Locus 4723

Sequence ID dm3.chr2R
Location 15,261,417 – 15,261,483
Length 66
Max. P 0.984973
window6481 window6482

overview

Window 1

Location 15,261,417 – 15,261,483
Length 66
Sequences 6
Columns 67
Reading direction forward
Mean pairwise identity 78.99
Shannon entropy 0.41596
G+C content 0.44753
Mean single sequence MFE -18.55
Consensus MFE -11.99
Energy contribution -12.85
Covariance contribution 0.86
Combinations/Pair 1.08
Mean z-score -2.05
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.78
SVM RNA-class probability 0.967020
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15261417 66 + 21146708
CGUAAUUGCCAGCAAUCGAGAUUAAGUGCAGGCGUUUAGUGGG-UAUUAGUAGCAGAUGCCUGAGAU
..(((.((((.(((............))).)))).)))..(((-((((.......)))))))..... ( -13.40, z-score =  -0.09, R)
>droAna3.scaffold_13266 17871485 66 - 19884421
CAUAAUUGGCCGUAAUCUAGAUUAAGUGGUAACGAUUAGUGGG-UAUUAAUAGAAGUUCACACUGAU
..(((((((((.((((....))))...)))..))))))(((..-(.((....)).)..)))...... (  -9.50, z-score =   0.23, R)
>droEre2.scaffold_4845 9459301 54 + 22589142
CGUAAUUGCCUGCAAUCGAGGUAAAGUGCAGGCGAUUAGUGGGCUCCCUGUGAU-------------
..((((((((((((............))))))))))))..((....))......------------- ( -18.30, z-score =  -2.07, R)
>droYak2.chr2R 7224759 66 - 21139217
CGUAAUUGCCUGCAAUCGAGAUUAAGUGCAGGCGAUUAGUGGG-UAUUAGUAGCAGCUCACUGUGAU
..((((((((((((............))))))))))))(((((-(..........))))))...... ( -22.30, z-score =  -2.72, R)
>droSec1.super_1 12774593 66 + 14215200
CGUAAUUGCCUGCAAUCGAGAUUAAGUGCAGGCGAUUAGUGGG-UAUUAGUAGCAGAUGCCUGUGAU
..((((((((((((............))))))))))))(..((-((((.......))))))..)... ( -23.90, z-score =  -3.81, R)
>droSim1.chr2R 13973550 66 + 19596830
CGUAAUUGCCUGCAAUCGAGAUUAAGUGCAGGCGAUUAGUGGG-UAUUAGUAGCAGAUGCCUGUGAU
..((((((((((((............))))))))))))(..((-((((.......))))))..)... ( -23.90, z-score =  -3.81, R)
>consensus
CGUAAUUGCCUGCAAUCGAGAUUAAGUGCAGGCGAUUAGUGGG_UAUUAGUAGCAGAUGCCUGUGAU
..((((((((((((............))))))))))))............................. (-11.99 = -12.85 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,261,417 – 15,261,483
Length 66
Sequences 6
Columns 67
Reading direction reverse
Mean pairwise identity 78.99
Shannon entropy 0.41596
G+C content 0.44753
Mean single sequence MFE -12.40
Consensus MFE -8.77
Energy contribution -9.47
Covariance contribution 0.70
Combinations/Pair 1.11
Mean z-score -2.13
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.18
SVM RNA-class probability 0.984973
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15261417 66 - 21146708
AUCUCAGGCAUCUGCUACUAAUA-CCCACUAAACGCCUGCACUUAAUCUCGAUUGCUGGCAAUUACG
......(((....))).......-..........(((.(((.((......)).))).)))....... ( -10.50, z-score =  -1.56, R)
>droAna3.scaffold_13266 17871485 66 + 19884421
AUCAGUGUGAACUUCUAUUAAUA-CCCACUAAUCGUUACCACUUAAUCUAGAUUACGGCCAAUUAUG
...((((..(((....((((...-.....)))).)))..))))........................ (  -2.70, z-score =   1.43, R)
>droEre2.scaffold_4845 9459301 54 - 22589142
-------------AUCACAGGGAGCCCACUAAUCGCCUGCACUUUACCUCGAUUGCAGGCAAUUACG
-------------......((....))..((((.(((((((.((......)).))))))).)))).. ( -15.50, z-score =  -3.06, R)
>droYak2.chr2R 7224759 66 + 21139217
AUCACAGUGAGCUGCUACUAAUA-CCCACUAAUCGCCUGCACUUAAUCUCGAUUGCAGGCAAUUACG
....(((....))).........-.....((((.(((((((.((......)).))))))).)))).. ( -14.90, z-score =  -2.52, R)
>droSec1.super_1 12774593 66 - 14215200
AUCACAGGCAUCUGCUACUAAUA-CCCACUAAUCGCCUGCACUUAAUCUCGAUUGCAGGCAAUUACG
......(((....))).......-.....((((.(((((((.((......)).))))))).)))).. ( -15.40, z-score =  -3.54, R)
>droSim1.chr2R 13973550 66 - 19596830
AUCACAGGCAUCUGCUACUAAUA-CCCACUAAUCGCCUGCACUUAAUCUCGAUUGCAGGCAAUUACG
......(((....))).......-.....((((.(((((((.((......)).))))))).)))).. ( -15.40, z-score =  -3.54, R)
>consensus
AUCACAGGCAUCUGCUACUAAUA_CCCACUAAUCGCCUGCACUUAAUCUCGAUUGCAGGCAAUUACG
..................................(((((((.((......)).)))))))....... ( -8.77 =  -9.47 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:34:43 2011