Locus 1194

Sequence ID 2R_DroMel_CAF1
Location 4,732,472 – 4,732,562
Length 90
Max. P 0.971814
window2083

overview

Window 3

Location 4,732,472 – 4,732,562
Length 90
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 70.83
Mean single sequence MFE -33.40
Consensus MFE -18.38
Energy contribution -20.95
Covariance contribution 2.57
Combinations/Pair 1.24
Mean z-score -2.01
Structure conservation index 0.55
SVM decision value 1.68
SVM RNA-class probability 0.971814
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4732472 90 + 20766785
AGUGGUGCUGGUGGU---------GCCACAAGCUGCAGUGGCUUCGG---------UGGCACCGGUGGUGUGGUAACUGCACACAUUUUAGCGUUGAAUACGUUAACC
...(((((((.(((.---------(((((........))))).))).---------)))))))(((.(((((.......)))))....((((((.....))))))))) ( -35.80)
>DroPse_CAF1 14488 71 + 1
-------AUGAUGAU---------ACUGCAUGGUG--------GUGG---------UGAC--UACUGGUG-AGUGGCUGC-CACACAUUAACGUUGAAUGCAUUAACC
-------.(((((..---------...((.(((((--------((((---------(..(--((((....-)))))..))-))).)))))..))......)))))... ( -20.40)
>DroSec_CAF1 12325 90 + 1
AGUGGUGCUGGUGGU---------GCCACAGGCUGCAGUGGCUUCGG---------UGGCACCGGUGGUGUGGUAGCUGCACACAUUUUAGCGUUGAAUACGUUAACC
...(((((((.(((.---------(((((........))))).))).---------)))))))(((.(((((.......)))))....((((((.....))))))))) ( -35.80)
>DroSim_CAF1 14180 90 + 1
AGUGGUGCUGGUGGU---------GCCACAGGCUGCAGUGGCUUCGG---------UGGCACCGGUGGUGUGGUAACUGCACACAUUUUAGCGUUGAAUACGUUAACC
...(((((((.(((.---------(((((........))))).))).---------)))))))(((.(((((.......)))))....((((((.....))))))))) ( -35.80)
>DroEre_CAF1 11936 75 + 1
AGAGGUGCUGGUGGU---------GCCACGGGCUUCAGUGGCUUCAG---------UGGCUCCGGUGGUGUGGGAACUGCACACAUUUUAGCG---------------
...((.((((.(((.---------(((((........))))).))).---------)))).))(((((((..(...)..))).))))......--------------- ( -27.60)
>DroYak_CAF1 12771 108 + 1
AGAGGUGCUGGUGGUGGUGGUGGCGCCACAGGCUUCAGUGGCUUCAGUGGCAUCAGUGGCACCGGUGGUGUGGUAACUGCACACAUUUUAACGUUGAAAGCGUUAACC
...(((((((.(((((.((.(((.(((((........))))).))).)).))))).)))))))(((.(((((.......)))))....((((((.....))))))))) ( -45.00)
>consensus
AGUGGUGCUGGUGGU_________GCCACAGGCUGCAGUGGCUUCGG_________UGGCACCGGUGGUGUGGUAACUGCACACAUUUUAGCGUUGAAUACGUUAACC
...((((((.((((((.......))))))(((((.....))))).............))))))....(((((.......)))))...(((((((.....))))))).. (-18.38 = -20.95 +   2.57)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:43 2006