Locus 7399

Sequence ID 2L_DroMel_CAF1
Location 20,576,203 – 20,576,294
Length 91
Max. P 0.974939
window11888 window11889

overview

Window 8

Location 20,576,203 – 20,576,294
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 90.53
Mean single sequence MFE -29.84
Consensus MFE -24.07
Energy contribution -25.51
Covariance contribution 1.44
Combinations/Pair 1.09
Mean z-score -1.98
Structure conservation index 0.81
SVM decision value 1.29
SVM RNA-class probability 0.938278
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20576203 91 + 22407834
CGUAUCCGCAGUGGUGUACGCCCACUGCCGGCGGCAAGUCAUCAAGUGCUCUUCAACUUUUUACUUCGCCAAGAUGUUGCCGCCGAGUACU
.((((..(((((((.(....))))))))(((((((((..((((..(.((..................)))..))))))))))))).)))). ( -34.87)
>DroSec_CAF1 90841 91 + 1
CGUAUCCGCAGUGGUGUACGCCCACUGCCGGCGGCAAGUCAUCAAGUGCUCUUCAACUUUUUACUUCGCCAAGAUGUUGCCGUCGAGUCCU
.......(((((((.(....))))))))(((((((((..((((..(.((..................)))..)))))))))))))...... ( -30.47)
>DroSim_CAF1 91534 91 + 1
CGUAUCCGCAGUGGUGUACGCCCACUGCCGGCGGCAAGUCAUCAAGUGCUCUUCAACUUUUUACUUCGCCAAGAUGUUGCCGCCGAGUCCU
.......(((((((.(....))))))))(((((((((..((((..(.((..................)))..)))))))))))))...... ( -33.17)
>DroEre_CAF1 82469 85 + 1
CGUAUCCGCAGUGGUGUACGCC--CUGCU---GGCAAGUCAUCAAGUGCGCUUCAACUU-UUACUUGGCCAAGAUGCUGCCGCCGAGUCCU
.(((((.((((.(((....)))--))))(---(((((((....((((........))))-..)))).)))).))))).............. ( -24.20)
>DroYak_CAF1 85288 85 + 1
CGUAUCCGCAGUGGCCCA------CUGCUGGCGGCAAGUCAUCAAGUGCUCUUUAACUUUUUACUUCGCCAAGAUGUUGCCGCCGAGUCCU
.......((((((...))------))))(((((((((..((((..(.((..................)))..)))))))))))))...... ( -26.47)
>consensus
CGUAUCCGCAGUGGUGUACGCCCACUGCCGGCGGCAAGUCAUCAAGUGCUCUUCAACUUUUUACUUCGCCAAGAUGUUGCCGCCGAGUCCU
.......(((((((.......)))))))(((((((((..((((..(.((..................)))..)))))))))))))...... (-24.07 = -25.51 +   1.44)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 20,576,203 – 20,576,294
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 90.53
Mean single sequence MFE -31.80
Consensus MFE -26.92
Energy contribution -28.80
Covariance contribution 1.88
Combinations/Pair 1.08
Mean z-score -1.95
Structure conservation index 0.85
SVM decision value 1.74
SVM RNA-class probability 0.974939
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20576203 91 - 22407834
AGUACUCGGCGGCAACAUCUUGGCGAAGUAAAAAGUUGAAGAGCACUUGAUGACUUGCCGCCGGCAGUGGGCGUACACCACUGCGGAUACG
.(((..(((((((((((((..(((....(((....)))....)).)..))))..)))))))).(((((((.......))))))))..))). ( -39.30)
>DroSec_CAF1 90841 91 - 1
AGGACUCGACGGCAACAUCUUGGCGAAGUAAAAAGUUGAAGAGCACUUGAUGACUUGCCGCCGGCAGUGGGCGUACACCACUGCGGAUACG
......((.((((((((((..(((....(((....)))....)).)..))))..)))))).))(((((((.......)))))))....... ( -30.30)
>DroSim_CAF1 91534 91 - 1
AGGACUCGGCGGCAACAUCUUGGCGAAGUAAAAAGUUGAAGAGCACUUGAUGACUUGCCGCCGGCAGUGGGCGUACACCACUGCGGAUACG
......(((((((((((((..(((....(((....)))....)).)..))))..)))))))))(((((((.......)))))))....... ( -37.40)
>DroEre_CAF1 82469 85 - 1
AGGACUCGGCGGCAGCAUCUUGGCCAAGUAA-AAGUUGAAGCGCACUUGAUGACUUGCC---AGCAG--GGCGUACACCACUGCGGAUACG
........((....))((((((((.((((..-((((........))))....)))))))---)((((--((......)).))))))))... ( -21.40)
>DroYak_CAF1 85288 85 - 1
AGGACUCGGCGGCAACAUCUUGGCGAAGUAAAAAGUUAAAGAGCACUUGAUGACUUGCCGCCAGCAG------UGGGCCACUGCGGAUACG
.......((((((((((((..(((....(((....)))....)).)..))))..)))))))).((((------((...))))))....... ( -30.60)
>consensus
AGGACUCGGCGGCAACAUCUUGGCGAAGUAAAAAGUUGAAGAGCACUUGAUGACUUGCCGCCGGCAGUGGGCGUACACCACUGCGGAUACG
......(((((((((((((..(((....(((....)))....)).)..))))..)))))))))(((((((.......)))))))....... (-26.92 = -28.80 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:48 2006