Locus 364

Sequence ID dm3.chr2L
Location 2,515,497 – 2,515,599
Length 102
Max. P 0.948192
window498 window499

overview

Window 8

Location 2,515,497 – 2,515,599
Length 102
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 64.09
Shannon entropy 0.63843
G+C content 0.35627
Mean single sequence MFE -21.42
Consensus MFE -10.26
Energy contribution -9.90
Covariance contribution -0.36
Combinations/Pair 1.41
Mean z-score -1.29
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.22
SVM RNA-class probability 0.911030
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 2515497 102 + 23011544
CUACAUACUCAUUAGGCACUCUGAAAUGCGCCUAGUCAGGGAAAAUGUAU-AUUCAAUUUGCACAGUUUCGUUAAUAUACAUGUGGGUAAAAUAGAGAGAGGA--------
((((((.((.(((((((.(........).))))))).)).((((.((((.-........))))...))))..........)))))).................-------- ( -20.00, z-score =  -0.21, R)
>droSim1.chr2L 2478120 105 + 22036055
CUACAUACUCAUUAGGCACUCUGAAAUGCGCCUAACCAGGGAAAAUGUA---UUCAAUUUGGACGUUUUCGUUAAAAUACGUGUAUUUUAGACACACGGAAAAUAUGA---
...((((....((((((.(........).))))))((...((((((((.---..........))))))))(((((((((....)))))).)))....))....)))).--- ( -21.70, z-score =  -1.40, R)
>droSec1.super_5 689643 105 + 5866729
CUACAUACUCAUUAGGCACUCUGAAAUGCGCCUAACCAGGGAAAAUGUA---UUCAAUUUGUACGUUUUCGUUAAAAUACGUGUAUUUUAGACACACGGAAAAUAGGA---
...........((((((.(........).))))))((((.(((((((((---(.......)))))))))).))......(((((.........))))).......)).--- ( -24.70, z-score =  -2.33, R)
>droEre2.scaffold_4929 2561616 96 + 26641161
CUACAUACUCAUUAGGCACUCUGAAAUGCGCCUAGCCAGGGAAAAUGUA---UUCAAUUUGCACGUUUUCGUUGAAAUAUGUAUGUCUAAAACACAAAA------------
..((((((...((((((.(........).)))))).(((.((((((((.---..........)))))))).)))......)))))).............------------ ( -22.00, z-score =  -2.17, R)
>droVir3.scaffold_12963 9899778 103 + 20206255
--------AACUUGUGUUCCCAAAAUUGAUUGCACCUUUGGAAUAUGUUUGAGUUAAAAUGAACUUCUUUAGUUGACAACUUUUAUAGUGAGCAAUCAGGAAAAGAGAACU
--------..(((...((((......(((((((.(((.(((((..((((.(((((......)))))........))))..))))).)).).)))))))))))..))).... ( -18.70, z-score =  -0.31, R)
>consensus
CUACAUACUCAUUAGGCACUCUGAAAUGCGCCUAACCAGGGAAAAUGUA___UUCAAUUUGCACGUUUUCGUUAAAAUACGUGUAUUUUAAACACACAGAAAA___GA___
.......((..((((((.(........).))))))..)).((((((((..............))))))))......................................... (-10.26 =  -9.90 +  -0.36)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 2,515,497 – 2,515,599
Length 102
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 64.09
Shannon entropy 0.63843
G+C content 0.35627
Mean single sequence MFE -21.46
Consensus MFE -8.90
Energy contribution -10.90
Covariance contribution 2.00
Combinations/Pair 1.26
Mean z-score -1.81
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.54
SVM RNA-class probability 0.948192
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 2515497 102 - 23011544
--------UCCUCUCUCUAUUUUACCCACAUGUAUAUUAACGAAACUGUGCAAAUUGAAU-AUACAUUUUCCCUGACUAGGCGCAUUUCAGAGUGCCUAAUGAGUAUGUAG
--------........((((..(((.((.(((((((((.(((....)))........)))-))))))..........(((((((........))))))).)).))).)))) ( -18.40, z-score =  -1.24, R)
>droSim1.chr2L 2478120 105 - 22036055
---UCAUAUUUUCCGUGUGUCUAAAAUACACGUAUUUUAACGAAAACGUCCAAAUUGAA---UACAUUUUCCCUGGUUAGGCGCAUUUCAGAGUGCCUAAUGAGUAUGUAG
---(((.......(((((((.....))))))).((((..(((....)))..))))))).---(((((.....((.(((((((((........))))))))).)).))))). ( -25.80, z-score =  -3.08, R)
>droSec1.super_5 689643 105 - 5866729
---UCCUAUUUUCCGUGUGUCUAAAAUACACGUAUUUUAACGAAAACGUACAAAUUGAA---UACAUUUUCCCUGGUUAGGCGCAUUUCAGAGUGCCUAAUGAGUAUGUAG
---..........(((((((.....))))))).............((((((.....(((---......)))..(.(((((((((........))))))))).))))))).. ( -25.90, z-score =  -2.98, R)
>droEre2.scaffold_4929 2561616 96 - 26641161
------------UUUUGUGUUUUAGACAUACAUAUUUCAACGAAAACGUGCAAAUUGAA---UACAUUUUCCCUGGCUAGGCGCAUUUCAGAGUGCCUAAUGAGUAUGUAG
------------.............((((((.....(((..(((((.(((.........---))).)))))..))).(((((((........)))))))....)))))).. ( -19.70, z-score =  -0.81, R)
>droVir3.scaffold_12963 9899778 103 - 20206255
AGUUCUCUUUUCCUGAUUGCUCACUAUAAAAGUUGUCAACUAAAGAAGUUCAUUUUAACUCAAACAUAUUCCAAAGGUGCAAUCAAUUUUGGGAACACAAGUU--------
.((((((......(((((((.(.((.....(((.....)))...((.(((......))))).............))).))))))).....)))))).......-------- ( -17.50, z-score =  -0.92, R)
>consensus
___UC___UUUUCUGUGUGUUUAAAAUACACGUAUUUUAACGAAAACGUGCAAAUUGAA___UACAUUUUCCCUGGCUAGGCGCAUUUCAGAGUGCCUAAUGAGUAUGUAG
.............................((((((((....(((((.(((............))).)))))......(((((((........)))))))..)))))))).. ( -8.90 = -10.90 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:11:34 2011