Locus 823

Sequence ID 2R_DroMel_CAF1
Location 3,872,926 – 3,873,036
Length 110
Max. P 0.999967
window1438 window1439

overview

Window 8

Location 3,872,926 – 3,873,036
Length 110
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 68.18
Mean single sequence MFE -46.53
Consensus MFE -39.24
Energy contribution -40.07
Covariance contribution 0.82
Combinations/Pair 1.31
Mean z-score -5.68
Structure conservation index 0.84
SVM decision value 4.05
SVM RNA-class probability 0.999774
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3872926 110 + 20766785
GUGAAGGGCUUGCCGUUCAGGACUUUGGUCUCUGUUGGAAUUUUUGUUACAUUUUGUGUUACAAAAAUUCCAGCGAAGACCCCAGUUACUAUAACCCUGGGAUACGGUCU
.((((.((....)).))))(((((..(((((.(((((((((((((((.((((...)))).))))))))))))))).)))))((((...........)))).....))))) ( -43.40)
>DroEre_CAF1 122 90 + 1
--------------------ACCUUUGGUCUCCGUAGGGAUUUCUGUUACAUGAGGGGUUUCAGAAAUCCCAACGGAGACCACAGUUACCGGAACCAUCAGUUGUGGUCU
--------------------..((.((((((((((.((((((((((..((.......))..)))))))))).)))))))))).))..((((.(((.....))).)))).. ( -44.10)
>DroYak_CAF1 160 110 + 1
GUGAGUGGCUUGUUGCUCGGGACUUUGGUCUCUGCAGGGAUCUCUGUAACAUAAGGUGUUUCAGAAAUCCCAGCGGAGACCACAGUUACUGUAGCCAUCGGUUGUGGUCU
.((((..(....)..)))).((((.((((((((((.(((((.((((.(((((...))))).)))).))))).)))))))))).))))((..(((((...)))))..)).. ( -52.10)
>consensus
GUGA__GGCUUG__G_UC_GGACUUUGGUCUCUGUAGGGAUUUCUGUUACAUAAGGUGUUUCAGAAAUCCCAGCGGAGACCACAGUUACUGUAACCAUCGGUUGUGGUCU
.(((((((....))))))).((((.((((((((((.((((((((((..(((.....)))..)))))))))).)))))))))).))))((((((((.....)))))))).. (-39.24 = -40.07 +   0.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,872,926 – 3,873,036
Length 110
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 68.18
Mean single sequence MFE -40.67
Consensus MFE -29.91
Energy contribution -29.37
Covariance contribution -0.55
Combinations/Pair 1.19
Mean z-score -5.48
Structure conservation index 0.74
SVM decision value 4.99
SVM RNA-class probability 0.999967
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3872926 110 - 20766785
AGACCGUAUCCCAGGGUUAUAGUAACUGGGGUCUUCGCUGGAAUUUUUGUAACACAAAAUGUAACAAAAAUUCCAACAGAGACCAAAGUCCUGAACGGCAAGCCCUUCAC
.(((......((((...........))))(((((..(.((((((((((((.(((.....))).)))))))))))).)..)))))...))).((((.((....)).)))). ( -37.20)
>DroEre_CAF1 122 90 - 1
AGACCACAACUGAUGGUUCCGGUAACUGUGGUCUCCGUUGGGAUUUCUGAAACCCCUCAUGUAACAGAAAUCCCUACGGAGACCAAAGGU--------------------
.((((((....).))))).......((.((((((((((.((((((((((..((.......))..)))))))))).)))))))))).))..-------------------- ( -40.40)
>DroYak_CAF1 160 110 - 1
AGACCACAACCGAUGGCUACAGUAACUGUGGUCUCCGCUGGGAUUUCUGAAACACCUUAUGUUACAGAGAUCCCUGCAGAGACCAAAGUCCCGAGCAACAAGCCACUCAC
...........(((((((...(..(((.(((((((.((.((((((((((.((((.....)))).)))))))))).)).))))))).)))..)........))))).)).. ( -44.40)
>consensus
AGACCACAACCGAUGGUUACAGUAACUGUGGUCUCCGCUGGGAUUUCUGAAACACCUAAUGUAACAGAAAUCCCUACAGAGACCAAAGUCC_GA_C__CAAGCC__UCAC
.((((.........)))).......((.(((((((.((.((((((((((..((.......))..)))))))))).)).))))))).))...................... (-29.91 = -29.37 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:18 2006