Locus 6212

Sequence ID	X_DroMel_CAF1
Location	15,810,685 – 15,810,824
Length	139
Max. P	0.867841

overview

Window 8

Location	15,810,685 – 15,810,784
Length	99
Sequences	3
Columns	99
Reading direction	forward
Mean pairwise identity	83.33
Mean single sequence MFE	-26.10
Consensus MFE	-22.05
Energy contribution	-21.39
Covariance contribution	-0.66
Combinations/Pair	1.09
Mean z-score	-1.51
Structure conservation index	0.84
SVM decision value	0.27
SVM RNA-class probability	0.661928
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15810685 99 + 22224390
UGAUUUUCAAAAUUCGAAACUUUGACAAAUUUUGAAGCUGGGAUUGGAGCUCCUAGAGGUUAUCCCUCUCCUUGCACAGCCAGCGCUCCUAGUUGGCCA
.....((((((((((((....))))...))))))))((.((((..(((...((....))...)))...)))).))...((((((.......)))))).. ( -27.70)
>DroSec_CAF1 12406 90 + 1
UGAUUUCCAAGAUUUCAAACUUUGACCAAUUUUGGAGCUGGGAUUGGAGCUCCUAGAGAC---------ACUAGUACAGCCAGCUGGACUAGUUGGCCA
....(((((((((((((.....)))..))))))))))((((((.......))))))...(---------((((((.(((....))).))))).)).... ( -25.30)
>DroSim_CAF1 12275 90 + 1
UGAUUUCCAAGAUUUCAAACUUUGACCAAUUUUGGAGCUGGGAUUGGAGCUCCUAGAGAC---------ACUAGUACAGCCAGCUGGACUAGUUGGCCA
....(((((((((((((.....)))..))))))))))((((((.......))))))...(---------((((((.(((....))).))))).)).... ( -25.30)
>consensus
UGAUUUCCAAGAUUUCAAACUUUGACCAAUUUUGGAGCUGGGAUUGGAGCUCCUAGAGAC_________ACUAGUACAGCCAGCUGGACUAGUUGGCCA
....((((((((((.............))))))))))((((((.......))))))......................((((((.......)))))).. (-22.05 = -21.39 +  -0.66)

alignment

secondary structure

dotplot

Window 9

Location	15,810,685 – 15,810,784
Length	99
Sequences	3
Columns	99
Reading direction	reverse
Mean pairwise identity	83.33
Mean single sequence MFE	-27.63
Consensus MFE	-19.35
Energy contribution	-20.80
Covariance contribution	1.45
Combinations/Pair	1.05
Mean z-score	-2.36
Structure conservation index	0.70
SVM decision value	0.86
SVM RNA-class probability	0.867841
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15810685 99 - 22224390
UGGCCAACUAGGAGCGCUGGCUGUGCAAGGAGAGGGAUAACCUCUAGGAGCUCCAAUCCCAGCUUCAAAAUUUGUCAAAGUUUCGAAUUUUGAAAAUCA
..........(((((((.......))....(((((.....)))))....))))).........(((((((((((.........)))))))))))..... ( -27.50)
>DroSec_CAF1 12406 90 - 1
UGGCCAACUAGUCCAGCUGGCUGUACUAGU---------GUCUCUAGGAGCUCCAAUCCCAGCUCCAAAAUUGGUCAAAGUUUGAAAUCUUGGAAAUCA
((((((((((((.(((....))).))))))---------.......((((((........)))))).....))))))...................... ( -27.70)
>DroSim_CAF1 12275 90 - 1
UGGCCAACUAGUCCAGCUGGCUGUACUAGU---------GUCUCUAGGAGCUCCAAUCCCAGCUCCAAAAUUGGUCAAAGUUUGAAAUCUUGGAAAUCA
((((((((((((.(((....))).))))))---------.......((((((........)))))).....))))))...................... ( -27.70)
>consensus
UGGCCAACUAGUCCAGCUGGCUGUACUAGU_________GUCUCUAGGAGCUCCAAUCCCAGCUCCAAAAUUGGUCAAAGUUUGAAAUCUUGGAAAUCA
((((((((((((.(((....))).))))).................((((((........))))))....)))))))...................... (-19.35 = -20.80 +   1.45)

alignment

secondary structure

dotplot

Window 0

Location	15,810,707 – 15,810,824
Length	117
Sequences	3
Columns	117
Reading direction	reverse
Mean pairwise identity	84.16
Mean single sequence MFE	-29.63
Consensus MFE	-21.97
Energy contribution	-23.20
Covariance contribution	1.23
Combinations/Pair	1.07
Mean z-score	-1.68
Structure conservation index	0.74
SVM decision value	-0.03
SVM RNA-class probability	0.519015
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15810707 117 - 22224390
UACCGAAUGAAAAACGAACCAGAUUUAGGGCAUUAAAUCAUGGCCAACUAGGAGCGCUGGCUGUGCAAGGAGAGGGAUAACCUCUAGGAGCUCCAAUCCCAGCUUCAAAAUUUGUCA
..((..............((((((((((....))))))).)))((.....)).((((.....))))..))(((((.....))))).((((((........))))))........... ( -29.10)
>DroSec_CAF1 12428 107 - 1
CAACGAAUGGAAAACGAAUAAGAU-UAGGGCACUAAAUCAUGGCCAACUAGUCCAGCUGGCUGUACUAGU---------GUCUCUAGGAGCUCCAAUCCCAGCUCCAAAAUUGGUCA
.....................(((-(((....)).)))).((((((((((((.(((....))).))))))---------.......((((((........)))))).....)))))) ( -29.90)
>DroSim_CAF1 12297 107 - 1
CAACGAAUGGAAAACGAAUAAGAU-UAGGGCACUAAAUCAUGGCCAACUAGUCCAGCUGGCUGUACUAGU---------GUCUCUAGGAGCUCCAAUCCCAGCUCCAAAAUUGGUCA
.....................(((-(((....)).)))).((((((((((((.(((....))).))))))---------.......((((((........)))))).....)))))) ( -29.90)
>consensus
CAACGAAUGGAAAACGAAUAAGAU_UAGGGCACUAAAUCAUGGCCAACUAGUCCAGCUGGCUGUACUAGU_________GUCUCUAGGAGCUCCAAUCCCAGCUCCAAAAUUGGUCA
.....................(((.(((....))).))).((((((((((((.(((....))).))))).................((((((........))))))....))))))) (-21.97 = -23.20 +   1.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:22 2006