Locus 4887

Sequence ID	3L_DroMel_CAF1
Location	13,621,982 – 13,622,073
Length	91
Max. P	0.989895

overview

Window 5

Location	13,621,982 – 13,622,073
Length	91
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	83.82
Mean single sequence MFE	-16.92
Consensus MFE	-13.80
Energy contribution	-13.84
Covariance contribution	0.04
Combinations/Pair	1.06
Mean z-score	-2.60
Structure conservation index	0.82
SVM decision value	2.19
SVM RNA-class probability	0.989895
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13621982 91 + 23771897
----AGUUUAAUAUAAAAUAUACACAUUUUAUACAUUUUAAUUUUUACAUUUAACAACUUCCAAGCAAUUAGCCCGAAAGGGUUGGUCCUC---------UCCC----------------
----.......((((((((......))))))))..................................((((((((....))))))))....---------....---------------- ( -14.80)
>DroSim_CAF1 37997 91 + 1
----AGUUUAAUAUAAAAUAUACACAUUUUAUACAUUUUAAUUUUUACAUUUAACAACUUCCAAGCAAUUAGCCCGAAAGGGUUGGUCCUC---------UCCC----------------
----.......((((((((......))))))))..................................((((((((....))))))))....---------....---------------- ( -14.80)
>DroEre_CAF1 31665 91 + 1
----AGUUUAAUAUAAAAUAUACACAUUUUAUACAUUUUAAUUUUUACAUUUAACAACUUCCAAGCAAUUAGCCCGAAAGGGUUGGUCCUC---------UCCU----------------
----.......((((((((......))))))))..................................((((((((....))))))))....---------....---------------- ( -14.80)
>DroYak_CAF1 36019 100 + 1
----AGUUUAAUAUAAAAUAUACACAUUUUAUACAUUUUAAUUUUUACAUUUAACAACUUCCAAGCAAUUAGCCCGAAAGGGUUGGUCCUCCAACCCCCCUCCU----------------
----.......((((((((......)))))))).........................(((...((.....))..))).(((((((....))))))).......---------------- ( -15.40)
>DroAna_CAF1 65045 113 + 1
CGCCAGUUUAAUAUAAAAUAUACACAUUUUAUACGUUUCAAUUUUUUCAUUUAACAGCUUCCAAGCAAUUAGCUCGGAAGGGUUGGCCCGAGA-------ACCCAGCCACCCCUUGCGAA
(((.((.....((((((((......))))))))........................(((((.(((.....))).)))))((((((.......-------..))))))....)).))).. ( -24.80)
>consensus
____AGUUUAAUAUAAAAUAUACACAUUUUAUACAUUUUAAUUUUUACAUUUAACAACUUCCAAGCAAUUAGCCCGAAAGGGUUGGUCCUC_________UCCC________________
...........((((((((......))))))))..................................((((((((....))))))))................................. (-13.80 = -13.84 +   0.04)

alignment

secondary structure

dotplot

Window 6

Location	13,621,982 – 13,622,073
Length	91
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.82
Mean single sequence MFE	-23.20
Consensus MFE	-17.82
Energy contribution	-17.54
Covariance contribution	-0.28
Combinations/Pair	1.13
Mean z-score	-2.14
Structure conservation index	0.77
SVM decision value	1.13
SVM RNA-class probability	0.919102
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13621982 91 - 23771897
----------------GGGA---------GAGGACCAACCCUUUCGGGCUAAUUGCUUGGAAGUUGUUAAAUGUAAAAAUUAAAAUGUAUAAAAUGUGUAUAUUUUAUAUUAAACU----
----------------((..---------.....))(((.(((((((((.....)))))))))..)))............(((((((((((.....))))))))))).........---- ( -18.70)
>DroSim_CAF1 37997 91 - 1
----------------GGGA---------GAGGACCAACCCUUUCGGGCUAAUUGCUUGGAAGUUGUUAAAUGUAAAAAUUAAAAUGUAUAAAAUGUGUAUAUUUUAUAUUAAACU----
----------------((..---------.....))(((.(((((((((.....)))))))))..)))............(((((((((((.....))))))))))).........---- ( -18.70)
>DroEre_CAF1 31665 91 - 1
----------------AGGA---------GAGGACCAACCCUUUCGGGCUAAUUGCUUGGAAGUUGUUAAAUGUAAAAAUUAAAAUGUAUAAAAUGUGUAUAUUUUAUAUUAAACU----
----------------.((.---------.....))(((.(((((((((.....)))))))))..)))............(((((((((((.....))))))))))).........---- ( -18.10)
>DroYak_CAF1 36019 100 - 1
----------------AGGAGGGGGGUUGGAGGACCAACCCUUUCGGGCUAAUUGCUUGGAAGUUGUUAAAUGUAAAAAUUAAAAUGUAUAAAAUGUGUAUAUUUUAUAUUAAACU----
----------------......((((((((....))))))))(((((((.....)))))))....(((.((((((((.......(((((((.....))))))))))))))).))).---- ( -26.21)
>DroAna_CAF1 65045 113 - 1
UUCGCAAGGGGUGGCUGGGU-------UCUCGGGCCAACCCUUCCGAGCUAAUUGCUUGGAAGCUGUUAAAUGAAAAAAUUGAAACGUAUAAAAUGUGUAUAUUUUAUAUUAAACUGGCG
..(....)((((((((.(..-------...).)))).))))((((((((.....))))))))((((((.(((......)))..)))((((((((((....))))))))))......))). ( -34.30)
>consensus
________________GGGA_________GAGGACCAACCCUUUCGGGCUAAUUGCUUGGAAGUUGUUAAAUGUAAAAAUUAAAAUGUAUAAAAUGUGUAUAUUUUAUAUUAAACU____
....................................(((.(((((((((.....)))))))))..)))............(((((((((((.....)))))))))))............. (-17.82 = -17.54 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:11 2006