Locus 4959

Sequence ID 3L_DroMel_CAF1
Location 13,710,366 – 13,710,458
Length 92
Max. P 0.748481
window7827 window7828

overview

Window 7

Location 13,710,366 – 13,710,458
Length 92
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 86.84
Mean single sequence MFE -22.60
Consensus MFE -17.67
Energy contribution -17.80
Covariance contribution 0.13
Combinations/Pair 1.08
Mean z-score -1.44
Structure conservation index 0.78
SVM decision value 0.05
SVM RNA-class probability 0.559016
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13710366 92 + 23771897
GAUUGCAUGGUGAAUUGAACUGCAUUGAAUGCGAAU------GCGUAUUCGAAUGCGAAUGUGAUUGCGAGUGCGAAUGUGAGUGGAAAAUGUGCAAU
.((((((((.........(((((((((((((((...------.)))))))...((((..(((....)))..))))))))).)))......)))))))) ( -23.06)
>DroSec_CAF1 117371 92 + 1
GAUUGCAUGCUGAAUUGAACUGCAUUGAAUGCGAAU------GCGUAUUCGAAUGCGAAUGUGAUUGCGAGUGCAAAUGUGAGUGGGAAAUGUGCAAU
.(((((((.((..(((.(..(((((((((((((...------.)))))))...(((((......)))))))))))....).))).))....))))))) ( -23.20)
>DroSim_CAF1 128281 92 + 1
GAUUGCAUGGUGAAUUGAACUGCAUUGAAUGCGAAU------GCGUAUUCGAAUGCGAAUGUGAUUGCGAGUGCGAAUGUGAGUGGGAAAUGUGCAAU
.((((((((.........(((((((((((((((...------.)))))))...((((..(((....)))..))))))))).)))......)))))))) ( -23.06)
>DroYak_CAF1 127534 92 + 1
GAUUGCAUGCUGAAUUGAACUGCAUUGAAUGCGAUUGCGAAUGCGUAUCCAAAUGUGAAUGUGAAUGCGA------GUGCGAAUGUGCAAUGUGCAAU
.(((((((((...........))......((((.(((((..(((((.((((........)).))))))).------.)))))...))))..))))))) ( -21.10)
>consensus
GAUUGCAUGCUGAAUUGAACUGCAUUGAAUGCGAAU______GCGUAUUCGAAUGCGAAUGUGAUUGCGAGUGCGAAUGUGAGUGGGAAAUGUGCAAU
.(((((((.............((((((((((((..........))))))).)))))........(((((........))))).........))))))) (-17.67 = -17.80 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 13,710,366 – 13,710,458
Length 92
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 86.84
Mean single sequence MFE -15.38
Consensus MFE -9.79
Energy contribution -9.22
Covariance contribution -0.56
Combinations/Pair 1.13
Mean z-score -2.44
Structure conservation index 0.64
SVM decision value 0.47
SVM RNA-class probability 0.748481
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13710366 92 - 23771897
AUUGCACAUUUUCCACUCACAUUCGCACUCGCAAUCACAUUCGCAUUCGAAUACGC------AUUCGCAUUCAAUGCAGUUCAAUUCACCAUGCAAUC
((((((..................((....))..........(((((.((((.((.------...)).)))))))))..............)))))). ( -14.60)
>DroSec_CAF1 117371 92 - 1
AUUGCACAUUUCCCACUCACAUUUGCACUCGCAAUCACAUUCGCAUUCGAAUACGC------AUUCGCAUUCAAUGCAGUUCAAUUCAGCAUGCAAUC
((((((................((((....))))........(((((.((((.((.------...)).)))))))))..............)))))). ( -15.90)
>DroSim_CAF1 128281 92 - 1
AUUGCACAUUUCCCACUCACAUUCGCACUCGCAAUCACAUUCGCAUUCGAAUACGC------AUUCGCAUUCAAUGCAGUUCAAUUCACCAUGCAAUC
((((((..................((....))..........(((((.((((.((.------...)).)))))))))..............)))))). ( -14.60)
>DroYak_CAF1 127534 92 - 1
AUUGCACAUUGCACAUUCGCAC------UCGCAUUCACAUUCACAUUUGGAUACGCAUUCGCAAUCGCAUUCAAUGCAGUUCAAUUCAGCAUGCAAUC
((((((...(((......((..------..))..............((((((..(((((.((....))....))))).))))))....))))))))). ( -16.40)
>consensus
AUUGCACAUUUCCCACUCACAUUCGCACUCGCAAUCACAUUCGCAUUCGAAUACGC______AUUCGCAUUCAAUGCAGUUCAAUUCACCAUGCAAUC
((((((................................(((((....)))))..............((((...))))..............)))))). ( -9.79 =  -9.22 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:58 2006