Locus 14141

Sequence ID dm3.chrX
Location 11,421,716 – 11,421,815
Length 99
Max. P 0.981672
window19458 window19459

overview

Window 8

Location 11,421,716 – 11,421,815
Length 99
Sequences 7
Columns 112
Reading direction forward
Mean pairwise identity 73.05
Shannon entropy 0.47514
G+C content 0.40781
Mean single sequence MFE -32.03
Consensus MFE -10.55
Energy contribution -11.58
Covariance contribution 1.03
Combinations/Pair 1.33
Mean z-score -3.34
Structure conservation index 0.33
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.08
SVM RNA-class probability 0.981672
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11421716 99 + 22422827
UUCAGCCCUUCGGCAUCGGCAUGAAUGAA--UUGCAAACGAAUAAGCUGAGAUAA---------UCGAUAUAUUCGGU--GGGCUAUCAAAUGGCCCAGCAAUUCAUUCAUG
....(((....))).....((((((((((--((((...((((((.(.(((.....---------))).).)))))).(--(((((((...)))))))))))))))))))))) ( -40.40, z-score =  -5.39, R)
>droSim1.chrX 8806314 99 + 17042790
UUUAGCCCUUCGGUAUCGGCAUGAAUGAA--UUGCAAACGAAUAAGCUGAGAUAU---------UCGAUAUAUUCGGU--GGGCUAUCAAAUGGCCCAGCAAUUCAUUCAUG
....((((....)....)))(((((((((--((((...((((((.(.((((...)---------))).).)))))).(--(((((((...))))))))))))))))))))). ( -37.80, z-score =  -4.92, R)
>droSec1.super_36 143283 99 + 449511
UUUAGCCCUUCGGCAUCGGCAUGAAUGAA--UUGCAAACGAAUAAGCUGAGAUAC---------UCGAUAUAUUCGGU--GGGCUAUCAAAUGGCCCUACAAUUCAUUCAUG
....(((....))).....((((((((((--(((....((((((.(.((((...)---------))).).))))))..--(((((((...)))))))..))))))))))))) ( -35.50, z-score =  -4.63, R)
>droYak2.chrX 11037179 99 - 21770863
UUCAGCCCUUCGGCGUCGGCAUGAAUGAA--UUGCAAACGAAUAAGGUGAGGUAA---------UUGAUAUAUUCGAU--GGGCUAUUAAAUGUCCCAGCAAUUCAUUCAUG
....(((....))).....((((((((((--((((...((((((..((.((....---------)).)).)))))).(--((((........).)))))))))))))))))) ( -33.60, z-score =  -3.62, R)
>droEre2.scaffold_4690 15013330 101 - 18748788
UCCAGCCCUUCGGCAUCGGCAUGAAUGAAAAUUGCAAGCGAAUAAGGUGAGGUAA---------UCGAUAUAUUCGGU--GGGCUAUUAAAUGGCUCAGCAGUUCAUUCAUG
....(((....))).....(((((((((..(((((...((((((...(((.....---------)))...)))))).(--(((((((...)))))))))))))))))))))) ( -33.50, z-score =  -2.89, R)
>dp4.chrXL_group1e 1752604 108 + 12523060
UUGAUCGUUUCCAUGA-AGUGUGAA-AAACAGAAAAAAAAAACAAGGCGGUAUACGAUUACCUUUCGUUUUCUUCGUUUUGGUAUAUCAAAUGGCCCA--AAGCCAUUCAUG
...........(((((-(.(((...-..)))...........((((((((...((((.......)))).....))))))))..........((((...--..)))))))))) ( -20.90, z-score =  -0.72, R)
>droPer1.super_18 591884 108 + 1952607
UUGAUCGUUUCCAUGA-AGUGUGAA-AAACACAAAAAAAAAACAUGGCGGUAUACGAUUACCUUUCGUUUUCUUCGUUUUGGUAUAUCAAAUGGCCCA--AAGCCAUUCAUG
...........(((((-(((((...-..))))............((((((((......))))...............(((((..(((...)))..)))--)))))))))))) ( -22.50, z-score =  -1.21, R)
>consensus
UUCAGCCCUUCGGCAUCGGCAUGAAUGAA__UUGCAAACGAAUAAGGUGAGAUAA_________UCGAUAUAUUCGGU__GGGCUAUCAAAUGGCCCAGCAAUUCAUUCAUG
....(((....))).....(((((((((..........((((((...(((..............)))...))))))....(((...........)))......))))))))) (-10.55 = -11.58 +   1.03)

