Locus 4977

Sequence ID X_DroMel_CAF1
Location 12,981,662 – 12,981,752
Length 90
Max. P 0.995817
window8113 window8114

overview

Window 3

Location 12,981,662 – 12,981,752
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 91.12
Mean single sequence MFE -15.50
Consensus MFE -15.50
Energy contribution -15.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 1.00
SVM decision value 0.86
SVM RNA-class probability 0.867838
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12981662 90 + 22224390
UUUUUUUUUUUUUUUGUAUUAUUUUUCGCCACUCAUUAUGGUCGACUGCAAUCGGCGAUUUGGUGUGUUAACACAUUUGCCUACCCCACC
.........................((((((.......))).)))........(((((....((((....))))..)))))......... ( -15.50)
>DroSec_CAF1 12406 80 + 1
UUUUUUUUUUUUU----------UUUCGCCACUCAUUAUGGUCGACUGCAAUCGGCGAUUUGGUGUGUUAACACAUUUGCCUACCCCGCC
.............----------..((((((.......))).)))........(((((....((((....))))..)))))......... ( -15.50)
>DroSim_CAF1 3500 80 + 1
UUUUUUUUUUUUU----------UUUCGCCACUCAUUAUGGUCGACUGCAAUCGGCGAUUUGGUGUGUUAACACAUUUGCCUACCCCGCC
.............----------..((((((.......))).)))........(((((....((((....))))..)))))......... ( -15.50)
>DroYak_CAF1 8344 84 + 1
CUUUUCUGUUUUU------UAUUUUUCGCCACUCAUUAUGGUCGACUGCAAUCGGCGAUUUGGUGUGUUAACACAUUUGCCUACCCCGCC
.............------......((((((.......))).)))........(((((....((((....))))..)))))......... ( -15.50)
>consensus
UUUUUUUUUUUUU__________UUUCGCCACUCAUUAUGGUCGACUGCAAUCGGCGAUUUGGUGUGUUAACACAUUUGCCUACCCCGCC
.........................((((((.......))).)))........(((((....((((....))))..)))))......... (-15.50 = -15.50 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 12,981,662 – 12,981,752
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 91.12
Mean single sequence MFE -18.60
Consensus MFE -18.51
Energy contribution -18.32
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -2.38
Structure conservation index 1.00
SVM decision value 2.62
SVM RNA-class probability 0.995817
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12981662 90 - 22224390
GGUGGGGUAGGCAAAUGUGUUAACACACCAAAUCGCCGAUUGCAGUCGACCAUAAUGAGUGGCGAAAAAUAAUACAAAAAAAAAAAAAAA
((((..((..(((....)))..)).))))...((((((....((...........))..))))))......................... ( -18.00)
>DroSec_CAF1 12406 80 - 1
GGCGGGGUAGGCAAAUGUGUUAACACACCAAAUCGCCGAUUGCAGUCGACCAUAAUGAGUGGCGAAA----------AAAAAAAAAAAAA
(((((..(.((....((((....)))))))..)))))........(((.((((.....)))))))..----------............. ( -18.80)
>DroSim_CAF1 3500 80 - 1
GGCGGGGUAGGCAAAUGUGUUAACACACCAAAUCGCCGAUUGCAGUCGACCAUAAUGAGUGGCGAAA----------AAAAAAAAAAAAA
(((((..(.((....((((....)))))))..)))))........(((.((((.....)))))))..----------............. ( -18.80)
>DroYak_CAF1 8344 84 - 1
GGCGGGGUAGGCAAAUGUGUUAACACACCAAAUCGCCGAUUGCAGUCGACCAUAAUGAGUGGCGAAAAAUA------AAAAACAGAAAAG
(((((..(.((....((((....)))))))..)))))........(((.((((.....)))))))......------............. ( -18.80)
>consensus
GGCGGGGUAGGCAAAUGUGUUAACACACCAAAUCGCCGAUUGCAGUCGACCAUAAUGAGUGGCGAAA__________AAAAAAAAAAAAA
(((((..(.((....((((....)))))))..)))))........(((.((((.....)))))))......................... (-18.51 = -18.32 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:24 2006