Locus 9049

Sequence ID dm3.chr3R
Location 3,755,885 – 3,755,955
Length 70
Max. P 0.931051
window12417 window12418

overview

Window 7

Location 3,755,885 – 3,755,955
Length 70
Sequences 9
Columns 73
Reading direction forward
Mean pairwise identity 87.89
Shannon entropy 0.24403
G+C content 0.58273
Mean single sequence MFE -26.27
Consensus MFE -20.79
Energy contribution -20.54
Covariance contribution -0.25
Combinations/Pair 1.19
Mean z-score -2.13
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.36
SVM RNA-class probability 0.931051
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 3755885 70 + 27905053
UACUUACACGAAGAGGACAGCGGCCGCUGCUGCUGCUGCCACGGCGGCAGCAACGUUGCGAUACUGCUAC---
..................(((((.(((.(((((((((((....)))))))))..)).)))...)))))..--- ( -28.00, z-score =  -2.10, R)
>droGri2.scaffold_15074 2997037 70 - 7742996
UACUUACACAAAGAGUACAGCUGCAGC---AGCUGCCGCAGCAGCGGCGGCAACAUUGCGAUACUGCUGCUAC
(((((.......))))).....(((((---((.((((((....))))))(((....)))....)))))))... ( -26.30, z-score =  -1.66, R)
>droWil1.scaffold_181130 3453890 66 - 16660200
-ACUUACACAAAGAGCACAGCUGCCGCUGCAGCUGCUGCCACAGCGGCAGCAACAUUUCUAUACUAC------
-..........((((....((((((((((..((....))..)))))))))).....)))).......------ ( -25.10, z-score =  -3.76, R)
>droPer1.super_0 3358051 70 + 11822988
UACUUACACAAAGAGGACAGCUGCCGCUGCUGCUGCCGCCACAGCGGCGGCAACAUUGCGAUACUGCUAC---
..............((.(((.((.(((((.(((((((((....))))))))).))..))).)))))))..--- ( -25.10, z-score =  -2.04, R)
>dp4.chr2 13763075 70 - 30794189
UACUUACACAAAGAGGACAGCUGCCGCUGCUGCUGCCGCCACAGCGGCGGCAACAUUGCGAUACUGCUAC---
..............((.(((.((.(((((.(((((((((....))))))))).))..))).)))))))..--- ( -25.10, z-score =  -2.04, R)
>droAna3.scaffold_13340 14866850 70 + 23697760
UACUUACACAAAAAGGACAGCUGCCGCUGCUGCUGCUGCCACGGCGGCAGCAACGUUGCGAUAUUGCUAC---
...................((((((((((..((....))..))))))))))...((.(((....))).))--- ( -25.00, z-score =  -1.79, R)
>droEre2.scaffold_4770 3996196 70 + 17746568
UACUUACACGAAGAGGACAGCGGCCGCUGCUGCUGCUGCCACGGCGGCAGCAACGUUGCGAUACUGCUAC---
..................(((((.(((.(((((((((((....)))))))))..)).)))...)))))..--- ( -28.00, z-score =  -2.10, R)
>droSec1.super_6 3825801 70 + 4358794
UACUUACACGAAGAGGACAGCGGCUGCUGCUGCUGCUGCCACGGCGGCAGCAACGUUGCGAUACUGCUAC---
...........((((....((((((((((((((((......)))))))))))..)))))....)).))..--- ( -26.90, z-score =  -1.84, R)
>droSim1.chr3R 3793716 70 + 27517382
UACUUACACGAAGAGGACAGCGGCUGCUGCUGCUGCUGCCACGGCGGCAGCAACGUUGCGAUACUGCUAC---
...........((((....((((((((((((((((......)))))))))))..)))))....)).))..--- ( -26.90, z-score =  -1.84, R)
>consensus
UACUUACACAAAGAGGACAGCUGCCGCUGCUGCUGCUGCCACGGCGGCAGCAACGUUGCGAUACUGCUAC___
