Locus 12662

Sequence ID dm3.chrX
Location 1,515,572 – 1,515,631
Length 59
Max. P 0.991794
window17408 window17409

overview

Window 8

Location 1,515,572 – 1,515,631
Length 59
Sequences 5
Columns 59
Reading direction forward
Mean pairwise identity 87.29
Shannon entropy 0.22498
G+C content 0.44746
Mean single sequence MFE -17.64
Consensus MFE -13.38
Energy contribution -13.74
Covariance contribution 0.36
Combinations/Pair 1.08
Mean z-score -2.00
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.79
SVM RNA-class probability 0.819003
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1515572 59 + 22422827
AGUAGCUGAAAGAUCUACUGAAAUGAUGAUCUAUUGAGGGGGUUUCCCCCUCUUUGCGC
....((....(((((............)))))...(((((((...)))))))...)).. ( -18.90, z-score =  -2.49, R)
>droSim1.chrU 14734261 59 + 15797150
AGUAGCUGAAAGAUCUACUGAAAUGAUGAUCUAUUGAGGGGGUUUCCCCCUCUUUGCAC
....((....(((((............)))))...(((((((...)))))))...)).. ( -18.90, z-score =  -2.53, R)
>droSec1.super_10 1332051 59 + 3036183
AGUAGCUGAAAGAUCUACUGAAAUGAUGAUCUAUUGAGGGGGUUUCCCCCUCUUUGCAC
....((....(((((............)))))...(((((((...)))))))...)).. ( -18.90, z-score =  -2.53, R)
>droYak2.chrX_random 189597 59 + 1802292
AGUAGCUGAAAGAUCUUCUGAACAGAUGAUCUAUUGCGGGGGUUUCCCCCCUCUUUUUC
....((....(((((.(((....))).)))))...))(((((....)))))........ ( -19.70, z-score =  -2.38, R)
>droEre2.scaffold_4644 1507689 59 + 2521924
GGUAGCUGAAAGAUCCACUGAAAUUAUGAUCUAUUGCUGGGGUUUCCCCCCUUUUCUGU
...(((....(((((............)))))...)))((((.....))))........ ( -11.80, z-score =  -0.09, R)
>consensus
AGUAGCUGAAAGAUCUACUGAAAUGAUGAUCUAUUGAGGGGGUUUCCCCCUCUUUGCAC
..........(((((............)))))...(((((((...)))))))....... (-13.38 = -13.74 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 1,515,572 – 1,515,631
Length 59
Sequences 5
Columns 59
Reading direction reverse
Mean pairwise identity 87.29
Shannon entropy 0.22498
G+C content 0.44746
Mean single sequence MFE -19.70
Consensus MFE -13.38
Energy contribution -13.38
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.37
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.50
SVM RNA-class probability 0.991794
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1515572 59 - 22422827
GCGCAAAGAGGGGGAAACCCCCUCAAUAGAUCAUCAUUUCAGUAGAUCUUUCAGCUACU
..((...(((((((...)))))))...(((((............)))))....)).... ( -18.70, z-score =  -3.35, R)
>droSim1.chrU 14734261 59 - 15797150
GUGCAAAGAGGGGGAAACCCCCUCAAUAGAUCAUCAUUUCAGUAGAUCUUUCAGCUACU
((((...(((((((...)))))))...(((((............)))))....)).)). ( -18.90, z-score =  -3.11, R)
>droSec1.super_10 1332051 59 - 3036183
GUGCAAAGAGGGGGAAACCCCCUCAAUAGAUCAUCAUUUCAGUAGAUCUUUCAGCUACU
((((...(((((((...)))))))...(((((............)))))....)).)). ( -18.90, z-score =  -3.11, R)
>droYak2.chrX_random 189597 59 - 1802292
GAAAAAGAGGGGGGAAACCCCCGCAAUAGAUCAUCUGUUCAGAAGAUCUUUCAGCUACU
........(((((....)))))((...(((((.(((....))).)))))....)).... ( -24.10, z-score =  -4.36, R)
>droEre2.scaffold_4644 1507689 59 - 2521924
ACAGAAAAGGGGGGAAACCCCAGCAAUAGAUCAUAAUUUCAGUGGAUCUUUCAGCUACC
.........((((....))))(((...(((((...((....)).)))))....)))... ( -17.90, z-score =  -2.91, R)
>consensus
GCGCAAAGAGGGGGAAACCCCCUCAAUAGAUCAUCAUUUCAGUAGAUCUUUCAGCUACU
.........((((....))))......(((((............))))).......... (-13.38 = -13.38 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:06:28 2011