Locus 5973

Sequence ID	X_DroMel_CAF1
Location	15,377,899 – 15,378,016
Length	117
Max. P	0.913526

overview

Window 0

Location	15,377,899 – 15,378,016
Length	117
Sequences	3
Columns	117
Reading direction	forward
Mean pairwise identity	91.86
Mean single sequence MFE	-27.20
Consensus MFE	-20.90
Energy contribution	-20.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.30
Structure conservation index	0.77
SVM decision value	0.04
SVM RNA-class probability	0.555190
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15377899 117 + 22224390
GCAGGAAGCAGACGCCCAGACACGAUAGAAUGUGAAUAUAUAUUAUAUAUACAUUACCACCAUAUAUACCAUAUAACUGGGUAAAGUCCCCCAAGUUGGACGUUUGCAUUGUCGAUU
((((...((((((((((((.((((......))))..(((((..(((((((...........)))))))..))))).))))))...((((........)))))))))).))))..... ( -30.80)
>DroSec_CAF1 19940 110 + 1
GCAGGAAGUAGACGCCCAGACACGAUAGAAUGUGAAUAUAUAUUAUAUAUACAUUACCACCAUAUAUACCAUAUAUCUGGGUAAAGUCCCCCAGGUUGGACAAU-G------CAAUC
(((..........(((((((((((......))))..(((((..(((((((...........)))))))..))))))))))))...((((........))))..)-)------).... ( -25.40)
>DroSim_CAF1 13303 110 + 1
GCAGGAAGUAGACGCCCAGACACGAUAGAAUGUGAAUAUAUAUUAUAUAUACAUUACCACCAUAUAUACCAUAUAUCUGGGUAAAGUCCCCCAGGUUGGACAAU-G------CAAUC
(((..........(((((((((((......))))..(((((..(((((((...........)))))))..))))))))))))...((((........))))..)-)------).... ( -25.40)
>consensus
GCAGGAAGUAGACGCCCAGACACGAUAGAAUGUGAAUAUAUAUUAUAUAUACAUUACCACCAUAUAUACCAUAUAUCUGGGUAAAGUCCCCCAGGUUGGACAAU_G______CAAUC
.............((((((.((((......))))..(((((..(((((((...........)))))))..))))).))))))...((((........))))................ (-20.90 = -20.90 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	15,377,899 – 15,378,016
Length	117
Sequences	3
Columns	117
Reading direction	reverse
Mean pairwise identity	91.86
Mean single sequence MFE	-30.47
Consensus MFE	-28.64
Energy contribution	-28.20
Covariance contribution	-0.44
Combinations/Pair	1.07
Mean z-score	-2.10
Structure conservation index	0.94
SVM decision value	1.09
SVM RNA-class probability	0.913526
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15377899 117 - 22224390
AAUCGACAAUGCAAACGUCCAACUUGGGGGACUUUACCCAGUUAUAUGGUAUAUAUGGUGGUAAUGUAUAUAUAAUAUAUAUUCACAUUCUAUCGUGUCUGGGCGUCUGCUUCCUGC
..........(((.((((((((((.(((........))))))).........(((((((((.(((((..(((((...)))))..))))))))))))))..)))))).)))....... ( -34.00)
>DroSec_CAF1 19940 110 - 1
GAUUG------C-AUUGUCCAACCUGGGGGACUUUACCCAGAUAUAUGGUAUAUAUGGUGGUAAUGUAUAUAUAAUAUAUAUUCACAUUCUAUCGUGUCUGGGCGUCUACUUCCUGC
((...------.-..((((((..(((((........)))))...........(((((((((.(((((..(((((...)))))..)))))))))))))).))))))......)).... ( -28.70)
>DroSim_CAF1 13303 110 - 1
GAUUG------C-AUUGUCCAACCUGGGGGACUUUACCCAGAUAUAUGGUAUAUAUGGUGGUAAUGUAUAUAUAAUAUAUAUUCACAUUCUAUCGUGUCUGGGCGUCUACUUCCUGC
((...------.-..((((((..(((((........)))))...........(((((((((.(((((..(((((...)))))..)))))))))))))).))))))......)).... ( -28.70)
>consensus
GAUUG______C_AUUGUCCAACCUGGGGGACUUUACCCAGAUAUAUGGUAUAUAUGGUGGUAAUGUAUAUAUAAUAUAUAUUCACAUUCUAUCGUGUCUGGGCGUCUACUUCCUGC
...............((((((..(((((........)))))...........(((((((((.(((((..(((((...)))))..)))))))))))))).))))))............ (-28.64 = -28.20 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:59 2006