Locus 2561

Sequence ID X_DroMel_CAF1
Location 6,876,683 – 6,876,778
Length 95
Max. P 0.920166
window4185 window4186

overview

Window 5

Location 6,876,683 – 6,876,778
Length 95
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 81.17
Mean single sequence MFE -25.65
Consensus MFE -17.99
Energy contribution -19.30
Covariance contribution 1.31
Combinations/Pair 1.14
Mean z-score -2.11
Structure conservation index 0.70
SVM decision value 1.13
SVM RNA-class probability 0.920166
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6876683 95 + 22224390
AACCAGUUCAUUUAACUGAAGUGCGACUAAGCUGUGCAUU---GCGCUGCUCGAGCACUAAGUGAAUUAAUUUGCCUAUUCAGUUAAGUCGAAAUGAA
...((.((((((((((((((((((.....(((.((((...---)))).)))...)))))..(..((....))..)....)))))))))).))).)).. ( -27.80)
>DroSec_CAF1 1185 95 + 1
AACCACUUCAUUUAACUGAAGUGCGACUAAGCUGUGCAUU---GCGCUGCUCCAGCACUAAGUGAAUUAAUUUGGAUAUUGACUUAAGUCGAGAUGAA
...(((((((......)))))))(((((..((((.(((..---....)))..)))).((((((......))))))...........)))))....... ( -25.50)
>DroSim_CAF1 1215 95 + 1
AACCACUUCAUUUAACUGAAGUGCGACUAAGCUGUGCAUU---GCGCUGCUCCAGCACUAAGUGAAUUAAUUUAGCUAUUGACUUAAGUCGAGAUGAA
...(((((((......)))))))(((((..((((.(((..---....)))..))))..(((((.(((..........))).))))))))))....... ( -25.50)
>DroYak_CAF1 1347 96 + 1
AGCCAGUUCAUUUAACUAAACUGCGACUAAGCGGCGCACUCGAGCAUUGCUACAGUACAAAUUA-G-UGACUAAUGUCGUGACUUAAGUCGAAAUGGC
.((((.(((.............(((((..(((((.((......)).)))))..(((((......-)-).)))...)))))(((....)))))).)))) ( -23.80)
>consensus
AACCACUUCAUUUAACUGAAGUGCGACUAAGCUGUGCAUU___GCGCUGCUCCAGCACUAAGUGAAUUAAUUUAGCUAUUGACUUAAGUCGAAAUGAA
...(((((((......)))))))(((((.(((.((((......)))).))).(((..((((((......))))))...))).....)))))....... (-17.99 = -19.30 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 6,876,683 – 6,876,778
Length 95
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 81.17
Mean single sequence MFE -24.45
Consensus MFE -15.76
Energy contribution -15.95
Covariance contribution 0.19
Combinations/Pair 1.14
Mean z-score -1.85
Structure conservation index 0.64
SVM decision value 0.36
SVM RNA-class probability 0.704086
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6876683 95 - 22224390
UUCAUUUCGACUUAACUGAAUAGGCAAAUUAAUUCACUUAGUGCUCGAGCAGCGC---AAUGCACAGCUUAGUCGCACUUCAGUUAAAUGAACUGGUU
.(((.((((..(((((((((...((..(((((.....)))))(((.(.(((....---..))).))))......))..))))))))).)))).))).. ( -20.10)
>DroSec_CAF1 1185 95 - 1
UUCAUCUCGACUUAAGUCAAUAUCCAAAUUAAUUCACUUAGUGCUGGAGCAGCGC---AAUGCACAGCUUAGUCGCACUUCAGUUAAAUGAAGUGGUU
.......(((((.((((.....((((.(((((.....)))))..))))(((....---..)))...)))))))))(((((((......)))))))... ( -25.20)
>DroSim_CAF1 1215 95 - 1
UUCAUCUCGACUUAAGUCAAUAGCUAAAUUAAUUCACUUAGUGCUGGAGCAGCGC---AAUGCACAGCUUAGUCGCACUUCAGUUAAAUGAAGUGGUU
.......((((((((((.(((..........))).)))))..((((..(((....---..))).))))..)))))(((((((......)))))))... ( -24.30)
>DroYak_CAF1 1347 96 - 1
GCCAUUUCGACUUAAGUCACGACAUUAGUCA-C-UAAUUUGUACUGUAGCAAUGCUCGAGUGCGCCGCUUAGUCGCAGUUUAGUUAAAUGAACUGGCU
((((.((((((....)))..(((....)))(-(-(((.((((((((.(((..(((......)))..))))))).)))).))))).....))).)))). ( -28.20)
>consensus
UUCAUCUCGACUUAAGUCAAUAGCCAAAUUAAUUCACUUAGUGCUGGAGCAGCGC___AAUGCACAGCUUAGUCGCACUUCAGUUAAAUGAACUGGUU
.......(((((.((((.........................((((...))))((......))...)))))))))(((((((......)))))))... (-15.76 = -15.95 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:47 2006