Locus 2338

Sequence ID X_DroMel_CAF1
Location 6,267,165 – 6,267,314
Length 149
Max. P 0.864203
window3799 window3800

overview

Window 9

Location 6,267,165 – 6,267,284
Length 119
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 89.36
Mean single sequence MFE -30.14
Consensus MFE -25.75
Energy contribution -25.77
Covariance contribution 0.01
Combinations/Pair 1.18
Mean z-score -1.68
Structure conservation index 0.85
SVM decision value -0.04
SVM RNA-class probability 0.513798
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6267165 119 - 22224390
AGGGUUUUCUUCUGGGCUUUCUAGAAAAUACCUUCCGACUCACCUAGAAAACUUAAGGAGCUGUAUAAGACGCAGAAACUUUGAAAUAAAUCAUAGGCUUAAAUUGUAGAGUUUGUGAC
(((((((.((((((((.(((((((...................))))))).))).)))))((((.......)))))))))))........((((((((((........)))))))))). ( -24.51)
>DroSec_CAF1 9351 119 - 1
AGGGUUUUAUUCUGGGCUUUCUAGAAAAUACCUUCCGGCUCACCUAGGAAUCCCUAGGAGUUGUAUAAGACGCUAAAACUUUAAAAUAACUUAUAGUUUUAAAUUGGUGAGCUUGUGAC
(((((....((((((.....))))))...))))).(((((..((((((....)))))))))))((((((.((((((...((((((((........))))))))))))))..)))))).. ( -31.70)
>DroSim_CAF1 10690 119 - 1
AGGGUUUUAUUCUGGGCUUUCCAGAAAAUACCUUCCGGCUCACCUAGGAAUCCCUAGGAGUUGUAUAAGACGCUGAAACUUUAAAAUAACUUAUAGGUUUAAAUUGGUGAGCUUGUGAC
(((((....((((((.....))))))...))))).((((...((((((....)))))).(((......)))))))...............(((((((((((......))))))))))). ( -34.20)
>consensus
AGGGUUUUAUUCUGGGCUUUCUAGAAAAUACCUUCCGGCUCACCUAGGAAUCCCUAGGAGUUGUAUAAGACGCUGAAACUUUAAAAUAACUUAUAGGUUUAAAUUGGUGAGCUUGUGAC
(((((((((((((((.....)))))).....(((.(((((..((((((....)))))))))))...)))....)))))))))........(((((((((((......))))))))))). (-25.75 = -25.77 +   0.01)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 6,267,204 – 6,267,314
Length 110
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.00
Mean single sequence MFE -29.77
Consensus MFE -25.34
Energy contribution -24.90
Covariance contribution -0.43
Combinations/Pair 1.14
Mean z-score -2.31
Structure conservation index 0.85
SVM decision value 0.84
SVM RNA-class probability 0.864203
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6267204 110 - 22224390
ACAGUUUU----------ACACAGUUUGUAUGCUAAUCUUAGGGUUUUCUUCUGGGCUUUCUAGAAAAUACCUUCCGACUCACCUAGAAAACUUAAGGAGCUGUAUAAGACGCAGAAACU
..((((((----------.....((((.(((((...((((..((((((((...((....((..(((......))).))....)).))))))))..))))...)))))))))...)))))) ( -23.80)
>DroSec_CAF1 9390 110 - 1
ACAGUUUU----------ACACAGUUUGUAUGCUAAUCUUAGGGUUUUAUUCUGGGCUUUCUAGAAAAUACCUUCCGGCUCACCUAGGAAUCCCUAGGAGUUGUAUAAGACGCUAAAACU
..((((((----------(....((((.(((((...((((((((.....(((((((....(..(((......)))..)....)))))))..))))))))...)))))))))..))))))) ( -32.00)
>DroSim_CAF1 10729 120 - 1
ACAGUUUUACACAGUUUUACACAGUUUGUAUGCUAAUCUUAGGGUUUUAUUCUGGGCUUUCCAGAAAAUACCUUCCGGCUCACCUAGGAAUCCCUAGGAGUUGUAUAAGACGCUGAAACU
............(((((((....((((.(((((...((((((((.....(((((((....((.(((......))).))....)))))))..))))))))...)))))))))..))))))) ( -33.50)
>consensus
ACAGUUUU__________ACACAGUUUGUAUGCUAAUCUUAGGGUUUUAUUCUGGGCUUUCUAGAAAAUACCUUCCGGCUCACCUAGGAAUCCCUAGGAGUUGUAUAAGACGCUGAAACU
..((((((...............((((.(((((...((((((((.....(((((((....((.(((......))).))....)))))))..))))))))...)))))))))...)))))) (-25.34 = -24.90 +  -0.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:04 2006