Locus 3992

Sequence ID X_DroMel_CAF1
Location 10,574,046 – 10,574,152
Length 106
Max. P 0.999171
window6565 window6566

overview

Window 5

Location 10,574,046 – 10,574,152
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 70.42
Mean single sequence MFE -33.38
Consensus MFE -18.98
Energy contribution -19.86
Covariance contribution 0.88
Combinations/Pair 1.19
Mean z-score -2.70
Structure conservation index 0.57
SVM decision value 3.41
SVM RNA-class probability 0.999171
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10574046 106 + 22224390
CGGUGGACGGUGGGCGGUGGGCAGUGGGUGGCGGGGCGAUG-------------UACACAUGUAUGUAAAAAUGU-AAAGUGUACACUUAUUGGGUGGGGAAAAAACCUUGCCGACCGCU
((.....))...((((((...((((((((.((...))...(-------------(((((...(((((....))))-)..))))))))))))))((..(((......)))..)).)))))) ( -35.00)
>DroSec_CAF1 14068 109 + 1
CGGUGG----------GUGGUCAGUGGGUGGCGGGGCGAUGGGAGUUACAUACAUACAAACAUAUGUAAAAAAGU-AAAGUGUACACUCAUUGGGUGGGGGAAAAACCUUGCCGACCGCU
.....(----------(((((((((((((((((..((.......))..).((((((......)))))).......-.....)).)))))))).((..(((......)))..))))))))) ( -37.30)
>DroSim_CAF1 13424 100 + 1
CGGUGG----------GUGGGCAGUGGGUGGCGGU---------GGUACAUACAUACAAACAUAUGUAAAAAAGU-AAAGUGUACACUCAUUGGGUGGGGGAGAAACCUUGCCGACCGCU
.....(----------((((.((((((((((((.(---------..(((.((((((......)))))).....))-).).))).)))))))))((..(((......)))..))..))))) ( -34.90)
>DroEre_CAF1 14046 82 + 1
CGGUGG----------GCGG----UGGGAGGU-----------------------AUGUAUGUACGUAAAAGUGG-AAGGUGUGCACUUAUUGGGUGGGGGAAAAACCUUGCCGACCACU
.(((((----------.(((----((((..((-----------------------(..(.(.(((......))).-)..)..))).)))))))((..(((......)))..))..))))) ( -28.20)
>DroYak_CAF1 15328 100 + 1
CGGUGG----------GUGG----UGGGAGGUGGUUAGGU----GGCAUGUAC-UAUGUACAUAUGUAAAAAUACAAAAGUGUACACUUAUUGGGCAGGGGAA-AACCUUGCCGACCGCU
.....(----------((((----(..........(((((----(((((((((-...))))...((((....))))...)))).))))))...(((((((...-..))))))).)))))) ( -31.50)
>consensus
CGGUGG__________GUGG_CAGUGGGUGGCGGG__G_U____G__A__UAC_UACAAACAUAUGUAAAAAUGU_AAAGUGUACACUUAUUGGGUGGGGGAAAAACCUUGCCGACCGCU
.(((((...............(((((((((......................................................)))))))))(((((((......)))))))..))))) (-18.98 = -19.86 +   0.88)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,574,046 – 10,574,152
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 70.42
Mean single sequence MFE -20.20
Consensus MFE -6.96
Energy contribution -7.16
Covariance contribution 0.20
Combinations/Pair 1.17
Mean z-score -1.82
Structure conservation index 0.34
SVM decision value 0.39
SVM RNA-class probability 0.717001
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10574046 106 - 22224390
AGCGGUCGGCAAGGUUUUUUCCCCACCCAAUAAGUGUACACUUU-ACAUUUUUACAUACAUGUGUA-------------CAUCGCCCCGCCACCCACUGCCCACCGCCCACCGUCCACCG
.(((((.((((.((........)).........((((((((...-................)))))-------------)))...............)))).)))))............. ( -24.61)
>DroSec_CAF1 14068 109 - 1
AGCGGUCGGCAAGGUUUUUCCCCCACCCAAUGAGUGUACACUUU-ACUUUUUUACAUAUGUUUGUAUGUAUGUAACUCCCAUCGCCCCGCCACCCACUGACCAC----------CCACCG
.((((..(((..((........)).......(((((((.....)-)).....(((((((((....))))))))))))).....)))))))..............----------...... ( -20.90)
>DroSim_CAF1 13424 100 - 1
AGCGGUCGGCAAGGUUUCUCCCCCACCCAAUGAGUGUACACUUU-ACUUUUUUACAUAUGUUUGUAUGUAUGUACC---------ACCGCCACCCACUGCCCAC----------CCACCG
.(.(((.((((.(((................(((((.......)-))))...(((((((((....)))))))))..---------......)))...)))).))----------)).... ( -19.50)
>DroEre_CAF1 14046 82 - 1
AGUGGUCGGCAAGGUUUUUCCCCCACCCAAUAAGUGCACACCUU-CCACUUUUACGUACAUACAU-----------------------ACCUCCCA----CCGC----------CCACCG
.((((.(((..((((................(((((........-.)))))..............-----------------------))))....----))).----------)))).. ( -14.71)
>DroYak_CAF1 15328 100 - 1
AGCGGUCGGCAAGGUU-UUCCCCUGCCCAAUAAGUGUACACUUUUGUAUUUUUACAUAUGUACAUA-GUACAUGCC----ACCUAACCACCUCCCA----CCAC----------CCACCG
...(((.((((.(((.-.......)))......(((((((....((((....))))..))))))).-.....))))----))).............----....----------...... ( -21.30)
>consensus
AGCGGUCGGCAAGGUUUUUCCCCCACCCAAUAAGUGUACACUUU_ACAUUUUUACAUAUGUAUGUA_GUA__U__C____A_C__ACCGCCACCCACUG_CCAC__________CCACCG
...((..(((..(((.........)))....((((....)))).............................................)))..))......................... ( -6.96 =  -7.16 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:46 2006