Locus 1244

Sequence ID	2L_DroMel_CAF1
Location	3,289,540 – 3,289,691
Length	151
Max. P	0.781331

overview

Window 5

Location	3,289,540 – 3,289,651
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	82.69
Mean single sequence MFE	-31.29
Consensus MFE	-21.85
Energy contribution	-21.57
Covariance contribution	-0.28
Combinations/Pair	1.20
Mean z-score	-1.65
Structure conservation index	0.70
SVM decision value	0.12
SVM RNA-class probability	0.590931
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3289540 111 - 22407834
AGCGGCUAAGACAAAUCGAUUGCUGUUG---------CAGCCACUUCUUUUGUGGCGCAAACAAUGGCAAGGGCGUAAUUUAUUGAACACUUUGUUGCACUUGCCACCGCCGAGCAAUUC
..((((............((((...(((---------(.(((((.......))))))))).))))((((((.(((....................))).))))))...))))........ ( -33.55)
>DroSec_CAF1 13441 90 - 1
AGUGGCUAAGACAAAUCGAUUGCUGUUG---------CAGCCACUUCUUUUGUGGCGCAAACAAUGGCAAGGGCGUAAUUUAUUGAACACUUUGUUGCA---------------------
.(..((.(((.........(((((((((---------..(((((.......))))).....)))))))))(..((........))..).))).))..).--------------------- ( -25.60)
>DroSim_CAF1 13921 111 - 1
AGUGGCUAAGACAAAUCGAUUGCUGUUG---------CAGCCACUUCUUUUGUGGCGCAAACAAUGGCAAGGGCGUAAUUUAUUGAACACUUUGUUGCACUUGCCACCGCCGAGCAAUUC
.................(((((((.(((---------(.(((((.......)))))))))....(((((((.(((....................))).)))))))......))))))). ( -31.85)
>DroYak_CAF1 13640 111 - 1
AGCGGCUAAGACAAAUCGAUUGCUGUUG---------CAGCCACUUCUUUUGUGGCGCAAACAAUGGCAAGGGCGUAAUUUAUUGAACACUUUGUUGCACUUGCCACCGCCGAGUAAUUC
..((((............((((...(((---------(.(((((.......))))))))).))))((((((.(((....................))).))))))...))))........ ( -33.55)
>DroAna_CAF1 28906 118 - 1
AGCAGCUAAGACAAAUCGAUGGCUGUUGCCGUUGCAGCAGCCACUUCUUUUGUGGCACAAAAAAUAGAAAGGGUAAAAUUUAUUGAACACUUUGUUGCACUCGCCGUCACUUUUAAAC--
.(((((.(((.....((((((((((((((....)))))))))(((..((((((..........))))))..))).......)))))...))).)))))....................-- ( -31.90)
>consensus
AGCGGCUAAGACAAAUCGAUUGCUGUUG_________CAGCCACUUCUUUUGUGGCGCAAACAAUGGCAAGGGCGUAAUUUAUUGAACACUUUGUUGCACUUGCCACCGCCGAGCAAUUC
.(((((.(((.........(((((((((...........(((((.......))))).....)))))))))(..((........))..).))).)))))...................... (-21.85 = -21.57 +  -0.28)

alignment

secondary structure

dotplot

Window 6

Location	3,289,580 – 3,289,691
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.80
Mean single sequence MFE	-35.78
Consensus MFE	-27.96
Energy contribution	-27.28
Covariance contribution	-0.68
Combinations/Pair	1.16
Mean z-score	-1.76
Structure conservation index	0.78
SVM decision value	0.56
SVM RNA-class probability	0.781331
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3289580 111 - 22407834
GUGCAACACUUGUUACACAUACGACAUGUUGGACGUGUGCAGCGGCUAAGACAAAUCGAUUGCUGUUG---------CAGCCACUUCUUUUGUGGCGCAAACAAUGGCAAGGGCGUAAUU
..((....((((((((((...(((....)))...)))(((((((((...((....))....)))))))---------))(((((.......)))))........))))))).))...... ( -34.60)
>DroSec_CAF1 13460 111 - 1
GUGCAACACUUGUUACACAUACGACAUGUUGGACGUGUGCAGUGGCUAAGACAAAUCGAUUGCUGUUG---------CAGCCACUUCUUUUGUGGCGCAAACAAUGGCAAGGGCGUAAUU
..((....((((((((((...(((....)))...)))(((((..((...((....))....))..)))---------))(((((.......)))))........))))))).))...... ( -31.70)
>DroSim_CAF1 13961 111 - 1
GUGCAACACUUGUUACACAUACGACAUGUUGGACGUGUGCAGUGGCUAAGACAAAUCGAUUGCUGUUG---------CAGCCACUUCUUUUGUGGCGCAAACAAUGGCAAGGGCGUAAUU
..((....((((((((((...(((....)))...)))(((((..((...((....))....))..)))---------))(((((.......)))))........))))))).))...... ( -31.70)
>DroYak_CAF1 13680 111 - 1
GUGCAACGCUUGUUACACAUACGACAUGUUGGACGUGUGCAGCGGCUAAGACAAAUCGAUUGCUGUUG---------CAGCCACUUCUUUUGUGGCGCAAACAAUGGCAAGGGCGUAAUU
.....(((((((((((((...(((....)))...)))(((((((((...((....))....)))))))---------))(((((.......)))))........)))))..))))).... ( -34.40)
>DroAna_CAF1 28944 120 - 1
GUGCUGCACUUGUUACACAUACGACAUGUGGGACGUGUGCAGCAGCUAAGACAAAUCGAUGGCUGUUGCCGUUGCAGCAGCCACUUCUUUUGUGGCACAAAAAAUAGAAAGGGUAAAAUU
.((((((((.(((..(((((.....)))))..))).))))))))(((...(((((..((((((((((((....)))))))))).))..))))))))........................ ( -46.50)
>consensus
GUGCAACACUUGUUACACAUACGACAUGUUGGACGUGUGCAGCGGCUAAGACAAAUCGAUUGCUGUUG_________CAGCCACUUCUUUUGUGGCGCAAACAAUGGCAAGGGCGUAAUU
.(((....(((((((..((((((.(......).))))))(((((((...((....))....)))))))...........(((((.......)))))........))))))).)))..... (-27.96 = -27.28 +  -0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:35 2006