Locus 7572

Sequence ID	3L_DroMel_CAF1
Location	20,352,674 – 20,352,834
Length	160
Max. P	0.545403

overview

Window 8

Location	20,352,674 – 20,352,794
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	66.81
Mean single sequence MFE	-41.05
Consensus MFE	-20.90
Energy contribution	-25.65
Covariance contribution	4.75
Combinations/Pair	1.28
Mean z-score	-1.47
Structure conservation index	0.51
SVM decision value	0.02
SVM RNA-class probability	0.545403
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20352674 120 - 23771897
GGGUCAGUUGAUCCUUGAGAACAUCUUGGCUGUGAUGUGGUAAUCGUUGGCCUUGUUCUGGGUUGACACUCUGGAUCUGUUGAUCCCGGGUAGCAACGUGGUCUCUUCGUAGUAAUGGAA
(((((....)))))..((((.(((....(((..(((......)))((..((((......))))..))((((.(((((....))))).)))))))...))).))))(((((....))))). ( -39.10)
>DroEre_CAF1 21853 120 - 1
GGGUCAGUGGAUCCUUGAUAACAUCUUGGCAGCGAUGUGGUAAUCGUUGGCCUUGUUCUCGGUUGACAGUCGGGAUCUGUUGAUCCCGGGUAACAACGUGGCCUCUUCGUAGUAAUGGGA
((((((.........(((.((((....(((((((((......)))))).))).)))).)))((((..(.((((((((....)))))))).)..)))).))))))..((.((....)).)) ( -41.30)
>DroWil_CAF1 29224 111 - 1
GGAUCGUCUGAACCAGGAUAACAUCUUGGCUUUGGAGUAGU---------UCUAGGUUCUUGUGGACAUCGAGAAUCUGUUGACCCGGGAUAACACCUUGGCCUCGUGGUAGUUACGGGA
((((..((..(((((((((...))))))).))..))...))---------))((((((((((.......))))))))))....((((...(((((((.((....)).))).)))))))). ( -33.20)
>DroAna_CAF1 22171 120 - 1
GGGUCAGGAGAUCCGGGGUAACACCUUGGUCUGGGUGUAGUCAAUGGAGCUCUAGUGACUGGUGAACAGGCAGGAUCAGGAGAUCCGGGGAAACACCUCGGCCGAGGUGUAGUAGCGGGC
(((((....)))))......(((((((((((.((((((..((..((((.((((.(...(((.(.....).)))...).)))).))))..)).)))))).))))))))))).......... ( -50.60)
>consensus
GGGUCAGUUGAUCCUGGAUAACAUCUUGGCUGUGAUGUAGUAAUCGUUGGCCUAGUUCCUGGUGGACAGUCAGGAUCUGUUGAUCCCGGGUAACAACGUGGCCUCGUCGUAGUAACGGGA
(((((....))))).............(((((((((((.......(((((((........)))))))((((.(((((....))))).)))).)))))))))))................. (-20.90 = -25.65 +   4.75)

alignment

secondary structure

dotplot

Window 9

Location	20,352,714 – 20,352,834
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	59.33
Mean single sequence MFE	-33.50
Consensus MFE	-17.56
Energy contribution	-18.88
Covariance contribution	1.31
Combinations/Pair	1.43
Mean z-score	-0.96
Structure conservation index	0.52
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20352714 120 - 23771897
UCUUGUUGUUGGUGGAAGAUAAGUAGCAGGUUGACACUCCGGGUCAGUUGAUCCUUGAGAACAUCUUGGCUGUGAUGUGGUAAUCGUUGGCCUUGUUCUGGGUUGACACUCUGGAUCUGU
.((((((((((........))).)))))))(((((.(....))))))..(((((..(((.(((((........))))).......((..((((......))))..)).))).)))))... ( -33.50)
>DroEre_CAF1 21893 120 - 1
UCUUGUUGUUGGUGGAAGAUAAGUAGCAGGCUGACACUCAGGGUCAGUGGAUCCUUGAUAACAUCUUGGCAGCGAUGUGGUAAUCGUUGGCCUUGUUCUCGGUUGACAGUCGGGAUCUGU
((((((((((..(.((..(((((...((((.((....((((((((....))))).)))...)).)))).(((((((......)))))))..)))))..)).)..))))).)))))..... ( -37.60)
>DroWil_CAF1 29264 109 - 1
--GAGUUGUUGGAGGGGGAUUUGUUUUAGGUUCGCACUCUGGAUCGUCUGAACCAGGAUAACAUCUUGGCUUUGGAGUAGU---------UCUAGGUUCUUGUGGACAUCGAGAAUCUGU
--((....(..((((.(((((((...))))))).).)))..).)).((..(((((((((...))))))).))..)).....---------..((((((((((.......)))))))))). ( -31.90)
>DroAna_CAF1 22211 93 - 1
---------------------------AGGUUGACAUUCUGGGUCAGGAGAUCCGGGGUAACACCUUGGUCUGGGUGUAGUCAAUGGAGCUCUAGUGACUGGUGAACAGGCAGGAUCAGG
---------------------------..((((((((((((((((....)))))))))).((((((......)))))).))))))...(.(((.((..(((.....))))).))).)... ( -31.00)
>consensus
__UUGUUGUUGGUGGAAGAUAAGUAGCAGGUUGACACUCUGGGUCAGUUGAUCCUGGAUAACAUCUUGGCUGUGAUGUAGUAAUCGUUGGCCUAGUUCCUGGUGGACAGUCAGGAUCUGU
...........................((((((((..((((((((....))))))))...(((((........))))).......)))))))).(.((((((.......)))))).)... (-17.56 = -18.88 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:29 2006