Locus 893

Sequence ID 2R_DroMel_CAF1
Location 4,042,040 – 4,042,199
Length 159
Max. P 0.998714
window1559 window1560

overview

Window 9

Location 4,042,040 – 4,042,159
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.65
Mean single sequence MFE -36.98
Consensus MFE -29.30
Energy contribution -29.70
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.26
Structure conservation index 0.79
SVM decision value 1.25
SVM RNA-class probability 0.936157
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4042040 119 + 20766785
GGACAUCGGGCACCUCGUCUGAAUUUAAUAGACUUUCCACACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUAAGUAAGCUUG-GGGCAAA
.(...((((((.(((.(((((.......)))))(((((............)))))((((((((((((.....))))))))))))...)))..((((.....))))..)))))-)..)... ( -32.00)
>DroSec_CAF1 24730 120 + 1
GGACAUCGGCCACCUCGUCUGAAUUUAAUAGACUUUCUACACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUAAGUAAGCUGGGGGGCAAA
........(((.(((((.((..(((((((....((((((.........)))))).((((((((((((.....))))))))))))..............))))))).)).))))))))... ( -36.70)
>DroSim_CAF1 26889 120 + 1
GGACAUCGGCCACCUCGUCUGAAUUUAAUAGACUUUCCACACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUAAGUAAGCUGGGGGGCAAA
........(((.(((((.((..((((((((((.(.(((............(....)(((((((((((.....))))))))))).....))).).))).))))))).)).))))))))... ( -38.10)
>DroEre_CAF1 23982 119 + 1
GGACUUCGGCCACCUCGUCUGGCUUUAAGAGACCUUCCGCACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUAAGUAAGCUGG-GGGCCAA
.......((((.(((.(.((.(((((((((..((((..((..........(....)(((((((((((.....)))))))))))))..))))..)))))...)))).))).))-))))).. ( -44.60)
>DroYak_CAF1 27956 115 + 1
GGACAUCGGCCACCUCGUCUGACUUUAAUAGACUUUCCACACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUA----AGCUGG-GGGCAAA
........(((.....(((((.......)))))...((.((.(((((.(((((...(((((((((((.....)))))))))))((.....)).))))).)))----)).)))-))))... ( -33.50)
>consensus
GGACAUCGGCCACCUCGUCUGAAUUUAAUAGACUUUCCACACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUAAGUAAGCUGG_GGGCAAA
........(((.....(((((.......)))))........((((.....(....)(((((((((((.....)))))))))))..)))))))...............(((....)))... (-29.30 = -29.70 +   0.40)

alignment

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secondary structure

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dotplot

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Window 0

Location 4,042,080 – 4,042,199
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.65
Mean single sequence MFE -36.41
Consensus MFE -30.41
Energy contribution -31.61
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -2.96
Structure conservation index 0.84
SVM decision value 3.20
SVM RNA-class probability 0.998714
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4042080 119 + 20766785
ACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUAAGUAAGCUUG-GGGCAAAAAGAACACGGCCAAGGAGUUUGAAAUCGCCAAGAGAAUAC
.((((.....(....)(((((((((((.....)))))))))))..))))(((((((((((((((....))))-)(((............))).......))))))).))).......... ( -34.00)
>DroSec_CAF1 24770 120 + 1
ACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUAAGUAAGCUGGGGGGCAAAAAGAACCCGGCCAAGGAGUGUGAAAUCGGCAAGAGAAUAC
.((((.....(....)(((((((((((.....)))))))))))..))))(.(((((((.........((((((...(.....)..)))))).........)))))).).).......... ( -34.57)
>DroSim_CAF1 26929 120 + 1
ACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUAAGUAAGCUGGGGGGCAAAAAGAACCCGGCCAAGGAGUGUGAAAUCGCCAAGAGAAUAC
.((((.....(....)(((((((((((.....)))))))))))..))))(((((((((.........((((((...(.....)..)))))).........)))))).))).......... ( -39.17)
>DroEre_CAF1 24022 119 + 1
ACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUAAGUAAGCUGG-GGGCCAACCGAACCCGCACACGGAGUGUGAAAUCGCCAAGCGUAUAC
..........(....)(((((((((((.....)))))))))))((....((((((((((((..((..((.((-(..(.....)..)))))..))..))).)))))).)))..))...... ( -37.90)
>DroYak_CAF1 27996 115 + 1
ACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUA----AGCUGG-GGGCAAAAAGAGCCCGGACAAGGAGUGUGAAAUCGCCAAGAGAAUAC
.((((.....(....)(((((((((((.....)))))))))))..))))(((((((((.((.----..((((-(..(.....)..))))).....))...)))))).))).......... ( -36.40)
>consensus
ACUUUAAAUAGGAAACGCCUUCGCAUAAUUGCUGUGUGAAGGCGCAAAGGGCAUUUUAAUUAAGUAAGCUGG_GGGCAAAAAGAACCCGGCCAAGGAGUGUGAAAUCGCCAAGAGAAUAC
.((((.....(....)(((((((((((.....)))))))))))..))))(((((((((.........(((((.(..(.....)..)))))).........)))))).))).......... (-30.41 = -31.61 +   1.20)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:19 2006