Locus 4486

Sequence ID 2L_DroMel_CAF1
Location 12,851,532 – 12,851,629
Length 97
Max. P 0.878429
window7054

overview

Window 4

Location 12,851,532 – 12,851,629
Length 97
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 77.14
Mean single sequence MFE -21.85
Consensus MFE -12.06
Energy contribution -13.29
Covariance contribution 1.22
Combinations/Pair 1.06
Mean z-score -2.03
Structure conservation index 0.55
SVM decision value 0.90
SVM RNA-class probability 0.878429
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12851532 97 - 22407834
GGGAGUGUGGCUGCCAAAAAGGAUU-----------CGUAGGUAUGUUGGUGAUAAUCCCAAAAAGGGG-GAAAAAAGAUA------CGCUGCUUAAACAAAUGAAGAGCGGCAU
((.((.....)).))..........-----------.....((((.((..(.....((((.....))))-..)..)).)))------)(((((((...........))))))).. ( -22.50)
>DroSec_CAF1 32082 97 - 1
GGGAGUGUGGCUGCCAAAAAGGAUU-----------GGUAGGUAUGUUGGUGAUAAUCCCAAAAAGGGG-AAAAAAAGAUA------CGCUGCUUAAACAAAUGAAGAGCGGCAU
...((..((.(((((((......))-----------))))).))..))........((((......)))-)..........------.(((((((...........))))))).. ( -27.30)
>DroSim_CAF1 34607 97 - 1
GGGAGUGUGGCUGCCAAAAAGGAUU-----------GCUAGGUAUGUUGGUGAUAAUCCCAAAAAGGGG-GAAAAAAGAUA------CGCUGCUUAAACAAAUGAAGAGCGGCAU
.......((((..((.....))...-----------)))).((((.((..(.....((((.....))))-..)..)).)))------)(((((((...........))))))).. ( -23.50)
>DroEre_CAF1 38023 90 - 1
GGGAGUGUGGCUGCC-AAAAGGAUU---------------GGUGUGUUGGGGAUAAUCGCAAAGA---GCAAAAAAAGAUA------CGCUGCUUAAACAAAUGAAGAGCGGCAU
....((((....(((-((.....))---------------)))((.(((.(......).)))...---))........)))------)(((((((...........))))))).. ( -18.80)
>DroYak_CAF1 33372 89 - 1
GG----GUGGCUGCA-AAAAGGAUU---------------GGUAUGUCGGUGAUAAUCCCGAAAAGGGGAAAAAAAAUAAA------CGCUGCUUAAACAAAUGAAGAGCGGCAU
..----((.((((((-.........---------------....)).)))).))..((((......))))...........------.(((((((...........))))))).. ( -19.02)
>DroAna_CAF1 56199 112 - 1
UGGUGUGUGGCUUAGA-AAGGGGUUCCAUGAGGUUUGAGUGGCGUGGU-GUGAUAAUCCAACGAAAAAA-GAAAAAAUUUAUAAAAGUAAUGCUUAAACAAAUGAAGAGCGACAU
....((((.((((.((-(.....)))(((...((((((((..(((((.-........)).)))......-........((((....)))).))))))))..)))..)))).)))) ( -20.00)
>consensus
GGGAGUGUGGCUGCCAAAAAGGAUU___________G_UAGGUAUGUUGGUGAUAAUCCCAAAAAGGGG_AAAAAAAGAUA______CGCUGCUUAAACAAAUGAAGAGCGGCAU
((((.(((.(((....................................))).))).))))............................(((((((...........))))))).. (-12.06 = -13.29 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:56 2006