Locus 5787

Sequence ID	X_DroMel_CAF1
Location	15,019,641 – 15,019,734
Length	93
Max. P	0.993251

overview

Window 1

Location	15,019,641 – 15,019,734
Length	93
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	96.80
Mean single sequence MFE	-18.32
Consensus MFE	-18.39
Energy contribution	-18.23
Covariance contribution	-0.16
Combinations/Pair	1.05
Mean z-score	-1.31
Structure conservation index	1.00
SVM decision value	1.17
SVM RNA-class probability	0.926150
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15019641 93 + 22224390
UCUCUGUUUUUGAACCUUUUGUGUUUA-AGUGAGUACUUUAUUUACCGCACUCUCGCCCUCUGACACUUUGGGGAAGCACUUUCCCACUUGUUC
...........((((.....(((((..-.(((((..................))))).....)))))..(((((((....)))))))...)))) ( -18.37)
>DroSec_CAF1 37277 94 + 1
UCUCUGUUUCUGAACCUUUUGUGUUUAAAGUGAGUACUUUAUUUACCGCACUCUCGCCCUCUGACACUUUGGGGAAGCACUUUCCCACUUGUUC
...........((((.....(((((....(((((..................))))).....)))))..(((((((....)))))))...)))) ( -18.77)
>DroSim_CAF1 40800 94 + 1
UCUCUGUUUCUGAACCUUUUGUGUUUAAAGUGAGUACUUUAUUUACCGCACUCUCGCCCUCUGACACUUUGGGGAAGCACUUUCCCACUUGUUC
...........((((.....(((((....(((((..................))))).....)))))..(((((((....)))))))...)))) ( -18.77)
>DroEre_CAF1 38205 93 + 1
UCUCUGUUUCUGAACCUUUUGUGUUUA-AGUGAGUACUUUAUUUACCGCACUCUCGCCCUCUGACACUUUGGGGAAGUGCUUUCCCACUUGUUC
...........((((.....(((((..-.(((((..................))))).....)))))..(((((((....)))))))...)))) ( -18.37)
>DroYak_CAF1 38362 93 + 1
UCUCCGUUUCUGAACCUUUUGUGUUUA-AGUGAGUACUUUAUUUACCGCACAUUCGCCCUCUGACACUUUGGGGAAGCACUUUCCCACUUGUUC
...........((((.....(((((..-.(((((((...))))))).((......)).....)))))..(((((((....)))))))...)))) ( -17.30)
>consensus
UCUCUGUUUCUGAACCUUUUGUGUUUA_AGUGAGUACUUUAUUUACCGCACUCUCGCCCUCUGACACUUUGGGGAAGCACUUUCCCACUUGUUC
...........((((.....(((((....(((((..................))))).....)))))..(((((((....)))))))...)))) (-18.39 = -18.23 +  -0.16)

alignment

secondary structure

dotplot

Window 2

Location	15,019,641 – 15,019,734
Length	93
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	96.80
Mean single sequence MFE	-22.70
Consensus MFE	-19.94
Energy contribution	-20.34
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.18
Structure conservation index	0.88
SVM decision value	2.38
SVM RNA-class probability	0.993251
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15019641 93 - 22224390
GAACAAGUGGGAAAGUGCUUCCCCAAAGUGUCAGAGGGCGAGAGUGCGGUAAAUAAAGUACUCACU-UAAACACAAAAGGUUCAAAAACAGAGA
((((..(.(((((.....))))))...((((..(((.....((((((..........)))))).))-)..)))).....))))........... ( -23.00)
>DroSec_CAF1 37277 94 - 1
GAACAAGUGGGAAAGUGCUUCCCCAAAGUGUCAGAGGGCGAGAGUGCGGUAAAUAAAGUACUCACUUUAAACACAAAAGGUUCAGAAACAGAGA
((((..(.(((((.....))))))...((((..((((....((((((..........)))))).))))..)))).....))))........... ( -24.30)
>DroSim_CAF1 40800 94 - 1
GAACAAGUGGGAAAGUGCUUCCCCAAAGUGUCAGAGGGCGAGAGUGCGGUAAAUAAAGUACUCACUUUAAACACAAAAGGUUCAGAAACAGAGA
((((..(.(((((.....))))))...((((..((((....((((((..........)))))).))))..)))).....))))........... ( -24.30)
>DroEre_CAF1 38205 93 - 1
GAACAAGUGGGAAAGCACUUCCCCAAAGUGUCAGAGGGCGAGAGUGCGGUAAAUAAAGUACUCACU-UAAACACAAAAGGUUCAGAAACAGAGA
((((..(.(((((.....))))))...((((..(((.....((((((..........)))))).))-)..)))).....))))........... ( -23.00)
>DroYak_CAF1 38362 93 - 1
GAACAAGUGGGAAAGUGCUUCCCCAAAGUGUCAGAGGGCGAAUGUGCGGUAAAUAAAGUACUCACU-UAAACACAAAAGGUUCAGAAACGGAGA
((((..(.(((((.....))))))...((((..(((...((..((((..........)))))).))-)..)))).....))))........... ( -18.90)
>consensus
GAACAAGUGGGAAAGUGCUUCCCCAAAGUGUCAGAGGGCGAGAGUGCGGUAAAUAAAGUACUCACU_UAAACACAAAAGGUUCAGAAACAGAGA
((((..(.(((((.....))))))...((((....((....((((((..........)))))).))....)))).....))))........... (-19.94 = -20.34 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:23 2006