Locus 3016

Sequence ID	X_DroMel_CAF1
Location	8,060,591 – 8,060,682
Length	91
Max. P	0.966657

overview

Window 8

Location	8,060,591 – 8,060,682
Length	91
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	86.13
Mean single sequence MFE	-29.48
Consensus MFE	-21.03
Energy contribution	-21.59
Covariance contribution	0.56
Combinations/Pair	1.13
Mean z-score	-2.85
Structure conservation index	0.71
SVM decision value	1.60
SVM RNA-class probability	0.966657
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8060591 91 + 22224390
UGU-GUGUGCGUGCCGAAGAGUAAGAGUACGAGUUAUUUUU---------GUACCUGCUCUAUAGCAGCUCUUCCUCUUCUUCAGGAGGGUUCACUUACAA
(((-(.(((...((((((((((.((.(((((((.....)))---------))))))(((....))).)))))))((((......))))))).))).)))). ( -30.00)
>DroSec_CAF1 42576 92 + 1
UGUGGUGUGUGUGCCGAAGAGUAAGAGUACGAGUUAUUUUU---------GUACCUGCUCUAUAGCAGCUCUUCCUCUUCUUGAGGAAGGUUCACUUACAA
(((((.(((..(((...((((((.(.(((((((.....)))---------)))))))))))...)))((.(((((((.....))))))))).)))))))). ( -32.00)
>DroSim_CAF1 18315 84 + 1
--------GUGUGCCGAAGAGUAAGAGUACGAGUUAUUUUU---------GUACCUGCUCUAUAGCAGCUCUUCCUCUUCUUCAGGAGGGUUCACUUACAA
--------(((.((((((((((.((.(((((((.....)))---------))))))(((....))).)))))))((((......))))))).)))...... ( -28.30)
>DroEre_CAF1 30492 99 + 1
-UU-GUGUGUGUGCCGAGAAGUAAGAGUACGAGUUCUUUUUGUGCCUUUUGUACCUGCUCUAUAGCUACUCUUCCUCUUCUUCGGGAGGGUUUACUUACAA
-.(-(((.(((.(((((..((((((.(((((((.....))))))))).........(((....)))))))..))..((((....))))))).))).)))). ( -25.70)
>DroYak_CAF1 36421 98 + 1
--U-GUGUGUGUGCCGAAGAGUAAGAGUACGAGUUAUUUUUGUACCUUUUGUACCUGCUCUAUAGCUGCUCUUCCUCUUCUUCAGGAGGGUUCACUUACAA
--(-(((.(((.(((((((((((((.(((((((.....))))))))).........(((....)))))))))))((((......))))))).))).)))). ( -31.40)
>consensus
__U_GUGUGUGUGCCGAAGAGUAAGAGUACGAGUUAUUUUU_________GUACCUGCUCUAUAGCAGCUCUUCCUCUUCUUCAGGAGGGUUCACUUACAA
....(((.(((.((((((((((.((.((((....................))))))(((....))).)))))))(((((....)))))))).))).))).. (-21.03 = -21.59 +   0.56)

alignment

secondary structure

dotplot

Window 9

Location	8,060,591 – 8,060,682
Length	91
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	86.13
Mean single sequence MFE	-22.10
Consensus MFE	-16.09
Energy contribution	-16.25
Covariance contribution	0.16
Combinations/Pair	1.17
Mean z-score	-1.89
Structure conservation index	0.73
SVM decision value	0.43
SVM RNA-class probability	0.733847
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8060591 91 - 22224390
UUGUAAGUGAACCCUCCUGAAGAAGAGGAAGAGCUGCUAUAGAGCAGGUAC---------AAAAAUAACUCGUACUCUUACUCUUCGGCACGCACAC-ACA
......(((...((((........))))....((((((..((((..(((((---------...........)))))....))))..)))).)).)))-... ( -22.70)
>DroSec_CAF1 42576 92 - 1
UUGUAAGUGAACCUUCCUCAAGAAGAGGAAGAGCUGCUAUAGAGCAGGUAC---------AAAAAUAACUCGUACUCUUACUCUUCGGCACACACACCACA
......(((...(((((((.....))))))).(.((((..((((..(((((---------...........)))))....))))..))))).)))...... ( -25.30)
>DroSim_CAF1 18315 84 - 1
UUGUAAGUGAACCCUCCUGAAGAAGAGGAAGAGCUGCUAUAGAGCAGGUAC---------AAAAAUAACUCGUACUCUUACUCUUCGGCACAC--------
......(((..(((....)..((((((.((((.(((((....)))))((((---------...........)))))))).)))))))))))..-------- ( -20.90)
>DroEre_CAF1 30492 99 - 1
UUGUAAGUAAACCCUCCCGAAGAAGAGGAAGAGUAGCUAUAGAGCAGGUACAAAAGGCACAAAAAGAACUCGUACUCUUACUUCUCGGCACACACAC-AA-
................((((.((((...((((((((((....)))..((.......))..............))))))).)))))))).........-..- ( -18.40)
>DroYak_CAF1 36421 98 - 1
UUGUAAGUGAACCCUCCUGAAGAAGAGGAAGAGCAGCUAUAGAGCAGGUACAAAAGGUACAAAAAUAACUCGUACUCUUACUCUUCGGCACACACAC-A--
......(((.......(((((((((((...(((..(((....)))..((((.....))))........)))...))))...)))))))......)))-.-- ( -23.22)
>consensus
UUGUAAGUGAACCCUCCUGAAGAAGAGGAAGAGCUGCUAUAGAGCAGGUAC_________AAAAAUAACUCGUACUCUUACUCUUCGGCACACACAC_A__
......(((..(((((........)))(((((((((((....)))))((((....................)))).....))))))))..)))........ (-16.09 = -16.25 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:00 2006