Locus 1710

Sequence ID 3L_DroMel_CAF1
Location 4,981,731 – 4,981,835
Length 104
Max. P 0.837266
window2639

overview

Window 9

Location 4,981,731 – 4,981,835
Length 104
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 74.85
Mean single sequence MFE -29.02
Consensus MFE -17.16
Energy contribution -19.60
Covariance contribution 2.44
Combinations/Pair 1.12
Mean z-score -1.89
Structure conservation index 0.59
SVM decision value 0.74
SVM RNA-class probability 0.837266
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4981731 104 + 23771897
AAAUGUUGGCAAUGCAAAAACUUGUAUCGUCGCAA-AGGGCGAAAA---AUGCAGGCCGC------AGACAAACGCAUA--GAAAAGCCCACAAAGUGGGUGCCAACAGGAUCGGC
...(((((((.((((.....(((((((..((((..-...))))...---)))))))..(.------...)....)))).--.....((((((...)))))))))))))........ ( -33.60)
>DroPse_CAF1 258176 116 + 1
AAAUGUGGGCAAUGCAAAAGCUUGUAUCGUCGCAAAAGGGCGGAAAUAUUUGCAGGCCGCACAGACAGACAGACGCUGACAGCAAAGGGCGCGCGGGGAGGGCAGGGGGGAGGGGA
...(((((((..(((((......((((..((((......))))..))))))))).))).))))..........(.((..(.((.....))((.(.....).)).....)..)).). ( -28.00)
>DroEre_CAF1 205627 91 + 1
AAAUGUGGGAAAUGCAAGAACUUGUAUCGUCGCAA-AGGGCGAAAA---AUGCAGGCCGC------AGACAAA---------------CCACCAAGUGGGUGCCAACAGGAUCGGG
....((((....(((.....(((((((..((((..-...))))...---)))))))..))------)......---------------))))......(((.((....)))))... ( -21.40)
>DroYak_CAF1 209819 100 + 1
AAAUGUUGGCAAUGCAAAAACUUGUAUCGUCGCAA-AGGGCGAAAA---AUGCAGGCCGC------AGACAAACGCAGA--GAAAAGCCCACAAAGUGGGUGCCAACAGGAU----
...(((((((..(((.....(((((((..((((..-...))))...---)))))))..))------)............--.....((((((...)))))))))))))....---- ( -33.10)
>consensus
AAAUGUGGGCAAUGCAAAAACUUGUAUCGUCGCAA_AGGGCGAAAA___AUGCAGGCCGC______AGACAAACGCAGA__GAAAAGCCCACAAAGUGGGUGCCAACAGGAUCGG_
...(((((((..........(((((((..((((......))))......)))))))..............................((((((...)))))))))))))........ (-17.16 = -19.60 +   2.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:15 2006