Locus 4074

Sequence ID 3R_DroMel_CAF1
Location 11,108,404 – 11,108,496
Length 92
Max. P 0.520385
window6525

overview

Window 5

Location 11,108,404 – 11,108,496
Length 92
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 79.96
Mean single sequence MFE -17.88
Consensus MFE -11.65
Energy contribution -11.84
Covariance contribution 0.19
Combinations/Pair 1.15
Mean z-score -1.62
Structure conservation index 0.65
SVM decision value -0.03
SVM RNA-class probability 0.520385
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11108404 92 + 27905053
AUGAUUAAAUUCCGAAUUUUCCAUGCGAUAAUUUGUAAA-UUUUGUGUGGAAAGGUAGAUCUUAUAAGGUCGGAUACAGAUGGAAAAUAUCUG
..........(((...((((((((((((.((((....))-))))))))))))))...(((((....))))))))..((((((.....)))))) ( -23.70)
>DroSim_CAF1 17541 78 + 1
AUGAUGAAAUUCCGAAUUUUCCAUGCGAUCAUUUGGAAA-UAUUGUGUGGAAAGGUAGAUGUUAUAAG--------------GAAAAUAUCUG
................(((((((((((((.(((....))-)))))))))))))).((((((((.....--------------...)))))))) ( -16.90)
>DroEre_CAF1 19200 83 + 1
AUGAUGAAAUUCUGAAUUUUCCAUGCGAUAAUUUGGAAAAUUUUCCGUGGAAAGCUAGAUGUUAAAAGGCC----------ACAAAAUAUCUG
..((((.......((((((((((..........))))))))))...((((..(((.....)))......))----------))....)))).. ( -15.10)
>DroYak_CAF1 19611 81 + 1
AUGAUGAAAUUCGGAAUUUUCCAUGCGAUAAUUUGGGAA-CUUUGUGUGGAGAGCUAGGUGCUAGAAG-UU----------GGAAAAUAUCUG
..((((...(((.((.((((((((((((...........-..))))))))))))((((...))))...-))----------.)))..)))).. ( -15.82)
>consensus
AUGAUGAAAUUCCGAAUUUUCCAUGCGAUAAUUUGGAAA_UUUUGUGUGGAAAGCUAGAUGUUAUAAG_UC__________GGAAAAUAUCUG
................((((((((((((..............)))))))))))).((((((((......................)))))))) (-11.65 = -11.84 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:27 2006