Locus 14120

Sequence ID dm3.chrX
Location 11,290,938 – 11,291,088
Length 150
Max. P 0.999044
window19424 window19425

overview

Window 4

Location 11,290,938 – 11,291,050
Length 112
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 72.81
Shannon entropy 0.51204
G+C content 0.36388
Mean single sequence MFE -32.38
Consensus MFE -12.87
Energy contribution -14.15
Covariance contribution 1.28
Combinations/Pair 1.33
Mean z-score -3.78
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.61
SVM RNA-class probability 0.999044
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11290938 112 + 22422827
UUUUUGCAUCUGAAUUGUUUAUACUUAAACUAUUUUGUGCAUUUUUUUUUGGAACCGCUCGAGUGCAUUUAUGGAAUCUAUGGUCUAAUAAAGGCACUUGAAGCGAGUCCAA
....(((((..((((.(((((....))))).)))).))))).......(((((..(((((((((((.((((((((........))).))))).))))))).))))..))))) ( -35.80, z-score =  -5.03, R)
>droSim1.chrX_random 3156828 104 + 5698898
UUUUUGCAUCUGAAUUGUU-------AAACUAUUUUGUGCAUUUGUUUU-GGAACCGCUCGAGUGCAUUUAUGGAAUCUAUGGUCUAAUAAAGGCACUUGAAGCGAGUCCAA
....(((((..((((.(..-------...).)))).)))))......((-(((..(((((((((((.((((((((........))).))))).))))))).))))..))))) ( -31.30, z-score =  -3.42, R)
>droSec1.super_36 14201 104 + 449511
UUUUAGCAUCUGAAUUGUU-------AAACUAUUUUGUGCAUUUGUUUU-GGAACCGCUCGAGUGCAUUUAUGGAAUCUAUGGUCUAAUAAAGGCACUUGAAGCGAGUUCAA
.....((((..((((.(..-------...).)))).)))).........-.(((((((((((((((.((((((((........))).))))).))))))).)))).)))).. ( -29.70, z-score =  -2.93, R)
>droYak2.chrX 10908536 109 - 21770863
UUUUUACAUCUCAAAUGUUUAUACUUUAACUAUUUUGUGCAUUUGUUUU-CGACCUGCUCGAGUGCAUUUAUGGAAU--ACAGUCCAAUAAAGGCACUUGAAGCGGGUCCAA
...........(((((((....................)))))))....-.(((((((((((((((.((((((((..--....))).))))).))))))).))))))))... ( -34.95, z-score =  -5.17, R)
>droEre2.scaffold_4690 14884992 109 - 18748788
UUUUUGCAUUUGAAUUGUUAAUACUUUAACUUUUUUGUGCAUUUGUUUU-UGACCUGCGCGAGUGCAUUUAUGGAAU--ACGGUCCAAUAAAGGCACUUGAAGCGGGUCCAU
....(((((..(((..(((((....)))))..))).)))))........-.(((((((.(((((((.((((((((..--....))).))))).)))))))..)))))))... ( -37.90, z-score =  -5.04, R)
>droAna3.scaffold_13047 630498 103 - 1816235
UCUUUUCCCAUUAAUUGUUAG-----UAUUUUUAGUAAGCAGACUGAUUAUAAUUUCCCCU--UGCACCUGCCGGGUGGGCUUAUUGAAGAUGCCUCUUGAA-UAGGUCCA-
......(((............-----(((..(((((......)))))..))).........--.((....)).)))((((((((((.((((....)))).))-))))))))- ( -24.60, z-score =  -1.07, R)
>consensus
UUUUUGCAUCUGAAUUGUU_A_____AAACUAUUUUGUGCAUUUGUUUU_GGAACCGCUCGAGUGCAUUUAUGGAAUCUACGGUCUAAUAAAGGCACUUGAAGCGAGUCCAA
...................................................((..(((((((((((.((((((((........)))).)))).))))))).))))..))... (-12.87 = -14.15 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 11,290,970 – 11,291,088
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.38
Shannon entropy 0.27267
G+C content 0.41721
Mean single sequence MFE -29.35
Consensus MFE -21.62
Energy contribution -21.58
Covariance contribution -0.04
Combinations/Pair 1.14
Mean z-score -2.65
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.08
SVM RNA-class probability 0.981774
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11290970 118 + 22422827
UUUUGUGCAUUUUUUUUUGGAACCGCUCGAGUGCAUUUAUGGAAUCUAUGGUCUAAUAAAGGCACUUGAAGCGAGUCCAAUUCCUUACU--CCAAUCAUCCCAAUUCUUCCUCGUGUACA
...(((((((......(((((..(((((((((((.((((((((........))).))))).))))))).))))..))))).........--..(((.......))).......))))))) ( -29.40, z-score =  -2.62, R)
>droSim1.chrX_random 3156853 111 + 5698898
UUUUGUGCAUUUGUUUU-GGAACCGCUCGAGUGCAUUUAUGGAAUCUAUGGUCUAAUAAAGGCACUUGAAGCGAGUCCAAUUCCUUACUCUCCAAUCAUCCCAAUCCUUGCU--------
......(((...(..((-((....((((((((((.((((((((........))).))))).))))))).)))((((..........))))..........))))..).))).-------- ( -27.80, z-score =  -2.07, R)
>droSec1.super_36 14226 111 + 449511
UUUUGUGCAUUUGUUUU-GGAACCGCUCGAGUGCAUUUAUGGAAUCUAUGGUCUAAUAAAGGCACUUGAAGCGAGUUCAAUUCCUUACUCUCCAAUCAUCCCAAUCCUUCCU--------
...........((..((-(((...((((((((((.((((((((........))).))))).))))))).)))((((..........))))))))).))..............-------- ( -25.50, z-score =  -1.71, R)
>droYak2.chrX 10908568 106 - 21770863
UUUUGUGCAUUUGUUUU-CGACCUGCUCGAGUGCAUUUAUGGAAU--ACAGUCCAAUAAAGGCACUUGAAGCGGGUCCAAUUCCUUACU--CCAAUCCUUCCCUAAGUACA---------
...(((((....(....-)(((((((((((((((.((((((((..--....))).))))).))))))).))))))))............--...............)))))--------- ( -33.50, z-score =  -4.42, R)
>droEre2.scaffold_4690 14885024 106 - 18748788
UUUUGUGCAUUUGUUUU-UGACCUGCGCGAGUGCAUUUAUGGAAU--ACGGUCCAAUAAAGGCACUUGAAGCGGGUCCAUUUCCUCACU--CCAAUCCUUCCUCAUGUACA---------
...(((((((..(....-.(((((((.(((((((.((((((((..--....))).))))).)))))))..)))))))............--..........)..)))))))--------- ( -30.53, z-score =  -2.44, R)
>consensus
UUUUGUGCAUUUGUUUU_GGAACCGCUCGAGUGCAUUUAUGGAAUCUAUGGUCUAAUAAAGGCACUUGAAGCGAGUCCAAUUCCUUACU__CCAAUCAUCCCAAUCCUUCCU________
..................(((..(((((((((((.((((((((........))).))))).))))))).))))..))).......................................... (-21.62 = -21.58 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:34:03 2011