alignment

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secondary structure

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dotplot

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Window 9

Location 11,421,716 – 11,421,815
Length 99
Sequences 7
Columns 112
Reading direction reverse
Mean pairwise identity 73.05
Shannon entropy 0.47514
G+C content 0.40781
Mean single sequence MFE -30.66
Consensus MFE -9.88
Energy contribution -11.78
Covariance contribution 1.90
Combinations/Pair 1.28
Mean z-score -3.20
Structure conservation index 0.32
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.74
SVM RNA-class probability 0.964974
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11421716 99 - 22422827
CAUGAAUGAAUUGCUGGGCCAUUUGAUAGCCC--ACCGAAUAUAUCGA---------UUAUCUCAGCUUAUUCGUUUGCAA--UUCAUUCAUGCCGAUGCCGAAGGGCUGAA
(((((((((((((((((((.........))))--).((((((....((---------.....))....))))))...))))--)))))))))).....(((....))).... ( -36.60, z-score =  -4.06, R)
>droSim1.chrX 8806314 99 - 17042790
CAUGAAUGAAUUGCUGGGCCAUUUGAUAGCCC--ACCGAAUAUAUCGA---------AUAUCUCAGCUUAUUCGUUUGCAA--UUCAUUCAUGCCGAUACCGAAGGGCUAAA
(((((((((((((((((((.........))))--)..........(((---------(((........))))))...))))--))))))))))......((....))..... ( -33.40, z-score =  -4.07, R)
>droSec1.super_36 143283 99 - 449511
CAUGAAUGAAUUGUAGGGCCAUUUGAUAGCCC--ACCGAAUAUAUCGA---------GUAUCUCAGCUUAUUCGUUUGCAA--UUCAUUCAUGCCGAUGCCGAAGGGCUAAA
(((((((((((((((((((.........))))--..((((((....((---------(...)))....))))))..)))))--)))))))))).....(((....))).... ( -37.40, z-score =  -4.88, R)
>droYak2.chrX 11037179 99 + 21770863
CAUGAAUGAAUUGCUGGGACAUUUAAUAGCCC--AUCGAAUAUAUCAA---------UUACCUCACCUUAUUCGUUUGCAA--UUCAUUCAUGCCGACGCCGAAGGGCUGAA
((((((((((((((((((.(........))))--).((((((......---------...........))))))...))))--)))))))))).....(((....))).... ( -33.53, z-score =  -4.74, R)
>droEre2.scaffold_4690 15013330 101 + 18748788
CAUGAAUGAACUGCUGAGCCAUUUAAUAGCCC--ACCGAAUAUAUCGA---------UUACCUCACCUUAUUCGCUUGCAAUUUUCAUUCAUGCCGAUGCCGAAGGGCUGGA
((((((((((.(((.((((.........(...--..)(((((....((---------.....))....))))))))))))...))))))))))(((..(((....)))))). ( -25.20, z-score =  -1.91, R)
>dp4.chrXL_group1e 1752604 108 - 12523060
CAUGAAUGGCUU--UGGGCCAUUUGAUAUACCAAAACGAAGAAAACGAAAGGUAAUCGUAUACCGCCUUGUUUUUUUUUUCUGUUU-UUCACACU-UCAUGGAAACGAUCAA
...(((((((..--...)))))))(((.....((((((((((((((((..((((......))))...)))))))))))....))))-).......-...((....))))).. ( -23.90, z-score =  -1.46, R)
>droPer1.super_18 591884 108 - 1952607
CAUGAAUGGCUU--UGGGCCAUUUGAUAUACCAAAACGAAGAAAACGAAAGGUAAUCGUAUACCGCCAUGUUUUUUUUUUGUGUUU-UUCACACU-UCAUGGAAACGAUCAA
...(((((((..--...)))))))(((...(((....((((((((((...((((......))))....)))))))))).((((...-..))))..-...))).....))).. ( -24.60, z-score =  -1.28, R)
>consensus
CAUGAAUGAAUUGCUGGGCCAUUUGAUAGCCC__ACCGAAUAUAUCGA_________GUAUCUCACCUUAUUCGUUUGCAA__UUCAUUCAUGCCGAUGCCGAAGGGCUGAA
((((((((((((((.(((...........)))....((((((..........................))))))...))))..))))))))))......((....))..... ( -9.88 = -11.78 +   1.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:34:30 2011