Locus 4518

Sequence ID X_DroMel_CAF1
Location 11,916,013 – 11,916,110
Length 97
Max. P 0.943730
window7431 window7432

overview

Window 1

Location 11,916,013 – 11,916,110
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 96.22
Mean single sequence MFE -28.33
Consensus MFE -27.02
Energy contribution -26.80
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.19
Structure conservation index 0.95
SVM decision value 1.11
SVM RNA-class probability 0.916296
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11916013 97 + 22224390
AAUGCUGUGGUCAGCAUUGCUGCUCCACCUGCUCCGGCCGUUUUUGCAAAAAUAUGGAAACAUUUGGCACUAAUUGCAUGUGCUCAGCAGCAAUGUU
...((((....))))(((((((((.(((.(((....(((((....))......(((....)))..))).......))).)))...)))))))))... ( -32.20)
>DroEre_CAF1 24507 97 + 1
AAUGCUGUGGUCAGCAUUGUUGCCCCACCUGCUUCCCCCGUUUUUGCAAAAAUAUGGAAACAUUUGGCACUAAUUGCAUGUGCUCAGCAGCAAUGUU
...((((....))))((((((((..(((.(((.......(((..(((......(((....)))...)))..))).))).)))....))))))))... ( -25.20)
>DroYak_CAF1 27457 97 + 1
AAUGCUGUGGUCAGCAUUGCUGCCCCACCUGCUCCCUCCGUUUUUGCAAAAAUAUGGAAACAUUUGGCACUAAUUGCAUGUGCUCAGCAGCAAUGUU
...((((....))))((((((((..(((.(((.......(((..(((......(((....)))...)))..))).))).)))....))))))))... ( -27.60)
>consensus
AAUGCUGUGGUCAGCAUUGCUGCCCCACCUGCUCCCCCCGUUUUUGCAAAAAUAUGGAAACAUUUGGCACUAAUUGCAUGUGCUCAGCAGCAAUGUU
...((((....))))((((((((..(((.(((.......(((..(((......(((....)))...)))..))).))).)))....))))))))... (-27.02 = -26.80 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 11,916,013 – 11,916,110
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 96.22
Mean single sequence MFE -30.13
Consensus MFE -28.91
Energy contribution -29.13
Covariance contribution 0.23
Combinations/Pair 1.07
Mean z-score -2.32
Structure conservation index 0.96
SVM decision value 1.34
SVM RNA-class probability 0.943730
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11916013 97 - 22224390
AACAUUGCUGCUGAGCACAUGCAAUUAGUGCCAAAUGUUUCCAUAUUUUUGCAAAAACGGCCGGAGCAGGUGGAGCAGCAAUGCUGACCACAGCAUU
...((((((((((.((((.........))))))......(((((.(((..((.......))..)))...)))))))))))))((((....))))... ( -29.20)
>DroEre_CAF1 24507 97 - 1
AACAUUGCUGCUGAGCACAUGCAAUUAGUGCCAAAUGUUUCCAUAUUUUUGCAAAAACGGGGGAAGCAGGUGGGGCAACAAUGCUGACCACAGCAUU
....((((((((((((....))..))))).(((..(((((((...(.(((....))).)..)))))))..)))))))).(((((((....))))))) ( -28.90)
>DroYak_CAF1 27457 97 - 1
AACAUUGCUGCUGAGCACAUGCAAUUAGUGCCAAAUGUUUCCAUAUUUUUGCAAAAACGGAGGGAGCAGGUGGGGCAGCAAUGCUGACCACAGCAUU
...(((((((((..((....))........(((..(((((((.....((((......)))))))))))..))))))))))))((((....))))... ( -32.30)
>consensus
AACAUUGCUGCUGAGCACAUGCAAUUAGUGCCAAAUGUUUCCAUAUUUUUGCAAAAACGGAGGGAGCAGGUGGGGCAGCAAUGCUGACCACAGCAUU
...(((((((((..((....))........(((..(((((((...(.(((....))).)..)))))))..))))))))))))((((....))))... (-28.91 = -29.13 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:09 2006