Locus 14940

Sequence ID dm3.chrX
Location 16,478,391 – 16,478,486
Length 95
Max. P 0.853857
window20582 window20583

overview

Window 2

Location 16,478,391 – 16,478,486
Length 95
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 79.86
Shannon entropy 0.35835
G+C content 0.40852
Mean single sequence MFE -27.15
Consensus MFE -15.62
Energy contribution -15.73
Covariance contribution 0.12
Combinations/Pair 1.33
Mean z-score -2.12
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.92
SVM RNA-class probability 0.853857
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16478391 95 + 22422827
UGGCAAAUGUUAACCGAUGGCC-GAUUAGCUGUCAAACUGCAUAUUUGCAUAGCUAAUCACUCAAUCGG---------UCGCCCAUUCAAU-----UGGUGCAUUUUAAA
((((....))))((((((((..-((((((((((((((.......)))).))))))))))..)).)))))---------).(((((......-----))).))........ ( -27.90, z-score =  -2.64, R)
>droSim1.chrX 12673414 96 + 17042790
UGGCAAAUGUUAACCGAUGGCCCGAUUAGCUGUCAAACUGCAUAUUUGCAUAGCUAAUCAUUCAAUCGG---------UCGCCCAUUCAAU-----UGGUGCAUUUUAAA
((((....))))((((((.....((((((((((((((.......)))).)))))))))).....)))))---------).(((((......-----))).))........ ( -28.10, z-score =  -2.59, R)
>droSec1.super_17 301530 96 + 1527944
UGGCAAAUGUUAACCGAUGGCCCGAUUAGCUGUCAAACUGCAUAUUUGCAUAGCUAAUCACUCAAUCGG---------UCGCCCAUUCAAU-----UGGUGCAUUUUAAA
((((....))))((((((.....((((((((((((((.......)))).)))))))))).....)))))---------).(((((......-----))).))........ ( -28.10, z-score =  -2.68, R)
>droYak2.chrX 10584790 95 + 21770863
UGGUAAAUAUUAACCGAUUGCC-GAUUAGCUGUCCAACUGCAUAUUUGCAUAGCUAAUCACUCAAACGG---------UAGCUCAUUCAAU-----UGGUGCAUUUUAAA
............((((.(((..-((((((((((.(((........))).))))))))))...))).)))---------).(((((......-----))).))........ ( -23.10, z-score =  -2.12, R)
>droEre2.scaffold_4690 6836299 100 + 18748788
UGGCAAAUGGUAACCGACUGCC-GAUUAGCUGUCAAACUGCAUAUUUGCAUAGCUAAUCUCUCAAUCGGAAU----GGUCGUCCAUUCAAU-----UGGUGCAUUUUAAA
.((((..(((...)))..))))-((((((((((((((.......)))).))))))))))..(((((..((((----((....)))))).))-----)))........... ( -29.90, z-score =  -3.02, R)
>droAna3.scaffold_13117 5345030 107 + 5790199
UGGUUA--GUUAGACAGUUACU-GGCCAAGUGUCACAGUGCAUAUUUGCAUAGGUAAUCGCUCAAUUGACAGCCCGGAUAAUGGAUCGGAUACUGGCGGUGCAUUUUUAA
.(((((--((.........)))-))))(((((.(((.(((((....))))).......(((((....))(((.((((........))))...)))))))))))))).... ( -25.80, z-score =   0.35, R)
>consensus
UGGCAAAUGUUAACCGAUGGCC_GAUUAGCUGUCAAACUGCAUAUUUGCAUAGCUAAUCACUCAAUCGG_________UCGCCCAUUCAAU_____UGGUGCAUUUUAAA
.(((.........(((((.....(((((((((......((((....))))))))))))).....)))))...........)))........................... (-15.62 = -15.73 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,478,391 – 16,478,486
Length 95
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 79.86
Shannon entropy 0.35835
G+C content 0.40852
Mean single sequence MFE -26.43
Consensus MFE -14.88
Energy contribution -16.11
Covariance contribution 1.23
Combinations/Pair 1.29
Mean z-score -1.98
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.50
SVM RNA-class probability 0.719468
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16478391 95 - 22422827
UUUAAAAUGCACCA-----AUUGAAUGGGCGA---------CCGAUUGAGUGAUUAGCUAUGCAAAUAUGCAGUUUGACAGCUAAUC-GGCCAUCGGUUAACAUUUGCCA
........((.(((-----......)))))((---------(((((.(..(((((((((...(((((.....)))))..))))))))-).).)))))))........... ( -28.40, z-score =  -2.44, R)
>droSim1.chrX 12673414 96 - 17042790
UUUAAAAUGCACCA-----AUUGAAUGGGCGA---------CCGAUUGAAUGAUUAGCUAUGCAAAUAUGCAGUUUGACAGCUAAUCGGGCCAUCGGUUAACAUUUGCCA
........((.(((-----......)))))((---------(((((.(..(((((((((...(((((.....)))))..)))))))))..).)))))))........... ( -30.50, z-score =  -3.07, R)
>droSec1.super_17 301530 96 - 1527944
UUUAAAAUGCACCA-----AUUGAAUGGGCGA---------CCGAUUGAGUGAUUAGCUAUGCAAAUAUGCAGUUUGACAGCUAAUCGGGCCAUCGGUUAACAUUUGCCA
........((.(((-----......)))))((---------(((((.(..(((((((((...(((((.....)))))..)))))))))..).)))))))........... ( -30.00, z-score =  -2.65, R)
>droYak2.chrX 10584790 95 - 21770863
UUUAAAAUGCACCA-----AUUGAAUGAGCUA---------CCGUUUGAGUGAUUAGCUAUGCAAAUAUGCAGUUGGACAGCUAAUC-GGCAAUCGGUUAAUAUUUACCA
..............-----..((((((....(---------(((.(((..(((((((((.(.(((........))).).))))))))-).))).))))...))))))... ( -22.10, z-score =  -1.18, R)
>droEre2.scaffold_4690 6836299 100 - 18748788
UUUAAAAUGCACCA-----AUUGAAUGGACGACC----AUUCCGAUUGAGAGAUUAGCUAUGCAAAUAUGCAGUUUGACAGCUAAUC-GGCAGUCGGUUACCAUUUGCCA
....(((((.(((.-----...((((((....))----)))).(((((...((((((((...(((((.....)))))..))))))))-..))))))))...))))).... ( -31.10, z-score =  -3.84, R)
>droAna3.scaffold_13117 5345030 107 - 5790199
UUAAAAAUGCACCGCCAGUAUCCGAUCCAUUAUCCGGGCUGUCAAUUGAGCGAUUACCUAUGCAAAUAUGCACUGUGACACUUGGCC-AGUAACUGUCUAAC--UAACCA
.......((((((((((((...((..((.......))..))...)))).)))........((((....))))..))).)).((((.(-((...))).)))).--...... ( -16.50, z-score =   1.32, R)
>consensus
UUUAAAAUGCACCA_____AUUGAAUGGGCGA_________CCGAUUGAGUGAUUAGCUAUGCAAAUAUGCAGUUUGACAGCUAAUC_GGCAAUCGGUUAACAUUUGCCA
...........................(((((.........(((((.(...((((((((...(((((.....)))))..))))))))...).))))).......))))). (-14.88 = -16.11 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:49:55 2011