Locus 3683

Sequence ID dm3.chr2R
Location 7,066,893 – 7,066,954
Length 61
Max. P 0.998530
window5047 window5048

overview

Window 7

Location 7,066,893 – 7,066,954
Length 61
Sequences 7
Columns 70
Reading direction forward
Mean pairwise identity 72.06
Shannon entropy 0.53012
G+C content 0.51217
Mean single sequence MFE -22.97
Consensus MFE -16.32
Energy contribution -15.90
Covariance contribution -0.42
Combinations/Pair 1.33
Mean z-score -2.42
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.39
SVM RNA-class probability 0.998530
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2R 7066893 61 + 21146708
GUUGUUGCUGUGGCUGAAAGCAGUUCACUAGCAACAACAAGGGCCACAGCAACAGUGAGUG---------
.((((((((((((((....((((....)).))..(.....)))))))))))))))......--------- ( -24.60, z-score =  -2.46, R)
>droSim1.chr2R 5611433 61 + 19596830
GUUGUUGCUGGGGCUGAGAGCAGUUUCCUAGCAACAACAAGGACCACAGCAACAGUGAGUG---------
((((((((((((((((....))))..))))))))))))....(((((.......))).)).--------- ( -25.30, z-score =  -3.05, R)
>droSec1.super_1 4636475 61 + 14215200
GUUGUUGCUGUGGCUGAAAGCAGUUCCUUAGCAACAACAAGGACCACAGCAACAGUGAGUG---------
.(((((((((((((((....))).(((((.(......))))))))))))))))))......--------- ( -23.30, z-score =  -2.49, R)
>droYak2.chr2R 19062074 61 - 21139217
GUUGUUGCUGUGGCUGAAAGCAGUUCAGCAGCAACAACAAGGGCCACAGCAACAGUGAGUG---------
(((((((((((.((((....))))...)))))))))))....(((((.......))).)).--------- ( -24.10, z-score =  -2.11, R)
>droEre2.scaffold_4845 3860349 61 - 22589142
GUUGUUGCUGCGGCUGAAAGCAGUUCAGCAGCAACAACAAGGGCCACAGCAACAGUAAGUG---------
(((((((((((.((((....))))...)))))))))))....((....))...........--------- ( -23.70, z-score =  -2.58, R)
>droPer1.super_34 268953 70 - 916997
GUUGUUGCCGGGGCAGAAAACUGUUCAACAGCGCCAACAAAGCAGGCAGAGGCAGAGGCAACGACGAGUG
(((((((((.((((((....))))))......(((.........))).........)))))))))..... ( -25.50, z-score =  -2.57, R)
>droWil1.scaffold_180697 3439711 50 + 4168966
-UUGUUGCUGGGGCAGAAAGUUGUUCAACAACAGCAACAACAU-GACGUUCA------------------
-(((((((((..(..(((.....)))..)..)))))))))...-........------------------ ( -14.30, z-score =  -1.67, R)
>consensus
GUUGUUGCUGGGGCUGAAAGCAGUUCAACAGCAACAACAAGGGCCACAGCAACAGUGAGUG_________
((((((((((.(((((....)))))...))))))))))................................ (-16.32 = -15.90 +  -0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 7,066,893 – 7,066,954
Length 61
Sequences 7
Columns 70
Reading direction reverse
Mean pairwise identity 72.06
Shannon entropy 0.53012
G+C content 0.51217
Mean single sequence MFE -21.30
Consensus MFE -8.69
Energy contribution -10.80
Covariance contribution 2.11
Combinations/Pair 1.25
Mean z-score -2.60
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.06
SVM RNA-class probability 0.980965
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2R 7066893 61 - 21146708
---------CACUCACUGUUGCUGUGGCCCUUGUUGUUGCUAGUGAACUGCUUUCAGCCACAGCAACAAC
---------.......((((((((((((...((.....((.((....))))...)))))))))))))).. ( -24.40, z-score =  -3.15, R)
>droSim1.chr2R 5611433 61 - 19596830
---------CACUCACUGUUGCUGUGGUCCUUGUUGUUGCUAGGAAACUGCUCUCAGCCCCAGCAACAAC
---------.......((((((((.((.....((((..((.((....))))...)))))))))))))).. ( -22.00, z-score =  -2.80, R)
>droSec1.super_1 4636475 61 - 14215200
---------CACUCACUGUUGCUGUGGUCCUUGUUGUUGCUAAGGAACUGCUUUCAGCCACAGCAACAAC
---------.......((((((((((((((((((....)).))))).(((....)))))))))))))).. ( -24.30, z-score =  -3.31, R)
>droYak2.chr2R 19062074 61 + 21139217
---------CACUCACUGUUGCUGUGGCCCUUGUUGUUGCUGCUGAACUGCUUUCAGCCACAGCAACAAC
---------.......((((((((((((....((.(((.(....)))).)).....)))))))))))).. ( -23.60, z-score =  -2.93, R)
>droEre2.scaffold_4845 3860349 61 + 22589142
---------CACUUACUGUUGCUGUGGCCCUUGUUGUUGCUGCUGAACUGCUUUCAGCCGCAGCAACAAC
---------.......((((((((((((....((.(((.(....)))).)).....)))))))))))).. ( -23.20, z-score =  -2.98, R)
>droPer1.super_34 268953 70 + 916997
CACUCGUCGUUGCCUCUGCCUCUGCCUGCUUUGUUGGCGCUGUUGAACAGUUUUCUGCCCCGGCAACAAC
........((((((...((....(((.((...)).)))((((.....)))).....))...))))))... ( -18.50, z-score =  -1.12, R)
>droWil1.scaffold_180697 3439711 50 - 4168966
------------------UGAACGUC-AUGUUGUUGCUGUUGUUGAACAACUUUCUGCCCCAGCAACAA-
------------------........-...(((((((((..((.(((.....))).))..)))))))))- ( -13.10, z-score =  -1.90, R)
>consensus
_________CACUCACUGUUGCUGUGGCCCUUGUUGUUGCUGCUGAACUGCUUUCAGCCACAGCAACAAC
................((((((((.(((....((.(((.......))).)).....))).)))))))).. ( -8.69 = -10.80 +   2.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:14:44 2011