Locus 2778

Sequence ID dm3.chr2L
Location 22,172,839 – 22,172,918
Length 79
Max. P 0.986426
window3820 window3821

overview

Window 0

Location 22,172,839 – 22,172,918
Length 79
Sequences 3
Columns 82
Reading direction forward
Mean pairwise identity 59.92
Shannon entropy 0.53953
G+C content 0.50602
Mean single sequence MFE -23.60
Consensus MFE -12.38
Energy contribution -14.83
Covariance contribution 2.45
Combinations/Pair 1.14
Mean z-score -2.13
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.24
SVM RNA-class probability 0.986426
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22172839 79 + 23011544
CAGGCUACGUG-CUGUGCUG-GACAAUAUGGACACUGAAGUGAAUGAAAAAUCGCAC-UCGGCUUCUCCGACAUGCAUAAAU
........(((-(.(((.((-((.......((..((((.((((.(....).))))..-))))..)))))).))))))).... ( -15.01, z-score =   0.43, R)
>dp4.Unknown_group_143 3347 70 + 20963
CGGGCCACUUGACGGUGCAGAAACUGCAUCGCCUCUUGAAAGAUGCAGUCAUUGCAUGCCAACGUCCAAG------------
.((((...(((.((.(((((..((((((((...........))))))))..))))))).))).))))...------------ ( -24.40, z-score =  -2.28, R)
>droPer1.super_62 70662 73 - 349094
CGGGCCACUUGACGGUGCAGUAACUGCAUCGCCUCUUGAAAGAUGCAGUCAUUGCAUGUCAACGUCCAAGAAU---------
.((((...((((((.((((((.((((((((...........)))))))).)))))))))))).))))......--------- ( -31.40, z-score =  -4.56, R)
>consensus
CGGGCCACUUGACGGUGCAG_AACUGCAUCGCCUCUUGAAAGAUGCAGUCAUUGCAUGUCAACGUCCAAGA___________
.((((...(((...((((((..((((((((...........))))))))..))))))..))).))))............... (-12.38 = -14.83 +   2.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 22,172,839 – 22,172,918
Length 79
Sequences 3
Columns 82
Reading direction reverse
Mean pairwise identity 59.92
Shannon entropy 0.53953
G+C content 0.50602
Mean single sequence MFE -22.86
Consensus MFE -9.97
Energy contribution -8.87
Covariance contribution -1.10
Combinations/Pair 1.41
Mean z-score -1.66
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.774559
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22172839 79 - 23011544
AUUUAUGCAUGUCGGAGAAGCCGA-GUGCGAUUUUUCAUUCACUUCAGUGUCCAUAUUGUC-CAGCACAG-CACGUAGCCUG
.....(((...((((.....))))-(((((((........(((....)))........)))-..)))).)-))......... ( -16.09, z-score =  -0.09, R)
>dp4.Unknown_group_143 3347 70 - 20963
------------CUUGGACGUUGGCAUGCAAUGACUGCAUCUUUCAAGAGGCGAUGCAGUUUCUGCACCGUCAAGUGGCCCG
------------...((.(((((((.((((..((((((((((((....))).)))))))))..))))..))))).))..)). ( -25.40, z-score =  -1.86, R)
>droPer1.super_62 70662 73 + 349094
---------AUUCUUGGACGUUGACAUGCAAUGACUGCAUCUUUCAAGAGGCGAUGCAGUUACUGCACCGUCAAGUGGCCCG
---------......((.(((((((.((((.(((((((((((((....))).)))))))))).))))..))))).))..)). ( -27.10, z-score =  -3.02, R)
>consensus
___________UCUUGGACGUUGACAUGCAAUGACUGCAUCUUUCAAGAGGCGAUGCAGUU_CUGCACCGUCAAGUGGCCCG
..............(((.(((((.....))))).)))............((((.(((((...))))).)))).......... ( -9.97 =  -8.87 +  -1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:57:44 2011