Locus 2452

Sequence ID dm3.chr2L
Location 19,196,679 – 19,196,770
Length 91
Max. P 0.939982
window3374 window3375

overview

Window 4

Location 19,196,679 – 19,196,770
Length 91
Sequences 7
Columns 105
Reading direction forward
Mean pairwise identity 62.27
Shannon entropy 0.70310
G+C content 0.60049
Mean single sequence MFE -33.81
Consensus MFE -15.81
Energy contribution -15.71
Covariance contribution -0.10
Combinations/Pair 1.25
Mean z-score -0.79
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.770329
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 19196679 91 + 23011544
----------UGCAUGUGGAUGUGGAUGUGGAUGUGCCUGGCCAGGAGCCUUC-GCCUGCAGGCGAACUGCAGGCUGACAUUACCGAUGCUGACAGCGGCAC---
----------(((.(((((...((((((((((.((.(((....))).)).)))-((((((((.....))))))))..))))..)))...)).)))...))).--- ( -32.80, z-score =  -0.11, R)
>droSim1.chr2L 18886637 97 + 22036055
----UGCAUGUGGAUGUGGAUAUGUAUGUGGAUGUGCCUGGCCAGGAGCCUUC-GCCUGCAGGCGAACUGCAGGCUGACAUAACCGAUGCUGACAGCAGCAC---
----(((.(((((...(((.(((((....(((.((.(((....))).)).)))-((((((((.....))))))))..))))).)))...)).))))))....--- ( -36.10, z-score =  -0.91, R)
>droSec1.super_7 2820000 97 + 3727775
----UGCAUGUGGAUGUGGAUAUGUAUGUGGAUGUGCCUGGCCAGGAGCCUUC-GCCUGCAGGCGAACUGCAGGCUGACAUUACCGAUGCUGACAGCGGCAC---
----(((.(((((...(((..((((....(((.((.(((....))).)).)))-((((((((.....))))))))..))))..)))...)).)))...))).--- ( -33.80, z-score =  -0.04, R)
>droEre2.scaffold_4845 17505074 96 - 22589142
----UGGAUGUAGAUAUGGAUGUGGAUGUGGAUGUGCCUGGCCAGGAGCCUUC-GCCUGCAGGCGA-CUGCAGGCUGACAUUACCGUUGAUGACAGGGGCAC---
----....(((.(.(((.((((..((((((((.((.(((....))).)).)))-((((((((....-))))))))..)))))..)))).))).)....))).--- ( -33.40, z-score =  -0.79, R)
>droAna3.scaffold_12916 10949226 98 - 16180835
UGCGGCAGGACGAGGGGGUGUGGCCCGGUGAC--GGCCCGAAG----GCUGGUAGCCUGCAGGCAAACUGCAGGCUGACAUUUCCAAUCAGGACA-CAGUGGCAC
(((.((.......((..((((((.(((....)--)).))....----.....((((((((((.....))))))))))))))..)).....(....-).)).))). ( -44.40, z-score =  -2.03, R)
>dp4.chr4_group4 274959 81 - 6586962
-------------------UUCGUCCGGAGAAUGGGCCUGAAACCUCGCCUGCAGUCUGCAGUCUGCCUGCAGGCCGACAUU-CCACUGAGGCCA-AGGCAC---
-------------------.....(((.....)))((((....((((((((((((...((.....)))))))))).(.....-.)...))))...-))))..--- ( -28.60, z-score =  -0.44, R)
>droPer1.super_16 584497 74 + 1990440
-------------------UUCGUCCGGAGAAUGGGCCUGAAACCUCGCCUGCAGUCUGC-------CUGCAGGCCGACAUU-CCACUGAGGCCA-AGGCAC---
-------------------.....(((.....)))((((....((((((((((((.....-------)))))))).(.....-.)...))))...-))))..--- ( -27.60, z-score =  -1.18, R)
>consensus
__________UGGAUGUGGAUGUGCAUGUGGAUGUGCCUGGCCAGGAGCCUUC_GCCUGCAGGCGAACUGCAGGCUGACAUUACCGAUGAUGACAGCGGCAC___
...............................................(((....((((((((.....)))))))).(.......)............)))..... (-15.81 = -15.71 +  -0.10) 

