Locus 999

Sequence ID X_DroMel_CAF1
Location 2,901,513 – 2,901,604
Length 91
Max. P 0.584332
window1617 window1618

overview

Window 7

Location 2,901,513 – 2,901,604
Length 91
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 86.63
Mean single sequence MFE -31.34
Consensus MFE -19.46
Energy contribution -20.50
Covariance contribution 1.04
Combinations/Pair 1.05
Mean z-score -2.17
Structure conservation index 0.62
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2901513 91 + 22224390
GUUGCUCUCGAUGUUGCUAGUUG-----------CCAGUUGAUAGUU--GCCGGUGUGCU-GUUGCUGCUGGCAGCGCAAAUCAAAGCGCAAUAUGUUGACUACA
((.(.((...(((((((..((((-----------(((((.((((((.--........)))-)))...)))))))))((........)))))))))...))).)). ( -29.50)
>DroSec_CAF1 288254 91 + 1
GUUGCUUUCGAUGUUGCUAGUUG-----------CCAGUUGAUAGUU--GCCGGUGUGCU-GUUGCUGCUGGCAGCGCAAAUCAAAGCGCAAUAUGUUGACUACA
((.(((((.(((.((((..((((-----------(((((.((((((.--........)))-)))...)))))))))))))))))))))))............... ( -29.50)
>DroEre_CAF1 311992 93 + 1
GUUGCUCUCGAUGUUGCUAGUUG-----------CCAGUUGAUAGUUGGGCUGGUGUGCU-GUUGCUGCUGGCAGCGCAAAUCAAAGCGCAAUAUGUUGACUACA
((.(.((...(((((((..((((-----------(((((.((((((...((....)))))-)))...)))))))))((........)))))))))...))).)). ( -29.80)
>DroYak_CAF1 296581 91 + 1
GUUGCUCUCCAUGUUGCUAGUUG-----------CCAGUUGAUAGUU--GCUGGUGUGCU-GUUGCUGCUGGCAGCGCAAAUCAAAGCGCAAUAUGUUGACUACA
((.(.((..((((((((..((((-----------(((((.((((((.--((....)))))-)))...)))))))))((........))))))))))..))).)). ( -33.90)
>DroAna_CAF1 455463 97 + 1
GUUGGU-----AGUUGCUAGUUGGUGGUAGAUGGCUAGUUGCUAGUUGGG---AAGAGCUGGUUGCUGCUGGCAGCGCAAAUCAAAGCGCAAUAUGUUGACUACA
....((-----((((....((..(..((((..((((..((.(.....).)---)..))))..))))..)..)).((((........))))........)))))). ( -34.00)
>consensus
GUUGCUCUCGAUGUUGCUAGUUG___________CCAGUUGAUAGUU__GCCGGUGUGCU_GUUGCUGCUGGCAGCGCAAAUCAAAGCGCAAUAUGUUGACUACA
....................................((((((((.....(((((((.((.....))))))))).((((........))))....))))))))... (-19.46 = -20.50 +   1.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 2,901,513 – 2,901,604
Length 91
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 86.63
Mean single sequence MFE -22.11
Consensus MFE -15.28
Energy contribution -16.84
Covariance contribution 1.56
Combinations/Pair 1.12
Mean z-score -1.81
Structure conservation index 0.69
SVM decision value 0.10
SVM RNA-class probability 0.584332
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2901513 91 - 22224390
UGUAGUCAACAUAUUGCGCUUUGAUUUGCGCUGCCAGCAGCAAC-AGCACACCGGC--AACUAUCAACUGG-----------CAACUAGCAACAUCGAGAGCAAC
.(((((......)))))((((((((((((..((((((..((...-.)).....(..--..)......))))-----------))....)))).))).)))))... ( -25.20)
>DroSec_CAF1 288254 91 - 1
UGUAGUCAACAUAUUGCGCUUUGAUUUGCGCUGCCAGCAGCAAC-AGCACACCGGC--AACUAUCAACUGG-----------CAACUAGCAACAUCGAAAGCAAC
.(((((......)))))((((((((((((..((((((..((...-.)).....(..--..)......))))-----------))....)))).))).)))))... ( -25.10)
>DroEre_CAF1 311992 93 - 1
UGUAGUCAACAUAUUGCGCUUUGAUUUGCGCUGCCAGCAGCAAC-AGCACACCAGCCCAACUAUCAACUGG-----------CAACUAGCAACAUCGAGAGCAAC
.(((((......)))))((((((((((((((((....))))...-......((((............))))-----------......)))).))).)))))... ( -23.00)
>DroYak_CAF1 296581 91 - 1
UGUAGUCAACAUAUUGCGCUUUGAUUUGCGCUGCCAGCAGCAAC-AGCACACCAGC--AACUAUCAACUGG-----------CAACUAGCAACAUGGAGAGCAAC
.............((((.((..(..((((((((....))))...-......((((.--.........))))-----------......))))..)..)).)))). ( -20.50)
>DroAna_CAF1 455463 97 - 1
UGUAGUCAACAUAUUGCGCUUUGAUUUGCGCUGCCAGCAGCAACCAGCUCUU---CCCAACUAGCAACUAGCCAUCUACCACCAACUAGCAACU-----ACCAAC
.(((((.......((((((........))((((....))))...........---........))))((((..............))))..)))-----)).... ( -16.74)
>consensus
UGUAGUCAACAUAUUGCGCUUUGAUUUGCGCUGCCAGCAGCAAC_AGCACACCAGC__AACUAUCAACUGG___________CAACUAGCAACAUCGAGAGCAAC
.(((((......)))))((((((((((((((((....))))..........((((............)))).................)))).))).)))))... (-15.28 = -16.84 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:02 2006