Locus 2179

Sequence ID dm3.chr2L
Location 16,779,634 – 16,779,711
Length 77
Max. P 0.783887
window3008 window3009

overview

Window 8

Location 16,779,634 – 16,779,711
Length 77
Sequences 6
Columns 77
Reading direction forward
Mean pairwise identity 89.70
Shannon entropy 0.19971
G+C content 0.27662
Mean single sequence MFE -8.64
Consensus MFE -6.85
Energy contribution -7.24
Covariance contribution 0.39
Combinations/Pair 1.12
Mean z-score -1.91
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.68
SVM RNA-class probability 0.783887
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16779634 77 + 23011544
UACAAAAUUAGUUAGUAUGUAUGCCAUCUUACACUAACCAAAUCGUUUGAAACUAAUUAAUACAAUACCUUCAAACU
..........((((((..(((........)))))))))......(((((((..................))))))). (  -9.67, z-score =  -2.28, R)
>droPer1.super_1 5795706 70 - 10282868
---AAAUUUAGUCAGUAUGUAUGCA--CCACUAUUAACCAAUUCGUUUGAAACAAAAUAAUACAACA--UUAAAACU
---...((((((..((.(((((...--........(((......)))............))))))))--)))))... (  -3.50, z-score =   0.71, R)
>droYak2.chr2R 16816743 77 - 21139217
UACAAAAUUAGUUAGUCUGUAUGCCAUCUUACACUAACCCAAUCGUUUGAAACUAAUUAAUACAAAACCUUCAAACU
..........((((((..(((........)))))))))......(((((((..................))))))). (  -9.67, z-score =  -2.75, R)
>droEre2.scaffold_4845 19850305 77 + 22589142
UACAAAAUUAGUUAGUAUGUAUGCCAUCUUACACUAACCCAAUCGUUUGAAACUAAUUAAUACAAAACCUUCAAACU
..........((((((..(((........)))))))))......(((((((..................))))))). (  -9.67, z-score =  -2.57, R)
>droSec1.super_7 426382 77 + 3727775
UACAAAAUUAGUUAGUAUGUAUGCCAUCUUACACUAACCAAAUCGUUUGAAACUAAUUAAUACAAUACCUUCAAACU
..........((((((..(((........)))))))))......(((((((..................))))))). (  -9.67, z-score =  -2.28, R)
>droSim1.chr2L_random 621735 77 + 909653
UACAAAAUUAGUUAGUAUGUAUGCCAUCUUACACUAACCAAAUCGUUUGAAACUAAUUAAUACAAUACCUUCAAACU
..........((((((..(((........)))))))))......(((((((..................))))))). (  -9.67, z-score =  -2.28, R)
>consensus
UACAAAAUUAGUUAGUAUGUAUGCCAUCUUACACUAACCAAAUCGUUUGAAACUAAUUAAUACAAUACCUUCAAACU
..........((((((..(((........)))))))))......(((((((..................))))))). ( -6.85 =  -7.24 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 16,779,634 – 16,779,711
Length 77
Sequences 6
Columns 77
Reading direction reverse
Mean pairwise identity 89.70
Shannon entropy 0.19971
G+C content 0.27662
Mean single sequence MFE -15.62
Consensus MFE -11.73
Energy contribution -13.07
Covariance contribution 1.34
Combinations/Pair 1.14
Mean z-score -1.81
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.16
SVM RNA-class probability 0.573528
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16779634 77 - 23011544
AGUUUGAAGGUAUUGUAUUAAUUAGUUUCAAACGAUUUGGUUAGUGUAAGAUGGCAUACAUACUAACUAAUUUUGUA
.((((((((.((.(......).)).))))))))...(((((((((((............)))))))))))....... ( -17.40, z-score =  -2.42, R)
>droPer1.super_1 5795706 70 + 10282868
AGUUUUAA--UGUUGUAUUAUUUUGUUUCAAACGAAUUGGUUAAUAGUGG--UGCAUACAUACUGACUAAAUUU---
((((...(--((((((((((((.....((((.....)))).....)))))--)))).))))...))))......--- ( -12.80, z-score =  -1.28, R)
>droYak2.chr2R 16816743 77 + 21139217
AGUUUGAAGGUUUUGUAUUAAUUAGUUUCAAACGAUUGGGUUAGUGUAAGAUGGCAUACAGACUAACUAAUUUUGUA
.((((((((.(..(......)..).)))))))).....((((((((((........)))..)))))))......... ( -13.80, z-score =  -0.90, R)
>droEre2.scaffold_4845 19850305 77 - 22589142
AGUUUGAAGGUUUUGUAUUAAUUAGUUUCAAACGAUUGGGUUAGUGUAAGAUGGCAUACAUACUAACUAAUUUUGUA
.((((((((.(..(......)..).)))))))).....(((((((((............)))))))))......... ( -14.90, z-score =  -1.44, R)
>droSec1.super_7 426382 77 - 3727775
AGUUUGAAGGUAUUGUAUUAAUUAGUUUCAAACGAUUUGGUUAGUGUAAGAUGGCAUACAUACUAACUAAUUUUGUA
.((((((((.((.(......).)).))))))))...(((((((((((............)))))))))))....... ( -17.40, z-score =  -2.42, R)
>droSim1.chr2L_random 621735 77 - 909653
AGUUUGAAGGUAUUGUAUUAAUUAGUUUCAAACGAUUUGGUUAGUGUAAGAUGGCAUACAUACUAACUAAUUUUGUA
.((((((((.((.(......).)).))))))))...(((((((((((............)))))))))))....... ( -17.40, z-score =  -2.42, R)
>consensus
AGUUUGAAGGUAUUGUAUUAAUUAGUUUCAAACGAUUUGGUUAGUGUAAGAUGGCAUACAUACUAACUAAUUUUGUA
.((((((((.((..........)).))))))))...(((((((((((............)))))))))))....... (-11.73 = -13.07 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:46:24 2011