Locus 11744

Sequence ID	dm3.chr3R
Location	23,468,915 – 23,469,065
Length	150
Max. P	0.999310

overview

Window 9

Location	23,468,915 – 23,469,065
Length	150
Sequences	5
Columns	165
Reading direction	forward
Mean pairwise identity	71.63
Shannon entropy	0.51567
G+C content	0.36552
Mean single sequence MFE	-38.91
Consensus MFE	-21.16
Energy contribution	-22.80
Covariance contribution	1.64
Combinations/Pair	1.27
Mean z-score	-3.21
Structure conservation index	0.54
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	3.78
SVM RNA-class probability	0.999310
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23468915 150 + 27905053
CAAUGGUAGCUACGGAACUUCAAGAGGUUUGCAAUCACUUCAACAAAUGUCUAAAGGUAUGCAGC---------------UACUUUCUAUUUUUCAAAGCAUACUUUUAGACACUUCAUAGAUGGUUUCAAAUCUCUAAAGAUUUCGGUGGCUCUAUCUGAUAAA
((((((.((((((.(((..((.(((((((((.(((((((........(((((((((((((((...---------------..................)))))))))))))))......)).))))).)))))))))...)).))).)))))))))).))..... ( -47.84, z-score =  -6.40, R)
>droSim1.chr3R_random 1115497 153 + 1307089
CAAAGGUAGCUAACCAACUUCAAGAGGUUUGCAAUCACUUCAAAAAAUGUCUAGAAGUAUGCAGCGAACUAGCA----GCUACUUUCUAUUUUCCAAAGCAUACUUUUAGACACUUCAUAGAUGGUUUCAAAUCUCUAAAGAUUUCGGU--------CUGAUAAA
....(((.....))).......(((((((((.(((((((........(((((((((((((((.((......))(----(.......))..........)))))))))))))))......)).))))).)))))))))..((((....))--------))...... ( -40.04, z-score =  -3.60, R)
>droSec1.super_22 112308 161 + 1066717
CAAAGGUAGCUAACCAACUUCAAGAGGUUUGCAAUCACUUCAAAAAAUGUCUAAAAGUAAGCAGCGAACUAGCA----GCUACUUUCUAUUUUCCAAAGCAUACUUUUAGACACUUUAUAGAUGGUUUCAAGUCUCCAAAGAUUUCGGUGGCUCUCCCUGAUAAA
...(((.(((((.((....((..(((..(((.(((((((....(((.(((((((((((((((.((......)).----))).((((.........))))..)))))))))))).)))..)).))))).)))..)))....))....)))))))...)))...... ( -39.20, z-score =  -2.38, R)
>droYak2.chr3R 9427279 153 + 28832112
----CAAAAUAAUUGAAUUCUAUAAUAUAUGUA-UAACGCCCAAAAAUGUC-AUGACUCUGCCUUGAAAUCACAUUUAACUGUCUUCUGUCUUUCAUAGCAUACAAUUCGACGCUUUUAAGGUGGUUUCAAAACUCUACAAAUUUCGAAAGCACCCCCU------
----........(((((((.(((....((((((-(...........))).)-))).....((..(((((..(((.............))).)))))..))))).))))))).........((((.((((.................)))).))))....------ ( -17.65, z-score =   0.51, R)
>droEre2.scaffold_4820 5901613 159 - 10470090
CAA-GGUAGCUACGCUACUACAAGGGGUUUGCAAUCACUUGCA-ACAUGUCUGAAAGUAUGCAGCGAAUUACAA----GCUACUUUCUAUUUUUCAUAGCAUACUUUUGGACACUUCGCAGAUGCUUUCAAAUCUCUGUAGAUUUCGGUGGCUCUCCCUGAUAAA
((.-((.((((((....(((((.((((((((.((.((.((((.-...((((..((((((((((((.........----)))......(((.....))))))))))))..))))....)))).)).)).)))))))))))))......))))))..)).))..... ( -49.80, z-score =  -4.17, R)
>consensus
CAA_GGUAGCUAACCAACUUCAAGAGGUUUGCAAUCACUUCAAAAAAUGUCUAAAAGUAUGCAGCGAACUAGCA____GCUACUUUCUAUUUUUCAAAGCAUACUUUUAGACACUUCAUAGAUGGUUUCAAAUCUCUAAAGAUUUCGGUGGCUCUCCCUGAUAAA
.................(((...((((((((.(((((((........(((((((((((((((....................................)))))))))))))))......)).))))).))))))))..)))........................ (-21.16 = -22.80 +   1.64)

