Locus 6002

Sequence ID	3R_DroMel_CAF1
Location	15,795,186 – 15,795,325
Length	139
Max. P	0.923514

overview

Window 7

Location	15,795,186 – 15,795,295
Length	109
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	93.15
Mean single sequence MFE	-32.98
Consensus MFE	-26.51
Energy contribution	-27.60
Covariance contribution	1.09
Combinations/Pair	1.16
Mean z-score	-2.30
Structure conservation index	0.80
SVM decision value	0.19
SVM RNA-class probability	0.624732
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15795186 109 - 27905053
UUUCAAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUCCACACUAUGACAACUUUAUCGUUGACUCUGGCUGGGGUUGGUGA
..(((..((((..((((...(((((.(.((((((((((((......).))))))))))).)..))))).......((((......))))......))))..)))).))) ( -34.10)
>DroSec_CAF1 16567 109 - 1
UUUCAAGCAACUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUCCACACUAUGACAACUUUAUCGUUGACUCUGGCUGGGGUUGGUGA
..(((..((((((((((...(((((.(.((((((((((((......).))))))))))).)..))))).......((((......))))......)))))))))).))) ( -35.50)
>DroSim_CAF1 21042 108 - 1
-UUCAAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUCCACACUAUGACAACUUUAUCGUUGACUCUGGCUGGGGUUGGUGA
-.(((..((((..((((...(((((.(.((((((((((((......).))))))))))).)..))))).......((((......))))......))))..)))).))) ( -34.10)
>DroEre_CAF1 20616 109 - 1
UUUCAAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUUCGCACUAUGACAACUUUAUCGUUGACUCUGGCUAGGAUUGGUGA
..(((..(((((..(((..(((((((((((((((((((((......).)))))))))))..))))).))))....((((......))))......)))..))))).))) ( -31.50)
>DroYak_CAF1 40614 109 - 1
UUUCCAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUUCACACUAUGACAACUUUAUCGUUGACUCUGGCUGGGGUUGGUGA
....((.((((..((((..(((((((((((((((((((((......).)))))))))))..))))).))))....((((......))))......))))..)))).)). ( -37.30)
>DroAna_CAF1 35674 95 - 1
UUUCAAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUUGCUUCACACUAUGACAACUUUAUCGUUGACUCUG--------------
..(((.(((.......)))(((((((((((((((((((((......).)))))))))))..))))).)))).)))((((......))))......-------------- ( -25.40)
>consensus
UUUCAAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUCCACACUAUGACAACUUUAUCGUUGACUCUGGCUGGGGUUGGUGA
.......((((((((((...(((((.(.((((((((((((......).))))))))))).)..))))).......((((......))))......)))))))))).... (-26.51 = -27.60 +   1.09)

alignment

secondary structure

dotplot

Window 8

Location	15,795,226 – 15,795,325
Length	99
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	90.43
Mean single sequence MFE	-31.32
Consensus MFE	-25.31
Energy contribution	-25.07
Covariance contribution	-0.25
Combinations/Pair	1.19
Mean z-score	-3.03
Structure conservation index	0.81
SVM decision value	1.16
SVM RNA-class probability	0.923514
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15795226 99 - 27905053
-------UGCCCAA-CGCGACUGCGUUUGGAAUAAAAAUUUCAAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUCCACA
-------.((((..-.((....))(((((((((....)))))))))......)).)).(((((.(.((((((((((((......).))))))))))).)..))))). ( -32.80)
>DroSec_CAF1 16607 97 - 1
-------UGCCCCC-CGC--CUGCGUUUGGAAUAAAAAUUUCAAGCAACUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUCCACA
-------.((...(-(((--(.(((((((((((....))))))))).((....)))))))))..(.((((((((((((......).))))))))))).)))...... ( -32.20)
>DroSim_CAF1 21082 94 - 1
-------UGCCCCC-CGC--C-GCGUUUGGAAUAAAA--UUCAAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUCCACA
-------......(-(((--(-(.(((((((......--))))))).....))))).)(((((.(.((((((((((((......).))))))))))).)..))))). ( -29.30)
>DroEre_CAF1 20656 95 - 1
-------UGCC-C--CGC--CUGCGUUUGGAAUAAAAAUUUCAAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUUCGCA
-------.(((-(--(((--(((.(((((((((....))))))))).....))).)))).)(((((((((((((((((......).)))))))))))..))))))). ( -32.00)
>DroYak_CAF1 40654 96 - 1
-------UGCCCC--CGC--CUGGGUUUGAAAUAAAAAUUUCCAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUUCACA
-------....((--(((--(((((((.(((((....))))).)))....)))).)))).)(((((((((((((((((......).)))))))))))..)))))... ( -28.20)
>DroAna_CAF1 35700 105 - 1
UCUCUCCUACCCCCCGGC--UUGUGUUUGGAAUAAAAAUUUCAAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUUGCUUCACA
.......(((((.((((.--...((((((((((....))))))))))...)))).).))))(((((((((((((((((......).)))))))))))..)))))... ( -33.40)
>consensus
_______UGCCCCC_CGC__CUGCGUUUGGAAUAAAAAUUUCAAGCAAUUUCGGUGCGGUGGAAGUACAAUUUAUCACAUUGACGCUGAUGAAUUGUUCGCUCCACA
........(((.....((....))(((((((((....)))))))))......)))...(((((.(.((((((((((((......).))))))))))).)..))))). (-25.31 = -25.07 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:13 2006