Locus 6447

Sequence ID X_DroMel_CAF1
Location 16,158,244 – 16,158,344
Length 100
Max. P 0.999994
window10528 window10529

overview

Window 8

Location 16,158,244 – 16,158,344
Length 100
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 71.41
Mean single sequence MFE -30.72
Consensus MFE -21.69
Energy contribution -22.50
Covariance contribution 0.81
Combinations/Pair 1.22
Mean z-score -3.96
Structure conservation index 0.71
SVM decision value 5.83
SVM RNA-class probability 0.999994
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16158244 100 + 22224390
ACACCAAAUUCUGACGUUCACUUUCGCAAAUCAAAGUCAGUUUAGGCG------------UUUAGCCUAACUCAUUGAUUGUAGCCAACGAAAGUGAAACUCGGAAUGGAAA
...(((..((((((..((((((((((........(((((((((((((.------------....))))))...)))))))........))))))))))..)))))))))... ( -35.79)
>DroSec_CAF1 4156 86 + 1
GUGCUUAGUUCUGACGUUCACUUUCGCAAAUCAAAG----UCUA----------------------CUGACUCUUUGAUUGUAGCCAACGAAAGUGAAAAUCAGAGUGGAAA
....((..((((((..(((((((((((.((((((((----((..----------------------..))))..))))))...))....)))))))))..))))))..)).. ( -27.00)
>DroSim_CAF1 5029 90 + 1
GCUCCAAGUUCUGACGUUCACUUUCGCAAAUCAAAGUCAGUCUA----------------------CUGACUCUUUGAUUGUAGCCAACGAAAGUGAAAAUCAGAGUGGAAA
..((((...(((((..(((((((((((.((((((((((((....----------------------))))))..))))))...))....)))))))))..))))).)))).. ( -35.10)
>DroYak_CAF1 4940 105 + 1
-------GUUCUGACGUUUACUUUCGGAAAUCAAAGUCAAUUCGGGCAGUGCAUUCGUAUUUUACCCUAGCAUUUUGAUUGUAUGCAACGAAAGUGAAACUCGGCGUGGAAA
-------...((((..((((((((((..(((((((((......(((.(((((....)))))...)))....)))))))))........))))))))))..))))........ ( -25.00)
>consensus
GC_CCAAGUUCUGACGUUCACUUUCGCAAAUCAAAGUCAGUCUA______________________CUAACUCUUUGAUUGUAGCCAACGAAAGUGAAAAUCAGAGUGGAAA
........((((((..((((((((((..((((((((..((((.((((.................))))))))))))))))........))))))))))..))))))...... (-21.69 = -22.50 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 16,158,244 – 16,158,344
Length 100
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 71.41
Mean single sequence MFE -28.48
Consensus MFE -17.45
Energy contribution -20.52
Covariance contribution 3.06
Combinations/Pair 1.09
Mean z-score -3.34
Structure conservation index 0.61
SVM decision value 5.13
SVM RNA-class probability 0.999975
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16158244 100 - 22224390
UUUCCAUUCCGAGUUUCACUUUCGUUGGCUACAAUCAAUGAGUUAGGCUAAA------------CGCCUAAACUGACUUUGAUUUGCGAAAGUGAACGUCAGAAUUUGGUGU
...((((((.((..(((((((((((.......(((((((.((((((((....------------.)))).)))).)..)))))).)))))))))))..)).)))..)))... ( -29.30)
>DroSec_CAF1 4156 86 - 1
UUUCCACUCUGAUUUUCACUUUCGUUGGCUACAAUCAAAGAGUCAG----------------------UAGA----CUUUGAUUUGCGAAAGUGAACGUCAGAACUAAGCAC
.......((((((.(((((((((((.......(((((..(((((..----------------------..))----)))))))).))))))))))).))))))......... ( -28.50)
>DroSim_CAF1 5029 90 - 1
UUUCCACUCUGAUUUUCACUUUCGUUGGCUACAAUCAAAGAGUCAG----------------------UAGACUGACUUUGAUUUGCGAAAGUGAACGUCAGAACUUGGAGC
.(((((.((((((.(((((((((((.......(((((..(((((((----------------------....)))))))))))).))))))))))).))))))...))))). ( -37.20)
>DroYak_CAF1 4940 105 - 1
UUUCCACGCCGAGUUUCACUUUCGUUGCAUACAAUCAAAAUGCUAGGGUAAAAUACGAAUGCACUGCCCGAAUUGACUUUGAUUUCCGAAAGUAAACGUCAGAAC-------
..........((((((.(((((((..((((.........))))..(((((..............))))).................))))))))))).)).....------- ( -18.94)
>consensus
UUUCCACUCCGAGUUUCACUUUCGUUGGCUACAAUCAAAGAGUCAG______________________UAAACUGACUUUGAUUUGCGAAAGUGAACGUCAGAACUUGG_GC
.......((((((.(((((((((((.......((((((((((((.((((................)))).))))..)))))))).))))))))))).))))))......... (-17.45 = -20.52 +   3.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:01 2006