Locus 1208

Sequence ID 2L_DroMel_CAF1
Location 3,244,373 – 3,244,488
Length 115
Max. P 0.500000
window1971

overview

Window 1

Location 3,244,373 – 3,244,488
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.39
Mean single sequence MFE -38.36
Consensus MFE -31.32
Energy contribution -31.36
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.31
Structure conservation index 0.82
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3244373 115 + 22407834
-AGCGUUGAUUUAUGCAAACAGCCGGCGUGAUGUGAGUGAAUUAACGCGUCUGCGAGUAAAACUCUGCUAAUGGCAGUGGCAACAGCCGUGGGGCUGG----UGAUCCAAGGGAGGGGCG
-.((((((((((((.((....((....))....)).))))))))))))(((((((((.....))).))......(..(((((.(((((....))))).----))..)))..)...)))). ( -36.40)
>DroSec_CAF1 78432 115 + 1
-AGCGUUGAUUUAUGCAAACAGCCGGCGUGAUGUGAGUGAAUUAACGCGUCUGCGAGUAAAACUCUGCUAAUGGCAGUGGCAACAGCCGUGGGGCAGG----AGACCCAAGGGAGGGGCG
-.((((((((((((.((....((....))....)).))))))))))))....((........(((((((.(((((..((....)))))))..)))).)----)).(((......))))). ( -40.50)
>DroSim_CAF1 81573 115 + 1
-AGCGUUGAUUUAUGCAAACAGCCGGCGUGAUGUGAGUGAAUUAACGCGUCUGCGAGUAAAACUCUGCUAAUGGCAGUGGCAACAGCCGUGGGGCAGG----AGAUCCAAGGGAGGGCCG
-.((((((((((((.((....((....))....)).))))))))))))((((..........(((((((.(((((..((....)))))))..)))).)----)).(((...))))))).. ( -37.50)
>DroEre_CAF1 75364 114 + 1
-AGCGUUGAUUUAUGCAAACAGCCGGCGCGAUGUGAGUGAAUUAACGCGUCUGCGAGUAAAACUCUGCUAAUGGCAGUGGCAACAGCCGUGGG-CCAGAGAAGGGUUCAAGUA----GGG
-.((((((((((((.((....((....))....)).)))))))))))).(((((......((((((.....((((..((((....))))...)-)))....))))))...)))----)). ( -39.40)
>DroYak_CAF1 74488 112 + 1
UAGCGUUGAUUUAUGCAAACAGCCGGCGUGAUGUGAGUGAAUUAACGCGUCUGCGAGUAAAACUCUGCUAAUGGCAGUGGCAACAGCCGUGGGGCCAG----GGCUCCAAGAA----GGG
..((((((((((((.((....((....))....)).)))))))))))).((((((((.....))).))..(((((..((....)))))))(((((...----.))))).))).----... ( -38.00)
>consensus
_AGCGUUGAUUUAUGCAAACAGCCGGCGUGAUGUGAGUGAAUUAACGCGUCUGCGAGUAAAACUCUGCUAAUGGCAGUGGCAACAGCCGUGGGGCAGG____AGAUCCAAGGGAGGGGCG
..((((((((((((.((....((....))....)).))))))))))))(((((((((.....))).))..(((((..((....))))))).))))......................... (-31.32 = -31.36 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:32 2006