Locus 2612

Sequence ID 3L_DroMel_CAF1
Location 7,228,948 – 7,229,039
Length 91
Max. P 0.964731
window4091 window4092

overview

Window 1

Location 7,228,948 – 7,229,039
Length 91
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.73
Mean single sequence MFE -30.62
Consensus MFE -19.28
Energy contribution -19.16
Covariance contribution -0.12
Combinations/Pair 1.09
Mean z-score -2.38
Structure conservation index 0.63
SVM decision value 1.57
SVM RNA-class probability 0.964731
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7228948 91 + 23771897
UGAGAAACCAG------GCGAGGCGCCACCGCCA-AGUGAAUGACCACAAAAAUGCACUCCGCUGCA------AGAGUUGUGGUC----------------AAGUGUCGUAAAGGUUGAA
.....((((..------((((((((....)))).-......(((((((((...((((......))))------....))))))))----------------)....))))...))))... ( -31.60)
>DroSec_CAF1 10647 91 + 1
UGAGAAACCAG------GCGAGGCGCCAUCGCCA-AGUGAAUGACCACAAAAAUGCACUCCACUGCA------AGAGUUGUGGUC----------------AAGUGUCGUAAAGGUUGAA
.....((((..------((((((((....)))).-......(((((((((...((((......))))------....))))))))----------------)....))))...))))... ( -31.40)
>DroSim_CAF1 10565 92 + 1
UGAGAAACCAG------GCGAGGCGCCAUCGCCAAAGUGAAUGACCACAAAAAUGCACUCCACUGCA------AGAGUUGUGGUC----------------AAGUGUCGUAAAGGUUGAA
.....((((..------((((.((....((((....)))).(((((((((...((((......))))------....))))))))----------------).)).))))...))))... ( -32.10)
>DroEre_CAF1 10790 94 + 1
UGAGAAAACUGUGAAA-CU--GGCGCCGCCGCCA-AGGGAGUGACCACAAAAAUGCACUCCACUGCA------ACCGUUGUGGUC----------------AAGUGUCGUAAAGGUUGAA
......((((.(((.(-((--((((....)))).-......(((((((((...((((......))))------....))))))))----------------)))).)))....))))... ( -27.50)
>DroYak_CAF1 11583 119 + 1
UGAGAAAAAAAAAAAAGCUAAGGCGCCGUCGCCA-AGGGAAUGACCACAAAAAUGCACUCCACUGCACUGACGACCGUUGUGGUCAAGUGGGCAAGUGGUCAAGUGUCGUUAAGGUUGAA
...............((((..((((....)))).-((.((.(((((((.....(((...(((((....((((.((....)).)))))))))))).)))))))....)).))..))))... ( -30.50)
>consensus
UGAGAAACCAG______GCGAGGCGCCAUCGCCA_AGUGAAUGACCACAAAAAUGCACUCCACUGCA______AGAGUUGUGGUC________________AAGUGUCGUAAAGGUUGAA
.....((((........((..((((....))))...))....((((((((...((((......))))..........))))))))............................))))... (-19.28 = -19.16 +  -0.12)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 7,228,948 – 7,229,039
Length 91
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.73
Mean single sequence MFE -27.62
Consensus MFE -18.48
Energy contribution -18.48
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.67
SVM decision value 0.28
SVM RNA-class probability 0.667752
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7228948 91 - 23771897
UUCAACCUUUACGACACUU----------------GACCACAACUCU------UGCAGCGGAGUGCAUUUUUGUGGUCAUUCACU-UGGCGGUGGCGCCUCGC------CUGGUUUCUCA
...((((....(((....(----------------((((((((....------((((......))))...)))))))))......-.((((....))))))).------..))))..... ( -27.30)
>DroSec_CAF1 10647 91 - 1
UUCAACCUUUACGACACUU----------------GACCACAACUCU------UGCAGUGGAGUGCAUUUUUGUGGUCAUUCACU-UGGCGAUGGCGCCUCGC------CUGGUUUCUCA
...((((.....((....(----------------((((((((....------((((......))))...))))))))).))...-.(((((.(....)))))------).))))..... ( -27.90)
>DroSim_CAF1 10565 92 - 1
UUCAACCUUUACGACACUU----------------GACCACAACUCU------UGCAGUGGAGUGCAUUUUUGUGGUCAUUCACUUUGGCGAUGGCGCCUCGC------CUGGUUUCUCA
...((((.....((....(----------------((((((((....------((((......))))...))))))))).)).....(((((.(....)))))------).))))..... ( -27.90)
>DroEre_CAF1 10790 94 - 1
UUCAACCUUUACGACACUU----------------GACCACAACGGU------UGCAGUGGAGUGCAUUUUUGUGGUCACUCCCU-UGGCGGCGGCGCC--AG-UUUCACAGUUUUCUCA
............((.((.(----------------((((((((..((------.(((......)))))..)))))))))......-(((((....))))--))-).))............ ( -26.00)
>DroYak_CAF1 11583 119 - 1
UUCAACCUUAACGACACUUGACCACUUGCCCACUUGACCACAACGGUCGUCAGUGCAGUGGAGUGCAUUUUUGUGGUCAUUCCCU-UGGCGACGGCGCCUUAGCUUUUUUUUUUUUCUCA
..................(((((((.((((((((.((((.....))))((....)))))))...))).....)))))))......-.((((....))))..................... ( -29.00)
>consensus
UUCAACCUUUACGACACUU________________GACCACAACUCU______UGCAGUGGAGUGCAUUUUUGUGGUCAUUCACU_UGGCGAUGGCGCCUCGC______CUGGUUUCUCA
...................................((((((((..........((((......))))...)))))))).........((((....))))..................... (-18.48 = -18.48 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:30 2006