Locus 4905

Sequence ID X_DroMel_CAF1
Location 12,761,859 – 12,761,971
Length 112
Max. P 0.922129
window8001 window8002

overview

Window 1

Location 12,761,859 – 12,761,971
Length 112
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 85.93
Mean single sequence MFE -31.90
Consensus MFE -22.11
Energy contribution -23.36
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.69
SVM decision value 0.46
SVM RNA-class probability 0.743534
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12761859 112 + 22224390
GUUGUGUUGCACCUCCCCCUUUUCCCGUUUUCCCU-AACGAAAGUGUUGCAUAACUUGGCAGCUUGGGAAACUGGGAAAUGCAAAUCGAUUGGUUUUGGUUCUGGUCCUGUUU
......(((((.........(((((((.((((((.-.((....))(((((........)))))..)))))).))))))))))))...(((..(........)..)))...... ( -33.30)
>DroSec_CAF1 16855 112 + 1
GUGGUAUUGCACCUCCCCCUUUUCCCGUUUUCCCA-AACGAAAGUGUUGCAUAACUUGGGAACUUGGGAAACUGGGAAAUGCAAAUCGAUUGGUUCUGGCUCUGGUCCUGUUU
..(((.(((((..((((...(((((((..((((((-(((....))(((....))))))))))..)))))))..))))..))))))))(((..(........)..)))...... ( -38.80)
>DroEre_CAF1 18039 98 + 1
GUUGCACUGGACCUCCCCCUUUUCCCGUUUUCCCU-AACGAAAGUGUUGCAUAACUU--------GGGAAACGGGGAAAUGCAAAUCGAUUGGUU------CUGGUCCUGUUU
.....((.(((((......((((((((((((((..-.((....))(((....)))..--------))))))))))))))........((.....)------).))))).)).. ( -30.20)
>DroYak_CAF1 19411 99 + 1
GUUGUAUUGGACCUCCCCCUUUUCCCGUUUUCCCUUUACGAAAGUGUUGCAUAACUU--------GGGUAACAGGGAAAUGCAAAUCGAUUGGUU------CUGGUCCUGUUU
........(((((....((..((...(((((((((((((..((((........))))--------..)))).))))))).)).....))..))..------..)))))..... ( -25.30)
>consensus
GUUGUAUUGCACCUCCCCCUUUUCCCGUUUUCCCU_AACGAAAGUGUUGCAUAACUU________GGGAAACUGGGAAAUGCAAAUCGAUUGGUU______CUGGUCCUGUUU
........(((((.......(((((((.((((((.......((((........))))........)))))).)))))))..(((.....)))...........)))))..... (-22.11 = -23.36 +   1.25)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 12,761,859 – 12,761,971
Length 112
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 85.93
Mean single sequence MFE -30.52
Consensus MFE -22.06
Energy contribution -22.62
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.36
Structure conservation index 0.72
SVM decision value 1.15
SVM RNA-class probability 0.922129
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12761859 112 - 22224390
AAACAGGACCAGAACCAAAACCAAUCGAUUUGCAUUUCCCAGUUUCCCAAGCUGCCAAGUUAUGCAACACUUUCGUU-AGGGAAAACGGGAAAAGGGGGAGGUGCAACACAAC
.....((.......)).............(((((((((((..((((((.((((....)))).........((((...-...))))..))))))...)))))))))))...... ( -30.30)
>DroSec_CAF1 16855 112 - 1
AAACAGGACCAGAGCCAGAACCAAUCGAUUUGCAUUUCCCAGUUUCCCAAGUUCCCAAGUUAUGCAACACUUUCGUU-UGGGAAAACGGGAAAAGGGGGAGGUGCAAUACCAC
.....((..........((.....))...(((((((((((..((((((...((((((((..(..........)..))-))))))...))))))...)))))))))))..)).. ( -37.00)
>DroEre_CAF1 18039 98 - 1
AAACAGGACCAG------AACCAAUCGAUUUGCAUUUCCCCGUUUCCC--------AAGUUAUGCAACACUUUCGUU-AGGGAAAACGGGAAAAGGGGGAGGUCCAGUGCAAC
.....(((((..------...(((.....)))...((((((.((((((--------..(((....)))..((((...-...))))..)))))).)))))))))))........ ( -30.40)
>DroYak_CAF1 19411 99 - 1
AAACAGGACCAG------AACCAAUCGAUUUGCAUUUCCCUGUUACCC--------AAGUUAUGCAACACUUUCGUAAAGGGAAAACGGGAAAAGGGGGAGGUCCAAUACAAC
.....(((((..------...(((.....)))..(..((((.((.(((--------..(((....)))..(..(.....)..)....))))).))))..))))))........ ( -24.40)
>consensus
AAACAGGACCAG______AACCAAUCGAUUUGCAUUUCCCAGUUUCCC________AAGUUAUGCAACACUUUCGUU_AGGGAAAACGGGAAAAGGGGGAGGUCCAAUACAAC
.............................(((((((((((..((((((..........(((....)))..((((......))))...))))))...)))))))))))...... (-22.06 = -22.62 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:45 2006