Locus 7379

Sequence ID	3R_DroMel_CAF1
Location	19,571,884 – 19,571,987
Length	103
Max. P	0.950364

overview

Window 0

Location	19,571,884 – 19,571,987
Length	103
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	79.82
Mean single sequence MFE	-31.60
Consensus MFE	-19.57
Energy contribution	-20.52
Covariance contribution	0.94
Combinations/Pair	1.05
Mean z-score	-2.70
Structure conservation index	0.62
SVM decision value	1.40
SVM RNA-class probability	0.950364
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19571884 103 + 27905053
UACACAAUG-CUUAG----CCACUUUGGUGCUGGUACUC--GCACUCGCACUCGUAAAUCCCAAUGAAUCCAACGUCGCCUCUUGGCGUGCCAAAGUGGCAUUUGAUUUA
.........-....(----(((((((((..((((.....--((....))..((((........))))..))).....(((....))))..)))))))))).......... ( -32.80)
>DroSec_CAF1 14549 98 + 1
UACACAAUG-CUCAG----CCACUUUGGUGCUGGUACUC--GC----GCACUCGUAAAUCCCCGGGAAUCCAACGUCGCCUC-UGGCGUGCCAAAGUGGCAUUUGAUUUA
.........-....(----(((((((((..((((..(((--(.----...............))))...))).....(((..-.))))..)))))))))).......... ( -30.89)
>DroSim_CAF1 15813 80 + 1
UACACAAUG-CUCAG----CCACUUUGGUGCUGGUACUC--G------CACUCGUAAAU-----------------CGCCUCUUGGCGUGCCAAAGUGGCAUUUGAUUUA
.........-....(----(((((((((..(.(((...(--(------....))...))-----------------)(((....))))..)))))))))).......... ( -29.00)
>DroEre_CAF1 14523 96 + 1
UACACAAUG-CUCAG----CCACUUUGGUGCUGGUGCUC--G------CACUCGUAAAUCGCCG-GAAUCCAGUGUCGCCUCUUGGCGUGCCAAAGUGGCAUUUGAUUUA
.........-....(----(((((((((((((((..((.--(------(...........)).)-)...)))))..((((....)))).))))))))))).......... ( -35.90)
>DroYak_CAF1 15043 96 + 1
UACAAAAUG-CUCAG----CCACUUUGGUGCUGGUACUC--G------CACUCGUAAAUCGCCG-GAAUCCAGCGUCGCCUCUUGGCGUGCCAAAGUGGCAUUUGAUUUA
.........-....(----(((((((((((((((..((.--(------(...........)).)-)...)))))..((((....)))).))))))))))).......... ( -37.00)
>DroAna_CAF1 12777 100 + 1
UACAAGAGGACUCAGUCCACCACUUUGAUACUGGCACUCCAGCACUCGUACUCGUAAAUCCCCCGGAAUCUGACGUCGC----------GCCAAAGUGGCAUUUGAUUUA
..((((.((((...)))).((((((((...((((....))))....(((...(((...(((...))).....)))..))----------).))))))))..))))..... ( -24.00)
>consensus
UACACAAUG_CUCAG____CCACUUUGGUGCUGGUACUC__G______CACUCGUAAAUCCCCG_GAAUCCAACGUCGCCUCUUGGCGUGCCAAAGUGGCAUUUGAUUUA
...........((((....((((((((((((...........................((.....))..........(((....)))))))))))))))...)))).... (-19.57 = -20.52 +   0.94)

alignment

secondary structure

dotplot

Window 1

Location	19,571,884 – 19,571,987
Length	103
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	79.82
Mean single sequence MFE	-33.42
Consensus MFE	-16.68
Energy contribution	-16.83
Covariance contribution	0.16
Combinations/Pair	1.20
Mean z-score	-2.40
Structure conservation index	0.50
SVM decision value	0.51
SVM RNA-class probability	0.765138
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19571884 103 - 27905053
UAAAUCAAAUGCCACUUUGGCACGCCAAGAGGCGACGUUGGAUUCAUUGGGAUUUACGAGUGCGAGUGC--GAGUACCAGCACCAAAGUGG----CUAAG-CAUUGUGUA
..........((((((((((((((((....)))..(((.((((((....))))))))).))))..((((--........))))))))))))----)....-......... ( -36.70)
>DroSec_CAF1 14549 98 - 1
UAAAUCAAAUGCCACUUUGGCACGCCA-GAGGCGACGUUGGAUUCCCGGGGAUUUACGAGUGC----GC--GAGUACCAGCACCAAAGUGG----CUGAG-CAUUGUGUA
....(((...((((((((((..((((.-..))))..(((((((((....))))).....((((----..--..)))))))).)))))))))----)))).-......... ( -35.50)
>DroSim_CAF1 15813 80 - 1
UAAAUCAAAUGCCACUUUGGCACGCCAAGAGGCG-----------------AUUUACGAGUG------C--GAGUACCAGCACCAAAGUGG----CUGAG-CAUUGUGUA
....(((...(((((((((...((((....))))-----------------........(((------(--........))))))))))))----)))).-......... ( -27.30)
>DroEre_CAF1 14523 96 - 1
UAAAUCAAAUGCCACUUUGGCACGCCAAGAGGCGACACUGGAUUC-CGGCGAUUUACGAGUG------C--GAGCACCAGCACCAAAGUGG----CUGAG-CAUUGUGUA
....(((...((((((((((((((((....)))..(.((((...)-))).)........)))------)--..((....))..))))))))----)))).-......... ( -31.00)
>DroYak_CAF1 15043 96 - 1
UAAAUCAAAUGCCACUUUGGCACGCCAAGAGGCGACGCUGGAUUC-CGGCGAUUUACGAGUG------C--GAGUACCAGCACCAAAGUGG----CUGAG-CAUUUUGUA
....(((...((((((((((..((((....))))..(((((((((-((.((.....))..))------.--)))).))))).)))))))))----)))).-......... ( -37.70)
>DroAna_CAF1 12777 100 - 1
UAAAUCAAAUGCCACUUUGGC----------GCGACGUCAGAUUCCGGGGGAUUUACGAGUACGAGUGCUGGAGUGCCAGUAUCAAAGUGGUGGACUGAGUCCUCUUGUA
..........((((((((((.----------.(..(((.((((((....))))))))).)..)..(((((((....))))))))))))))))((((...))))....... ( -32.30)
>consensus
UAAAUCAAAUGCCACUUUGGCACGCCAAGAGGCGACGUUGGAUUC_CGGGGAUUUACGAGUG______C__GAGUACCAGCACCAAAGUGG____CUGAG_CAUUGUGUA
....(((....(((((((((..((((....)))).......................(.(((............))))....))))))))).....)))........... (-16.68 = -16.83 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:30 2006