Locus 3111

Sequence ID 2R_DroMel_CAF1
Location 10,647,272 – 10,647,376
Length 104
Max. P 0.953480
window5135 window5136

overview

Window 5

Location 10,647,272 – 10,647,376
Length 104
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 94.21
Mean single sequence MFE -24.27
Consensus MFE -21.90
Energy contribution -22.23
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.80
Structure conservation index 0.90
SVM decision value 1.43
SVM RNA-class probability 0.953480
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10647272 104 + 20766785
CCCACUCCACCCCGCACAAACCCAAAUCCCC-UCGGCCACCCCAACCACUGGCAAAUGGCAGCUGCAACCUGCAGCCCAACGGGGCAACCCUAAAAGUGAUCUCU
..((((.........................-...((((..(((.....)))....)))).(((((.....))))).....(((....)))....))))...... ( -25.40)
>DroEre_CAF1 81724 101 + 1
CCCACUCCACCCCGCAGAAACC---AUCCCC-UCGACCACCCCAACCACCGGCAAAUGGCAGCUGCAACCUGCAGCCCAACGGGGCAACCCUAAAAGUGAUCUCU
......................---......-..((.(((................(((..(((((.....))))))))..(((....))).....))).))... ( -21.30)
>DroYak_CAF1 88842 102 + 1
CCCACUCCACCCCGCAGCAACC---AUCCCCUUCUGCCACCCCAACCACCGGCAAAUGGCAGCUGCAACCUGCAGCCCAACGGGGCAACCCUAAAAGUGAUCUCU
..((((.......(((((..((---((.......((((............)))).))))..)))))........((((....)))).........))))...... ( -26.10)
>consensus
CCCACUCCACCCCGCAGAAACC___AUCCCC_UCGGCCACCCCAACCACCGGCAAAUGGCAGCUGCAACCUGCAGCCCAACGGGGCAACCCUAAAAGUGAUCUCU
..((((.............................((((..((.......))....)))).(((((.....))))).....(((....)))....))))...... (-21.90 = -22.23 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 10,647,272 – 10,647,376
Length 104
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 94.21
Mean single sequence MFE -39.34
Consensus MFE -35.30
Energy contribution -35.08
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.00
Structure conservation index 0.90
SVM decision value 0.43
SVM RNA-class probability 0.734622
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10647272 104 - 20766785
AGAGAUCACUUUUAGGGUUGCCCCGUUGGGCUGCAGGUUGCAGCUGCCAUUUGCCAGUGGUUGGGGUGGCCGA-GGGGAUUUGGGUUUGUGCGGGGUGGAGUGGG
.....(((((((.......(((((((..((((((.....)))))).(((..(.((..(((((.....))))).-.)).)..)))......)))))))))))))). ( -40.71)
>DroEre_CAF1 81724 101 - 1
AGAGAUCACUUUUAGGGUUGCCCCGUUGGGCUGCAGGUUGCAGCUGCCAUUUGCCGGUGGUUGGGGUGGUCGA-GGGGAU---GGUUUCUGCGGGGUGGAGUGGG
(((((((((((((..((..((((((...((((((.....))))))(((((......)))))))))))..)).)-)))).)---)))))))............... ( -38.50)
>DroYak_CAF1 88842 102 - 1
AGAGAUCACUUUUAGGGUUGCCCCGUUGGGCUGCAGGUUGCAGCUGCCAUUUGCCGGUGGUUGGGGUGGCAGAAGGGGAU---GGUUGCUGCGGGGUGGAGUGGG
.....(((((((.......(((((((.(((((((.....)))))).((.(((((((.(......).))))))).))....---.....).)))))))))))))). ( -38.81)
>consensus
AGAGAUCACUUUUAGGGUUGCCCCGUUGGGCUGCAGGUUGCAGCUGCCAUUUGCCGGUGGUUGGGGUGGCCGA_GGGGAU___GGUUUCUGCGGGGUGGAGUGGG
.....(((((((.......(((((((..((((((.....))))))((((((((((...)))..)))))))....................)))))))))))))). (-35.30 = -35.08 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:49 2006