Locus 8176

Sequence ID 3L_DroMel_CAF1
Location 21,519,822 – 21,519,928
Length 106
Max. P 0.994782
window13377 window13378

overview

Window 7

Location 21,519,822 – 21,519,928
Length 106
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.48
Mean single sequence MFE -41.35
Consensus MFE -40.21
Energy contribution -40.02
Covariance contribution -0.19
Combinations/Pair 1.03
Mean z-score -2.46
Structure conservation index 0.97
SVM decision value 2.51
SVM RNA-class probability 0.994782
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21519822 106 + 23771897
AGUCGCAGUGCGUAUGUACAGGUGCCCACGAGUCCGUACAUACGUAUCCGUAUCCGUCCAUGUACAGAAGCUGUAUGUGGAAUUGCGACGGAGGGAGGA--------------GGCUCAA
.((((((((((((((((((.((.((......))))))))))))))...........(((((((((((...))))))))))))))))))).....(((..--------------..))).. ( -42.50)
>DroSec_CAF1 25097 106 + 1
AGUCGCAGUGCGUAUGUACAGGUGCCCACGAGUCCGUACAUACGUAUCCGUAUCCGUCCAUGUACAGAAGCUGUAUGUGGAAUUGCGACGGAGGGAGGA--------------GGCUGAA
((((....(((((((((((.((.((......)))))))))))))))(((((.....(((((((((((...)))))))))))......))))).......--------------))))... ( -40.80)
>DroSim_CAF1 25232 106 + 1
AGUCGCAGUGCGUAUGUACAGGUGCCCACGAGUCCGUACAUACGUAUCCGUAUCCGUCCAUGUACAGAAGCUGUAUGUGGAAUUGCGACGGAGGGAGGA--------------GGCUGAA
((((....(((((((((((.((.((......)))))))))))))))(((((.....(((((((((((...)))))))))))......))))).......--------------))))... ( -40.80)
>DroYak_CAF1 125 120 + 1
AGUCGCAGUGCGUAUGUACAGGUGCCCACGAGUCCGUACAUACGUAUCCGUAUCCGUCCAUGUACAGAAGCUGUAUGUGGAAUUGUGACGGAGGGAGGAGGGAUGAGGGAUGAGGCAGAA
.(((.((.(((((((((((.((.((......)))))))))))))))(((((.....(((((((((((...)))))))))))......)))))..................)).))).... ( -41.30)
>consensus
AGUCGCAGUGCGUAUGUACAGGUGCCCACGAGUCCGUACAUACGUAUCCGUAUCCGUCCAUGUACAGAAGCUGUAUGUGGAAUUGCGACGGAGGGAGGA______________GGCUGAA
.((((((((((((((((((.((.((......))))))))))))))...........(((((((((((...)))))))))))))))))))............................... (-40.21 = -40.02 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,519,822 – 21,519,928
Length 106
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.48
Mean single sequence MFE -32.15
Consensus MFE -31.10
Energy contribution -31.35
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.97
SVM decision value 1.58
SVM RNA-class probability 0.965244
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21519822 106 - 23771897
UUGAGCC--------------UCCUCCCUCCGUCGCAAUUCCACAUACAGCUUCUGUACAUGGACGGAUACGGAUACGUAUGUACGGACUCGUGGGCACCUGUACAUACGCACUGCGACU
..(((..--------------..))).....((((((..((((..(((((...)))))..))))((....))....(((((((((((.((....))...)))))))))))...)))))). ( -33.20)
>DroSec_CAF1 25097 106 - 1
UUCAGCC--------------UCCUCCCUCCGUCGCAAUUCCACAUACAGCUUCUGUACAUGGACGGAUACGGAUACGUAUGUACGGACUCGUGGGCACCUGUACAUACGCACUGCGACU
.......--------------..........((((((..((((..(((((...)))))..))))((....))....(((((((((((.((....))...)))))))))))...)))))). ( -32.80)
>DroSim_CAF1 25232 106 - 1
UUCAGCC--------------UCCUCCCUCCGUCGCAAUUCCACAUACAGCUUCUGUACAUGGACGGAUACGGAUACGUAUGUACGGACUCGUGGGCACCUGUACAUACGCACUGCGACU
.......--------------..........((((((..((((..(((((...)))))..))))((....))....(((((((((((.((....))...)))))))))))...)))))). ( -32.80)
>DroYak_CAF1 125 120 - 1
UUCUGCCUCAUCCCUCAUCCCUCCUCCCUCCGUCACAAUUCCACAUACAGCUUCUGUACAUGGACGGAUACGGAUACGUAUGUACGGACUCGUGGGCACCUGUACAUACGCACUGCGACU
...(((......................(((((..(...((((..(((((...)))))..))))..)..)))))..(((((((((((.((....))...)))))))))))....)))... ( -29.80)
>consensus
UUCAGCC______________UCCUCCCUCCGUCGCAAUUCCACAUACAGCUUCUGUACAUGGACGGAUACGGAUACGUAUGUACGGACUCGUGGGCACCUGUACAUACGCACUGCGACU
...............................((((((..((((..(((((...)))))..))))((....))....(((((((((((.((....))...)))))))))))...)))))). (-31.10 = -31.35 +   0.25)

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 13:08:38 2006