Locus 8338

Sequence ID 3L_DroMel_CAF1
Location 21,841,131 – 21,841,266
Length 135
Max. P 0.898304
window13647 window13648

overview

Window 7

Location 21,841,131 – 21,841,250
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 92.68
Mean single sequence MFE -30.44
Consensus MFE -23.26
Energy contribution -24.30
Covariance contribution 1.04
Combinations/Pair 1.03
Mean z-score -1.83
Structure conservation index 0.76
SVM decision value 0.36
SVM RNA-class probability 0.705861
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21841131 119 - 23771897
GUUGAGCAAGAAUACUGUUGCUUAGCUGAUGCAUUUAGAGAUGUAUAUCUGUUGGGUGCCUAAGCUGCAAAGAGACAGAAAAUUAUUGAAACGAUUAGUUUGGCACGAAUAAAUCAUUU
(((((((((.(....).)))))))))..(((((((....))))))).((((((...(((.......)))....)))))).............((((.(((((...))))).)))).... ( -28.30)
>DroSec_CAF1 22055 119 - 1
GUUGAGCAAGAAUACUGUUGCUUAGCUGAUGCAUUUAGAGAUGUACAUUUGUUGGGUGCCUAAGCUGCAAAGAGACAGAAGAGUAUUGAAACGGUUAGUUUGGCACGCAUAAAUCAUUU
(((((((((.(....).)))))))))...((((((....)))))).((((((.(.(((((.(((((((...((.((......)).))......).))))))))))).)))))))..... ( -29.50)
>DroSim_CAF1 20743 119 - 1
GUUGAGCAAGAAUACUGUUGCUUAGCUGAUGCAUUUAGAGAUGUAUAUUUGUUGGGUGCCUAAGCUGCAAAGAGAGAGAAGAUUAUUGAAACGGUUAGUUUGGCACGCAUAAAUCAUUU
(((((((((.(....).)))))))))..(((((((....)))))))((((((.(.(((((.(((((((.......((........))......).))))))))))).)))))))..... ( -30.32)
>DroEre_CAF1 20789 118 - 1
GUUGAGCAAAAAUACUGUUGCUUAGCUGAUGCAUUUAGAGAUGUAUAUUUGUUGGGCGUCUAAGCUGCAAGGAGACAGAAGAA-AUGGAAACGGUUAGUUUGGCACGCAUUAAUCAUUU
(((((((((........)))))))))..(((((((....)))))))....((((((((((((((((((..(....).......-.((....))).)))))))).)))).)))))..... ( -32.50)
>DroYak_CAF1 17625 118 - 1
GUUGAGCAAAAAUACUGUUGCUUAGCUUAUGCAUUUAGAGAUGUAUAUUUGUUGGGUGCCUAAGCUGAAAUCAGACAGAAGAA-AUUGAAACGGUUAGUGAGGCACGCAUAAAUCAUUU
(((((((((........))))))))).((((((((....))))))))(((((.(.((((((.(((((...((((.........-.))))..)))))....)))))).))))))...... ( -31.60)
>consensus
GUUGAGCAAGAAUACUGUUGCUUAGCUGAUGCAUUUAGAGAUGUAUAUUUGUUGGGUGCCUAAGCUGCAAAGAGACAGAAGAAUAUUGAAACGGUUAGUUUGGCACGCAUAAAUCAUUU
(((((((((........)))))))))..(((((((....)))))))......((.(((((....(((........)))..........((((.....))))))))).)).......... (-23.26 = -24.30 +   1.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,841,170 – 21,841,266
Length 96
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 71.56
Mean single sequence MFE -19.80
Consensus MFE -10.12
Energy contribution -9.98
Covariance contribution -0.14
Combinations/Pair 1.11
Mean z-score -1.85
Structure conservation index 0.51
SVM decision value 1.00
SVM RNA-class probability 0.898304
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21841170 96 - 23771897
UUUUCGUAUA-UUUAUUGUUGAGCAAGAAUACUGUUGCUUAGCUGAUGCAUUUAGAGAUGUAUAUCUGUUGGGUGCCUAAGCUGCAAAGAGACAGAA
..........-......(((((((((.(....).)))))))))..(((((((....))))))).((((((...(((.......)))....)))))). ( -24.30)
>DroVir_CAF1 17440 74 - 1
UAU-----UAUUUUAAUGUUGAGCAAAAAUACUGUUGCUUAGCGUUUGUAUUUAGA----------CUUUG--------CACUGCAAAGAGACAAAA
...-----(((...((((((((((((........)))))))))))).)))......----------(((((--------(...))))))........ ( -17.90)
>DroGri_CAF1 73754 76 - 1
UAAU--AUUAUUUUAAUGUUGAGCGAAAAUACUGUUGCUUAGCGGUAGUAUUUAGU----------UGUUG--------CACUGCAAAGAGAC-AAA
.(((--(((((.....((((((((((........))))))))))))))))))..((----------(.(((--------(...))))...)))-... ( -16.70)
>DroEre_CAF1 20827 96 - 1
UUUUCGUAUA-AUUAUUGUUGAGCAAAAAUACUGUUGCUUAGCUGAUGCAUUUAGAGAUGUAUAUUUGUUGGGCGUCUAAGCUGCAAGGAGACAGAA
(((((.....-......(((((((((........)))))))))...((((.....((((((.((.....)).))))))....)))).)))))..... ( -21.40)
>DroYak_CAF1 17663 96 - 1
UUUUUGUAUA-UUUAUUGUUGAGCAAAAAUACUGUUGCUUAGCUUAUGCAUUUAGAGAUGUAUAUUUGUUGGGUGCCUAAGCUGAAAUCAGACAGAA
(((((((.((-........)).)))))))..(((((..((((((((.((((((((((((....)))).)))))))).)))))))).....))))).. ( -24.00)
>DroMoj_CAF1 69800 78 - 1
UAUUUGUUUAUGUUAAUGUUGAGCAAAAAUACUGUUGCUUAGCGUUUGUAUUUAGU----------UUUCG--------CACUGCAAAGAAA-AAGA
..(((((..(((..((((((((((((........))))))))))))..)))..(((----------.....--------.))))))))....-.... ( -14.50)
>consensus
UAUU_GUAUA_UUUAAUGUUGAGCAAAAAUACUGUUGCUUAGCGGAUGCAUUUAGA__________UGUUG________AACUGCAAAGAGACAAAA
.................(((((((((........)))))))))...................................................... (-10.12 =  -9.98 +  -0.14)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:59 2006