Locus 351

Sequence ID dm3.chr2L
Location 2,451,468 – 2,451,558
Length 90
Max. P 0.748575
window480 window481

overview

Window 0

Location 2,451,468 – 2,451,558
Length 90
Sequences 8
Columns 103
Reading direction forward
Mean pairwise identity 70.50
Shannon entropy 0.59119
G+C content 0.45577
Mean single sequence MFE -25.46
Consensus MFE -10.16
Energy contribution -10.34
Covariance contribution 0.17
Combinations/Pair 1.53
Mean z-score -1.59
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.58
SVM RNA-class probability 0.748575
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 2451468 90 + 23011544
---------AGUG-UGUGUCUUCAGCUGGGUGUGUGGAAUGUCAACUGACGGGUUGUAAAGGGAAACCCUGAAAUCCGAACGGCC---AGCCAAAGCAAAUAA
---------..((-(.((.(((..(((((.(((.((((..(((....)))(((((.........))))).....)))).))).))---)))..))))).))). ( -30.00, z-score =  -2.22, R)
>droSim1.chr2L 2411754 90 + 22036055
---------AGUG-UGUGUCUUCAGCUGGGUGUGUGGAAUGUCAACUGACGGGUUGUAAAGGGAAACCCUGAAAUCCGAACGGCC---AGCCAAAGCAAAUAA
---------..((-(.((.(((..(((((.(((.((((..(((....)))(((((.........))))).....)))).))).))---)))..))))).))). ( -30.00, z-score =  -2.22, R)
>droSec1.super_5 625003 74 + 5866729
--------------------------AGUGUGUGUGGAAUGUCAACAGACGGGUUGUAAAGGGAAACCCUGAAAUCCGAACGGCC---AGCCAAAGCAAAUAA
--------------------------..(((...(((...(((......((((((....((((...))))..))))))...))).---..)))..)))..... ( -18.50, z-score =  -0.77, R)
>droYak2.chr2L 2440812 90 + 22324452
---------AGUG-UGUGUCUUCAGCUGGGUGUGUGGAAUGUCAACUGACGGGUUGUAAAGGGAAACCCUGAAAUCCGAACGGCC---AGCCAAAGCAAAUAA
---------..((-(.((.(((..(((((.(((.((((..(((....)))(((((.........))))).....)))).))).))---)))..))))).))). ( -30.00, z-score =  -2.22, R)
>droEre2.scaffold_4929 2495721 90 + 26641161
---------AGUG-UGUGUCUUCAGCUGGGUGUGUGGAAUGUCAACUGACGGGUUGUAAAGGGAAACCCUGAAAUCCGAACAGCC---AGCCAAAGCAAAUAA
---------..((-(.((.(((..(((((.(((.((((..(((....)))(((((.........))))).....)))).))).))---)))..))))).))). ( -30.70, z-score =  -2.65, R)
>droAna3.scaffold_12913 191567 100 - 441482
---AGUGCUGGUGCUGAAGCCGAUGCUGGGUGUUUGGAAUGUCAACUGACGGGUUGUAAAGGGAAACCCUGAAAUUCGAAUAGCCGCCAGCUAAAGCAAAUAA
---..((((...((((.(((....)))((.((((((((..(((....)))(((((.........))))).....)))))))).))..))))...))))..... ( -32.30, z-score =  -2.12, R)
>droWil1.scaffold_180703 2977729 96 + 3946847
AGGUGUGCGUGUG-UGUGUGUGCGACUUUUGGAAUGGAAUGUCAACUGACAAGUUGUAAAGGGAAACCCUGAAAUUCGAACAGCC------AAAAAUAUAUAA
..((((...((.(-(.(((...(((.(((..(.(..(..((((....))))..)..)...((....)))..))).))).))))))------)...)))).... ( -20.90, z-score =  -0.52, R)
>droGri2.scaffold_15252 5192514 73 - 17193109
-------UGUGUG-UGCGAGUGUGUGUGUCUUGCUGGAAUGUCAACUAACAAGUUGAAAUAAAAAAUUGUUAAACAUCAAU----------------------
-------((.(((-((((((.........))))).......((((((....))))))................))))))..---------------------- ( -11.30, z-score =   0.06, R)
>consensus
_________AGUG_UGUGUCUUCAGCUGGGUGUGUGGAAUGUCAACUGACGGGUUGUAAAGGGAAACCCUGAAAUCCGAACGGCC___AGCCAAAGCAAAUAA
............................(((....((...(((....)))(((((.....((....))....)))))......))....)))........... (-10.16 = -10.34 +   0.17)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 2,451,468 – 2,451,558
