Locus 845

Sequence ID 3L_DroMel_CAF1
Location 2,560,063 – 2,560,155
Length 92
Max. P 0.991683
window1301 window1302

overview

Window 1

Location 2,560,063 – 2,560,155
Length 92
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 91.06
Mean single sequence MFE -18.52
Consensus MFE -15.74
Energy contribution -15.94
Covariance contribution 0.20
Combinations/Pair 1.08
Mean z-score -2.16
Structure conservation index 0.85
SVM decision value 2.28
SVM RNA-class probability 0.991683
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2560063 92 + 23771897
AACUUUUGUAAAGUUUCUUUGUCUGAACUUUGCCUCCU----GGCCACCGUUCUCAAUUUCCAGUUGACCACGUUUUUAAAGUCAGACUUCUCAUU
(((((.....))))).....((((((.(((((((....----)))...(((..(((((.....)))))..))).....))))))))))........ ( -19.60)
>DroSec_CAF1 21940 88 + 1
AACUUUUGUAAAGUUUCUUUGUCUGAACUUUG--------CCGGCCACCUUUCUUAAUUUCCAGUUGACCACGUUUUUGAAGUCAGACUUCUCAUU
.......(((((((((........))))))))--------).((.((.((............)).)).))........((((.....))))..... ( -11.30)
>DroSim_CAF1 18916 96 + 1
AACUUUUGUAAAGUUUCUUUGUCUGAACUUUGCCUCCUGGCCGGCCACCGUUCUCAAUUUCCAGUUGACCACGUUUUUGAAGUCAGACUUCUCAUU
(((((.....))))).....((((((.(((((((....))).......(((..(((((.....)))))..))).....))))))))))........ ( -20.00)
>DroEre_CAF1 36181 90 + 1
AACUUUUGUAAAGUUUCUUUGUCUGAACUUUGCCUCCU----GGCCAGCGUCUUCAAUUUCCAGUUGACCACGUU--UGAAGUCAGACUUCUCAUU
(((((.....))))).....((((((.(((((((....----))).(((((..(((((.....)))))..)))))--.))))))))))........ ( -22.10)
>DroYak_CAF1 20555 90 + 1
AACUUUUGUAAAGUUUCUUUGUCUGAACUUUGCCUCCU----GGCCACCGUCCUCAAUUUCCAGUUGACCACGUU--UAAAGUCAGACUUCUCAUU
(((((.....))))).....((((((.(((((((....----)))...(((..(((((.....)))))..)))..--.))))))))))........ ( -19.60)
>consensus
AACUUUUGUAAAGUUUCUUUGUCUGAACUUUGCCUCCU____GGCCACCGUUCUCAAUUUCCAGUUGACCACGUUUUUGAAGUCAGACUUCUCAUU
(((((.....))))).....((((((.(((((((........)))...(((..(((((.....)))))..))).....))))))))))........ (-15.74 = -15.94 +   0.20) 

alignment

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secondary structure

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dotplot

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Window 2

Location 2,560,063 – 2,560,155
Length 92
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 91.06
Mean single sequence MFE -20.70
Consensus MFE -14.84
Energy contribution -15.64
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.97
Structure conservation index 0.72
SVM decision value 0.09
SVM RNA-class probability 0.579422
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2560063 92 - 23771897
AAUGAGAAGUCUGACUUUAAAAACGUGGUCAACUGGAAAUUGAGAACGGUGGCC----AGGAGGCAAAGUUCAGACAAAGAAACUUUACAAAAGUU
........((((((((((.....(.((((((.(((...........))))))))----).)....)))).)))))).....(((((.....))))) ( -22.60)
>DroSec_CAF1 21940 88 - 1
AAUGAGAAGUCUGACUUCAAAAACGUGGUCAACUGGAAAUUAAGAAAGGUGGCCGG--------CAAAGUUCAGACAAAGAAACUUUACAAAAGUU
........(((((((((........((((((.((............)).)))))).--------..))).)))))).....(((((.....))))) ( -15.10)
>DroSim_CAF1 18916 96 - 1
AAUGAGAAGUCUGACUUCAAAAACGUGGUCAACUGGAAAUUGAGAACGGUGGCCGGCCAGGAGGCAAAGUUCAGACAAAGAAACUUUACAAAAGUU
........(((((((((........((((((.(((...........)))))))))(((....))).))).)))))).....(((((.....))))) ( -23.70)
>DroEre_CAF1 36181 90 - 1
AAUGAGAAGUCUGACUUCA--AACGUGGUCAACUGGAAAUUGAAGACGCUGGCC----AGGAGGCAAAGUUCAGACAAAGAAACUUUACAAAAGUU
........(((((((((..--..(((..((((.(....)))))..)))...(((----....))).))).)))))).....(((((.....))))) ( -19.30)
>DroYak_CAF1 20555 90 - 1
AAUGAGAAGUCUGACUUUA--AACGUGGUCAACUGGAAAUUGAGGACGGUGGCC----AGGAGGCAAAGUUCAGACAAAGAAACUUUACAAAAGUU
........((((((((((.--..(.((((((.(((...........))))))))----).)....)))).)))))).....(((((.....))))) ( -22.80)
>consensus
AAUGAGAAGUCUGACUUCAAAAACGUGGUCAACUGGAAAUUGAGAACGGUGGCC____AGGAGGCAAAGUUCAGACAAAGAAACUUUACAAAAGUU
........(((((((((......(((..((((.(....)))))..)))...(((........))).))).)))))).....(((((.....))))) (-14.84 = -15.64 +   0.80) 

alignment

Postscript

secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:37 2006