Locus 208

Sequence ID	2R_DroMel_CAF1
Location	1,501,047 – 1,501,143
Length	96
Max. P	0.997871

overview

Window 2

Location	1,501,047 – 1,501,143
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	95.31
Mean single sequence MFE	-25.58
Consensus MFE	-23.90
Energy contribution	-23.70
Covariance contribution	-0.20
Combinations/Pair	1.08
Mean z-score	-1.70
Structure conservation index	0.93
SVM decision value	2.22
SVM RNA-class probability	0.990610
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1501047 96 + 20766785
GUUUACUAUGUGCUAAAAUGCACAACUGGCUUGCCAAACGGGUGAUACAUUUUUGUAAGUGCUAAAGCGCUCAGUUCCGUGCACAUGAACUUUCUU
......(((((((.............(((....))).((((((((((((....)))).((((....)))))))..))))))))))))......... ( -24.20)
>DroSec_CAF1 32223 96 + 1
GUUUACUAUGUGCUAAAAUGCACAACUGGCUUGCCAAACGGGUGAUACAUUUUUGUAAGCGCUAAAGCGCUCAGUUCCGUGCACAUGAACUUUCUU
......(((((((.............(((....))).((((((((((((....)))).((((....)))))))..))))))))))))......... ( -26.10)
>DroSim_CAF1 36288 96 + 1
GUUUACUAUGUGCUAAAAUGCACAACUGGCUUGCCAAACGGGUGAUACAUUUUUGUAAGCGCUAAAGCGCUCAGUUCCGUGCACAUGAACUUUCUU
......(((((((.............(((....))).((((((((((((....)))).((((....)))))))..))))))))))))......... ( -26.10)
>DroEre_CAF1 40317 95 + 1
GUUUGCUAUGUGCUAAAAUGCACAACUGGCUUGCCAAACGGGUGAUACAUUUUUGUAAGUGCUG-AGCGCUCAGUUCCGUGCACAUGAACUUUCUU
(((((((((((((......)))))..))))(..((.....))..)((((....)))).((((.(-(((.....))))...))))..))))...... ( -25.50)
>DroYak_CAF1 55292 96 + 1
GUUUGCUAUGUGCUAAAAUGCACAACUGGCUUACAAAACGGGUGAUACAUUUUUGUAAGUGCUGGAGCACUCUAUUCCGUGCACAUGAACUUUCUU
(((((((((((((......)))))..))))((((((((..(......)..))))))))(((((((((.......))))).))))..))))...... ( -26.00)
>consensus
GUUUACUAUGUGCUAAAAUGCACAACUGGCUUGCCAAACGGGUGAUACAUUUUUGUAAGUGCUAAAGCGCUCAGUUCCGUGCACAUGAACUUUCUU
......(((((((.............(((....))).(((((...((((....))))(((((....)))))....))))))))))))......... (-23.90 = -23.70 +  -0.20)

alignment

secondary structure

dotplot

Window 3

Location	1,501,047 – 1,501,143
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	95.31
Mean single sequence MFE	-25.70
Consensus MFE	-23.32
Energy contribution	-23.76
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-2.08
Structure conservation index	0.91
SVM decision value	2.95
SVM RNA-class probability	0.997871
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1501047 96 - 20766785
AAGAAAGUUCAUGUGCACGGAACUGAGCGCUUUAGCACUUACAAAAAUGUAUCACCCGUUUGGCAAGCCAGUUGUGCAUUUUAGCACAUAGUAAAC
..........((((((.......((((.((....)).))))..(((((((((.((.....(((....))))).))))))))).))))))....... ( -22.60)
>DroSec_CAF1 32223 96 - 1
AAGAAAGUUCAUGUGCACGGAACUGAGCGCUUUAGCGCUUACAAAAAUGUAUCACCCGUUUGGCAAGCCAGUUGUGCAUUUUAGCACAUAGUAAAC
..........((((((.......(((((((....)))))))..(((((((((.((.....(((....))))).))))))))).))))))....... ( -28.00)
>DroSim_CAF1 36288 96 - 1
AAGAAAGUUCAUGUGCACGGAACUGAGCGCUUUAGCGCUUACAAAAAUGUAUCACCCGUUUGGCAAGCCAGUUGUGCAUUUUAGCACAUAGUAAAC
..........((((((.......(((((((....)))))))..(((((((((.((.....(((....))))).))))))))).))))))....... ( -28.00)
>DroEre_CAF1 40317 95 - 1
AAGAAAGUUCAUGUGCACGGAACUGAGCGCU-CAGCACUUACAAAAAUGUAUCACCCGUUUGGCAAGCCAGUUGUGCAUUUUAGCACAUAGCAAAC
......(((.((((((......((((....)-)))........(((((((((.((.....(((....))))).))))))))).))))))))).... ( -23.30)
>DroYak_CAF1 55292 96 - 1
AAGAAAGUUCAUGUGCACGGAAUAGAGUGCUCCAGCACUUACAAAAAUGUAUCACCCGUUUUGUAAGCCAGUUGUGCAUUUUAGCACAUAGCAAAC
......(((.((((((........((((((....))))))...(((((((((.((..(((.....)))..)).))))))))).))))))))).... ( -26.60)
>consensus
AAGAAAGUUCAUGUGCACGGAACUGAGCGCUUUAGCACUUACAAAAAUGUAUCACCCGUUUGGCAAGCCAGUUGUGCAUUUUAGCACAUAGUAAAC
..........((((((.......(((((((....)))))))..(((((((((.((..(((.....)))..)).))))))))).))))))....... (-23.32 = -23.76 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:29 2006