Locus 13073

Sequence ID dm3.chrX
Location 4,189,355 – 4,189,426
Length 71
Max. P 0.934800
window17963 window17964

overview

Window 3

Location 4,189,355 – 4,189,426
Length 71
Sequences 6
Columns 72
Reading direction forward
Mean pairwise identity 84.95
Shannon entropy 0.28886
G+C content 0.43303
Mean single sequence MFE -19.22
Consensus MFE -12.55
Energy contribution -13.03
Covariance contribution 0.49
Combinations/Pair 1.15
Mean z-score -2.46
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.39
SVM RNA-class probability 0.934800
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4189355 71 + 22422827
AUCUCUGUCAUUAGCAUAAUUCGUUUUUGGGCCUUCUUCGCCAUAUGUUACGUCAAUUGGCGAAUUGG-CCG
........((..(((.......)))..))((((...(((((((..((......))..)))))))..))-)). ( -20.80, z-score =  -3.37, R)
>droAna3.scaffold_13117 390536 58 - 5790199
AUCUUUGCCAUUAACAUAAUUGGU-----AAUUUCGUAGGCCAUAUGUUACGGCAAUUGGCCA---------
....((((((..........))))-----)).......(((((..(((....)))..))))).--------- ( -15.60, z-score =  -1.94, R)
>droEre2.scaffold_4690 1561030 71 + 18748788
AUCUCUGUCAUUAGCAUAAUUCGAUUUUGGGCCUUCUUUGCCAUAUGUUACGUCAAUUGGCGAAUUGG-CCG
.............................((((...(((((((..((......))..)))))))..))-)). ( -17.30, z-score =  -1.63, R)
>droYak2.chrX 17519846 71 - 21770863
AUCUCUGUCAUUAGCAUAAUUCGAUUUUGGGCCUCCUUCGCCAUAUGUUACGUCAAUUGGCGAAUUGG-CCG
.............................((((...(((((((..((......))..)))))))..))-)). ( -19.40, z-score =  -2.24, R)
>droSec1.super_4 3631088 72 - 6179234
AUCUCUGUCAUUAGCAUAAUUCGAUUUCGGGCCUUCUUCGCCAUAUGUUACGUCAAUUGGCGAAUUGGGCCG
.....................((....))(((((..(((((((..((......))..)))))))..))))). ( -22.50, z-score =  -3.11, R)
>droSim1.chrX 3225875 71 + 17042790
AUCUCUGUCAUUAGCAUAAUUCGAUUUCGGGCCUUCUUCGCCAUAUGUUACGUCAAUUGGCGAAUUGG-CCG
.....................((....))((((...(((((((..((......))..)))))))..))-)). ( -19.70, z-score =  -2.48, R)
>consensus
AUCUCUGUCAUUAGCAUAAUUCGAUUUUGGGCCUUCUUCGCCAUAUGUUACGUCAAUUGGCGAAUUGG_CCG
............................((.((...(((((((..((......))..)))))))..)).)). (-12.55 = -13.03 +   0.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 4,189,355 – 4,189,426
Length 71
Sequences 6
Columns 72
Reading direction reverse
Mean pairwise identity 84.95
Shannon entropy 0.28886
G+C content 0.43303
Mean single sequence MFE -17.30
Consensus MFE -11.31
Energy contribution -12.13
Covariance contribution 0.82
Combinations/Pair 1.08
Mean z-score -2.23
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.97
SVM RNA-class probability 0.864654
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4189355 71 - 22422827
CGG-CCAAUUCGCCAAUUGACGUAACAUAUGGCGAAGAAGGCCCAAAAACGAAUUAUGCUAAUGACAGAGAU
.((-((..(((((((..((......))..)))))))...))))............................. ( -18.80, z-score =  -3.24, R)
>droAna3.scaffold_13117 390536 58 + 5790199
---------UGGCCAAUUGCCGUAACAUAUGGCCUACGAAAUU-----ACCAAUUAUGUUAAUGGCAAAGAU
---------.......((((((((((((((((...........-----.)))..)))))).))))))).... ( -14.20, z-score =  -1.77, R)
>droEre2.scaffold_4690 1561030 71 - 18748788
CGG-CCAAUUCGCCAAUUGACGUAACAUAUGGCAAAGAAGGCCCAAAAUCGAAUUAUGCUAAUGACAGAGAU
.((-((..((.((((..((......))..)))).))...)))).....((...((((....))))..))... ( -13.20, z-score =  -0.80, R)
>droYak2.chrX 17519846 71 + 21770863
CGG-CCAAUUCGCCAAUUGACGUAACAUAUGGCGAAGGAGGCCCAAAAUCGAAUUAUGCUAAUGACAGAGAU
.((-((..(((((((..((......))..)))))))...)))).....((...((((....))))..))... ( -19.10, z-score =  -2.39, R)
>droSec1.super_4 3631088 72 + 6179234
CGGCCCAAUUCGCCAAUUGACGUAACAUAUGGCGAAGAAGGCCCGAAAUCGAAUUAUGCUAAUGACAGAGAU
.((((...(((((((..((......))..)))))))...))))((....))..................... ( -19.40, z-score =  -2.60, R)
>droSim1.chrX 3225875 71 - 17042790
CGG-CCAAUUCGCCAAUUGACGUAACAUAUGGCGAAGAAGGCCCGAAAUCGAAUUAUGCUAAUGACAGAGAU
.((-((..(((((((..((......))..)))))))...))))((....))..................... ( -19.10, z-score =  -2.60, R)
>consensus
CGG_CCAAUUCGCCAAUUGACGUAACAUAUGGCGAAGAAGGCCCAAAAUCGAAUUAUGCUAAUGACAGAGAU
.((.((..(((((((..((......))..)))))))...)).))............................ (-11.31 = -12.13 +   0.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:14:03 2011