Locus 3366

Sequence ID X_DroMel_CAF1
Location 8,981,781 – 8,981,871
Length 90
Max. P 0.999805
window5514 window5515

overview

Window 4

Location 8,981,781 – 8,981,871
Length 90
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 75.59
Mean single sequence MFE -20.10
Consensus MFE -10.04
Energy contribution -10.60
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -2.33
Structure conservation index 0.50
SVM decision value 0.10
SVM RNA-class probability 0.582970
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8981781 90 + 22224390
AGCUAUUCAGAAUUUUUGAAAUUCUGA-AUAUUGAAAACUGAA--------AAGUAAAUAUAUGUUUUGGUUUAAAUGAGUGUACGAUGUUGCACUGUU
...(((((((((((.....))))))))-)))....((((..((--------(.(((....))).)))..)))).....((((((......))))))... ( -20.90)
>DroSec_CAF1 10314 87 + 1
AGCGUUUCAGAAUUUUAGAAAUUCUGAAAUAUU------------GUAUGUAUAUAAAUGUAUGUAUUUGUGUGAAAUAGUGUACGAUGUUGCACUGUU
...(((((((((((.....)))))))))))...------------.....((((((((((....)))))))))).(((((((((......))))))))) ( -23.10)
>DroSim_CAF1 6047 99 + 1
AGCUUUUCAGAAUUUUAGAAAUUUUGAAAUAUUGAAACCUGUAUGGUAUGUAUGUAAAUGUAUGUAUUUGUUUAAUUUGGUAUACGAUGUUGCACUGUU
.((...((((((((.....))))))))(((((((..(((..((.(((((((((......)))))))))....))....)))...)))))))))...... ( -16.30)
>consensus
AGCUUUUCAGAAUUUUAGAAAUUCUGAAAUAUUGAAA_CUG_A__GUAUGUAUGUAAAUGUAUGUAUUUGUUUAAAUUAGUGUACGAUGUUGCACUGUU
....((((((((((.....)))))))))).................................................((((((......))))))... (-10.04 = -10.60 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 8,981,781 – 8,981,871
Length 90
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 75.59
Mean single sequence MFE -10.83
Consensus MFE -8.62
Energy contribution -9.40
Covariance contribution 0.78
Combinations/Pair 1.07
Mean z-score -2.68
Structure conservation index 0.80
SVM decision value 4.12
SVM RNA-class probability 0.999805
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8981781 90 - 22224390
AACAGUGCAACAUCGUACACUCAUUUAAACCAAAACAUAUAUUUACUU--------UUCAGUUUUCAAUAU-UCAGAAUUUCAAAAAUUCUGAAUAGCU
....((((......))))..............................--------............(((-((((((((.....)))))))))))... ( -14.20)
>DroSec_CAF1 10314 87 - 1
AACAGUGCAACAUCGUACACUAUUUCACACAAAUACAUACAUUUAUAUACAUAC------------AAUAUUUCAGAAUUUCUAAAAUUCUGAAACGCU
....((((......))))....................................------------....((((((((((.....)))))))))).... ( -12.40)
>DroSim_CAF1 6047 99 - 1
AACAGUGCAACAUCGUAUACCAAAUUAAACAAAUACAUACAUUUACAUACAUACCAUACAGGUUUCAAUAUUUCAAAAUUUCUAAAAUUCUGAAAAGCU
......((............................................(((.....))).......(((((.((((.....)))).))))).)). (  -5.90)
>consensus
AACAGUGCAACAUCGUACACUAAUUUAAACAAAUACAUACAUUUACAUACAUAC__U_CAG_UUUCAAUAUUUCAGAAUUUCUAAAAUUCUGAAAAGCU
....((((......))))....................................................((((((((((.....)))))))))).... ( -8.62 =  -9.40 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:38 2006