Locus 4758

Sequence ID 2L_DroMel_CAF1
Location 13,574,908 – 13,575,017
Length 109
Max. P 0.991371
window7528 window7529

overview

Window 8

Location 13,574,908 – 13,575,017
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 94.29
Mean single sequence MFE -38.47
Consensus MFE -35.17
Energy contribution -35.91
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -3.34
Structure conservation index 0.91
SVM decision value 2.26
SVM RNA-class probability 0.991371
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13574908 109 + 22407834
GCAAAUGGCGACGUCUUGUCGGCCGUUGAAUGCCGCAUUUCAUUAACUAGCACAACGGCAUCGCCAAGUGCAACUGCAACUGCAUCCUGCAUUCUGCAGUGUGCAUUGU
(((..((((((((......))(((((((..(((................)))))))))).))))))..)))....((((.((((..((((.....))))..)))))))) ( -41.89)
>DroSec_CAF1 8118 109 + 1
GCAAAUGGCGACGUCUUGUCGGCCGUUGAAUGCCGCAUUUCAUUAACUAGCACAACGGCAUCGCCAACUGCAACUGCAACUGCAUCCUGCAUUCUGCAGUGUGCAUUGU
(((..((((((((......))(((((((..(((................)))))))))).))))))..)))....((((.((((..((((.....))))..)))))))) ( -40.79)
>DroEre_CAF1 8587 103 + 1
CCAAAUGGCGACGUCUUGUCGGCCGAUGAAUGCCGCAUUUCAUUAACUAGCACAACGGCAUCGCCAACUG------CAACUGCAUCCUGCAUUCUGCAGUGUGCAUUGU
.....((((((.((((((((((..((((((........))))))..)).).)))).))).))))))...(------(((.((((..((((.....))))..)))))))) ( -34.70)
>DroYak_CAF1 5259 103 + 1
CCAAAUGGCGACGUCUUGUCGGCCGUUGAAUGCCGCAUUUCAUUAACUAGCACAACGGCAUCGCCAACUG------CAACUGCAUCCUGCAUUCAGCAGUGUGCAUUGU
.....((((((((......))(((((((..(((................)))))))))).))))))...(------(((.((((..((((.....))))..)))))))) ( -36.49)
>consensus
CCAAAUGGCGACGUCUUGUCGGCCGUUGAAUGCCGCAUUUCAUUAACUAGCACAACGGCAUCGCCAACUG______CAACUGCAUCCUGCAUUCUGCAGUGUGCAUUGU
(((..((((((((......))(((((((..(((................)))))))))).))))))..))).....(((.((((..((((.....))))..))))))). (-35.17 = -35.91 +   0.75)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 9

Location 13,574,908 – 13,575,017
Length 109
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 94.29
Mean single sequence MFE -39.20
Consensus MFE -36.47
Energy contribution -36.98
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.56
Structure conservation index 0.93
SVM decision value 2.08
SVM RNA-class probability 0.987365
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13574908 109 - 22407834
ACAAUGCACACUGCAGAAUGCAGGAUGCAGUUGCAGUUGCACUUGGCGAUGCCGUUGUGCUAGUUAAUGAAAUGCGGCAUUCAACGGCCGACAAGACGUCGCCAUUUGC
.(((((((..((((.....))))..)))).))).....(((..((((((((((((((((((.(((.....)))..))))..))))))).........)))))))..))) ( -40.20)
>DroSec_CAF1 8118 109 - 1
ACAAUGCACACUGCAGAAUGCAGGAUGCAGUUGCAGUUGCAGUUGGCGAUGCCGUUGUGCUAGUUAAUGAAAUGCGGCAUUCAACGGCCGACAAGACGUCGCCAUUUGC
.(((((((..((((.....))))..)))).))).....((((.((((((((((((((((((.(((.....)))..))))..))))))).........))))))).)))) ( -40.50)
>DroEre_CAF1 8587 103 - 1
ACAAUGCACACUGCAGAAUGCAGGAUGCAGUUG------CAGUUGGCGAUGCCGUUGUGCUAGUUAAUGAAAUGCGGCAUUCAUCGGCCGACAAGACGUCGCCAUUUGG
.(((((((..((((.....))))..)))).)))------(((.(((((((((.((((.((..((.((((........)))).))..))))))..).)))))))).))). ( -37.30)
>DroYak_CAF1 5259 103 - 1
ACAAUGCACACUGCUGAAUGCAGGAUGCAGUUG------CAGUUGGCGAUGCCGUUGUGCUAGUUAAUGAAAUGCGGCAUUCAACGGCCGACAAGACGUCGCCAUUUGG
.(((((((..((((.....))))..)))).)))------(((.((((((((((((((((((.(((.....)))..))))..))))))).........))))))).))). ( -38.80)
>consensus
ACAAUGCACACUGCAGAAUGCAGGAUGCAGUUG______CAGUUGGCGAUGCCGUUGUGCUAGUUAAUGAAAUGCGGCAUUCAACGGCCGACAAGACGUCGCCAUUUGC
.(((((((..((((.....))))..)))).)))......(((.((((((((((((((((((.(((.....)))..))))..))))))).........))))))).))). (-36.47 = -36.98 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:32 2006