Locus 4522

Sequence ID 2R_DroMel_CAF1
Location 14,815,546 – 14,815,706
Length 160
Max. P 0.891185
window7254 window7255

overview

Window 4

Location 14,815,546 – 14,815,666
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.00
Mean single sequence MFE -39.48
Consensus MFE -36.84
Energy contribution -36.80
Covariance contribution -0.04
Combinations/Pair 1.11
Mean z-score -1.40
Structure conservation index 0.93
SVM decision value 0.96
SVM RNA-class probability 0.891185
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14815546 120 - 20766785
CCACCUUCGCGAUCGCAUUCCUCCAUGACACCUUCGUAAAGGGGCAUGGUGGGACUACUGUCCGUGCUAUUGCUGAUCCCAAUGUUGUUAUUGUCGCUGACGGCAUGGUUGUUACUAUAG
........(((((.((((..(.(((((...((((....))))..))))).)((((....)))))))).))))).....(((.((((((((.......)))))))))))............ ( -36.10)
>DroSec_CAF1 17393 120 - 1
CUACCUUCGCGAUCGCAUUCCUCCAUGACUCCUUCGUAAAGGGGCAUGGUGGGACUACUGUCCGUGCUGUUGCCGAUCCCAAUGUUGUUAUUGUCGCUGACGGCAUGGUUGUUACUAUAG
........((....)).((((.(((((.((((((....))))))))))).))))..((...((((((((((..(((...(((((....))))))))..))))))))))..))........ ( -41.30)
>DroSim_CAF1 11666 120 - 1
CCACCUUCGCGAUCGCAUUCCUCCAUGACUCCUUCGUAAAGGGGCAUGGUGGGACUACUGUCCGUGCUGUUGCUGAUCCCAAUGUUGUUAUUGUCGCUGACGGCAUGGUUGUUACUAUAG
........((....)).((((.(((((.((((((....))))))))))).))))..((...((((((((((((.((...(((((....))))))))).))))))))))..))........ ( -39.80)
>DroEre_CAF1 10270 120 - 1
GCACCUUCGCGAUCGCAUUCCUCCAUGACUCCUUCGUAAAGGGGCAUGGUGGGACUACUGUCCGUGCUGUUGCUGAUCCCAAUGUUGUUAUUGUCGCUGACGGCAUGGUUGUUACUAUAG
(((((...(((((.((((..(.(((((.((((((....))))))))))).)((((....)))))))).)))))........(((((((((.......))))))))))).)))........ ( -40.20)
>DroYak_CAF1 11543 120 - 1
CCACCUUCUCGAUCGCAUUCCUCCAUGACUCCUUCGUAGAGGGGCAUGGUGGGACUACUGUCCGUGCUGUUGCUGAUCCCAAUGUUGUUGUUGUCGCUGACGGCAUGAUUGUUACUAUAG
.........(((((......(.(((((.((((((....))))))))))).)((((....))))((((((((((.(((..((((...))))..))))).)))))))))))))......... ( -40.00)
>consensus
CCACCUUCGCGAUCGCAUUCCUCCAUGACUCCUUCGUAAAGGGGCAUGGUGGGACUACUGUCCGUGCUGUUGCUGAUCCCAAUGUUGUUAUUGUCGCUGACGGCAUGGUUGUUACUAUAG
........((((((......(.(((((.((((((....))))))))))).)((((....))))((((((((..(((...(((((....))))))))..))))))))))))))........ (-36.84 = -36.80 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,815,586 – 14,815,706
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.17
Mean single sequence MFE -35.60
Consensus MFE -31.46
Energy contribution -31.74
Covariance contribution 0.28
Combinations/Pair 1.07
Mean z-score -1.36
Structure conservation index 0.88
SVM decision value 0.68
SVM RNA-class probability 0.819533
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14815586 120 - 20766785
CCAGCUAUAUGUAUGCACCCCAAUUUUGAUAAUGGGUAACCCACCUUCGCGAUCGCAUUCCUCCAUGACACCUUCGUAAAGGGGCAUGGUGGGACUACUGUCCGUGCUAUUGCUGAUCCC
.((((.(((.(((((.((((((..........))))...((((((...((....)).(((((..((((.....))))..)))))...))))))......)).)))))))).))))..... ( -35.00)
>DroSec_CAF1 17433 120 - 1
CCAGCUAUAUGUGUACACCCCAAUUUUCAUAAUGGGUAACCUACCUUCGCGAUCGCAUUCCUCCAUGACUCCUUCGUAAAGGGGCAUGGUGGGACUACUGUCCGUGCUGUUGCCGAUCCC
..................((((..........))))..........(((((((.((((..(.(((((.((((((....))))))))))).)((((....)))))))).)))).))).... ( -33.90)
>DroSim_CAF1 11706 120 - 1
CCAGCUAUAUGUAUGCACCCCAAUUUUGAUAAUGGGUAACCCACCUUCGCGAUCGCAUUCCUCCAUGACUCCUUCGUAAAGGGGCAUGGUGGGACUACUGUCCGUGCUGUUGCUGAUCCC
.((((.(((.(((((.((((((..........))))...((((((...((....))........(((.((((((....)))))))))))))))......)).)))))))).))))..... ( -37.60)
>DroEre_CAF1 10310 120 - 1
CCUGCUAUAUGUUUACUCCCUCAUUCUGAUAAAGGGUAACGCACCUUCGCGAUCGCAUUCCUCCAUGACUCCUUCGUAAAGGGGCAUGGUGGGACUACUGUCCGUGCUGUUGCUGAUCCC
.........(((((((((..((.....))....)))))).))).....(((((.((((..(.(((((.((((((....))))))))))).)((((....)))))))).)))))....... ( -35.30)
>DroYak_CAF1 11583 120 - 1
CCUGCUAUAUGUGGACACCCCCAUUCUGAUAAAGGGUAACCCACCUUCUCGAUCGCAUUCCUCCAUGACUCCUUCGUAGAGGGGCAUGGUGGGACUACUGUCCGUGCUGUUGCUGAUCCC
..........((((..((((.............))))...))))......(((((((...(.(((((.((((((....))))))))))).)((((....)))).......))).)))).. ( -36.22)
>consensus
CCAGCUAUAUGUAUACACCCCAAUUUUGAUAAUGGGUAACCCACCUUCGCGAUCGCAUUCCUCCAUGACUCCUUCGUAAAGGGGCAUGGUGGGACUACUGUCCGUGCUGUUGCUGAUCCC
................((((.............))))...........(((((.((((..(.(((((.((((((....))))))))))).)((((....)))))))).)))))....... (-31.46 = -31.74 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:12 2006