Length 90
Sequences 8
Columns 103
Reading direction reverse
Mean pairwise identity 70.50
Shannon entropy 0.59119
G+C content 0.45577
Mean single sequence MFE -20.88
Consensus MFE -7.13
Energy contribution -7.17
Covariance contribution 0.05
Combinations/Pair 1.58
Mean z-score -1.88
Structure conservation index 0.34
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.47
SVM RNA-class probability 0.709283
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 2451468 90 - 23011544
UUAUUUGCUUUGGCU---GGCCGUUCGGAUUUCAGGGUUUCCCUUUACAACCCGUCAGUUGACAUUCCACACACCCAGCUGAAGACACA-CACU---------
.....(((((..(((---((..((..(((.....(((((.........)))))(((....)))..)))..))..)))))..))).))..-....--------- ( -27.10, z-score =  -3.24, R)
>droSim1.chr2L 2411754 90 - 22036055
UUAUUUGCUUUGGCU---GGCCGUUCGGAUUUCAGGGUUUCCCUUUACAACCCGUCAGUUGACAUUCCACACACCCAGCUGAAGACACA-CACU---------
.....(((((..(((---((..((..(((.....(((((.........)))))(((....)))..)))..))..)))))..))).))..-....--------- ( -27.10, z-score =  -3.24, R)
>droSec1.super_5 625003 74 - 5866729
UUAUUUGCUUUGGCU---GGCCGUUCGGAUUUCAGGGUUUCCCUUUACAACCCGUCUGUUGACAUUCCACACACACU--------------------------
...........((..---..))....(((.....(((((.........)))))(((....)))..))).........-------------------------- ( -13.50, z-score =   0.16, R)
>droYak2.chr2L 2440812 90 - 22324452
UUAUUUGCUUUGGCU---GGCCGUUCGGAUUUCAGGGUUUCCCUUUACAACCCGUCAGUUGACAUUCCACACACCCAGCUGAAGACACA-CACU---------
.....(((((..(((---((..((..(((.....(((((.........)))))(((....)))..)))..))..)))))..))).))..-....--------- ( -27.10, z-score =  -3.24, R)
>droEre2.scaffold_4929 2495721 90 - 26641161
UUAUUUGCUUUGGCU---GGCUGUUCGGAUUUCAGGGUUUCCCUUUACAACCCGUCAGUUGACAUUCCACACACCCAGCUGAAGACACA-CACU---------
.....(((((..(((---((.(((..(((.....(((((.........)))))(((....)))..)))..))).)))))..))).))..-....--------- ( -29.60, z-score =  -3.91, R)
>droAna3.scaffold_12913 191567 100 + 441482
UUAUUUGCUUUAGCUGGCGGCUAUUCGAAUUUCAGGGUUUCCCUUUACAACCCGUCAGUUGACAUUCCAAACACCCAGCAUCGGCUUCAGCACCAGCACU---
.....((((..((((((..(((............(((((.........)))))(((....))).............))).))))))..))))........--- ( -23.50, z-score =  -1.63, R)
>droWil1.scaffold_180703 2977729 96 - 3946847
UUAUAUAUUUUU------GGCUGUUCGAAUUUCAGGGUUUCCCUUUACAACUUGUCAGUUGACAUUCCAUUCCAAAAGUCGCACACACA-CACACGCACACCU
......((((((------((..((..((((...((((...))))...(((((....)))))..)))).)).)))))))).((.......-.....))...... ( -12.70, z-score =  -0.07, R)
>droGri2.scaffold_15252 5192514 73 + 17193109
----------------------AUUGAUGUUUAACAAUUUUUUAUUUCAACUUGUUAGUUGACAUUCCAGCAAGACACACACACUCGCA-CACACA-------
----------------------..((.((((((((((.((........)).))))))((((......))))..))))))..........-......------- (  -6.40, z-score =   0.17, R)
>consensus
UUAUUUGCUUUGGCU___GGCCGUUCGGAUUUCAGGGUUUCCCUUUACAACCCGUCAGUUGACAUUCCACACACCCAGCUGAAGACACA_CACU_________
..........((((.....))))...........(((((.........)))))(((....)))........................................ ( -7.13 =  -7.17 +   0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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