Locus 3859

Sequence ID	X_DroMel_CAF1
Location	10,287,506 – 10,287,624
Length	118
Max. P	0.699868

overview

Window 9

Location	10,287,506 – 10,287,624
Length	118
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	87.34
Mean single sequence MFE	-28.43
Consensus MFE	-17.23
Energy contribution	-18.48
Covariance contribution	1.25
Combinations/Pair	1.00
Mean z-score	-2.98
Structure conservation index	0.61
SVM decision value	0.35
SVM RNA-class probability	0.699868
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10287506 118 + 22224390
AUAAAGUCAAGUCAAAGGAUUAUU-CCCAAAAACCCAGCACGCAAAAAUGUCUAAUGGAUUAAGUUU-UAUAAUUGGGGAGAUCCUUUUGCUUGAGUAACUAAUUAAUAUAAUUAGGGUA
....(.((((((.((((((((.((-((((((((((((....(((....)))....))).....))))-.....))))))))))))))).)))))).)..(((((((...))))))).... ( -30.70)
>DroSec_CAF1 28319 117 + 1
AUAAAGUCAAGUCAAAGGAUUAUU-CCCAAGUAC-CAGAACGCAAAAAUGUCUAAUGGAUUAAGUUU-UAUAAUUAGGGUGAUCCUUUCGCUUGAGUAACUAAUUAAAAUAAUUAGGGUA
....(.((((((.(((((((((..-(((.....(-((....(((....)))....)))....((((.-...)))).)))))))))))).)))))).)..(((((((...))))))).... ( -28.30)
>DroEre_CAF1 15249 118 + 1
AUAAAGUCAAGUCAAAGGAUUAGUGCCCAAGUAC-CGACACACAAAAAUUUCGAAUGGAUUAAGUUU-UAUAAUUGAGAAGAUCCUUUCGCUUGAGUAACUAAUUAACAUAAUUAGCGUU
....(.((((((.((((((((.((((....))))-.............(((((((((((......))-)))..)))))).)))))))).)))))).)..(((((((...))))))).... ( -24.90)
>DroYak_CAF1 15853 118 + 1
CCAAAGUCAAGUCAAAGGAUUAAU-CCCAUGUAG-CAGCACACAAAAAUCCCUAAUGGAUUAAGUUUCUAUAAUUGGGAAGUACCUUUCGCUUGAGUAACUAAUUAAAAUAAUUAGGGUU
((..(.((((((.((((((((..(-(((((((((-.(((.......(((((.....)))))..))).)))))..)))))))).))))).)))))).)..(((((((...))))))))).. ( -29.80)
>consensus
AUAAAGUCAAGUCAAAGGAUUAUU_CCCAAGUAC_CAGCACACAAAAAUGUCUAAUGGAUUAAGUUU_UAUAAUUGGGAAGAUCCUUUCGCUUGAGUAACUAAUUAAAAUAAUUAGGGUA
....(.((((((.((((((((....(((((...........................................)))))..)))))))).)))))).)..(((((((...))))))).... (-17.23 = -18.48 +   1.25)

alignment

secondary structure

dotplot

Window 0

Location	10,287,506 – 10,287,624
Length	118
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	87.34
Mean single sequence MFE	-23.22
Consensus MFE	-16.39
Energy contribution	-17.27
Covariance contribution	0.88
Combinations/Pair	1.06
Mean z-score	-1.56
Structure conservation index	0.71
SVM decision value	0.10
SVM RNA-class probability	0.581058
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10287506 118 - 22224390
UACCCUAAUUAUAUUAAUUAGUUACUCAAGCAAAAGGAUCUCCCCAAUUAUA-AAACUUAAUCCAUUAGACAUUUUUGCGUGCUGGGUUUUUGGG-AAUAAUCCUUUGACUUGACUUUAU
....(((((((...)))))))....(((((..(((((((...(((((.....-......((((((.((..((....))..)).)))))).)))))-....)))))))..)))))...... ( -25.20)
>DroSec_CAF1 28319 117 - 1
UACCCUAAUUAUUUUAAUUAGUUACUCAAGCGAAAGGAUCACCCUAAUUAUA-AAACUUAAUCCAUUAGACAUUUUUGCGUUCUG-GUACUUGGG-AAUAAUCCUUUGACUUGACUUUAU
....(((((((...)))))))....(((((..(((((((...(((((.(((.-.(((.(((..............))).)))...-))).)))))-....)))))))..)))))...... ( -19.84)
>DroEre_CAF1 15249 118 - 1
AACGCUAAUUAUGUUAAUUAGUUACUCAAGCGAAAGGAUCUUCUCAAUUAUA-AAACUUAAUCCAUUCGAAAUUUUUGUGUGUCG-GUACUUGGGCACUAAUCCUUUGACUUGACUUUAU
...((((((((...))))))))...(((((..(((((((..........(((-(((.................))))))(((((.-(....).)))))..)))))))..)))))...... ( -20.83)
>DroYak_CAF1 15853 118 - 1
AACCCUAAUUAUUUUAAUUAGUUACUCAAGCGAAAGGUACUUCCCAAUUAUAGAAACUUAAUCCAUUAGGGAUUUUUGUGUGCUG-CUACAUGGG-AUUAAUCCUUUGACUUGACUUUGG
....(((((((...)))))))....(((((..(((((....(((((..(((((..((..(((((.....)))))...))...)))-.))..))))-).....)))))..)))))...... ( -27.00)
>consensus
AACCCUAAUUAUUUUAAUUAGUUACUCAAGCGAAAGGAUCUCCCCAAUUAUA_AAACUUAAUCCAUUAGACAUUUUUGCGUGCUG_GUACUUGGG_AAUAAUCCUUUGACUUGACUUUAU
....(((((((...)))))))....(((((..(((((((...(((((.(((....((.(((..............))).)).....))).))))).....)))))))..)))))...... (-16.39 = -17.27 +   0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:29 2006