Locus 4119

Sequence ID 3L_DroMel_CAF1
Location 12,020,957 – 12,021,050
Length 93
Max. P 0.907497
window6406

overview

Window 6

Location 12,020,957 – 12,021,050
Length 93
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 71.90
Mean single sequence MFE -16.29
Consensus MFE -2.45
Energy contribution -3.21
Covariance contribution 0.76
Combinations/Pair 1.19
Mean z-score -1.96
Structure conservation index 0.15
SVM decision value 1.05
SVM RNA-class probability 0.907497
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12020957 93 + 23771897
UU----ACAUAUAUACAAAGCACUCUGAAGUACUUGUAAUUCUUAAGGUAUUAGACUA----------CAAACCUACCCUAG--------UUUAUUUCAAGCUU--UUAUAUAUUUC
..----..(((((((.(((((....((((((((((..........))))))(((((((----------...........)))--------)))).)))).))))--))))))))... ( -13.90)
>DroSec_CAF1 38943 92 + 1
UUACUUACAUAUAUACAAAGUACUCGGAAGUACUUGUAAUUCUUAAGGUAUUAGGCUA----------CAAACCUACCCUAG--------UUU-----AAGCCU--UUAUAUAUUUC
...((((...((.(((((.(((((....))))))))))))...))))((((.(((((.----------.((((........)--------)))-----.)))))--..))))..... ( -17.10)
>DroSim_CAF1 38183 92 + 1
UU----ACAUAUAUACAAAGCACUCG-AAGUACUUGUAAUUCUUAAGGUAUUAGGCUA----------CAAACCUACCCUGG--------UUUAUUUCAAGCUU--UUAUAUAUUUC
..----..(((((((.(((((.....-.(((((((..........)))))))......----------.(((((......))--------))).......))))--))))))))... ( -16.80)
>DroEre_CAF1 40920 113 + 1
UU----ACAUAUAUACAAGGCAAUCUAAAGAACAUGUGAUUCCUAGGGUAUUCGGUUACUUGUAUUCCCAAACCUAUCCCAAUUCUUAUUUUUAUUUUUAUUUCAUGUUUGUAUUUC
.(----(((.((((...(((.((((............))))))).(((.....((((.............))))...)))........................)))).)))).... ( -14.02)
>DroYak_CAF1 39322 104 + 1
CU----ACAUAUAUACAAAGCACUCUAAAGAACUUGUGAUUCCUAUGGUAUUGGGUUACUUGUAUUUCCAAACCUACC--------UAUUUUUAUUUCAAGUUU-UUUUUGUAUAUU
..----....(((((((((........(((((((((.(((......(((((((((...........)))))...))))--------.......))).)))))))-))))))))))). ( -19.62)
>consensus
UU____ACAUAUAUACAAAGCACUCUAAAGUACUUGUAAUUCUUAAGGUAUUAGGCUA__________CAAACCUACCCUAG________UUUAUUUCAAGCUU__UUAUAUAUUUC
........((((((((((.(.(((....))).)))))).......(((...((((.................)))).))).............................)))))... ( -2.45 =  -3.21 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:55 2006