Locus 5335

Sequence ID dm3.chr2R
Location 19,599,582 – 19,599,694
Length 112
Max. P 0.988369
window7315 window7316

overview

Window 5

Location 19,599,582 – 19,599,694
Length 112
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 83.89
Shannon entropy 0.29052
G+C content 0.49727
Mean single sequence MFE -30.52
Consensus MFE -22.42
Energy contribution -22.68
Covariance contribution 0.26
Combinations/Pair 1.26
Mean z-score -2.17
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.39
SVM RNA-class probability 0.934492
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19599582 112 + 21146708
UGUUAUCACUAUCAGCCCGCUGCUGCUGUGGCUCCCAUUGCUGAUAAGCGACU------UCCCCCACUCCGCCGCUGUAAUGCAAAUCAACAGCAUUCGGCCUAUGAUAGUGAUAGUG
..(((((((((((((((...(((((..((((......(((((....)))))..------....))))......((......)).......)))))...)))...)))))))))))).. ( -36.70, z-score =  -3.49, R)
>droSim1.chr2R 18165667 111 + 19596830
UGUUAUCACUAUCAGCCCGCUGCUGCUGUGGCUCCCAUUGCUGAUAAGCGACU------CCCCCCACUCCGCCGCUGUAAUGCAAAUCAACAGCAUUCGGCCUAUGAUAGUGAUAGU-
..(((((((((((((((...(((((..((((......(((((....)))))..------....))))......((......)).......)))))...)))...)))))))))))).- ( -36.70, z-score =  -3.61, R)
>droSec1.super_9 2878575 111 + 3197100
UGUUAUCACUAUCAGCCCGCUGCUGCUGUGGCUCUCAUUGCUGAUAAGCGACU------CCCCCCACUCCGCCGCUGUAAUGCAAAUCAACAGCAUUCGGCCUAUGAUAGUGAUAGU-
..(((((((((((((((...(((((..((((......(((((....)))))..------....))))......((......)).......)))))...)))...)))))))))))).- ( -36.70, z-score =  -3.41, R)
>droYak2.chr2R 19576780 105 + 21139217
UGUUAUCACUAUCAGCCCGCUGCUGCUGUGGCUCCCAGUGCUGAUAAGCGAUU------CCCCCCACUCCGCCGCUGUAAUGCAAAUCAACAGCAUUCGGCCUAUGAUAGU-------
.......(((((((....((((.(((((((((.......(((....)))(...------.....).....)))((......))......))))))..))))...)))))))------- ( -28.60, z-score =  -1.40, R)
>droEre2.scaffold_4845 20961435 104 + 22589142
UGUUAUCAUUAUCAGCCCGCUGCUGCUGUGGCUCCCAUUGCCGAUAAGCGAUU-------CCCCCACUUCGCCGCUGUAAUGCAAAUCAACAGCAUUCGGCCUAUGAUAGU-------
.......(((((((....((((.(((((((((.......)))(((..((((..-------........)))).((......))..))).))))))..))))...)))))))------- ( -29.80, z-score =  -2.09, R)
>droAna3.scaffold_13266 8237740 106 + 19884421
UGUUAUCA-----GACUCGUUGCUGCUGUUGCUCCCAUUACUGAUAAGAGCCUAUUUUUUUUUUUUCUGCUUCACUUUAAUGCAAAUCUCCGGCAUUCGGCCUAUAAUAGU-------
((((((.(-----(.(.((.(((((...((((.........(((..((((..............))))...))).......)))).....)))))..))).))))))))..------- ( -14.63, z-score =   1.01, R)
>consensus
UGUUAUCACUAUCAGCCCGCUGCUGCUGUGGCUCCCAUUGCUGAUAAGCGACU______CCCCCCACUCCGCCGCUGUAAUGCAAAUCAACAGCAUUCGGCCUAUGAUAGU_______
.......(((((((....((((.((((((......((((((.(....(((...................)))..).)))))).......))))))..))))...)))))))....... (-22.42 = -22.68 +   0.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 19,599,582 – 19,599,694
