Locus 1969

Sequence ID 3R_DroMel_CAF1
Location 5,559,099 – 5,559,214
Length 115
Max. P 0.518462
window3230

overview

Window 0

Location 5,559,099 – 5,559,214
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.09
Mean single sequence MFE -29.34
Consensus MFE -18.60
Energy contribution -21.20
Covariance contribution 2.60
Combinations/Pair 1.23
Mean z-score -1.59
Structure conservation index 0.63
SVM decision value -0.03
SVM RNA-class probability 0.518462
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5559099 115 - 27905053
GC--GAAUGUGAAUGGAUCAAUGUGAGAAUUCAAUCCAUCCAUAAACACACGAGGAGGAAAACAAAAUUCGAUCAAGAGGCGACU---UCUUGGUCAUGUGUGUCUGGAUGGGUUGGGUG
..--........................((((((((((((((...(((((((.....(((.......)))((((((((((...))---)))))))).))))))).)))))))))))))). ( -39.40)
>DroSec_CAF1 3760 110 - 1
GC--GAAUGUAAAUGGAUCAA--------UUCAAUUCAUCCAUAAACACACGAGGAGGAAAACAAAAUUCGAUCAAGAGGCGACUUCUUCUUGGGCAUGUGUGUCUGGGUGGGUUGGGUG
..--................(--------(((((((((((((...(((((((.....(((.......)))(..(((((((......)))))))..).))))))).)))))))))))))). ( -32.40)
>DroSim_CAF1 2035 110 - 1
GC--GAAUGUAAAUGGAUCAA--------UUCAAUUCAUCCAUAAACACACGAGGAGGAAAACAAAAUUCGAUCAAGAGGCGACUUUUUCUUGGGCAUGUGUGUCUGGGUGGGUUGGGUG
..--................(--------(((((((((((((...(((((((.....(((.......)))(..(((((((......)))))))..).))))))).)))))))))))))). ( -30.50)
>DroEre_CAF1 1893 96 - 1
GCAUG-GGGAAAAUGGAGCAAUAUG--AAUUCUAUCCAACCAUAAACACAUGUGAAGGAAAACAAAAUUCGAUCAAGGGGCGACU---------------------GGUUGGGUUGGGUA
.((((-..(.........)..))))--.....(((((((((.........(((........))).....((((((.(......))---------------------)))))))))))))) ( -18.40)
>DroYak_CAF1 2110 115 - 1
GCAUGAGGGAAAAUGGAGCAAUGUG--AAUUCUAUCCAUCCAUAAACACAUAAGAAGGAAAACAAAAUUCGAUCAAGAGGCGACU---GCUUGGGCAUGUGUGGCUGGUUGGGUUGGGUA
.(((........)))..........--.((((.(((((.(((...((((((..(((...........)))(..((((((....))---.))))..)))))))...))).))))).)))). ( -26.00)
>consensus
GC__GAAUGUAAAUGGAUCAAU_UG__AAUUCAAUCCAUCCAUAAACACACGAGGAGGAAAACAAAAUUCGAUCAAGAGGCGACU___UCUUGGGCAUGUGUGUCUGGGUGGGUUGGGUG
............................((((((((((((((...(((((((.(((...........)))..(((((((....))....)))))...))))))).)))))))))))))). (-18.60 = -21.20 +   2.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:06 2006