Locus 2394

Sequence ID 3R_DroMel_CAF1
Location 6,746,714 – 6,746,830
Length 116
Max. P 0.932046
window3869 window3870

overview

Window 9

Location 6,746,714 – 6,746,830
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 97.88
Mean single sequence MFE -20.07
Consensus MFE -17.30
Energy contribution -17.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.65
Structure conservation index 0.86
SVM decision value 0.57
SVM RNA-class probability 0.784693
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6746714 116 + 27905053
AUUUACAUUUGACUUAAAUAUGCGUAUUUUCGCAUAAAUUACAAAAUAUUUCGCAUUCCAUUUUAUUCGUGCACCACGCGAUAUAUUUGUCAUAUCCACAU----AUACGACUGUAUAUC
.........((((.....((((((......)))))).......((((((.((((....(((.......)))......)))).)))))))))).......((----((((....)))))). ( -19.70)
>DroSec_CAF1 11005 116 + 1
AUUUACAUUUGACUUAAAUAUGCGUAUUUUCGCAUAAAUUACAAAAUAUUUCGCAUUCCAUUUUAUUCGUGCACCACGCGAUAUAUUUGUCAUAUCCACAU----AUACGACUGUAUAUC
.........((((.....((((((......)))))).......((((((.((((....(((.......)))......)))).)))))))))).......((----((((....)))))). ( -19.70)
>DroSim_CAF1 15386 116 + 1
AUUUACAUUUGACUUAAAUAUGCGUAUUUUCGCAUAAAUUACAAAAUAUUUCGCAUUCCAUUUUAUUCGUGCACCACGCGAUAUAUUUGUCAUAUCCACAU----AUACGACUGUAUAUC
.........((((.....((((((......)))))).......((((((.((((....(((.......)))......)))).)))))))))).......((----((((....)))))). ( -19.70)
>DroYak_CAF1 6995 120 + 1
AUUUACAUUUGACUUAAAUAUGCGUAUUUUCGCAUAAAUUACAAAAUAUUUCGCAUUCCAUUUUAUUCGUGCACCACGCGAUAUAUUUGUCAUAUCCACAUAUGUAUACGACUGCAUAUC
.........((((.....((((((......)))))).......((((((.((((....(((.......)))......)))).)))))))))).......(((((((......))))))). ( -21.20)
>consensus
AUUUACAUUUGACUUAAAUAUGCGUAUUUUCGCAUAAAUUACAAAAUAUUUCGCAUUCCAUUUUAUUCGUGCACCACGCGAUAUAUUUGUCAUAUCCACAU____AUACGACUGUAUAUC
.........((((.....((((((......)))))).......((((((.((((....(((.......)))......)))).))))))))))............................ (-17.30 = -17.30 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 6,746,714 – 6,746,830
Length 116
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 97.88
Mean single sequence MFE -26.43
Consensus MFE -24.86
Energy contribution -24.68
Covariance contribution -0.19
Combinations/Pair 1.03
Mean z-score -2.48
Structure conservation index 0.94
SVM decision value 1.22
SVM RNA-class probability 0.932046
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6746714 116 - 27905053
GAUAUACAGUCGUAU----AUGUGGAUAUGACAAAUAUAUCGCGUGGUGCACGAAUAAAAUGGAAUGCGAAAUAUUUUGUAAUUUAUGCGAAAAUACGCAUAUUUAAGUCAAAUGUAAAU
((((((..(((((((----......)))))))...))))))(((((.((((..(((...(..(((((.....)))))..).)))..))))....)))))((((((.....)))))).... ( -26.30)
>DroSec_CAF1 11005 116 - 1
GAUAUACAGUCGUAU----AUGUGGAUAUGACAAAUAUAUCGCGUGGUGCACGAAUAAAAUGGAAUGCGAAAUAUUUUGUAAUUUAUGCGAAAAUACGCAUAUUUAAGUCAAAUGUAAAU
((((((..(((((((----......)))))))...))))))(((((.((((..(((...(..(((((.....)))))..).)))..))))....)))))((((((.....)))))).... ( -26.30)
>DroSim_CAF1 15386 116 - 1
GAUAUACAGUCGUAU----AUGUGGAUAUGACAAAUAUAUCGCGUGGUGCACGAAUAAAAUGGAAUGCGAAAUAUUUUGUAAUUUAUGCGAAAAUACGCAUAUUUAAGUCAAAUGUAAAU
((((((..(((((((----......)))))))...))))))(((((.((((..(((...(..(((((.....)))))..).)))..))))....)))))((((((.....)))))).... ( -26.30)
>DroYak_CAF1 6995 120 - 1
GAUAUGCAGUCGUAUACAUAUGUGGAUAUGACAAAUAUAUCGCGUGGUGCACGAAUAAAAUGGAAUGCGAAAUAUUUUGUAAUUUAUGCGAAAAUACGCAUAUUUAAGUCAAAUGUAAAU
((((((..(((((((.((....)).)))))))...))))))(((((.((((..(((...(..(((((.....)))))..).)))..))))....)))))((((((.....)))))).... ( -26.80)
>consensus
GAUAUACAGUCGUAU____AUGUGGAUAUGACAAAUAUAUCGCGUGGUGCACGAAUAAAAUGGAAUGCGAAAUAUUUUGUAAUUUAUGCGAAAAUACGCAUAUUUAAGUCAAAUGUAAAU
((((((..(((((((..........)))))))...))))))(((((.((((..(((...(..(((((.....)))))..).)))..))))....)))))((((((.....)))))).... (-24.86 = -24.68 +  -0.19)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:22 2006