Locus 1538

Sequence ID X_DroMel_CAF1
Location 4,448,984 – 4,449,104
Length 120
Max. P 0.789700
window2516 window2517

overview

Window 6

Location 4,448,984 – 4,449,104
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.32
Mean single sequence MFE -33.82
Consensus MFE -34.94
Energy contribution -34.46
Covariance contribution -0.48
Combinations/Pair 1.06
Mean z-score -1.23
Structure conservation index 1.03
SVM decision value 0.58
SVM RNA-class probability 0.789700
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4448984 120 + 22224390
CUGGCUGCAAUUUCCAGUUAAUUGCAUUUUGUUGCCGACAACGCUAGUUGUAAAAUAUUUGUGUAUAGAUUUGGGUUUCUUCGUGAAGAGGCGCCAGAUUAUGGGCCCCCAUAAGGAAGA
(((((........((((.....(((((..((((....(((((....)))))..))))...))))).....))))(((((((....)))))))))))).((((((....))))))...... ( -36.50)
>DroSec_CAF1 50529 119 + 1
CUGGCUGCAAUUUCCAGUUAAUUGCAUUUUGUUGCCGACGACGCUAGUUGUAAAAUAUUUGUGUAUAGAUUUGGGUUUCUUCGUGAAGAGGCGCCAGAUUAUGGGCC-CCAUAAGGAAGA
(((((........((((.....(((((..((((....(((((....)))))..))))...))))).....))))(((((((....)))))))))))).((((((...-))))))...... ( -33.20)
>DroSim_CAF1 51812 119 + 1
CUGGCUGCAAUUUCCAGUUAAUUGCAUUUUGUUGCCGACAACGCUAGUUGUAAAAUAUUUGUGUAUAGAUUUGGGUUUCUUCGUGAAGAGGCGCCAGAUUAUGGGCC-CCAUAAGGAAGA
(((((........((((.....(((((..((((....(((((....)))))..))))...))))).....))))(((((((....)))))))))))).((((((...-))))))...... ( -33.50)
>DroEre_CAF1 52391 119 + 1
CUGGCUGCAAUUUCCAGUUAAUUGCAUUUUGUUACCGGCGACGCUAGUUGUAAAAUAUUUGUGUAUAGAUUUGGGUUUCUUCGUGAAGAGGCGCCAGAUUAUGGGCC-CCAUAAGGAAGA
(((((........((((.....(((((..((((....(((((....)))))..))))...))))).....))))(((((((....)))))))))))).((((((...-))))))...... ( -32.40)
>DroYak_CAF1 51132 119 + 1
CUGGCUGCAAUUUCCAGUUAAUUGCAUUUUGUUGCCGGCGACGCUAGUUGUAAAAUAUUUGUGUAUAGAUUUGGGUUUCUUCGUGAAGAGGCGCCAGAUUAUGGGCC-CCAUAAGGAAGA
(((((........((((.....(((((..((((....(((((....)))))..))))...))))).....))))(((((((....)))))))))))).((((((...-))))))...... ( -33.50)
>consensus
CUGGCUGCAAUUUCCAGUUAAUUGCAUUUUGUUGCCGACGACGCUAGUUGUAAAAUAUUUGUGUAUAGAUUUGGGUUUCUUCGUGAAGAGGCGCCAGAUUAUGGGCC_CCAUAAGGAAGA
(((((........((((.....(((((..((((....(((((....)))))..))))...))))).....))))(((((((....)))))))))))).((((((....))))))...... (-34.94 = -34.46 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 7

Location 4,448,984 – 4,449,104
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.32
Mean single sequence MFE -26.55
Consensus MFE -22.48
Energy contribution -22.32
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.73
Structure conservation index 0.85
SVM decision value 0.43
SVM RNA-class probability 0.734445
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4448984 120 - 22224390
UCUUCCUUAUGGGGGCCCAUAAUCUGGCGCCUCUUCACGAAGAAACCCAAAUCUAUACACAAAUAUUUUACAACUAGCGUUGUCGGCAACAAAAUGCAAUUAACUGGAAAUUGCAGCCAG
......((((((....)))))).((((((((((((....))))..........................(((((....))))).))).......(((((((.......)))))))))))) ( -30.20)
>DroSec_CAF1 50529 119 - 1
UCUUCCUUAUGG-GGCCCAUAAUCUGGCGCCUCUUCACGAAGAAACCCAAAUCUAUACACAAAUAUUUUACAACUAGCGUCGUCGGCAACAAAAUGCAAUUAACUGGAAAUUGCAGCCAG
(((((.....((-((((((.....))).))))).....)))))..............................((.((......(....)....(((((((.......))))))))).)) ( -25.40)
>DroSim_CAF1 51812 119 - 1
UCUUCCUUAUGG-GGCCCAUAAUCUGGCGCCUCUUCACGAAGAAACCCAAAUCUAUACACAAAUAUUUUACAACUAGCGUUGUCGGCAACAAAAUGCAAUUAACUGGAAAUUGCAGCCAG
(((((.....((-((((((.....))).))))).....)))))..........................(((((....))))).(((.......(((((((.......)))))))))).. ( -27.91)
>DroEre_CAF1 52391 119 - 1
UCUUCCUUAUGG-GGCCCAUAAUCUGGCGCCUCUUCACGAAGAAACCCAAAUCUAUACACAAAUAUUUUACAACUAGCGUCGCCGGUAACAAAAUGCAAUUAACUGGAAAUUGCAGCCAG
(((((.....((-((((((.....))).))))).....))))).................................(((...(((((...............)))))....)))...... ( -23.86)
>DroYak_CAF1 51132 119 - 1
UCUUCCUUAUGG-GGCCCAUAAUCUGGCGCCUCUUCACGAAGAAACCCAAAUCUAUACACAAAUAUUUUACAACUAGCGUCGCCGGCAACAAAAUGCAAUUAACUGGAAAUUGCAGCCAG
(((((.....((-((((((.....))).))))).....)))))..............................((.((......(....)....(((((((.......))))))))).)) ( -25.40)
>consensus
UCUUCCUUAUGG_GGCCCAUAAUCUGGCGCCUCUUCACGAAGAAACCCAAAUCUAUACACAAAUAUUUUACAACUAGCGUCGUCGGCAACAAAAUGCAAUUAACUGGAAAUUGCAGCCAG
......((((((....)))))).((((((((((((....))))...........................(.((....)).)..))).......(((((((.......)))))))))))) (-22.48 = -22.32 +  -0.16)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:49 2006