Locus 15862

Sequence ID dm3.chrX
Location 21,792,524 – 21,792,624
Length 100
Max. P 0.977186
window21858 window21859

overview

Window 8

Location 21,792,524 – 21,792,624
Length 100
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 63.42
Shannon entropy 0.65246
G+C content 0.50513
Mean single sequence MFE -31.24
Consensus MFE -16.60
Energy contribution -18.28
Covariance contribution 1.68
Combinations/Pair 1.48
Mean z-score -1.40
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.97
SVM RNA-class probability 0.977186
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21792524 100 + 22422827
UACAUUAGGUAAGUGAGCUCCGUCGAGGUGGUGGUGCGAUCAUUCGUAC-UCCUUCAGUUGGAGAGCUGCAGAAGGUGGUAACAUCAAAAAGAUUCGCUGA
...........(((((((((..((.((.(((.(((((((....))))))-)...))).)).)))))).......((((....))))........))))).. ( -27.20, z-score =  -0.32, R)
>dp4.Unknown_singleton_3471 1043 97 + 15135
UACUUGAGGUU---AAGCCUCGCCGUGAUGGUAGUGUGAUUAUUCGCAC-UCCAUCUGUUGCCGAGCGGAAGAAAAUUGCGGAAAAUGCAAAGUUUGAUGA
.((((((((..---...)))).(((..((((.(((((((....))))))-))).((((((....)))))).....))..)))........))))....... ( -31.40, z-score =  -2.74, R)
>droWil1.scaffold_181149 395062 98 - 589524
UAGAUGAGAUACGCGAGCUCAG---GAGCGGAGGCGCUGUUAUCCGCACGUCCGUCGGUUGUCGAAAUGCAGCGGGUGGUUGCGAACAAAAAGUCCGCAGA
....((((...(....))))).---..(((((.....((((...((((...((..(.(((((......))))).)..)).)))))))).....)))))... ( -28.70, z-score =   1.06, R)
>droVir3.scaffold_13036 417552 97 + 1135500
UACAUGAGGUG---AAACCUCUAAGGGAUGGAGGUGCGUUAAUUCGGAC-UCCAUCGGUCGCCGAGCGUGAGAAAAUUGUGGAGAAUACAAAGUUCAACGA
..((((.((((---(..((.....))(((((((.(.((......)).))-))))))..)))))...)))).(((..(((((.....)))))..)))..... ( -30.90, z-score =  -2.36, R)
>droGri2.scaffold_15056 30727 97 - 38174
UCCAUGAGGUG---AAACCUCUGCGGGAUGGUGGAGCGAUCAUUCGCAC-ACCAUCUGUUGCCGAGCGGAAGAAGAUUGCGGGGAACGCAAAAUUCAGCGA
(((..((((..---...)))).(((((((((((..((((....)))).)-)))))))..))).....))).(((..(((((.....)))))..)))..... ( -38.00, z-score =  -2.62, R)
>consensus
UACAUGAGGUA___AAGCCUCG_CGGGAUGGUGGUGCGAUCAUUCGCAC_UCCAUCGGUUGCCGAGCGGAAGAAGAUUGUGGAGAACACAAAGUUCGACGA
.....(((((......))))).....((((((.((((((....)))))).))))))...............(((..(((((.....)))))..)))..... (-16.60 = -18.28 +   1.68)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,792,524 – 21,792,624
Length 100
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 63.42
Shannon entropy 0.65246
G+C content 0.50513
Mean single sequence MFE -24.61
Consensus MFE -9.60
Energy contribution -11.28
Covariance contribution 1.68
Combinations/Pair 1.44
Mean z-score -1.35
Structure conservation index 0.39
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.51
SVM RNA-class probability 0.723728
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21792524 100 - 22422827
UCAGCGAAUCUUUUUGAUGUUACCACCUUCUGCAGCUCUCCAACUGAAGGA-GUACGAAUGAUCGCACCACCACCUCGACGGAGCUCACUUACCUAAUGUA
...(((((((.....)))........(((((.(((........))).))))-).........))))........(((....)))................. ( -14.20, z-score =   1.27, R)
>dp4.Unknown_singleton_3471 1043 97 - 15135
UCAUCAAACUUUGCAUUUUCCGCAAUUUUCUUCCGCUCGGCAACAGAUGGA-GUGCGAAUAAUCACACUACCAUCACGGCGAGGCUU---AACCUCAAGUA
..........((((.......)))).........(((.(....).((((((-(((.((....)).)))).)))))..)))((((...---..))))..... ( -25.00, z-score =  -2.83, R)
>droWil1.scaffold_181149 395062 98 + 589524
UCUGCGGACUUUUUGUUCGCAACCACCCGCUGCAUUUCGACAACCGACGGACGUGCGGAUAACAGCGCCUCCGCUC---CUGAGCUCGCGUAUCUCAUCUA
..(((((((.....)))))))......(((.((...(((.....)))((((.((((........)))).))))...---....))..)))........... ( -28.10, z-score =  -1.06, R)
>droVir3.scaffold_13036 417552 97 - 1135500
UCGUUGAACUUUGUAUUCUCCACAAUUUUCUCACGCUCGGCGACCGAUGGA-GUCCGAAUUAACGCACCUCCAUCCCUUAGAGGUUU---CACCUCAUGUA
(((((((...((((.......))))...........)))))))..((((((-(..((......))...))))))).....((((...---..))))..... ( -20.94, z-score =  -1.14, R)
>droGri2.scaffold_15056 30727 97 + 38174
UCGCUGAAUUUUGCGUUCCCCGCAAUCUUCUUCCGCUCGGCAACAGAUGGU-GUGCGAAUGAUCGCUCCACCAUCCCGCAGAGGUUU---CACCUCAUGGA
.....(((..(((((.....)))))..))).(((((..(....).((((((-(.((((....))))..)))))))..)).((((...---..))))..))) ( -34.80, z-score =  -2.99, R)
>consensus
UCAGCGAACUUUGUAUUCGCCACAAUCUUCUGCCGCUCGGCAACAGAUGGA_GUGCGAAUAAUCGCACCACCAUCCCG_CGAGGCUU___CACCUCAUGUA
.............................................((((((.((((((....)))))).)))))).....((((........))))..... ( -9.60 = -11.28 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:07:17 2011