Locus 3790

Sequence ID dm3.chr2R
Location 7,946,675 – 7,946,785
Length 110
Max. P 0.871937
window5191 window5192

overview

Window 1

Location 7,946,675 – 7,946,785
Length 110
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 81.03
Shannon entropy 0.36579
G+C content 0.45644
Mean single sequence MFE -27.15
Consensus MFE -16.42
Energy contribution -16.43
Covariance contribution 0.02
Combinations/Pair 1.31
Mean z-score -2.05
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.00
SVM RNA-class probability 0.871937
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 7946675 110 + 21146708
CCAAAUUAAUGCGGCUUUCGUUACCUCGCCCCGAAAUCGGUUUUCCGCAUUCGGGGUACUCGAAUUCGAGUGCCAUAAUUGCUAGCAUCCUCCGUAAUUUGCAUAUCCUG
........(((((((............((((((((..(((....)))..))))))))(((((....))))))))..((((((...........)))))).))))...... ( -34.20, z-score =  -3.64, R)
>droAna3.scaffold_13266 17204119 87 - 19884421
CGAAAUUACUGUGGCC----------AGUCCUGAAAUCGAAUUUC----UUCGAA----UGGGUUUCGGA-----UAAUUGCUUACAUUGUCGGUAAUUUGCAUUUCCUG
..(((((((((.(((.----------.((((.((((((..((((.----...)))----).)))))))))-----)....)))........))))))))).......... ( -17.50, z-score =  -0.29, R)
>droEre2.scaffold_4845 4739071 110 - 22589142
CCAAAUUGAUGCGGCUUUCGUUACCUAGCCCCGAAAUCAGUUCUCCGCAUUGGAGGGACUCGAAUUCGAAUGCCAUAAUUGCUAGCAUCCUGCGUAAUUUGCAUUUCCUG
.......(((((((((..........)))).((((.((((((((((.....))).))))).)).))))................))))).((((.....))))....... ( -26.60, z-score =  -0.68, R)
>droYak2.chr2R 12133313 110 - 21139217
CCAAAUUGAUGCGGCUUUCGUUACCUAGCCCCCAAAUCGGUUUUCCGCAUUCGAGGGACUCAAAUUCGAAUGCCGUAAUUGCGAGCAUCCUGCGAAAUUUGCAUUUCCUG
.((((((..((((((.((((......(((((.(.((((((....))).))).).))).))......)))).)))))).(((((.......)))))))))))......... ( -29.40, z-score =  -1.41, R)
>droSec1.super_1 5496052 110 + 14215200
CCAAAUUAAUGCGGCUUUCGUUACCUAGCCCCGAAAUCGGUUUUCCGCAUUCGAGUUACUCGAAUUCGAGUGCCAUAAUUGCUAGCAUCCUCAGCAAUUUGCAUAUCCUG
........((((((((..........))))(((....)))......(((((((((((.....)))))))))))...(((((((((....)).))))))).))))...... ( -29.40, z-score =  -3.32, R)
>droSim1.chr2R 6483756 110 + 19596830
CCAAAUUAAUGCGGCUUUCGUUACCUAGCCCCCAAAUCGGUUUUCCGCAUUCGAGUUACUCGAAUUCGAGUGCCAUAAUUGCUAGCAUCCUCAGUAAUUUGCAUAUCCUG
.(((((((.((.((..........(((((.........((....))(((((((((((.....))))))))))).......)))))...)).)).)))))))......... ( -25.82, z-score =  -2.94, R)
>consensus
CCAAAUUAAUGCGGCUUUCGUUACCUAGCCCCGAAAUCGGUUUUCCGCAUUCGAGGUACUCGAAUUCGAAUGCCAUAAUUGCUAGCAUCCUCCGUAAUUUGCAUAUCCUG
.(((((((((((((((..........)))).......(((((....(((((((((.........)))))))))...)))))...))))......)))))))......... (-16.42 = -16.43 +   0.02)

