Locus 13265

Sequence ID dm3.chrX
Location 5,419,186 – 5,419,287
Length 101
Max. P 0.998232
window18253 window18254

overview

Window 3

Location 5,419,186 – 5,419,287
Length 101
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 59.27
Shannon entropy 0.70908
G+C content 0.51270
Mean single sequence MFE -31.33
Consensus MFE -19.92
Energy contribution -19.92
Covariance contribution -0.00
Combinations/Pair 1.27
Mean z-score -1.60
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.29
SVM RNA-class probability 0.998232
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5419186 101 + 22422827
GCCGCUCCGCUGCUGGCGUACCCGGCAGCGCAGCUACGCGGAUU-AGCCUAAGUCCAAAUAUAUUCAAAAACUGUAAAAUCAGAG---AGAGACUCUGUAGACGU
((.(((.(((((((((.....))))))))).)))...))(((((-......))))).................((.....(((((---.....)))))...)).. ( -32.80, z-score =  -2.14, R)
>droSim1.chr3h_random 862078 95 + 1452968
GUCGCUGCGCUGCAGGCUAUGCCGGCAGCGCUGCUCCUGGACUU-AGGCUAAGAAACCAUUGUAUUUAGAUCGCCAAAUGAUUGACGAAUUAACUU---------
(((((.(((((((.(((...))).))))))).))..........-.(((.......................)))........)))..........--------- ( -27.90, z-score =  -0.78, R)
>droYak2.chrX_random 1263068 96 - 1802292
GCCGCUCCGCUGCUGUCGUAUCCGGCAGCGCAGCUACGCGGCUU-AGCCUUCGACGAAAUAUAAUUAAGAAUCACAAAACAGACACUUGUAGAAAGU--------
(((((...((((((((((....)))))..)))))...)))))..-.((.(((.((((.............................)))).))).))-------- ( -24.45, z-score =  -0.32, R)
>droEre2.scaffold_4855 234991 96 - 242605
GCCGCUCCGCUGCUGGCGUAGCUGGCAGCGCAGCUACGCGGUUUUAGGUUUAGCCGAAAUAUACUUAAGAAUGUAUCGCCAGAUACUUGU-GAAUGU--------
...(((.((((((..((...))..)))))).)))..(((((((((((((.((.......)).))))))))..(((((....)))))))))-).....-------- ( -33.50, z-score =  -1.06, R)
>droPer1.super_1295 3585 92 + 6930
GCCGCUCCGCUGCCGGCGUCACUGGCAGCGCAGCUCCGCGGCUU-UGGGCUUACAAAAGCCCAAACCACAAUUGUAAAAUAUAGA---AGAGAAAU---------
((.(((.(((((((((.....))))))))).)))...))((.((-(((((((....)))))))))))..................---........--------- ( -38.00, z-score =  -3.69, R)
>consensus
GCCGCUCCGCUGCUGGCGUAGCCGGCAGCGCAGCUACGCGGCUU_AGGCUUAGACAAAAUAUAAUUAAGAAUGGCAAAACAGAGAC__AUAGAAUGU________
((((((.(((((((((.....))))))))).))).....)))............................................................... (-19.92 = -19.92 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 5,419,186 – 5,419,287
Length 101
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 59.27
Shannon entropy 0.70908
G+C content 0.51270
Mean single sequence MFE -32.16
Consensus MFE -16.88
Energy contribution -17.68
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.25
SVM RNA-class probability 0.986718
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5419186 101 - 22422827
ACGUCUACAGAGUCUCU---CUCUGAUUUUACAGUUUUUGAAUAUAUUUGGACUUAGGCU-AAUCCGCGUAGCUGCGCUGCCGGGUACGCCAGCAGCGGAGCGGC
..((((((((((.....---)))))((((..........)))).....))))).((.((.-.....)).))(((.((((((.((.....)).)))))).)))... ( -31.90, z-score =  -0.68, R)
>droSim1.chr3h_random 862078 95 - 1452968
---------AAGUUAAUUCGUCAAUCAUUUGGCGAUCUAAAUACAAUGGUUUCUUAGCCU-AAGUCCAGGAGCAGCGCUGCCGGCAUAGCCUGCAGCGCAGCGAC
---------...(((..(((((((....)))))))..)))........((((((..((..-..))..)))))).(((((((.(((...))).)))))))...... ( -33.10, z-score =  -2.62, R)
>droYak2.chrX_random 1263068 96 + 1802292
--------ACUUUCUACAAGUGUCUGUUUUGUGAUUCUUAAUUAUAUUUCGUCGAAGGCU-AAGCCGCGUAGCUGCGCUGCCGGAUACGACAGCAGCGGAGCGGC
--------.(((((.((((((((..(((..(.....)..))).)))))).)).)))))..-..(((((....((((((((.((....)).)))).)))).))))) ( -30.20, z-score =  -0.66, R)
>droEre2.scaffold_4855 234991 96 + 242605
--------ACAUUC-ACAAGUAUCUGGCGAUACAUUCUUAAGUAUAUUUCGGCUAAACCUAAAACCGCGUAGCUGCGCUGCCAGCUACGCCAGCAGCGGAGCGGC
--------......-...........(((((((........)))).....((.....))......)))...(((.((((((..((...))..)))))).)))... ( -24.10, z-score =   0.58, R)
>droPer1.super_1295 3585 92 - 6930
---------AUUUCUCU---UCUAUAUUUUACAAUUGUGGUUUGGGCUUUUGUAAGCCCA-AAGCCGCGGAGCUGCGCUGCCAGUGACGCCGGCAGCGGAGCGGC
---------........---..............(((((((((((((((....)))))).-))))))))).(((.(((((((.(.....).))))))).)))... ( -41.50, z-score =  -3.40, R)
>consensus
________AAAUUCUAU__GUCUAUAUUUUACAAUUCUUAAUUAUAUUUCGGCUAAGCCU_AAGCCGCGUAGCUGCGCUGCCGGCUACGCCAGCAGCGGAGCGGC
.......................................................................(((.((((((.((.....)).)))))).)))... (-16.88 = -17.68 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:17:59 2011