Locus 1349

Sequence ID 2R_DroMel_CAF1
Location 5,218,597 – 5,218,735
Length 138
Max. P 0.968854
window2330 window2331

overview

Window 0

Location 5,218,597 – 5,218,711
Length 114
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 91.81
Mean single sequence MFE -31.57
Consensus MFE -27.20
Energy contribution -27.43
Covariance contribution 0.23
Combinations/Pair 1.15
Mean z-score -1.77
Structure conservation index 0.86
SVM decision value -0.03
SVM RNA-class probability 0.520808
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5218597 114 + 20766785
UAGUUCCACAAGUGACUGCGUCACCUACAAUUAUCAACGGGUUUGCGCACUGCCCGUGGAGGAGUUUACCAUCGACAAGUGGAUUCUUCACGAGGAGUUUAACCUCUUCUAUCC
....(((((..(((((...)))))..............((((.........)))))))))((((..(.((((......)))))..))))..((((((......))))))..... ( -31.30)
>DroSec_CAF1 94669 114 + 1
UAAUUCCAGAAGAGACUGCACCACCUACAAUUAUAUACAGGUUUGCGCUCCGCCCGUGGAGGAAUUUACCAUCGACAAGUGGAUUCUCCACGAGGAGUUUAACCUCUUUUAUCC
.......(((((((...(((..((((............)))).)))(((((...(((((((.(((((((.........)))))))))))))).))))).....))))))).... ( -34.70)
>DroSim_CAF1 80478 114 + 1
UAGUUCCAGACGAGACUGCACCACCUACAAUUAUAAACAGGUUUGCGCUCCGCCCGUGGAGGAAUUUACCAUCGACAAGUGGAUUCUUCACGAGGAGUUUAACCUCUUUUAUCC
((((..(....)..))))..............(((((.(((((...(((((...((((.((((((((((.........)))))))))))))).)))))..)))))..))))).. ( -28.70)
>consensus
UAGUUCCAGAAGAGACUGCACCACCUACAAUUAUAAACAGGUUUGCGCUCCGCCCGUGGAGGAAUUUACCAUCGACAAGUGGAUUCUUCACGAGGAGUUUAACCUCUUUUAUCC
.......(((((((...(((..((((............)))).)))(((((...(((((((.(((((((.........)))))))))))))).))))).....))))))).... (-27.20 = -27.43 +   0.23)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 1

Location 5,218,631 – 5,218,735
Length 104
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 94.23
Mean single sequence MFE -34.90
Consensus MFE -32.47
Energy contribution -32.03
Covariance contribution -0.43
Combinations/Pair 1.14
Mean z-score -2.72
Structure conservation index 0.93
SVM decision value 1.63
SVM RNA-class probability 0.968854
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5218631 104 + 20766785
CAACGGGUUUGCGCACUGCCCGUGGAGGAGUUUACCAUCGACAAGUGGAUUCUUCACGAGGAGUUUAACCUCUUCUAUCCCGGGUAUGAUAUUGCUCUGAUAAA
....((((.....((.((((((.(((((((..(.((((......)))))..))))..((((((......))))))..))))))))))).....))))....... ( -33.00)
>DroSec_CAF1 94703 104 + 1
AUACAGGUUUGCGCUCCGCCCGUGGAGGAAUUUACCAUCGACAAGUGGAUUCUCCACGAGGAGUUUAACCUCUUUUAUCCCGGGUAUGAUAUUGCCCUGAUAAA
....(((((...(((((...(((((((.(((((((.........)))))))))))))).)))))..)))))..((((((..(((((......))))).)))))) ( -38.70)
>DroSim_CAF1 80512 104 + 1
AAACAGGUUUGCGCUCCGCCCGUGGAGGAAUUUACCAUCGACAAGUGGAUUCUUCACGAGGAGUUUAACCUCUUUUAUCCCGGGUAUGAUAUUGCUCUGAUAAA
....(((((...(((((...((((.((((((((((.........)))))))))))))).)))))..)))))..((((((..(((((......))))).)))))) ( -33.00)
>consensus
AAACAGGUUUGCGCUCCGCCCGUGGAGGAAUUUACCAUCGACAAGUGGAUUCUUCACGAGGAGUUUAACCUCUUUUAUCCCGGGUAUGAUAUUGCUCUGAUAAA
....(((((...(((((...(((((((.(((((((.........)))))))))))))).)))))..)))))..((((((..(((((......))))).)))))) (-32.47 = -32.03 +  -0.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:48 2006