Locus 2146

Sequence ID 2L_DroMel_CAF1
Location 5,788,126 – 5,788,269
Length 143
Max. P 0.690865
window3469 window3470

overview

Window 9

Location 5,788,126 – 5,788,229
Length 103
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 71.67
Mean single sequence MFE -24.50
Consensus MFE -14.75
Energy contribution -14.53
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -1.41
Structure conservation index 0.60
SVM decision value 0.14
SVM RNA-class probability 0.602813
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5788126 103 + 22407834
UUCGUAUUUUAGCCUAAAGCAAG-----------------CUAGAAUGCAAUGCAAACAAUGGAUUUUGGGUUAGCUACACAAUGUAUCUAAAAUAGGCCUCCGGCCAAUUUCUACGCAU
...((((((((((.........)-----------------))))))))).((((.........(((((((((..((........))))))))))).((((...)))).........)))) ( -26.30)
>DroSec_CAF1 25167 120 + 1
UCCGUAUUUUCGCCAAAAGCAAGCUAAGAUCCCCAGCACUCUCGCAUGCAAUGCAAACAAUGGAUUUUGGGUUAGCUACACAAUGUAUCUGAAAUAGGCCUCCGGCCAAUUUCUACGCAA
..((((...........(((((.(((((((((...((......)).(((...)))......))))))))).)).))).............(((((.((((...)))).)))))))))... ( -28.80)
>DroSim_CAF1 27273 120 + 1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGCACUCUCGCAUGCAAUGCAAACAAUGGAUUUUGGGUUAGCUACACAAUGUAUCUGAAAUAGGCCUCCGGCCAAUUUCUACGCAA
...................................(((........)))..(((.......((((.(((.((.....)).)))...))))(((((.((((...)))).)))))...))). ( -18.40)
>consensus
U_CGUAUUUU_GCC_AAAGCAAG___________AGCACUCUCGCAUGCAAUGCAAACAAUGGAUUUUGGGUUAGCUACACAAUGUAUCUGAAAUAGGCCUCCGGCCAAUUUCUACGCAA
...................................................(((.........(((((((((..((........))))))))))).((((...)))).........))). (-14.75 = -14.53 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 5,788,149 – 5,788,269
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -30.93
Consensus MFE -27.31
Energy contribution -27.20
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -2.08
Structure conservation index 0.88
SVM decision value 0.33
SVM RNA-class probability 0.690865
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5788149 120 + 22407834
CUAGAAUGCAAUGCAAACAAUGGAUUUUGGGUUAGCUACACAAUGUAUCUAAAAUAGGCCUCCGGCCAAUUUCUACGCAUUGCAGACGAACCGUUAAGGUCUGCUUUAAAAUGCAAUUCA
...(((((((((((.........(((((((((..((........))))))))))).((((...)))).........)))))((((((...........))))))........)).)))). ( -30.60)
>DroSec_CAF1 25207 120 + 1
CUCGCAUGCAAUGCAAACAAUGGAUUUUGGGUUAGCUACACAAUGUAUCUGAAAUAGGCCUCCGGCCAAUUUCUACGCAAUGCAGACGAACCGUUAAGAUCUGCUUUAAACUGCAAUUCA
.(((..((((.(((.......((((.(((.((.....)).)))...))))(((((.((((...)))).)))))...))).))))..)))........((..(((........)))..)). ( -31.10)
>DroSim_CAF1 27313 120 + 1
CUCGCAUGCAAUGCAAACAAUGGAUUUUGGGUUAGCUACACAAUGUAUCUGAAAUAGGCCUCCGGCCAAUUUCUACGCAAUGCAGACGAACCGUUAAGAUCUGCUUUAAAAUGCAAUUCA
.(((..((((.(((.......((((.(((.((.....)).)))...))))(((((.((((...)))).)))))...))).))))..)))........((..(((........)))..)). ( -31.10)
>consensus
CUCGCAUGCAAUGCAAACAAUGGAUUUUGGGUUAGCUACACAAUGUAUCUGAAAUAGGCCUCCGGCCAAUUUCUACGCAAUGCAGACGAACCGUUAAGAUCUGCUUUAAAAUGCAAUUCA
.(((..((((.(((.........(((((((((..((........))))))))))).((((...)))).........))).))))..)))........((..(((........)))..)). (-27.31 = -27.20 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:48 2006