Locus 7889

Sequence ID	3L_DroMel_CAF1
Location	21,036,952 – 21,037,144
Length	192
Max. P	0.762808

overview

Window 8

Location	21,036,952 – 21,037,071
Length	119
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	97.21
Mean single sequence MFE	-31.13
Consensus MFE	-29.70
Energy contribution	-29.70
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.83
Structure conservation index	0.95
SVM decision value	0.51
SVM RNA-class probability	0.762808
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21036952 119 + 23771897
UCCAAUUGCCGCAAUGUGGCAAAGCAAUCGAUUUAAGCGCCGCAUAAAUUGAAGCCG-GGCUCCAACUUCGAGGAAAACCAAACCAAAAGGUUCCUCCAUGUACAACAUGAUGAAUUGUU
(((..(((((((...))))))).((..((((((((.((...)).)))))))).)).)-))...(((.((((((((..(((.........))))))))((((.....))))..)))))).. ( -30.50)
>DroSec_CAF1 92062 119 + 1
UCCAAUUGCCGCAAUGUGGCAAAGCAAUCGAUUUAAGCGCCGCAUAAAUUGAAGCCA-GGCUCCAACUUCGAGGAAAACCAAACCAAAAGGUUCCUCCAUGUACAACAUGAUGAAUUGUU
.((..(((((((...))))))).((..((((((((.((...)).)))))))).))..-))...(((.((((((((..(((.........))))))))((((.....))))..)))))).. ( -29.40)
>DroEre_CAF1 14099 120 + 1
UCCAAUUGCCGCAAUGUGGCAAAGCAAUCGAUUUAAGCGCCGCAUAAAUUGAAGCCGGGGCUCCAGCGCCGAGGAAAACCAAACCAAAAGGUUCCUCCAUGUACAACAUGAUGAAUUGUU
.....(((((((...)))))))(((((((((((((.((...)).))))))))....((.((....)).))(((((..(((.........))))))))((((.....)))).....))))) ( -33.50)
>consensus
UCCAAUUGCCGCAAUGUGGCAAAGCAAUCGAUUUAAGCGCCGCAUAAAUUGAAGCCG_GGCUCCAACUUCGAGGAAAACCAAACCAAAAGGUUCCUCCAUGUACAACAUGAUGAAUUGUU
.....(((((((...)))))))(((((((((((((.((...)).))))))))(((....)))........(((((..(((.........))))))))((((.....)))).....))))) (-29.70 = -29.70 +  -0.00)

alignment

secondary structure

dotplot

Window 9

Location	21,036,992 – 21,037,111
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.66
Mean single sequence MFE	-38.50
Consensus MFE	-39.09
Energy contribution	-39.53
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-1.55
Structure conservation index	1.02
SVM decision value	0.49
SVM RNA-class probability	0.757286
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21036992 119 - 23771897
UGCCCACUGGCGGCGCAGCAGUCGACAAGUCGACAAAGAAAACAAUUCAUCAUGUUGUACAUGGAGGAACCUUUUGGUUUGGUUUUCCUCGAAGUUGGAGCC-CGGCUUCAAUUUAUGCG
(((((......)).)))((((((((....)))))...((((((......(((((.....)))))..(((((....))))).))))))...((((((((...)-)))))))......))). ( -38.10)
>DroSec_CAF1 92102 119 - 1
UGCCCACUAGCGGCGCAGCAGUCGACAAGUCGACAAAGAAAACAAUUCAUCAUGUUGUACAUGGAGGAACCUUUUGGUUUGGUUUUCCUCGAAGUUGGAGCC-UGGCUUCAAUUUAUGCG
(((((......)).)))((((((((....)))))...((((((......(((((.....)))))..(((((....))))).))))))....((((((((((.-..)))))))))).))). ( -37.80)
>DroEre_CAF1 14139 120 - 1
UGCCCACUAGCGGCGCAGCAGUCGACAAGUCGACAAAGAAAACAAUUCAUCAUGUUGUACAUGGAGGAACCUUUUGGUUUGGUUUUCCUCGGCGCUGGAGCCCCGGCUUCAAUUUAUGCG
.........(((((((....(((((....)))))...((((((......(((((.....)))))..(((((....))))).))))))....)))))(((((....))))).......)). ( -39.60)
>consensus
UGCCCACUAGCGGCGCAGCAGUCGACAAGUCGACAAAGAAAACAAUUCAUCAUGUUGUACAUGGAGGAACCUUUUGGUUUGGUUUUCCUCGAAGUUGGAGCC_CGGCUUCAAUUUAUGCG
(((((......)).)))((((((((....)))))...((((((......(((((.....)))))..(((((....))))).))))))....((((((((((....)))))))))).))). (-39.09 = -39.53 +   0.45)

alignment

secondary structure

dotplot

Window 0

Location	21,037,031 – 21,037,144
Length	113
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	94.33
Mean single sequence MFE	-33.23
Consensus MFE	-31.47
Energy contribution	-31.47
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.58
Structure conservation index	0.95
SVM decision value	0.16
SVM RNA-class probability	0.610241
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21037031 113 - 23771897
GCACUUCUCUGCCACAGUUUUC-------AGUUUGCAAGUUGCCCACUGGCGGCGCAGCAGUCGACAAGUCGACAAAGAAAACAAUUCAUCAUGUUGUACAUGGAGGAACCUUUUGGUUU
......(((.......((((((-------....(((..((((((....))))))...)))(((((....)))))...)))))).......((((.....)))))))(((((....))))) ( -34.30)
>DroSec_CAF1 92141 113 - 1
GCACUUCUCUGCCACAGUUUUC-------AGUUUGCGAGUUGCCCACUAGCGGCGCAGCAGUCGACAAGUCGACAAAGAAAACAAUUCAUCAUGUUGUACAUGGAGGAACCUUUUGGUUU
......(((.......((((((-------.........(((((((......)).))))).(((((....)))))...)))))).......((((.....)))))))(((((....))))) ( -32.60)
>DroEre_CAF1 14179 120 - 1
GCACUUCUCUGCCACAGUUUUCAGUUUUCAGUUUCCAAGUUGCCCACUAGCGGCGCAGCAGUCGACAAGUCGACAAAGAAAACAAUUCAUCAUGUUGUACAUGGAGGAACCUUUUGGUUU
..........((((.((.((((.((((((.........(((((((......)).))))).(((((....)))))...))))))......(((((.....))))).)))).))..)))).. ( -32.80)
>consensus
GCACUUCUCUGCCACAGUUUUC_______AGUUUGCAAGUUGCCCACUAGCGGCGCAGCAGUCGACAAGUCGACAAAGAAAACAAUUCAUCAUGUUGUACAUGGAGGAACCUUUUGGUUU
......(((.......((((((................(((((((......)).))))).(((((....)))))...)))))).......((((.....)))))))(((((....))))) (-31.47 = -31.47 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:35 2006