Locus 6512

Sequence ID	3L_DroMel_CAF1
Location	17,266,894 – 17,267,045
Length	151
Max. P	0.946820

overview

Window 6

Location	17,266,894 – 17,267,013
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.83
Mean single sequence MFE	-38.20
Consensus MFE	-34.52
Energy contribution	-34.76
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.47
Structure conservation index	0.90
SVM decision value	0.93
SVM RNA-class probability	0.883137
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17266894 119 + 23771897
UC-AAAAGGGACGACACGAUGGCCAGGUCAGUUCGCUGUGAUUGGCAGGAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUUGCAGGGACUUACCCAAAU
..-..................((....((..((((((((..(((((..(((((....(((((.....)))))...))))).)))))))))))))..))....)).(((.....))).... ( -36.60)
>DroSec_CAF1 150349 120 + 1
UCCAAAAGGGACGACACGAUGGCCAGGUCAGUUCGCUGUGAUUGGCAGGAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUUGCAGGGACUUACCCAAAU
(((.....)))..........((....((..((((((((..(((((..(((((....(((((.....)))))...))))).)))))))))))))..))....)).(((.....))).... ( -38.10)
>DroSim_CAF1 145401 120 + 1
UCCAAAAGGGACGACCCGAUGGCCAGGUCAGUUCGCUGUGAUUGGCAGAAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUUGCAGGGACUUACCCAAAU
.......(((....(((....((....((..((((((((..(((((..(((((....(((((.....)))))...))))).)))))))))))))..))....)).))).....))).... ( -41.60)
>DroEre_CAF1 153382 119 + 1
UCCAGGA-GGACGACACGAUGGCCAGGUCAGUUCGCUGUGAUUGGCAGGAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUUCCAGGGACUUACCCAAAU
(((....-)))........(((..(((((..((((((((..(((((..(((((....(((((.....)))))...))))).))))))))))))).((.....))...)))))..)))... ( -39.10)
>DroYak_CAF1 157991 118 + 1
UCCAAAA-GGACGACACGAUGGCCAGGUCAGUUCGCUGUGAUUGGCAGGAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUCGCAG-GACUUACCCAAAU
(((....-)))........(((..(((((..((((((((..(((((..(((((....(((((.....)))))...))))).)))))))))))))..(....)....-)))))..)))... ( -35.60)
>consensus
UCCAAAAGGGACGACACGAUGGCCAGGUCAGUUCGCUGUGAUUGGCAGGAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUUGCAGGGACUUACCCAAAU
(((.........(((.(........))))..((((((((..(((((..(((((....(((((.....)))))...))))).))))))))))))).))).......(((.....))).... (-34.52 = -34.76 +   0.24)

alignment

secondary structure

dotplot

Window 7

Location	17,266,933 – 17,267,045
Length	112
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.70
Mean single sequence MFE	-38.44
Consensus MFE	-35.54
Energy contribution	-35.42
Covariance contribution	-0.12
Combinations/Pair	1.06
Mean z-score	-1.46
Structure conservation index	0.92
SVM decision value	1.37
SVM RNA-class probability	0.946820
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17266933 112 + 23771897
AUUGGCAGGAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUUGCAGGGACUUACCCAAAUGGCAAG--------UGUCGUGAGUGGGGUCGUGACACGCG
.(((((..(((((....(((((.....)))))...))))).)))))((((((((.....))))).(..((...((((.(((((...--------.)))))...))))...))..).))). ( -37.90)
>DroSec_CAF1 150389 112 + 1
AUUGGCAGGAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUUGCAGGGACUUACCCAAAUGGCAAG--------UGUCGUGAGUGGGGUCGUGACACGCG
.(((((..(((((....(((((.....)))))...))))).)))))((((((((.....))))).(..((...((((.(((((...--------.)))))...))))...))..).))). ( -37.90)
>DroSim_CAF1 145441 112 + 1
AUUGGCAGAAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUUGCAGGGACUUACCCAAAUGGCAAG--------UGUCGUGAGUGGGGUCGUGACACGCG
.(((((..(((((....(((((.....)))))...))))).)))))((((((((.....))))).(..((...((((.(((((...--------.)))))...))))...))..).))). ( -37.50)
>DroEre_CAF1 153421 120 + 1
AUUGGCAGGAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUUCCAGGGACUUACCCAAAUGGCAAUUGUCGCGGGGUCGUGAGUGGGGUCGUGACACGCG
.(((((..(((((....(((((.....)))))...))))).)))))(((((....((.....)).(((.....))).....))...((((((((..(((....)))..))))))))))). ( -39.90)
>DroYak_CAF1 158030 111 + 1
AUUGGCAGGAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUCGCAG-GACUUACCCAAAUGGCAAC--------GGUCGUGAGUGGGGUCGUGACACGCG
.(((((..(((((....(((((.....)))))...))))).)))))((((((((.....)))))..-(((...((((.(((((...--------.)))))...)))))))......))). ( -39.00)
>consensus
AUUGGCAGGAGUCAUCAGGCAAGUUAAUUGCCCACGAUUUAGCCAAGCGGCGAAAGGAAUUUGCAGGGACUUACCCAAAUGGCAAG________UGUCGUGAGUGGGGUCGUGACACGCG
.(((((..(((((....(((((.....)))))...))))).)))))((((((((.....)))))...(((...((((.(((((............)))))...)))))))......))). (-35.54 = -35.42 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:14 2006