Locus 1559

Sequence ID 3L_DroMel_CAF1
Location 4,552,355 – 4,552,450
Length 95
Max. P 0.965521
window2418

overview

Window 8

Location 4,552,355 – 4,552,450
Length 95
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 72.35
Mean single sequence MFE -23.49
Consensus MFE -8.56
Energy contribution -8.45
Covariance contribution -0.11
Combinations/Pair 1.30
Mean z-score -2.46
Structure conservation index 0.36
SVM decision value 1.58
SVM RNA-class probability 0.965521
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4552355 95 - 23771897
UUCACACUCAUAAAAUAUGAAUAGACGGG--GUC---GGAAUUUAUUCGACGCCGCCACCGUG--GUCGAAUGAAAUAUGCCAGUUCAGUUUAUGAAACUGA
.(((...(((((((...(((((.(.(((.--(((---(((.....)))))).))).)....((--((............))))))))).)))))))...))) ( -25.40)
>DroPse_CAF1 143595 89 - 1
UUCGCACUCAUAAAAUAUGAAUGGCCAUG--GCAAAAAAAAUUUAUUCGACA---------UG--AAUGAAUGAAAUAUGGACAUUCAGUUUAUGAAGCUGA
...((..(((((((...((((((.(((((--.........((((((((....---------.)--)))))))....))))).)))))).))))))).))... ( -24.12)
>DroYak_CAF1 133454 95 - 1
UUCGCACUCAUAAAAUAUGAAUAGACGGG--GUC---GGAAUUUAUUCGACGCCGCCAACGUG--GCCGAAUGAAAUAUGCCAGUUCAGUUUAUGAAACUGA
.......(((((((...(((((.(.(((.--(((---(((.....)))))).))).)....((--((............))))))))).)))))))...... ( -26.70)
>DroMoj_CAF1 183583 82 - 1
UUC-G-UUCAUAAAAUAUGAAAGCGCAGU--G------AAAUUUAUUCAGCUCGACCAAC----------AUGAAAUAUGCGCAUUCAGUUUAUGAAGCUGA
...-.-((((((((...((((.(((((.(--(------((.....))))..(((......----------.)))....))))).)))).))))))))..... ( -18.50)
>DroAna_CAF1 131568 99 - 1
UUUUCGCUCAUAAAAUAUGAAUGGCCAGGCAGGA---GGAAUUUAUUCAACGGGCCGAACGGGGAGCUGAAUGAAAUAUGCCAGUUUGGUUUAUGAAACUGA
.(((((.(((((...)))))..((((((((.((.---....((((((((.(...((......)).).)))))))).....)).))))))))..))))).... ( -22.10)
>DroPer_CAF1 144852 89 - 1
UUCGCACUCAUAAAAUAUGAAUGGCCAUG--GCAAAAAAAAUUUAUUCGACA---------UG--AAUGAAUGAAAUAUGGACAUUCAGUUUAUGAAGCUGA
...((..(((((((...((((((.(((((--.........((((((((....---------.)--)))))))....))))).)))))).))))))).))... ( -24.12)
>consensus
UUCGCACUCAUAAAAUAUGAAUGGCCAGG__GCA___GAAAUUUAUUCGACGC__CCAAC_UG__GAUGAAUGAAAUAUGCCAAUUCAGUUUAUGAAACUGA
.......(((((((...(((((.(.((..............((((((((..................))))))))...)).).))))).)))))))...... ( -8.56 =  -8.45 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:37 2006