Locus 3015

Sequence ID 3R_DroMel_CAF1
Location 8,065,108 – 8,065,223
Length 115
Max. P 0.753821
window4849

overview

Window 9

Location 8,065,108 – 8,065,223
Length 115
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 81.49
Mean single sequence MFE -40.82
Consensus MFE -23.80
Energy contribution -26.50
Covariance contribution 2.70
Combinations/Pair 1.18
Mean z-score -2.38
Structure conservation index 0.58
SVM decision value 0.48
SVM RNA-class probability 0.753821
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8065108 115 - 27905053
UAAGCGGUUGACGCGAUUCG-GGCUUAAUUGCUUUUACACCCAGUG---GGGAUGAUGGAUCGUAGGGCGAUUGAGGAGAUCAUUGGGCCUCUUAAAGUGCGGAAGUACGCCGACCGCA
...((((((...((((((((-(((......))))...(((((....---))).))..)))))))..(((.....(((((..(....)..)))))...((((....))))))))))))). ( -44.40)
>DroPse_CAF1 9592 92 - 1
UAAGCAGUUGACACGAUUCGCGGCUUAAUUGCUUUUCCAACCAAUA---UGAAUGAUGGAUGAAGAGUCGAUAGAGCGAAUA---------------GAAAGGAAGUACC---------
.((((((((((..((.....))..))))))))))((((..(((.((---....)).)))........(((......)))...---------------....)))).....--------- ( -17.40)
>DroSec_CAF1 11268 115 - 1
UAAGCGGUUGACGCGAUUCG-GGCUUAAUUGCUUUUACACCCAGUG---GGGAUGAUGGAUCGUAGGGCGAUUGAGGAGAUCAUUGGGCCUCUUAAAGUACGGAAGUACGCCGACCGCA
...((((((...((((((((-(((......))))...(((((....---))).))..)))))))..(((.....(((((..(....)..)))))...((((....))))))))))))). ( -44.40)
>DroSim_CAF1 11259 115 - 1
UAAGCGGUUGACGCGAUUCG-GGCUUAAUUGCUUUUACACCCAGUG---GGGAUGAUGGAUCGUAGGGCGAUUGAGGAGAUCAUUGGGCCUCUUAAAGUACGGAAGUACGCCGACCGCA
...((((((...((((((((-(((......))))...(((((....---))).))..)))))))..(((.....(((((..(....)..)))))...((((....))))))))))))). ( -44.40)
>DroEre_CAF1 9691 115 - 1
UAAGCGGUUGACGCGAUUCG-GGCUUAAUUGCCUUUACACCCAGUG---GGGAUGAUGGAUCGUGGGUCGAUUGAGCAGAUCAUUGGGCCUCUUAAAGUGCGGAUGUACUCUGACCGCA
...((((((..(((((((((-(((......))))...(((((....---))).))..))))))))((((.(.(((.....))).).))))......(((((....)))))..)))))). ( -42.70)
>DroYak_CAF1 9900 117 - 1
UAAGCGGUUGACGAGAUUCG-GGCUUAAUUGCCU-UACACCCAGUGGUUGGGAUGAUGGAUCGUAGGGCGAUUGAGGAGGUUGUUGGGCCUCCUAAAGUGCGGAUGUACUCUGACCGCA
...((((((((..(.(((((-.((((((((((((-(((.(((((...)))))..((....))))))))))))).(((((((......))))))).)))).))))).)..)).)))))). ( -51.60)
>consensus
UAAGCGGUUGACGCGAUUCG_GGCUUAAUUGCUUUUACACCCAGUG___GGGAUGAUGGAUCGUAGGGCGAUUGAGGAGAUCAUUGGGCCUCUUAAAGUACGGAAGUACGCCGACCGCA
...(((((((..(((((((..(((......)))....(((((.......))).))..)))))))(((.(.(.(((.....))).).).)))......((((....))))..))))))). (-23.80 = -26.50 +   2.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:11 2006