Locus 13551

Sequence ID dm3.chrX
Location 7,349,140 – 7,349,264
Length 124
Max. P 0.936761
window18656 window18657

overview

Window 6

Location 7,349,140 – 7,349,233
Length 93
Sequences 8
Columns 100
Reading direction forward
Mean pairwise identity 78.87
Shannon entropy 0.42125
G+C content 0.31480
Mean single sequence MFE -20.89
Consensus MFE -11.18
Energy contribution -10.99
Covariance contribution -0.19
Combinations/Pair 1.07
Mean z-score -1.87
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.76
SVM RNA-class probability 0.810466
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 7349140 93 + 22422827
------UGUGUGUUUUUUUUAACCGUGUAUUUUCGC-UGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGCAG
------................((((((((...((.-((((....)))).))...))).((((((((((((.......))))))))))))..)))))... ( -17.00, z-score =  -0.70, R)
>droSim1.chrX 5875260 93 + 17042790
------UGUGUGUUUUUUUUAACCGUGUAUUUUCGC-UGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGCAG
------................((((((((...((.-((((....)))).))...))).((((((((((((.......))))))))))))..)))))... ( -17.00, z-score =  -0.70, R)
>droSec1.super_24 558364 93 + 912625
------UGUGUGUUUUUUUUAACCGUGUAUUUUCGC-UGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGCAG
------................((((((((...((.-((((....)))).))...))).((((((((((((.......))))))))))))..)))))... ( -17.00, z-score =  -0.70, R)
>droYak2.chrX 7776777 93 - 21770863
------UGUGUGUUUUUUUUAAAUGUGUAUUUUCGC-UGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGCAG
------((..(((((.....)))))..)).....((-((((....))).......((((((((((((((((.......)))))))))))).))))))).. ( -16.50, z-score =  -0.47, R)
>droEre2.scaffold_4690 16260974 93 + 18748788
------UGUGUGUUUUUUUUAACCGUGUAUUUUCGC-UGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGCAG
------................((((((((...((.-((((....)))).))...))).((((((((((((.......))))))))))))..)))))... ( -17.00, z-score =  -0.70, R)
>droAna3.scaffold_13117 194269 78 + 5790199
-----------GCUUUUUUCGCCU-----UUUUCGC------CGCUGCAGUGUUUGUGAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGCCG
-----------.........(((.-----...((((------(((....)))...))))((((((((((((.......)))))))))))).....))).. ( -17.40, z-score =  -2.61, R)
>dp4.chrXL_group1e 11330895 98 + 12523060
UUUAUUUUUUCGCAUUGGUGUACGGGCCGCCCGCCCGUACGCUGCUGCUGUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUAGC--
...........(((..(((((((((((.....)))))))))))..))).....((((((((((((((((((.......)))))))))))).)))))).-- ( -35.90, z-score =  -5.70, R)
>droPer1.super_14 775795 96 + 2168203
UUUAUUUUUUCGCUUUGGUGUACGGGCGGGCGGC--AUACGCUGCCGCUGUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUAGC--
...........(((.(((..((((((((((((((--(.....))))))).)))))))).((((((((((((.......)))))))))))).))).)))-- ( -29.30, z-score =  -3.41, R)
>consensus
______UGUGUGUUUUUUUUAACCGUGUAUUUUCGC_UGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGCAG
...................................................(((.....((((((((((((.......)))))))))))).....))).. (-11.18 = -10.99 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 7,349,163 – 7,349,264
Length 101
Sequences 7
Columns 111
Reading direction forward
Mean pairwise identity 78.28
Shannon entropy 0.40362
G+C content 0.30500
Mean single sequence MFE -20.94
Consensus MFE -14.52
Energy contribution -14.71
Covariance contribution 0.19
Combinations/Pair 1.28
Mean z-score -1.78
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.41
SVM RNA-class probability 0.936761
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 7349163 101 + 22422827
UUUUCGCUGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGC-AGUGUGUUGUUGUU---------GUUCUUGUUAUUGUUUGGU
.....((.(((.((((((.(((.......((((((((((((.......))))))))))))..))).))-))))))).))....---------................... ( -21.20, z-score =  -1.86, R)
>droSim1.chrX 5875283 95 + 17042790
UUUUCGCUGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGC-AGUGUGUUGUUGUU---------------GUUAUUGUUUGGU
.....((.(((.((((((.(((.......((((((((((((.......))))))))))))..))).))-))))))).))....---------------............. ( -21.20, z-score =  -1.84, R)
>droSec1.super_24 558387 95 + 912625
UUUUCGCUGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGC-AGUGUGUUGUUGUU---------------GUUAUUGUUUGGU
.....((.(((.((((((.(((.......((((((((((((.......))))))))))))..))).))-))))))).))....---------------............. ( -21.20, z-score =  -1.84, R)
>droYak2.chrX 7776800 110 - 21770863
UUUUCGCUGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGC-AGUAUGUUGCUGUUUGUGCUAUUGUUGUUGUUAUUGUUUGGU
........((((.((.(((((((((((..((((((((((((.......))))))))))))......))-)).))))))).))..))))....................... ( -23.50, z-score =  -1.38, R)
>droEre2.scaffold_4690 16260997 101 + 18748788
UUUUCGCUGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGC-AGUGUGUUGUUGUU---------GUUCUUGUUAUUGUUUGGU
.....((.(((.((((((.(((.......((((((((((((.......))))))))))))..))).))-))))))).))....---------................... ( -21.20, z-score =  -1.86, R)
>droAna3.scaffold_13117 194282 85 + 5790199
UUUUCGC-----CGCUGCAGUGUUUGUGAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGC-CGUGUGUUGUUGCC-------------CGGUUGGU-------
...((((-----(((....)))...))))((((((((((((.......)))))))))))).....(((-((.((......)).-------------)))))...------- ( -19.40, z-score =  -1.26, R)
>droWil1.scaffold_180777 3436269 80 + 4753960
--------GUUUCAC-GCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUAGCUCGCGUAUAAGUAUGUGUGUG----------------------
--------....(((-((.....((((((((((((((((((.......)))))))))))).))))))...(((((....))))))))))---------------------- ( -18.90, z-score =  -2.41, R)
>consensus
UUUUCGCUGCAUCGCUGCAAUGUUUGUAAAAUUAAUUGACAUUUUAUUUGUUAAUUAAUUGUUAUGGC_AGUGUGUUGUUGUU_______________GUUAUUGUUUGGU
.....((.(((.(((.((...(((.....((((((((((((.......)))))))))))).....)))..))))).))).))............................. (-14.52 = -14.71 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:23:29 2011