Locus 2142

Sequence ID dm3.chr2L
Location 16,570,348 – 16,570,439
Length 91
Max. P 0.888669
window2949 window2950

overview

Window 9

Location 16,570,348 – 16,570,439
Length 91
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 77.84
Shannon entropy 0.40497
G+C content 0.50736
Mean single sequence MFE -22.46
Consensus MFE -12.28
Energy contribution -13.75
Covariance contribution 1.47
Combinations/Pair 1.11
Mean z-score -1.63
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.19
SVM RNA-class probability 0.584686
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16570348 91 + 23011544
GCCCAUGACGUGUGAAAGCCACCUUCGUGGCUCGAACCCCCUUUUCGCUUUUCUGACAGGUUCUCUGAUAUGGCCAACACUUUGGCCU-ACU------
(((.((((.(.(((.....)))).)))))))..(((((....................)))))........((((((....)))))).-...------ ( -22.85, z-score =  -1.43, R)
>droSim1.chr2L 16264845 92 + 22036055
GCCCAUGACGUGUGAAAGCCACCUUCGUGGCUCGAACCUCCUUUUCGCUUUUCUGACAGGUUCUCUGAUAUGGCCAACACUUUGGCCUCACU------
...........((((.((((((....)))))).((((((.....(((......))).))))))........((((((....)))))))))).------ ( -26.00, z-score =  -2.30, R)
>droSec1.super_7 217521 79 + 3727775
GCCCAUGACGUGUGAAAGCCACCUUCGUGGCUC-------------GCUUUUCUGACAGGUUCUCUGAUAUGGCCAACACUUUGGCCUCACU------
...........((((.((((((....)))))).-------------..........(((.....)))....((((((....)))))))))).------ ( -21.80, z-score =  -1.18, R)
>droYak2.chr2R 16606284 91 - 21139217
GUCCAUGACGUGUGAAAGCCACCUUCAUGGCCCGAACCUCCUUUUCGCUUUUCUGACAGGUUCUCUGAUAUGGCCAACACUUUGGCCU-ACU------
..((((((.(.(((.....)))).))))))...((((((.....(((......))).))))))........((((((....)))))).-...------ ( -24.50, z-score =  -2.28, R)
>droEre2.scaffold_4845 19638610 96 + 22589142
GUCCAUGACGUGU-AAAGCCACCUUGGUGGCUCGAACCUCCUUUUCGCUUUUCUGACAGGCUCUCUGAUAUGGCCAACACUUUGGCCU-ACUCACACA
(((...)))((((-..((((((....))))))..............((((.......)))).....((...((((((....)))))).-..)))))). ( -26.40, z-score =  -2.16, R)
>droAna3.scaffold_12916 189088 76 - 16180835
GUCCUUGACGUGUGGUAGCCACCUUAACGCCAG-----UCCUUUAGUCCAUUUUGUU---UUCUGUGACAUGUCGAACAUUUUG--------------
....((((((((((((....)))....(((.((-----.....(((......)))..---..))))))))))))))........-------------- ( -13.20, z-score =  -0.45, R)
>consensus
GCCCAUGACGUGUGAAAGCCACCUUCGUGGCUCGAACCUCCUUUUCGCUUUUCUGACAGGUUCUCUGAUAUGGCCAACACUUUGGCCU_ACU______
..((((((.(.(((.....)))).))))))..........................(((.....)))....((((((....))))))........... (-12.28 = -13.75 +   1.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 16,570,348 – 16,570,439
Length 91
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 77.84
Shannon entropy 0.40497
G+C content 0.50736
Mean single sequence MFE -27.75
Consensus MFE -15.16
Energy contribution -17.44
Covariance contribution 2.28
Combinations/Pair 1.26
Mean z-score -2.08
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.09
SVM RNA-class probability 0.888669
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16570348 91 - 23011544
------AGU-AGGCCAAAGUGUUGGCCAUAUCAGAGAACCUGUCAGAAAAGCGAAAAGGGGGUUCGAGCCACGAAGGUGGCUUUCACACGUCAUGGGC
------...-.((((((....))))))...((((((..(((.((........))...)))..)))(((((((....)))))))..........))).. ( -30.40, z-score =  -2.19, R)
>droSim1.chr2L 16264845 92 - 22036055
------AGUGAGGCCAAAGUGUUGGCCAUAUCAGAGAACCUGUCAGAAAAGCGAAAAGGAGGUUCGAGCCACGAAGGUGGCUUUCACACGUCAUGGGC
------.((((((((((....))))))........((((((.((........)).....))))))(((((((....)))))))))))........... ( -33.30, z-score =  -3.08, R)
>droSec1.super_7 217521 79 - 3727775
------AGUGAGGCCAAAGUGUUGGCCAUAUCAGAGAACCUGUCAGAAAAGC-------------GAGCCACGAAGGUGGCUUUCACACGUCAUGGGC
------.((((((((((....))))))....(((.....)))..........-------------(((((((....)))))))))))........... ( -27.30, z-score =  -2.17, R)
>droYak2.chr2R 16606284 91 + 21139217
------AGU-AGGCCAAAGUGUUGGCCAUAUCAGAGAACCUGUCAGAAAAGCGAAAAGGAGGUUCGGGCCAUGAAGGUGGCUUUCACACGUCAUGGAC
------...-.((((((....))))))........((((((.((........)).....))))))...((((((..(((.......))).)))))).. ( -27.90, z-score =  -1.71, R)
>droEre2.scaffold_4845 19638610 96 - 22589142
UGUGUGAGU-AGGCCAAAGUGUUGGCCAUAUCAGAGAGCCUGUCAGAAAAGCGAAAAGGAGGUUCGAGCCACCAAGGUGGCUUU-ACACGUCAUGGAC
.((((((..-.((((((....))))))........((((((.((........)).....)))))).((((((....))))))))-))))......... ( -32.80, z-score =  -2.82, R)
>droAna3.scaffold_12916 189088 76 + 16180835
--------------CAAAAUGUUCGACAUGUCACAGAA---AACAAAAUGGACUAAAGGA-----CUGGCGUUAAGGUGGCUACCACACGUCAAGGAC
--------------......((((.....(((.((...---.......)))))....)))-----)((((((....((((...))))))))))..... ( -14.80, z-score =  -0.48, R)
>consensus
______AGU_AGGCCAAAGUGUUGGCCAUAUCAGAGAACCUGUCAGAAAAGCGAAAAGGAGGUUCGAGCCACGAAGGUGGCUUUCACACGUCAUGGAC
...........((((((....))))))........((((((..................))))))(((((((....)))))))............... (-15.16 = -17.44 +   2.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:45:36 2011