alignment

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secondary structure

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dotplot

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Window 5

Location 19,196,679 – 19,196,770
Length 91
Sequences 7
Columns 105
Reading direction reverse
Mean pairwise identity 62.27
Shannon entropy 0.70310
G+C content 0.60049
Mean single sequence MFE -32.46
Consensus MFE -16.02
Energy contribution -16.70
Covariance contribution 0.68
Combinations/Pair 1.16
Mean z-score -1.09
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.44
SVM RNA-class probability 0.939982
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 19196679 91 - 23011544
---GUGCCGCUGUCAGCAUCGGUAAUGUCAGCCUGCAGUUCGCCUGCAGGC-GAAGGCUCCUGGCCAGGCACAUCCACAUCCACAUCCACAUGCA----------
---(((((((.....))...(((...(((.((((((((.....))))))))-...))).....))).))))).......................---------- ( -33.40, z-score =  -1.32, R)
>droSim1.chr2L 18886637 97 - 22036055
---GUGCUGCUGUCAGCAUCGGUUAUGUCAGCCUGCAGUUCGCCUGCAGGC-GAAGGCUCCUGGCCAGGCACAUCCACAUACAUAUCCACAUCCACAUGCA----
---((((((....)))))).((...((((.((((((((.....))))))))-...(((.....))).))))...)).........................---- ( -32.90, z-score =  -0.90, R)
>droSec1.super_7 2820000 97 - 3727775
---GUGCCGCUGUCAGCAUCGGUAAUGUCAGCCUGCAGUUCGCCUGCAGGC-GAAGGCUCCUGGCCAGGCACAUCCACAUACAUAUCCACAUCCACAUGCA----
---(((((((.....))...(((...(((.((((((((.....))))))))-...))).....))).))))).............................---- ( -33.40, z-score =  -1.34, R)
>droEre2.scaffold_4845 17505074 96 + 22589142
---GUGCCCCUGUCAUCAACGGUAAUGUCAGCCUGCAG-UCGCCUGCAGGC-GAAGGCUCCUGGCCAGGCACAUCCACAUCCACAUCCAUAUCUACAUCCA----
---(((((.((((.....))))........((((((((-....))))))))-...(((.....))).))))).............................---- ( -30.50, z-score =  -2.13, R)
>droAna3.scaffold_12916 10949226 98 + 16180835
GUGCCACUG-UGUCCUGAUUGGAAAUGUCAGCCUGCAGUUUGCCUGCAGGCUACCAGC----CUUCGGGCC--GUCACCGGGCCACACCCCCUCGUCCUGCCGCA
(((((.(.(-((.(((((..((...((..(((((((((.....)))))))))..)).)----).)))))..--..))).))).)))................... ( -36.20, z-score =  -1.07, R)
>dp4.chr4_group4 274959 81 + 6586962
---GUGCCU-UGGCCUCAGUGG-AAUGUCGGCCUGCAGGCAGACUGCAGACUGCAGGCGAGGUUUCAGGCCCAUUCUCCGGACGAA-------------------
---......-.(((((....((-(((.(((.(((((((((.....))...)))))))))).))))))))))...............------------------- ( -30.20, z-score =   0.06, R)
>droPer1.super_16 584497 74 - 1990440
---GUGCCU-UGGCCUCAGUGG-AAUGUCGGCCUGCAG-------GCAGACUGCAGGCGAGGUUUCAGGCCCAUUCUCCGGACGAA-------------------
---......-.(((((....((-(((.(((.(((((((-------.....)))))))))).))))))))))...............------------------- ( -30.60, z-score =  -0.95, R)
>consensus
___GUGCCGCUGUCAUCAUCGGUAAUGUCAGCCUGCAGUUCGCCUGCAGGC_GAAGGCUCCUGGCCAGGCACAUCCACAUGCACAUCCACAUCCA__________
.....(((..((....))..(((...(((.((((((((.....))))))))....))).....))).)))................................... (-16.02 = -16.70 +   0.68) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:51:30 2011