Locus 1746

Sequence ID X_DroMel_CAF1
Location 4,860,455 – 4,860,554
Length 99
Max. P 0.607304
window2860

overview

Window 0

Location 4,860,455 – 4,860,554
Length 99
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 80.18
Mean single sequence MFE -21.08
Consensus MFE -12.56
Energy contribution -13.76
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -1.80
Structure conservation index 0.60
SVM decision value 0.15
SVM RNA-class probability 0.607304
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4860455 99 + 22224390
AUAUCGAACAUAAUUUUUUUGUUUUUCUUUUAAACAUAUUUUUUU-------UAUACCUCGCA--ACGGCUCGCAUUCGGCUGUGGGGUAUAUGAAAAUCUAUUUCCC-----------
...................(((((.......)))))...(((((.-------(((((((((((--.(((.......)))..))))))))))).)))))..........----------- ( -19.50)
>DroSec_CAF1 12309 105 + 1
AUAUCGAACAUAAUUU-UUUGUUUUUCUUUUAAACAUAUUU---U-------UAUACCUCGCA--ACGGCGAGCAUUCGGCUGUGGGGUAUAUGAA-AUAUAUUUCCCAAAUAAAUGUG
.......((((.....-...((((.......))))((((((---(-------(((((((((((--..(.((......)).)))))))))))).)))-)))).............)))). ( -23.00)
>DroSim_CAF1 12281 107 + 1
AUAUCGAACAUAAUUU-UUUGUUUUUCUUUUAAACAUAUUU--UU-------UAUACCUCGCAAAACGGCGCGCAUUCGACUGUGGGGUAUAUGAA-AUAUAUUUC-CAAAUAAAUUUG
.....(((((......-..)))))...........((((((--(.-------(((((((((((...(((.......)))..))))))))))).)))-)))).....-............ ( -21.30)
>DroEre_CAF1 15390 103 + 1
AUAUCGAACAUAAUUU-UUUGUUUUUCUUUUAAACAUAUUU--UU-------UAUACCUCGCAA-AUGGCUG--GUUCUGC--UGGGGUAUAUGAA-AUACAUUUUCCAAAUAUAUGGG
........((((....-..(((((.......)))))(((((--(.-------((((((((((((-((.....--))).)))--.)))))))).)))-))).............)))).. ( -18.70)
>DroYak_CAF1 12446 103 + 1
AUAUCGAACAUAAUUU-UUUGUUUUUCUUUUAAACAUAUUU--UUGUACGAGUAUACCUCGCA--ACGGCUG--AUUCUGG--UGGGGUAUAUGAA-UUAUGAUUUUGA-AUAU-----
...(((((((((((((-..(((((.......))))).....--........(((((((((((.--.(((...--...))))--)))))))))))))-)))))..)))))-....----- ( -22.90)
>consensus
AUAUCGAACAUAAUUU_UUUGUUUUUCUUUUAAACAUAUUU__UU_______UAUACCUCGCA__ACGGCUCGCAUUCGGCUGUGGGGUAUAUGAA_AUAUAUUUCCCAAAUAAAU__G
...(((.............(((((.......)))))................(((((((((((...(((.......)))..))))))))))))))........................ (-12.56 = -13.76 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:59 2006