Locus 80

Sequence ID	Eco_1
Location	3,809,738 – 3,809,856
Length	118
Max. P	0.991172

overview

Window 4

Location	3,809,738 – 3,809,856
Length	118
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	97.21
Mean single sequence MFE	-44.93
Consensus MFE	-43.03
Energy contribution	-43.37
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.46
Structure conservation index	0.96
SVM decision value	1.44
SVM RNA-class probability	0.953661
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 3809738 118 + 1
GGGUAUUGGCGCCUCGUCAGGCUUUACAGCCCGGUCAUCGC--AGUUCUAUGUGAACUCUCGAUUGCCAGGCCCAAAUGCCAAACCCGAGAUUCUCAAAGGUGGCGUAGUAUACGCUGAC
((((.(((((((((....))))......(((.(((.((((.--(((((.....)))))..)))).))).)))......)))))))))(((...)))......((((((...))))))... ( -43.90)
>Sfl_1 41 118 + 1
GGGUAUUGGCGCCUCGUCAGGCUUUACAGCCCGGUCAUCGC--AGUUCUAUGUGAACUCUCGAUUGCCAGGCCCAAAUGCCAAACCCGAGAUUCUCAAAGGUGGCGUAGUAUACGCUGAC
((((.(((((((((....))))......(((.(((.((((.--(((((.....)))))..)))).))).)))......)))))))))(((...)))......((((((...))))))... ( -43.90)
>Sty_1 41 119 + 1
GGGUAUCGGCGCCUCGUCAGGCUUUACAGCCUGGUCAUCGCGCAGUUCUAU-UGAACUCUCGAUUGCCAGGCCCAAAUGCCAAACCCGAGAUUCUCAAAGGUGGCGUAGUAUACGCUGAC
((((...(((((((....))))......(((((((.((((.(.(((((...-.)))))).)))).)))))))......)))..))))(((...)))......((((((...))))))... ( -47.00)
>consensus
GGGUAUUGGCGCCUCGUCAGGCUUUACAGCCCGGUCAUCGC__AGUUCUAUGUGAACUCUCGAUUGCCAGGCCCAAAUGCCAAACCCGAGAUUCUCAAAGGUGGCGUAGUAUACGCUGAC
((((.(((((((((....))))......(((.(((.((((...(((((.....)))))..)))).))).)))......)))))))))(((...)))......((((((...))))))... (-43.03 = -43.37 +   0.33)

alignment

secondary structure

dotplot

Window 5

Location	3,809,738 – 3,809,856
Length	118
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.21
Mean single sequence MFE	-47.13
Consensus MFE	-47.64
Energy contribution	-47.20
Covariance contribution	-0.44
Combinations/Pair	1.05
Mean z-score	-2.77
Structure conservation index	1.01
SVM decision value	2.25
SVM RNA-class probability	0.991172
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 3809738 118 - 1
GUCAGCGUAUACUACGCCACCUUUGAGAAUCUCGGGUUUGGCAUUUGGGCCUGGCAAUCGAGAGUUCACAUAGAACU--GCGAUGACCGGGCUGUAAAGCCUGACGAGGCGCCAAUACCC
....(((((...))))).......(((...)))(((((((((.....(((((((..((((..(((((.....)))))--.))))..))))))).....((((....))))))))).)))) ( -46.90)
>Sfl_1 41 118 - 1
GUCAGCGUAUACUACGCCACCUUUGAGAAUCUCGGGUUUGGCAUUUGGGCCUGGCAAUCGAGAGUUCACAUAGAACU--GCGAUGACCGGGCUGUAAAGCCUGACGAGGCGCCAAUACCC
....(((((...))))).......(((...)))(((((((((.....(((((((..((((..(((((.....)))))--.))))..))))))).....((((....))))))))).)))) ( -46.90)
>Sty_1 41 119 - 1
GUCAGCGUAUACUACGCCACCUUUGAGAAUCUCGGGUUUGGCAUUUGGGCCUGGCAAUCGAGAGUUCA-AUAGAACUGCGCGAUGACCAGGCUGUAAAGCCUGACGAGGCGCCGAUACCC
....(((((...))))).......(((...)))(((((((((.....(((((((..((((.((((((.-...))))).).))))..))))))).....((((....))))))))).)))) ( -47.60)
>consensus
GUCAGCGUAUACUACGCCACCUUUGAGAAUCUCGGGUUUGGCAUUUGGGCCUGGCAAUCGAGAGUUCACAUAGAACU__GCGAUGACCGGGCUGUAAAGCCUGACGAGGCGCCAAUACCC
....(((((...))))).......(((...)))(((((((((.....(((((((..((((..(((((.....)))))...))))..))))))).....((((....))))))))).)))) (-47.64 = -47.20 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Fri Dec 1 11:05:33 2006