Locus 69

Sequence ID	2L_DroMel_CAF1
Location	250,866 – 250,992
Length	126
Max. P	0.817212

overview

Window 7

Location	250,866 – 250,963
Length	97
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	76.90
Mean single sequence MFE	-18.78
Consensus MFE	-10.02
Energy contribution	-10.50
Covariance contribution	0.48
Combinations/Pair	1.10
Mean z-score	-1.96
Structure conservation index	0.53
SVM decision value	0.67
SVM RNA-class probability	0.817212
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 250866 97 + 22407834
GCCAGAAGUCCCGGAUACCCGCCAAUCGAUGGUUCUUCUUUUUAUGCCAUCGAUAUAUUAUUUUAAAUAUCGCUACUGACAUCACUAA---UGUACAAAU
..(((.(((..(((....)))...(((((((((............))))))))).................))).)))((((.....)---)))...... ( -19.20)
>DroSec_CAF1 42614 91 + 1
GCCAGAAAUCCGAGAUACCCGCCAAUCGAUGGUUCUUCUGC---AACCAUCGAUAUAUUAUUUUAAAUAUCUCUA---ACAUCAUUGA---CGUACAAAU
...........((((((.......(((((((((((....).---)))))))))).((......))..))))))..---..........---......... ( -17.50)
>DroSim_CAF1 44258 91 + 1
GCCAGAAAUCCGGGAUACCCGCCAAUCGAUGGUUCUUCUGC---AACCAUCGAUAUAUUAUUUUAAAUAUCUCUA---ACAUCACUAA---CGUACAAAU
...(((....((((...))))...(((((((((((....).---)))))))))).................))).---.....((...---.))...... ( -18.70)
>DroEre_CAF1 44561 84 + 1
GCCAGAAAUCCCGGAUACCU-CCAAUCGAUGGUUGCAGAAC---AACCAUCGAUAUUGUAUGUUCAGUAUCGCUAGUAA------------CGCACCAAU
((..........(((....)-))....((((((((.....)---)))))))(((((((......)))))))........------------.))...... ( -22.20)
>DroYak_CAF1 46097 96 + 1
GCCAGAAAUCCCGGAUAACUGCCAAUCGAUGGAUGUU-CGC---AAGCAUCGAUAUUAUAUUUUCAGUAUCGCUACUAACAUCAGUAACGACGUACCAAU
....((((....((.......)).(((((((..((..-..)---)..))))))).......)))).((((((.((((......)))).)))..))).... ( -16.30)
>consensus
GCCAGAAAUCCCGGAUACCCGCCAAUCGAUGGUUCUUCUGC___AACCAUCGAUAUAUUAUUUUAAAUAUCGCUA_U_ACAUCACUAA___CGUACAAAU
........................((((((((((..........)))))))))).............................................. (-10.02 = -10.50 +   0.48)

alignment

secondary structure

dotplot

Window 8

Location	250,890 – 250,992
Length	102
Sequences	3
Columns	105
Reading direction	forward
Mean pairwise identity	68.30
Mean single sequence MFE	-18.00
Consensus MFE	-8.92
Energy contribution	-9.70
Covariance contribution	0.78
Combinations/Pair	1.20
Mean z-score	-1.89
Structure conservation index	0.50
SVM decision value	0.47
SVM RNA-class probability	0.748654
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 250890 102 + 22407834
AUCGAUGGUUCUUCUUUUUAUGCCAUCGAUAUAUUAUUUUAAAUAUCGCUACUGACAUCACUAA---UGUACAAAUGACAACAAACGGAAAUAUUAUUUAACAAA
(((((((((............)))))))))........(((((((......(((((((.....)---))).....((....))..)))......))))))).... ( -14.80)
>DroEre_CAF1 44584 87 + 1
AUCGAUGGUUGCAGAAC---AACCAUCGAUAUUGUAUGUUCAGUAUCGCUAGUAA------------CGCACCAAUGUUAACAAAAGGAAAUA---UUUAAUAUA
(((((((((((.....)---))))))))))....((((((.(((((..((..(((------------((......)))))......))..)))---)).)))))) ( -21.50)
>DroYak_CAF1 46121 98 + 1
AUCGAUGGAUGUU-CGC---AAGCAUCGAUAUUAUAUUUUCAGUAUCGCUACUAACAUCAGUAACGACGUACCAAUGUCAACAAACGGAAAUC---UUAAAUAUA
.(((((((((((.-...---..)))))((((((........))))))........))))......(((((....)))))........))....---......... ( -17.70)
>consensus
AUCGAUGGUUGUU_AAC___AACCAUCGAUAUUAUAUUUUCAGUAUCGCUACUAACAUCA_UAA___CGUACCAAUGUCAACAAACGGAAAUA___UUUAAUAUA
.((((((((............))))))(((((((......)))))))........................................))................ ( -8.92 =  -9.70 +   0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:59 2006