Locus 6458

Sequence ID 3R_DroMel_CAF1
Location 16,923,520 – 16,923,634
Length 114
Max. P 0.541482
window10519

overview

Window 9

Location 16,923,520 – 16,923,634
Length 114
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 80.62
Mean single sequence MFE -34.81
Consensus MFE -22.54
Energy contribution -23.18
Covariance contribution 0.64
Combinations/Pair 1.17
Mean z-score -1.63
Structure conservation index 0.65
SVM decision value 0.02
SVM RNA-class probability 0.541482
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16923520 114 + 27905053
GCUGCAGUCGAUGGGCUCGUCGAUAGUGGGAAGGCUCGGUGCCGGCACUAUCGAUUCCCAACACCAUACGAUAAUAUCGGCU---AAGUUAUCAA-UAUCGAAGUU-UACUAUAUUUCG
(((..((((((((((...((((((((((....(((.....)))..)))))))))).))).....(....).....)))))))---.)))......-...((((((.-......)))))) ( -33.40)
>DroSec_CAF1 11244 118 + 1
GCCGCAGUCGAUGGGCUUGUCGAUAGUGGGAAGGCUCGGUGCCGGCACUAUCGAUUGCGAACACUAUCCGAUAGUUAUAAAUAUAAAGUUAUAAA-UGUCGAAGUUAUACAAUUUUUCG
..((((((((((((...(((((.((.((((....)))).)).))))))))))))))))).........(((((.((((((........)))))).-))))).................. ( -35.60)
>DroSim_CAF1 11239 115 + 1
GCCGCAGUCGAUGGGCUUGUCGAUAGUGGGAAGGCUCGGUGCCGGCACUAUCGAUUGCGAACACUAUCCGAUAGUAUCGGAU---AAGUUAUCAA-UGUCGAAGUUAUACUAUUUUUCG
..((((((((((((...(((((.((.((((....)))).)).)))))))))))))))))(((..((((((((...)))))))---).))).....-...(((((..........))))) ( -38.00)
>DroEre_CAF1 10376 116 + 1
GCCAAAGUCGAUAGGCUCUUCGAUAGUGGAAAGGUUCGGUGCCGGCACUAUCGAUUGCGCAUACUACCCGAUAUUAUCGGAU---AAAGUAACACUUAUCGAUAUUAUACUCUAUUUGU
......((((((((((...(((((((((....(((.....)))..)))))))))..))...((((..(((((...)))))..---..))))....))))))))................ ( -32.00)
>DroYak_CAF1 11291 115 + 1
GCCACAGUCGAUAAGCUUGUCGAUAGUGGAAAGGAUUGGUGCCGGAACUAUCGAUUGCGCACACUACCCGAUGGUAUCGGCG---AAAUGAACAA-UAUCGAAAUUGUGCUCUAUUUCC
.((((.(((((((....))))))).))))...........(((((.(((((((...............))))))).)))))(---(((((.((((-(......)))))....)))))). ( -35.06)
>consensus
GCCGCAGUCGAUGGGCUUGUCGAUAGUGGGAAGGCUCGGUGCCGGCACUAUCGAUUGCGAACACUAUCCGAUAGUAUCGGAU___AAGUUAUCAA_UAUCGAAGUUAUACUAUAUUUCG
.......((((((.((...(((((((((....(((.....)))..)))))))))..)).........((((.....))))................))))))................. (-22.54 = -23.18 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:58 2006