Locus 3095

Sequence ID	2R_DroMel_CAF1
Location	10,592,023 – 10,592,118
Length	95
Max. P	0.939555

overview

Window 0

Location	10,592,023 – 10,592,118
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	83.67
Mean single sequence MFE	-21.80
Consensus MFE	-15.90
Energy contribution	-16.74
Covariance contribution	0.84
Combinations/Pair	1.06
Mean z-score	-2.15
Structure conservation index	0.73
SVM decision value	0.97
SVM RNA-class probability	0.892620
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10592023 95 + 20766785
CGAAAGCCACUCGUUGACACCAGAACAACUAUGUGGGCCAACAAAUGGCCCAAAAGCUGGAGCGUACUUUACCAAAAAGGACAAAAGCCAGCUCU
....(((.....((((.........))))....(((((((.....)))))))...)))(((((...((((.((.....))...))))...))))) ( -25.00)
>DroSec_CAF1 41066 95 + 1
CGAAAGCCUCUCGUUGACACCAGAACAACUAUGUGGGCCAACAAAUGGCCCAAAAGCUGGAGCGCACUUUACCAAAAAGGACAAAAGCCAGCUCU
....(((.....((((.........))))....(((((((.....)))))))...)))(((((...((((.((.....))...))))...))))) ( -25.00)
>DroSim_CAF1 40333 95 + 1
UGAAAGCCUCUCGUUGACACCAGAACAACUAUGUGGGCCAACAAAUGGCCCAAAAGCUGGAGCGCACUUUACCAAAAAGGACAAAAGCCAGCUCU
....(((.....((((.........))))....(((((((.....)))))))...)))(((((...((((.((.....))...))))...))))) ( -25.00)
>DroEre_CAF1 40370 94 + 1
CGAAAGCCUCUCGUCGACACCACAACCACUUUGUGGGCCAGCAAAUGGCCCAAACGCCAGAGCACACUUUACCAAAAA-GACAAAAGCCAGCUCU
....(((((((.(.((.....((((.....))))((((((.....))))))...))).))))....((((.....)))-)..........))).. ( -20.30)
>DroYak_CAF1 47750 74 + 1
CAA--------------------AACCACUAUGUGGGCCAACAAAAGGGCCAAAAGCUGUAGCACACUUUGCCAAAAA-GACAAAAGCCAGCUCU
...--------------------...(((...)))((((........))))...(((((..((...((((.....)))-)......))))))).. ( -13.70)
>consensus
CGAAAGCCUCUCGUUGACACCAGAACAACUAUGUGGGCCAACAAAUGGCCCAAAAGCUGGAGCGCACUUUACCAAAAAGGACAAAAGCCAGCUCU
.................................(((((((.....)))))))......(((((...((((.((.....))...))))...))))) (-15.90 = -16.74 +   0.84)

alignment

secondary structure

dotplot

Window 1

Location	10,592,023 – 10,592,118
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	83.67
Mean single sequence MFE	-31.38
Consensus MFE	-20.94
Energy contribution	-22.38
Covariance contribution	1.44
Combinations/Pair	1.04
Mean z-score	-2.56
Structure conservation index	0.67
SVM decision value	1.28
SVM RNA-class probability	0.939555
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10592023 95 - 20766785
AGAGCUGGCUUUUGUCCUUUUUGGUAAAGUACGCUCCAGCUUUUGGGCCAUUUGUUGGCCCACAUAGUUGUUCUGGUGUCAACGAGUGGCUUUCG
((((((((....(((.((((.....)))).)))..)))))))).((((((((((((((((((((....)))...)).)))))))))))))))... ( -36.40)
>DroSec_CAF1 41066 95 - 1
AGAGCUGGCUUUUGUCCUUUUUGGUAAAGUGCGCUCCAGCUUUUGGGCCAUUUGUUGGCCCACAUAGUUGUUCUGGUGUCAACGAGAGGCUUUCG
.((((..(((((...((.....)).)))))..))))(((((..(((((((.....)))))))...)))))((((.((....)).))))....... ( -33.80)
>DroSim_CAF1 40333 95 - 1
AGAGCUGGCUUUUGUCCUUUUUGGUAAAGUGCGCUCCAGCUUUUGGGCCAUUUGUUGGCCCACAUAGUUGUUCUGGUGUCAACGAGAGGCUUUCA
.((((..(((((...((.....)).)))))..))))(((((..(((((((.....)))))))...)))))((((.((....)).))))....... ( -33.80)
>DroEre_CAF1 40370 94 - 1
AGAGCUGGCUUUUGUC-UUUUUGGUAAAGUGUGCUCUGGCGUUUGGGCCAUUUGCUGGCCCACAAAGUGGUUGUGGUGUCGACGAGAGGCUUUCG
.(((..(.((((((((-.....((((((.((.((((........))))))))))))(((((((((.....)))))).))))))))))).).))). ( -33.70)
>DroYak_CAF1 47750 74 - 1
AGAGCUGGCUUUUGUC-UUUUUGGCAAAGUGUGCUACAGCUUUUGGCCCUUUUGUUGGCCCACAUAGUGGUU--------------------UUG
((((((((((((((((-.....)))))))...))..))))))).((((........))))(((...)))...--------------------... ( -19.20)
>consensus
AGAGCUGGCUUUUGUCCUUUUUGGUAAAGUGCGCUCCAGCUUUUGGGCCAUUUGUUGGCCCACAUAGUUGUUCUGGUGUCAACGAGAGGCUUUCG
.((((..(((((...((.....)).)))))..))))(((((..(((((((.....)))))))...)))))......................... (-20.94 = -22.38 +   1.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:26 2006