Locus 8683

Sequence ID X_DroMel_CAF1
Location 22,020,175 – 22,020,266
Length 91
Max. P 0.859323
window14277

overview

Window 7

Location 22,020,175 – 22,020,266
Length 91
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 70.27
Mean single sequence MFE -19.49
Consensus MFE -13.30
Energy contribution -13.38
Covariance contribution 0.08
Combinations/Pair 1.13
Mean z-score -1.34
Structure conservation index 0.68
SVM decision value 0.82
SVM RNA-class probability 0.859323
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 22020175 91 + 22224390
UUCU--UA--CAGAA--UCGAAAUAUAAAACAUGAUUGCCAUGAAG----GUUUCUACUAAAGCGUUUAGAGACCCCUCUAAACCUAGAUUUGUUCGGCUU
.((.--.(--((((.--(((((((......((((.....))))...----)))))......((.((((((((....)))))))))).)))))))..))... ( -18.40)
>DroSec_CAF1 82818 87 + 1
UUUA--UA--CAGAA--UCUAAAUAUAAAAGAUGAUUGCCCUGAAGGUAGGUUUCUACUAAAGCGUUUAGAGGCUCCUCUGAACCU--------CUGGCUU
....--..--((((.--............(((...(((((.....)))))...)))........((((((((....)))))))).)--------))).... ( -20.80)
>DroSim_CAF1 61427 87 + 1
UUUU--UA--CAGAA--UCUAAAUAUAAAAGAUGAUUGCCCUGAAGGUAGGUUUCUACUAAAGCGUUUAGAGGCUCCUCUGAACCU--------CUGGCUU
....--..--((((.--............(((...(((((.....)))))...)))........((((((((....)))))))).)--------))).... ( -20.80)
>DroEre_CAF1 56947 92 + 1
UCGUUUUU--CAAUA--U-CAAAUAUAAAACUCGAUGGCCACAUG----GGUUUCCACUAAAGCGUUCAGAGGCUCCUCUGAACCCAGAGUCCUUCGGCUA
..(((((.--.....--.-.......)))))((((.((.(...((----(((((......))))((((((((....)))))))))))..).)).))))... ( -22.14)
>DroYak_CAF1 65625 88 + 1
UUUUUUUCGGUAAUAUAUCUAAAUAUUAAACUGUGU-UCCAUAAA----GGUUUCCACUAAAGCGUUUAGAGGCUGCUCUGAACCACGA--------GCUA
.....((((.((((((......))))))....(((.-.((.....----))....)))....(.((((((((....))))))))).)))--------)... ( -15.30)
>consensus
UUUU__UA__CAGAA__UCUAAAUAUAAAACAUGAUUGCCAUGAAG___GGUUUCUACUAAAGCGUUUAGAGGCUCCUCUGAACCU_GA_____CCGGCUU
.....................................(((..........((((......))))((((((((....))))))))............))).. (-13.30 = -13.38 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:16 2006