Locus 6843

Sequence ID	2L_DroMel_CAF1
Location	19,138,842 – 19,138,944
Length	102
Max. P	0.798324

overview

Window 9

Location	19,138,842 – 19,138,944
Length	102
Sequences	4
Columns	106
Reading direction	forward
Mean pairwise identity	92.93
Mean single sequence MFE	-28.35
Consensus MFE	-24.00
Energy contribution	-23.75
Covariance contribution	-0.25
Combinations/Pair	1.05
Mean z-score	-1.82
Structure conservation index	0.85
SVM decision value	0.61
SVM RNA-class probability	0.798324
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19138842 102 + 22407834
CCAUAUAAUUAUGGAAUAAUUUAAUUGUUUCAAUUUUGAGCUGCGAUGCCUACACUGGGGCACCCCCGAAACUAAUGUUUUCCGGGCUUGGCCCCAUCG----UUA
(((((....))))).........(((((((((....))))..)))))........((((((...((((((((....))))..))))....))))))...----... ( -27.30)
>DroSim_CAF1 26574 102 + 1
CCAUAUAAUUAUGGAAUAAUUUAAUUGUUUCAAUUUUGAGCUGCGAUGCCUGCACUGGGGCACCCCCGAAACUAAUGUUUUCCGGGCUUGGCCCCAUCG----GCA
(((((....))))).........(((((((((....))))..)))))(((.....((((((...((((((((....))))..))))....))))))..)----)). ( -31.10)
>DroEre_CAF1 25208 100 + 1
CCAUAUAAUUAUGGAAUAAUUUAAUUGUUUCAAUUUUGAGCUGGAAUGCCUACACUGGGGCACCCC--GAACUAAUGUUUUCCGGGCUUGGCCCCAUCG----GUA
(((..(((...(((((((((...)))))))))...)))...)))..((((.....((((((..(((--((((....)))...))))....))))))..)----))) ( -26.50)
>DroYak_CAF1 25393 104 + 1
CCAUAUAAUUAUGGAAUAAUUUAAUUGUUUUAAUUUUGAGCUGGGAUGCCUGCACUGGGGCACCCC--GAACUAAUGUUUUCCGGGCUUGGCCCCAUCGCGUCGUA
(((((....)))))............((((.......))))...(((((......((((((..(((--((((....)))...))))....))))))..)))))... ( -28.50)
>consensus
CCAUAUAAUUAUGGAAUAAUUUAAUUGUUUCAAUUUUGAGCUGCGAUGCCUACACUGGGGCACCCC__AAACUAAUGUUUUCCGGGCUUGGCCCCAUCG____GUA
(((((....))))).......................((((......))......((((((.(((...((((....))))...)))....))))))))........ (-24.00 = -23.75 +  -0.25)

alignment

secondary structure

dotplot

Window 0

Location	19,138,842 – 19,138,944
Length	102
Sequences	4
Columns	106
Reading direction	reverse
Mean pairwise identity	92.93
Mean single sequence MFE	-28.38
Consensus MFE	-21.89
Energy contribution	-22.70
Covariance contribution	0.81
Combinations/Pair	1.08
Mean z-score	-1.85
Structure conservation index	0.77
SVM decision value	0.10
SVM RNA-class probability	0.583981
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19138842 102 - 22407834
UAA----CGAUGGGGCCAAGCCCGGAAAACAUUAGUUUCGGGGGUGCCCCAGUGUAGGCAUCGCAGCUCAAAAUUGAAACAAUUAAAUUAUUCCAUAAUUAUAUGG
...----((((.((((....(((((((........)))))))((((((........))))))...))))...))))................(((((....))))) ( -27.90)
>DroSim_CAF1 26574 102 - 1
UGC----CGAUGGGGCCAAGCCCGGAAAACAUUAGUUUCGGGGGUGCCCCAGUGCAGGCAUCGCAGCUCAAAAUUGAAACAAUUAAAUUAUUCCAUAAUUAUAUGG
(((----(..(((((((...(((((((........))))))).).)))))).....))))................................(((((....))))) ( -30.00)
>DroEre_CAF1 25208 100 - 1
UAC----CGAUGGGGCCAAGCCCGGAAAACAUUAGUUC--GGGGUGCCCCAGUGUAGGCAUUCCAGCUCAAAAUUGAAACAAUUAAAUUAUUCCAUAAUUAUAUGG
(((----...((((((...((((.(((........)))--.))))))))))..)))(((......)))........................(((((....))))) ( -26.20)
>DroYak_CAF1 25393 104 - 1
UACGACGCGAUGGGGCCAAGCCCGGAAAACAUUAGUUC--GGGGUGCCCCAGUGCAGGCAUCCCAGCUCAAAAUUAAAACAAUUAAAUUAUUCCAUAAUUAUAUGG
......(((.((((((...((((.(((........)))--.)))))))))).))).(((......)))........................(((((....))))) ( -29.40)
>consensus
UAC____CGAUGGGGCCAAGCCCGGAAAACAUUAGUUC__GGGGUGCCCCAGUGCAGGCAUCCCAGCUCAAAAUUGAAACAAUUAAAUUAUUCCAUAAUUAUAUGG
.......((((.((((....(((((((........)))))))((((((........))))))...))))...))))................(((((....))))) (-21.89 = -22.70 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:05 2006