Locus 4651

Sequence ID X_DroMel_CAF1
Location 12,158,287 – 12,158,377
Length 90
Max. P 0.889045
window7636 window7637

overview

Window 6

Location 12,158,287 – 12,158,377
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 95.78
Mean single sequence MFE -21.62
Consensus MFE -20.02
Energy contribution -19.86
Covariance contribution -0.16
Combinations/Pair 1.11
Mean z-score -1.15
Structure conservation index 0.93
SVM decision value 0.17
SVM RNA-class probability 0.617616
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12158287 90 + 22224390
CCGCCAAGGAAAAACGUAAAUAAGCUUCAUUAGCAGCUCGCAAGCUUAAGUGGCCUUUUUCCCCGGCGAGCAUAUGAAAAAUUAUUGCAU
.((((..(((((((.((...(((((((.....((.....)))))))))....)).)))))))..)))).(((.((((....))))))).. ( -24.80)
>DroSec_CAF1 11558 90 + 1
CGGCCAAAGAAAAACGUAAAUAAGCUUCAUUAGCAGCUCGCAAGCUUAAGUGGCCUUUUUCCCCGGCGAGCAUGUGAAAAAUUAUUGCAU
..(((...((((((.((...(((((((.....((.....)))))))))....)).))))))...)))..(((.((((....))))))).. ( -18.90)
>DroSim_CAF1 18400 90 + 1
CGGCCAAGGAAAAACGUAAAUAAGCUUCAUUAGCAGCUCGCAAGCUUAAGUGGCCUUUUUCCCCGGCGAGCAUGUGAAAAAUUAUUGCAU
..(((..(((((((.((...(((((((.....((.....)))))))))....)).)))))))..)))..(((.((((....))))))).. ( -22.70)
>DroEre_CAF1 10970 90 + 1
CGGUCAAGGAAAAACGUAAAUAAGCUUCAUUAGCAGCUCGCAAGCUUAAGUGGCCUUUUUCCCCGGCGAGUAUGUGAAAAAUUAUUGCAU
(((....(((((((.((...(((((((.....((.....)))))))))....)).))))))))))((((.....(....)....)))).. ( -19.60)
>DroYak_CAF1 11491 90 + 1
AGGCCACGGAAAAACGUAAAUAAGCUUAAUUAGCAGCUCGCAAGCUUAAGUGGCCUUUUUCCCCGGCGAGUAUGUGAAAAAUGAUUGCAU
((((((((......).....(((((((.....((.....))))))))).))))))).........((((.(((.......))).)))).. ( -22.10)
>consensus
CGGCCAAGGAAAAACGUAAAUAAGCUUCAUUAGCAGCUCGCAAGCUUAAGUGGCCUUUUUCCCCGGCGAGCAUGUGAAAAAUUAUUGCAU
..(((..(((((((.((...(((((((.....((.....)))))))))....)).)))))))..)))..(((.((((....))))))).. (-20.02 = -19.86 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 12,158,287 – 12,158,377
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 95.78
Mean single sequence MFE -22.89
Consensus MFE -21.82
Energy contribution -22.06
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -1.30
Structure conservation index 0.95
SVM decision value 0.95
SVM RNA-class probability 0.889045
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12158287 90 - 22224390
AUGCAAUAAUUUUUCAUAUGCUCGCCGGGGAAAAAGGCCACUUAAGCUUGCGAGCUGCUAAUGAAGCUUAUUUACGUUUUUCCUUGGCGG
..(((.............))).(((((((((((((.(.....(((((((((.....)).....)))))))....).))))))))))))). ( -27.22)
>DroSec_CAF1 11558 90 - 1
AUGCAAUAAUUUUUCACAUGCUCGCCGGGGAAAAAGGCCACUUAAGCUUGCGAGCUGCUAAUGAAGCUUAUUUACGUUUUUCUUUGGCCG
..(((.............)))..((((((((((((.(.....(((((((((.....)).....)))))))....).)))))))))))).. ( -21.72)
>DroSim_CAF1 18400 90 - 1
AUGCAAUAAUUUUUCACAUGCUCGCCGGGGAAAAAGGCCACUUAAGCUUGCGAGCUGCUAAUGAAGCUUAUUUACGUUUUUCCUUGGCCG
..(((.............)))..((((((((((((.(.....(((((((((.....)).....)))))))....).)))))))))))).. ( -24.52)
>DroEre_CAF1 10970 90 - 1
AUGCAAUAAUUUUUCACAUACUCGCCGGGGAAAAAGGCCACUUAAGCUUGCGAGCUGCUAAUGAAGCUUAUUUACGUUUUUCCUUGACCG
.........................((((((((((.(.....(((((((((.....)).....)))))))....).)))))))))).... ( -17.90)
>DroYak_CAF1 11491 90 - 1
AUGCAAUCAUUUUUCACAUACUCGCCGGGGAAAAAGGCCACUUAAGCUUGCGAGCUGCUAAUUAAGCUUAUUUACGUUUUUCCGUGGCCU
.......................((((.(((((((.(.....((((((((..((...))...))))))))....).))))))).)))).. ( -23.10)
>consensus
AUGCAAUAAUUUUUCACAUGCUCGCCGGGGAAAAAGGCCACUUAAGCUUGCGAGCUGCUAAUGAAGCUUAUUUACGUUUUUCCUUGGCCG
.......................((((((((((((.(.....(((((((((.....)).....)))))))....).)))))))))))).. (-21.82 = -22.06 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:11 2006