Locus 98

Sequence ID	Eco_1
Location	4,166,395 – 4,166,471
Length	76
Max. P	0.999989

overview

Window 6

Location	4,166,395 – 4,166,471
Length	76
Sequences	5
Columns	76
Reading direction	forward
Mean pairwise identity	95.00
Mean single sequence MFE	-33.84
Consensus MFE	-34.00
Energy contribution	-33.00
Covariance contribution	-1.00
Combinations/Pair	1.17
Mean z-score	-2.75
Structure conservation index	1.00
SVM decision value	5.52
SVM RNA-class probability	0.999989
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 4166395 76 + 1
GUCCCCUUCGUCUAGAGGCCCAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAAUCCCCUAGGGGACGCCA
(((((((..((((.(.....).))))((((((.......))))))...(((((.......)))))))))))).... ( -34.80)
>Lpn_1 1 76 + 1
GUCCCCAUCGUCUAGAGGCCUAGGACAUCGCCCUUUCACGGCGGUAACGGGGGUUCGAAUCCCCCUGGGGACGCCA
(((((((..((((((....))).)))((((((.......))))))...(((((.......)))))))))))).... ( -35.50)
>Sfl_1 1 76 + 1
GUCCCCUUCGUCUAGAGGCCCAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAAUCCCCUAGGGGACGCCA
(((((((..((((.(.....).))))((((((.......))))))...(((((.......)))))))))))).... ( -34.80)
>Sty_1 1 76 + 1
GUCCCCUUCGUCUAGAGGCCCAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAAUCCCCUAGGGGACGCCA
(((((((..((((.(.....).))))((((((.......))))))...(((((.......)))))))))))).... ( -34.80)
>Ype_1 1 76 + 1
GUCCCCAUCGUCUAGAGGCCUAGGACACUGCCCUUUCACGGCUGUAACAGGGGUUCGAAUCCCCUUGGGGACGCCA
(((((((..((((((....))).)))((.(((.......))).))...(((((.......)))))))))))).... ( -29.30)
>consensus
GUCCCCUUCGUCUAGAGGCCCAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAAUCCCCUAGGGGACGCCA
(((((((..((((.(.....).))))((((((.......))))))...(((((.......)))))))))))).... (-34.00 = -33.00 +  -1.00)

alignment

secondary structure

dotplot

Window 7

Location	4,166,395 – 4,166,471
Length	76
Sequences	5
Columns	76
Reading direction	reverse
Mean pairwise identity	95.00
Mean single sequence MFE	-32.70
Consensus MFE	-33.12
Energy contribution	-32.48
Covariance contribution	-0.64
Combinations/Pair	1.12
Mean z-score	-1.59
Structure conservation index	1.01
SVM decision value	2.53
SVM RNA-class probability	0.995020
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 4166395 76 - 1
UGGCGUCCCCUAGGGGAUUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUGGGCCUCUAGACGAAGGGGAC
....((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))) ( -34.00)
>Lpn_1 1 76 - 1
UGGCGUCCCCAGGGGGAUUCGAACCCCCGUUACCGCCGUGAAAGGGCGAUGUCCUAGGCCUCUAGACGAUGGGGAC
....((((((((((((.......))))).....((((.......)))).((((.(((....))))))).))))))) ( -32.90)
>Sfl_1 1 76 - 1
UGGCGUCCCCUAGGGGAUUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUGGGCCUCUAGACGAAGGGGAC
....((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))) ( -34.00)
>Sty_1 1 76 - 1
UGGCGUCCCCUAGGGGAUUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUGGGCCUCUAGACGAAGGGGAC
....((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))) ( -34.00)
>Ype_1 1 76 - 1
UGGCGUCCCCAAGGGGAUUCGAACCCCUGUUACAGCCGUGAAAGGGCAGUGUCCUAGGCCUCUAGACGAUGGGGAC
....((((((((((((.......)))))(((...(((.....(((((...))))).))).....)))..))))))) ( -28.60)
>consensus
UGGCGUCCCCUAGGGGAUUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUGGGCCUCUAGACGAAGGGGAC
....((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))) (-33.12 = -32.48 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Fri Dec 1 11:07:01 2006