Locus 13973

Sequence ID dm3.chrX
Location 10,337,843 – 10,337,937
Length 94
Max. P 0.834242
window19220 window19221

overview

Window 0

Location 10,337,843 – 10,337,937
Length 94
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 60.50
Shannon entropy 0.64638
G+C content 0.50733
Mean single sequence MFE -24.56
Consensus MFE -11.64
Energy contribution -11.04
Covariance contribution -0.60
Combinations/Pair 1.50
Mean z-score -1.12
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.85
SVM RNA-class probability 0.834242
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10337843 94 + 22422827
CGAUGAACCAUUUAAGAUUGAAAGGCUUGCUAAAGUGGCCCGGAUGCUACUCAUCCCCCUUUCCAAUCCCAUGCCCAUCGCA----UCGCUGGAGCAG-----------------
...............((((((((((...(((.....)))..(((((.....))))).))))).)))))...((((((.((..----.)).))).))).----------------- ( -22.10, z-score =  -0.38, R)
>droYak2.chrX 18911336 114 + 21770863
CGAUGAAGCAUUUAAGAUUGAAAGGCUUGCCUAAGUGGCCUGGAUGCUACUCAUCCCCAUC-CCAAUCCCAUUCCAAUCCCCAUACCCAAUGCUUCAAAACCAUGCCCAUCGCAU
...(((((((((...(((((..(((((.........)))))(((((.....))))).....-............))))).........))))))))).....((((.....)))) ( -24.60, z-score =  -1.75, R)
>droSec1.super_15 1045363 94 + 1954846
CGAUGAACCAUUUAAGAUUGAAAGGCUUGCUUAAGUGGCCUGGAUGCUACUCAUCCCCAUCCCCAAUCCCAUGCCCAUCGCA----UCGAUGGAGCAG-----------------
.((((..(((((((((...(.....)...)))))))))...(((((.....))))).))))..........(((((((((..----.)))))).))).----------------- ( -28.30, z-score =  -2.37, R)
>droSim1.chrX 8042527 94 + 17042790
CGAUGAACCAUUUAAGAUUGAAAGGCUUGCUUAAGUGGCCUGGAUGCUACUCAUCCCCAUCCCCAAUCCCAUGCCCAUCGCA----UCGAUGGAGCAG-----------------
.((((..(((((((((...(.....)...)))))))))...(((((.....))))).))))..........(((((((((..----.)))))).))).----------------- ( -28.30, z-score =  -2.37, R)
>droVir3.scaffold_12932 191974 86 + 2102469
-UGCCAGUCGUGCAAUUUCACAUUCAGUGCCAGGAUUUGUGGGGUGUAGUU--UCUGAGUUUGGGAUUCUGUGUUUGCCGCU-CGCCCAG-------------------------
-.((.((.((.((((...((((...(((.(((((.....(((((......)--))))..))))).))).)))).))))))))-.))....------------------------- ( -19.50, z-score =   1.26, R)
>consensus
CGAUGAACCAUUUAAGAUUGAAAGGCUUGCUUAAGUGGCCUGGAUGCUACUCAUCCCCAUCCCCAAUCCCAUGCCCAUCGCA____UCGAUGGAGCAG_________________
.((((...(((....(((((..(((((.........)))))(((((.....))))).......)))))..)))..)))).................................... (-11.64 = -11.04 +  -0.60)

alignment

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secondary structure

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dotplot

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Window 1

Location 10,337,843 – 10,337,937
Length 94
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 60.50
Shannon entropy 0.64638
G+C content 0.50733
Mean single sequence MFE -27.92
Consensus MFE -17.36
Energy contribution -17.72
Covariance contribution 0.36
Combinations/Pair 1.42
Mean z-score -0.42
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.776378
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10337843 94 - 22422827
-----------------CUGCUCCAGCGA----UGCGAUGGGCAUGGGAUUGGAAAGGGGGAUGAGUAGCAUCCGGGCCACUUUAGCAAGCCUUUCAAUCUUAAAUGGUUCAUCG
-----------------.(((....))).----..((((((((.((((((((.(((((.(((((.....)))))..((.......))...)))))))))))))....)))))))) ( -30.40, z-score =  -0.80, R)
>droYak2.chrX 18911336 114 - 21770863
AUGCGAUGGGCAUGGUUUUGAAGCAUUGGGUAUGGGGAUUGGAAUGGGAUUGG-GAUGGGGAUGAGUAGCAUCCAGGCCACUUAGGCAAGCCUUUCAAUCUUAAAUGCUUCAUCG
((((.....)))).....(((((((((.......((((((((((.((......-.....(((((.....)))))..(((.....)))...)))))))))))).)))))))))... ( -35.50, z-score =  -1.15, R)
>droSec1.super_15 1045363 94 - 1954846
-----------------CUGCUCCAUCGA----UGCGAUGGGCAUGGGAUUGGGGAUGGGGAUGAGUAGCAUCCAGGCCACUUAAGCAAGCCUUUCAAUCUUAAAUGGUUCAUCG
-----------------.(((.((((((.----..)))))))))((((((((..(....(((((.....))))).(((...........))))..))))))))............ ( -29.60, z-score =  -0.57, R)
>droSim1.chrX 8042527 94 - 17042790
-----------------CUGCUCCAUCGA----UGCGAUGGGCAUGGGAUUGGGGAUGGGGAUGAGUAGCAUCCAGGCCACUUAAGCAAGCCUUUCAAUCUUAAAUGGUUCAUCG
-----------------.(((.((((((.----..)))))))))((((((((..(....(((((.....))))).(((...........))))..))))))))............ ( -29.60, z-score =  -0.57, R)
>droVir3.scaffold_12932 191974 86 - 2102469
-------------------------CUGGGCG-AGCGGCAAACACAGAAUCCCAAACUCAGA--AACUACACCCCACAAAUCCUGGCACUGAAUGUGAAAUUGCACGACUGGCA-
-------------------------....((.-((((((((.....................--.........(((.......)))(((.....)))...)))).)).)).)).- ( -14.50, z-score =   0.97, R)
>consensus
_________________CUGCUCCAUCGA____UGCGAUGGGCAUGGGAUUGGAGAUGGGGAUGAGUAGCAUCCAGGCCACUUAAGCAAGCCUUUCAAUCUUAAAUGGUUCAUCG
....................................(((((((.((((((((((.....(((((.....)))))((((...........))))))))))))))....))))))). (-17.36 = -17.72 +   0.36)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:31:16 2011