Locus 7402

Sequence ID dm3.chr3L
Location 14,596,641 – 14,596,750
Length 109
Max. P 0.943444
window10195 window10196

overview

Window 5

Location 14,596,641 – 14,596,750
Length 109
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 84.45
Shannon entropy 0.28655
G+C content 0.36630
Mean single sequence MFE -16.90
Consensus MFE -10.65
Energy contribution -10.23
Covariance contribution -0.42
Combinations/Pair 1.30
Mean z-score -2.60
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.49
SVM RNA-class probability 0.943444
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14596641 109 + 24543557
UUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCCAACCCCUC-GCUCGCCCACAAAAAA-UUAUUGCACCAUUGCCAUUGCUUGCGAUU------
..........................((((((((.......)))))))).............((-((..((..........-..((.(((....))).)).))..))))..------ ( -16.62, z-score =  -2.67, R)
>droSim1.chr3L 13923943 110 + 22553184
UUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCCAACCCCUCCGCUCGCCCACAGAAAA-UUAUUGCACCAUUGCCAUUGCUUGUGAUU------
..((((.((((((.............((((((((.......))))))))................(....).....)))))-).))))(((....((....))..)))...------ ( -16.30, z-score =  -2.25, R)
>droSec1.super_0 6721600 110 + 21120651
UUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCCAACCCCUCCGCUCGCCCACAGAAAA-UUAUUGCACCAUUGCCAUUGCUUGUGAUU------
..((((.((((((.............((((((((.......))))))))................(....).....)))))-).))))(((....((....))..)))...------ ( -16.30, z-score =  -2.25, R)
>droYak2.chr3L 14684788 116 + 24197627
UUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCCAACCCCUC-GCUCGCCCACAAAAAAAUUAUUGCACCAUUGCCGUUGCUUGUGAUUGUGAUU
...((((((..((((...........((((((((.......))))))))...............-......................(((.(......).))).)).))..)))))) ( -19.30, z-score =  -2.26, R)
>droEre2.scaffold_4784 14566150 108 + 25762168
UUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCCAACCCCUC-GCUCGCCCACAAAAAA-UUAUUGCACCAUUGCCGU-GCUUGUGAUU------
...((((((.................((((((((.......))))))))...............-................-.....((((.......))-))..))))))------ ( -17.80, z-score =  -2.90, R)
>droWil1.scaffold_181136 730594 91 - 2313701
UUCAAUCAUUUUCCAUUUUUAUUUAUCGUCAGCAUUUAUUUUGCUGACACUUUUUACAUCUCUA-CCUAUUCUGCAAU-------UUGUGCAACUGUGA------------------
.....((((..................(((((((.......)))))))................-.......((((..-------...))))...))))------------------ ( -15.10, z-score =  -3.28, R)
>consensus
UUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCCAACCCCUC_GCUCGCCCACAAAAAA_UUAUUGCACCAUUGCCAUUGCUUGUGAUU______
...........................(((((((.......))))))).......................................(((....))).................... (-10.65 = -10.23 +  -0.42)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 14,596,641 – 14,596,750
Length 109
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 84.45
Shannon entropy 0.28655
G+C content 0.36630
Mean single sequence MFE -23.38
Consensus MFE -15.40
Energy contribution -15.65
Covariance contribution 0.25
Combinations/Pair 1.17
Mean z-score -2.06
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.70
SVM RNA-class probability 0.790334
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14596641 109 - 24543557
------AAUCGCAAGCAAUGGCAAUGGUGCAAUAA-UUUUUUGUGGGCGAGC-GAGGGGUUGGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAA
------(((((((.((....)).....)))..(((-((((((((......))-)))))))))......((((((((.......))))))))...................))))... ( -23.10, z-score =  -1.46, R)
>droSim1.chr3L 13923943 110 - 22553184
------AAUCACAAGCAAUGGCAAUGGUGCAAUAA-UUUUCUGUGGGCGAGCGGAGGGGUUGGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAA
------...(((..((....))....)))((((.(-((((((((...(.(((......))).).....((((((((.......))))))))..........))))))))).)))).. ( -24.80, z-score =  -2.19, R)
>droSec1.super_0 6721600 110 - 21120651
------AAUCACAAGCAAUGGCAAUGGUGCAAUAA-UUUUCUGUGGGCGAGCGGAGGGGUUGGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAA
------...(((..((....))....)))((((.(-((((((((...(.(((......))).).....((((((((.......))))))))..........))))))))).)))).. ( -24.80, z-score =  -2.19, R)
>droYak2.chr3L 14684788 116 - 24197627
AAUCACAAUCACAAGCAACGGCAAUGGUGCAAUAAUUUUUUUGUGGGCGAGC-GAGGGGUUGGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAA
.....((((((....((((.(((....))).......(((((((......))-)))))))))......((((((((.......))))))))..................)))))).. ( -26.40, z-score =  -2.11, R)
>droEre2.scaffold_4784 14566150 108 - 25762168
------AAUCACAAGC-ACGGCAAUGGUGCAAUAA-UUUUUUGUGGGCGAGC-GAGGGGUUGGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAA
------(((((...((-((.......))))..(((-((((((((......))-)))))))))......((((((((.......))))))))..................)))))... ( -26.00, z-score =  -2.80, R)
>droWil1.scaffold_181136 730594 91 + 2313701
------------------UCACAGUUGCACAA-------AUUGCAGAAUAGG-UAGAGAUGUAAAAAGUGUCAGCAAAAUAAAUGCUGACGAUAAAUAAAAAUGGAAAAUGAUUGAA
------------------...((((((((...-------..)))........-...............((((((((.......))))))))...................))))).. ( -15.20, z-score =  -1.61, R)
>consensus
______AAUCACAAGCAAUGGCAAUGGUGCAAUAA_UUUUUUGUGGGCGAGC_GAGGGGUUGGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAA
.............................((((...((((((((...(((.(.....).)))......((((((((.......))))))))..........))))))))..)))).. (-15.40 = -15.65 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:26:17 2011