Locus 3715

Sequence ID 3R_DroMel_CAF1
Location 10,090,193 – 10,090,349
Length 156
Max. P 0.986233
window5951 window5952

overview

Window 1

Location 10,090,193 – 10,090,311
Length 118
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 95.62
Mean single sequence MFE -27.80
Consensus MFE -26.58
Energy contribution -26.82
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.96
SVM decision value 0.78
SVM RNA-class probability 0.849954
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10090193 118 - 27905053
ACCAAUUUUCAUUGCAAAAACUAAUUGCUGCCCACAAUGGGGGCAGAAAAAACUCACCUGGAAUGAGAAUUGAAACACUUGUAGUUAACGGUUAUAUCGAUCUAUGUUUGGUCAAUCG
..(((((((((((.((...........((((((.......))))))............)).)))))))))))...((..(((((....((((...))))..)))))..))........ ( -27.90)
>DroSec_CAF1 148926 118 - 1
ACCAAUUUUCAUUGCAAAAAUUAAUUGCUGCCCACAAUAGGGGCAGAAAAAACUCACCUGGAAUGAGAAUUGAAACACUUGUAGUUAACGGUUAUAUCGAUCUAUGUUUGGUCAAUCG
..(((((((((((.((...........((((((.......))))))............)).)))))))))))...((..(((((....((((...))))..)))))..))........ ( -27.90)
>DroEre_CAF1 161207 118 - 1
CCCAAUUUUCAUUGCAUAAACUAAAAGCUGCCCACAAUGGGGGCAGAAAAAACUCACCUGGAAUGAGAAUUGAAACACGUGUAGUUAACGGUUAUAUCGAUCUAUGUUUGGUCAAUCG
..(((((((((((.((...........((((((.......))))))............)).))))))))))).(((.(((.......)))))).....((((.......))))..... ( -30.70)
>DroYak_CAF1 156150 118 - 1
UCCAAUUUUCAUUGCAAAAACUAAUAGCUGCCCACAAUAGAGGCAGAUAAAACUCACCUGGAAUGAGAAUUGAAACACUUGUAGUUAACGGUUAUAUCGAUCUAUGUUUGGUCAAUCG
..(((((((((((.((...........((((((......).)))))............)).)))))))))))...((..(((((....((((...))))..)))))..))........ ( -24.70)
>consensus
ACCAAUUUUCAUUGCAAAAACUAAUAGCUGCCCACAAUAGGGGCAGAAAAAACUCACCUGGAAUGAGAAUUGAAACACUUGUAGUUAACGGUUAUAUCGAUCUAUGUUUGGUCAAUCG
..(((((((((((.((...........((((((.......))))))............)).)))))))))))...((..(((((....((((...))))..)))))..))........ (-26.58 = -26.82 +   0.25)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,090,231 – 10,090,349
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.53
Mean single sequence MFE -28.75
Consensus MFE -25.30
Energy contribution -25.55
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.62
Structure conservation index 0.88
SVM decision value 2.03
SVM RNA-class probability 0.986233
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10090231 118 - 27905053
AAUCAAACAUGCUUGUA--UGUGCAAAGAUUAUAUUCUGUACCAAUUUUCAUUGCAAAAACUAAUUGCUGCCCACAAUGGGGGCAGAAAAAACUCACCUGGAAUGAGAAUUGAAACACUU
((((..(((((....))--))).....))))......(((..(((((((((((.((...........((((((.......))))))............)).)))))))))))..)))... ( -28.90)
>DroSec_CAF1 148964 120 - 1
AGUCAAACUGGCUUGUAAUUGUGCAAAGAUUAUUUUCUGUACCAAUUUUCAUUGCAAAAAUUAAUUGCUGCCCACAAUAGGGGCAGAAAAAACUCACCUGGAAUGAGAAUUGAAACACUU
((((.....))))(((....(((((.(((....))).)))))(((((((((((.((...........((((((.......))))))............)).)))))))))))..)))... ( -30.70)
>DroEre_CAF1 161245 120 - 1
AGUACAACAGGCUUGUAAUUGUGCAAAGAUUAUUUUCUGUCCCAAUUUUCAUUGCAUAAACUAAAAGCUGCCCACAAUGGGGGCAGAAAAAACUCACCUGGAAUGAGAAUUGAAACACGU
.((((((...........))))))..(((......)))((..(((((((((((.((...........((((((.......))))))............)).)))))))))))..)).... ( -30.00)
>DroYak_CAF1 156188 120 - 1
AGUCAAACAGGCCUGUAAUUGUGCAAAGAUUAUUUUCUGCUCCAAUUUUCAUUGCAAAAACUAAUAGCUGCCCACAAUAGAGGCAGAUAAAACUCACCUGGAAUGAGAAUUGAAACACUU
.......((((...((((((.......))))))..))))...(((((((((((.((...........((((((......).)))))............)).)))))))))))........ ( -25.40)
>consensus
AGUCAAACAGGCUUGUAAUUGUGCAAAGAUUAUUUUCUGUACCAAUUUUCAUUGCAAAAACUAAUAGCUGCCCACAAUAGGGGCAGAAAAAACUCACCUGGAAUGAGAAUUGAAACACUU
....................(((...(((......)))....(((((((((((.((...........((((((.......))))))............)).)))))))))))...))).. (-25.30 = -25.55 +   0.25)

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 11:08:12 2006