Locus 3507

Sequence ID 3L_DroMel_CAF1
Location 10,289,099 – 10,289,203
Length 104
Max. P 0.944356
window5477

overview

Window 7

Location 10,289,099 – 10,289,203
Length 104
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 69.35
Mean single sequence MFE -33.35
Consensus MFE -17.54
Energy contribution -19.73
Covariance contribution 2.19
Combinations/Pair 1.05
Mean z-score -1.87
Structure conservation index 0.53
SVM decision value 1.34
SVM RNA-class probability 0.944356
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10289099 104 - 23771897
CUCGGCUGGCAGGCUCGGCCAUCUGCUUUGCAUUUCAGCAGCUGCCUUGUUGAGCUGUCAGCCGGGCUUGAAAGCUGCACUGGGAAAAAAUAA-----C----A-----UGAAAUUCU
..(((((..((((((((((...(.((((.(((...(((...)))...))).)))).)...))))))))))..)))))................-----.----.-----......... ( -35.20)
>DroSec_CAF1 164030 104 - 1
CUCGGCUGGCAGGCUCGCCCAUCUGCUUUGCAUUUCAGCAGCUGCCUUGUUGCGCUGUCAGCCGGGCUUGAAAGCUGCACUGCUCCAAAACUU-----G----U-----AGCUUCUCA
((((((((((((((..((......))...))......(((((......))))).))))))))))))..(((((((((((.............)-----)----)-----))))).))) ( -40.62)
>DroSim_CAF1 170593 104 - 1
CUCGGCUGGCAGGCUCGCCCAUCUGCUUUGCAUUUCAGCAGCUGCCUUGUUGAGCUGUCAGCCGGGCUUGAAANNNNNNNNNNNNNNNNNNNN-----N----N-----NNNNNNNNN
((((((((((((.((((..((...((.((((......))))..))..)).))))))))))))))))...........................-----.----.-----......... ( -31.30)
>DroEre_CAF1 174501 113 - 1
CUUAGCUGGCAGGCUCGCCCAUCUGCUUUGCAUUUCAGCAGCUGCCUUGUUGAGCUGUCAGCCUGGCUUGCAAGCUGCACUGCAAAAAACACU-GGAAC----AUAAAGUCCAAUUCU
....((.((((((........))))))..))......(((((((((..(((((....)))))..))).....))))))..............(-(((..----......))))..... ( -30.80)
>DroYak_CAF1 172272 111 - 1
CUCAGCUGGCAGGCUCGCCCAUCUGCUUUGCAUUUCAGCAGCUGCCUUGUUGAGCUGUCAGCCUGGCUUCAAAGCUGCACUGCAAAAAAAAAU---AAC----AAACAGUAAAAUGCU
....(((((((((........)))))((((((.....(((((((((..(((((....)))))..))).....))))))..)))))).......---...----...))))........ ( -31.60)
>DroAna_CAF1 175661 111 - 1
CGUUUCUGGC-------CCCAUCUGCUUUGCAUUUCAGCAGCUGCCUUGUUCAGCUGUCAGCCUGUCCAGAAGAAAGCACUGAAAGAAAAGACUAGGCCUAGGUUAUGGCCCAGUCUC
..(((((((.-------......(((...))).....(((((((.......)))))))........)))))))................(((((.((((........)))).))))). ( -30.60)
>consensus
CUCGGCUGGCAGGCUCGCCCAUCUGCUUUGCAUUUCAGCAGCUGCCUUGUUGAGCUGUCAGCCGGGCUUGAAAGCUGCACUGCAAAAAAAAAU_____C____A_____UCCAAUUCU
....((.((((((........))))))..))......(((((((((..((((......))))..))).....))))))........................................ (-17.54 = -19.73 +   2.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:49 2006