alignment

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secondary structure

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dotplot

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Window 2

Location 7,946,675 – 7,946,785
Length 110
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 81.03
Shannon entropy 0.36579
G+C content 0.45644
Mean single sequence MFE -31.05
Consensus MFE -13.82
Energy contribution -13.98
Covariance contribution 0.16
Combinations/Pair 1.38
Mean z-score -2.26
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.22
SVM RNA-class probability 0.597259
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 7946675 110 - 21146708
CAGGAUAUGCAAAUUACGGAGGAUGCUAGCAAUUAUGGCACUCGAAUUCGAGUACCCCGAAUGCGGAAAACCGAUUUCGGGGCGAGGUAACGAAAGCCGCAUUAAUUUGG
.........((((((.(((.((..((((.......))))(((((....))))).)))))(((((((....(((....)))..........(....)))))))))))))). ( -34.80, z-score =  -2.57, R)
>droAna3.scaffold_13266 17204119 87 + 19884421
CAGGAAAUGCAAAUUACCGACAAUGUAAGCAAUUA-----UCCGAAACCCA----UUCGAA----GAAAUUCGAUUUCAGGACU----------GGCCACAGUAAUUUCG
..(((..(((...((((.......)))))))....-----)))((((((..----.(((((----....))))).....))(((----------(....))))..)))). ( -17.20, z-score =  -1.65, R)
>droEre2.scaffold_4845 4739071 110 + 22589142
CAGGAAAUGCAAAUUACGCAGGAUGCUAGCAAUUAUGGCAUUCGAAUUCGAGUCCCUCCAAUGCGGAGAACUGAUUUCGGGGCUAGGUAACGAAAGCCGCAUCAAUUUGG
((((...(((.......))).(((((.........((((.((((((.((.(((..((((.....)))).))))).))))))))))(((.......))))))))..)))). ( -30.20, z-score =  -0.87, R)
>droYak2.chr2R 12133313 110 + 21139217
CAGGAAAUGCAAAUUUCGCAGGAUGCUCGCAAUUACGGCAUUCGAAUUUGAGUCCCUCGAAUGCGGAAAACCGAUUUGGGGGCUAGGUAACGAAAGCCGCAUCAAUUUGG
...(((((....)))))....(((((..(......)(((.((((......((((((.(((((.(((....))))))))))))))......)))).))))))))....... ( -35.80, z-score =  -2.12, R)
>droSec1.super_1 5496052 110 - 14215200
CAGGAUAUGCAAAUUGCUGAGGAUGCUAGCAAUUAUGGCACUCGAAUUCGAGUAACUCGAAUGCGGAAAACCGAUUUCGGGGCUAGGUAACGAAAGCCGCAUUAAUUUGG
((((..((((.((((((((.......)))))))).(((((((((....)))))..((((((..(((....)))..))))))))))(((.......)))))))...)))). ( -35.10, z-score =  -3.14, R)
>droSim1.chr2R 6483756 110 - 19596830
CAGGAUAUGCAAAUUACUGAGGAUGCUAGCAAUUAUGGCACUCGAAUUCGAGUAACUCGAAUGCGGAAAACCGAUUUGGGGGCUAGGUAACGAAAGCCGCAUUAAUUUGG
.........(((((((.((.((...(((((.........(((((....)))))..(((((((.(((....)))))))))).)))))....(....))).)).))))))). ( -33.20, z-score =  -3.23, R)
>consensus
CAGGAAAUGCAAAUUACGGAGGAUGCUAGCAAUUAUGGCACUCGAAUUCGAGUACCUCGAAUGCGGAAAACCGAUUUCGGGGCUAGGUAACGAAAGCCGCAUUAAUUUGG
.........((((((......(((((.............(((((....)))))..((.((((.(((....))))))).))((((..........))))))))))))))). (-13.82 = -13.98 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:16:46 2011