Locus 4496

Sequence ID	X_DroMel_CAF1
Location	11,882,821 – 11,882,937
Length	116
Max. P	0.910293

overview

Window 4

Location	11,882,821 – 11,882,937
Length	116
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.63
Mean single sequence MFE	-22.66
Consensus MFE	-19.66
Energy contribution	-21.10
Covariance contribution	1.44
Combinations/Pair	1.03
Mean z-score	-1.64
Structure conservation index	0.87
SVM decision value	1.07
SVM RNA-class probability	0.910293
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11882821 116 + 22224390
AAGUUGAAAACAUAUUUGUU-CACUAGUCGCAUUGUUCAAUUUGUUCAUUUUAAUUUAUGUACAAGUUGG---UGGCUUAGUUUAUAUUAUUGGUUAACCGAAAAUAUGUUUCAAAUUUC
...((((((.(((((((...-.(((((((((......((((((((.(((........))).)))))))))---)))).))))........((((....)))))))))))))))))..... ( -27.10)
>DroSec_CAF1 14713 116 + 1
AAGUUGAAAACAUUUUUGUU-UACUACUCGCAUUGUUCAAUUUGUUCAUUUUAAUUUAUGUACAAGUUGG---UGGCUUAGUUUAUAUUAUUGGUUAACCGAAAAUAUGUUUCAAAUUUC
...((((((...........-.((((...((.....(((((((((.(((........))).)))))))))---..)).)))).((((((.((((....)))).))))))))))))..... ( -21.70)
>DroSim_CAF1 18671 116 + 1
AAGUUGAAAACAUAUUUGUU-UACUACUCGCAUUGUUCAAUUUGUUCAUUUUAAUUUAUGUACAAGUUGG---UGGCUUAGUUUAUAUUAUUGGUUAACCGAAAAUAUGUUUCAAAUUUC
...((((((.(((((((((.-.((((...((.....(((((((((.(((........))).)))))))))---..)).))))..))....((((....)))))))))))))))))..... ( -25.00)
>DroEre_CAF1 16062 105 + 1
AAGUUGAAAACACAC------------UCGCAUUGUUCAAUUUGUUCAUUUUAAUUUAUGUACAAGUUGG---UGGCUUAGUUUAUAAUAUUGGUUAACCGAAAAUAUGUUCAAAAUUUC
...(((((.......------------..((.....(((((((((.(((........))).)))))))))---..)).............((((....)))).......)))))...... ( -16.90)
>DroYak_CAF1 19176 120 + 1
AAGUUGAAAACAUACUUGUUUUUCUGCUCGCAUUGUUUAAUUUGUUCAUUUUGAUUUAUGUACAAGUUGGUGGUGGCUUAUUUUAUAAUAUUGGUUAACCGAAAAUAUGUUUAAACUUUU
(((((..(((((((...........((.(((.....(((((((((.(((........))).)))))))))..))))).............((((....))))...))))))).))))).. ( -22.60)
>consensus
AAGUUGAAAACAUAUUUGUU_UACUACUCGCAUUGUUCAAUUUGUUCAUUUUAAUUUAUGUACAAGUUGG___UGGCUUAGUUUAUAUUAUUGGUUAACCGAAAAUAUGUUUCAAAUUUC
(((((..((((((((((............((.....(((((((((.(((........))).))))))))).....)).............((((....))))))))))))))..))))). (-19.66 = -21.10 +   1.44)

alignment

secondary structure

dotplot

Window 5

Location	11,882,821 – 11,882,937
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.63
Mean single sequence MFE	-16.00
Consensus MFE	-12.84
Energy contribution	-13.48
Covariance contribution	0.64
Combinations/Pair	1.12
Mean z-score	-1.44
Structure conservation index	0.80
SVM decision value	0.11
SVM RNA-class probability	0.589996
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11882821 116 - 22224390
GAAAUUUGAAACAUAUUUUCGGUUAACCAAUAAUAUAAACUAAGCCA---CCAACUUGUACAUAAAUUAAAAUGAACAAAUUGAACAAUGCGACUAGUG-AACAAAUAUGUUUUCAACUU
.....(((((((((((((((((....))..........((((.((..---.(((.((((.(((........))).)))).)))......))...)))))-)..))))))).))))))... ( -17.30)
>DroSec_CAF1 14713 116 - 1
GAAAUUUGAAACAUAUUUUCGGUUAACCAAUAAUAUAAACUAAGCCA---CCAACUUGUACAUAAAUUAAAAUGAACAAAUUGAACAAUGCGAGUAGUA-AACAAAAAUGUUUUCAACUU
.....((((((.(((((((.((....))..........((((.((..---.(((.((((.(((........))).)))).)))......))...)))).-....)))))))))))))... ( -15.50)
>DroSim_CAF1 18671 116 - 1
GAAAUUUGAAACAUAUUUUCGGUUAACCAAUAAUAUAAACUAAGCCA---CCAACUUGUACAUAAAUUAAAAUGAACAAAUUGAACAAUGCGAGUAGUA-AACAAAUAUGUUUUCAACUU
.....(((((((((((((..((....))..........((((.((..---.(((.((((.(((........))).)))).)))......))...)))).-...))))))).))))))... ( -18.00)
>DroEre_CAF1 16062 105 - 1
GAAAUUUUGAACAUAUUUUCGGUUAACCAAUAUUAUAAACUAAGCCA---CCAACUUGUACAUAAAUUAAAAUGAACAAAUUGAACAAUGCGA------------GUGUGUUUUCAACUU
........((((((((((.(((((..................)))).---.(((.((((.(((........))).)))).)))......).))------------))))))))....... ( -14.67)
>DroYak_CAF1 19176 120 - 1
AAAAGUUUAAACAUAUUUUCGGUUAACCAAUAUUAUAAAAUAAGCCACCACCAACUUGUACAUAAAUCAAAAUGAACAAAUUAAACAAUGCGAGCAGAAAAACAAGUAUGUUUUCAACUU
..(((((.((((((((((..((....))...............((..........((((.(((........))).))))..........))............))))))))))..))))) ( -14.55)
>consensus
GAAAUUUGAAACAUAUUUUCGGUUAACCAAUAAUAUAAACUAAGCCA___CCAACUUGUACAUAAAUUAAAAUGAACAAAUUGAACAAUGCGAGUAGUA_AACAAAUAUGUUUUCAACUU
.......(((((((((((..((....))...............((......(((.((((.(((........))).)))).)))......))............)))))))))))...... (-12.84 = -13.48 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:34 2006