Locus 7567

Sequence ID	3R_DroMel_CAF1
Location	20,289,678 – 20,289,789
Length	111
Max. P	0.873901

overview

Window 7

Location	20,289,678 – 20,289,789
Length	111
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	91.67
Mean single sequence MFE	-34.10
Consensus MFE	-27.22
Energy contribution	-28.06
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-1.35
Structure conservation index	0.80
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20289678 111 + 27905053
CCGUUCGCUUUGUUCGCUCCUAUGAAAGGAUAUCUCCACUCUUUGGGAGCGCCACGAACUCAAGUGCGAAGUUGUUCGCCAUUCAGGAU---AAUCCAUAUUUGGGUUAUGGGC
(((((((...((..((((((((.((..(((....)))..))..)))))))).)))))))....(.(((((....)))))).....))((---((((((....)))))))).... ( -35.70)
>DroSec_CAF1 98770 112 + 1
--AUUCGCUUUGUUCGCUCCUCUGAAAGGAUAUCUCCACUCUUUGGGAGCACAGCGAACUCAAGUGCGAAGUUGUUCGCCAUUCAGGAUAAUAAUCCAUAUUUGGGUUAUGGGC
--.(((((...(((((((.((((.((((..(......)..)))).))))...)))))))......))))).......(((..........((((((((....)))))))).))) ( -33.90)
>DroSim_CAF1 107075 112 + 1
--GUUCGCUUUGUUCGCUCCUCUGAAAGGAUAUCUCCACUCUUUGGGAGCACAGCGAACUCAAGUGCGAAGUUGUUCGCCAUUCAGGAUAAUAAUCCAUAUUUGGGUUAUGGGC
--(((((((..((..((((((..((..(((....)))..))...)))))))))))))))....(.(((((....))))))..........((((((((....)))))))).... ( -34.80)
>DroEre_CAF1 101580 110 + 1
CCGGUCGCUUUGU-CGCUCCUCUGAAAGGAUACCUGCACUCGUUUGGAGCACAGAGAACUCAAGUGCGAAGUUGUUCGCCAUUCAGGAU---AAUCCAUAUUUGGGUUAUGGGC
(((....((((((-.(((((..(((.(((...)))....)))...)))))))))))((((((((((((((....)))))......((..---...))..))))))))).))).. ( -33.00)
>DroYak_CAF1 103167 111 + 1
UCGUUGGCUUUGUUCGCUCCUCUGAAAGGAUAUCUGCACUCGUUUGGAGCACAGCGAACUCGAGUGCGAAGUUGUUCGCCAUUCAGGAU---AAUCCAUAUUUGGGUUAUGGGC
(((((((((..(..((.((((.....))))..........))..)..))).)))))).((((((((((((....)))).)))))...((---((((((....))))))))))). ( -33.10)
>consensus
_CGUUCGCUUUGUUCGCUCCUCUGAAAGGAUAUCUCCACUCUUUGGGAGCACAGCGAACUCAAGUGCGAAGUUGUUCGCCAUUCAGGAU___AAUCCAUAUUUGGGUUAUGGGC
......(((......((((((..((..(((....)))..))...)))))).((...((((((((((((((....)))))......((((....))))..))))))))).))))) (-27.22 = -28.06 +   0.84)

alignment

secondary structure

dotplot

Window 8

Location	20,289,678 – 20,289,789
Length	111
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	91.67
Mean single sequence MFE	-31.24
Consensus MFE	-27.06
Energy contribution	-27.78
Covariance contribution	0.72
Combinations/Pair	1.10
Mean z-score	-1.51
Structure conservation index	0.87
SVM decision value	0.88
SVM RNA-class probability	0.873901
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20289678 111 - 27905053
GCCCAUAACCCAAAUAUGGAUU---AUCCUGAAUGGCGAACAACUUCGCACUUGAGUUCGUGGCGCUCCCAAAGAGUGGAGAUAUCCUUUCAUAGGAGCGAACAAAGCGAACGG
..(((((.......)))))...---..((......(((((....)))))......((((((..((((((....(((.(((....))).)))...))))))......)))))))) ( -32.80)
>DroSec_CAF1 98770 112 - 1
GCCCAUAACCCAAAUAUGGAUUAUUAUCCUGAAUGGCGAACAACUUCGCACUUGAGUUCGCUGUGCUCCCAAAGAGUGGAGAUAUCCUUUCAGAGGAGCGAACAAAGCGAAU--
..(((((.......))))).........((.((..(((((....)))))..)).))((((((.((((((....(((.(((....))).)))...)))))).....)))))).-- ( -31.20)
>DroSim_CAF1 107075 112 - 1
GCCCAUAACCCAAAUAUGGAUUAUUAUCCUGAAUGGCGAACAACUUCGCACUUGAGUUCGCUGUGCUCCCAAAGAGUGGAGAUAUCCUUUCAGAGGAGCGAACAAAGCGAAC--
..(((((.......)))))................(((((....)))))......(((((((.((((((....(((.(((....))).)))...)))))).....)))))))-- ( -32.40)
>DroEre_CAF1 101580 110 - 1
GCCCAUAACCCAAAUAUGGAUU---AUCCUGAAUGGCGAACAACUUCGCACUUGAGUUCUCUGUGCUCCAAACGAGUGCAGGUAUCCUUUCAGAGGAGCG-ACAAAGCGACCGG
..(((((.......)))))...---...(((((.((((((....)))))..........((((..(((.....)))..))))....).))))).((.((.-.....))..)).. ( -28.60)
>DroYak_CAF1 103167 111 - 1
GCCCAUAACCCAAAUAUGGAUU---AUCCUGAAUGGCGAACAACUUCGCACUCGAGUUCGCUGUGCUCCAAACGAGUGCAGAUAUCCUUUCAGAGGAGCGAACAAAGCCAACGA
..(((((.......)))))...---........((((........(((....)))((((((((..(((.....)))..))....(((((...)))))))))))...)))).... ( -31.20)
>consensus
GCCCAUAACCCAAAUAUGGAUU___AUCCUGAAUGGCGAACAACUUCGCACUUGAGUUCGCUGUGCUCCCAAAGAGUGGAGAUAUCCUUUCAGAGGAGCGAACAAAGCGAACG_
..(((((.......)))))................(((((....)))))......(((((((.((((((....(((.(((....))).)))...)))))).....))))))).. (-27.06 = -27.78 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:08 2006