Locus 884

Sequence ID	X_DroMel_CAF1
Location	2,499,518 – 2,499,632
Length	114
Max. P	0.777307

overview

Window 6

Location	2,499,518 – 2,499,632
Length	114
Sequences	4
Columns	115
Reading direction	forward
Mean pairwise identity	94.47
Mean single sequence MFE	-36.93
Consensus MFE	-30.80
Energy contribution	-30.67
Covariance contribution	-0.12
Combinations/Pair	1.07
Mean z-score	-2.01
Structure conservation index	0.83
SVM decision value	0.55
SVM RNA-class probability	0.777307
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2499518 114 + 22224390
UGCUGCGCUGCAGUCGACAGCGCGGCGACUGCGACGCCUUUAGCGCUGCAGAAGUUUUCGACAGCAGA-AAACAGAAAUAACAAAAGGAAGUGGCUGAGCAAAAGAAGGUCAACA
.((((((((((....).)))))))))..(((((.(((.....))).)))))..((((((.......))-))))..................(((((...(....)..)))))... ( -37.50)
>DroSec_CAF1 18127 114 + 1
UGCUGCGCUGCAGUCGACAGCGCGGCGACUGCGACGCCGUUAGCGCUGCAGAAGUUUUCGCCAGCAGA-GAACAGAAAUAACAAAAGGAAGUGGCUGAGGAAAAGAAGGUCAACA
.((((((((((....).)))))))))..(((((.(((.....))).)))))..((((((.......))-))))..................(((((...........)))))... ( -36.70)
>DroEre_CAF1 18605 114 + 1
UGCUGCGCUGCAGUCGACAGCGCGGCGACGGCUACGCCGAUAGCGCUGCAGAAGUUUUCGCCAGCAGA-AAACAGAAAUAACAAAAGGAAGUGGCUGCGGAAAAGAAGGUCAACA
.((((((((((....).)))))))))(((.((((......)))).((((((..((((((.......))-)))).......((........))..))))))........))).... ( -37.60)
>DroYak_CAF1 18052 115 + 1
UGCUGCGCUGCUGUCGACAGCGCGGCGACUGCUACGCCGAUAGCGCUGCAGAAGUUUUUGCGAGCAGAGAAACAGAAAUAACAAAAGGAAGUGGCUGAGGAAAAGAAGGUCAACA
.((((((((((....).)))))))))((((......((..((((((((((((....))))).)))...............((........)).)))).)).......)))).... ( -35.92)
>consensus
UGCUGCGCUGCAGUCGACAGCGCGGCGACUGCGACGCCGAUAGCGCUGCAGAAGUUUUCGCCAGCAGA_AAACAGAAAUAACAAAAGGAAGUGGCUGAGGAAAAGAAGGUCAACA
.((((((((((....).)))))))))..((((..(((.....)))..))))..((((((.......)).))))..................(((((...........)))))... (-30.80 = -30.67 +  -0.12)

alignment

secondary structure

dotplot

Window 7

Location	2,499,518 – 2,499,632
Length	114
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	94.47
Mean single sequence MFE	-33.38
Consensus MFE	-29.42
Energy contribution	-30.42
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.51
Structure conservation index	0.88
SVM decision value	0.09
SVM RNA-class probability	0.576317
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2499518 114 - 22224390
UGUUGACCUUCUUUUGCUCAGCCACUUCCUUUUGUUAUUUCUGUUU-UCUGCUGUCGAAAACUUCUGCAGCGCUAAAGGCGUCGCAGUCGCCGCGCUGUCGACUGCAGCGCAGCA
.(((((.(.......).)))))....................((((-((.......))))))..((((.((((.....)))).))))..((.(((((((.....))))))).)). ( -34.40)
>DroSec_CAF1 18127 114 - 1
UGUUGACCUUCUUUUCCUCAGCCACUUCCUUUUGUUAUUUCUGUUC-UCUGCUGGCGAAAACUUCUGCAGCGCUAACGGCGUCGCAGUCGCCGCGCUGUCGACUGCAGCGCAGCA
.(((((...........)))))........................-...((((((((......((((.((((.....)))).)))))))))(((((((.....)))))))))). ( -36.70)
>DroEre_CAF1 18605 114 - 1
UGUUGACCUUCUUUUCCGCAGCCACUUCCUUUUGUUAUUUCUGUUU-UCUGCUGGCGAAAACUUCUGCAGCGCUAUCGGCGUAGCCGUCGCCGCGCUGUCGACUGCAGCGCAGCA
.((((......((((((.((((........................-...))))).)))))......))))(((...((((.......))))(((((((.....)))))))))). ( -31.93)
>DroYak_CAF1 18052 115 - 1
UGUUGACCUUCUUUUCCUCAGCCACUUCCUUUUGUUAUUUCUGUUUCUCUGCUCGCAAAAACUUCUGCAGCGCUAUCGGCGUAGCAGUCGCCGCGCUGUCGACAGCAGCGCAGCA
.(((((...........)))))..........................(((((.(((........))).((((.....)))))))))..((.(((((((.....))))))).)). ( -30.50)
>consensus
UGUUGACCUUCUUUUCCUCAGCCACUUCCUUUUGUUAUUUCUGUUU_UCUGCUGGCGAAAACUUCUGCAGCGCUAACGGCGUAGCAGUCGCCGCGCUGUCGACUGCAGCGCAGCA
.((((.............))))............................((((((((......((((.((((.....)))).)))))))))(((((((.....)))))))))). (-29.42 = -30.42 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:15 2006