Locus 5266

Sequence ID 2R_DroMel_CAF1
Location 17,128,931 – 17,129,091
Length 160
Max. P 0.996902
window8414 window8415

overview

Window 4

Location 17,128,931 – 17,129,051
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.25
Mean single sequence MFE -42.08
Consensus MFE -37.34
Energy contribution -37.42
Covariance contribution 0.08
Combinations/Pair 1.09
Mean z-score -1.60
Structure conservation index 0.89
SVM decision value 1.43
SVM RNA-class probability 0.953583
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17128931 120 - 20766785
UAUCUUGCCAAACGAGAACUCUCGCGUGCUACUCGAAUCCGAGUCCAGCGAGCUGACUAGCUUGCUGGGGGAAAUAAAACGGACCAGCUCCGUGACCGCUAGCGAGGACUUGCCCUACAU
..(((((.....)))))..((((((..((.(((((....)))))((((((((((....))))))))))((........(((((.....)))))..))))..))))))............. ( -42.00)
>DroSec_CAF1 64822 120 - 1
UAUCUUGCCAAAUGAGAACUCUCGCGUUCUACUCGAAUCCGAGUCCAGCGAGCUGAUUAGCUUGCUGGGGGAAGUAAAACGGACCAGCUCCGUGACCGCCAGCGAGGACUUGCCCUACAU
..((((((.....(((....)))((((((((((((....)))))((((((((((....)))))))))).))))((...(((((.....))))).)))))..))))))............. ( -42.70)
>DroSim_CAF1 55667 120 - 1
UAUCUUGCCAAAUGAGAACUCUCGCGUUCUACUCGAAUCCGAGUCCAGCGAGCUGAUUAGCUUGCUGGGGGAAGUAAAACGGACCAGCUCCGUGACCGCCAGUGAGGACUUGCCCUACAU
..............(((((......)))))(((((....)))))((((((((((....))))))))))(((((((...(((((.....)))))..((........)))))).)))..... ( -40.70)
>DroEre_CAF1 70347 120 - 1
UAUCUUGCCCAACGAGAACUCUCGCGUGCUUCUCGAAUCCGAGUCCAGCGAGCUGACUAGCUUGCUGGGAGAAGUCAAACGGACCAGCUCCGUGACCGCCAGCGAGGAUUUGCCCUACAU
..((((((.....(((....)))(((.((((((((....)....((((((((((....)))))))))))))))))...(((((.....)))))...)))..))))))............. ( -42.70)
>DroYak_CAF1 72241 120 - 1
UAUCUUGCCCAACGAGAACUCUCGCGUGCUGCUCGAAUCCGAGUCCAGCGAGCUGACUCGCUUGCUGGGGGAAGUCAAACGAACCAGUUCCGUGACCGCCAGCGAGGACUUGCCCUACAU
..(((((.....)))))..((((((.....(((((....)))))(((((((((......))))))))).((..((((...(((....)))..))))..)).))))))............. ( -42.30)
>consensus
UAUCUUGCCAAACGAGAACUCUCGCGUGCUACUCGAAUCCGAGUCCAGCGAGCUGACUAGCUUGCUGGGGGAAGUAAAACGGACCAGCUCCGUGACCGCCAGCGAGGACUUGCCCUACAU
..(((((.....)))))..((((((......((((....))))((((((((((......))))))))))((..((...(((((.....))))).))..)).))))))............. (-37.34 = -37.42 +   0.08)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,128,971 – 17,129,091
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.25
Mean single sequence MFE -38.86
Consensus MFE -34.49
Energy contribution -34.57
Covariance contribution 0.08
Combinations/Pair 1.09
Mean z-score -2.09
Structure conservation index 0.89
SVM decision value 2.77
SVM RNA-class probability 0.996902
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17128971 120 - 20766785
CAAUGGUCUUCGGCUCGCAGACAAAAAAUCGCUACAAGACUAUCUUGCCAAACGAGAACUCUCGCGUGCUACUCGAAUCCGAGUCCAGCGAGCUGACUAGCUUGCUGGGGGAAAUAAAAC
......((((((((.(((................((((.....))))......(((....)))))).)))(((((....))))).(((((((((....))))))))))))))........ ( -37.60)
>DroSec_CAF1 64862 120 - 1
CCAUGGUCUUCGGCUCGCAGACAAAAAAUCGCUACAAGACUAUCUUGCCAAAUGAGAACUCUCGCGUUCUACUCGAAUCCGAGUCCAGCGAGCUGAUUAGCUUGCUGGGGGAAGUAAAAC
..((((((((.(((................)))..))))))))(((.((.....(((((......)))))(((((....)))))((((((((((....)))))))))))).)))...... ( -38.79)
>DroSim_CAF1 55707 120 - 1
CCAUGGUCUUCGGCUCGCAGACAAAAAAUCGCUACAAGACUAUCUUGCCAAAUGAGAACUCUCGCGUUCUACUCGAAUCCGAGUCCAGCGAGCUGAUUAGCUUGCUGGGGGAAGUAAAAC
..((((((((.(((................)))..))))))))(((.((.....(((((......)))))(((((....)))))((((((((((....)))))))))))).)))...... ( -38.79)
>DroEre_CAF1 70387 120 - 1
CUAUGGUUUUCGGCUCACAGACGAAAAAUCGCUACAAGACUAUCUUGCCCAACGAGAACUCUCGCGUGCUUCUCGAAUCCGAGUCCAGCGAGCUGACUAGCUUGCUGGGAGAAGUCAAAC
.....(((((((......((.(((....))))).((((.....)))).....)))))))((((........((((....)))).((((((((((....))))))))))))))........ ( -37.50)
>DroYak_CAF1 72281 120 - 1
CUAUGGUCUUCGGCUCGCAGACAAAAAAUCGCUACAAGACUAUCUUGCCCAACGAGAACUCUCGCGUGCUGCUCGAAUCCGAGUCCAGCGAGCUGACUCGCUUGCUGGGGGAAGUCAAAC
...(((.(((((((.(((................((((.....))))......(((....)))))).)))(((((....)))))(((((((((......)))))))))..)))))))... ( -41.60)
>consensus
CCAUGGUCUUCGGCUCGCAGACAAAAAAUCGCUACAAGACUAUCUUGCCAAACGAGAACUCUCGCGUGCUACUCGAAUCCGAGUCCAGCGAGCUGACUAGCUUGCUGGGGGAAGUAAAAC
..((((((((.(((................)))..))))))))(((.((...((((....))))......(((((....)))))(((((((((......))))))))))).)))...... (-34.49 = -34.57 +   0.08)

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 11:40:38 2006