Locus 899

Sequence ID X_DroMel_CAF1
Location 2,511,956 – 2,512,065
Length 109
Max. P 0.999851
window1457 window1458

overview

Window 7

Location 2,511,956 – 2,512,065
Length 109
Sequences 3
Columns 109
Reading direction forward
Mean pairwise identity 77.48
Mean single sequence MFE -20.27
Consensus MFE -13.58
Energy contribution -13.36
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -2.24
Structure conservation index 0.67
SVM decision value 1.95
SVM RNA-class probability 0.983534
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2511956 109 + 22224390
GUUUCUUCUUUUUCGUUAUACAUACAUAUGUAUGUACAUAGUAGAAUAUGAUGUAUGUAUGUAUGAAUAUGUUUGAUAUUUUUAUUUACCACCCCCUGCGUAGGGUGGG
............(((.(((.(((((((((((((((.((((......))))))))))))))))))).)))....)))............((((((........)))))). ( -29.80)
>DroSec_CAF1 10424 84 + 1
GUUUCGUUUUAUUU----------------UCUUUCCAUAGUAGA--------UAUGUAUGUAUGAAUAUAUUUG-UAUUUUUAUUUACCACCCCCUGCGUAGGGUGGU
..............----------------...........((((--------(((((........)))))))))-...........(((((((........))))))) ( -15.50)
>DroSim_CAF1 11257 84 + 1
GUUUCUUUUUAUUU----------------UCUUUCCAUAGUAGA--------UAUGUAUGUAUGAAUAUGUUUG-UAUUUUUAUUUACCACCCCCUGCGUAGGGUGGU
..............----------------...........((((--------(((((........)))))))))-...........(((((((........))))))) ( -15.50)
>consensus
GUUUCUUUUUAUUU________________UCUUUCCAUAGUAGA________UAUGUAUGUAUGAAUAUGUUUG_UAUUUUUAUUUACCACCCCCUGCGUAGGGUGGU
.......................................((((((.........((((((......))))))........))))))..((((((........)))))). (-13.58 = -13.36 +  -0.22)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 2,511,956 – 2,512,065
Length 109
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 77.48
Mean single sequence MFE -17.81
Consensus MFE -12.60
Energy contribution -12.93
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.49
Structure conservation index 0.71
SVM decision value 4.25
SVM RNA-class probability 0.999851
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2511956 109 - 22224390
CCCACCCUACGCAGGGGGUGGUAAAUAAAAAUAUCAAACAUAUUCAUACAUACAUACAUCAUAUUCUACUAUGUACAUACAUAUGUAUGUAUAACGAAAAAGAAGAAAC
.(((((((......)))))))........................(((((((((((...((((......))))........)))))))))))................. ( -23.00)
>DroSec_CAF1 10424 84 - 1
ACCACCCUACGCAGGGGGUGGUAAAUAAAAAUA-CAAAUAUAUUCAUACAUACAUA--------UCUACUAUGGAAAGA----------------AAAUAAAACGAAAC
((((((((......))))))))...........-........((((((........--------.....))))))....----------------.............. ( -15.22)
>DroSim_CAF1 11257 84 - 1
ACCACCCUACGCAGGGGGUGGUAAAUAAAAAUA-CAAACAUAUUCAUACAUACAUA--------UCUACUAUGGAAAGA----------------AAAUAAAAAGAAAC
((((((((......))))))))...........-........((((((........--------.....))))))....----------------.............. ( -15.22)
>consensus
ACCACCCUACGCAGGGGGUGGUAAAUAAAAAUA_CAAACAUAUUCAUACAUACAUA________UCUACUAUGGAAAGA________________AAAUAAAAAGAAAC
((((((((......))))))))....................................................................................... (-12.60 = -12.93 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:35 2006