Locus 24

Sequence ID	Eco_1
Location	3,939,685 – 3,939,805
Length	120
Max. P	0.992204

overview

Window 1

Location	3,939,685 – 3,939,805
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-29.13
Consensus MFE	-27.25
Energy contribution	-27.03
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.09
Structure conservation index	0.94
SVM decision value	0.71
SVM RNA-class probability	0.829853
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 3939685 120 + 1
UUGAUCACUGAAAUUAACCAUCACUCAAUACCCCAUAGAAUUGAGAGUCCAGGAAAAGUUAAGGGAACUCUCAAAUGGGGUACAUUCGCGUGCAAAAUUGCCUAUUAACUCGAGAGAUUA
...................(((.(((..((((((((....((((((((((..((....))...)).)))))))))))))))).....(((........)))..........))).))).. ( -29.90)
>Sfl_1 1 120 + 1
UUGAUCACUGAAAUUAACCAUCACUCAAUACCCCAUAGAAUUGAGAGUCCAGGAAAAGUUAAGGGAACUCUCAAAUGGGGUACAUUCGCGUGCAAAAUUGCCUAUUAACUCGAGAGAUUA
...................(((.(((..((((((((....((((((((((..((....))...)).)))))))))))))))).....(((........)))..........))).))).. ( -29.90)
>Sty_1 1 120 + 1
UUGAUCACUGAAAUUAACCAUCACUCAAUACCCCAUAGAAUUGAGAGUCCAGGAAAAGUUAAGGCGAUUCUCAAAUGGGGUACAUUCGCGUGCAAAAUUGCCUAUUAACUCGAGAGAUUA
...................(((.(((..((((((((....((((((((((..((....))...).))))))))))))))))).....(((........)))..........))).))).. ( -27.60)
>consensus
UUGAUCACUGAAAUUAACCAUCACUCAAUACCCCAUAGAAUUGAGAGUCCAGGAAAAGUUAAGGGAACUCUCAAAUGGGGUACAUUCGCGUGCAAAAUUGCCUAUUAACUCGAGAGAUUA
...................(((.(((..((((((((....((((((((((..((....))..))..)))))))))))))))).....(((........)))..........))).))).. (-27.25 = -27.03 +  -0.22)

alignment

secondary structure

dotplot

Window 2

Location	3,939,685 – 3,939,805
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-36.36
Consensus MFE	-36.08
Energy contribution	-36.19
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-3.38
Structure conservation index	0.99
SVM decision value	2.31
SVM RNA-class probability	0.992204
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 3939685 120 - 1
UAAUCUCUCGAGUUAAUAGGCAAUUUUGCACGCGAAUGUACCCCAUUUGAGAGUUCCCUUAACUUUUCCUGGACUCUCAAUUCUAUGGGGUAUUGAGUGAUGGUUAAUUUCAGUGAUCAA
..(((.((.((((((((..(((....))).(((....(((((((((((((((((((..............))))))))))....)))))))))...)))...)))))))).)).)))... ( -38.04)
>Sfl_1 1 120 - 1
UAAUCUCUCGAGUUAAUAGGCAAUUUUGCACGCGAAUGUACCCCAUUUGAGAGUUCCCUUAACUUUUCCUGGACUCUCAAUUCUAUGGGGUAUUGAGUGAUGGUUAAUUUCAGUGAUCAA
..(((.((.((((((((..(((....))).(((....(((((((((((((((((((..............))))))))))....)))))))))...)))...)))))))).)).)))... ( -38.04)
>Sty_1 1 120 - 1
UAAUCUCUCGAGUUAAUAGGCAAUUUUGCACGCGAAUGUACCCCAUUUGAGAAUCGCCUUAACUUUUCCUGGACUCUCAAUUCUAUGGGGUAUUGAGUGAUGGUUAAUUUCAGUGAUCAA
..(((.((.((((((((..(((....))).(((....(((((((((((((((....((............))..))))))....)))))))))...)))...)))))))).)).)))... ( -33.00)
>consensus
UAAUCUCUCGAGUUAAUAGGCAAUUUUGCACGCGAAUGUACCCCAUUUGAGAGUUCCCUUAACUUUUCCUGGACUCUCAAUUCUAUGGGGUAUUGAGUGAUGGUUAAUUUCAGUGAUCAA
..(((.((.((((((((..(((....))).(((....((((((((((((((((((................)))))))))....)))))))))...)))...)))))))).)).)))... (-36.08 = -36.19 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Dec 7 14:11:35 2006