Locus 1734

Sequence ID	3L_DroMel_CAF1
Location	5,013,590 – 5,013,699
Length	109
Max. P	0.582704

overview

Window 3

Location	5,013,590 – 5,013,699
Length	109
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.24
Mean single sequence MFE	-34.58
Consensus MFE	-22.73
Energy contribution	-21.98
Covariance contribution	-0.75
Combinations/Pair	1.26
Mean z-score	-1.72
Structure conservation index	0.66
SVM decision value	0.10
SVM RNA-class probability	0.582704
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5013590 109 - 23771897
GGCUGCCUUAUUUUAAUGCAAACGCCAGGAGCCGCG--ACUGGCAUUAGGUUAAUUUGC--UGCGGCUU-GUGUUUAAAUUAACUCA-GGCUGCACU--CGA---GGCAAAUAACCGGGC
....((((...............(((((........--.)))))....(((((.(((((--((((((((-(.(((......))).))-))))))...--...---))))))))))))))) ( -38.30)
>DroPse_CAF1 294420 112 - 1
UGCUGCUUCCAUUUAAUGCAGAAACCAUGAGCCGCGGAGCUGGCAUUAGGUUAAUUUGCCGUGUGGCUUCGUGUUUAAAUUAACUCUCGGCUACACUCUCGA---AGCAAAUAUC-----
...((((((........(((((((((.((((((((...)).))).)))))))..))))).((((((((..(.(((......))).)..))))))))....))---))))......----- ( -33.80)
>DroEre_CAF1 237448 109 - 1
GGCUGCCUUAUUUUAAUGCAAACGCCAGGAGCCGCG--ACUAGCAUUAGGUUAAUUUGC--UGUGGCUU-GUGCUUAAAUUAACUCA-GGCUGCACU--CGA---GGCAAAUAACCGGGC
....((((.....((((((...(((........)))--....))))))(((((.(((((--((..((((-(.(..........).))-)))..)...--...---))))))))))))))) ( -30.70)
>DroYak_CAF1 242942 109 - 1
UGCUGCCUUAUUUUAAUGCAAAUGUCAGGAGCCGCG--ACUGGCAUUAGGUUAAUUUGC--UGCGGCUU-GUGUUUAAAUUAACUCA-GGCUGCACU--CGA---GGCAAAUAACCGGGC
....((((.....((((((....(((.(....)..)--))..))))))(((((.(((((--((((((((-(.(((......))).))-))))))...--...---))))))))))))))) ( -38.80)
>DroAna_CAF1 244453 110 - 1
GCCUGCCUCAUUUUAAUGCAGAGGCCAAGAGCCGCG--ACUGGCAUUAGGUUAAUUUGC--AGUGGCUU-GUGUUUAAAUUAACUCU-CGCUGCCCU--CGAGAAGGCAACU--CCGAGU
((((..(((.......((((((.(((.((.((((..--..)))).)).)))...)))))--)(..((..-(.(((......))).).-.))..)...--.))).))))....--...... ( -32.10)
>DroPer_CAF1 266012 112 - 1
UGCUGCUUCCAUUUAAUGCAGAAACCAUGAGCCGCGGAGCUGGCAUUAGGUUAAUUUGCCGUGUGGCUUCGUGUUUAAAUUAACUCUCGGCUACACUCUCGA---AGCAAAUAUC-----
...((((((........(((((((((.((((((((...)).))).)))))))..))))).((((((((..(.(((......))).)..))))))))....))---))))......----- ( -33.80)
>consensus
GGCUGCCUCAUUUUAAUGCAAAAGCCAGGAGCCGCG__ACUGGCAUUAGGUUAAUUUGC__UGUGGCUU_GUGUUUAAAUUAACUCA_GGCUGCACU__CGA___GGCAAAUAACCGGGC
...((((..........(((((.(((.((.((((......)))).)).)))...)))))...((((((....(((......)))....))))))...........))))........... (-22.73 = -21.98 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:49 2006