Locus 4253

Sequence ID	dm3.chr2R
Location	11,715,426 – 11,715,546
Length	120
Max. P	0.500000

overview

Window 7

Location	11,715,426 – 11,715,546
Length	120
Sequences	14
Columns	120
Reading direction	forward
Mean pairwise identity	82.31
Shannon entropy	0.40258
G+C content	0.57143
Mean single sequence MFE	-46.10
Consensus MFE	-21.38
Energy contribution	-21.43
Covariance contribution	0.05
Combinations/Pair	1.58
Mean z-score	-1.94
Structure conservation index	0.46
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.02
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>dm3.chr2R 11715426 120 + 21146708
AGAAUCCGGUUGAUGGAGCUGAUCGAGGGCACCGAACUGGGAUCGCAGACGCGCUGCUGCUGCAGCUGCUCGCGAAUUUCCCACGCGAACAUGCCGCUGUUCUCCUCCUUUAGCCGGAUG
...((((((((((.((((..((.(.((((((.((...(((((((((.((.(((((((....))))).))))))))...)))))..))....)))).))).))..)))).)))))))))). ( -55.20, z-score =  -3.84, R)
>droSim1.chr2R 10455189 120 + 19596830
AGAAUCCGGUUGAUGGAGCUGAUCGAGGGCACCGAACUGGGAUCGCAGACGCGCUGCUGCUGCAGCUGCUCGCGAAUCUCCCACGCGAACAUGCCGCUGUUCUCCUCCUUUAGCCGGAUG
...((((((((((.((((..((.(.((((((.((...(((((((((.((.(((((((....))))).))))))))...)))))..))....)))).))).))..)))).)))))))))). ( -55.20, z-score =  -3.65, R)
>droSec1.super_1 9209615 120 + 14215200
AGAAUCCGGUUGAUGGAGCUGAUCGAGGGCACCGAACUGGGAUCGCAGACGCGCUGCUGCUGCAGCUGCUCGCGAAUCUCCCAUGCGAACAUGCCGCUGUUCUCCUCCUUUAGCCGGAUG
...((((((((((.((((..((.(.((((((.((...(((((((((.((.(((((((....))))).))))))))...)))))..))....)))).))).))..)))).)))))))))). ( -55.20, z-score =  -3.73, R)
>droYak2.chr2R 3869216 120 - 21139217
AGAAUCCGGUUGAUGGAGCUGAUCGAGGGCACCGAGCUGGGAUCGCAGACGCGCUGCUGCUGCAGCUGCUCGCGAAUCUCCCACGCGAACAUGCCGCUGUUCUCCUCCUUCAGCCGGAUG
...((((((((((.((((..((.(.((((((....(((((((((((.((.(((((((....))))).))))))))...))))).)).....)))).))).))..)))).)))))))))). ( -60.10, z-score =  -3.97, R)
>droEre2.scaffold_4845 8444947 120 - 22589142
AGAAUCCGGUUGAUGGAGCUGAUCGAGGGCACCGAGCUGGGAUCGCAGACGCGCUGCUGCUGCAGCUGCUCGCGAAUCUCCCACGCAAACAUGCCGCUGUUCUCCUCCUUCAGCCGGAUG
...((((((((((.((((..((.(.((((((....(((((((((((.((.(((((((....))))).))))))))...))))).)).....)))).))).))..)))).)))))))))). ( -59.00, z-score =  -4.01, R)
>droAna3.scaffold_13266 7405669 120 - 19884421
AGGAUUCGGUUAAUCGAGCUGAUCGAGGGCACUGAGCUCGGGUCGCAGACCCGCUGCUGCUGCAGCUGCUCCCGGAUCUCCCACGCGAACAUGCCGCUGUUCUCCUCCUUCAGUCGGAUG
.............((((.((((..((((((...((((..(((((...)))))(((((....))))).))))..((.....))..))(((((......))))).))))..))))))))... ( -44.80, z-score =  -0.29, R)
>dp4.chr3 309080 120 - 19779522
AGGAUGCGGUUGAUGGAGCUGAUGGACGGCACGGAGCUGGGAUCGCAGACGCGCUGCUGCUGCAGCUGCUCCCGGAUCUCCCACGCGAACAUGCCGCUGUUCUCCUCUUUCAACCGGAUG
