Locus 5905

Sequence ID 2R_DroMel_CAF1
Location 18,630,260 – 18,630,408
Length 148
Max. P 0.985700
window9479 window9480

overview

Window 9

Location 18,630,260 – 18,630,368
Length 108
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 82.47
Mean single sequence MFE -31.32
Consensus MFE -17.79
Energy contribution -19.73
Covariance contribution 1.94
Combinations/Pair 1.08
Mean z-score -3.77
Structure conservation index 0.57
SVM decision value 2.02
SVM RNA-class probability 0.985700
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18630260 108 + 20766785
AUUAACUUUAAGCCGCAAAAUUUGUACUCUUGUGUAUGCGAAUGUGUGUGUGUGCUCGCACGCAUGUGUGAGUGUGCAUACAUAAACGCUCGUAAUUGUUUAUUUACA
.......................((((......))))(((..((((((((((..(((((((....)))))))..))))))))))..)))..((((........)))). ( -33.80)
>DroSec_CAF1 40893 96 + 1
AUUAACUUUAAGCCGCAAAAUUUGUACUCCUG------------UGUGUGUGUGCUCGCACGCAUGUGUGAGUGUGCAUACAUAAACGCUCGUAAUUGUUUAUUUACA
..........(((.(((.....))).....((------------((((((((..(((((((....)))))))..))))))))))...))).((((........)))). ( -29.10)
>DroSim_CAF1 37306 96 + 1
AUUAACUUUAAGCCGCAAAAUUUGUACUCCUG------------UGUGUGUGUGCUCGCACGCAUGUGUGAGUGUGCAUACAUAAACGCUCGUAAUUGUUUAUUUACA
..........(((.(((.....))).....((------------((((((((..(((((((....)))))))..))))))))))...))).((((........)))). ( -29.10)
>DroAna_CAF1 45685 86 + 1
AUUAACUUUAAGCCGCAAAAUUUGUGCUCUUGUG------------UGUUUGGGCU----------UCUGCCCGGGCACACAUAAGCGCUCGUAAUUGUUUAUUUACA
.......................(((((..((((------------(((((((((.----------...)))))))))))))..)))))..((((........)))). ( -33.30)
>consensus
AUUAACUUUAAGCCGCAAAAUUUGUACUCCUG____________UGUGUGUGUGCUCGCACGCAUGUGUGAGUGUGCAUACAUAAACGCUCGUAAUUGUUUAUUUACA
..........(((.(((.....)))...................(((((((..((((((((....))))))))..))))))).....))).((((........)))). (-17.79 = -19.73 +   1.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 18,630,300 – 18,630,408
Length 108
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 87.74
Mean single sequence MFE -27.97
Consensus MFE -19.79
Energy contribution -21.73
Covariance contribution 1.94
Combinations/Pair 1.07
Mean z-score -2.28
Structure conservation index 0.71
SVM decision value 0.77
SVM RNA-class probability 0.845713
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18630300 108 + 20766785
AAUGUGUGUGUGUGCUCGCACGCAUGUGUGAGUGUGCAUACAUAAACGCUCGUAAUUGUUUAUUUACAUAACUUGACAUAAGAUUAAAGACGCUUUUGAUUAACGAUG
..((((((((((..(((((((....)))))))..)))))))))).....((((...(((......))).............((((((((....)))))))).)))).. ( -31.30)
>DroSec_CAF1 40925 104 + 1
----UGUGUGUGUGCUCGCACGCAUGUGUGAGUGUGCAUACAUAAACGCUCGUAAUUGUUUAUUUACAUAACAUGACAUAAGAUUAAAGACGCUUUUGAUUAACGAUG
----((((((((..(((((((....)))))))..)))))))).......((((...(((......))).............((((((((....)))))))).)))).. ( -28.40)
>DroSim_CAF1 37338 104 + 1
----UGUGUGUGUGCUCGCACGCAUGUGUGAGUGUGCAUACAUAAACGCUCGUAAUUGUUUAUUUACAUAACUUGACAUAAGAUUAAAGACGCUUUUGAUUAACGAUG
----((((((((..(((((((....)))))))..)))))))).......((((...(((......))).............((((((((....)))))))).)))).. ( -28.40)
>DroAna_CAF1 45719 92 + 1
------UGUUUGGGCU----------UCUGCCCGGGCACACAUAAGCGCUCGUAAUUGUUUAUUUACAUAACUUGACAUAAGAUUAAAGACGCUUUUGAUUAACGAUG
------(((((((((.----------...)))))))))..((.(((((.((((((........))))....((((...))))......))))))).)).......... ( -23.80)
>consensus
____UGUGUGUGUGCUCGCACGCAUGUGUGAGUGUGCAUACAUAAACGCUCGUAAUUGUUUAUUUACAUAACUUGACAUAAGAUUAAAGACGCUUUUGAUUAACGAUG
....(((((((..((((((((....))))))))..))))))).......((((...(((......))).............((((((((....)))))))).)))).. (-19.79 = -21.73 +   1.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:46 2006