Locus 7508

Sequence ID	dm3.chr3L
Location	15,259,033 – 15,259,140
Length	107
Max. P	0.919296

overview

Window 1

Location	15,259,033 – 15,259,140
Length	107
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	82.39
Shannon entropy	0.30951
G+C content	0.47523
Mean single sequence MFE	-27.44
Consensus MFE	-17.24
Energy contribution	-17.68
Covariance contribution	0.44
Combinations/Pair	1.14
Mean z-score	-1.83
Structure conservation index	0.63
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.24
SVM RNA-class probability	0.608873
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15259033 107 + 24543557
UUAGAUCUCGAGAGUA-----UCCCAUCUCUUUUAAUGGUGUACGCUUAUCCCACCGGAGUGAGCUCCCAUUUAAGCACACACCUGAGAAAGGAUCCCCCAAAUGAACCAUC
.....((((((((...-----.....)))).......(((((..(((((.......((((....))))....)))))..))))).))))..((.((........)).))... ( -26.80, z-score =  -2.51, R)
>droEre2.scaffold_4784 17519566 104 + 25762168
UUAGAACUCGGGAACA-----UCGUAUCUAUUUUAAUG-UGUGCGCUUAUCCCACCGGUGUGAGCUCCCAUUUAGGCAGACACCUGAGA--GGAUCCCCCAAAUGAAGCAUC
......(((((((...-----.(((((.(((....)))-.)))))....))))...(((((..(((........)))..))))).))).--((.....))............ ( -24.70, z-score =  -0.24, R)
>droYak2.chr3L 17770109 107 + 24197627
UUAGAACUCGAGAACA-----UCCUAUCUCAUUUAAUGGCGUACGCUUAUCCCAGCGGAGUGAGCUCCCAUUUGAGCACACACCUGAGAAAGGAUCCCUCAAAUGAACCAUC
.........(((...(-----((((.(((((.....(((.(((....))).)))..((.(((.((((......)))).))).))))))).)))))..)))............ ( -29.10, z-score =  -2.91, R)
>droSec1.super_0 7371136 112 + 21120651
CUAGAGCCUGGGAGCAUCUCUUCCCAUCUCUUUUAAUGGUGUACGCUUAUCCCACCGGAGUGAGCUCCCAUUUGAGCACACACCUGAGAAAGGAUCCUCCAAAUGAACCAUC
...(((...(((((......)))))(((.(((((...(((((..(((((.......((((....))))....)))))..)))))...)))))))).)))............. ( -29.30, z-score =  -0.88, R)
>droSim1.chr3L 14599498 102 + 22553184
-------CUAGAGGAG---CAUACCAUCUCUUUUAAUGGUGUACGCUUAUCCCAACGGAGUGAGCUCCCAUUUGAGCACACACCUGAGAAAAGAUCCUCCAAAUGAACCAUC
-------...((((((---.(((((((........))))))).).(((.((.((..((.(((.((((......)))).))).)))).)).))).)))))............. ( -27.30, z-score =  -2.61, R)
>consensus
UUAGAACUCGGGAGCA_____UCCCAUCUCUUUUAAUGGUGUACGCUUAUCCCACCGGAGUGAGCUCCCAUUUGAGCACACACCUGAGAAAGGAUCCCCCAAAUGAACCAUC
.........................((((.((((...(((((..(((((.......((((....))))....)))))..)))))..)))).))))................. (-17.24 = -17.68 +   0.44)

alignment

secondary structure

dotplot

Window 2

Location	15,259,033 – 15,259,140
Length	107
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	82.39
Shannon entropy	0.30951
G+C content	0.47523
Mean single sequence MFE	-36.41
Consensus MFE	-25.38
Energy contribution	-25.42
Covariance contribution	0.04
Combinations/Pair	1.37
Mean z-score	-2.12
Structure conservation index	0.70
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.27
SVM RNA-class probability	0.919296
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15259033 107 - 24543557
GAUGGUUCAUUUGGGGGAUCCUUUCUCAGGUGUGUGCUUAAAUGGGAGCUCACUCCGGUGGGAUAAGCGUACACCAUUAAAAGAGAUGGGA-----UACUCUCGAGAUCUAA
..(((.((..((((((((((((.((((.((((((((((((.((.((((....)))).))....)))))))))))).......)))).))))-----).))))))))).))). ( -39.80, z-score =  -3.21, R)
>droEre2.scaffold_4784 17519566 104 - 25762168
GAUGCUUCAUUUGGGGGAUCC--UCUCAGGUGUCUGCCUAAAUGGGAGCUCACACCGGUGGGAUAAGCGCACA-CAUUAAAAUAGAUACGA-----UGUUCCCGAGUUCUAA
.......((((((((((((((--.....)).)))).))))))))(((((((((....))((((....((....-..............)).-----...))))))))))).. ( -27.97, z-score =  -0.02, R)
>droYak2.chr3L 17770109 107 - 24197627
GAUGGUUCAUUUGAGGGAUCCUUUCUCAGGUGUGUGCUCAAAUGGGAGCUCACUCCGCUGGGAUAAGCGUACGCCAUUAAAUGAGAUAGGA-----UGUUCUCGAGUUCUAA
..(((...((((((((((((((.(((((((.(((.((((......)))).))).))(((......))).............))))).))))-----).))))))))).))). ( -39.60, z-score =  -3.09, R)
>droSec1.super_0 7371136 112 - 21120651
GAUGGUUCAUUUGGAGGAUCCUUUCUCAGGUGUGUGCUCAAAUGGGAGCUCACUCCGGUGGGAUAAGCGUACACCAUUAAAAGAGAUGGGAAGAGAUGCUCCCAGGCUCUAG
..(((..(....((((.(((.(((((((((.(((.((((......)))).))).))((((...........))))...........))))))).))).))))...)..))). ( -38.00, z-score =  -1.22, R)
>droSim1.chr3L 14599498 102 - 22553184
GAUGGUUCAUUUGGAGGAUCUUUUCUCAGGUGUGUGCUCAAAUGGGAGCUCACUCCGUUGGGAUAAGCGUACACCAUUAAAAGAGAUGGUAUG---CUCCUCUAG-------
...........(((((((.(((.(((((((.(((.((((......)))).))).))..))))).))).(((.((((((......)))))).))---)))))))).------- ( -36.70, z-score =  -3.06, R)
>consensus
GAUGGUUCAUUUGGGGGAUCCUUUCUCAGGUGUGUGCUCAAAUGGGAGCUCACUCCGGUGGGAUAAGCGUACACCAUUAAAAGAGAUGGGA_____UGCUCCCGAGUUCUAA
.........((((((((.((((.((((.((.(((.((((......)))).))).))(((((............)))))....)))).)))).......))))))))...... (-25.38 = -25.42 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:28:18 2011