Locus 1235

Sequence ID 3R_DroMel_CAF1
Location 3,716,886 – 3,716,980
Length 94
Max. P 0.947779
window2017

overview

Window 7

Location 3,716,886 – 3,716,980
Length 94
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 70.38
Mean single sequence MFE -25.62
Consensus MFE -10.12
Energy contribution -10.60
Covariance contribution 0.48
Combinations/Pair 1.25
Mean z-score -2.09
Structure conservation index 0.40
SVM decision value 1.38
SVM RNA-class probability 0.947779
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3716886 94 + 27905053
ACAAG--UGUAAAAG----UGUCGGCUCAG-GGGGAUAUAGUAUAUAUACUAUAUAUUCUAUAUAUACUACACCUUCUUCAUUGGCGC-UCGUCGAGCGGCU
.....--........----.((((.(((((-((((...(((((((((((..........)))))))))))..)))))).....(((..-..)))))))))). ( -25.40)
>DroPse_CAF1 4043 91 + 1
AAAAGACAGUCAUAUUGUAUGUCGGACUA-----CAUAUAGUAUAUAUACUAAGUGUACUGUAUCUA------CAUCUUCAUUGACGCGUCGCUCGGGGGCU
....(((.((((...((.((((.(((...-----..((((((((((.......))))))))))))))------)))...)).))))..)))(((....))). ( -22.20)
>DroSim_CAF1 3766 94 + 1
ACAAG--UGUAAUAG----UGUCGGCUCAG-GAGGAUAUAGUAUAUAUACUAUAUAUUCUAUAUAUACUACACCUUCUUCAUUGGCGC-UCGUCGAGCGGCU
.....--........----.((((.(((((-((((...(((((((((((..........)))))))))))..)))))).....(((..-..)))))))))). ( -26.20)
>DroEre_CAF1 8740 85 + 1
---AG--UGUAAAAG----UGUCGGAUCGGCGGGGAUAUAGUAU----AGUAUAUAUACUAUAUGC---ACACCGCCUUCAUUGGCGC-UCGUCGGGCGGCU
---..--........----.((((..((((((((.(((((((((----(.....))))))))))..---....((((......)))))-))))))).)))). ( -32.10)
>DroPer_CAF1 3913 91 + 1
AAAAGACAGUCAUAUUGUAUGUCGGACUA-----CAUAUAGUAUAUAUACUAAGUGUACUGUAUCUA------CAUCUUCAUUGACGCGUCGCUCGGGGGCU
....(((.((((...((.((((.(((...-----..((((((((((.......))))))))))))))------)))...)).))))..)))(((....))). ( -22.20)
>consensus
AAAAG__UGUAAUAG____UGUCGGAUCAG_G_GGAUAUAGUAUAUAUACUAUAUAUACUAUAUAUA__ACACCAUCUUCAUUGGCGC_UCGUCGGGCGGCU
....................(((............(((((((((((.......))))))))))).................((((((...))))))..))). (-10.12 = -10.60 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:18 2006