Locus 527

Sequence ID 3L_DroMel_CAF1
Location 1,552,880 – 1,552,986
Length 106
Max. P 0.547627
window791

overview

Window 1

Location 1,552,880 – 1,552,986
Length 106
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 87.03
Mean single sequence MFE -29.33
Consensus MFE -21.75
Energy contribution -22.25
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.44
Structure conservation index 0.74
SVM decision value 0.03
SVM RNA-class probability 0.547627
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1552880 106 + 23771897
CCGCUGUAGGCCAUUC-UUUUAGCCCCAAACAAGAGCGACGACGUCAGUGGGCGACGCGACUGGCGUCAGGUGAAAAAAA----GAAAGAAAAACGUA---UUGAGAUUUGAAA
.(...(((.(...(((-((((.(((........).))...(((((((((.(......).)))))))))............----)))))))...).))---)...)........ ( -22.50)
>DroSec_CAF1 10589 110 + 1
CCGAUUUAGGCCAUUC-UCUUAGCCCCAAAUAAGAGCGACGACGUCAGUGGGCGACGCGACUGGCGUCAGGUGAAAAAAAAAACGAAAGAAAAACGGA---UUGGGAUUCAAAA
(((((((..(((...(-(((((........))))))....(((((((((.(......).))))))))).)))...........(....)......)))---))))......... ( -32.20)
>DroSim_CAF1 10697 110 + 1
CCGAUCUAGGCCAUUC-UCUAAGCCCCAAAUAAGAGCGACGACGUCAGUGGGCGACGCGACUGGCGUCAGGUGAAAAAAAAAACGAAAGAAAAACGGA---UUGGGAUUCGAAA
(((((((..(((...(-(((............))))....(((((((((.(......).))))))))).)))...........(....)......)))---))))......... ( -31.00)
>DroYak_CAF1 11453 109 + 1
CCGAUCUAGGCCAUUUUUCUUAGCCUCAACGAAGAGCGACGACGUCAGUGGGCGACGCGACUGGCGUCAGGUGAAA-----AACGAAAGAAAAACGGAUAAUUGGAUAUUGAAA
...((((((.((.((((((((.((.((......))))...(((((((((.(......).)))))))))........-----.....)))))))).))....))))))....... ( -31.60)
>consensus
CCGAUCUAGGCCAUUC_UCUUAGCCCCAAAUAAGAGCGACGACGUCAGUGGGCGACGCGACUGGCGUCAGGUGAAAAAAA_AACGAAAGAAAAACGGA___UUGGGAUUCGAAA
(((......(((..........(((........).))...(((((((((.(......).))))))))).)))...........(....).....)))................. (-21.75 = -22.25 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:19 2006