Locus 12782

Sequence ID	dm3.chrX
Location	2,143,591 – 2,143,711
Length	120
Max. P	0.589700

overview

Window 0

Location	2,143,591 – 2,143,711
Length	120
Sequences	15
Columns	120
Reading direction	reverse
Mean pairwise identity	81.85
Shannon entropy	0.40811
G+C content	0.49944
Mean single sequence MFE	-33.21
Consensus MFE	-18.55
Energy contribution	-18.39
Covariance contribution	-0.16
Combinations/Pair	1.45
Mean z-score	-1.58
Structure conservation index	0.56
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.20
SVM RNA-class probability	0.589700
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2143591 120 - 22422827
CGCCAAAGCAGAAGAUCUCCGAUCCCGCCGAGUUGGCAGACUAUCAGCAGCGGAAGCGAAAGACCUUCGAGGACAAUCUCCGCAAGAACCGCAUGGUAGUCAGCCAUUGGAUCAAAUAUG
.((....))...........(((((.(((.....))).((((((((...((((...(....)..(((((..(.....)..)).)))..)))).)))))))).......)))))....... ( -35.50, z-score =  -1.56, R)
>droSim1.chrU 15720461 120 - 15797150
CGCCAAAGCAGAAGAUCUCCGAUCCCGCCGAGUUGGCGGACUAUCAGCAGCGGAAGCGAAAGACCUUCGAGGACAAUCUCCGCAAGAACCGCAUGGUGGUCAGCCAUUGGAUCAAAUACG
.((....))...........(((((((((.....))))((((((((...((((...(....)..(((((..(.....)..)).)))..)))).)))))))).......)))))....... ( -37.00, z-score =  -0.89, R)
>droSec1.super_10 1929519 120 - 3036183
CGCCGAAGCAGAAGAUCUCCGAUCCUGCCGAGUUGGCGGACUAUCAGCAGCGGAAGCGAAAGACCUUCGAGGACAAUCUCCGCAAGAACCGCAUGGUGGUUAGCCAUUGGAUCAAAUACG
..((((.((((..((((...)))))))).....((((.((((((((...((((...(....)..(((((..(.....)..)).)))..)))).)))))))).)))))))).......... ( -37.10, z-score =  -0.76, R)
>droYak2.chrX 15585173 120 + 21770863
CGCCAAAGCAGAAGAUCUCCGAUCCCGCCGAGUUGGCUGACUAUCAGCAGCGGAAGCGAAAGACCUUUGAGGACAAUCUCCGCAAGAACCGCAUGGUGGUCAGCCAUUGGAUCAAAUACG
.((....))...........(((((........(((((((((((((...((((...(....)...((((.(((.....))).))))..)))).)))))))))))))..)))))....... ( -41.30, z-score =  -2.54, R)
>droEre2.scaffold_4644 2108675 120 - 2521924
CGCCAAAGCAGAAGAUCUCCGAUCCCGCCGAGUUAGCUGACUAUCAGCAGCGGAAGCGAAAGACCUUCGAGGACAAUCUUCGCAAGAACCGCAUGGUGGUCAGUCAUUGGAUCAAAUACG
.((....))....(((((..(((.((((((.....((((.....)))).((((...(....)..((((((((.....))))).)))..)))).))))))...)))...)))))....... ( -37.90, z-score =  -1.93, R)
>droAna3.scaffold_12929 1242015 120 + 3277472
CGCCCAAGCAAAAGAUCUCCGAUCCCGCCGAGCUAGCAGACUACCAGCAGCGAAAGCGCAAGACCUUCGAGGACAAUCUCCGCAAGAAUCGCAUGGUGGUCAGCCACUGGAUCAAGUAUG
.((....))...........(((((.(..(.(((....((((((((((.((....)).......(((((..(.....)..)).)))....)).)))))))))))).).)))))....... ( -33.60, z-score =  -0.83, R)
>dp4.chrXL_group1a 158754 120 - 9151740
CGCCAAAACAGAAGAUCUCUGAUCCAGCCGAAUUGGCCGACUACCAGCAGAGAAAGCGGAAGACUUUCGAGGACAAUUUGCGCAAGAACCGCAUGGUAGUCAGCCACUGGAUCAAGUACG
...................((((((((......((((.((((((((((...((((((....).)))))............(....)....)).)))))))).))))))))))))...... ( -42.40, z-score =  -4.23, R)
>droPer1.super_26 836950 120 + 1349181
