Locus 5126

Sequence ID 3L_DroMel_CAF1
Location 14,093,962 – 14,094,064
Length 102
Max. P 0.871890
window8116

overview

Window 6

Location 14,093,962 – 14,094,064
Length 102
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 75.21
Mean single sequence MFE -27.87
Consensus MFE -16.27
Energy contribution -16.13
Covariance contribution -0.14
Combinations/Pair 1.05
Mean z-score -1.76
Structure conservation index 0.58
SVM decision value 0.87
SVM RNA-class probability 0.871890
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14093962 102 + 23771897
GGGCCACCAUCCGAAUCGACGGUUGCACCACCAGCUGUGCACAAAUUGCACUCCAGAUAUUUUUAUUUGCUGUGAAUAUGCC---------AGCUCCUCCUUUUGAUUC----GC--
((....))...((((((((.(((......)))(((((.(((...(((.(((..((((((....))))))..)))))).))))---------)))).......)))))))----).-- ( -29.20)
>DroVir_CAF1 92266 87 + 1
G-GCCACCGCCAGCA-CACCGGUUGCACCACCAGCUGUGCACAAAUUGCACUCCAGAUAUUUUUAUUUGCUGUGAAUAUCAGCGGC-----------UAC-----------------
.-....((((..(((-(((.(((......))).).)))))........(((..((((((....))))))..))).......)))).-----------...----------------- ( -23.50)
>DroPse_CAF1 105042 117 + 1
GGGCCACCAUCUGAGGCGACGGUUGCACCACCAGCUGUGCACAAAUUGCACUCCAGAUAUUUUUAUUUGCUGUGAAUAUGGCAAGCCAAAGAGCUUCUUCUUUUAUUUAAUCGUCUU
..(((.........)))((((((((........(((.(((.((.(((.(((..((((((....))))))..)))))).)))))))).((((((....))))))....)))))))).. ( -29.30)
>DroGri_CAF1 88641 93 + 1
G-GCCACUGGCAGCAGCAACGGUUGCACCACCAGCUGUGCACAAAUUGCACUCCAGAUAUUUUUAUUUGCUGUGAAUAUCAUCAGCAAU---GC---UAC-----------------
(-((..((((..(((((....)))))..........(((((.....))))).))))..........((((((((.....)).)))))).---))---)..----------------- ( -26.70)
>DroAna_CAF1 94317 102 + 1
GGGCCACCAGUCGAGGCGACGGUUGCACCACCAGCUGUGCACAAAUUGCACUCCAGAUAUUUUUAUUUGCUGUGAAUAUGCC---------AGCUUCUCCUUUUUAAUU----UC--
((((.(((.((((...))))))).)).))...(((((.(((...(((.(((..((((((....))))))..)))))).))))---------))))..............----..-- ( -29.20)
>DroPer_CAF1 106221 117 + 1
GGGCCACCAUCUGAGGCGACGGUUGCACCACCAGCUGUGCACAAAUUGCACUCCAGAUAUUUUUAUUUGCUGUGAAUAUGGCAAGCCAAAGAGCUUCUUCUUUUAUUUAAUCGUCUU
..(((.........)))((((((((........(((.(((.((.(((.(((..((((((....))))))..)))))).)))))))).((((((....))))))....)))))))).. ( -29.30)
>consensus
GGGCCACCAUCAGAAGCGACGGUUGCACCACCAGCUGUGCACAAAUUGCACUCCAGAUAUUUUUAUUUGCUGUGAAUAUGAC_AGC_____AGCUUCUACUUUU__UU_____UC__
..((.(((............))).))..(((.(((.(((((.....)))))...(((((....)))))))))))........................................... (-16.27 = -16.13 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:34 2006