Locus 997

Sequence ID 3L_DroMel_CAF1
Location 2,969,721 – 2,969,833
Length 112
Max. P 0.578189
window1543

overview

Window 3

Location 2,969,721 – 2,969,833
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.29
Mean single sequence MFE -20.02
Consensus MFE -9.89
Energy contribution -13.41
Covariance contribution 3.52
Combinations/Pair 1.14
Mean z-score -2.10
Structure conservation index 0.49
SVM decision value 0.09
SVM RNA-class probability 0.578189
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2969721 112 + 23771897
AAAAAAGAAAUAAAAGCACAACUUAUAAACAUUCAAACUUUUGGCAGCUACUUUGAAUAUA--------UAAGAAGCGAAAAUCAAAAGUGAUUGGUAAUGUUUAUGACAUUAGCAGGUA
...............((.....((((((((((((..((((((((..(((.(((........--------.))).))).....)))))))).....).))))))))))).....))..... ( -20.40)
>DroSec_CAF1 3959 112 + 1
AAAAAAGAAAUAAAAGCACAACUUAUAAACAUUCAAACUUUUGUCAGCUACUUUGAAUGUA--------UAAGUAGCGAAAAUCAAAAGUGAUUGUUAAUGUUUAUGACAUUAGCAGGUA
...............((.....(((((((((((((((((((((...(((((((........--------.)))))))......)))))))..)))..))))))))))).....))..... ( -24.20)
>DroSim_CAF1 3950 112 + 1
AAAAAAUAAAUAAAAGCACAACUUAUAAACAUUCAAACUUUUGGCAGCUACUUUGAAUGUA--------UAAGUAGCGAAAAUCAAAAGUGAUUGUUAAUGUUUAUGACAUUAGCAGGUA
...............((.....((((((((((((((((((((((..(((((((........--------.))))))).....))))))))..)))..))))))))))).....))..... ( -24.50)
>DroEre_CAF1 3924 102 + 1
AAA---AAAAUAAAAGCACAACGUAUAGACAUUGAAACUUUUGGCAGCUACUUUGAAUUUA--------------GAAAAAAUCAAAAGGAAAUUUUAGUGUU-AUGAUAUUAGCAAGUU
...---.........((......(((.(((((((((((((((((......((........)--------------)......)))))))....))))))))))-)))......))..... ( -12.20)
>DroYak_CAF1 3999 116 + 1
AAC---AAAAUAAAAGCACAACGUAUACACAAUCAA-CCUUUGGCAGCUACUUAGAAUAUACAUAUGUAUGUGUGGCAAAAAUCCAAAGGAAAUUUUAAUGUUCAUCAAAUUAGCAGGUA
...---.........((.....((....))......-(((((((..(((((.....((((((....)))))))))))......))))))).......................))..... ( -18.80)
>consensus
AAAAAAAAAAUAAAAGCACAACUUAUAAACAUUCAAACUUUUGGCAGCUACUUUGAAUAUA________UAAGUAGCGAAAAUCAAAAGUGAUUGUUAAUGUUUAUGACAUUAGCAGGUA
...............((.....(((((((((((...((((((((..(((((((.................))))))).....)))))))).......))))))))))).....))..... ( -9.89 = -13.41 +   3.52) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:29 2006