Locus 5476

Sequence ID X_DroMel_CAF1
Location 14,230,759 – 14,230,854
Length 95
Max. P 0.907456
window8884 window8885

overview

Window 4

Location 14,230,759 – 14,230,854
Length 95
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 87.89
Mean single sequence MFE -22.23
Consensus MFE -19.50
Energy contribution -20.00
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.88
SVM decision value 0.05
SVM RNA-class probability 0.558158
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14230759 95 + 22224390
UAAAUUCGCAUGUGUGCAUGCAUUCAGCUCGGGAAUUGUCACCUGAAUGUGGAAAAUACAUGCACGUACAUAUAUGU--GUAUAGAUUAGUUGCUUA
.......((((((((...(((((((((.....((....))..)))))))))....))))))))..((((((....))--)))).............. ( -24.60)
>DroSec_CAF1 139279 81 + 1
UAAAUUCGCAUGUGAGCAUGCAUUCAGCUCGGGAAUUGUCACCUGAAUGUGGAAAAUACAUGCACGU----------------AGAUUAGUUGCUAA
.......(((((((....(((((((((.....((....))..))))))))).....)))))))..((----------------((.....))))... ( -18.40)
>DroSim_CAF1 119416 97 + 1
UAAAUUCGCAUGUGUGCAUGCAUUCAGCUCGGGAAUUGUCACCUGAAUGUGGAAAAUACAUGCACGUACAUAUAUGUUCGUAUAGAUUAGUUGCUUA
.......((((((((...(((((((((.....((....))..)))))))))....))))))))(((.(((....))).)))................ ( -23.80)
>DroEre_CAF1 126901 89 + 1
UAAAUUCGCAUGUGCGCAUGCAUUCAGCUCGGGAAUUGUCACCUGAAUGUGGAAAAUACAUGCACGAGCAU--------AUAUAGAUUAGUUGCUUA
.......(((((((....(((((((((.....((....))..))))))))).....)))))))..(((((.--------.((.....))..))))). ( -22.10)
>consensus
UAAAUUCGCAUGUGUGCAUGCAUUCAGCUCGGGAAUUGUCACCUGAAUGUGGAAAAUACAUGCACGUACAU________GUAUAGAUUAGUUGCUUA
.......((((((((...(((((((((.....((....))..)))))))))....)))))))).................................. (-19.50 = -20.00 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,230,759 – 14,230,854
Length 95
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 87.89
Mean single sequence MFE -20.20
Consensus MFE -17.30
Energy contribution -17.43
Covariance contribution 0.13
Combinations/Pair 1.06
Mean z-score -1.94
Structure conservation index 0.86
SVM decision value 1.05
SVM RNA-class probability 0.907456
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14230759 95 - 22224390
UAAGCAACUAAUCUAUAC--ACAUAUAUGUACGUGCAUGUAUUUUCCACAUUCAGGUGACAAUUCCCGAGCUGAAUGCAUGCACACAUGCGAAUUUA
...(((.........(((--(......)))).((((((((((((......(((.((........)).)))..))))))))))))...)))....... ( -22.60)
>DroSec_CAF1 139279 81 - 1
UUAGCAACUAAUCU----------------ACGUGCAUGUAUUUUCCACAUUCAGGUGACAAUUCCCGAGCUGAAUGCAUGCUCACAUGCGAAUUUA
..............----------------...(((((((......(((......))).........((((((....)).)))))))))))...... ( -16.40)
>DroSim_CAF1 119416 97 - 1
UAAGCAACUAAUCUAUACGAACAUAUAUGUACGUGCAUGUAUUUUCCACAUUCAGGUGACAAUUCCCGAGCUGAAUGCAUGCACACAUGCGAAUUUA
...(((............(.(((....))).)((((((((((((......(((.((........)).)))..))))))))))))...)))....... ( -21.90)
>DroEre_CAF1 126901 89 - 1
UAAGCAACUAAUCUAUAU--------AUGCUCGUGCAUGUAUUUUCCACAUUCAGGUGACAAUUCCCGAGCUGAAUGCAUGCGCACAUGCGAAUUUA
...(((........((((--------((((....))))))))......(((((((.((........))..)))))))..)))((....))....... ( -19.90)
>consensus
UAAGCAACUAAUCUAUAC________AUGUACGUGCAUGUAUUUUCCACAUUCAGGUGACAAUUCCCGAGCUGAAUGCAUGCACACAUGCGAAUUUA
................................((((((((((((......(((.((........)).)))..))))))))))))............. (-17.30 = -17.43 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:52 2006