Locus 3659

Sequence ID 3R_DroMel_CAF1
Location 9,907,007 – 9,907,113
Length 106
Max. P 0.565437
window5878

overview

Window 8

Location 9,907,007 – 9,907,113
Length 106
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 75.50
Mean single sequence MFE -25.63
Consensus MFE -17.16
Energy contribution -16.47
Covariance contribution -0.69
Combinations/Pair 1.26
Mean z-score -1.07
Structure conservation index 0.67
SVM decision value 0.06
SVM RNA-class probability 0.565437
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9907007 106 + 27905053
U----GUAUCGAUG--------CGAUAUGU-UAGAUAAUAACUGCGCCUCUACUUUGAUAGGACAAUGCCUGGAGGUGCUCAAUAACGAGGCGCAGCCGAUAGACGAAUUUAAUCUGGA
.----((((((...--------)))))).(-(((((.....(((((((((((((((..((((......)))))))))).........))))))))).((.....))......)))))). ( -28.60)
>DroVir_CAF1 127743 93 + 1
---------CGCUG--------C---UUGAACAGAUAAUAACUGCGCCUCUACUUUGAUAGGGCAAUGCCUGGAGGCGCUCAACAGCGA------GCAAAUUGACGAAUUUAAUCUGGA
---------(((((--------.---((((..((.......))(((((((((((.....))(((...))))))))))))))))))))).------.((.(((((.....))))).)).. ( -27.40)
>DroGri_CAF1 118898 93 + 1
---------UGCUG--------C---CUGAGCAGAUAAUAACUGCGCCUCUACUUUGAUAGGACAAUGCCUGGAGGCGCUCAACAGUGA------GCAAAUUGACGAAUUUAACUUGGA
---------((((.--------.---(((.((((.......))))(((((((..(((......)))....)))))))......)))..)------)))..................... ( -24.30)
>DroWil_CAF1 138330 95 + 1
------------------------AUUUGCUUAGAUAAUAACUGCGCCUCUACUUUGAUAGGACAAUGUCUGGAGGUGCUUAACAAUGAGGCGCAACCAAUUGACGAAUUUAAUUUGGA
------------------------..................((((((((..((((((((......)))).))))((.....))...)))))))).((((((((.....)))).)))). ( -22.60)
>DroMoj_CAF1 110158 93 + 1
---------UUCUG--------C---UUGAACAGAUAAUAACUGCGCCUCUACUUUGAUAGGGCAAUGCCUGGAGGCGCUGAACAGUGA------ACCCAUCGAAGAAUUUAAUCUGGA
---------.....--------.---.....(((((.......(((((((((((.....))(((...))))))))))))....(.(((.------...))).).........))))).. ( -23.40)
>DroAna_CAF1 110895 118 + 1
UCCAAAUCUCGAUUCCCAAAAUCGAAAUUU-UAGAUAAUAACUGCGCCUCUACUUUGAUAGGACAAUGCCUGGAGGUGCUCAAUAGCGAGGCUCAGCCAAUUGACGAAUUUAAUCUGGA
...((((.((((((.....)))))).))))-..........(((.(((((.(((((..((((......)))))))))(((....)))))))).)))((((((((.....))))).))). ( -27.50)
>consensus
_________CGCUG________C___UUGA_CAGAUAAUAACUGCGCCUCUACUUUGAUAGGACAAUGCCUGGAGGCGCUCAACAGCGA______GCCAAUUGACGAAUUUAAUCUGGA
...............................(((((.......(((((((((..(((......)))....)))))))))......((........))...............))))).. (-17.16 = -16.47 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:45 2006