Locus 998

Sequence ID 3L_DroMel_CAF1
Location 2,974,520 – 2,974,612
Length 92
Max. P 0.853369
window1544 window1545

overview

Window 4

Location 2,974,520 – 2,974,612
Length 92
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 84.98
Mean single sequence MFE -28.06
Consensus MFE -22.24
Energy contribution -22.77
Covariance contribution 0.53
Combinations/Pair 1.16
Mean z-score -2.64
Structure conservation index 0.79
SVM decision value 0.80
SVM RNA-class probability 0.853369
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2974520 92 + 23771897
CUGGAAUUAUAGCCACAAAGAUCCGCUUGCCCAGUGCAAACAAAAGGCCAGCAAAUGUCAUAUUUUACGGCCACAUUUGCUGGCCUUGGUCC-----
.(((........)))....((((.(.((((.....)))).)..(((((((((((((((..............))))))))))))))))))).----- ( -29.84)
>DroSec_CAF1 8773 92 + 1
CUGGAAUUAUAGCCACAAAGAUCCGCUGGCCCAGUGCAAACAAAAGGCCAGCAAUUGUCAUAUUUUACGGCCACUUUUGCUGGCCUUGGUCC-----
.(((........)))....((((.(((((((...((....))...)))))))................((((((....).)))))..)))).----- ( -27.70)
>DroSim_CAF1 8732 92 + 1
CUGGAAUUAUAGCCACAAAGAUCCGCUGGCCCAGUGCAAACAAAAGGCCAGCAAAUGUCAUAUUUUACGGCCACUUUUGCUGGCCUUGGUCC-----
.(((........)))....((((.(((((((...((....))...)))))))................((((((....).)))))..)))).----- ( -27.70)
>DroEre_CAF1 11053 92 + 1
CUGGAAUUAUAGCCACACAGAUCCGUUGGCCCAGUGCAAACCAAAGGCCAGCAAAUGUCAUAUUUUACGGCCACUUUUGCUGGCCUUGGUAA-----
((((.......((((.((......)))))))))).....(((((.((((((((((.(((.........)))....)))))))))))))))..----- ( -32.31)
>DroYak_CAF1 8924 92 + 1
CUGGAAUUAUAGCCACAAAGAUCCGCUGGCCCAGUGCAAACAAAAGGCCAGCAAAUGUCAUAUUUUACGGCCACUUUUGCUGGCCUUGGUAA-----
...........((((.........(((((((...((....))...)))))))................((((((....).))))).))))..----- ( -28.00)
>DroAna_CAF1 8199 82 + 1
---------------CCGAUAUACGUUGGCUUAAUGCAAACAAAAGGCUAGCAAAUAUCAUAUUUUAUGGCCACUUUCGUUGGCCUUGGUCGGUUGG
---------------(((((....((((((((..((....))..))))))))................(((((.......)))))...))))).... ( -22.80)
>consensus
CUGGAAUUAUAGCCACAAAGAUCCGCUGGCCCAGUGCAAACAAAAGGCCAGCAAAUGUCAUAUUUUACGGCCACUUUUGCUGGCCUUGGUCC_____
...........((((.........(((((((...((....))...)))))))................((((((....).))))).))))....... (-22.24 = -22.77 +   0.53) 

alignment

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secondary structure

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dotplot

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Window 5

Location 2,974,520 – 2,974,612
Length 92
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 84.98
Mean single sequence MFE -30.96
Consensus MFE -23.50
Energy contribution -25.20
Covariance contribution 1.70
Combinations/Pair 1.04
Mean z-score -2.76
Structure conservation index 0.76
SVM decision value 0.60
SVM RNA-class probability 0.797004
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2974520 92 - 23771897
-----GGACCAAGGCCAGCAAAUGUGGCCGUAAAAUAUGACAUUUGCUGGCCUUUUGUUUGCACUGGGCAAGCGGAUCUUUGUGGCUAUAAUUCCAG
-----((((((((((((((((((((...((((...))))))))))))))))))(((((((((.....)))))))))......))).......))).. ( -35.51)
>DroSec_CAF1 8773 92 - 1
-----GGACCAAGGCCAGCAAAAGUGGCCGUAAAAUAUGACAAUUGCUGGCCUUUUGUUUGCACUGGGCCAGCGGAUCUUUGUGGCUAUAAUUCCAG
-----(((....(((((...((((...((((........))....((((((((..((....))..))))))))))..)))).))))).....))).. ( -32.80)
>DroSim_CAF1 8732 92 - 1
-----GGACCAAGGCCAGCAAAAGUGGCCGUAAAAUAUGACAUUUGCUGGCCUUUUGUUUGCACUGGGCCAGCGGAUCUUUGUGGCUAUAAUUCCAG
-----(((....(((((.......)))))((...(((....((((((((((((..((....))..))))))))))))...))).))......))).. ( -33.50)
>DroEre_CAF1 11053 92 - 1
-----UUACCAAGGCCAGCAAAAGUGGCCGUAAAAUAUGACAUUUGCUGGCCUUUGGUUUGCACUGGGCCAACGGAUCUGUGUGGCUAUAAUUCCAG
-----..((((((((((((((..(((..((((...)))).)))))))))))).))))).....(((((((((((....))).)))).......)))) ( -32.61)
>DroYak_CAF1 8924 92 - 1
-----UUACCAAGGCCAGCAAAAGUGGCCGUAAAAUAUGACAUUUGCUGGCCUUUUGUUUGCACUGGGCCAGCGGAUCUUUGUGGCUAUAAUUCCAG
-----...(((.(((((.......)))))............((((((((((((..((....))..)))))))))))).....)))............ ( -31.50)
>DroAna_CAF1 8199 82 - 1
CCAACCGACCAAGGCCAACGAAAGUGGCCAUAAAAUAUGAUAUUUGCUAGCCUUUUGUUUGCAUUAAGCCAACGUAUAUCGG---------------
....((((....(((((.(....)))))).....(((((.....(((.(((.....))).))).........))))).))))--------------- ( -19.84)
>consensus
_____GGACCAAGGCCAGCAAAAGUGGCCGUAAAAUAUGACAUUUGCUGGCCUUUUGUUUGCACUGGGCCAGCGGAUCUUUGUGGCUAUAAUUCCAG
........(((.(((((.(....))))))............((((((((((((..((....))..)))))))))))).....)))............ (-23.50 = -25.20 +   1.70) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:31 2006