Locus 6436

Sequence ID 3L_DroMel_CAF1
Location 17,221,495 – 17,221,600
Length 105
Max. P 0.505844
window10322

overview

Window 2

Location 17,221,495 – 17,221,600
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 64.70
Mean single sequence MFE -21.55
Consensus MFE -6.72
Energy contribution -6.92
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.31
SVM decision value -0.05
SVM RNA-class probability 0.505844
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17221495 105 - 23771897
CUAGUGAUGCCAACGGGCAGCAUAUAUAUGUG------U-------UUGUGAAUCCAGGAAAUGAAUAAAAUGAUAAAAGUUCAUAAUUGAAAUAAUUCCAAAUUAUUAUAACAUGUU--
...(((.((((....)))).))).((((...(------(-------(((.((((.(((...((((((............))))))..))).....)))))))))...)))).......-- ( -16.10)
>DroSec_CAF1 105087 108 - 1
CUAGUGAUGCCAACAGGCAGCAUAAAUAUUUGAAAAGAU------------UUGCCAGGAAAUUGAUAAAAUUAUAAAAGUUAAUCUUUGAAAUACUUACAAAUUAAUUUCACAUUUUCU
...((((((((....))))...(((.(((((..((((((------------(.((.....((((.....))))......)).))))))).))))).)))..........))))....... ( -16.30)
>DroSim_CAF1 98818 118 - 1
CUAGUGAUGCCAACAGGCAGAAUAAAUAUUUGAAAAGAUCCAGAUUCAUUUUAUCCAGAAUAUGGAUAAAAUGA--AAUAUGGAUCUUUGAAAUACUUGCAAAAUAAUUUCACAUUUUCU
...((((((((....))))...(((.(((((..(((((((((..(((((((((((((.....))))))))))))--)...))))))))).))))).)))..........))))....... ( -39.50)
>DroEre_CAF1 108412 98 - 1
CUAGUGAUGCCAACAGGCAGCAUGCAACUCUGAACAGAU------------UUGACAGGAAACGGAUGAAAAGAUAAGAGUUAAACUCUGAAAUA-----AAGUUGUUC-----UUCUAC
...(((.((((....)))).)))((((((.((..(((((------------(((((.(....)...(....).......)))))).))))...))-----.))))))..-----...... ( -20.60)
>DroYak_CAF1 111185 96 - 1
CUAGUGAUGCCAACAGGCAGCAUUCAACUCUAAAGGUUU------------UUGACAGAAAAAGAAUGA--AGAUAAAAGUUUAAUUUCGAAGUA-----AAAUUAUUC-----UUUUUC
..((((.((((....)))).))))...............------------......((((((((((((--........................-----...))))))-----)))))) ( -15.23)
>consensus
CUAGUGAUGCCAACAGGCAGCAUAAAUAUCUGAAAAGAU____________UUGCCAGGAAAUGGAUAAAAUGAUAAAAGUUAAUCUUUGAAAUA_UU_CAAAUUAUUCU_ACAUUUUCC
...(((.((((....)))).)))................................................................................................. ( -6.72 =  -6.92 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:38 2006