Locus 5375

Sequence ID 2R_DroMel_CAF1
Location 17,353,411 – 17,353,504
Length 93
Max. P 0.628387
window8582

overview

Window 2

Location 17,353,411 – 17,353,504
Length 93
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 78.97
Mean single sequence MFE -28.84
Consensus MFE -15.98
Energy contribution -16.70
Covariance contribution 0.72
Combinations/Pair 1.12
Mean z-score -1.82
Structure conservation index 0.55
SVM decision value 0.19
SVM RNA-class probability 0.628387
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17353411 93 - 20766785
GACUUCGAAAG---AGAC------------GGAGUUGUAGGCCAAGU---AGUGCCUGUAGUGCCUGCAACGGGGCCUUAAUUUGGCUUAAAUGGCCGGCCAAAUUGCAUG
...(((....)---))..------------((..(((((((((....---.).))))))))..))(((((...((((.......((((.....))))))))...))))).. ( -29.71)
>DroSec_CAF1 69157 84 - 1
GACGUCGAAAG---AUAC------------GGAGUUGUAGGCCAAGU---AGU---------GCCUGCAGCGGGGCCUUAAUUUGGCUUAAAUGGCCGGCCAAAUUGCAUG
...(((....)---))..------------((.((((((((((....---.).---------)))))))))....)).((((((((((.........)))))))))).... ( -30.10)
>DroSim_CAF1 71630 84 - 1
GACGUCGAAAG---AGAC------------GGAGUUGUAGGCCAAGU---AGU---------GCCUGCAACGGGGCCUUAAUUUGGCUUAAAUGGCCGGCCAAAUUGCAUG
..((((.....---.)))------------)..((((((((((....---.).---------)))))))))..((((.......((((.....)))))))).......... ( -31.51)
>DroEre_CAF1 67858 96 - 1
GACGUCGAAAG---AGACGGAGACGUAGACGGAGUUUGAGGCCAAGU---AGU---------GCCAGCAACGGGGCCUUAAUUUGGCUUAAAUGGCCGGCCAAAUUGCAUG
..((((.....---..(((....))).))))......((((((..((---.((---------....)).))..))))))(((((((((.........)))))))))..... ( -31.50)
>DroYak_CAF1 49335 87 - 1
GACGUCGAAAG---AGAC------------GGAGUUUGAGGCCAAGUAGUAGU---------GCCUGCAACGGGGCCUUAAUUUGGCUUAAAUGGCCGGCCAAAUUGCAUG
..((((.....---.)))------------)......((((((..((.((((.---------..)))).))..))))))(((((((((.........)))))))))..... ( -29.90)
>DroMoj_CAF1 67830 80 - 1
---GCUGAAAGAGGAGGA------------GGAG------GCACAGCC-AAAC---------GCUUCCAACGGGGCCUUAAUUUGGCUUAAAUGGCUGACCAAAUUGCACA
---((.....((((.(..------------((((------((......-....---------))))))..)....))))(((((((.(((......))))))))))))... ( -20.30)
>consensus
GACGUCGAAAG___AGAC____________GGAGUUGUAGGCCAAGU___AGU_________GCCUGCAACGGGGCCUUAAUUUGGCUUAAAUGGCCGGCCAAAUUGCAUG
..............................(.((((...((((...................((((......))))........((((.....)))))))).)))).)... (-15.98 = -16.70 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:21 2006