Locus 1900

Sequence ID 2R_DroMel_CAF1
Location 7,156,098 – 7,156,194
Length 96
Max. P 0.999940
window3151 window3152

overview

Window 1

Location 7,156,098 – 7,156,194
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 96.04
Mean single sequence MFE -25.28
Consensus MFE -22.42
Energy contribution -22.62
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.94
Structure conservation index 0.89
SVM decision value 3.84
SVM RNA-class probability 0.999652
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7156098 96 + 20766785
UCGCAGUGCAGCCUGCUUUUAUGGCUUUGCUAAUUUGUUGCCUCAAUUAGAUUUUUUGACAUUAUUGCAGUUUUUAUUAAUUGCUUGUGGCUGCAA
......(((((((.........(((...((......)).)))................(((.....((((((......)))))).)))))))))). ( -23.90)
>DroSec_CAF1 19313 96 + 1
UCGCAGUGCAGCCUGCUUUUAUGGCUUUGCUAAUUUGUUGCCUCAAUUAGAUGUUUUGACAUUAUUGCAGUUUUUAUUAAUUGCUUGCGGCUGCAA
......(((((((.((......(((...((......)).))).......(((((....)))))...((((((......))))))..))))))))). ( -27.20)
>DroSim_CAF1 19831 96 + 1
UCGCAGUGCAGCCUGCUUUUAUGGCUUUGCUAAUUUGUUGCCUCAAUUAGAUUUUUUGACAUUAUUGCAGUUUUUAUUAAUUGCUUGCGGCUGCAA
......(((((((.((......(((...((......)).)))........................((((((......))))))..))))))))). ( -25.50)
>DroEre_CAF1 21316 96 + 1
GCGCAGUGCAGCCUGCUCUAAUGGCUUUGCUAAUUUGUUGCCUCAAUUAGAUUUUUUGACAUUAUUGCAGUUUUUAUUAAUUGCUUCUGGCUGCAA
......(((((((...(((((((((...((......)).)))...))))))...............((((((......))))))....))))))). ( -26.60)
>DroYak_CAF1 19670 96 + 1
GCGCAGUGCAGCCUGCUUUUGUGGCUUUGCUAAUUUGUUGCCUCAAUUAGAUUUUUUGACAUUAUUGCAGUUUUUAUUAAUUGCUUCUAGCUGCAA
......(((((((((...(((.(((...((......)).))).))).)))................((((((......)))))).....)))))). ( -23.20)
>consensus
UCGCAGUGCAGCCUGCUUUUAUGGCUUUGCUAAUUUGUUGCCUCAAUUAGAUUUUUUGACAUUAUUGCAGUUUUUAUUAAUUGCUUGUGGCUGCAA
......(((((((.........(((...((......)).)))........................((((((......))))))....))))))). (-22.42 = -22.62 +   0.20)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 7,156,098 – 7,156,194
Length 96
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 96.04
Mean single sequence MFE -20.82
Consensus MFE -19.54
Energy contribution -19.38
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -2.90
Structure conservation index 0.94
SVM decision value 4.70
SVM RNA-class probability 0.999940
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7156098 96 - 20766785
UUGCAGCCACAAGCAAUUAAUAAAAACUGCAAUAAUGUCAAAAAAUCUAAUUGAGGCAACAAAUUAGCAAAGCCAUAAAAGCAGGCUGCACUGCGA
.(((((((....(((.((......)).)))................((((((..(....).))))))................)))))))...... ( -19.90)
>DroSec_CAF1 19313 96 - 1
UUGCAGCCGCAAGCAAUUAAUAAAAACUGCAAUAAUGUCAAAACAUCUAAUUGAGGCAACAAAUUAGCAAAGCCAUAAAAGCAGGCUGCACUGCGA
.(((((((((..(((.((......)).)))................((((((..(....).)))))).............)).)))))))...... ( -21.90)
>DroSim_CAF1 19831 96 - 1
UUGCAGCCGCAAGCAAUUAAUAAAAACUGCAAUAAUGUCAAAAAAUCUAAUUGAGGCAACAAAUUAGCAAAGCCAUAAAAGCAGGCUGCACUGCGA
.(((((((((..(((.((......)).)))................((((((..(....).)))))).............)).)))))))...... ( -21.90)
>DroEre_CAF1 21316 96 - 1
UUGCAGCCAGAAGCAAUUAAUAAAAACUGCAAUAAUGUCAAAAAAUCUAAUUGAGGCAACAAAUUAGCAAAGCCAUUAGAGCAGGCUGCACUGCGC
.(((((((..((....)).........(((..(((((.........((((((..(....).))))))......)))))..))))))))))...... ( -22.26)
>DroYak_CAF1 19670 96 - 1
UUGCAGCUAGAAGCAAUUAAUAAAAACUGCAAUAAUGUCAAAAAAUCUAAUUGAGGCAACAAAUUAGCAAAGCCACAAAAGCAGGCUGCACUGCGC
.((((((...((....))........((((.......((((.........))))(((..............)))......))))))))))...... ( -18.14)
>consensus
UUGCAGCCACAAGCAAUUAAUAAAAACUGCAAUAAUGUCAAAAAAUCUAAUUGAGGCAACAAAUUAGCAAAGCCAUAAAAGCAGGCUGCACUGCGA
.(((((((....(((.((......)).)))................((((((..(....).))))))................)))))))...... (-19.54 = -19.38 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:59 2006