Locus 7074

Sequence ID	2L_DroMel_CAF1
Location	19,804,753 – 19,804,872
Length	119
Max. P	0.981529

overview

Window 0

Location	19,804,753 – 19,804,872
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.21
Mean single sequence MFE	-31.41
Consensus MFE	-27.02
Energy contribution	-26.42
Covariance contribution	-0.60
Combinations/Pair	1.17
Mean z-score	-1.55
Structure conservation index	0.86
SVM decision value	0.88
SVM RNA-class probability	0.873316
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19804753 119 + 22407834
GUUUCCGCGUGCUUUUAUUUGCACAAUAAAAACAUAACUUU-UUUGUUUCGCUAGAGCUGCUCGUCUAGUAUUAAAGUCGGAUGAAAAAGAAGCGCCAGAGCAAAAUGUGUGAAGUGGAC
...(((((((((........))))........((((....(-(((((((((((....((..((((((..(......)..))))))...)).))))...))))))))..))))..))))). ( -31.20)
>DroSec_CAF1 71397 118 + 1
GUUUCCGCGUGCUUUUAUUUGCACAAUAAAAACAUAACUUU-UUUGUUUCGCUGGAGCUGCUCCUCUAGUAUUAAAGUCGGAUGAAAAAG-AGCGCUAGAGCAAAAUGUGUGAAGUGGAC
...(((((((((........)))).......(((((.((((-((..(((.(((((((......))))))).........)))..))))))-.((......))....)))))...))))). ( -30.70)
>DroSim_CAF1 72628 118 + 1
GUUUCCGCGUGCUUUUAUUUGCACAAUAAAAACAUAACUUU-UUUGUUUCGCUAGAGCUGCUCCUCUAGUAUUAAAGUCGGAUGAAAAAG-AGCGCUAGAGCAAAAUGUGUGAAGUGGAC
...(((((((((........)))).......(((((.((((-((..(((.(((((((......))))))).........)))..))))))-.((......))....)))))...))))). ( -31.00)
>DroEre_CAF1 72816 119 + 1
GUUUCCGCGUGCUUUUAUUUGCACAAUAAAAACAUAACUUUUUUUGUUGCGCUGGAGCUGCUUCUCUAGUAUUAAAGUCGGAUGAAAAGG-AGCGCUAGAGCAAAAUGUGUGAAGUGGAC
...(((((((((........)))).......(((((..........((((.((((.(((.(((.((.................)).))).-))).)))).))))..)))))...))))). ( -31.33)
>DroYak_CAF1 74363 119 + 1
GUUUCCGCGCGCUUUUAUUUGCACAAUAAAAACAUAACUUUUUUUGUUUCGCUAGAGCUGCUCUUCUAGCAUUAAAGUUAGAUGAAAAGG-AGCGCUAGAGCAAAAUGUGUGAAGUGGAC
...(((((.........((..((((....(((((..........))))).(((..(((.(((((((((((......))))))......))-))))))..)))....))))..))))))). ( -32.80)
>consensus
GUUUCCGCGUGCUUUUAUUUGCACAAUAAAAACAUAACUUU_UUUGUUUCGCUAGAGCUGCUCCUCUAGUAUUAAAGUCGGAUGAAAAAG_AGCGCUAGAGCAAAAUGUGUGAAGUGGAC
...((((((((((((((((((.((.....(((((..........))))).(((((((......)))))))......)))))))))).....)))))....(((.....)))...))))). (-27.02 = -26.42 +  -0.60)

alignment

secondary structure

dotplot

Window 1

Location	19,804,753 – 19,804,872
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.21
Mean single sequence MFE	-26.86
Consensus MFE	-23.39
Energy contribution	-23.79
Covariance contribution	0.40
Combinations/Pair	1.09
Mean z-score	-1.88
Structure conservation index	0.87
SVM decision value	1.89
SVM RNA-class probability	0.981529
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19804753 119 - 22407834
GUCCACUUCACACAUUUUGCUCUGGCGCUUCUUUUUCAUCCGACUUUAAUACUAGACGAGCAGCUCUAGCGAAACAAA-AAAGUUAUGUUUUUAUUGUGCAAAUAAAAGCACGCGGAAAC
.(((((((......(((((((..(((((((.(((...................))).)))).)))..)))))))....-.))))..((((((((((.....))))))))))...)))... ( -24.01)
>DroSec_CAF1 71397 118 - 1
GUCCACUUCACACAUUUUGCUCUAGCGCU-CUUUUUCAUCCGACUUUAAUACUAGAGGAGCAGCUCCAGCGAAACAAA-AAAGUUAUGUUUUUAUUGUGCAAAUAAAAGCACGCGGAAAC
.(((((((......(((((((..((((((-(((((..................)))))))).)))..)))))))....-.))))..((((((((((.....))))))))))...)))... ( -29.27)
>DroSim_CAF1 72628 118 - 1
GUCCACUUCACACAUUUUGCUCUAGCGCU-CUUUUUCAUCCGACUUUAAUACUAGAGGAGCAGCUCUAGCGAAACAAA-AAAGUUAUGUUUUUAUUGUGCAAAUAAAAGCACGCGGAAAC
.(((((((......(((((((..((((((-(((((..................)))))))).)))..)))))))....-.))))..((((((((((.....))))))))))...)))... ( -29.57)
>DroEre_CAF1 72816 119 - 1
GUCCACUUCACACAUUUUGCUCUAGCGCU-CCUUUUCAUCCGACUUUAAUACUAGAGAAGCAGCUCCAGCGCAACAAAAAAAGUUAUGUUUUUAUUGUGCAAAUAAAAGCACGCGGAAAC
.(((............((((.((.(.(((-.((((((.................)))))).))).).)).))))........((..((((((((((.....)))))))))).)))))... ( -24.73)
>DroYak_CAF1 74363 119 - 1
GUCCACUUCACACAUUUUGCUCUAGCGCU-CCUUUUCAUCUAACUUUAAUGCUAGAAGAGCAGCUCUAGCGAAACAAAAAAAGUUAUGUUUUUAUUGUGCAAAUAAAAGCGCGCGGAAAC
.(((((((......(((((((..((((((-(.(((.(((.........)))..))).)))).)))..)))))))......))))...(((((((((.....)))))))))....)))... ( -26.70)
>consensus
GUCCACUUCACACAUUUUGCUCUAGCGCU_CUUUUUCAUCCGACUUUAAUACUAGAGGAGCAGCUCUAGCGAAACAAA_AAAGUUAUGUUUUUAUUGUGCAAAUAAAAGCACGCGGAAAC
.(((((((......(((((((..((((((.(((((..................)))))))).)))..)))))))......))))..((((((((((.....))))))))))...)))... (-23.39 = -23.79 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:40 2006