Locus 8038

Sequence ID	X_DroMel_CAF1
Location	19,978,658 – 19,978,809
Length	151
Max. P	0.791779

overview

Window 9

Location	19,978,658 – 19,978,778
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	88.61
Mean single sequence MFE	-20.10
Consensus MFE	-15.69
Energy contribution	-15.80
Covariance contribution	0.11
Combinations/Pair	1.06
Mean z-score	-2.01
Structure conservation index	0.78
SVM decision value	0.07
SVM RNA-class probability	0.566435
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19978658 120 - 22224390
UGGAUAACAGGACAGUCUGGUCCUUCCACAACAAACGCCAUCAUGAUGGCUCAUUAUAUUCAUCGACUGUUUAAUCGACCCCAUCAUACCAACCCCAACUAUCCACAAGCACGAACGCAA
((((((...(((((((((((.....)))........(((((....)))))..............))))))))....((.....))..............))))))...((......)).. ( -24.90)
>DroSec_CAF1 17253 120 - 1
UGGAUAACAGGACAGCCUGGUUCAUCUACAACAAACGCCAUUAUAAUGGCUCCUUACAUUCAUCGACUGCUUAAUCGACCCCUUCAUACCAACCCCAAUUAUUCACAAGCACGAACACAA
.......((((....))))((((.............(((((....)))))............((((........))))..................................)))).... ( -17.70)
>DroSim_CAF1 10289 113 - 1
UGGACAACAGGACAGCCUGGUUCAUCUACAACAAACGCCAUUAUAAUGGCUCCUUACAUUCAUCGACUGCUUAAUCGACCCCUUCAUACCAACCCCAACU-------AGCACGAACACAA
.......((((....))))((((.............(((((....)))))............((((........))))......................-------.....)))).... ( -17.70)
>consensus
UGGAUAACAGGACAGCCUGGUUCAUCUACAACAAACGCCAUUAUAAUGGCUCCUUACAUUCAUCGACUGCUUAAUCGACCCCUUCAUACCAACCCCAACUAU_CACAAGCACGAACACAA
.......((((....))))((((.............(((((....)))))............((((........))))..................................)))).... (-15.69 = -15.80 +   0.11)

alignment

secondary structure

dotplot

Window 0

Location	19,978,698 – 19,978,809
Length	111
Sequences	3
Columns	111
Reading direction	reverse
Mean pairwise identity	89.02
Mean single sequence MFE	-27.93
Consensus MFE	-23.87
Energy contribution	-23.77
Covariance contribution	-0.11
Combinations/Pair	1.10
Mean z-score	-2.14
Structure conservation index	0.85
SVM decision value	0.59
SVM RNA-class probability	0.791779
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19978698 111 - 22224390
AAAGUCCAGGCAAUAAAGACAUUGCAGAAGGUGGAUAACAGGACAGUCUGGUCCUUCCACAACAAACGCCAUCAUGAUGGCUCAUUAUAUUCAUCGACUGUUUAAUCGACC
..((((...(((((......))))).(((.(((((....(((((......)))))))))).......(((((....)))))........)))...))))............ ( -29.10)
>DroSec_CAF1 17293 106 - 1
-----CCCGGCAAUAAAUACAUUGCAGGAGGUGGAUAACAGGACAGCCUGGUUCAUCUACAACAAACGCCAUUAUAAUGGCUCCUUACAUUCAUCGACUGCUUAAUCGACC
-----....(((((......)))))((((.((((((..((((....))))....)))))).......(((((....)))))))))........((((........)))).. ( -26.80)
>DroSim_CAF1 10322 106 - 1
-----CCCGGCAAUAAAUACAUUGCAGGAGGUGGACAACAGGACAGCCUGGUUCAUCUACAACAAACGCCAUUAUAAUGGCUCCUUACAUUCAUCGACUGCUUAAUCGACC
-----.((.(((((......))))).))((((((((..((((....)))))))))))).........(((((....)))))............((((........)))).. ( -27.90)
>consensus
_____CCCGGCAAUAAAUACAUUGCAGGAGGUGGAUAACAGGACAGCCUGGUUCAUCUACAACAAACGCCAUUAUAAUGGCUCCUUACAUUCAUCGACUGCUUAAUCGACC
.......................((((..(((((((..((((....)))).................(((((....))))).......)))))))..)))).......... (-23.87 = -23.77 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:49 2006