Locus 5260

Sequence ID	X_DroMel_CAF1
Location	13,741,213 – 13,741,321
Length	108
Max. P	0.999249

overview

Window 0

Location	13,741,213 – 13,741,321
Length	108
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	92.96
Mean single sequence MFE	-34.40
Consensus MFE	-26.42
Energy contribution	-26.42
Covariance contribution	-0.00
Combinations/Pair	1.08
Mean z-score	-2.42
Structure conservation index	0.77
SVM decision value	1.23
SVM RNA-class probability	0.933135
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13741213 108 + 22224390
GUUGCAUGUUAAAGUUAGCCAAACGAGUCGCUUUUUAUGGGAGACCUCGUGUGGCAAGCGAAUA-----UUUGAAAGAUGCAUCAUUUGAUGUUGGCCAAAUAUUGCGUGCUC
...((((((....(((.((((.(((((((.(((.....))).)).))))).)))).))).((((-----((((......(((((....)))))....)))))))))))))).. ( -35.70)
>DroSec_CAF1 52226 107 + 1
GUUGCAUGUGGAAGUUAGCCAAACGAGUCGCUUAUUAUG-GAGACCUCGUGUGGCAAGCGAAUA-----UUUGAAAGAUGCAUCAUUUGAAGUUGGCCAAAUAUUGCGUGCUC
...((((((....(((.((((.(((((((.((......)-).)).))))).)))).))).((((-----((((...(((...((....)).)))...)))))))))))))).. ( -31.90)
>DroSim_CAF1 58041 107 + 1
GUUGCAUGUGGAAGUUAGCCAAACGAGUCGCUUAUUAUG-GAGACCUCGUGUGGCAAGCGAAUA-----UUUGAAAGAUGCAUCAUUUGAAGUUGGCCAAAUAUUGCGUGCUC
...((((((....(((.((((.(((((((.((......)-).)).))))).)))).))).((((-----((((...(((...((....)).)))...)))))))))))))).. ( -31.90)
>DroEre_CAF1 52374 112 + 1
GUUGCAUGUUGAAGUUAGCCAAACGAGUCGCUUAUUAUG-GCGGCCUCGUGUGGCAUACGAAUAUAGCAUUUGAAAGAUGCAUCAUUUGGAGUUGGCCAAAUAUUGCGUGCUC
...((((((.((.....((((.((((((((((......)-)))).))))).))))...........(((((.....))))).))((((((......))))))...)))))).. ( -38.40)
>DroYak_CAF1 59280 107 + 1
GUUGCAUGUUGAAGUUAGCCAAACGAGUCGCUUAUUAUG-GAGAACUCGUGUGGCAUACGAAUA-----UUUGAAAGAUGCAUCAUUUGCAGUUGGCCAAAUAUUGCGUGCAC
..(((((((........((((.(((((((.((......)-).).)))))).)))).....((((-----((((.....((((.....))))......))))))))))))))). ( -34.10)
>consensus
GUUGCAUGUUGAAGUUAGCCAAACGAGUCGCUUAUUAUG_GAGACCUCGUGUGGCAAGCGAAUA_____UUUGAAAGAUGCAUCAUUUGAAGUUGGCCAAAUAUUGCGUGCUC
...((((......(((.((((.(((((((.............)).))))).)))).)))....................(((..(((((........)))))..))))))).. (-26.42 = -26.42 +  -0.00)

alignment

secondary structure

dotplot

Window 1

Location	13,741,213 – 13,741,321
Length	108
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	92.96
Mean single sequence MFE	-27.52
Consensus MFE	-23.71
Energy contribution	-23.79
Covariance contribution	0.08
Combinations/Pair	1.05
Mean z-score	-2.68
Structure conservation index	0.86
SVM decision value	3.46
SVM RNA-class probability	0.999249
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13741213 108 - 22224390
GAGCACGCAAUAUUUGGCCAACAUCAAAUGAUGCAUCUUUCAAA-----UAUUCGCUUGCCACACGAGGUCUCCCAUAAAAAGCGACUCGUUUGGCUAACUUUAACAUGCAAC
..(((.(((((((((((....((((....))))......)))))-----)))).))..((((.(((((.((.............))))))).))))...........)))... ( -26.52)
>DroSec_CAF1 52226 107 - 1
GAGCACGCAAUAUUUGGCCAACUUCAAAUGAUGCAUCUUUCAAA-----UAUUCGCUUGCCACACGAGGUCUC-CAUAAUAAGCGACUCGUUUGGCUAACUUCCACAUGCAAC
..(((.(((.(((((((......))))))).)))..........-----.........((((.(((((.((.(-........).))))))).))))...........)))... ( -24.80)
>DroSim_CAF1 58041 107 - 1
GAGCACGCAAUAUUUGGCCAACUUCAAAUGAUGCAUCUUUCAAA-----UAUUCGCUUGCCACACGAGGUCUC-CAUAAUAAGCGACUCGUUUGGCUAACUUCCACAUGCAAC
..(((.(((.(((((((......))))))).)))..........-----.........((((.(((((.((.(-........).))))))).))))...........)))... ( -24.80)
>DroEre_CAF1 52374 112 - 1
GAGCACGCAAUAUUUGGCCAACUCCAAAUGAUGCAUCUUUCAAAUGCUAUAUUCGUAUGCCACACGAGGCCGC-CAUAAUAAGCGACUCGUUUGGCUAACUUCAACAUGCAAC
..(((.(((.(((((((......))))))).)))....................((..((((.(((((..(((-........))).))))).))))..)).......)))... ( -31.60)
>DroYak_CAF1 59280 107 - 1
GUGCACGCAAUAUUUGGCCAACUGCAAAUGAUGCAUCUUUCAAA-----UAUUCGUAUGCCACACGAGUUCUC-CAUAAUAAGCGACUCGUUUGGCUAACUUCAACAUGCAAC
.((((((.(((((((((.....((((.....))))....)))))-----)))))))..((((.(((((((((.-.......)).))))))).))))............))).. ( -29.90)
>consensus
GAGCACGCAAUAUUUGGCCAACUUCAAAUGAUGCAUCUUUCAAA_____UAUUCGCUUGCCACACGAGGUCUC_CAUAAUAAGCGACUCGUUUGGCUAACUUCAACAUGCAAC
..(((.(((.(((((((......))))))).)))........................((((.(((((..................))))).))))...........)))... (-23.71 = -23.79 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:29 2006