alignment

secondary structure

dotplot

Window 0

Location	23,468,915 – 23,469,065
Length	150
Sequences	5
Columns	165
Reading direction	reverse
Mean pairwise identity	71.63
Shannon entropy	0.51567
G+C content	0.36552
Mean single sequence MFE	-40.20
Consensus MFE	-21.84
Energy contribution	-24.88
Covariance contribution	3.04
Combinations/Pair	1.26
Mean z-score	-2.43
Structure conservation index	0.54
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.67
SVM RNA-class probability	0.994076
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23468915 150 - 27905053
UUUAUCAGAUAGAGCCACCGAAAUCUUUAGAGAUUUGAAACCAUCUAUGAAGUGUCUAAAAGUAUGCUUUGAAAAAUAGAAAGUA---------------GCUGCAUACCUUUAGACAUUUGUUGAAGUGAUUGCAAACCUCUUGAAGUUCCGUAGCUACCAUUG
............(((.((.(((..((((((((.((((....(((.....(((((((((((.((((((..................---------------...)))))).)))))))))))......)))....)))).))).)))))))).)).)))....... ( -34.00, z-score =  -2.54, R)
>droSim1.chr3R_random 1115497 153 - 1307089
UUUAUCAG--------ACCGAAAUCUUUAGAGAUUUGAAACCAUCUAUGAAGUGUCUAAAAGUAUGCUUUGGAAAAUAGAAAGUAGC----UGCUAGUUCGCUGCAUACUUCUAGACAUUUUUUGAAGUGAUUGCAAACCUCUUGAAGUUGGUUAGCUACCUUUG
.......(--------(((((..((...((((.((((....((..(..((((((((((.((((((((..((((...(((........----..))).))))..)))))))).))))))))))...)..))....)))).)))).))..))))))........... ( -42.40, z-score =  -3.11, R)
>droSec1.super_22 112308 161 - 1066717
UUUAUCAGGGAGAGCCACCGAAAUCUUUGGAGACUUGAAACCAUCUAUAAAGUGUCUAAAAGUAUGCUUUGGAAAAUAGAAAGUAGC----UGCUAGUUCGCUGCUUACUUUUAGACAUUUUUUGAAGUGAUUGCAAACCUCUUGAAGUUGGUUAGCUACCUUUG
.....(((((..(((.(((((..((...((((..(((....((..(..((((((((((((((((.((..((((...(((........----..))).))))..)).))))))))))))))))...)..))....)))..)))).))..)))))..)))..))))) ( -44.70, z-score =  -2.30, R)
>droYak2.chr3R 9427279 153 - 28832112
------AGGGGGUGCUUUCGAAAUUUGUAGAGUUUUGAAACCACCUUAAAAGCGUCGAAUUGUAUGCUAUGAAAGACAGAAGACAGUUAAAUGUGAUUUCAAGGCAGAGUCAU-GACAUUUUUGGGCGUUA-UACAUAUAUUAUAGAAUUCAAUUAUUUUG----
------..((((((.(((((((((((...))))))))))).))))))...((((((.((.(((.((((.(((((.(((.............)))..))))).)))).......-.)))...)).)))))).-...........((((((......))))))---- ( -33.02, z-score =  -0.89, R)
>droEre2.scaffold_4820 5901613 159 + 10470090
UUUAUCAGGGAGAGCCACCGAAAUCUACAGAGAUUUGAAAGCAUCUGCGAAGUGUCCAAAAGUAUGCUAUGAAAAAUAGAAAGUAGC----UUGUAAUUCGCUGCAUACUUUCAGACAUGU-UGCAAGUGAUUGCAAACCCCUUGUAGUAGCGUAGCUACC-UUG
.....(((((..(((...((....((((((.(.((((....((..(((((.(((((..(((((((((..((((..((((........----))))..))))..)))))))))..))))).)-))))..))....))))..).))))))...))..))).))-))) ( -46.90, z-score =  -3.30, R)
>consensus
UUUAUCAGGGAGAGCCACCGAAAUCUUUAGAGAUUUGAAACCAUCUAUGAAGUGUCUAAAAGUAUGCUUUGAAAAAUAGAAAGUAGC____UGCUAGUUCGCUGCAUACUUUUAGACAUUUUUUGAAGUGAUUGCAAACCUCUUGAAGUUGCGUAGCUACC_UUG
........................((((((((.((((....(((....(((((((((((((((((((..((((........................))))..))))))))))))))))))).....)))....)))).))).)))))................. (-21.84 = -24.88 +   3.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:48:48 2011