Locus 5893

Sequence ID 3R_DroMel_CAF1
Location 15,475,750 – 15,475,860
Length 110
Max. P 0.734294
window9633

overview

Window 3

Location 15,475,750 – 15,475,860
Length 110
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 81.86
Mean single sequence MFE -32.75
Consensus MFE -21.92
Energy contribution -23.93
Covariance contribution 2.00
Combinations/Pair 1.10
Mean z-score -1.83
Structure conservation index 0.67
SVM decision value 0.43
SVM RNA-class probability 0.734294
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15475750 110 + 27905053
GCCCUGGUGCGACUCAAAGAGCCAGUGCGGUGAGUCAGCACGUCGCAAACGACCUAUUAC------UAUCUACUAACAUGUUUGUCUGUAUCCAUCAGAUAUACGAUGGCUUACUA
((.(((((.(........).))))).))(((((((((.(..((((....)))).......------.............((.((((((.......)))))).))).))))))))). ( -32.30)
>DroSec_CAF1 8042 110 + 1
GCCCUGGUGCGACUUCAAGUGCCAGUGCGGUAAGUAAGCACGUGGCACACGACCUAUUGC------UAUCUAUUAACAUUUAUGAAUGUAUCCAUCAGAUAUACGCUCGCUUACUA
((.((((..(........)..)))).))((((((..(((..((((((..........)))------))).................((((((.....)))))).)))..)))))). ( -33.60)
>DroSim_CAF1 3324 110 + 1
GCCCUGGUGCGACUCCAAGUGCCAGUGCGGUAAGUAAGCACGUCGCACACGACCUAUUGC------UAUCUAUUACCAUUUAUGAAUGUAUCCAUCAGAUAUACGCUCGCUUACUA
((.((((..(........)..)))).))((((((..(((..((((....)))).......------....................((((((.....)))))).)))..)))))). ( -33.60)
>DroYak_CAF1 3006 115 + 1
GCCCUGGUGCGACUCCAAGUGGCAGUGCGGUGAGUAAGCUUCUCGGACACGGCCUAUUCCCUCACGUAUCAUGUAACAUGUA-AUAUGUAACCAUCAGCUAUACGGUCGCAGUCCA
.....(((((((((....(((((.(((.((.(((((.(((..........))).))))))).)))((..(((((........-)))))..)).....)))))..)))))))..)). ( -31.50)
>consensus
GCCCUGGUGCGACUCCAAGUGCCAGUGCGGUAAGUAAGCACGUCGCACACGACCUAUUGC______UAUCUAUUAACAUGUAUGAAUGUAUCCAUCAGAUAUACGCUCGCUUACUA
((.(((((((........))))))).))(((((((.(((..((((....)))).................................((((((.....)))))).))).))))))). (-21.92 = -23.93 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:13 2006