Locus 6232

Sequence ID	3R_DroMel_CAF1
Location	16,288,541 – 16,288,701
Length	160
Max. P	0.889988

overview

Window 5

Location	16,288,541 – 16,288,661
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-38.63
Consensus MFE	-38.27
Energy contribution	-38.27
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.96
Structure conservation index	0.99
SVM decision value	0.96
SVM RNA-class probability	0.889988
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16288541 120 - 27905053
GCCAUGCCAGCUAGCGUCGCCAUUUUGGCAGUCAUUAACGGCAAACUGCUAUAUCAUUUAAUAACCCAAAAGUGAGCUGGUUAAAUGCCGAGCGAUGCGAUGGGGCUCUUUGGCCCAAAU
((((.(((.....((((((((.....))).........(((((....((((..((((((..........))))))..))))....)))))...))))).....)))....))))...... ( -38.90)
>DroSec_CAF1 9174 120 - 1
GCCAUGCCAGCAAGCGUCGCCAUUUUGGCAGUCAUUAACGGCAAACUGCUUCAUCAUUUAAUAACCCAAAAGUGAGCUGGUUAAAUGCCGAGCGAUGCGAUGGGGCUCUUUGGCCCAAAU
((((.(((.....((((((((.....))).........(((((....(((...((((((..........))))))...)))....)))))...))))).....)))....))))...... ( -38.50)
>DroSim_CAF1 1300 120 - 1
GCCAUGCCAGCAAGCGUCGCCAUUUUGGCAGUCAUUAACGGCAAACUGCUUCAUCAUUUAAUAACCCAAAAGUGAGCUGGUUAAAUGCCGAGCGAUGCGAUGGGGCUCUUUGGCCCAAAU
((((.(((.....((((((((.....))).........(((((....(((...((((((..........))))))...)))....)))))...))))).....)))....))))...... ( -38.50)
>consensus
GCCAUGCCAGCAAGCGUCGCCAUUUUGGCAGUCAUUAACGGCAAACUGCUUCAUCAUUUAAUAACCCAAAAGUGAGCUGGUUAAAUGCCGAGCGAUGCGAUGGGGCUCUUUGGCCCAAAU
((((.(((.....((((((((.....))).........(((((....(((...((((((..........))))))...)))....)))))...))))).....)))....))))...... (-38.27 = -38.27 +   0.00)

alignment

secondary structure

dotplot

Window 6

Location	16,288,581 – 16,288,701
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.10
Mean single sequence MFE	-25.87
Consensus MFE	-25.87
Energy contribution	-25.87
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.31
Structure conservation index	1.00
SVM decision value	-0.02
SVM RNA-class probability	0.525384
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16288581 120 - 27905053
UCCUCAGCCCACAAAUUUCCCCCCUUUAACCCCUUCGAUUGCCAUGCCAGCUAGCGUCGCCAUUUUGGCAGUCAUUAACGGCAAACUGCUAUAUCAUUUAAUAACCCAAAAGUGAGCUGG
....((((.(((........................((((((((.....((.......)).....))))))))......(((.....))).....................))).)))). ( -26.20)
>DroSec_CAF1 9214 119 - 1
UCCUCAGCCCACAAAUUUCCC-CCUUUGACCCCUGCGAUUGCCAUGCCAGCAAGCGUCGCCAUUUUGGCAGUCAUUAACGGCAAACUGCUUCAUCAUUUAAUAACCCAAAAGUGAGCUGG
....((((.(((.........-..............((((((((.....((.......)).....))))))))......(((.....))).....................))).)))). ( -25.70)
>DroSim_CAF1 1340 119 - 1
UCCUCAGCCCACAAAUUUGCC-CCUUUAACCCCUGCGAUUGCCAUGCCAGCAAGCGUCGCCAUUUUGGCAGUCAUUAACGGCAAACUGCUUCAUCAUUUAAUAACCCAAAAGUGAGCUGG
....((((.(((.........-..............((((((((.....((.......)).....))))))))......(((.....))).....................))).)))). ( -25.70)
>consensus
UCCUCAGCCCACAAAUUUCCC_CCUUUAACCCCUGCGAUUGCCAUGCCAGCAAGCGUCGCCAUUUUGGCAGUCAUUAACGGCAAACUGCUUCAUCAUUUAAUAACCCAAAAGUGAGCUGG
....((((.(((........................((((((((.....((.......)).....))))))))......(((.....))).....................))).)))). (-25.87 = -25.87 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:14 2006