Locus 5377

Sequence ID	2L_DroMel_CAF1
Location	15,296,970 – 15,297,090
Length	120
Max. P	0.721895

overview

Window 4

Location	15,296,970 – 15,297,090
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	95.83
Mean single sequence MFE	-24.08
Consensus MFE	-20.68
Energy contribution	-21.43
Covariance contribution	0.75
Combinations/Pair	1.07
Mean z-score	-1.61
Structure conservation index	0.86
SVM decision value	0.33
SVM RNA-class probability	0.691434
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15296970 120 + 22407834
GAGUGGGUACCAAAUUAGACACAUUUUAUUAUUAAAAUCCACUUGUGUUGAAAUAAAACACGACUUUCUGUGUCGCACAUAAUGAAAAUAUAUGGCAAGUUAAUGCCGGCAAAUAUUUAU
..((.((((........(((((((((((....))))).....(((((((.......))))))).....))))))((.((((((....)).)))))).......)))).)).......... ( -26.90)
>DroVir_CAF1 52988 120 + 1
GAGUGGGUACCAAAUUAGACACAUUUUAUUAUUAAAAUCCACUUGUGUUGAAAUAAAACACGACUUUCUGUGUCGCAUAUAAUGAAAAUAUAUGGCAAGUUAAUACCUGAAUUUAUUUAU
....(((((........(((((((((((....))))).....(((((((.......))))))).....))))))(((((((.(....)))))).)).......)))))............ ( -22.20)
>DroGri_CAF1 48192 120 + 1
GAGUGGGUACCAAAUUAGACACAUUUUAUUAUUAAAAUCCACUUGUGUUGAAAUAAAACACGACUUUCUGUGUCGCAUAUAAUGAAAAUAUAUGGCAAGUUAAUACCUGAAUUUAUUUAU
....(((((........(((((((((((....))))).....(((((((.......))))))).....))))))(((((((.(....)))))).)).......)))))............ ( -22.20)
>DroYak_CAF1 46483 120 + 1
GAGUGGGUACCAAAUUAGACACAUUUUAUUAAUAAAAUCCACUUGUGUUGAAAUAAAACACGACUUUCUGUGUCGCACAUAAUGAAAAUAUAUGGCAAGUUAAUGCCAGAAAAUAUUUAU
..((((....)......(((((((((((....))))).....(((((((.......))))))).....)))))).))).......((((((.(((((......)))))....)))))).. ( -23.40)
>DroMoj_CAF1 59695 120 + 1
GAGUGGGUACCAAAUUAGACACAUUUUAUUAUUAAAAUCCACUUGUGUUGAAAUAAAACACGACUUUCUGUGUCGCAUAUAAUGAAAAUAUAUGGCAAGUUAAUACCUGAAUUUAUUUAU
....(((((........(((((((((((....))))).....(((((((.......))))))).....))))))(((((((.(....)))))).)).......)))))............ ( -22.20)
>DroAna_CAF1 49518 120 + 1
GAGUGGGUAUCAAAUUAGACACAUUUUAUUAUUAAAAUCCACUUGUGUUGAAAUAAAACACGACUUUCUGUGUCGCCCAUAAUGAGAAUAUAUGGCAAGUUAAUGCCAGAAUUUAUUUAA
..((((((.........(((((((((((....))))).....(((((((.......))))))).....)))))))))))).....(((((..(((((......))))).....))))).. ( -27.60)
>consensus
GAGUGGGUACCAAAUUAGACACAUUUUAUUAUUAAAAUCCACUUGUGUUGAAAUAAAACACGACUUUCUGUGUCGCACAUAAUGAAAAUAUAUGGCAAGUUAAUACCUGAAUUUAUUUAU
.....((((........(((((((((((....))))).....(((((((.......))))))).....))))))((.((((((....)).)))))).......))))............. (-20.68 = -21.43 +   0.75)

alignment

secondary structure

dotplot

Window 5

Location	15,296,970 – 15,297,090
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	95.83
Mean single sequence MFE	-23.23
Consensus MFE	-19.92
Energy contribution	-19.45
Covariance contribution	-0.47
Combinations/Pair	1.09
Mean z-score	-1.66
Structure conservation index	0.86
SVM decision value	0.40
SVM RNA-class probability	0.721895
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15296970 120 - 22407834
AUAAAUAUUUGCCGGCAUUAACUUGCCAUAUAUUUUCAUUAUGUGCGACACAGAAAGUCGUGUUUUAUUUCAACACAAGUGGAUUUUAAUAAUAAAAUGUGUCUAAUUUGGUACCCACUC
.........((((((((......))))(((((((((.((((((..((((.......))))..)(((((((......))))))).....)))))))))))))).......))))....... ( -23.50)
>DroVir_CAF1 52988 120 - 1
AUAAAUAAAUUCAGGUAUUAACUUGCCAUAUAUUUUCAUUAUAUGCGACACAGAAAGUCGUGUUUUAUUUCAACACAAGUGGAUUUUAAUAAUAAAAUGUGUCUAAUUUGGUACCCACUC
.............((((((((...((.(((((.......)))))))((((((.(((((((((((.......))))).....))))))..........))))))....))))))))..... ( -22.10)
>DroGri_CAF1 48192 120 - 1
AUAAAUAAAUUCAGGUAUUAACUUGCCAUAUAUUUUCAUUAUAUGCGACACAGAAAGUCGUGUUUUAUUUCAACACAAGUGGAUUUUAAUAAUAAAAUGUGUCUAAUUUGGUACCCACUC
.............((((((((...((.(((((.......)))))))((((((.(((((((((((.......))))).....))))))..........))))))....))))))))..... ( -22.10)
>DroYak_CAF1 46483 120 - 1
AUAAAUAUUUUCUGGCAUUAACUUGCCAUAUAUUUUCAUUAUGUGCGACACAGAAAGUCGUGUUUUAUUUCAACACAAGUGGAUUUUAUUAAUAAAAUGUGUCUAAUUUGGUACCCACUC
......(((((((((((......)))((((((.......)))))).....)))))))).(((((.......))))).(((((((((((....))))))((..(......)..))))))). ( -24.40)
>DroMoj_CAF1 59695 120 - 1
AUAAAUAAAUUCAGGUAUUAACUUGCCAUAUAUUUUCAUUAUAUGCGACACAGAAAGUCGUGUUUUAUUUCAACACAAGUGGAUUUUAAUAAUAAAAUGUGUCUAAUUUGGUACCCACUC
.............((((((((...((.(((((.......)))))))((((((.(((((((((((.......))))).....))))))..........))))))....))))))))..... ( -22.10)
>DroAna_CAF1 49518 120 - 1
UUAAAUAAAUUCUGGCAUUAACUUGCCAUAUAUUCUCAUUAUGGGCGACACAGAAAGUCGUGUUUUAUUUCAACACAAGUGGAUUUUAAUAAUAAAAUGUGUCUAAUUUGAUACCCACUC
..(((((((...(((((......)))))................(((((.......)))))..))))))).......(((((((((((....))))))(((((......)))))))))). ( -25.20)
>consensus
AUAAAUAAAUUCAGGCAUUAACUUGCCAUAUAUUUUCAUUAUAUGCGACACAGAAAGUCGUGUUUUAUUUCAACACAAGUGGAUUUUAAUAAUAAAAUGUGUCUAAUUUGGUACCCACUC
.............((((......))))(((((.......)))))..(((.......)))(((((.......))))).(((((((((((....))))))(((((......)))))))))). (-19.92 = -19.45 +  -0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:37 2006