Locus 2537

Sequence ID dm3.chr2L
Location 19,834,335 – 19,834,393
Length 58
Max. P 0.861144
window3491 window3492

overview

Window 1

Location 19,834,335 – 19,834,393
Length 58
Sequences 7
Columns 58
Reading direction forward
Mean pairwise identity 69.33
Shannon entropy 0.62353
G+C content 0.42137
Mean single sequence MFE -14.05
Consensus MFE -5.81
Energy contribution -6.96
Covariance contribution 1.14
Combinations/Pair 1.25
Mean z-score -1.58
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.861144
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 19834335 58 + 23011544
GCUAAAGGAACUUGAAAACCAGAGGAAAAGUUACCUCAGCAAAAUAGCUUUGCUGACA
......(((((((..............))))).))((((((((.....)))))))).. ( -12.84, z-score =  -1.62, R)
>droSim1.chr2L 19493991 58 + 22036055
GCUGAGGGAACUUAAAAGCCAGAGGUAAAGUUACCUCAGCAAAAUAGCUUUGCUGACA
(((((((.(((((....(((...))).))))).)))))))....((((...))))... ( -18.90, z-score =  -2.67, R)
>droSec1.super_7 3439754 58 + 3727775
GCUGAGGGAACUUGAAAGCCAGAGGUAAAGUUACCUCAGCAAAAUAGCUUUGCUGACA
(((((((.(((((....(((...))).))))).)))))))....((((...))))... ( -20.00, z-score =  -2.85, R)
>droYak2.chr2R 6303298 58 + 21139217
AGUAAAGGAACUUGAAAACCAGAGGUAAAGUUACCUCAGCAAAAUAGGUUUGCUGACA
......(((((((....(((...))).))))).))((((((((.....)))))))).. ( -14.30, z-score =  -2.01, R)
>droEre2.scaffold_4845 18099215 58 - 22589142
ACUAAAGGAACUUGAAAACCAGAGGUAAAGUUACCUCAGCAAAAUAGCUUUGCUGACA
......(((((((....(((...))).))))).))((((((((.....)))))))).. ( -14.50, z-score =  -2.37, R)
>droAna3.scaffold_12916 7201163 56 - 16180835
--GCCCGAUUCCUAGAAAGUGGAGAGAAAGUUGCCUCAGCAAAAAUGCGCAGAUGCCA
--((.....(((........)))(((........))).(((....)))))........ (  -8.20, z-score =   0.77, R)
>droGri2.scaffold_15126 7073010 53 + 8399593
--GCUCGAGAGACAGAAGAAUAAGAUAAAGUUGCCCUGGCAAAGAUUUCUUUGCA---
--((((....)).........((((.....((((....)))).....)))).)).--- (  -9.60, z-score =  -0.29, R)
>consensus
GCUAAAGGAACUUGAAAACCAGAGGUAAAGUUACCUCAGCAAAAUAGCUUUGCUGACA
.....................((((((....))))))((((((.....)))))).... ( -5.81 =  -6.96 +   1.14)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,834,335 – 19,834,393
Length 58
Sequences 7
Columns 58
Reading direction reverse
Mean pairwise identity 69.33
Shannon entropy 0.62353
G+C content 0.42137
Mean single sequence MFE -12.25
Consensus MFE -6.12
Energy contribution -5.80
Covariance contribution -0.32
Combinations/Pair 1.60
Mean z-score -0.91
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.50
SVM RNA-class probability 0.721436
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 19834335 58 - 23011544
UGUCAGCAAAGCUAUUUUGCUGAGGUAACUUUUCCUCUGGUUUUCAAGUUCCUUUAGC
..(((((((((...)))))))))((.(((((..((...)).....)))))))...... ( -12.10, z-score =  -0.89, R)
>droSim1.chr2L 19493991 58 - 22036055
UGUCAGCAAAGCUAUUUUGCUGAGGUAACUUUACCUCUGGCUUUUAAGUUCCCUCAGC
....(((...))).....(((((((.(((((..............))))).))))))) ( -14.64, z-score =  -1.31, R)
>droSec1.super_7 3439754 58 - 3727775
UGUCAGCAAAGCUAUUUUGCUGAGGUAACUUUACCUCUGGCUUUCAAGUUCCCUCAGC
....(((...))).....(((((((.(((((..............))))).))))))) ( -13.94, z-score =  -1.04, R)
>droYak2.chr2R 6303298 58 - 21139217
UGUCAGCAAACCUAUUUUGCUGAGGUAACUUUACCUCUGGUUUUCAAGUUCCUUUACU
..((((((((.....))))))))((.(((((.(((...)))....)))))))...... ( -14.20, z-score =  -2.58, R)
>droEre2.scaffold_4845 18099215 58 + 22589142
UGUCAGCAAAGCUAUUUUGCUGAGGUAACUUUACCUCUGGUUUUCAAGUUCCUUUAGU
..(((((((((...)))))))))((.(((((.(((...)))....)))))))...... ( -14.00, z-score =  -1.75, R)
>droAna3.scaffold_12916 7201163 56 + 16180835
UGGCAUCUGCGCAUUUUUGCUGAGGCAACUUUCUCUCCACUUUCUAGGAAUCGGGC--
..((....))(((....))).(((....)))....(((........))).......-- (  -8.30, z-score =   1.41, R)
>droGri2.scaffold_15126 7073010 53 - 8399593
---UGCAAAGAAAUCUUUGCCAGGGCAACUUUAUCUUAUUCUUCUGUCUCUCGAGC--
---.((((((....)))))).(((....))).........................-- (  -8.60, z-score =  -0.24, R)
>consensus
UGUCAGCAAAGCUAUUUUGCUGAGGUAACUUUACCUCUGGUUUUCAAGUUCCUUUAGC
....((((((.....))))))((((........))))..................... ( -6.12 =  -5.80 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:53:12 2011