Locus 62

Sequence ID	Eco_1
Location	3,213,590 – 3,213,710
Length	120
Max. P	0.985919

overview

Window 6

Location	3,213,590 – 3,213,710
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	86.67
Mean single sequence MFE	-42.33
Consensus MFE	-38.04
Energy contribution	-38.27
Covariance contribution	0.22
Combinations/Pair	1.03
Mean z-score	-2.38
Structure conservation index	0.90
SVM decision value	1.44
SVM RNA-class probability	0.954403
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 3213590 120 + 1
ACACGGAGUUACUUUAUAAUCCGCUACCAUGGCCCCUUAGCUCAGUGGUUAGAGCAGGCGACUCAUAAUCGCUUGGUCGCUGGUUCAAGUCCAGCAGGGGCCACCAGAUAUAGCAAAGGC
....(((............)))((((...(((((((((((((....)))))((.(((((((.......))))))).))(((((.......))))))))))))).......))))...... ( -43.10)
>Sfl_1 67 120 + 1
GCACGGAGUUACUUUAUAAUCCGCUACCAUGGCCCCUUAGCUCAGUGGUUAGAGCAGGCGACUCAUAAUCGCUUGGUCGCUGGUUCAAGUCCAGCAGGGGCCACCAGAUAUAGCAAAGGC
((.((((............))))......(((((((((((((....)))))((.(((((((.......))))))).))(((((.......))))))))))))).........))...... ( -44.20)
>Sty_1 67 106 + 1
GCGUAAAGUUACAUUAUAAUCCACCGCCACGGCCCCUUAGCUCAGUGGUUAGAGCAGGCGACUCAUAAUCGCUUGGUCGCUGGUUCAAGUCCAGCAGGGGCCACCA--------------
(((....((((.....))))....)))...((((((((((((....)))))((.(((((((.......))))))).))(((((.......))))))))))))....-------------- ( -39.70)
>consensus
GCACGGAGUUACUUUAUAAUCCGCUACCAUGGCCCCUUAGCUCAGUGGUUAGAGCAGGCGACUCAUAAUCGCUUGGUCGCUGGUUCAAGUCCAGCAGGGGCCACCAGAUAUAGCAAAGGC
...((((............)))).......((((((((((((....)))))((.(((((((.......))))))).))(((((.......)))))))))))).................. (-38.04 = -38.27 +   0.22)

alignment

secondary structure

dotplot

Window 7

Location	3,213,590 – 3,213,710
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	86.67
Mean single sequence MFE	-42.17
Consensus MFE	-41.72
Energy contribution	-40.40
Covariance contribution	-1.32
Combinations/Pair	1.16
Mean z-score	-1.90
Structure conservation index	0.99
SVM decision value	2.02
SVM RNA-class probability	0.985919
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 3213590 120 - 1
GCCUUUGCUAUAUCUGGUGGCCCCUGCUGGACUUGAACCAGCGACCAAGCGAUUAUGAGUCGCCUGCUCUAACCACUGAGCUAAGGGGCCAUGGUAGCGGAUUAUAAAGUAACUCCGUGU
......(((((.....((((((((((((((.......)))))......(((((.....)))))..((((........))))..))))))))).)))))(((((((...)))).))).... ( -44.60)
>Sfl_1 67 120 - 1
GCCUUUGCUAUAUCUGGUGGCCCCUGCUGGACUUGAACCAGCGACCAAGCGAUUAUGAGUCGCCUGCUCUAACCACUGAGCUAAGGGGCCAUGGUAGCGGAUUAUAAAGUAACUCCGUGC
......(((((.....((((((((((((((.......)))))......(((((.....)))))..((((........))))..))))))))).)))))(((((((...)))).))).... ( -44.60)
>Sty_1 67 106 - 1
--------------UGGUGGCCCCUGCUGGACUUGAACCAGCGACCAAGCGAUUAUGAGUCGCCUGCUCUAACCACUGAGCUAAGGGGCCGUGGCGGUGGAUUAUAAUGUAACUUUACGC
--------------....((((((((((((.......)))))......(((((.....)))))..((((........))))..)))))))...(((..((.((((...))))))...))) ( -37.30)
>consensus
GCCUUUGCUAUAUCUGGUGGCCCCUGCUGGACUUGAACCAGCGACCAAGCGAUUAUGAGUCGCCUGCUCUAACCACUGAGCUAAGGGGCCAUGGUAGCGGAUUAUAAAGUAACUCCGUGC
................((((((((((((((.......)))))......(((((.....)))))..((((........))))..)))))))))....(((((((((...)))).))))).. (-41.72 = -40.40 +  -1.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Fri Dec 1 11:04:50 2006