Locus 4903

Sequence ID 3L_DroMel_CAF1
Location 13,648,113 – 13,648,228
Length 115
Max. P 0.957570
window7738 window7739

overview

Window 8

Location 13,648,113 – 13,648,228
Length 115
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 87.88
Mean single sequence MFE -40.23
Consensus MFE -29.01
Energy contribution -30.65
Covariance contribution 1.64
Combinations/Pair 1.06
Mean z-score -3.03
Structure conservation index 0.72
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13648113 115 + 23771897
GAAAAGUGUGCGGAAAAAUGCGCAUGUGUUGUAGCCAUGACAGUGAAUUCGCCGCAACUUGAAGGGAUUCUGUUGCGGCGAAUUGUUGUUAAGAGGAGUCUUUUCAUCAGAAUUU
((((((((((((......))))))..........((.((((((..(.(((((((((((..(((....))).))))))))))))..))))))...))...)))))).......... ( -40.80)
>DroSec_CAF1 55507 115 + 1
GAAAAGUGUGCGGAAAAAUGCGCAUGUGUUGUAGCCAUGGCAGUGAAUUCGCCGCAACUUGAAGGGAUUCUGUUGCGGCGAAUUGGUUUCAAGAGGAGUGUUUUCAUCCGAAUUU
...((((...((((..((.((((.(.(.(((.(((((.........((((((((((((..(((....))).))))))))))))))))).))).).).)))).))..)))).)))) ( -39.30)
>DroSim_CAF1 65650 115 + 1
GAAAAGUGUGCGGAAAAAUGCGCAUGUGUUGUAGCCAUGGCAGUGAAUUCGCCGCAACUUGAAGGGAUUCUGUUGCGGCGAAUUGGUUUCAAGAGGAGUGUUUUCAUUCGAAUUU
((((.(((((((......)))))))........((....))..(.(((((((((((((..(((....))).))))))))))))).))))).....(((((....)))))...... ( -40.00)
>DroEre_CAF1 58211 115 + 1
GAAAAGUGUGCGGAAAAAUGCGCAUGUGUUGUAGCCAUGGCACUGAAUUCGCCGCAGCUUGAAGGGAUUCUGCUGCGGCGAAUUGGUUUCAAGAGGAGUGUUUUCAUUCAAAUUU
((((.(((((((......)))))))((((..(....)..))))..(((((((((((((..(((....))).)))))))))))))..)))).....(((((....)))))...... ( -44.90)
>DroYak_CAF1 63351 115 + 1
GAAAAGCGUGCGGGAAAAUGCGCAUGUGUUGUAGCCAUGGCACUGAAUUCGCCGCAACUUGAAGGGAUUCUGUUGCGGCGAAUUGGCUUCAAGAGGAGUGUUUUCCCACGAAUUU
......((((.((((((.(((.((((.((....)))))))))...(((((((((((((..(((....))).))))))))))))).(((((....))))).))))))))))..... ( -46.00)
>DroAna_CAF1 92958 111 + 1
GCAAAGUGGUCUGGAAAACGCGCAUGUGUUGUAGCCAUGGCAGUCAAUUCGCCGCAACCU-AAGGGAUUCCUCCUAGGCGAAUUGGGCUCA---GGGGUAUUGACAUUGAAAUUU
((...((((.(((...(((((....))))).))))))).)).((((((.(.((....(((-((((((....)))).......)))))....---)).).)))))).......... ( -30.41)
>consensus
GAAAAGUGUGCGGAAAAAUGCGCAUGUGUUGUAGCCAUGGCAGUGAAUUCGCCGCAACUUGAAGGGAUUCUGUUGCGGCGAAUUGGUUUCAAGAGGAGUGUUUUCAUUCGAAUUU
((((((((((((......))))))).(((..(....)..)))...(((((((((((((..(((....))).)))))))))))))................))))).......... (-29.01 = -30.65 +   1.64)

alignment

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secondary structure

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dotplot

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Window 9

Location 13,648,113 – 13,648,228
Length 115
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 87.88
Mean single sequence MFE -31.63
Consensus MFE -25.30
Energy contribution -25.08
Covariance contribution -0.22
Combinations/Pair 1.21
Mean z-score -3.57
Structure conservation index 0.80
SVM decision value 1.48
SVM RNA-class probability 0.957570
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13648113 115 - 23771897
AAAUUCUGAUGAAAAGACUCCUCUUAACAACAAUUCGCCGCAACAGAAUCCCUUCAAGUUGCGGCGAAUUCACUGUCAUGGCUACAACACAUGCGCAUUUUUCCGCACACUUUUC
..........((((((...((.....(((..(((((((((((((.(((....)))..)))))))))))))...)))...))..........((((........))))..)))))) ( -29.60)
>DroSec_CAF1 55507 115 - 1
AAAUUCGGAUGAAAACACUCCUCUUGAAACCAAUUCGCCGCAACAGAAUCCCUUCAAGUUGCGGCGAAUUCACUGCCAUGGCUACAACACAUGCGCAUUUUUCCGCACACUUUUC
.....((((.(((..................(((((((((((((.(((....)))..)))))))))))))...(((((((.........)))).)))))).)))).......... ( -32.50)
>DroSim_CAF1 65650 115 - 1
AAAUUCGAAUGAAAACACUCCUCUUGAAACCAAUUCGCCGCAACAGAAUCCCUUCAAGUUGCGGCGAAUUCACUGCCAUGGCUACAACACAUGCGCAUUUUUCCGCACACUUUUC
..........(((((................(((((((((((((.(((....)))..)))))))))))))...(((((((.........)))).))).)))))............ ( -28.90)
>DroEre_CAF1 58211 115 - 1
AAAUUUGAAUGAAAACACUCCUCUUGAAACCAAUUCGCCGCAGCAGAAUCCCUUCAAGCUGCGGCGAAUUCAGUGCCAUGGCUACAACACAUGCGCAUUUUUCCGCACACUUUUC
.....((...(((((................(((((((((((((.(((....)))..)))))))))))))..((((((((.........)))).)))))))))..))........ ( -32.70)
>DroYak_CAF1 63351 115 - 1
AAAUUCGUGGGAAAACACUCCUCUUGAAGCCAAUUCGCCGCAACAGAAUCCCUUCAAGUUGCGGCGAAUUCAGUGCCAUGGCUACAACACAUGCGCAUUUUCCCGCACGCUUUUC
......((((((((.................(((((((((((((.(((....)))..)))))))))))))..((((((((.........)))).))))))))))))......... ( -41.10)
>DroAna_CAF1 92958 111 - 1
AAAUUUCAAUGUCAAUACCCC---UGAGCCCAAUUCGCCUAGGAGGAAUCCCUU-AGGUUGCGGCGAAUUGACUGCCAUGGCUACAACACAUGCGCGUUUUCCAGACCACUUUGC
..........(((........---......(((((((((...((((....))))-.......)))))))))...((((((.........)))).))........)))........ ( -25.00)
>consensus
AAAUUCGAAUGAAAACACUCCUCUUGAAACCAAUUCGCCGCAACAGAAUCCCUUCAAGUUGCGGCGAAUUCACUGCCAUGGCUACAACACAUGCGCAUUUUUCCGCACACUUUUC
..........(((((................(((((((((((((.(((....)))..)))))))))))))...(((((((.........)))).))).............))))) (-25.30 = -25.08 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:33 2006