Locus 14538

Sequence ID dm3.chrX
Location 13,982,193 – 13,982,291
Length 98
Max. P 0.976163
window20014 window20015

overview

Window 4

Location 13,982,193 – 13,982,291
Length 98
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 74.11
Shannon entropy 0.46086
G+C content 0.56120
Mean single sequence MFE -34.29
Consensus MFE -15.84
Energy contribution -18.50
Covariance contribution 2.67
Combinations/Pair 1.00
Mean z-score -2.22
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.17
SVM RNA-class probability 0.904486
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13982193 98 + 22422827
GUUGGCCCC----ACGCUCCCAGGAUCCGCCACUUCCAUCCGGGGAAUAUCU-----CCCCCUUUUUCUGCUUUUGACUUUGGCGUGACAAAUGCAUGGGGCCAAUG-------
(((((((((----(.((((....))(((((((.........(((((.....)-----)))).....((.......))...))))).)).....)).)))))))))).------- ( -38.10, z-score =  -3.35, R)
>droSim1.chrX_random 3745339 98 + 5698898
GUUGGCCCC----CUGCUCCCAGGAUCCGCCACUUCCAUCCGGGGAAUAUCU-----CCCCCUUUUUCUGCUUUUGACUUUGGCGUGACAAAUGCAUGGGGCCAAUG-------
(((((((((----.(((((....))(((((((.........(((((.....)-----)))).....((.......))...))))).)).....))).))))))))).------- ( -38.10, z-score =  -3.33, R)
>droSec1.super_20 601901 98 + 1148123
GUUGGCCCC----CUGCUCCCAGGAUCCGCCACUUCCAUCCGGGGAAUAUCU-----CCCCCUUUUUCUGCUUUUGACUUUGGCGUGACAAAUGCAUGGGGCCAAUG-------
(((((((((----.(((((....))(((((((.........(((((.....)-----)))).....((.......))...))))).)).....))).))))))))).------- ( -38.10, z-score =  -3.33, R)
>droYak2.chrX 8248527 107 + 21770863
UUUGGCCCCAAACCCGCUGCCAGGAACCUCCACUUUCAACCGGGGAAUAUAUAUCUCCCCCCUUUUUCUGCUGCUGACUUUGGCGUGACAAAUGCAUGGGGCCAAUG-------
.(((((((((.....((.((..((.....))..........(((((.........))))).........)).))........((((.....)))).)))))))))..------- ( -35.00, z-score =  -2.40, R)
>droEre2.scaffold_4690 5812938 97 - 18748788
GUUGGCCCC----C-ACUCCCAGGCUCCACCACUUUCAUCCGGGGAAUAUGU-----CCCCCUUUUUCAGCUUCUGACUUUGGCGUGACAAAUGCAUGGGACCAAUG-------
(((((....----.-..(((((.((.....(((........(((((.....)-----))))........(((.........))))))......)).)))))))))).------- ( -24.91, z-score =   0.13, R)
>droAna3.scaffold_13047 1490783 91 + 1816235
-----------------UCCUGGCACCACCCGCCAUGACCCCCCCCCCCCCC------CUUUUUUUUCUGGUUCUGACUCUGGCGUGACAAAUACAUGAGGGGGGGGUCCAAUG
-----------------...((((.......)))).((((((((((......------.........(..(........)..)((((.......)))).))))))))))..... ( -31.50, z-score =  -1.01, R)
>consensus
GUUGGCCCC____C_GCUCCCAGGAUCCGCCACUUCCAUCCGGGGAAUAUCU_____CCCCCUUUUUCUGCUUCUGACUUUGGCGUGACAAAUGCAUGGGGCCAAUG_______
(((((((((................................((((.............))))....................((((.....))))..)))))))))........ (-15.84 = -18.50 +   2.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,982,193 – 13,982,291
Length 98
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 74.11
Shannon entropy 0.46086
G+C content 0.56120
Mean single sequence MFE -41.00
Consensus MFE -19.17
Energy contribution -22.12
Covariance contribution 2.95
Combinations/Pair 1.16
Mean z-score -2.59
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.94
SVM RNA-class probability 0.976163
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13982193 98 - 22422827
-------CAUUGGCCCCAUGCAUUUGUCACGCCAAAGUCAAAAGCAGAAAAAGGGGG-----AGAUAUUCCCCGGAUGGAAGUGGCGGAUCCUGGGAGCGU----GGGGCCAAC
-------..((((((((((((.((((((((.(((..((.....)).......(((((-----(....))))))...)))..))))))))((....))))))----)))))))). ( -46.50, z-score =  -4.52, R)
>droSim1.chrX_random 3745339 98 - 5698898
-------CAUUGGCCCCAUGCAUUUGUCACGCCAAAGUCAAAAGCAGAAAAAGGGGG-----AGAUAUUCCCCGGAUGGAAGUGGCGGAUCCUGGGAGCAG----GGGGCCAAC
-------..((((((((.(((.((((((((.(((..((.....)).......(((((-----(....))))))...)))..))))))))((....))))).----)))))))). ( -42.60, z-score =  -3.40, R)
>droSec1.super_20 601901 98 - 1148123
-------CAUUGGCCCCAUGCAUUUGUCACGCCAAAGUCAAAAGCAGAAAAAGGGGG-----AGAUAUUCCCCGGAUGGAAGUGGCGGAUCCUGGGAGCAG----GGGGCCAAC
-------..((((((((.(((.((((((((.(((..((.....)).......(((((-----(....))))))...)))..))))))))((....))))).----)))))))). ( -42.60, z-score =  -3.40, R)
>droYak2.chrX 8248527 107 - 21770863
-------CAUUGGCCCCAUGCAUUUGUCACGCCAAAGUCAGCAGCAGAAAAAGGGGGGAGAUAUAUAUUCCCCGGUUGAAAGUGGAGGUUCCUGGCAGCGGGUUUGGGGCCAAA
-------..(((((((((.((..(((((...(((...(((((..(.......)((((((........)))))).)))))...)))((....)))))))...)).))))))))). ( -42.20, z-score =  -2.25, R)
>droEre2.scaffold_4690 5812938 97 + 18748788
-------CAUUGGUCCCAUGCAUUUGUCACGCCAAAGUCAGAAGCUGAAAAAGGGGG-----ACAUAUUCCCCGGAUGAAAGUGGUGGAGCCUGGGAGU-G----GGGGCCAAC
-------..((((((((...(....((..(((((...(((....((.....))((((-----(.....)))))...)))...)))))..))....)...-.----)))))))). ( -34.90, z-score =  -1.30, R)
>droAna3.scaffold_13047 1490783 91 - 1816235
CAUUGGACCCCCCCCUCAUGUAUUUGUCACGCCAGAGUCAGAACCAGAAAAAAAAG------GGGGGGGGGGGGGGUCAUGGCGGGUGGUGCCAGGA-----------------
.....((((((((((((.....((((.(.(....).).)))).((..........)------)...)))))))))))).(((((.....)))))...----------------- ( -37.20, z-score =  -0.65, R)
>consensus
_______CAUUGGCCCCAUGCAUUUGUCACGCCAAAGUCAAAAGCAGAAAAAGGGGG_____AGAUAUUCCCCGGAUGAAAGUGGCGGAUCCUGGGAGC_G____GGGGCCAAC
.........((((((((.(((.((((.(........).)))).))).....................(((((.((((...........)))).))))).......)))))))). (-19.17 = -22.12 +   2.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:42:00 2011