......(.(((......((((....))))..((((((((....))))))))....))).)............. (-20.79 = -20.54 +  -0.25)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 3,755,885 – 3,755,955
Length 70
Sequences 9
Columns 73
Reading direction reverse
Mean pairwise identity 87.89
Shannon entropy 0.24403
G+C content 0.58273
Mean single sequence MFE -28.02
Consensus MFE -23.18
Energy contribution -23.40
Covariance contribution 0.22
Combinations/Pair 1.06
Mean z-score -1.30
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.19
SVM RNA-class probability 0.584920
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 3755885 70 - 27905053
---GUAGCAGUAUCGCAACGUUGCUGCCGCCGUGGCAGCAGCAGCAGCGGCCGCUGUCCUCUUCGUGUAAGUA
---...(((((.((((...((((((((.((....)).)))))))).))))..)))))................ ( -27.00, z-score =  -0.86, R)
>droGri2.scaffold_15074 2997037 70 + 7742996
GUAGCAGCAGUAUCGCAAUGUUGCCGCCGCUGCUGCGGCAGCU---GCUGCAGCUGUACUCUUUGUGUAAGUA
((((((((......(((....))).(((((....))))).)))---))))).(((.(((.......)))))). ( -29.60, z-score =  -1.09, R)
>droWil1.scaffold_181130 3453890 66 + 16660200
------GUAGUAUAGAAAUGUUGCUGCCGCUGUGGCAGCAGCUGCAGCGGCAGCUGUGCUCUUUGUGUAAGU-
------....((((.(((.((.((((((((((..((....))..))))))))))...))..))).))))...- ( -32.40, z-score =  -3.33, R)
>droPer1.super_0 3358051 70 - 11822988
---GUAGCAGUAUCGCAAUGUUGCCGCCGCUGUGGCGGCAGCAGCAGCGGCAGCUGUCCUCUUUGUGUAAGUA
---...(((((.((((..((((((((((.....))))))))))...))))..)))))................ ( -29.50, z-score =  -1.44, R)
>dp4.chr2 13763075 70 + 30794189
---GUAGCAGUAUCGCAAUGUUGCCGCCGCUGUGGCGGCAGCAGCAGCGGCAGCUGUCCUCUUUGUGUAAGUA
---...(((((.((((..((((((((((.....))))))))))...))))..)))))................ ( -29.50, z-score =  -1.44, R)
>droAna3.scaffold_13340 14866850 70 - 23697760
---GUAGCAAUAUCGCAACGUUGCUGCCGCCGUGGCAGCAGCAGCAGCGGCAGCUGUCCUUUUUGUGUAAGUA
---..........(((((.(((((((((.....))))))))).(((((....))))).....)))))...... ( -26.80, z-score =  -1.11, R)
>droEre2.scaffold_4770 3996196 70 - 17746568
---GUAGCAGUAUCGCAACGUUGCUGCCGCCGUGGCAGCAGCAGCAGCGGCCGCUGUCCUCUUCGUGUAAGUA
---...(((((.((((...((((((((.((....)).)))))))).))))..)))))................ ( -27.00, z-score =  -0.86, R)
>droSec1.super_6 3825801 70 - 4358794
---GUAGCAGUAUCGCAACGUUGCUGCCGCCGUGGCAGCAGCAGCAGCAGCCGCUGUCCUCUUCGUGUAAGUA
---((.((......)).))(((((((((.....))))))))).(((((....)))))................ ( -25.20, z-score =  -0.77, R)
>droSim1.chr3R 3793716 70 - 27517382
---GUAGCAGUAUCGCAACGUUGCUGCCGCCGUGGCAGCAGCAGCAGCAGCCGCUGUCCUCUUCGUGUAAGUA
---((.((......)).))(((((((((.....))))))))).(((((....)))))................ ( -25.20, z-score =  -0.77, R)
>consensus
___GUAGCAGUAUCGCAACGUUGCUGCCGCCGUGGCAGCAGCAGCAGCGGCAGCUGUCCUCUUUGUGUAAGUA
.............(((...(((((((((.....))))))))).(((((....))))).......)))...... (-23.18 = -23.40 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:57:06 2011