Locus 9790

Sequence ID dm3.chr3R
Location 9,022,170 – 9,022,281
Length 111
Max. P 0.993316
window13433 window13434

overview

Window 3

Location 9,022,170 – 9,022,281
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 90.90
Shannon entropy 0.16015
G+C content 0.37366
Mean single sequence MFE -29.48
Consensus MFE -26.66
Energy contribution -27.98
Covariance contribution 1.32
Combinations/Pair 1.11
Mean z-score -2.14
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.68
SVM RNA-class probability 0.960749
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 9022170 111 + 27905053
CGCACAGGUUCCGAUUAAAAAUGACAUGCAAAUAUUUGACAUGUCAUUUAAAAAGAAGCGAAAUAAGCUUCUGUGGUUGUUGAUGGUAUAUAUUUGCACUGUGUAUGAGUU
.((((((....((((((.(((((((((((((....))).))))))))))....((((((.......)))))).))))))......(((......))).))))))....... ( -32.40, z-score =  -3.43, R)
>droEre2.scaffold_4770 5118855 110 - 17746568
AGCACAGAUUCCGAUUAAAAAUGACACGCAAGUGCUUGAAGUGUCAUUUAAAAAGAAGCGAA-UAAGCUUCUGUGGCUAUCGAUGGUAUAUAUUCCCACCAUGUAUGAGUU
......(((((((((...(((((((((.(((....)))..)))))))))....((((((...-...))))))......))))(((((..........)))))....))))) ( -26.80, z-score =  -1.89, R)
>droYak2.chr3R 13322280 111 + 28832112
UGCACAGGUUCCGAUUAAAAAUGACACGCAAAUAUUUGGCGUGUCAUUUAAAAAGAAGCGAAAUAAGCUUCUGUGGUUGCCGAUGGUAUAUAUUCGCACUAUGCAUGAGUU
((((.((...(((.....(((((((((((.........)))))))))))....((((((.......)))))).))).(((.((((.....)))).))))).))))...... ( -32.80, z-score =  -2.64, R)
>droSec1.super_0 8138177 111 - 21120651
CGCACAGGUUCCGAUUAAAAAUGACACGCAAAUAUUUGACAUGUCAUUUAAAAAGAAGCGAAAUAAGCUUCUGUGGUUGCCGAUGGUAUAUAUUUGCACUGUGCAUGAGUU
.((((((...(((.....((((((((.((((....))).).))))))))....((((((.......)))))).))).(((.((((.....)))).)))))))))....... ( -31.80, z-score =  -2.67, R)
>droSim1.chr3R 15112237 111 - 27517382
CGCACAGGUUCCGAUUAAAAAUGACACGCAAAUAUUUGACAUGUCAUUUAAAAAGAAGCGAAAUAAGCGUCUGCGGUUGCCGAUGGUAUAUAUUUGCACUGUAUAUGAGUU
..((..(((.(((.....((((((((.((((....))).).))))))))....(((.((.......)).))).)))..)))..)).(((((((.......))))))).... ( -23.60, z-score =  -0.08, R)
>consensus
CGCACAGGUUCCGAUUAAAAAUGACACGCAAAUAUUUGACAUGUCAUUUAAAAAGAAGCGAAAUAAGCUUCUGUGGUUGCCGAUGGUAUAUAUUUGCACUGUGUAUGAGUU
.((((((...(((.....(((((((((((((....))).))))))))))....((((((.......)))))).))).(((.((((.....)))).)))))))))....... (-26.66 = -27.98 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 9,022,170 – 9,022,281
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 90.90
Shannon entropy 0.16015
G+C content 0.37366
Mean single sequence MFE -27.46
Consensus MFE -22.52
Energy contribution -22.20
Covariance contribution -0.32
Combinations/Pair 1.19
Mean z-score -3.24
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.61
SVM RNA-class probability 0.993316
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 9022170 111 - 27905053
AACUCAUACACAGUGCAAAUAUAUACCAUCAACAACCACAGAAGCUUAUUUCGCUUCUUUUUAAAUGACAUGUCAAAUAUUUGCAUGUCAUUUUUAAUCGGAACCUGUGCG
........(((((..........................((((((.......))))))((..((((((((((.(((....)))))))))))))..)).......))))).. ( -24.30, z-score =  -3.75, R)
>droEre2.scaffold_4770 5118855 110 + 17746568
AACUCAUACAUGGUGGGAAUAUAUACCAUCGAUAGCCACAGAAGCUUA-UUCGCUUCUUUUUAAAUGACACUUCAAGCACUUGCGUGUCAUUUUUAAUCGGAAUCUGUGCU
......((((.(((((.........)))))(((..((..((((((...-...))))))((..(((((((((..(((....))).)))))))))..))..)).))))))).. ( -27.70, z-score =  -2.69, R)
>droYak2.chr3R 13322280 111 - 28832112
AACUCAUGCAUAGUGCGAAUAUAUACCAUCGGCAACCACAGAAGCUUAUUUCGCUUCUUUUUAAAUGACACGCCAAAUAUUUGCGUGUCAUUUUUAAUCGGAACCUGUGCA
......((((((((((((..........)).))).((..((((((.......))))))((..(((((((((((.........)))))))))))..))..))...))))))) ( -31.80, z-score =  -4.15, R)
>droSec1.super_0 8138177 111 + 21120651
AACUCAUGCACAGUGCAAAUAUAUACCAUCGGCAACCACAGAAGCUUAUUUCGCUUCUUUUUAAAUGACAUGUCAAAUAUUUGCGUGUCAUUUUUAAUCGGAACCUGUGCG
.......(((((((((..((.......))..))).((..((((((.......))))))((..((((((((((.(((....)))))))))))))..))..))...)))))). ( -31.30, z-score =  -4.33, R)
>droSim1.chr3R 15112237 111 + 27517382
AACUCAUAUACAGUGCAAAUAUAUACCAUCGGCAACCGCAGACGCUUAUUUCGCUUCUUUUUAAAUGACAUGUCAAAUAUUUGCGUGUCAUUUUUAAUCGGAACCUGUGCG
........((((((((..((.......))..))).(((.(((.((.......)).)))((..((((((((((.(((....)))))))))))))..)).)))...))))).. ( -22.20, z-score =  -1.25, R)
>consensus
AACUCAUACACAGUGCAAAUAUAUACCAUCGGCAACCACAGAAGCUUAUUUCGCUUCUUUUUAAAUGACAUGUCAAAUAUUUGCGUGUCAUUUUUAAUCGGAACCUGUGCG
........((((((((...............))).((..((((((.......))))))((..((((((((((.(((....)))))))))))))..))..))...))))).. (-22.52 = -22.20 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:11:13 2011