CGCCAAAACAGAAGAUCUCUGAUCCAGCCGAAUUGGCCGACUACCAGCAGAGAAAGCGGAAGACUUUCGAGGACAAUUUGCGCAAGAACCGCAUGGUAGUCAGCCACUGGAUCAAGUACG
...................((((((((......((((.((((((((((...((((((....).)))))............(....)....)).)))))))).))))))))))))...... ( -42.40, z-score =  -4.23, R)
>droWil1.scaffold_180777 4167443 120 + 4753960
CACCGAAACAGAAAAUCUCCGAUCCAGCGGAAUUAGCCGAUUAUCAGCAGCGCAAACGCAAAACGUUCGAGGAUAAUUUACGUAAAAAUCGUAUGGUAGUCAGUCAUUGGAUUAAAUAUG
....................(((((((.((......))((((((((((.(((....)))...((((.............)))).......)).)))))))).....)))))))....... ( -22.12, z-score =  -0.05, R)
>droMoj3.scaffold_6359 4167195 120 - 4525533
CGCCCAAACAAAAGAUUUCCGAUCCAGCCGAAUUGGCCGACUACCAACAGAGGAAGCGGAAAACAUUCGAGGACAAUCUGCGCAAGAAUCGCAUGGUGGUCAGCCACUGGAUCAAGUACG
....................(((((((......((((.((((((((.((((.....((((.....)))).......)))).((.......)).)))))))).)))))))))))....... ( -36.40, z-score =  -2.38, R)
>droVir3.scaffold_12928 5642771 120 - 7717345
CGCCAAAACAGAAAAUCUCCGAUCCCGCCGAAUUGGCCGAUUACCAGCAACGGAAACGUAAAACGUUUGAAGAUAACUUACGCAAAAAUCGCAUGGUGGUCAGCCACUGGAUCAAGUACG
....................(((((.(......((((.((((((((((.(((....)))....(((..(.......)..)))........)).)))))))).))))).)))))....... ( -31.60, z-score =  -2.01, R)
>droGri2.scaffold_15203 1525632 120 - 11997470
CGCCGAAGCAGAAAAUCUCAGACCCCGCCGAAUUGGCCGACUAUCAACAAAGAAAGCGCAAAACAUUUGAGGAUAAUUUACGCAAGAAUCGCAUGGUGGUCAGCCACUGGAUCAAGUACG
..((...((......(((((((....(((.....)))((.((.((......)).)))).......)))))))........(....)....))..(((((....))))))).......... ( -23.50, z-score =   0.69, R)
>anoGam1.chr2R 11800200 120 - 62725911
CGCCGAAGCAAAAGAUUUCCGAUGCGGCCGAGCUGGCCGACUACCAGCAGCGGAAGCGCAAAACGUUCGAGGACAAUCUGCGCAAAAACCGCAUGGUCGUCAGCAACUGGAUCAAGUACG
.((....))....((..((((.(((((((.....))))(((.((((...((((..(((((....(((....)))....))))).....)))).)))).))).)))..))))))....... ( -39.10, z-score =  -0.88, R)
>apiMel3.GroupUn 11163918 120 - 399230636
CACCAAAACAAAAGAUCUCUGAUCCUCACGAAUUAGCUGAUUAUCAGCACAGAAAACGUAAGGCUUUUGAAGAUAAUAUUCGUAAAAAUCGUAUGGUUAUCUCAAAUUGGAUAAAAUAUG
..((((..((((((...((((.((.....))....((((.....)))).))))...(....).)))))).(((((((...((.......))....)))))))....)))).......... ( -23.30, z-score =  -1.98, R)
>triCas2.chrUn_77 78013 120 + 283703
CCCCUAAGCAAAAAAUCUCCGAUCCAGCUGAACUUGCCGACUACCAACUCAGACGCCGUAAACAAUUCGAAGACAACAUACGGAAAAAUCGAACUGUUAUCUCCAAUUGGAUUAAAUAUG
....................(((((((((((..(((........))).))))........((((.(((((......(....)......))))).))))........)))))))....... ( -15.00, z-score =  -0.08, R)
>consensus
CGCCAAAGCAGAAGAUCUCCGAUCCCGCCGAAUUGGCCGACUAUCAGCAGCGGAAGCGAAAGACCUUCGAGGACAAUCUCCGCAAGAACCGCAUGGUGGUCAGCCAUUGGAUCAAAUACG
....................(((((.((.......)).((((((((((.......(((......................))).......)).)))))))).......)))))....... (-18.55 = -18.39 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:08:40 2011