Locus 1305

Sequence ID	X_DroMel_CAF1
Location	3,890,296 – 3,890,400
Length	104
Max. P	0.999603

overview

Window 6

Location	3,890,296 – 3,890,400
Length	104
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	97.69
Mean single sequence MFE	-34.14
Consensus MFE	-33.74
Energy contribution	-33.54
Covariance contribution	-0.20
Combinations/Pair	1.06
Mean z-score	-2.26
Structure conservation index	0.99
SVM decision value	3.77
SVM RNA-class probability	0.999603
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3890296 104 + 22224390
GGUGGUGCUCUGCCAUGUUCUGUGGUUAAUUUGUGUGCUUAAAAGCGCUUUACGACUUUGCUGCAUUUAUGCCCCAAGAAUAAGUGCAGAAAUAUGGCGAAGGG
.......((.(((((((((..((.((........(((((....)))))...)).))....((((((((((.........)))))))))).))))))))).)).. ( -29.40)
>DroSec_CAF1 7805 104 + 1
GGUGGUACUCUGCCAUGUUCUGUGGUUAAUUUGUGUGCUUAAAAGCGCUUUACGACUUUGCUGCAUUUAUGCCCCAAGAAUAAGUGCAGAAAUAUGGCGGAGGG
.......((((((((((((..((.((........(((((....)))))...)).))....((((((((((.........)))))))))).)))))))))))).. ( -35.90)
>DroSim_CAF1 4875 104 + 1
GGUGGUACUCUGCCAUGUUCUGUGGUUAAUUUGUGUGCUUAAAAGCGCUUUACGACUUUGCUGCAUUUAUGCCCCAAGAAUAAGUGCAGAAAUAUGGCGGAGGG
.......((((((((((((..((.((........(((((....)))))...)).))....((((((((((.........)))))))))).)))))))))))).. ( -35.90)
>DroEre_CAF1 8420 104 + 1
GGUGGUGCUCUGCCAUGUUCUGUGGUUAAUUUGUGUGCUUAAAAGCGCUUUACGACUUUGCUGCAUUUAUGCCCCAAGAAUAAGUGCAGAAAUAUGGUGGAGCG
......((((..(((((((..((.((........(((((....)))))...)).))....((((((((((.........)))))))))).)))))))..)))). ( -36.70)
>DroYak_CAF1 10274 104 + 1
GGUGGUGCUCUGCCAUGUUCUGUGGUUAAUUUGUGUGCUUAAAAGCGCUUUACGACUUUGCUGCAUUUAUGCCCCAAGAGUAAGUGCAGAAAUAUGGUGGAGGG
.......(((..(((((((..((.((........(((((....)))))...)).))....((((((((((.........)))))))))).)))))))..))).. ( -32.80)
>consensus
GGUGGUGCUCUGCCAUGUUCUGUGGUUAAUUUGUGUGCUUAAAAGCGCUUUACGACUUUGCUGCAUUUAUGCCCCAAGAAUAAGUGCAGAAAUAUGGCGGAGGG
.......((((((((((((..((.((........(((((....)))))...)).))....((((((((((.........)))))))))).)))))))))))).. (-33.74 = -33.54 +  -0.20)

alignment

secondary structure

dotplot

Window 7

Location	3,890,296 – 3,890,400
Length	104
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	97.69
Mean single sequence MFE	-21.58
Consensus MFE	-20.18
Energy contribution	-20.42
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.30
Structure conservation index	0.94
SVM decision value	0.49
SVM RNA-class probability	0.755046
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3890296 104 - 22224390
CCCUUCGCCAUAUUUCUGCACUUAUUCUUGGGGCAUAAAUGCAGCAAAGUCGUAAAGCGCUUUUAAGCACACAAAUUAACCACAGAACAUGGCAGAGCACCACC
..((..(((((..(((((...(((...(((..((.((((.((.((...........)))).)))).))...)))..)))...))))).)))))..))....... ( -20.90)
>DroSec_CAF1 7805 104 - 1
CCCUCCGCCAUAUUUCUGCACUUAUUCUUGGGGCAUAAAUGCAGCAAAGUCGUAAAGCGCUUUUAAGCACACAAAUUAACCACAGAACAUGGCAGAGUACCACC
..(((.(((((..(((((...(((...(((..((.((((.((.((...........)))).)))).))...)))..)))...))))).))))).)))....... ( -22.70)
>DroSim_CAF1 4875 104 - 1
CCCUCCGCCAUAUUUCUGCACUUAUUCUUGGGGCAUAAAUGCAGCAAAGUCGUAAAGCGCUUUUAAGCACACAAAUUAACCACAGAACAUGGCAGAGUACCACC
..(((.(((((..(((((...(((...(((..((.((((.((.((...........)))).)))).))...)))..)))...))))).))))).)))....... ( -22.70)
>DroEre_CAF1 8420 104 - 1
CGCUCCACCAUAUUUCUGCACUUAUUCUUGGGGCAUAAAUGCAGCAAAGUCGUAAAGCGCUUUUAAGCACACAAAUUAACCACAGAACAUGGCAGAGCACCACC
.((((..((((..(((((...(((...(((..((.((((.((.((...........)))).)))).))...)))..)))...))))).))))..))))...... ( -23.20)
>DroYak_CAF1 10274 104 - 1
CCCUCCACCAUAUUUCUGCACUUACUCUUGGGGCAUAAAUGCAGCAAAGUCGUAAAGCGCUUUUAAGCACACAAAUUAACCACAGAACAUGGCAGAGCACCACC
..(((..((((..(((((...((((.(((...(((....)))....)))..)))).(.(((....))).)............))))).))))..)))....... ( -18.40)
>consensus
CCCUCCGCCAUAUUUCUGCACUUAUUCUUGGGGCAUAAAUGCAGCAAAGUCGUAAAGCGCUUUUAAGCACACAAAUUAACCACAGAACAUGGCAGAGCACCACC
..(((.(((((..(((((...(((...(((..((.((((.((.((...........)))).)))).))...)))..)))...))))).))))).)))....... (-20.18 = -20.42 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:11 2006