Locus 7161

Sequence ID 3L_DroMel_CAF1
Location 19,208,456 – 19,208,575
Length 119
Max. P 0.978215
window11631 window11632

overview

Window 1

Location 19,208,456 – 19,208,575
Length 119
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 83.04
Mean single sequence MFE -30.25
Consensus MFE -27.31
Energy contribution -27.99
Covariance contribution 0.67
Combinations/Pair 1.12
Mean z-score -2.22
Structure conservation index 0.90
SVM decision value 1.81
SVM RNA-class probability 0.978215
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19208456 119 + 23771897
AGAAAAGUAAAAAUAAAAAGUAAUAAUUCCUCAGAAUAGAGGAAUGUCCCCAAAAAGUGUCGCCUGUGUGUACUAAACUGCCUAGAUUCGCAGCAACACUGGGCAGAGGGACACACAGG
.........................(((((((......))))))).................(((((((((.((...((((((((.............))))))))..))))))))))) ( -36.52)
>DroSec_CAF1 36779 104 + 1
AGA---------------UUUAUUAAUUCCUCAGAAUAGAGGUAUGUCCCCAAAAAGUGUCGCAUGUGUGUACUCAACUGCUUAGAUUCGCAACAACACUGGGCACAGGAACGCACAGG
...---------------..........((((......))))......................(((((((..((...(((((((.............)))))))...))))))))).. ( -20.22)
>DroSim_CAF1 40917 104 + 1
AGA---------------GUUACUUAUUCCUCAGAAUAGAGGAAUGUCCCCAAAAAGUGUCGCCUGUGUGUACUAAACUGCCUAGAUUCGCAACAACACUGGGCACAUGGACGCACAGG
...---------------......((((((((......))))))))................(((((((((.(((...(((((((.............)))))))..)))))))))))) ( -34.02)
>consensus
AGA_______________AUUAAUAAUUCCUCAGAAUAGAGGAAUGUCCCCAAAAAGUGUCGCCUGUGUGUACUAAACUGCCUAGAUUCGCAACAACACUGGGCACAGGGACGCACAGG
.........................(((((((......))))))).................(((((((((.(((...(((((((.............)))))))..)))))))))))) (-27.31 = -27.99 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,208,456 – 19,208,575
Length 119
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 83.04
Mean single sequence MFE -28.83
Consensus MFE -26.71
Energy contribution -27.27
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.38
Structure conservation index 0.93
SVM decision value 1.05
SVM RNA-class probability 0.906981
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19208456 119 - 23771897
CCUGUGUGUCCCUCUGCCCAGUGUUGCUGCGAAUCUAGGCAGUUUAGUACACACAGGCGACACUUUUUGGGGACAUUCCUCUAUUCUGAGGAAUUAUUACUUUUUAUUUUUACUUUUCU
((((((((((...(((((.(((((....)))...)).)))))....).)))))))))..........((....))((((((......)))))).......................... ( -32.90)
>DroSec_CAF1 36779 104 - 1
CCUGUGCGUUCCUGUGCCCAGUGUUGUUGCGAAUCUAAGCAGUUGAGUACACACAUGCGACACUUUUUGGGGACAUACCUCUAUUCUGAGGAAUUAAUAAA---------------UCU
.......(((((((.....(((((((((((........)))((.....))......))))))))...)))))))...((((......))))..........---------------... ( -25.00)
>DroSim_CAF1 40917 104 - 1
CCUGUGCGUCCAUGUGCCCAGUGUUGUUGCGAAUCUAGGCAGUUUAGUACACACAGGCGACACUUUUUGGGGACAUUCCUCUAUUCUGAGGAAUAAGUAAC---------------UCU
....(((......((.((((((((((((((........)).((.....)).....))))))))....)))).))(((((((......)))))))..)))..---------------... ( -28.60)
>consensus
CCUGUGCGUCCCUGUGCCCAGUGUUGUUGCGAAUCUAGGCAGUUUAGUACACACAGGCGACACUUUUUGGGGACAUUCCUCUAUUCUGAGGAAUUAAUAAA_______________UCU
.......(((((((.....(((((((((((........)))((.....))......))))))))...)))))))(((((((......)))))))......................... (-26.71 = -27.27 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:41 2006