Locus 6799

Sequence ID	X_DroMel_CAF1
Location	16,922,926 – 16,923,020
Length	94
Max. P	0.997610

overview

Window 4

Location	16,922,926 – 16,923,020
Length	94
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	80.54
Mean single sequence MFE	-34.60
Consensus MFE	-19.96
Energy contribution	-21.56
Covariance contribution	1.60
Combinations/Pair	1.10
Mean z-score	-3.44
Structure conservation index	0.58
SVM decision value	2.89
SVM RNA-class probability	0.997610
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16922926 94 + 22224390
CGCUGAAUGAGUUAGGA--------------GAUCGAGAUUCCGUCUCGGAUAUGGCGACAAUGUCUAAAUCCGGAGACGACUCUUCAGAUCUUUCACUUUCUACGCA-----------
.((.....((((..(((--------------((((((((...((((((((((..(((......)))...)))).))))))..))))..))))))).)))).....)).----------- ( -28.10)
>DroSec_CAF1 9792 105 + 1
CGCAGAAUGAGUUAGGA--------------GAUCGAGAUUCCGUCUCGGAUAUGGCGACAAUGUCUAAAUCCGGAGACGACUCUUCAGAUCUUUCACUUUCUACGCAUUCUGCAAUUA
.((((((((.((.((((--------------((((((((...((((((((((..(((......)))...)))).))))))..))))..))))))...))....)).))))))))..... ( -36.60)
>DroSim_CAF1 11093 105 + 1
CGCAGAAUGAGUUAGGA--------------GAUCGAGAUUCCGUCUCGGAUAUGGCGACAAUGUCUAAAUCCGGAGACGACUCUUCAGAUCUUUCACUUUCUACGCAUUCUGCAAUUA
.((((((((.((.((((--------------((((((((...((((((((((..(((......)))...)))).))))))..))))..))))))...))....)).))))))))..... ( -36.60)
>DroEre_CAF1 9733 118 + 1
-GCAGUUUGAGUUAGGAGAUAGGAGAUCGGAGAUCGAGAUUCCGUCUCGGAUAUGGCGACCAUGUCUAAGUCUGGAGACUACUCUUCGUAUCUUUCACUUUCUACGCAUUCUGCAAUUA
-((((..((.((.(((((.(..(((((((((((...((.(((((.((..(((((((...)))))))..)).).)))).))..)))))).)))))..).))))))).))..))))..... ( -43.00)
>DroYak_CAF1 9685 90 + 1
-GCAGAAUGCUUUAGGA--------------GAUCGAGAUUCCGUCUCGGUUAUGGCGACAAUGUCUAAAAC--------------CAAAUCUUUCACUUUCUACGCAUUCUGCAAUUA
-(((((((((..(((((--------------(...(((((...)))))((((..(((......)))...)))--------------)...........)))))).)))))))))..... ( -28.70)
>consensus
CGCAGAAUGAGUUAGGA______________GAUCGAGAUUCCGUCUCGGAUAUGGCGACAAUGUCUAAAUCCGGAGACGACUCUUCAGAUCUUUCACUUUCUACGCAUUCUGCAAUUA
.((((((((...(((((..................(((((...)))))((((..(((......)))...))))(((((....)))))............)))))..))))))))..... (-19.96 = -21.56 +   1.60)

alignment

secondary structure

dotplot

Window 5

Location	16,922,926 – 16,923,020
Length	94
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	80.54
Mean single sequence MFE	-28.56
Consensus MFE	-17.17
Energy contribution	-20.40
Covariance contribution	3.23
Combinations/Pair	1.03
Mean z-score	-1.78
Structure conservation index	0.60
SVM decision value	0.10
SVM RNA-class probability	0.581372
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16922926 94 - 22224390
-----------UGCGUAGAAAGUGAAAGAUCUGAAGAGUCGUCUCCGGAUUUAGACAUUGUCGCCAUAUCCGAGACGGAAUCUCGAUC--------------UCCUAACUCAUUCAGCG
-----------..(((.((((((...(((((.((.((.(((((((.((((...(((...))).....)))))))))))..))))))))--------------)....)))..))).))) ( -26.40)
>DroSec_CAF1 9792 105 - 1
UAAUUGCAGAAUGCGUAGAAAGUGAAAGAUCUGAAGAGUCGUCUCCGGAUUUAGACAUUGUCGCCAUAUCCGAGACGGAAUCUCGAUC--------------UCCUAACUCAUUCUGCG
.....((((((((.......(((...(((((.((.((.(((((((.((((...(((...))).....)))))))))))..))))))))--------------)....))))))))))). ( -33.61)
>DroSim_CAF1 11093 105 - 1
UAAUUGCAGAAUGCGUAGAAAGUGAAAGAUCUGAAGAGUCGUCUCCGGAUUUAGACAUUGUCGCCAUAUCCGAGACGGAAUCUCGAUC--------------UCCUAACUCAUUCUGCG
.....((((((((.......(((...(((((.((.((.(((((((.((((...(((...))).....)))))))))))..))))))))--------------)....))))))))))). ( -33.61)
>DroEre_CAF1 9733 118 - 1
UAAUUGCAGAAUGCGUAGAAAGUGAAAGAUACGAAGAGUAGUCUCCAGACUUAGACAUGGUCGCCAUAUCCGAGACGGAAUCUCGAUCUCCGAUCUCCUAUCUCCUAACUCAAACUGC-
.....((((....((((............))))..((((((((....))))..((.((((...)))).)).((((((((.........)))).))))..........))))...))))- ( -24.00)
>DroYak_CAF1 9685 90 - 1
UAAUUGCAGAAUGCGUAGAAAGUGAAAGAUUUG--------------GUUUUAGACAUUGUCGCCAUAACCGAGACGGAAUCUCGAUC--------------UCCUAAAGCAUUCUGC-
.....(((((((((.(((..............(--------------(((...(((...))).....))))(((((((....))).))--------------)))))..)))))))))- ( -25.20)
>consensus
UAAUUGCAGAAUGCGUAGAAAGUGAAAGAUCUGAAGAGUCGUCUCCGGAUUUAGACAUUGUCGCCAUAUCCGAGACGGAAUCUCGAUC______________UCCUAACUCAUUCUGCG
.....((((((((.((.((.((((..(((((((.(((....))).)))))))...)))).))........(((((.....)))))......................)).)))))))). (-17.17 = -20.40 +   3.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:14 2006