Locus 4483

Sequence ID 2R_DroMel_CAF1
Location 14,753,126 – 14,753,216
Length 90
Max. P 0.622208
window7169

overview

Window 9

Location 14,753,126 – 14,753,216
Length 90
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 79.42
Mean single sequence MFE -28.43
Consensus MFE -20.23
Energy contribution -20.65
Covariance contribution 0.42
Combinations/Pair 1.32
Mean z-score -1.20
Structure conservation index 0.71
SVM decision value 0.18
SVM RNA-class probability 0.622208
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14753126 90 + 20766785
CUGCCAAGGCAGCACUUGCC---GCUGGUGCCGCUGCAGGAGCGGCUGUUAAUGGUAAGUAUC-CCCAGGAUAAAGUAUCUAAAGAAGCAAUCU
((((....)))).(((((((---(.(..(((((((.....)))))).)..).))))))))(((-(...))))...((.((....)).))..... ( -28.70)
>DroSec_CAF1 58139 90 + 1
CUGCCAAGGCAGCACUUGCC---GCUGGUGCCGCUGCAGGAGCGGCUGUUAAUGGUAAGUAUC-CUCAAGAUGAAGUAUCUAAAGAAGCAAUUU
.(((....)))(((((((((---(.(..(((((((.....)))))).)..).))))))))...-((..(((((...)))))..))..))..... ( -28.10)
>DroSim_CAF1 60131 90 + 1
CUGCCAAGGCAGCACUUGCC---GCUGGUGCCGCUGCAGGAGCGGCUGUUAAUGGUAAGUAUC-CUCAAGAUGAAGUAUCUAAGGAAGCAAUCU
.(((....)))(((((((((---(.(..(((((((.....)))))).)..).)))))))).((-((..(((((...))))).)))).))..... ( -31.70)
>DroEre_CAF1 58020 90 + 1
CGGCCAAGGCAGCGCUUGCC---GCUGGUGCCGCUGCAGGAUCGGCUGUUAAUGGUAAGUAUC-CUUACGAUGAAGUACCCAAAGCAGCAAUCC
(((((...((((((...(((---...)))..)))))).)).)))((((((...((((..((((-.....))))...))))...))))))..... ( -30.90)
>DroYak_CAF1 59449 86 + 1
CUGCCAAGGCAGCACUUGCC---GCUGGUGCCGCUGCAGGAUCCGCUGUUAAUGGUAAGUAUC-CUUA----GAAGUAUCUAUAGAAGCAACCU
.(((((.((((((.(((((.---((.(....))).)))))....))))))..))))).((.((-..((----((....))))..)).))..... ( -24.60)
>DroAna_CAF1 49858 86 + 1
CGGCCAAGGCAGCUGCCGCCGCCGCAGCAGCCGCUGCAGGAUCAGGGGUUAAUGGUGAGAUUGAAUCUAUAUACCAUAUAUCAGGA--------
.((((..(((....))).((.(((((((....))))).))....)))))).((((((((((...))))...)))))).........-------- ( -26.60)
>consensus
CUGCCAAGGCAGCACUUGCC___GCUGGUGCCGCUGCAGGAGCGGCUGUUAAUGGUAAGUAUC_CUCAAGAUGAAGUAUCUAAAGAAGCAAUCU
((((...(((.(((((.((....)).))))).))))))).....(((......((((..((((......))))...))))......)))..... (-20.23 = -20.65 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:51 2006