Locus 13099

Sequence ID dm3.chrX
Location 4,303,999 – 4,304,099
Length 100
Max. P 0.981979
window18006 window18007

overview

Window 6

Location 4,303,999 – 4,304,099
Length 100
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 94.54
Shannon entropy 0.07346
G+C content 0.41599
Mean single sequence MFE -22.40
Consensus MFE -22.33
Energy contribution -22.67
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.09
SVM RNA-class probability 0.981979
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4303999 100 + 22422827
GGGUAGCAUUAUGACAUCGGGAAGCGACAAGCGAAACGCAACCUGAACAUAAUUACAACAAUUUGUUGUCUAGUGUUUGACAACAACAGCAACAGCAAAC
..((.((((((((...(((((..(((..........)))..))))).)))))).........((((((((........))))))))..)).))....... ( -25.00, z-score =  -2.46, R)
>droSim1.chrX 3311828 93 + 17042790
GGGUAGCAUUAUGACAUCGGGAAGCGACAAGCGAAACGCAACCUGAACAUAAUUACAACAAUUUGUUGUCUAGUGUUUGACAACAACAGCAAC-------
.....((((((((...(((((..(((..........)))..))))).)))))).........((((((((........))))))))..))...------- ( -24.10, z-score =  -2.64, R)
>droYak2.chrX 17636479 93 - 21770863
GGGUAGCAUUAUGACAUCGGGAAGCGACAAGCGAAACGCAACCUGAACAUAAUUACAACAAUUUGUUUUCUAGUGUUUGACAACAACAGCAAC-------
.....((((((((...(((((..(((..........)))..))))).)))))).........(((((.((........)).)))))..))...------- ( -18.10, z-score =  -1.06, R)
>consensus
GGGUAGCAUUAUGACAUCGGGAAGCGACAAGCGAAACGCAACCUGAACAUAAUUACAACAAUUUGUUGUCUAGUGUUUGACAACAACAGCAAC_______
.....((((((((...(((((..(((..........)))..))))).)))))).........((((((((........))))))))..)).......... (-22.33 = -22.67 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 4,303,999 – 4,304,099
Length 100
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 94.54
Shannon entropy 0.07346
G+C content 0.41599
Mean single sequence MFE -20.20
Consensus MFE -19.83
Energy contribution -20.17
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -0.86
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.08
SVM RNA-class probability 0.534263
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4303999 100 - 22422827
GUUUGCUGUUGCUGUUGUUGUCAAACACUAGACAACAAAUUGUUGUAAUUAUGUUCAGGUUGCGUUUCGCUUGUCGCUUCCCGAUGUCAUAAUGCUACCC
..((((....((..((((((((........))))))))...)).)))).........(((.(((((.....(((((.....)))))....))))).))). ( -22.70, z-score =  -1.16, R)
>droSim1.chrX 3311828 93 - 17042790
-------GUUGCUGUUGUUGUCAAACACUAGACAACAAAUUGUUGUAAUUAUGUUCAGGUUGCGUUUCGCUUGUCGCUUCCCGAUGUCAUAAUGCUACCC
-------((.((..((((((((........)))))))).........((((((.((.((..(((..........)))..)).))...)))))))).)).. ( -21.60, z-score =  -1.47, R)
>droYak2.chrX 17636479 93 + 21770863
-------GUUGCUGUUGUUGUCAAACACUAGAAAACAAAUUGUUGUAAUUAUGUUCAGGUUGCGUUUCGCUUGUCGCUUCCCGAUGUCAUAAUGCUACCC
-------(((.(((.((((....)))).)))..))).....((.(((.(((((.((.((..(((..........)))..)).))...)))))))).)).. ( -16.30, z-score =   0.05, R)
>consensus
_______GUUGCUGUUGUUGUCAAACACUAGACAACAAAUUGUUGUAAUUAUGUUCAGGUUGCGUUUCGCUUGUCGCUUCCCGAUGUCAUAAUGCUACCC
.......((.((..((((((((........)))))))).........((((((.((.((..(((..........)))..)).))...)))))))).)).. (-19.83 = -20.17 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:14:38 2011