Locus 3949

Sequence ID 3L_DroMel_CAF1
Location 11,465,941 – 11,466,048
Length 107
Max. P 0.980924
window6147 window6148

overview

Window 7

Location 11,465,941 – 11,466,048
Length 107
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 81.90
Mean single sequence MFE -27.33
Consensus MFE -16.30
Energy contribution -17.97
Covariance contribution 1.67
Combinations/Pair 1.07
Mean z-score -3.41
Structure conservation index 0.60
SVM decision value 1.64
SVM RNA-class probability 0.969157
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11465941 107 + 23771897
ACCACCCACAAGAUGCAU---------ACUUCUACAUUUGUAUGAAUGUUCAGAAUAUUCAGAAUGUAUAGGUUCAAUUUACAUACA-AUUUAUGUACAUACAUACGGCGGCGGUUA
(((.(((.....(((...---------((((.(((((((...(((((((.....)))))))))))))).))))......((((((..-...))))))....)))...).)).))).. ( -20.10)
>DroSec_CAF1 185480 103 + 1
ACCACCCACAAGAUUCAUACAU-----ACUUCUACAUUUGUAUGAAUGUACA---------GAAUGUAUAGGUUCAAUUUACAUACAUAUGUAUGUAACUACAUACGGUGGCGGUUA
.(((((.....(((..((((((-----.((..(((((((....))))))).)---------).))))))..)))....((((((((....))))))))........)))))...... ( -27.80)
>DroSim_CAF1 198750 104 + 1
ACCACCCACAAGAUUCAUACAUCUUGUAUUUCUACAUUUGUAUGAAUGUACA---------GAAUGUAUAGGUUCAAUUUACAUACAUAUGUAUGUAAG----UACGGUGGCGGUUA
.(((((......(((((((((...((((....))))..)))))))))((((.---------((((......))))...((((((((....)))))))))----))))))))...... ( -34.10)
>consensus
ACCACCCACAAGAUUCAUACAU_____ACUUCUACAUUUGUAUGAAUGUACA_________GAAUGUAUAGGUUCAAUUUACAUACAUAUGUAUGUAAAUACAUACGGUGGCGGUUA
.(((((.....................((((.(((((((((((....)))))..........)))))).))))...((((((((((....))))))))))......)))))...... (-16.30 = -17.97 +   1.67)

alignment

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secondary structure

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dotplot

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Window 8

Location 11,465,941 – 11,466,048
Length 107
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 81.90
Mean single sequence MFE -28.53
Consensus MFE -17.65
Energy contribution -20.10
Covariance contribution 2.45
Combinations/Pair 1.04
Mean z-score -3.40
Structure conservation index 0.62
SVM decision value 1.87
SVM RNA-class probability 0.980924
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11465941 107 - 23771897
UAACCGCCGCCGUAUGUAUGUACAUAAAU-UGUAUGUAAAUUGAACCUAUACAUUCUGAAUAUUCUGAACAUUCAUACAAAUGUAGAAGU---------AUGCAUCUUGUGGGUGGU
.....(((((((((((((((((((.....-)))))))).........)))))....(((((.........)))))((((((((((.....---------.))))).))))))))))) ( -23.10)
>DroSec_CAF1 185480 103 - 1
UAACCGCCACCGUAUGUAGUUACAUACAUAUGUAUGUAAAUUGAACCUAUACAUUC---------UGUACAUUCAUACAAAUGUAGAAGU-----AUGUAUGAAUCUUGUGGGUGGU
.....(((((((.(((((.((((((((....))))))))..........))))).)---------..((((((((((((.((......))-----.))))))))...)))))))))) ( -28.70)
>DroSim_CAF1 198750 104 - 1
UAACCGCCACCGUA----CUUACAUACAUAUGUAUGUAAAUUGAACCUAUACAUUC---------UGUACAUUCAUACAAAUGUAGAAAUACAAGAUGUAUGAAUCUUGUGGGUGGU
.....(((((((((----(((((((((....))))))))...(((........)))---------.))))(((((((((..((((....))))...)))))))))......)))))) ( -33.80)
>consensus
UAACCGCCACCGUAUGUACUUACAUACAUAUGUAUGUAAAUUGAACCUAUACAUUC_________UGUACAUUCAUACAAAUGUAGAAGU_____AUGUAUGAAUCUUGUGGGUGGU
.....(((((((((((...((((((((....))))))))........)))))..................(((((((((.................)))))))))......)))))) (-17.65 = -20.10 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:44 2006