Locus 471

Sequence ID	X_DroMel_CAF1
Location	1,385,143 – 1,385,250
Length	107
Max. P	0.864084

overview

Window 3

Location	1,385,143 – 1,385,250
Length	107
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	97.76
Mean single sequence MFE	-32.70
Consensus MFE	-29.90
Energy contribution	-30.10
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.48
Structure conservation index	0.91
SVM decision value	0.84
SVM RNA-class probability	0.864084
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1385143 107 + 22224390
CGCUUUGAGCUUGUCGCCUGUCAGCAGUCGCCUGGCACACAAGCGUGCAGCUGCGGAAUUGCAUGCGCAGCCACAAAGCAUCUAACAUGAUUUUAAUUAUUGCACAA
.((((((.((((((....(((((((....).)))))).)))))).....((((((.(......).))))))..))))))............................ ( -32.40)
>DroSec_CAF1 12571 107 + 1
CGCUUUGAGCUUGUCGCCUGUCAGCAGUCGCCUGGCACACAAGCGUGCAGCUGCGGAAUUGCAUGCGCAGCCACAAAGCAUCUAACAUGAUUUUAAUUAUUGCACAA
.((((((.((((((....(((((((....).)))))).)))))).....((((((.(......).))))))..))))))............................ ( -32.40)
>DroSim_CAF1 12296 107 + 1
CGCUUUGAGCUUGUCGCCUGUCAGCAGUCGCCUGGCACACAAGCGUGCAGCUGCGGAAUUGCAUGCGCAGCCACAAAGCAUCUAACAUGAUUUUAAUUAUUGCACAA
.((((((.((((((....(((((((....).)))))).)))))).....((((((.(......).))))))..))))))............................ ( -32.40)
>DroEre_CAF1 11564 106 + 1
CGCUUUGAGCUCGUCGCCUGUCAGC-GUCGCCUGGCACACAAGCGUGCAGCUGCGGAAUUGCAUGCGCAGCCACAAAGCAUCUAACAUGAUUUUAAUUACUGCACAA
.((((((.(((((.(((......))-).))...))).)).))))(((((((((((.(......).))))))........(((......))).........))))).. ( -31.40)
>DroYak_CAF1 841 107 + 1
CGCUUUGAGCUUGUCGCCUGUCAGCAGUCGCCUGGCACACAAGCGUGCAACUGCGGCGUUGCAUGCGCAGCCACAAAGCAUCUAACAUGAUUUUAAUUAUUGCACAA
.((((((.(((.(.(((.((.((((.(((((...((((......))))....))))))))))).)))))))..))))))............................ ( -34.90)
>consensus
CGCUUUGAGCUUGUCGCCUGUCAGCAGUCGCCUGGCACACAAGCGUGCAGCUGCGGAAUUGCAUGCGCAGCCACAAAGCAUCUAACAUGAUUUUAAUUAUUGCACAA
.((((((.((((((....(((((((....).)))))).))))))(((((..((((....))))))))).....))))))............................ (-29.90 = -30.10 +   0.20)

alignment

secondary structure

dotplot

Window 4

Location	1,385,143 – 1,385,250
Length	107
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	97.76
Mean single sequence MFE	-35.17
Consensus MFE	-34.54
Energy contribution	-34.22
Covariance contribution	-0.32
Combinations/Pair	1.07
Mean z-score	-1.30
Structure conservation index	0.98
SVM decision value	0.79
SVM RNA-class probability	0.852369
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1385143 107 - 22224390
UUGUGCAAUAAUUAAAAUCAUGUUAGAUGCUUUGUGGCUGCGCAUGCAAUUCCGCAGCUGCACGCUUGUGUGCCAGGCGACUGCUGACAGGCGACAAGCUCAAAGCG
....((..........(((......)))((((((..((((((.(......).))))))..))(((((((..((.((....))))..)))))))..)))).....)). ( -35.10)
>DroSec_CAF1 12571 107 - 1
UUGUGCAAUAAUUAAAAUCAUGUUAGAUGCUUUGUGGCUGCGCAUGCAAUUCCGCAGCUGCACGCUUGUGUGCCAGGCGACUGCUGACAGGCGACAAGCUCAAAGCG
....((..........(((......)))((((((..((((((.(......).))))))..))(((((((..((.((....))))..)))))))..)))).....)). ( -35.10)
>DroSim_CAF1 12296 107 - 1
UUGUGCAAUAAUUAAAAUCAUGUUAGAUGCUUUGUGGCUGCGCAUGCAAUUCCGCAGCUGCACGCUUGUGUGCCAGGCGACUGCUGACAGGCGACAAGCUCAAAGCG
....((..........(((......)))((((((..((((((.(......).))))))..))(((((((..((.((....))))..)))))))..)))).....)). ( -35.10)
>DroEre_CAF1 11564 106 - 1
UUGUGCAGUAAUUAAAAUCAUGUUAGAUGCUUUGUGGCUGCGCAUGCAAUUCCGCAGCUGCACGCUUGUGUGCCAGGCGAC-GCUGACAGGCGACGAGCUCAAAGCG
.((((((((.......(((......)))........))))))))(((......)))(((....((((((.((((.(((...-)))....))))))))))....))). ( -33.96)
>DroYak_CAF1 841 107 - 1
UUGUGCAAUAAUUAAAAUCAUGUUAGAUGCUUUGUGGCUGCGCAUGCAACGCCGCAGUUGCACGCUUGUGUGCCAGGCGACUGCUGACAGGCGACAAGCUCAAAGCG
..(((((((.......(((......)))....(((((((((....)))..)))))))))))))((((((.((((.(((....)))....))))))))))........ ( -36.60)
>consensus
UUGUGCAAUAAUUAAAAUCAUGUUAGAUGCUUUGUGGCUGCGCAUGCAAUUCCGCAGCUGCACGCUUGUGUGCCAGGCGACUGCUGACAGGCGACAAGCUCAAAGCG
................(((......)))((((((..((((((..........))))))..)..((((((.((((.(((....)))....))))))))))..))))). (-34.54 = -34.22 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:22 2006