Locus 13368

Sequence ID dm3.chrX
Location 6,154,573 – 6,154,666
Length 93
Max. P 0.804216
window18402 window18403

overview

Window 2

Location 6,154,573 – 6,154,666
Length 93
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 73.24
Shannon entropy 0.47784
G+C content 0.40945
Mean single sequence MFE -23.32
Consensus MFE -10.36
Energy contribution -9.95
Covariance contribution -0.41
Combinations/Pair 1.44
Mean z-score -1.93
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.58
SVM RNA-class probability 0.751260
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6154573 93 + 22422827
---------UCAAAUCUGGGCUCAAGUUCAGUUCAA-GUUCAAGUAGUGCGUAAUUGAAUUAACGCACCAAGAAGGAUUUAAUUGACCCGCAUUCGAAGUGGA
---------((((..((((((....))))))...((-((((.....((((((..........))))))......))))))..)))).((((.......)))). ( -20.50, z-score =  -0.84, R)
>droSim1.chrX 4864926 87 + 17042790
---------CCGAAUCUGGGCUCA------GUUCAA-GUUCAAGUAGUGCGUAAUUGAAUUAACGCACCAAGAAGGAUUUAAUUGACCCGCAUUCGAAGUGGA
---------.(((((.((((.(((------(((.((-((((.....((((((..........))))))......)))))))))))))))).)))))....... ( -26.70, z-score =  -2.95, R)
>droSec1.super_4 5563946 87 - 6179234
---------CCGAAUCUGGGCUCA------GUUCAA-GUUCAAGUAGUGCGUAAUUGAAUUAACGCACCAAGAAGGAUUUAAUUGACCCGCAUUCGAAGUGGA
---------.(((((.((((.(((------(((.((-((((.....((((((..........))))))......)))))))))))))))).)))))....... ( -26.70, z-score =  -2.95, R)
>droYak2.chrX 2158565 87 + 21770863
---------CCAAAUCUGGGCUCA------GUUCAA-GUUCAAGUAGUGCGUAAUUGAAUUAACGCACCAAGAAGGAUUUAAUUGACCCGCAUUCGAAGUCGA
---------........(((.(((------(((.((-((((.....((((((..........))))))......)))))))))))))))....(((....))) ( -21.50, z-score =  -1.79, R)
>droEre2.scaffold_4690 15124843 87 + 18748788
---------CCAAAUCUGGGCUCA------GUUCAA-GUUCAAGUGGUGCGCAAUUGAAUUAACGCACCAAGAAGGAUUUAAUUGACCCGCAUUGGAAGUGGA
---------((((...((((.(((------(((.((-((((...(((((((............)))))))....))))))))))))))))..))))....... ( -28.30, z-score =  -2.67, R)
>droWil1.scaffold_180703 3172005 103 + 3946847
UAAUAUUGUUUAUUUCUUCGAAAAAUAAGUCUCUGAUGGCGAAGAAGAGCCAAAUCAUGAUUUUCUAUCAUAAAUUAAAUGAAUGAAAGCCUUUCGAAACACG
................(((((((........(((((((((........))))..))).))(((((..((((.......))))..)))))..)))))))..... ( -16.20, z-score =  -0.40, R)
>consensus
_________CCAAAUCUGGGCUCA______GUUCAA_GUUCAAGUAGUGCGUAAUUGAAUUAACGCACCAAGAAGGAUUUAAUUGACCCGCAUUCGAAGUGGA
.........(((..(((((((.........)))))..........((((((((((((((((....(.....)...))))))))))...)))))).))..))). (-10.36 =  -9.95 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 6,154,573 – 6,154,666
Length 93
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 73.24
Shannon entropy 0.47784
G+C content 0.40945
Mean single sequence MFE -20.58
Consensus MFE -10.72
Energy contribution -10.53
Covariance contribution -0.19
Combinations/Pair 1.44
Mean z-score -1.65
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.804216
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6154573 93 - 22422827
UCCACUUCGAAUGCGGGUCAAUUAAAUCCUUCUUGGUGCGUUAAUUCAAUUACGCACUACUUGAAC-UUGAACUGAACUUGAGCCCAGAUUUGA---------
......((((((..((((((((((..((.(((.((((((((..........))))))))...))).-..))..)))..)))).)))..))))))--------- ( -20.70, z-score =  -1.74, R)
>droSim1.chrX 4864926 87 - 17042790
UCCACUUCGAAUGCGGGUCAAUUAAAUCCUUCUUGGUGCGUUAAUUCAAUUACGCACUACUUGAAC-UUGAAC------UGAGCCCAGAUUCGG---------
.......(((((..((((((.((......(((.((((((((..........))))))))...))).-...)).------))).)))..))))).--------- ( -21.70, z-score =  -2.22, R)
>droSec1.super_4 5563946 87 + 6179234
UCCACUUCGAAUGCGGGUCAAUUAAAUCCUUCUUGGUGCGUUAAUUCAAUUACGCACUACUUGAAC-UUGAAC------UGAGCCCAGAUUCGG---------
.......(((((..((((((.((......(((.((((((((..........))))))))...))).-...)).------))).)))..))))).--------- ( -21.70, z-score =  -2.22, R)
>droYak2.chrX 2158565 87 - 21770863
UCGACUUCGAAUGCGGGUCAAUUAAAUCCUUCUUGGUGCGUUAAUUCAAUUACGCACUACUUGAAC-UUGAAC------UGAGCCCAGAUUUGG---------
.......(((((..((((((.((......(((.((((((((..........))))))))...))).-...)).------))).)))..))))).--------- ( -19.60, z-score =  -1.36, R)
>droEre2.scaffold_4690 15124843 87 - 18748788
UCCACUUCCAAUGCGGGUCAAUUAAAUCCUUCUUGGUGCGUUAAUUCAAUUGCGCACCACUUGAAC-UUGAAC------UGAGCCCAGAUUUGG---------
.......((((...((((((.((......(((.((((((((..........))))))))...))).-...)).------))).)))....))))--------- ( -21.50, z-score =  -1.66, R)
>droWil1.scaffold_180703 3172005 103 - 3946847
CGUGUUUCGAAAGGCUUUCAUUCAUUUAAUUUAUGAUAGAAAAUCAUGAUUUGGCUCUUCUUCGCCAUCAGAGACUUAUUUUUCGAAGAAAUAAACAAUAUUA
....(((((((((..((((..((((.......))))..))))..).(((..((((........)))))))..........))))))))............... ( -18.30, z-score =  -0.68, R)
>consensus
UCCACUUCGAAUGCGGGUCAAUUAAAUCCUUCUUGGUGCGUUAAUUCAAUUACGCACUACUUGAAC_UUGAAC______UGAGCCCAGAUUUGG_________
.............((((((..............((((((((..........))))))))....................((....)))))))).......... (-10.72 = -10.53 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:20:00 2011