Locus 6565

Sequence ID dm3.chr3L
Location 7,810,966 – 7,811,074
Length 108
Max. P 0.999859
window9035 window9036

overview

Window 5

Location 7,810,966 – 7,811,074
Length 108
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 77.19
Shannon entropy 0.39940
G+C content 0.32080
Mean single sequence MFE -27.58
Consensus MFE -15.49
Energy contribution -16.25
Covariance contribution 0.76
Combinations/Pair 1.05
Mean z-score -3.76
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.68
SVM RNA-class probability 0.999162
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 7810966 108 + 24543557
UUAGGCUGUUUUCACUAAGUGCAUAAGUUUU-UGACU---GAAUUCGU-----CAAUAGGA-CAAUUCACACAUCUAUUAAACGGAUUUCUAAUGAACUAGUGAAAUCAGCCUUGUCG
..((((((.((((((((.((.(((.((....-....(---(((((.((-----(.....))-)))))))...((((.......))))..)).))).)))))))))).))))))..... ( -28.90, z-score =  -3.44, R)
>droSim1.chr3L 7298334 113 + 22553184
UUAGGCUGUUUCCACUAAGUGCAUUAGUUUU-UGACU---CAAAAAGUGAAUUCAAUAGUA-UAAUUCACAUAACUAUUAAAAUACUUUCUAAUGCGCUAGUGAAAUCAGCCUUGUCG
..((((((((((.((((.(((((((((((((-((...---))))))(((((((........-.)))))))...................))))))))))))))))).))))))..... ( -34.10, z-score =  -5.92, R)
>droSec1.super_0 117434 113 + 21120651
UUAGGCUGUUUCCACUAAGUGCAUUAGUUUU-UGACU---CAAAAAGUGAAUUCAAUAGUA-UAAUUCACAUAACUAUUAAAAUACUUUCUAAUGAGCUAGUGAAAUCAGCCUUGUCG
..((((((((((.((((.((.((((((((((-((...---))))))(((((((........-.)))))))...................)))))).)))))))))).))))))..... ( -28.20, z-score =  -3.71, R)
>droYak2.chr3L 8407460 107 + 24197627
UUAGGCUGUUUCCACUAAGUGCAUUAGUU-----------AAAUGUGAUAAAUUUAUAUCCGCAAUUUACAUAUCGUUUUAAAUGCUUUCUAAUAAACUAGUGAAAUCAGCCUUUUCG
..((((((((((.((((.((..(((((..-----------..((((((.....))))))..(((.((.((.....))...)).)))...)))))..)))))))))).))))))..... ( -22.40, z-score =  -2.99, R)
>droEre2.scaffold_4784 22221798 117 - 25762168
UUAGGCUGUUUCCACUAACUGCAUUAUUUUAACGACUCAGAAAUGGGAUACAUCUAUAUCAGCAAUUUACAUAUCAUUUAAUAUGCUUUCUAAUAAGCUAGUGAAAUCAGCCUUUCG-
..((((((((((.((((..(((..(((........((((....))))........)))...)))....................((((......)))))))))))).))))))....- ( -24.29, z-score =  -2.73, R)
>consensus
UUAGGCUGUUUCCACUAAGUGCAUUAGUUUU_UGACU___AAAUAAGUGAAAUCAAUAGCA_CAAUUCACAUAUCUAUUAAAAUGCUUUCUAAUGAGCUAGUGAAAUCAGCCUUGUCG
..(((((((((.(((((.((.((((((..............................................................)))))).)))))))))).))))))..... (-15.49 = -16.25 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 7,810,966 – 7,811,074
Length 108
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 77.19
Shannon entropy 0.39940
G+C content 0.32080
Mean single sequence MFE -33.28
Consensus MFE -19.83
Energy contribution -19.83
Covariance contribution 0.00
Combinations/Pair 1.10
Mean z-score -5.01
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.60
SVM RNA-class probability 0.999859
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 7810966 108 - 24543557
CGACAAGGCUGAUUUCACUAGUUCAUUAGAAAUCCGUUUAAUAGAUGUGUGAAUUG-UCCUAUUG-----ACGAAUUC---AGUCA-AAAACUUAUGCACUUAGUGAAAACAGCCUAA
.....((((((.((((((((((.(((.((.....((((.....))))..(((((((-((.....)-----)).)))))---)....-....)).))).)).)))))))).)))))).. ( -30.20, z-score =  -3.97, R)
>droSim1.chr3L 7298334 113 - 22553184
CGACAAGGCUGAUUUCACUAGCGCAUUAGAAAGUAUUUUAAUAGUUAUGUGAAUUA-UACUAUUGAAUUCACUUUUUG---AGUCA-AAAACUAAUGCACUUAGUGGAAACAGCCUAA
.....((((((.(((((((((.((((((((((((..(((((((((.(((.....))-))))))))))...)))))(((---...))-)...))))))).).)))))))).)))))).. ( -37.20, z-score =  -6.05, R)
>droSec1.super_0 117434 113 - 21120651
CGACAAGGCUGAUUUCACUAGCUCAUUAGAAAGUAUUUUAAUAGUUAUGUGAAUUA-UACUAUUGAAUUCACUUUUUG---AGUCA-AAAACUAAUGCACUUAGUGGAAACAGCCUAA
.....((((((.(((((((((..(((((((((((..(((((((((.(((.....))-))))))))))...)))))(((---...))-)...))))))...))))))))).)))))).. ( -32.70, z-score =  -4.61, R)
>droYak2.chr3L 8407460 107 - 24197627
CGAAAAGGCUGAUUUCACUAGUUUAUUAGAAAGCAUUUAAAACGAUAUGUAAAUUGCGGAUAUAAAUUUAUCACAUUU-----------AACUAAUGCACUUAGUGGAAACAGCCUAA
.....((((((.((((((((((.((((((...(((((((..........)))).))).((((......))))......-----------..)))))).)).)))))))).)))))).. ( -29.80, z-score =  -5.23, R)
>droEre2.scaffold_4784 22221798 117 + 25762168
-CGAAAGGCUGAUUUCACUAGCUUAUUAGAAAGCAUAUUAAAUGAUAUGUAAAUUGCUGAUAUAGAUGUAUCCCAUUUCUGAGUCGUUAAAAUAAUGCAGUUAGUGGAAACAGCCUAA
-....((((((.(((((((((((..((((((((((((((....)))))))........(((((....)))))...)))))))(.(((((...))))))))))))))))).)))))).. ( -36.50, z-score =  -5.20, R)
>consensus
CGACAAGGCUGAUUUCACUAGCUCAUUAGAAAGCAUUUUAAUAGAUAUGUGAAUUG_UACUAUUGAAUUAACUCAUUG___AGUCA_AAAACUAAUGCACUUAGUGGAAACAGCCUAA
.....((((((.(((((((((..((((((..............................................................))))))...))))))))).)))))).. (-19.83 = -19.83 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:10:12 2011