Locus 2359

Sequence ID dm3.chr2L
Location 18,319,450 – 18,319,570
Length 120
Max. P 0.998865
window3251 window3252

overview

Window 1

Location 18,319,450 – 18,319,570
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.42
Shannon entropy 0.28001
G+C content 0.38595
Mean single sequence MFE -27.76
Consensus MFE -16.93
Energy contribution -18.05
Covariance contribution 1.12
Combinations/Pair 1.16
Mean z-score -2.89
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.81
SVM RNA-class probability 0.969173
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 18319450 120 + 23011544
CACCAUGCUAAGAAACUUUAUUUGAACUCCAGUUAUGACGCAAAGGAAAAUAGAACACGUUAGUCACCUAAAUUUUUCCACCUAAAUAGAUGUGUCAUCAAAACCGGAGAUGCAGGCUAA
..((.(((((((....))))......((((.(((((((((((..(((((((((...((....))...)))...))))))..((....)).))))))))...))).))))..))))).... ( -24.20, z-score =  -1.63, R)
>droSim1.chr2L 18007010 120 + 22036055
CGCCAUGCUAAAAAACUUUAUUUAAUCUCCAGUUAUGACGCAAAGGAAAAUAGAACAUGUUAGUCACCCAAAAUUUUCCGCCUAAAUAGAUGUGUCAUCAAAACCGGAGAUGCAGGCUAA
.(((.(((((((....))))....((((((.(((((((((((..(((((((......((.....))......)))))))..((....)).))))))))...))).))))))))))))... ( -30.60, z-score =  -3.77, R)
>droSec1.super_7 1946013 120 + 3727775
CGCCCUGCUAAAAAACUUUAUUUAAUCUCCAGUUAUGACGCAAAGGAAAAUAGAACAUAUUAGUCACCUAAAAUUUUCCGCCUAAAUAGAUGUGUCAUCAAAACCGGAGAUGCAGGCUUA
.(((.(((((((....))))....((((((.(((((((((((..(((((((.....................)))))))..((....)).))))))))...))).))))))))))))... ( -29.90, z-score =  -3.69, R)
>droYak2.chr2R 4837638 120 + 21139217
CGCCCUGCUAACAAACUUAGUUGAAUCUCCAGUGACGAUGCACAGAAAAAUAGAACACGUUAGUCACCUAAAUUUUUCCACCUAAAAAUAUGUGUCAUCAACACCGGAGAUGCAGCCUGA
((..((((((((.......)))).((((((.(((..(((((((((((((((((...((....))...)))..))))))............)))).))))..))).))))))))))..)). ( -28.00, z-score =  -2.91, R)
>droEre2.scaffold_4845 16640844 111 - 22589142
CACCCUGCUAACAAA----GUUCGAUCUCCAGUGAUGACACAAAGAAAAGUAGA-----UUAGUCACCUAAGUUAUUCCCAAUAAAUAGAUGUGUCAUCAAAACGGAAGAUGCAGGCUGA
((.(((((.......----.....((((((..((((((((((......(((((.-----((((....)))).)))))..(........).))))))))))....)).))))))))).)). ( -26.10, z-score =  -2.43, R)
>consensus
CGCCCUGCUAAAAAACUUUAUUUAAUCUCCAGUUAUGACGCAAAGGAAAAUAGAACACGUUAGUCACCUAAAUUUUUCCACCUAAAUAGAUGUGUCAUCAAAACCGGAGAUGCAGGCUAA
...(((((...(((......))).((((((.(((((((((((..........(((....((((....))))....)))............))))))))...))).))))))))))).... (-16.93 = -18.05 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,319,450 – 18,319,570
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.42
Shannon entropy 0.28001
G+C content 0.38595
Mean single sequence MFE -36.88
Consensus MFE -27.60
Energy contribution -27.32
Covariance contribution -0.28
Combinations/Pair 1.23
Mean z-score -3.83
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.52
SVM RNA-class probability 0.998865
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 18319450 120 - 23011544
UUAGCCUGCAUCUCCGGUUUUGAUGACACAUCUAUUUAGGUGGAAAAAUUUAGGUGACUAACGUGUUCUAUUUUCCUUUGCGUCAUAACUGGAGUUCAAAUAAAGUUUCUUAGCAUGGUG
...((((((..((((((((.(((((.(((((((....)))))(((....((((....))))....)))..........))))))).))))))))......(((......)))))).))). ( -33.30, z-score =  -2.88, R)
>droSim1.chr2L 18007010 120 - 22036055
UUAGCCUGCAUCUCCGGUUUUGAUGACACAUCUAUUUAGGCGGAAAAUUUUGGGUGACUAACAUGUUCUAUUUUCCUUUGCGUCAUAACUGGAGAUUAAAUAAAGUUUUUUAGCAUGGCG
...((((((((((((((((.(((((.((..(((....))).(((((((.((((....))))........)))))))..))))))).))))))))))((((........))))))).))). ( -37.20, z-score =  -4.15, R)
>droSec1.super_7 1946013 120 - 3727775
UAAGCCUGCAUCUCCGGUUUUGAUGACACAUCUAUUUAGGCGGAAAAUUUUAGGUGACUAAUAUGUUCUAUUUUCCUUUGCGUCAUAACUGGAGAUUAAAUAAAGUUUUUUAGCAGGGCG
....(((((((((((((((.(((((.((..(((....))).(((((((.((((....))))........)))))))..))))))).))))))))))((((........)))))))))... ( -38.20, z-score =  -4.40, R)
>droYak2.chr2R 4837638 120 - 21139217
UCAGGCUGCAUCUCCGGUGUUGAUGACACAUAUUUUUAGGUGGAAAAAUUUAGGUGACUAACGUGUUCUAUUUUUCUGUGCAUCGUCACUGGAGAUUCAACUAAGUUUGUUAGCAGGGCG
.....((((((((((((((.(((((.((((.......((((((((....((((....))))....))))))))...))))))))).))))))))))..(((.......))).)))).... ( -42.20, z-score =  -4.40, R)
>droEre2.scaffold_4845 16640844 111 + 22589142
UCAGCCUGCAUCUUCCGUUUUGAUGACACAUCUAUUUAUUGGGAAUAACUUAGGUGACUAA-----UCUACUUUUCUUUGUGUCAUCACUGGAGAUCGAAC----UUUGUUAGCAGGGUG
.((.(((((((((.(((...((((((((((((((.....))))......((((....))))-----............)))))))))).)))))))..(((----...))).))))).)) ( -33.50, z-score =  -3.33, R)
>consensus
UCAGCCUGCAUCUCCGGUUUUGAUGACACAUCUAUUUAGGCGGAAAAAUUUAGGUGACUAACAUGUUCUAUUUUCCUUUGCGUCAUAACUGGAGAUUAAAUAAAGUUUGUUAGCAGGGCG
...((((((((((((((((.(((((.((.............((((....((((....))))....)))).........))))))).))))))))))................))).))). (-27.60 = -27.32 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:49:48 2011