Locus 1225

Sequence ID 3R_DroMel_CAF1
Location 3,700,380 – 3,700,489
Length 109
Max. P 0.881359
window2003

overview

Window 3

Location 3,700,380 – 3,700,489
Length 109
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 90.62
Mean single sequence MFE -27.54
Consensus MFE -21.62
Energy contribution -22.26
Covariance contribution 0.64
Combinations/Pair 1.05
Mean z-score -1.92
Structure conservation index 0.79
SVM decision value 0.92
SVM RNA-class probability 0.881359
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3700380 109 - 27905053
ACACCACAAAUUGGGCACCGUUCCAUGUGCCCAGUAUUCAUGCCAAAUAAGUGGCAAUUACCUUUUGGAAAAUUCAUUAAAAAUCACUUGGUGUCAGCGCA-----CUGACCC-U
...(((...(((((((((........))))))))).....(((((......))))).........))).....................((.(((((....-----)))))))-. ( -31.40)
>DroSec_CAF1 58448 108 - 1
ACACCACAAAUUGGGCACCGCUCCAUGUGACCAGUAUUCAUGCCAAAUAAGUGGCAAUUACCUUUUGGAAAAUUCAUUAAAAAUCACUUGGUGCCAGCGCA-----CUGACGC--
.............(((((((......((((..........(((((......)))))....((....))...............)))).))))))).(((..-----....)))-- ( -24.50)
>DroSim_CAF1 60929 108 - 1
ACACCACAAAUUGGGCACCGCUCCAUGUGACCAGUAUUCAUGCCAAAUAAGUGGCAAUUACCUUUUGGAAAAUUCAUUAAAAAUCACUUGGUGCCAGCGCA-----CUGACCC--
...(((.....)))((.(.((.(((.((((..........(((((......)))))....((....))...............)))).))).))..).)).-----.......-- ( -23.20)
>DroEre_CAF1 58495 115 - 1
ACGCCACAAAUUGGGCACCGCGCCAUGCGCCCAGUAUUCAUGCCAAAUAAGUGGCAAUUAACUCGUGGAAAAUUCAUUAAAAAUCACUUGGUGCCAGCGCUCUGACCUGACCCCU
..........(..((((..((((...(((((.(((.....(((((......)))))........(((((...)))))........))).)))))..))))..)).))..)..... ( -30.00)
>DroYak_CAF1 56567 111 - 1
ACACCACAAAUUGGGCACCGCUCCAUGCGCCCAGUAUUCAUGCCAAAUAAGUGGCAAUUACCUCCUGGAAAAUUAAUAAAGAAUCACUUGGUGCCAGCGCC----UCUGACGCCU
.(((((...(((((((...((.....)))))))))((((.(((((......)))))....((....))............))))....)))))...(((..----.....))).. ( -28.60)
>consensus
ACACCACAAAUUGGGCACCGCUCCAUGUGCCCAGUAUUCAUGCCAAAUAAGUGGCAAUUACCUUUUGGAAAAUUCAUUAAAAAUCACUUGGUGCCAGCGCA_____CUGACCC_U
.(((((...(((((((((........))))))))).....(((((......)))))................................)))))...................... (-21.62 = -22.26 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:04 2006