Locus 6722

Sequence ID dm3.chr3L
Location 9,186,290 – 9,186,382
Length 92
Max. P 0.973224
window9251 window9252

overview

Window 1

Location 9,186,290 – 9,186,382
Length 92
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 75.15
Shannon entropy 0.42461
G+C content 0.46502
Mean single sequence MFE -24.52
Consensus MFE -15.62
Energy contribution -15.74
Covariance contribution 0.12
Combinations/Pair 1.19
Mean z-score -2.10
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.88
SVM RNA-class probability 0.973224
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 9186290 92 + 24543557
UCUGAUAAUG----------CAAAUCUUUUUGAUUUGCUGAUCAGUCAGAG----CCAGACUGUUGACUGAUCCCCUUGGCAAAUCCUUUAGCUGACAACGCCCAU
.........(----------((((((.....))))))).((((((((((((----.....)).))))))))))...(..((.((....)).))..).......... ( -24.00, z-score =  -2.53, R)
>droEre2.scaffold_4784 20901354 95 - 25762168
CCCGAUAAUG------UCUUACAAUCUUUUUGAUU-GUUGAUCAGCCAGAG----CUAUUGUGCUGACUGACCCCCUUGGGGAAACCCCCAGCGGACAACGCCCCU
..........------((..((((((.....))))-)).))((((.(((.(----(....)).))).))))..((.((((((....)))))).))........... ( -26.40, z-score =  -2.68, R)
>droYak2.chr3L 21463348 85 - 24197627
---------------------CAAUCCUUUUGAUUUGUUGAUCAGUCAGAGAGAACUAUUAUGUUGACUGACCCCCCUGGGGAAACCCUCAGCGGACAACGCCCAU
---------------------........(((.((((((((((((((((.((......))...)))))))).......(((....))))))))))))))....... ( -23.80, z-score =  -2.11, R)
>droSec1.super_0 1443446 102 + 21120651
CCCGAUAAUGGAAUUGUUUUACAAUCUUUUUGAUUUGCUGAUCAGUCAGGA----CUAUCCUGUUGACUGACCCCCUUGGGCAAACCCAUAGCGGACAACGCCCAU
.........((..((((((...((((.....)))).((((.(((((((((.----....))...)))))))......((((....))))))))))))))..))... ( -25.00, z-score =  -1.44, R)
>droSim1.chr3L 8583973 102 + 22553184
CCCAAUAAUGGAAUUGUUUUAGAAUCCUUUUGAUUUGCUGAUCAGUCAGAG----CUAUCCUGUUGACUGACCCCCUUGGUAAAUCCUUUAGCGGACAACGCCCAU
.......((((....................(((((((..(((((((((((----.....)).)))))))).....)..))))))).....(((.....))))))) ( -23.40, z-score =  -1.73, R)
>consensus
CCCGAUAAUG______U_UUACAAUCUUUUUGAUUUGCUGAUCAGUCAGAG____CUAUCCUGUUGACUGACCCCCUUGGGAAAACCCUUAGCGGACAACGCCCAU
.............................(((.(((((((.((((((((..............)))))))).......(((....))).))))))))))....... (-15.62 = -15.74 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 9,186,290 – 9,186,382
Length 92
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 75.15
Shannon entropy 0.42461
G+C content 0.46502
Mean single sequence MFE -27.88
Consensus MFE -16.35
Energy contribution -16.23
Covariance contribution -0.12
Combinations/Pair 1.10
Mean z-score -1.45
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.34
SVM RNA-class probability 0.651270
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 9186290 92 - 24543557
AUGGGCGUUGUCAGCUAAAGGAUUUGCCAAGGGGAUCAGUCAACAGUCUGG----CUCUGACUGAUCAGCAAAUCAAAAAGAUUUG----------CAUUAUCAGA
...((((..(((........))).)))).....(((((((((..((.....----)).))))))))).(((((((.....))))))----------)......... ( -28.80, z-score =  -2.26, R)
>droEre2.scaffold_4784 20901354 95 + 25762168
AGGGGCGUUGUCCGCUGGGGGUUUCCCCAAGGGGGUCAGUCAGCACAAUAG----CUCUGGCUGAUCAAC-AAUCAAAAAGAUUGUAAGA------CAUUAUCGGG
.....((.(((((.((((((....)))).)).)((((((((((..(....)----..)))))))))).((-((((.....))))))..))------))....)).. ( -32.60, z-score =  -2.25, R)
>droYak2.chr3L 21463348 85 + 24197627
AUGGGCGUUGUCCGCUGAGGGUUUCCCCAGGGGGGUCAGUCAACAUAAUAGUUCUCUCUGACUGAUCAACAAAUCAAAAGGAUUG---------------------
.(((...((((((.(((.(((...)))))).))(((((((((................))))))))).)))).))).........--------------------- ( -25.19, z-score =  -1.03, R)
>droSec1.super_0 1443446 102 - 21120651
AUGGGCGUUGUCCGCUAUGGGUUUGCCCAAGGGGGUCAGUCAACAGGAUAG----UCCUGACUGAUCAGCAAAUCAAAAAGAUUGUAAAACAAUUCCAUUAUCGGG
(((((.(((((..(((.((((....))))....(((((((((...((....----.)))))))))))))).((((.....)))).....))))))))))....... ( -30.30, z-score =  -1.63, R)
>droSim1.chr3L 8583973 102 - 22553184
AUGGGCGUUGUCCGCUAAAGGAUUUACCAAGGGGGUCAGUCAACAGGAUAG----CUCUGACUGAUCAGCAAAUCAAAAGGAUUCUAAAACAAUUCCAUUAUUGGG
.(((.....((((......))))...))).((((((((((((..((.....----)).)))))))))....((((.....))))..........)))......... ( -22.50, z-score =  -0.09, R)
>consensus
AUGGGCGUUGUCCGCUAAGGGUUUCCCCAAGGGGGUCAGUCAACAGAAUAG____CUCUGACUGAUCAGCAAAUCAAAAAGAUUGUAA_A______CAUUAUCGGG
...((((.....))))...((.....))..(..(((((((((................)))))))))..).((((.....))))...................... (-16.35 = -16.23 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:13:13 2011