Locus 12023

Sequence ID dm3.chr3R
Location 25,184,570 – 25,184,669
Length 99
Max. P 0.985924
window16527 window16528

overview

Window 7

Location 25,184,570 – 25,184,669
Length 99
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 70.10
Shannon entropy 0.56922
G+C content 0.48266
Mean single sequence MFE -25.22
Consensus MFE -16.93
Energy contribution -17.43
Covariance contribution 0.50
Combinations/Pair 1.18
Mean z-score -1.49
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.22
SVM RNA-class probability 0.985924
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25184570 99 + 27905053
GGAAUCAGAGCCAGAGGCGGAGGCUACUUUGUAGCCAUGUCUGUGGCAUCAGAGUCGGAAAACACAGGCGAAAAAAAAAAACGAGGAAAUAGAGGGGAU------
....((.((((((.(((((..((((((...)))))).))))).)))).))...(((..........)))))............................------ ( -26.10, z-score =  -2.32, R)
>droSim1.chr3R 24859516 98 + 27517382
GGAAUCAGAUCCAGAGGCGGAGGCUACUUUGUAGCCAUGUCUGUGGCAUCAGAGUCGGA-----AAACACAGGGGAAAAAACGAGGAAAUAGGGGGGAUAUAU--
.((.((.((((((.(((((..((((((...)))))).))))).))).))).)).))...-----.......................................-- ( -23.90, z-score =  -1.39, R)
>droSec1.super_4 4044740 97 + 6179234
GGAAUCAGAUCCAGAGGCGGAGGCUACUUUGUAGCCAUGUCUGUGGCAUCAGAGUCGGA-----AAACACAGGGGAAAAA-CGAGGAAAUAGGGGGGAUACAU--
.((.((.((((((.(((((..((((((...)))))).))))).))).))).)).))...-----................-......................-- ( -23.90, z-score =  -1.21, R)
>droYak2.chr3R 7529931 103 - 28832112
GCAAUCAGAUCCAGAGGCGGAGGCUACUUUGUAGCCAUGUCUGUGGCAUCAGAGUCGGAAACAAAAAAAUAGAGGAAAAG--AGGAAAUAGGGAGGGAUUUUCCU
.......((((((.(((((..((((((...)))))).))))).))).)))......(....)..........(((((((.--................))))))) ( -28.33, z-score =  -1.82, R)
>droEre2.scaffold_4820 7631109 92 - 10470090
GCAAUCAGAUCCAGAG--GGGGGCUACUUUGUAGCCAUGUCUGUGGCAUCAGAGUCGGA-----AAACACAGGGAAAACG--GAGGAAAUGGGAGGGAUAU----
...(((...(((....--...((((((...)))))).(.((((((...((.......))-----...)))))).).....--.........)))..)))..---- ( -21.60, z-score =  -0.37, R)
>droAna3.scaffold_12911 4876822 98 + 5364042
----CCAGAGUCUGAGACGCAGGCUACUUUGUAGCCAUGACUAUGGCUAUGUGGCCAUGGCAAAAUGGGAAUAAAAAAGUUUUGAGAAGGAGUAGAAGCGUU---
----...........(((((.((((((...((((((((....))))))))))))))....((((((............)))))).............)))))--- ( -27.50, z-score =  -1.82, R)
>consensus
GGAAUCAGAUCCAGAGGCGGAGGCUACUUUGUAGCCAUGUCUGUGGCAUCAGAGUCGGA_____AAACACAGAGAAAAAA_CGAGGAAAUAGGAGGGAUAU____
.......((((((.(((((..((((((...)))))).))))).))).)))....................................................... (-16.93 = -17.43 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 25,184,570 – 25,184,669
Length 99
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 70.10
Shannon entropy 0.56922
G+C content 0.48266
Mean single sequence MFE -17.66
Consensus MFE -10.54
Energy contribution -11.43
Covariance contribution 0.89
Combinations/Pair 1.06
Mean z-score -1.16
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.27
SVM RNA-class probability 0.919768
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25184570 99 - 27905053
------AUCCCCUCUAUUUCCUCGUUUUUUUUUUUCGCCUGUGUUUUCCGACUCUGAUGCCACAGACAUGGCUACAAAGUAGCCUCCGCCUCUGGCUCUGAUUCC
------...........................................((.((.((.((((.((.(..((((((...))))))...).)).)))))).)).)). ( -18.30, z-score =  -1.57, R)
>droSim1.chr3R 24859516 98 - 27517382
--AUAUAUCCCCCCUAUUUCCUCGUUUUUUCCCCUGUGUUU-----UCCGACUCUGAUGCCACAGACAUGGCUACAAAGUAGCCUCCGCCUCUGGAUCUGAUUCC
--.......................................-----...((.((.(((.(((.((.(..((((((...))))))...).)).)))))).)).)). ( -16.30, z-score =  -1.08, R)
>droSec1.super_4 4044740 97 - 6179234
--AUGUAUCCCCCCUAUUUCCUCG-UUUUUCCCCUGUGUUU-----UCCGACUCUGAUGCCACAGACAUGGCUACAAAGUAGCCUCCGCCUCUGGAUCUGAUUCC
--......................-................-----...((.((.(((.(((.((.(..((((((...))))))...).)).)))))).)).)). ( -16.30, z-score =  -0.76, R)
>droYak2.chr3R 7529931 103 + 28832112
AGGAAAAUCCCUCCCUAUUUCCU--CUUUUCCUCUAUUUUUUUGUUUCCGACUCUGAUGCCACAGACAUGGCUACAAAGUAGCCUCCGCCUCUGGAUCUGAUUGC
(((((((................--.)))))))...............(((.((.(((.(((.((.(..((((((...))))))...).)).)))))).))))). ( -18.53, z-score =  -0.58, R)
>droEre2.scaffold_4820 7631109 92 + 10470090
----AUAUCCCUCCCAUUUCCUC--CGUUUUCCCUGUGUUU-----UCCGACUCUGAUGCCACAGACAUGGCUACAAAGUAGCCCCC--CUCUGGAUCUGAUUGC
----..........((..(((..--........(((((...-----((.......))...)))))....((((((...))))))...--....)))..))..... ( -17.00, z-score =  -1.23, R)
>droAna3.scaffold_12911 4876822 98 - 5364042
---AACGCUUCUACUCCUUCUCAAAACUUUUUUAUUCCCAUUUUGCCAUGGCCACAUAGCCAUAGUCAUGGCUACAAAGUAGCCUGCGUCUCAGACUCUGG----
---.((((..(((((......................((((......)))).....(((((((....)))))))...)))))...))))............---- ( -19.50, z-score =  -1.75, R)
>consensus
____AUAUCCCCCCUAUUUCCUCG_UUUUUCCCCUGUGUUU_____UCCGACUCUGAUGCCACAGACAUGGCUACAAAGUAGCCUCCGCCUCUGGAUCUGAUUCC
....................................................((.(((.(((.((....((((((...)))))).....)).)))))).)).... (-10.54 = -11.43 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:54:13 2011