Locus 7024

Sequence ID dm3.chr3L
Location 11,565,270 – 11,565,367
Length 97
Max. P 0.999096
window9668 window9669

overview

Window 8

Location 11,565,270 – 11,565,367
Length 97
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 56.90
Shannon entropy 0.61741
G+C content 0.51444
Mean single sequence MFE -32.27
Consensus MFE -20.58
Energy contribution -21.03
Covariance contribution 0.45
Combinations/Pair 1.20
Mean z-score -2.26
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.64
SVM RNA-class probability 0.999096
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11565270 97 + 24543557
AUAAGAACGCCGCUCCGCUGCUGGCGUACCCGGCAGCGCAGCUACGCGGAUU-AGCCUAAGUCCAAAUAUAUUAAAAACUGUAAAAUCAGAGAGACUC
........((.(((.(((((((((.....))))))))).)))...))(((((-......)))))..............(((......)))........ ( -29.10, z-score =  -1.99, R)
>droSim1.chr3h_random 1352275 86 + 1452968
AAAUAAGCGUCGCUGCGCUGCAGGCUAUGCCGGCAGCGCUGCUCCUCGACUU-AGGCUAAGAAACCAUUGUAUUUAGAUCGCCAAAU-----------
...((((((..((.(((((((.(((...))).))))))).))....)).)))-)(((.......................)))....----------- ( -27.60, z-score =  -0.88, R)
>droPer1.super_1295 3577 95 + 6930
AUAGUUCUGCCGCUCCGCUGCCGGCGUCACUGGCAGCGCAGCUCCGCGGCUUUGGGCUUACAAAAGCCCAAACCACAAUUGUAAAAUAUAGAAGA---
....(((((..(((.(((((((((.....))))))))).)))...(.((.(((((((((....))))))))))).)............)))))..--- ( -40.10, z-score =  -3.91, R)
>consensus
AUAAAAACGCCGCUCCGCUGCAGGCGUAACCGGCAGCGCAGCUCCGCGGCUU_AGGCUAAGAAAAAAUAAAAUAAAAAUUGUAAAAU_____AGA___
.......(((.(((.(((((((((.....))))))))).)))...))).................................................. (-20.58 = -21.03 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 11,565,270 – 11,565,367
Length 97
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 56.90
Shannon entropy 0.61741
G+C content 0.51444
Mean single sequence MFE -35.08
Consensus MFE -18.63
Energy contribution -19.30
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.03
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.80
SVM RNA-class probability 0.995408
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11565270 97 - 24543557
GAGUCUCUCUGAUUUUACAGUUUUUAAUAUAUUUGGACUUAGGCU-AAUCCGCGUAGCUGCGCUGCCGGGUACGCCAGCAGCGGAGCGGCGUUCUUAU
.(((((.((..(....................)..))...)))))-.....((((.(((.((((((.((.....)).)))))).))).))))...... ( -29.25, z-score =  -0.39, R)
>droSim1.chr3h_random 1352275 86 - 1452968
-----------AUUUGGCGAUCUAAAUACAAUGGUUUCUUAGCCU-AAGUCGAGGAGCAGCGCUGCCGGCAUAGCCUGCAGCGCAGCGACGCUUAUUU
-----------....((((.((...........((((((..((..-..))..)))))).(((((((.(((...))).)))))))...))))))..... ( -32.80, z-score =  -2.11, R)
>droPer1.super_1295 3577 95 - 6930
---UCUUCUAUAUUUUACAAUUGUGGUUUGGGCUUUUGUAAGCCCAAAGCCGCGGAGCUGCGCUGCCAGUGACGCCGGCAGCGGAGCGGCAGAACUAU
---(((.((...........(((((((((((((((....)))))).))))))))).(((.(((((((.(.....).))))))).))))).)))..... ( -43.20, z-score =  -3.59, R)
>consensus
___UCU_____AUUUUACAAUUUUAAUUAAAUCUUUUCUUAGCCU_AAGCCGCGGAGCUGCGCUGCCGGCAACGCCAGCAGCGGAGCGGCGCUAAUAU
.....................................................(..(((.((((((.((.....)).)))))).)))..)........ (-18.63 = -19.30 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:19:00 2011