...((.(((((((.((((..((.(((((((..((((((((((.(((....))(((((....))))).).))))))..))))...((......)).))))))))))))).))))))).)). ( -53.10, z-score =  -2.28, R)
>droPer1.super_37 288104 120 - 760358
AGGAUGCGGUUGAUGGAGCUGAUGGACGGCACGGAGCUGGGAUCGCAGACGCGCUGCUGCUGCAGCUGCUCCCGGAUCUCCCACGCGAACAUGCCGCUGUUCUCCUCCUUCAACCGGAUG
...((.(((((((.((((..((.(((((((..((((((((((.(((....))(((((....))))).).))))))..))))...((......)).))))))))))))).))))))).)). ( -54.90, z-score =  -2.62, R)
>droWil1.scaffold_180699 1739525 120 - 2593675
AAGAUGCGAUUGAUGGAACUGAUUGAAGGCACCGAGCUGGGAUCGCAGACACGUUGCUGUUGCAGCUGCUCACGUAUCUCCCAGGCAAACAUGCCGCUGUUCUCCUCCUUUAGGCGUAUA
...(((((.((((.(((...((.....((((....(((((((.((.((.((.(((((....)))))))))..))....))))).)).....)))).....))...))).)))).))))). ( -34.20, z-score =   0.65, R)
>droVir3.scaffold_12823 2270059 120 - 2474545
AAUAUACGAUUAAUAGAGCUGAUCGACGGAACUGAGCUAGGGUCACAGACACGCUGCUGCUGCAACUGCUCACGUAUUUCCCAAGCGAACAUGCCGCUGUUCUCUUCCUUUAAGCGUAUA
..((((((.((((..(((..((.((.(((......(((.(((......((..((....)).((....))....))....))).))).......))).)).))..)))..)))).)))))) ( -28.02, z-score =   0.32, R)
>droMoj3.scaffold_6496 26814669 120 - 26866924
AAUAUACGAUUAAUAGAGCUGAUCGACGGUACUGAGCUGGGAUCACAAACACGCUGCUGCUGCAGUUGUUCACGUAUUUCCCAAGCGAACAUGCCGCUGUUCUCUUCCUUUAAGCGUAUU
...(((((.((((..(((..((.((.(((((.((.(((((((..((.((((.(((((....)))))))))...))...)))).)))...))))))).)).))..)))..)))).))))). ( -35.90, z-score =  -2.20, R)
>droGri2.scaffold_15245 6450658 120 + 18325388
AGUAUACGAUUAAUCGAGCUGAUCGACGGCACCGAGCUGGGAUCACAGACACGCUGCUGCUGCAACUGCUCCCGUAUUUCCCAUGCAAACAUGCCACUGUUCUCCUCUUUUAGCCGUAUU
...(((((..(((..(((..((.((..((((....(((((((..((.((((.(.(((....))).))).))..))...))))).)).....))))..)).))..)))..)))..))))). ( -29.90, z-score =  -0.55, R)
>anoGam1.chr3R 34546101 120 - 53272125
AGUAUCCGAUUGACCGAGCUGACCGACGGUAUCGUGUUGGGGUCGCAUAUCCGCUGGGAAAGCAGCUGGUCCCGGAUCUCCCAGGCGAACAUGCCCGGGUUUUCCUGCUUGAAGCGCAGU
((.(((((...((((.(((((.(((.((((((.(((.......)))))).))).))).....))))))))).)))))))(((.(((......))).))).....((((.......)))). ( -42.10, z-score =   0.25, R)
>triCas2.ChLG7 15303404 120 + 17478683
AAUAUCCGAUUGACGGAGCUGACUGAGGGUAUGUUAUGUGGCUCACAAACGCGCUGAGCGAUGAGCUGCUCCCGGAUUUCCCAAGCGAACAUUCCGGGAUUUUCCUGUUUGAACCUGAGG
....((((.....)))).....((.(((.........(..(((((....(((.....))).)))))..)(((((((.(((......)))...)))))))..............))).)). ( -37.80, z-score =  -1.29, R)
>consensus
AGAAUCCGGUUGAUGGAGCUGAUCGAGGGCACCGAGCUGGGAUCGCAGACGCGCUGCUGCUGCAGCUGCUCCCGAAUCUCCCACGCGAACAUGCCGCUGUUCUCCUCCUUUAGCCGGAUG
...(((((.((((..(((((((((...(((.....)))..))))).......(((((....))))).))))...............(((((......))))).......)))).))))). (-21.38 = -21.43 +   0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:25:36 2011