Locus 178

Sequence ID	dm3.chr2L
Location	1,270,776 – 1,270,875
Length	99
Max. P	0.800034

overview

Window 1

Location	1,270,776 – 1,270,875
Length	99
Sequences	12
Columns	125
Reading direction	forward
Mean pairwise identity	83.39
Shannon entropy	0.32522
G+C content	0.37309
Mean single sequence MFE	-28.24
Consensus MFE	-15.50
Energy contribution	-15.52
Covariance contribution	0.01
Combinations/Pair	1.08
Mean z-score	-2.30
Structure conservation index	0.55
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.73
SVM RNA-class probability	0.800034
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 1270776 99 + 23011544
AAAGAAAAUGUUUAAGGAAAUUGCAGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUGG--------------------CGAAACGUUUUCCC--AGCAAU-UUCUUCGGGCAUUUCGAC---
...((((.((((..(((((((((((((((.....))))).(((..((.((((...)))).)--------------------)..)))........--.)))))-)))))..))))))))...--- ( -28.80, z-score =  -2.94, R)
>droPer1.super_8 942080 99 + 3966273
AAAGAAAAUGUUUAAGGAAAUUGCAGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUGG--------------------CGAAACGUUUUCUC--AGCAAU-UUCUUCAGGCAUUUCGAC---
...((((.(((((.((((((((((((.(((..(((((((....((.((.....)).)).))--------------------)))))..))).)).--.)))))-))))).)))))))))...--- ( -27.20, z-score =  -2.78, R)
>dp4.chr4_group3 9742997 99 + 11692001
AAAGAAAAUGUUUAAGGAAAUUGCAGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUGG--------------------CGAAACGUUUUCUC--AGCAAU-UUCUUCAGGCAUUUCGAC---
...((((.(((((.((((((((((((.(((..(((((((....((.((.....)).)).))--------------------)))))..))).)).--.)))))-))))).)))))))))...--- ( -27.20, z-score =  -2.78, R)
>droAna3.scaffold_12916 4733335 99 + 16180835
AAAGAAAAUGUUUAAGGAAAUUGCAGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUGG--------------------CGAAACGUUUCCCC--AGCAAU-UUCUUGAGGCAUUUCGAC---
...((((.(((((.(((((((((((((((.....))))).(((..((.((((...)))).)--------------------)..)))........--.)))))-))))).)))))))))...--- ( -27.20, z-score =  -2.67, R)
>droEre2.scaffold_4929 1311450 99 + 26641161
AAAGAAAAUGUUUAAGGAAAUUGCAGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUGG--------------------CGAAACGUUUGCCC--AGCAAU-UUCUUCGGGCAUUUCGAC---
...((((.((((..((((((((((.(((((..(((((((....((.((.....)).)).))--------------------)))))..)))))..--.)))))-)))))..))))))))...--- ( -33.90, z-score =  -4.24, R)
>droYak2.chr2L 1246270 99 + 22324452
AAAGAAAAUGUUUAAGGAAAUUGCAGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUGG--------------------CGAAACGUUUUCCC--AGCAAU-UUCUUCGGGCAUUUCGAC---
...((((.((((..(((((((((((((((.....))))).(((..((.((((...)))).)--------------------)..)))........--.)))))-)))))..))))))))...--- ( -28.80, z-score =  -2.94, R)
>droSec1.super_14 1221325 99 + 2068291
AAAGAAAAUGUUUAAGGAAAUUGCAGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUGG--------------------CGAAACGUUUUCCC--AGCAAU-UUCUUCGGGCAUUUCGAC---
...((((.((((..(((((((((((((((.....))))).(((..((.((((...)))).)--------------------)..)))........--.)))))-)))))..))))))))...--- ( -28.80, z-score =  -2.94, R)
>droSim1.chr2L 1243563 99 + 22036055
AAAGAAAAUGUUUAAGGAAAUUGCAGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUGG--------------------CGAAACGUUUUCCC--AGCAAU-UUCUUCGGGCAUUUCGAC---
...((((.((((..(((((((((((((((.....))))).(((..((.((((...)))).)--------------------)..)))........--.)))))-)))))..))))))))...--- ( -28.80, z-score =  -2.94, R)
>droWil1.scaffold_180708 2892366 100 + 12563649
AAAGAAAAUGUUUAAGGAAAUUGCAGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUU-GC--------------------CGAAACGUUUUUCUCUAGCAAU-UUCUUCAGGCAUUUGCUG---
..((.((((((((.(((((((((((((((.....))))).....((.((((..(.(((-..--------------------...))))..)))).)).)))))-))))).)))))))).)).--- ( -27.20, z-score =  -2.65, R)
>droVir3.scaffold_12963 13010851 122 - 20206255
AAAGAAAAUGUUUAAGGAAAUUGCUGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUCGAAAACCGUUUUUGCCAGCGACCAAAA--CUGCACUCAGAAAUGCUCUUCAGGCAUUUUU-CGCC
...((((((((((.((((..((((((((((......((..(((...((((((...))))))..))).)).)))).))))))......--..(((........))))))).))))))))))-.... ( -23.40, z-score =   0.33, R)
>droMoj3.scaffold_6500 28638280 116 - 32352404
AAAGAAAAUGUUUAAGGAAAUUGCUGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUCGCAACUGG--------AGAGACCAAAAA-CUGCACUCAGCAAUGCACUUCAGGCAUUUGUGCGCC
...(.(((((((((((...(((((((......(((..((.....))..))).((((((....))))))--------............-.......)))))))...))).))))))))...)... ( -26.20, z-score =   0.16, R)
>droGri2.scaffold_15252 10341658 122 + 17193109
AAAGAGAAUGUUUAAGGAAAUUGCUGCAAAUAUUUUGCUUGUUAAGUGAAGCCCAGUUUGGAGAACAGUUUUUACCAGAGACCAAAAAACUGCACUCUGCAAUUUUCUUCAGGCAUUUGGCC---
.....(((((((((((((((((((..(((((.(((..((.....))..)))....)))))(((..((((((((...........))))))))..))).))))))))))).))))))))....--- ( -31.40, z-score =  -1.25, R)
>consensus
AAAGAAAAUGUUUAAGGAAAUUGCAGCAAAUAUUUUGCUUGUUAAGUGAAACCCAGUUUGG____________________CGAAACGUUUUCCC__AGCAAU_UUCUUCAGGCAUUUCGAC___
.....(((((((((((((.(((((.((((.....)))).....((.((.....)).))........................................))))).))))).))))))))....... (-15.50 = -15.52 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:08:08 2011