Locus 2736

Sequence ID 3L_DroMel_CAF1
Location 7,676,414 – 7,676,565
Length 151
Max. P 0.935774
window4282 window4283

overview

Window 2

Location 7,676,414 – 7,676,504
Length 90
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 94.12
Mean single sequence MFE -16.85
Consensus MFE -14.84
Energy contribution -15.15
Covariance contribution 0.31
Combinations/Pair 1.03
Mean z-score -1.74
Structure conservation index 0.88
SVM decision value 0.55
SVM RNA-class probability 0.779410
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7676414 90 + 23771897
-----UUUGGU--UUUGUUUGGCAUAGAACGAAACAACUAAAUAUGAACAAAUAACGAUUUUAUUUUGUAAACAGUUUCAAUUUGAAACUUCAUACA
-----....((--(((((((......))))))))).......((((((((((............)))))....((((((.....))))))))))).. ( -16.90)
>DroSim_CAF1 50817 90 + 1
-----UUUGGU--UUUGUUUGGCAUAGAACGAAACAACUAAAUAUGAACAAAUAACGAUUUUAUUUUGUAAACAGUUUCAAUUUGAAACUUCAUACA
-----....((--(((((((......))))))))).......((((((((((............)))))....((((((.....))))))))))).. ( -16.90)
>DroYak_CAF1 52454 90 + 1
-----UUUGGU--UUUGUUUGGCAUAGAACGAAACAACUAAAUAUGAACAAAUAACGAUUUUAUUUUGUAAACAGUUUCAAUUUGAAACUUCAUACA
-----....((--(((((((......))))))))).......((((((((((............)))))....((((((.....))))))))))).. ( -16.90)
>DroAna_CAF1 45146 97 + 1
UUUUUUUUUGUUUUUUGGUUGGCAUAGAACGAAACAACUAAAUAUGAACAAAUAACGAUCUUAUUUUGUAAACGGUUUCAAUUUGAAACUUCAUACA
......(((((((((((((((.............))))))))...)))))))..............((((...((((((.....))))))...)))) ( -16.72)
>consensus
_____UUUGGU__UUUGUUUGGCAUAGAACGAAACAACUAAAUAUGAACAAAUAACGAUUUUAUUUUGUAAACAGUUUCAAUUUGAAACUUCAUACA
.....((((((..(((((((......)))))))...))))))((((((((((............)))))....((((((.....))))))))))).. (-14.84 = -15.15 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 7,676,473 – 7,676,565
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 97.10
Mean single sequence MFE -10.57
Consensus MFE -10.40
Energy contribution -10.73
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.14
Structure conservation index 0.98
SVM decision value 1.25
SVM RNA-class probability 0.935774
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7676473 92 - 23771897
ACUGACUCAAACGUCACAAAUACUAAAAUAAAUAAUACAAAAAUUCAGAAAUUCACAAACAUGUAUGAAGUUUCAAAUUGAAACUGUUUACA
..((((......)))).............................................((((...((((((.....))))))...)))) ( -11.30)
>DroSim_CAF1 50876 92 - 1
ACUGACUCAAACGUCACAAAUACUAAAAUAAAUAAUACAAAAAUUCAGAAAUUCACAAACAUGUAUGAAGUUUCAAAUUGAAACUGUUUACA
..((((......)))).............................................((((...((((((.....))))))...)))) ( -11.30)
>DroAna_CAF1 45212 90 - 1
ACUGACUCAAAUGUCACAAAUACUAAAAUAAAUAAUACA--AAUUCAGAAAUUCACAAACAUGUAUGAAGUUUCAAAUUGAAACCGUUUACA
..((((......)))).......................--....................((((....(((((.....)))))....)))) (  -9.10)
>consensus
ACUGACUCAAACGUCACAAAUACUAAAAUAAAUAAUACAAAAAUUCAGAAAUUCACAAACAUGUAUGAAGUUUCAAAUUGAAACUGUUUACA
..((((......)))).............................................((((...((((((.....))))))...)))) (-10.40 = -10.73 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:33 2006