Locus 6614

Sequence ID	3L_DroMel_CAF1
Location	17,583,458 – 17,583,564
Length	106
Max. P	0.999986

overview

Window 3

Location	17,583,458 – 17,583,564
Length	106
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	92.92
Mean single sequence MFE	-23.88
Consensus MFE	-22.32
Energy contribution	-22.56
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-3.34
Structure conservation index	0.93
SVM decision value	5.41
SVM RNA-class probability	0.999986
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17583458 106 + 23771897
UUUUAUAUAAUGCAAUCUCGUAAACAAAGCAAGCGUUUCGCACAUUUUCUUUGAAAACAUGUCAAAUACUCGAUAUGUUAACAAAGAAAAGCUUUUAUUAGUACUA
...................(((...(((((..(((...)))...(((((((((..((((((((........))))))))..))))))))))))))......))).. ( -24.00)
>DroSec_CAF1 19826 106 + 1
UUUUAUAUAAUGCAGUCUCGUAAACAAAGCAAGCGUUUCGCACAUUUUCUUUGAAAACAUGUCAAAUACUCGAUAUGUUAACAAAGAAAAGCUUUUACUUGUACUA
.............((((..(((((...(((..(((...)))...(((((((((..((((((((........))))))))..)))))))))))))))))..).))). ( -25.40)
>DroSim_CAF1 22509 106 + 1
UUUUAUAUAAUGCAAUCUCGUAAACAAAGCAAGCGUUUCGCACAUUUUCUUUAAAAACAUGUCAAAUACUCGAUAUGUUAACAAAGAAAAGCUUUUACUUGUACUA
..........(((((....(((((...(((..(((...)))...((((((((...((((((((........))))))))...)))))))))))))))))))))... ( -21.80)
>DroEre_CAF1 28599 106 + 1
UUCUAUAGAAAGCAAUUUGGUAAACAAAGCAAGCGUUUCGCACAUUUCCUUUGAAAACAUGUCAAAUACUCGAUAUGUUAACAAAGAAGAGCUUUUAUUAGUACUU
..(((..((((((..((((.....))))....(((...))).......(((((..((((((((........))))))))..)))))....))))))..)))..... ( -22.50)
>DroYak_CAF1 29824 106 + 1
UUUAAUAGCAAGCAAUUUUGUAAACAAAGCGAGCGUUUCGCACAUUUUCUUUGAAAACAUGUCAAAUACUCGAUAUGUUAACAAAGAAAAGCUUUUACUAGUACUU
.....(((.((((...((((....))))(((((...)))))...(((((((((..((((((((........))))))))..)))))))))))))...)))...... ( -25.70)
>consensus
UUUUAUAUAAUGCAAUCUCGUAAACAAAGCAAGCGUUUCGCACAUUUUCUUUGAAAACAUGUCAAAUACUCGAUAUGUUAACAAAGAAAAGCUUUUACUAGUACUA
...................(((...(((((..(((...)))...(((((((((..((((((((........))))))))..))))))))))))))......))).. (-22.32 = -22.56 +   0.24)

alignment

secondary structure

dotplot

Window 4

Location	17,583,458 – 17,583,564
Length	106
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	92.92
Mean single sequence MFE	-22.52
Consensus MFE	-20.52
Energy contribution	-20.40
Covariance contribution	-0.12
Combinations/Pair	1.07
Mean z-score	-1.75
Structure conservation index	0.91
SVM decision value	2.19
SVM RNA-class probability	0.989972
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17583458 106 - 23771897
UAGUACUAAUAAAAGCUUUUCUUUGUUAACAUAUCGAGUAUUUGACAUGUUUUCAAAGAAAAUGUGCGAAACGCUUGCUUUGUUUACGAGAUUGCAUUAUAUAAAA
..............((...((((.((.((((...(((((.((((.(((((((((...)))))))))))))..)))))...)))).))))))..))........... ( -21.50)
>DroSec_CAF1 19826 106 - 1
UAGUACAAGUAAAAGCUUUUCUUUGUUAACAUAUCGAGUAUUUGACAUGUUUUCAAAGAAAAUGUGCGAAACGCUUGCUUUGUUUACGAGACUGCAUUAUAUAAAA
((((....(((((((((((((((((..(((((.((((....)))).)))))..)))))))))...(((...)))..)))...)))))...))))............ ( -23.50)
>DroSim_CAF1 22509 106 - 1
UAGUACAAGUAAAAGCUUUUCUUUGUUAACAUAUCGAGUAUUUGACAUGUUUUUAAAGAAAAUGUGCGAAACGCUUGCUUUGUUUACGAGAUUGCAUUAUAUAAAA
..(((((.((....))(((((((((..(((((.((((....)))).)))))..)))))))))))))).....((...(((.......)))...))........... ( -20.60)
>DroEre_CAF1 28599 106 - 1
AAGUACUAAUAAAAGCUCUUCUUUGUUAACAUAUCGAGUAUUUGACAUGUUUUCAAAGGAAAUGUGCGAAACGCUUGCUUUGUUUACCAAAUUGCUUUCUAUAGAA
.....(((...(((((.....((((..((((...(((((.((((.((((((((.....))))))))))))..)))))...))))...))))..)))))...))).. ( -20.60)
>DroYak_CAF1 29824 106 - 1
AAGUACUAGUAAAAGCUUUUCUUUGUUAACAUAUCGAGUAUUUGACAUGUUUUCAAAGAAAAUGUGCGAAACGCUCGCUUUGUUUACAAAAUUGCUUGCUAUUAAA
......(((((.((((.....(((((.((((...(((((.((((.(((((((((...)))))))))))))..)))))...)))).)))))...))))..))))).. ( -26.40)
>consensus
UAGUACUAGUAAAAGCUUUUCUUUGUUAACAUAUCGAGUAUUUGACAUGUUUUCAAAGAAAAUGUGCGAAACGCUUGCUUUGUUUACGAGAUUGCAUUAUAUAAAA
..(((......((((((((((((((..(((((.((((....)))).)))))..)))))))))...(((...)))..)))))...)))................... (-20.52 = -20.40 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:42 2006