Locus 6261

Sequence ID X_DroMel_CAF1
Location 15,927,424 – 15,927,539
Length 115
Max. P 0.999176
window10203 window10204

overview

Window 3

Location 15,927,424 – 15,927,539
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.42
Mean single sequence MFE -31.00
Consensus MFE -24.72
Energy contribution -26.16
Covariance contribution 1.44
Combinations/Pair 1.07
Mean z-score -4.92
Structure conservation index 0.80
SVM decision value 3.42
SVM RNA-class probability 0.999176
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15927424 115 + 22224390
CAAAGACAUCGCUCACAUUUAACUUAAGUGGGAUUUACAUUUAAUUUUGAUUUUAAUCCUCAUAAGUCCUCAUAAGCUUUUUAGUAUUAAU-----UCCAUUUUAGUUAAAUGUGGGCGA
........((((((((((((((((.(((((((((((((..........(((....))).....((((........))))....)))..)))-----))))))).)))))))))))))))) ( -34.60)
>DroSec_CAF1 25992 112 + 1
CAAAGACAUCGCUCACAUUUAACUUAAGUGGCGUUUACAUUUAAUUUUGAUUUGAAUCCUCAUAAGUCCUCAUAAGCUUUUUAGUAUA--A-----UCCAUUU-AGUUAAAUGUGAGCGA
........((((((((((((((((.((((((....(((((((((.......))))))......((((........))))....)))..--.-----.))))))-)))))))))))))))) ( -32.80)
>DroSim_CAF1 11164 115 + 1
CAAAGACAUCGCUCACAUUUAACUUAAGUGGCGUUUACAUUUAAUUUUGAUUUGAAUCCUCAUAAGUCCUCAUAAGCUUUUUAGUAUUAAU-----UCCAUUUCAGUUAAAUGUGGGCGA
........((((((((((((((((.((((((.((((((((((((.......))))))......((((........))))....)))..)))-----.)))))).)))))))))))))))) ( -32.40)
>DroEre_CAF1 19394 116 + 1
CAAAGACAUCGCUCACAUUUAACUUAAGUGGCAUUUACAUUUAAUUUCGAUUUUAAU----AUGAGUCCUUAUACUCAUUUUCAUUUUAAUAUUAAUCCAUUUCAGUUAAAUGUGGGCGA
........((((((((((((((((.((((((.(((.....((((..(.((.......----((((((......))))))..)))..))))....))))))))).)))))))))))))))) ( -34.50)
>DroYak_CAF1 10371 106 + 1
CAAAGACAUCGCUCACAUUUAACUUAAGUGGCAUUUACAUUUAAGUUCAAUUUCAAU----AUGAGUCCUCAUCUGCUUUUUAGUUCUAAU-----UCCAUUUUAGUUAAAUGUG-----
.............(((((((((((.((((((.(((.((....((((...........----((((....))))..))))....))...)))-----.)))))).)))))))))))----- ( -20.72)
>consensus
CAAAGACAUCGCUCACAUUUAACUUAAGUGGCAUUUACAUUUAAUUUUGAUUUGAAUCCUCAUAAGUCCUCAUAAGCUUUUUAGUAUUAAU_____UCCAUUUCAGUUAAAUGUGGGCGA
........((((((((((((((((.((((((.................(((((..........))))).......(((....)))............)))))).)))))))))))))))) (-24.72 = -26.16 +   1.44)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,927,424 – 15,927,539
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.42
Mean single sequence MFE -27.94
Consensus MFE -19.42
Energy contribution -21.02
Covariance contribution 1.60
Combinations/Pair 1.10
Mean z-score -3.51
Structure conservation index 0.70
SVM decision value 2.23
SVM RNA-class probability 0.990734
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15927424 115 - 22224390
UCGCCCACAUUUAACUAAAAUGGA-----AUUAAUACUAAAAAGCUUAUGAGGACUUAUGAGGAUUAAAAUCAAAAUUAAAUGUAAAUCCCACUUAAGUUAAAUGUGAGCGAUGUCUUUG
((((.(((((((((((.((.(((.-----(((.(((........(((((((....)))))))(((....))).........))).))).))).)).))))))))))).))))........ ( -28.80)
>DroSec_CAF1 25992 112 - 1
UCGCUCACAUUUAACU-AAAUGGA-----U--UAUACUAAAAAGCUUAUGAGGACUUAUGAGGAUUCAAAUCAAAAUUAAAUGUAAACGCCACUUAAGUUAAAUGUGAGCGAUGUCUUUG
((((((((((((((((-((.(((.-----.--..(((.......(((((((....)))))))(((....)))..........)))....))).)).))))))))))))))))........ ( -33.70)
>DroSim_CAF1 11164 115 - 1
UCGCCCACAUUUAACUGAAAUGGA-----AUUAAUACUAAAAAGCUUAUGAGGACUUAUGAGGAUUCAAAUCAAAAUUAAAUGUAAACGCCACUUAAGUUAAAUGUGAGCGAUGUCUUUG
((((.(((((((((((.((.(((.-----.....(((.......(((((((....)))))))(((....)))..........)))....))).)).))))))))))).))))........ ( -28.50)
>DroEre_CAF1 19394 116 - 1
UCGCCCACAUUUAACUGAAAUGGAUUAAUAUUAAAAUGAAAAUGAGUAUAAGGACUCAU----AUUAAAAUCGAAAUUAAAUGUAAAUGCCACUUAAGUUAAAUGUGAGCGAUGUCUUUG
((((.(((((((((((.((.((((((.(((((.........((((((......))))))----..(((........)))))))).))).))).)).))))))))))).))))........ ( -28.90)
>DroYak_CAF1 10371 106 - 1
-----CACAUUUAACUAAAAUGGA-----AUUAGAACUAAAAAGCAGAUGAGGACUCAU----AUUGAAAUUGAACUUAAAUGUAAAUGCCACUUAAGUUAAAUGUGAGCGAUGUCUUUG
-----(((((((((((.((.(((.-----.(((....)))...(((..((((...(((.----........))).))))..))).....))).)).)))))))))))............. ( -19.80)
>consensus
UCGCCCACAUUUAACUAAAAUGGA_____AUUAAUACUAAAAAGCUUAUGAGGACUUAUGAGGAUUAAAAUCAAAAUUAAAUGUAAAUGCCACUUAAGUUAAAUGUGAGCGAUGUCUUUG
((((.(((((((((((.((.(((.............((....))(((((((....)))))))...........................))).)).))))))))))).))))........ (-19.42 = -21.02 +   1.60)

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 12:08:48 2006