Locus 2091

Sequence ID	X_DroMel_CAF1
Location	5,694,700 – 5,694,793
Length	93
Max. P	0.969461

overview

Window 9

Location	5,694,700 – 5,694,793
Length	93
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	69.66
Mean single sequence MFE	-23.00
Consensus MFE	-13.02
Energy contribution	-13.66
Covariance contribution	0.64
Combinations/Pair	1.09
Mean z-score	-1.78
Structure conservation index	0.57
SVM decision value	1.05
SVM RNA-class probability	0.906879
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5694700 93 + 22224390
UACCGAAUUUCAAAAGCGACGACCACAAGCCGCCGCGCAGAACAGCACCUUCUGCUUCCAAUUC--------UCCAGCUUCUACACGU-UGAAAAA----------UU------UCUG
....(((((......(((.((.........)).)))((((((.......))))))....)))))--------..((((........))-)).....----------..------.... ( -16.00)
>DroSec_CAF1 15449 94 + 1
UCCCGAAUUUCAAAAGCGGCGACCACAAGCCGCCGCGCAGAACAGCACCUUCUGCUUCCAAUUC--------GCCAGCUUCUACACGUGUAAAAAA----------UG------UUCG
...((((((......((((((.........))))))((((((.......))))))....)))))--------).((..((.(((....))).))..----------))------.... ( -22.80)
>DroSim_CAF1 18484 94 + 1
UCCCGAAUUUCAAAAGCGGCGACCACAAGCCGCCGCGCAGAACAGCACCUUCUGCUUCCAAUUC--------GCCAGCUUUUACACGUGUAAAAAA----------UG------UUGG
...((((((......((((((.........))))))((((((.......))))))....)))))--------)(((((((((((....))))))..----------.)------)))) ( -29.70)
>DroYak_CAF1 18205 108 + 1
UCCCGAAUUUCAAAAGCGGCGACCACAAGCCGCCGCGCAGAACAGCACCUUCUGCUCACAAUUCUGUAAUUCUGUAGCUUCUGCACUUGCAAAAAU----------CGUACACUUGCG
....(((((.((...((((((.........))))))((((((.......)))))).........)).)))))(((((...)))))...((((....----------.......)))). ( -26.30)
>DroAna_CAF1 12537 89 + 1
UCCCCA-----AAAAGCGGCGACCACAAGCCGCAGUAAAGAGCAGAAUUUUCGCCUUUUCA--------------GG---CCACUCGG-AGAAAAACAACACCUCAUU------UCGA
((.((.-----....(((((........)))))......(((..((....))((((....)--------------))---)..)))))-.))................------.... ( -20.20)
>consensus
UCCCGAAUUUCAAAAGCGGCGACCACAAGCCGCCGCGCAGAACAGCACCUUCUGCUUCCAAUUC________GCCAGCUUCUACACGUGUAAAAAA__________UG______UCCG
...............(((((........)))))...((((((.......))))))............................................................... (-13.02 = -13.66 +   0.64)

alignment

secondary structure

dotplot

Window 0

Location	5,694,700 – 5,694,793
Length	93
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	69.66
Mean single sequence MFE	-32.78
Consensus MFE	-19.48
Energy contribution	-19.80
Covariance contribution	0.32
Combinations/Pair	1.32
Mean z-score	-1.92
Structure conservation index	0.59
SVM decision value	1.64
SVM RNA-class probability	0.969461
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5694700 93 - 22224390
CAGA------AA----------UUUUUCA-ACGUGUAGAAGCUGGA--------GAAUUGGAAGCAGAAGGUGCUGUUCUGCGCGGCGGCUUGUGGUCGUCGCUUUUGAAAUUCGGUA
....------..----------.......-..........((((((--------...(..(((((.....((((......))))((((((.....)))))))))))..)..)))))). ( -28.90)
>DroSec_CAF1 15449 94 - 1
CGAA------CA----------UUUUUUACACGUGUAGAAGCUGGC--------GAAUUGGAAGCAGAAGGUGCUGUUCUGCGCGGCGGCUUGUGGUCGCCGCUUUUGAAAUUCGGGA
....------((----------.(((((((....))))))).)).(--------(((((....((((((.......))))))((((((((.....))))))))......))))))... ( -34.10)
>DroSim_CAF1 18484 94 - 1
CCAA------CA----------UUUUUUACACGUGUAAAAGCUGGC--------GAAUUGGAAGCAGAAGGUGCUGUUCUGCGCGGCGGCUUGUGGUCGCCGCUUUUGAAAUUCGGGA
((..------((----------.(((((((....))))))).)).(--------(((((....((((((.......))))))((((((((.....))))))))......)))))))). ( -35.50)
>DroYak_CAF1 18205 108 - 1
CGCAAGUGUACG----------AUUUUUGCAAGUGCAGAAGCUACAGAAUUACAGAAUUGUGAGCAGAAGGUGCUGUUCUGCGCGGCGGCUUGUGGUCGCCGCUUUUGAAAUUCGGGA
(....)((((.(----------.(((((((....))))))))))))(((((.(((((..((((((((......)))))).))((((((((.....))))))))))))).))))).... ( -39.00)
>DroAna_CAF1 12537 89 - 1
UCGA------AAUGAGGUGUUGUUUUUCU-CCGAGUGG---CC--------------UGAAAAGGCGAAAAUUCUGCUCUUUACUGCGGCUUGUGGUCGCCGCUUUU-----UGGGGA
..((------((..(....)..))))(((-((((((.(---((--------------(....))))((....)).))))......(((((........)))))....-----.))))) ( -26.40)
>consensus
CCAA______CA__________UUUUUUACACGUGUAGAAGCUGGA________GAAUUGGAAGCAGAAGGUGCUGUUCUGCGCGGCGGCUUGUGGUCGCCGCUUUUGAAAUUCGGGA
...................................(((((((.....................((((((.......))))))..((((((.....))))))))))))).......... (-19.48 = -19.80 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:01 2006