Locus 3856

Sequence ID X_DroMel_CAF1
Location 10,264,014 – 10,264,131
Length 117
Max. P 0.505186
window6345

overview

Window 5

Location 10,264,014 – 10,264,131
Length 117
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 86.86
Mean single sequence MFE -40.38
Consensus MFE -28.96
Energy contribution -28.28
Covariance contribution -0.69
Combinations/Pair 1.19
Mean z-score -1.39
Structure conservation index 0.72
SVM decision value -0.06
SVM RNA-class probability 0.505186
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10264014 117 + 22224390
UACAGUCUGCCUUUUACGGUAGGCGUCGGCGUGUUUGUAGGCGUGGCAUGGUGGCAGGCUGGCAGGCGUGAACACAUGGAGGCUCUAUGAAUGCCAAAGGAGCCAGAAGAAAGGUGU--
....(((((((......)))))))...(((((((((((.(((.((.(.....).)).))).)))))).......(((((.....))))).)))))......(((........)))..-- ( -39.90)
>DroSec_CAF1 29650 117 + 1
UACAGUCUGCCUUUUACGGUAGGCGUCGUCGUGUUUGUAGGCGUGGCAUGGUGGCGGGCUGGCAGGCGUGAACACAUGGAGGCUCUAUGAAUGCCAAAGGAACCAGAAGAAAGGUGU--
..((((((((((........))))(((..((((((((....)).))))))..)))))))))...(((((.....(((((.....))))).)))))......(((........)))..-- ( -37.20)
>DroEre_CAF1 36846 117 + 1
UACAGUCUACCUUUUACGGAAGGCGUUGGCGUGUUUGUAGGCGUGGCAGGCUGGCAGGCUGGCAGGCGUGAACACAAGGAGGCUCUAUGAAUGCCGAAGGAGCCAGAAGAAAGGUGU--
.......((((((((.(....)...((((((((((..(..((.((.(((.(.....).))).)).)))..))))).....(((.........)))......)))))..)))))))).-- ( -40.20)
>DroYak_CAF1 30000 111 + 1
UACAGUACGCCUUUUGCGGGAGACAUGGUCGUGUUUGUGGGCGUGGCAGGC--------UGGCAGGCGUAAACACAUGGAGGCUCCUUGAAUGCCAAAGGAGCCAGAAGAAAGGUGUGU
.....((((((((((........((((.(..(((((((.(((.......))--------).)))))))..)...))))..((((((((........))))))))....)))))))))). ( -44.20)
>consensus
UACAGUCUGCCUUUUACGGUAGGCGUCGGCGUGUUUGUAGGCGUGGCAGGCUGGCAGGCUGGCAGGCGUGAACACAUGGAGGCUCUAUGAAUGCCAAAGGAGCCAGAAGAAAGGUGU__
.......((((((((...............((((((..(.((.((.((...........)).)).)).))))))).....((((((............))))))....))))))))... (-28.96 = -28.28 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:24 2006