Locus 7240

Sequence ID	X_DroMel_CAF1
Location	18,084,119 – 18,084,266
Length	147
Max. P	0.902757

overview

Window 7

Location	18,084,119 – 18,084,233
Length	114
Sequences	3
Columns	114
Reading direction	forward
Mean pairwise identity	96.49
Mean single sequence MFE	-32.90
Consensus MFE	-28.40
Energy contribution	-28.84
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-2.36
Structure conservation index	0.86
SVM decision value	0.50
SVM RNA-class probability	0.759824
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18084119 114 + 22224390
GUACGCUCAAAGUCAAAGUCAAUUGGAUAUAGCAAAAACCUUGAGCUAACCCACUUUUCUGGGCUUUUGGCCAAAUGCAUGCUGCUUUCAACCAAAUGAGAGUGUACUUAUUUG
((((((((....(((.......(((((..(((((......(((.(((((((((......))))...)))))))).....)))))..))))).....)))))))))))....... ( -28.80)
>DroSec_CAF1 6570 114 + 1
GUACGCUCAAAGUCAAAGUCAAUUGGACAUGGCAAAAACCUUGGGCUAACCCACUUUUCUGGGCUUUUGGCCAAAUGCAUGCUGCUUUCAGCCAAAUGAGAGUGUACUUACUUG
((((((((.........(((.....))).((((..........((((((((((......))))...))))))....((.....)).....)))).....))))))))....... ( -34.60)
>DroSim_CAF1 6345 114 + 1
GUACGCUCAAAGUCAAAGUCAAUUGGACAUGGCAAAAACCUUGGGCUAACCCACUUUUCUGGGCUUUUUGCCAAAUGCAUGCUGCUUUCAGCCAAAUGAGAGUGUACUUACUUG
((((((((.........(((.....))).((((((((((((((((....)))).......))).))))))))).......((((....)))).......))))))))....... ( -35.31)
>consensus
GUACGCUCAAAGUCAAAGUCAAUUGGACAUGGCAAAAACCUUGGGCUAACCCACUUUUCUGGGCUUUUGGCCAAAUGCAUGCUGCUUUCAGCCAAAUGAGAGUGUACUUACUUG
((((((((..........(((.((((....((((.........((((((((((......))))...))))))..........)))).....)))).)))))))))))....... (-28.40 = -28.84 +   0.45)

alignment

secondary structure

dotplot

Window 8

Location	18,084,119 – 18,084,233
Length	114
Sequences	3
Columns	114
Reading direction	reverse
Mean pairwise identity	96.49
Mean single sequence MFE	-33.60
Consensus MFE	-31.42
Energy contribution	-31.53
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-2.27
Structure conservation index	0.94
SVM decision value	1.03
SVM RNA-class probability	0.902757
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18084119 114 - 22224390
CAAAUAAGUACACUCUCAUUUGGUUGAAAGCAGCAUGCAUUUGGCCAAAAGCCCAGAAAAGUGGGUUAGCUCAAGGUUUUUGCUAUAUCCAAUUGACUUUGACUUUGAGCGUAC
.......((((.......((((((..((.((.....)).))..))))))((((((......)))))).((((((((((...(.((........)).)...)))))))))))))) ( -35.70)
>DroSec_CAF1 6570 114 - 1
CAAGUAAGUACACUCUCAUUUGGCUGAAAGCAGCAUGCAUUUGGCCAAAAGCCCAGAAAAGUGGGUUAGCCCAAGGUUUUUGCCAUGUCCAAUUGACUUUGACUUUGAGCGUAC
.......((((.......((((((..((.((.....)).))..))))))((((((......)))))).((.(((((((...(.((........)).)...))))))).)))))) ( -34.20)
>DroSim_CAF1 6345 114 - 1
CAAGUAAGUACACUCUCAUUUGGCUGAAAGCAGCAUGCAUUUGGCAAAAAGCCCAGAAAAGUGGGUUAGCCCAAGGUUUUUGCCAUGUCCAAUUGACUUUGACUUUGAGCGUAC
.......((((.((((((.(((((((....))))..(((..((((((((((((((......)))))).(((...)))))))))))))).))).)))..........))).)))) ( -30.90)
>consensus
CAAGUAAGUACACUCUCAUUUGGCUGAAAGCAGCAUGCAUUUGGCCAAAAGCCCAGAAAAGUGGGUUAGCCCAAGGUUUUUGCCAUGUCCAAUUGACUUUGACUUUGAGCGUAC
.......((((.(((...((((((..((.((.....)).))..))))))((((((......))))))....(((((((.(((.......)))..))))))).....))).)))) (-31.42 = -31.53 +   0.11)

alignment

secondary structure

dotplot

Window 9

Location	18,084,159 – 18,084,266
Length	107
Sequences	3
Columns	114
Reading direction	reverse
Mean pairwise identity	91.20
Mean single sequence MFE	-25.40
Consensus MFE	-22.14
Energy contribution	-22.03
Covariance contribution	-0.11
Combinations/Pair	1.08
Mean z-score	-1.68
Structure conservation index	0.87
SVM decision value	-0.05
SVM RNA-class probability	0.508555
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18084159 107 - 22224390
UAUGAUAG-------ACCAUAGACCUAACAUCUGACAAUACAAAUAAGUACACUCUCAUUUGGUUGAAAGCAGCAUGCAUUUGGCCAAAAGCCCAGAAAAGUGGGUUAGCUCAA
((((....-------..))))((((((...((((....(((......)))........((((((..((.((.....)).))..))))))....))))....))))))....... ( -24.20)
>DroSec_CAF1 6610 113 - 1
-AUGAUAGACCAUAGACCAUAGACCUACCAUCUGACAAUCCAAGUAAGUACACUCUCAUUUGGCUGAAAGCAGCAUGCAUUUGGCCAAAAGCCCAGAAAAGUGGGUUAGCCCAA
-....................(((((((..((((.........(..((....))..).((((((..((.((.....)).))..))))))....))))...)))))))....... ( -26.70)
>DroSim_CAF1 6385 113 - 1
-AUGAUAGACCAUAGACCAUAGACCUACUAUCUGACAAUCCAAGUAAGUACACUCUCAUUUGGCUGAAAGCAGCAUGCAUUUGGCAAAAAGCCCAGAAAAGUGGGUUAGCCCAA
-....................((((((((.((((......(((((.((......)).)))))((..((.((.....)).))..))........))))..))))))))....... ( -25.30)
>consensus
_AUGAUAGACCAUAGACCAUAGACCUACCAUCUGACAAUCCAAGUAAGUACACUCUCAUUUGGCUGAAAGCAGCAUGCAUUUGGCCAAAAGCCCAGAAAAGUGGGUUAGCCCAA
.....................(((((((..((((......(((((.((......)).)))))((..((.((.....)).))..))........))))...)))))))....... (-22.14 = -22.03 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:53 2006