Locus 1824

Sequence ID 3L_DroMel_CAF1
Location 5,109,404 – 5,109,501
Length 97
Max. P 0.878318
window2849 window2850

overview

Window 9

Location 5,109,404 – 5,109,501
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 99.18
Mean single sequence MFE -20.84
Consensus MFE -20.64
Energy contribution -20.84
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.35
Structure conservation index 0.99
SVM decision value 0.58
SVM RNA-class probability 0.787795
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5109404 97 + 23771897
CUACAUUGUGGCAUUCAUGCUGUUCGCCUACUACCUGCUCACCACCUAGCCACAAUCGCCGUGCGAGGAGUCAUCUCAUUAGCAGUACUACCUCCAC
....((((((((.....((.((...((.........)).)).))....))))))))....(((.(((((((...(((....).)).))).))))))) ( -19.00)
>DroSec_CAF1 3662 97 + 1
CUACAUUGUGGCUUUCAUGCUGUUCGCCUACUACCUGCUCACCACCUAGCCACAAUCGCCGUGCGAGGAGUCAUCUCAUUAGCAGUACUACCUCCAC
....(((((((((....((.((...((.........)).)).))...)))))))))....(((.(((((((...(((....).)).))).))))))) ( -21.30)
>DroSim_CAF1 3682 97 + 1
CUACAUUGUGGCUUUCAUGCUGUUCGCCUACUACCUGCUCACCACCUAGCCACAAUCGCCGUGCGAGGAGUCAUCUCAUUAGCAGUACUACCUCCAC
....(((((((((....((.((...((.........)).)).))...)))))))))....(((.(((((((...(((....).)).))).))))))) ( -21.30)
>DroEre_CAF1 18814 97 + 1
CUACAUUGUGGCUUUCAUGCUGUUCGCCUACUACCUGCUCACCACCUAGCCACAAUCGCCGUGCGAGGAGUCAUCUCAUAAGCAGUACUACCUCCAC
....(((((((((....((.((...((.........)).)).))...)))))))))....(((.(((((((...(((....).)).))).))))))) ( -21.30)
>DroYak_CAF1 3790 97 + 1
CUACAUUGUGGCUUUCAUGCUGUUCGCCUACUACCUGCUCACCACCUAGCCACAAUCGCCGUGCGAGGAGUCAUCUCAUUAGCAGUACUACCUCCAC
....(((((((((....((.((...((.........)).)).))...)))))))))....(((.(((((((...(((....).)).))).))))))) ( -21.30)
>consensus
CUACAUUGUGGCUUUCAUGCUGUUCGCCUACUACCUGCUCACCACCUAGCCACAAUCGCCGUGCGAGGAGUCAUCUCAUUAGCAGUACUACCUCCAC
....(((((((((....((.((...((.........)).)).))...)))))))))....(((.(((((((...(((....).)).))).))))))) (-20.64 = -20.84 +   0.20)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,109,404 – 5,109,501
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 99.18
Mean single sequence MFE -30.16
Consensus MFE -29.72
Energy contribution -29.92
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.45
Structure conservation index 0.99
SVM decision value 0.90
SVM RNA-class probability 0.878318
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5109404 97 - 23771897
GUGGAGGUAGUACUGCUAAUGAGAUGACUCCUCGCACGGCGAUUGUGGCUAGGUGGUGAGCAGGUAGUAGGCGAACAGCAUGAAUGCCACAAUGUAG
(((((((.(((....((....))...))))))).))).((.((((((((...(((.((.((.........))...)).)))....)))))))))).. ( -29.30)
>DroSec_CAF1 3662 97 - 1
GUGGAGGUAGUACUGCUAAUGAGAUGACUCCUCGCACGGCGAUUGUGGCUAGGUGGUGAGCAGGUAGUAGGCGAACAGCAUGAAAGCCACAAUGUAG
(((((((.(((....((....))...))))))).))).((.(((((((((..(((.((.((.........))...)).)))...))))))))))).. ( -30.40)
>DroSim_CAF1 3682 97 - 1
GUGGAGGUAGUACUGCUAAUGAGAUGACUCCUCGCACGGCGAUUGUGGCUAGGUGGUGAGCAGGUAGUAGGCGAACAGCAUGAAAGCCACAAUGUAG
(((((((.(((....((....))...))))))).))).((.(((((((((..(((.((.((.........))...)).)))...))))))))))).. ( -30.40)
>DroEre_CAF1 18814 97 - 1
GUGGAGGUAGUACUGCUUAUGAGAUGACUCCUCGCACGGCGAUUGUGGCUAGGUGGUGAGCAGGUAGUAGGCGAACAGCAUGAAAGCCACAAUGUAG
(((((((.(((....((....))...))))))).))).((.(((((((((..(((.((.((.........))...)).)))...))))))))))).. ( -30.30)
>DroYak_CAF1 3790 97 - 1
GUGGAGGUAGUACUGCUAAUGAGAUGACUCCUCGCACGGCGAUUGUGGCUAGGUGGUGAGCAGGUAGUAGGCGAACAGCAUGAAAGCCACAAUGUAG
(((((((.(((....((....))...))))))).))).((.(((((((((..(((.((.((.........))...)).)))...))))))))))).. ( -30.40)
>consensus
GUGGAGGUAGUACUGCUAAUGAGAUGACUCCUCGCACGGCGAUUGUGGCUAGGUGGUGAGCAGGUAGUAGGCGAACAGCAUGAAAGCCACAAUGUAG
(((((((.(((....((....))...))))))).))).((.(((((((((..(((.((.((.........))...)).)))...))))))))))).. (-29.72 = -29.92 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:43 2006