUCGACAAGUGCAGAGUGAAACAAGUUGUUGU-UGCUGAAACA--CAGCGAACAACGA
-----((--(((--------.((.----.....-..))...)))))-..(((((..(....)..))))).......(((((((-(((((.....--)))).)))))))) ( -21.70)
>DroPse_CAF1 20075 97 - 1
---------GCGCUCGCUCGUCUCUCAGUCGAU-UUCAAUUCACAA-AACAUUCGACAAGUGCAGAGUGAAACAAGUUGUUGU-UGCUGAAGCGAGCAGCAAACAACGA
---------..(((.(((((.((.((((.((((-..(((((.....-..(((((..(....)..))))).....)))))..))-))))))))))))))))......... ( -28.60)
>DroGri_CAF1 21319 96 - 1
UCUUUCUACUUGC------GCUGC----UCGAAAUUCAAUUGAGGAAAACAUUCGACAAGUGCAGAGUGAAACAAGUUGUUGU-UGCUGAAACA--CAGCGAACAACGA
..((((.((((((------(((..----(((((.(((.......)))....)))))..)))))).)))))))....(((((((-(((((.....--)))).)))))))) ( -27.40)
>DroAna_CAF1 19769 82 - 1
---------------------CUCUCAGUGGAU-UUCAAUUCACAA-AACAUUCGACAAGUGCAGAGUGA-ACAAGUUGUUGU-UGCUGAAACAACGAACGGAAAA--A
---------------------......((((((-....))))))..-..(((((..(....)..))))).-.(...(((((((-(.....))))))))...)....--. ( -17.40)
>DroPer_CAF1 20016 98 - 1
---------GCGCUCGCUCGUCUCUCAGUCGAU-UUCAAUUCACAA-AACAUUCGACAAGUGCAGAGUGAAACAAGUUGUUGUUUGCUGAAGCGAGCAGCAAACAACGA
---------....((((((....((..(((((.-............-.....))))).))....))))))......(((((((((((((.......))))))))))))) ( -29.97)
>consensus
_________GCGC______GCCUCUCAGUCGAU_UUCAAUUCACAA_AACAUUCGACAAGUGCAGAGUGAAACAAGUUGUUGU_UGCUGAAACAA_CAGCGAACAACGA
.................................................(((((..(....)..))))).......(((((((.(((((.......))))).))))))) (-10.90 = -12.02 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:24 2006