Locus 118

Sequence ID	Eco_1
Location	4,360,574 – 4,360,674
Length	100
Max. P	0.936776

overview

Window 8

Location	4,360,574 – 4,360,674
Length	100
Sequences	4
Columns	100
Reading direction	forward
Mean pairwise identity	98.00
Mean single sequence MFE	-37.75
Consensus MFE	-36.72
Energy contribution	-36.98
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-2.35
Structure conservation index	0.97
SVM decision value	1.26
SVM RNA-class probability	0.936776
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 4360574 100 + 1
UGGUGCCCGGACUCGGAAUCGAACCAAGGACACGGGGAUUUUCAAUCCCCUGCUCUACCGACUGAGCUAUCCGGGCAACGGGGCGCAUUAAACCGUAAUC
...(((((((((((((..(((.....((..((.((((((.....))))))))..))..))))))))...))))))))((((...........)))).... ( -38.40)
>Sfl_1 1 100 + 1
UGGUGCCCGGACUCGGAAUCGAACCAAGGACACGGGGAUUUUCAAUCCCCUGCUCUACCGACUGAGCUAUCCGGGCAACGGGGCGCAUUAAACCGUAAUC
...(((((((((((((..(((.....((..((.((((((.....))))))))..))..))))))))...))))))))((((...........)))).... ( -38.40)
>Sty_1 1 100 + 1
UGGUGCCCGGACUCGGAAUCGAACCAAGGACACGGGGAUUUUCAAUCCCCUGCUCUACCGACUGAGCUAUCCGGGCAACGAGGCGCAUUAAACCGUAAUC
..(((((((..((((((................((((((.....)))))).((((........))))..))))))...)).))))).............. ( -35.80)
>Ype_1 1 97 + 1
UGGUGCCCGGACUCGGAAUCGAACCAAGGACACGGGGAUUUUCAAUCCCCUGCUCUACCGACUGAGCUAUCCGGGCAACGGGGCGCAUUAAACCGUA---
...(((((((((((((..(((.....((..((.((((((.....))))))))..))..))))))))...))))))))((((...........)))).--- ( -38.40)
>consensus
UGGUGCCCGGACUCGGAAUCGAACCAAGGACACGGGGAUUUUCAAUCCCCUGCUCUACCGACUGAGCUAUCCGGGCAACGGGGCGCAUUAAACCGUAAUC
...(((((((((((((..(((.....((..((.((((((.....))))))))..))..))))))))...))))))))((((...........)))).... (-36.72 = -36.98 +   0.25)

alignment

secondary structure

dotplot

Window 9

Location	4,360,574 – 4,360,674
Length	100
Sequences	4
Columns	100
Reading direction	reverse
Mean pairwise identity	98.00
Mean single sequence MFE	-38.12
Consensus MFE	-37.90
Energy contribution	-37.90
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.60
Structure conservation index	0.99
SVM decision value	0.13
SVM RNA-class probability	0.599037
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 4360574 100 - 1
GAUUACGGUUUAAUGCGCCCCGUUGCCCGGAUAGCUCAGUCGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCCUUGGUUCGAUUCCGAGUCCGGGCACCA
....((((...........))))((((((((..((((........)))).((((((.....)))))).....(((((.......)))))))))))))... ( -38.10)
>Sfl_1 1 100 - 1
GAUUACGGUUUAAUGCGCCCCGUUGCCCGGAUAGCUCAGUCGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCCUUGGUUCGAUUCCGAGUCCGGGCACCA
....((((...........))))((((((((..((((........)))).((((((.....)))))).....(((((.......)))))))))))))... ( -38.10)
>Sty_1 1 100 - 1
GAUUACGGUUUAAUGCGCCUCGUUGCCCGGAUAGCUCAGUCGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCCUUGGUUCGAUUCCGAGUCCGGGCACCA
......(((.......)))..(.((((((((..((((........)))).((((((.....)))))).....(((((.......))))))))))))).). ( -38.20)
>Ype_1 1 97 - 1
---UACGGUUUAAUGCGCCCCGUUGCCCGGAUAGCUCAGUCGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCCUUGGUUCGAUUCCGAGUCCGGGCACCA
---.((((...........))))((((((((..((((........)))).((((((.....)))))).....(((((.......)))))))))))))... ( -38.10)
>consensus
GAUUACGGUUUAAUGCGCCCCGUUGCCCGGAUAGCUCAGUCGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCCUUGGUUCGAUUCCGAGUCCGGGCACCA
......(((.......)))..(.((((((((..((((........)))).((((((.....)))))).....(((((.......))))))))))))).). (-37.90 = -37.90 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Fri Dec 1 11:08:15 2006