Locus 7117

Sequence ID 3L_DroMel_CAF1
Location 19,168,433 – 19,168,593
Length 160
Max. P 0.899814
window11546 window11547

overview

Window 6

Location 19,168,433 – 19,168,553
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.60
Mean single sequence MFE -24.48
Consensus MFE -21.54
Energy contribution -21.35
Covariance contribution -0.19
Combinations/Pair 1.03
Mean z-score -1.86
Structure conservation index 0.88
SVM decision value 0.92
SVM RNA-class probability 0.882618
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19168433 120 - 23771897
CCUUACUCCACCCAAUCAUAAUUUGUGAUUUACAUAAAUUAAUGACCCACCCCCUGAGUGGAGGUCUGUUUUUGAUUCAUUCCGAACAAAAAAUGCUCGCACAUAAAUUUUGUGAGAUUG
.....((((((.((.((((((((((((.....)))))))).)))).........)).)))))).....((((((.(((.....)))))))))...((((((.........)))))).... ( -25.10)
>DroSim_CAF1 1223 120 - 1
CCCCACUCCACCCAAUCAUAAUUUGUGCUUUACAUAAAUUAAUGACCCACCCCCAGAGUGGAGGUCUGUUUUUGAUUCAUUCCGAACAAAAAAUGCUCGCACAUAAAUUUUGUGAGAUUG
((((((((.......((((((((((((.....)))))))).))))..........)))))).))....((((((.(((.....)))))))))...((((((.........)))))).... ( -26.53)
>DroEre_CAF1 942 110 - 1
----------CCCAAUCAUAAUUUGUGCUUUACAUAAAUUAAUGACCCACCCCCUGAGUGGAAGUCUGUUUUUGAUUCAUUCCGAACAAAAAAUGCUAGCACAUAAAUUUUGUGAGAUUG
----------.....((((((..((((((...(((........(((((((.......))))..)))..((((((.(((.....))))))))))))..))))))......))))))..... ( -22.30)
>DroYak_CAF1 2674 116 - 1
CCACAC----CCCAAUCAUAAUUUGUGCUUUACAUAAAUUAAUGACCCACCCCCCGAGUGGAGGUCUGUUUUUGAUUCAUUCCGAACAAAAAAUGCUCGCACAUAAAUUUUGUGAGAUUG
..(((.----.((..((((((((((((.....)))))))).)))).((((.......)))).))..)))(((((.(((.....))))))))....((((((.........)))))).... ( -24.00)
>consensus
CC_CAC____CCCAAUCAUAAUUUGUGCUUUACAUAAAUUAAUGACCCACCCCCUGAGUGGAGGUCUGUUUUUGAUUCAUUCCGAACAAAAAAUGCUCGCACAUAAAUUUUGUGAGAUUG
............(((((.(((((((((.....))))))))).....((((.......)))).(((...((((((.(((.....)))))))))..)))..((((.......)))).))))) (-21.54 = -21.35 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 19,168,473 – 19,168,593
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.87
Mean single sequence MFE -17.83
Consensus MFE -16.88
Energy contribution -17.12
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.95
SVM decision value 1.01
SVM RNA-class probability 0.899814
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19168473 120 - 23771897
GCACAAUCCUGACCACCGACCAAAAUACUAUACCCCAAGCCCUUACUCCACCCAAUCAUAAUUUGUGAUUUACAUAAAUUAAUGACCCACCCCCUGAGUGGAGGUCUGUUUUUGAUUCAU
...(((....((((.........................................((((((((((((.....)))))))).)))).((((.......)))).)))).....)))...... ( -18.90)
>DroSim_CAF1 1263 120 - 1
GCACAAUCCUGACCACCGACCAAAAUACUACACCCCAAACCCCCACUCCACCCAAUCAUAAUUUGUGCUUUACAUAAAUUAAUGACCCACCCCCAGAGUGGAGGUCUGUUUUUGAUUCAU
...................................((.(((.((((((.......((((((((((((.....)))))))).))))..........)))))).))).))............ ( -20.23)
>DroEre_CAF1 982 99 - 1
GCACAACCCUGACCACCGACCAA-AUACCA--------------------CCCAAUCAUAAUUUGUGCUUUACAUAAAUUAAUGACCCACCCCCUGAGUGGAAGUCUGUUUUUGAUUCAU
..............((.(((...-......--------------------.....((((((((((((.....)))))))).)))).((((.......))))..))).))........... ( -14.00)
>DroYak_CAF1 2714 115 - 1
GCACAACCCUGACCACCGACCAA-AUACCGUACCCUAAACCCACAC----CCCAAUCAUAAUUUGUGCUUUACAUAAAUUAAUGACCCACCCCCCGAGUGGAGGUCUGUUUUUGAUUCAU
..............((.((((..-......................----.....((((((((((((.....)))))))).)))).((((.......)))).)))).))........... ( -18.20)
>consensus
GCACAACCCUGACCACCGACCAA_AUACCAUACCCCAAACCC_CAC____CCCAAUCAUAAUUUGUGCUUUACAUAAAUUAAUGACCCACCCCCUGAGUGGAGGUCUGUUUUUGAUUCAU
...(((....((((.........................................((((((((((((.....)))))))).)))).((((.......)))).)))).....)))...... (-16.88 = -17.12 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:17 2006