Locus 120

Sequence ID	Eco_1
Location	4,390,494 – 4,390,573
Length	79
Max. P	0.999976

overview

Window 2

Location	4,390,494 – 4,390,573
Length	79
Sequences	6
Columns	79
Reading direction	forward
Mean pairwise identity	96.70
Mean single sequence MFE	-32.87
Consensus MFE	-32.71
Energy contribution	-32.60
Covariance contribution	-0.11
Combinations/Pair	1.08
Mean z-score	-2.53
Structure conservation index	1.00
SVM decision value	5.15
SVM RNA-class probability	0.999976
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 4390494 79 + 1
AGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
((((((((..((((........))))..((((((((....).)))))))(((((.......)))))))))))))..... ( -34.10)
>Hin_1 1 78 + 1
-GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGCCUCGUUUCCCGCUCCAAA
-(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))...... ( -33.10)
>Lpn_1 1 78 + 1
-GCGGGAAUAGCUCAGUUGGUAGAGCAUAACCUUGCCAAGGUUAGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
-(((((((..((((........)))).((((((.....))))))(((.(.((....)).).)))..)))))))...... ( -28.20)
>Sfl_1 1 79 + 1
AGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
((((((((..((((........))))..((((((((....).)))))))(((((.......)))))))))))))..... ( -34.10)
>Sty_1 1 78 + 1
-GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
-(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))...... ( -33.60)
>Ype_1 1 78 + 1
AGCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAA-
((((((((..((((........))))..((((((((....).)))))))(((((.......)))))))))))))....- ( -34.10)
>consensus
_GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCAAA
.(((((((..((((........))))..((((((((....).)))))))(((((.......))))))))))))...... (-32.71 = -32.60 +  -0.11)

alignment

secondary structure

dotplot

Window 3

Location	4,390,494 – 4,390,573
Length	79
Sequences	6
Columns	79
Reading direction	reverse
Mean pairwise identity	96.70
Mean single sequence MFE	-28.73
Consensus MFE	-28.82
Energy contribution	-28.27
Covariance contribution	-0.55
Combinations/Pair	1.10
Mean z-score	-2.09
Structure conservation index	1.00
SVM decision value	4.49
SVM RNA-class probability	0.999909
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 4390494 79 - 1
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCU
.....((((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))) ( -30.00)
>Hin_1 1 78 - 1
UUUGGAGCGGGAAACGAGGCUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGC-
......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))- ( -29.50)
>Lpn_1 1 78 - 1
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCUAACCUUGGCAAGGUUAUGCUCUACCAACUGAGCUAUUCCCGC-
......(((((((.((((.......))))......((((((.....)))))).((((........))))..)))))))- ( -24.70)
>Sfl_1 1 79 - 1
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCU
.....((((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))) ( -30.00)
>Sty_1 1 78 - 1
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGC-
......(((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))- ( -28.20)
>Ype_1 1 78 - 1
-UUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGCU
-....((((((((..(((.......)))(((((((((....)))...))))))((((........))))..)))))))) ( -30.00)
>consensus
UUUGGAGCGGGAAACGAGACUCGAACUCGCGACCCCGACCUUGGCAAGGUCGUGCUCUACCAACUGAGCUAUUCCCGC_
......(((((((.((((.......))))......((((((.....)))))).((((........))))..))))))). (-28.82 = -28.27 +  -0.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Fri Dec 1 11:08:18 2006