Locus 1866

Sequence ID	3L_DroMel_CAF1
Location	5,233,300 – 5,233,402
Length	102
Max. P	0.999196

overview

Window 5

Location	5,233,300 – 5,233,402
Length	102
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	95.26
Mean single sequence MFE	-25.05
Consensus MFE	-23.68
Energy contribution	-23.85
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-2.14
Structure conservation index	0.95
SVM decision value	3.43
SVM RNA-class probability	0.999196
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5233300 102 + 23771897
ACAUAAGCGAGAGCUUUGUAGGCUUUUCUCAUUUUGCUUGUUCGCAUGUAAUUUAGUGUAAAUUACUUUGACUAGAAGCC-CUCGCAAUUUCAUUCAGCACAC--
......(((((.(((((.(((.............(((......))).((((((((...)))))))).....)))))))).-))))).................-- ( -22.40)
>DroSec_CAF1 97620 104 + 1
ACAUAAGCGAGAGCUUUGUAGGCUUUUCUCAUUUUGCUUGUUCGCAUGUAAUUUAGUGUAAAUUACUUUGAGUAGAAGCC-CUCGCAAUUUCAUUCAACACACAU
(((.((((....))))))).(((((((((((...(((......))).((((((((...))))))))..)))).)))))))-........................ ( -25.50)
>DroSim_CAF1 94879 102 + 1
ACAUAAGCGAGAGCUUUGUAGGCUUUUCUCAUUUUGCUUGUUCGCAUGUAAUUUAGUGUAAAUUACUUUGAGUAGAAGCC-CUCGCAAUUUCAUUCAACACAC--
(((.((((....))))))).(((((((((((...(((......))).((((((((...))))))))..)))).)))))))-......................-- ( -25.50)
>DroEre_CAF1 100644 100 + 1
ACAUAAGCGAGAGCUUUGUAGGCUUUUCUCAUUUUGCUUGUUCGCAUGUAAUUUAGUGUAAAUUACUUUGAGUAGAAGCC-CUCGCAAUUUCAUUCAACAC----
(((.((((....))))))).(((((((((((...(((......))).((((((((...))))))))..)))).)))))))-....................---- ( -25.50)
>DroYak_CAF1 100154 100 + 1
ACAUAAGCGAGAGCUUUGUAGGCUUUUCUCAUUUUGCUUGUUCGCAUGUAAUUUAGUGUAAAUUACUUUGAGUAGAAGCC-CUCGCAAUUUCAUUCAACAC----
(((.((((....))))))).(((((((((((...(((......))).((((((((...))))))))..)))).)))))))-....................---- ( -25.50)
>DroAna_CAF1 95771 101 + 1
CCAUAAGCGAGAGCUUUGUAGGCUUUUCUCAUUUUGCUUGUUCGCAUGUAAUUUAGUGUAAAUUACUUUGAGUAGAAGCCCCUCGCAAUUUCAGUUUAGGC----
((.(((((..(((..((((.(((((((((((...(((......))).((((((((...))))))))..)))).)))))))....)))).))).))))))).---- ( -25.90)
>consensus
ACAUAAGCGAGAGCUUUGUAGGCUUUUCUCAUUUUGCUUGUUCGCAUGUAAUUUAGUGUAAAUUACUUUGAGUAGAAGCC_CUCGCAAUUUCAUUCAACAC____
......(((((.........(((((((((((...(((......))).((((((((...))))))))..)))).))))))).)))))................... (-23.68 = -23.85 +   0.17)

alignment

secondary structure

dotplot

Window 6

Location	5,233,300 – 5,233,402
Length	102
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	95.26
Mean single sequence MFE	-25.43
Consensus MFE	-21.83
Energy contribution	-22.00
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-2.61
Structure conservation index	0.86
SVM decision value	2.02
SVM RNA-class probability	0.985745
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5233300 102 - 23771897
--GUGUGCUGAAUGAAAUUGCGAG-GGCUUCUAGUCAAAGUAAUUUACACUAAAUUACAUGCGAACAAGCAAAAUGAGAAAAGCCUACAAAGCUCUCGCUUAUGU
--.................(((((-(((((.(((.(...((((((((...)))))))).(((......)))...........).)))..))))))))))...... ( -25.30)
>DroSec_CAF1 97620 104 - 1
AUGUGUGUUGAAUGAAAUUGCGAG-GGCUUCUACUCAAAGUAAUUUACACUAAAUUACAUGCGAACAAGCAAAAUGAGAAAAGCCUACAAAGCUCUCGCUUAUGU
...................(((((-(((((...((((..((((((((...)))))))).(((......)))...))))....(....).))))))))))...... ( -25.60)
>DroSim_CAF1 94879 102 - 1
--GUGUGUUGAAUGAAAUUGCGAG-GGCUUCUACUCAAAGUAAUUUACACUAAAUUACAUGCGAACAAGCAAAAUGAGAAAAGCCUACAAAGCUCUCGCUUAUGU
--.................(((((-(((((...((((..((((((((...)))))))).(((......)))...))))....(....).))))))))))...... ( -25.60)
>DroEre_CAF1 100644 100 - 1
----GUGUUGAAUGAAAUUGCGAG-GGCUUCUACUCAAAGUAAUUUACACUAAAUUACAUGCGAACAAGCAAAAUGAGAAAAGCCUACAAAGCUCUCGCUUAUGU
----...............(((((-(((((...((((..((((((((...)))))))).(((......)))...))))....(....).))))))))))...... ( -25.60)
>DroYak_CAF1 100154 100 - 1
----GUGUUGAAUGAAAUUGCGAG-GGCUUCUACUCAAAGUAAUUUACACUAAAUUACAUGCGAACAAGCAAAAUGAGAAAAGCCUACAAAGCUCUCGCUUAUGU
----...............(((((-(((((...((((..((((((((...)))))))).(((......)))...))))....(....).))))))))))...... ( -25.60)
>DroAna_CAF1 95771 101 - 1
----GCCUAAACUGAAAUUGCGAGGGGCUUCUACUCAAAGUAAUUUACACUAAAUUACAUGCGAACAAGCAAAAUGAGAAAAGCCUACAAAGCUCUCGCUUAUGG
----...............(((((((((((...((((..((((((((...)))))))).(((......)))...))))..))))))........)))))...... ( -24.90)
>consensus
____GUGUUGAAUGAAAUUGCGAG_GGCUUCUACUCAAAGUAAUUUACACUAAAUUACAUGCGAACAAGCAAAAUGAGAAAAGCCUACAAAGCUCUCGCUUAUGU
...................(((((.(((((...((((..((((((((...)))))))).(((......)))...))))..))))).........)))))...... (-21.83 = -22.00 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:36 2006