Locus 119

Sequence ID	Eco_1
Location	4,390,381 – 4,390,461
Length	80
Max. P	0.999973

overview

Window 0

Location	4,390,381 – 4,390,461
Length	80
Sequences	6
Columns	80
Reading direction	forward
Mean pairwise identity	96.33
Mean single sequence MFE	-32.90
Consensus MFE	-32.79
Energy contribution	-32.68
Covariance contribution	-0.11
Combinations/Pair	1.08
Mean z-score	-2.46
Structure conservation index	1.00
SVM decision value	5.10
SVM RNA-class probability	0.999973
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 4390381 80 + 1
ACGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
..(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))...... ( -33.90)
>Hin_1 1 78 + 1
--GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGCCUCGUUUCCCGCUCCAAA
--(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))...... ( -33.10)
>Lpn_1 1 80 + 1
ACGCGGGAAUAGCUCAGUUGGUAGAGCAUAACCUUGCCAAGGUUAGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
..(((((((..((((........)))).((((((.....))))))(((.(.((....)).).)))..)))))))...... ( -28.50)
>Sfl_1 1 80 + 1
AAGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
.((((((((..((((........))))..((((((((....).)))))))(((((.......)))))))))))))..... ( -34.40)
>Sty_1 1 78 + 1
--GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
--(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))...... ( -33.60)
>Ype_1 1 80 + 1
ACGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
..(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))...... ( -33.90)
>consensus
ACGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
..(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))...... (-32.79 = -32.68 +  -0.11)

alignment

secondary structure

dotplot

Window 1

Location	4,390,381 – 4,390,461
Length	80
Sequences	6
Columns	80
Reading direction	reverse
Mean pairwise identity	96.33
Mean single sequence MFE	-29.20
Consensus MFE	-29.27
Energy contribution	-28.72
Covariance contribution	-0.55
Combinations/Pair	1.10
Mean z-score	-2.03
Structure conservation index	1.00
SVM decision value	4.37
SVM RNA-class probability	0.999883
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 4390381 80 - 1
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCGU
......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..))))))).. ( -29.90)
>Hin_1 1 78 - 1
UUUGGAGCGGGAAACGAGGCUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGC--
......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))-- ( -29.50)
>Lpn_1 1 80 - 1
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCUAACCUUGGCAAGGUUAUGCUCUACCAACUGAGCUAUUCCCGCGU
......(((((((.((((.......))))......((((((.....)))))).((((........))))..))))))).. ( -26.40)
>Sfl_1 1 80 - 1
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCUU
....(((((((((..(((.......)))(((((((((....)))...))))))((((........))))..))))))))) ( -31.30)
>Sty_1 1 78 - 1
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGC--
......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))-- ( -28.20)
>Ype_1 1 80 - 1
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCGU
......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..))))))).. ( -29.90)
>consensus
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCGU
......(((((((.((((.......))))......((((((.....)))))).((((........))))..))))))).. (-29.27 = -28.72 +  -0.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Fri Dec 1 11:08:16 2006