Locus 6122

Sequence ID	3L_DroMel_CAF1
Location	16,218,614 – 16,218,774
Length	160
Max. P	0.636067

overview

Window 4

Location	16,218,614 – 16,218,734
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	87.42
Mean single sequence MFE	-36.22
Consensus MFE	-25.36
Energy contribution	-25.40
Covariance contribution	0.04
Combinations/Pair	1.28
Mean z-score	-1.84
Structure conservation index	0.70
SVM decision value	0.13
SVM RNA-class probability	0.599249
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16218614 120 + 23771897
GUUGAUGCUUACUUCUGAGAGACCAGUGUCUGAUUUGCCUAAAAAUAUCCUUGGAGACUACACUUCUCAAGGACUCUAAGAGCUGCUCCUUAAGAAGCCAAGACGCUCUUGGGCAAAGUA
.....(((...((((((((.((.((((.(((.((((......)))).((((((.(((.......))))))))).....))))))).))))).)))))(((((.....))))))))..... ( -30.80)
>DroSec_CAF1 37278 120 + 1
GUUGAUGCUUACUUCUGAGAGGCCAGUGUCUGAUUUGCCUAAAAAUAUCCUUGGCGACGACAGUUUUCAAGGACUCUAAGAGGUGCUCCUUAAGAAGCCAAGAGGCUCUUGGGCGAAGCA
.....((((((((((((((((((.(((.....))).)))).......(((((((.(((....))).))))))))))..))))))).(((((((((.(((....)))))))))).)))))) ( -40.10)
>DroSim_CAF1 38875 120 + 1
GUUGAUGCUUACUUCUGAGAGGCCAGUGUCUGAUUUGCCUAAAAAUAUCCUUGGCGACGACAGUUUUCAAGGACUCUAAGAGGUGCUCCUUAAGAAGCCAAGAGGCUCUUGGGCGAAGCA
.....((((((((((((((((((.(((.....))).)))).......(((((((.(((....))).))))))))))..))))))).(((((((((.(((....)))))))))).)))))) ( -40.10)
>DroEre_CAF1 36917 120 + 1
GUUGAUGCCUACUUCUGAAAGACGAGAGCAUGAUUUUCCUAAAAAUAACCUUGGAGUCGAAUGUUUUCAAGGACCCUAAGAGGUGUUUCUUAAGAACCUAAGAGACUCUUGGACGAAGCA
(((....((.((((((.......((((((((....((((.............))))....)))))))).((....)).))))))((((((((......))))))))....))....))). ( -28.82)
>DroYak_CAF1 73851 120 + 1
GUUGAUGCAUAUUUCUGUGAGGCGAGCGCCUGAUUUGCCUAAAAAUAACCUUGAAGACUAAUGUUUUCAAGGACUCUAAGAGGUGCUUCUUAAGGAACCAAGAGGCUCUUGGGCGAAGCA
(((..(((....((((.((((..((((((((.((((......))))..((((((((((....))))))))))........)))))))))))).))))(((((.....)))))))).))). ( -41.30)
>consensus
GUUGAUGCUUACUUCUGAGAGGCCAGUGUCUGAUUUGCCUAAAAAUAUCCUUGGAGACGACAGUUUUCAAGGACUCUAAGAGGUGCUCCUUAAGAAGCCAAGAGGCUCUUGGGCGAAGCA
.....(((((.(((((..((((..(((((((.((((......))))..((((((.(((....))).))))))........))))))))))).)))))(((((.....)))))...))))) (-25.36 = -25.40 +   0.04)

alignment

secondary structure

dotplot

Window 5

Location	16,218,654 – 16,218,774
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	87.58
Mean single sequence MFE	-32.68
Consensus MFE	-22.88
Energy contribution	-23.80
Covariance contribution	0.92
Combinations/Pair	1.16
Mean z-score	-1.92
Structure conservation index	0.70
SVM decision value	0.21
SVM RNA-class probability	0.636067
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16218654 120 + 23771897
AAAAAUAUCCUUGGAGACUACACUUCUCAAGGACUCUAAGAGCUGCUCCUUAAGAAGCCAAGACGCUCUUGGGCAAAGUAAAAUUUUAUCAAAAUUUCACCUCACUUAAGUUGGGGGUCG
.......((((((.(((.......)))))))))......((.((.(..((((((...(((((.....))))).....((.((((((.....)))))).))....))))))..).)).)). ( -28.40)
>DroSec_CAF1 37318 120 + 1
AAAAAUAUCCUUGGCGACGACAGUUUUCAAGGACUCUAAGAGGUGCUCCUUAAGAAGCCAAGAGGCUCUUGGGCGAAGCAAUAUUUUAUCAAAAUUUCACCUAACUUAAGUGGGGGGUCG
.......(((((((.(((....))).)))))))...(((((..((((((((((((.(((....)))))))))).).))))...)))))..........((((..(......)..)))).. ( -34.40)
>DroSim_CAF1 38915 120 + 1
AAAAAUAUCCUUGGCGACGACAGUUUUCAAGGACUCUAAGAGGUGCUCCUUAAGAAGCCAAGAGGCUCUUGGGCGAAGCAAUAUUUUAUCAAAAUUUCACCUAACUUAAGUGGGGGGUCG
.......(((((((.(((....))).)))))))...(((((..((((((((((((.(((....)))))))))).).))))...)))))..........((((..(......)..)))).. ( -34.40)
>DroEre_CAF1 36957 120 + 1
AAAAAUAACCUUGGAGUCGAAUGUUUUCAAGGACCCUAAGAGGUGUUUCUUAAGAACCUAAGAGACUCUUGGACGAAGCAAUAUUUUAUUGAAAUUUCACCGCACUUAAGUUGGGGGUCG
........((((((((........)))))))).((((((((((.((((((((......))))))))))))((..(((.(((((...)))))...)))..)).........)))))).... ( -29.30)
>DroYak_CAF1 73891 120 + 1
AAAAAUAACCUUGAAGACUAAUGUUUUCAAGGACUCUAAGAGGUGCUUCUUAAGGAACCAAGAGGCUCUUGGGCGAAGCAAUAAUUUAUCAAAAUUUUACCGCACCUAUGUUGGGGUUCG
........((((((((((....))))))))))(((((((.(((((((((.....)))(((((.....))))).............................))))))...)))))))... ( -36.90)
>consensus
AAAAAUAUCCUUGGAGACGACAGUUUUCAAGGACUCUAAGAGGUGCUCCUUAAGAAGCCAAGAGGCUCUUGGGCGAAGCAAUAUUUUAUCAAAAUUUCACCUCACUUAAGUUGGGGGUCG
.........(((((.(((....))).)))))((((((((((..((((.((((((.((((....))))))))))...))))...)))))...........(((.((....)))))))))). (-22.88 = -23.80 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:38 2006