Length 112
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 83.89
Shannon entropy 0.29052
G+C content 0.49727
Mean single sequence MFE -38.25
Consensus MFE -28.04
Energy contribution -28.55
Covariance contribution 0.51
Combinations/Pair 1.28
Mean z-score -2.76
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.32
SVM RNA-class probability 0.988369
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19599582 112 - 21146708
CACUAUCACUAUCAUAGGCCGAAUGCUGUUGAUUUGCAUUACAGCGGCGGAGUGGGGGA------AGUCGCUUAUCAGCAAUGGGAGCCACAGCAGCAGCGGGCUGAUAGUGAUAACA
...(((((((((((..(.(((..((((((((....((......))(((.((((((....------..)))))).(((....)))..))).)))))))).))).))))))))))))... ( -45.10, z-score =  -3.99, R)
>droSim1.chr2R 18165667 111 - 19596830
-ACUAUCACUAUCAUAGGCCGAAUGCUGUUGAUUUGCAUUACAGCGGCGGAGUGGGGGG------AGUCGCUUAUCAGCAAUGGGAGCCACAGCAGCAGCGGGCUGAUAGUGAUAACA
-..(((((((((((..(.(((..((((((((....((......))(((.((((((....------..)))))).(((....)))..))).)))))))).))).))))))))))))... ( -45.10, z-score =  -3.90, R)
>droSec1.super_9 2878575 111 - 3197100
-ACUAUCACUAUCAUAGGCCGAAUGCUGUUGAUUUGCAUUACAGCGGCGGAGUGGGGGG------AGUCGCUUAUCAGCAAUGAGAGCCACAGCAGCAGCGGGCUGAUAGUGAUAACA
-..(((((((((((..(.(((..((((((((....((......))(((.((((((....------..)))))).(((....)))..))).)))))))).))).))))))))))))... ( -46.00, z-score =  -4.27, R)
>droYak2.chr2R 19576780 105 - 21139217
-------ACUAUCAUAGGCCGAAUGCUGUUGAUUUGCAUUACAGCGGCGGAGUGGGGGG------AAUCGCUUAUCAGCACUGGGAGCCACAGCAGCAGCGGGCUGAUAGUGAUAACA
-------(((((((..(.(((..((((((((....((......))(((.((((((....------..)))))).(((....)))..))).)))))))).))).))))))))....... ( -37.20, z-score =  -1.97, R)
>droEre2.scaffold_4845 20961435 104 - 22589142
-------ACUAUCAUAGGCCGAAUGCUGUUGAUUUGCAUUACAGCGGCGAAGUGGGGG-------AAUCGCUUAUCGGCAAUGGGAGCCACAGCAGCAGCGGGCUGAUAAUGAUAACA
-------..((((((..(((((.((((((((..........))))))))((((((...-------..)))))).)))))..((..((((...((....)).))))..))))))))... ( -34.80, z-score =  -1.78, R)
>droAna3.scaffold_13266 8237740 106 - 19884421
-------ACUAUUAUAGGCCGAAUGCCGGAGAUUUGCAUUAAAGUGAAGCAGAAAAAAAAAAAAUAGGCUCUUAUCAGUAAUGGGAGCAACAGCAGCAACGAGUC-----UGAUAACA
-------.......(((((((..(((.(....(((((.((.....)).)))))..............((((((((.....))))))))..).)))....)).)))-----))...... ( -21.30, z-score =  -0.64, R)
>consensus
_______ACUAUCAUAGGCCGAAUGCUGUUGAUUUGCAUUACAGCGGCGGAGUGGGGGG______AGUCGCUUAUCAGCAAUGGGAGCCACAGCAGCAGCGGGCUGAUAGUGAUAACA
.........((((((.((((...((((((((....((......))(((.((((((............)))))).(((....)))..))).))))))))...))))....))))))... (-28.04 = -28.55 +   0.51)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:46:17 2011