Locus 2673

Sequence ID dm3.chr2L
Location 20,951,574 – 20,951,680
Length 106
Max. P 0.912273
window3665 window3666

overview

Window 5

Location 20,951,574 – 20,951,680
Length 106
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 82.90
Shannon entropy 0.30635
G+C content 0.58351
Mean single sequence MFE -41.57
Consensus MFE -35.33
Energy contribution -35.63
Covariance contribution 0.31
Combinations/Pair 1.18
Mean z-score -1.59
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.22
SVM RNA-class probability 0.912273
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 20951574 106 + 23011544
GGGGGUGGCUAGCUGGGAGUGGGUCAGAGUGGAGCGGCGCCUUUUCGCUUUGAUAAUGGCAAACGCUCGGGAGGUCUGUCAGUGGCUUCUUUGCACUCUGGCCCUC----------
...(((.....)))......((((((((((((((((..(((...((.....))....)))...)))))((((((((.......))))))))..)))))))))))..---------- ( -43.20, z-score =  -0.96, R)
>droAna3.scaffold_12943 1266422 104 - 5039921
GGGGGUGGGGUAUGGGGAAUGG--UGGACUGGUGCGGCGCCUUUUUGCUUUGAUAAUGGCAAAUGCUCCGGAGGUCUGUCAGUGGCUUCUUUGCACUCUCGCUCUC----------
(((((((((((.(..(((((((--..((((....(((.((...((((((........)))))).)).)))..))))..))).....))))..).)).)))))))))---------- ( -38.50, z-score =  -1.69, R)
>droEre2.scaffold_4845 19069858 89 - 22589142
--------------GGGAGUGGGUCAGAGUGGAGCG-CGCCUUU-CGCUUUGAUAAUGGCAAAUGCUCCGGAGGUCUGUCAGUGGCUUCUU-GCACUCUGGCCUUC----------
--------------......((((((((((((((((-.(((..(-(.....))....)))...))))))(((((((.......))))))).-..))))))))))..---------- ( -36.40, z-score =  -1.84, R)
>droYak2.chr2R 19337477 102 - 21139217
--------------AAGAGUGGGUCAGAGUGGAGCGGCGCCUUUUCGCUUUGAUGAUGGCAAAUGCUCCGGAGGUCUGUCAGUGGCUUCUUUGCACUCUGGCCCUCUCUUUGCCAC
--------------(((((.((((((((((((((((..(((...(((......))).)))...))))))(((((((.......)))))))....)))))))))).)))))...... ( -47.60, z-score =  -3.70, R)
>droSec1.super_18 884662 106 + 1342155
GGGGGUGGCUGGUUGGGAGUGGGUCAGAGUGGAGCGGCGCCUUUUCGCUUUGAUAAUGGCAAAUGCUCCGGAGGUCUGUCAGUGGCUUCUUUGCACUCUGGCCCUC----------
....................((((((((((((((((..(((...((.....))....)))...))))))(((((((.......)))))))....))))))))))..---------- ( -40.80, z-score =  -0.57, R)
>droSim1.chr2L 20564745 106 + 22036055
GGGGGUGGCUGGCUGGGAGUGGGUCAGAGUGGAGCGGCGCCUUUUCGCUUUGAUAAUGGCAAAUGCUCCGGAGGUCUGUCAGUGGCUUCUUUGCACUCUGGCCCUC----------
((((((((((.((.....)).))))(((((((((((..(((...((.....))....)))...))))))(((((((.......)))))))....))))).))))))---------- ( -42.90, z-score =  -0.76, R)
>consensus
GGGGGUGGCU_G_UGGGAGUGGGUCAGAGUGGAGCGGCGCCUUUUCGCUUUGAUAAUGGCAAAUGCUCCGGAGGUCUGUCAGUGGCUUCUUUGCACUCUGGCCCUC__________
....................((((((((((((((((..(((...((.....))....)))...))))).(((((((.......)))))))...)))))))))))............ (-35.33 = -35.63 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,951,574 – 20,951,680
Length 106
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 82.90
Shannon entropy 0.30635
G+C content 0.58351
Mean single sequence MFE -26.40
Consensus MFE -21.12
Energy contribution -22.46
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -1.16
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.561251
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 20951574 106 - 23011544
----------GAGGGCCAGAGUGCAAAGAAGCCACUGACAGACCUCCCGAGCGUUUGCCAUUAUCAAAGCGAAAAGGCGCCGCUCCACUCUGACCCACUCCCAGCUAGCCACCCCC
----------..(((.(((((((...((......))............(((((..((((.((.((.....)).)))))).)))))))))))).))).................... ( -27.80, z-score =  -1.17, R)
>droAna3.scaffold_12943 1266422 104 + 5039921
----------GAGAGCGAGAGUGCAAAGAAGCCACUGACAGACCUCCGGAGCAUUUGCCAUUAUCAAAGCAAAAAGGCGCCGCACCAGUCCA--CCAUUCCCCAUACCCCACCCCC
----------(((..(...(((((......).))))....)..)))(((.((.(((((..........)))))...)).)))..........--...................... ( -14.70, z-score =   0.32, R)
>droEre2.scaffold_4845 19069858 89 + 22589142
----------GAAGGCCAGAGUGC-AAGAAGCCACUGACAGACCUCCGGAGCAUUUGCCAUUAUCAAAGCG-AAAGGCG-CGCUCCACUCUGACCCACUCCC--------------
----------...((.((((((((-.....))...............(((((.((((.......))))(((-.....))-)))))))))))).)).......-------------- ( -23.90, z-score =  -1.06, R)
>droYak2.chr2R 19337477 102 + 21139217
GUGGCAAAGAGAGGGCCAGAGUGCAAAGAAGCCACUGACAGACCUCCGGAGCAUUUGCCAUCAUCAAAGCGAAAAGGCGCCGCUCCACUCUGACCCACUCUU--------------
......(((((.(((.((((((((......))...............(((((...((((.((........))...))))..))))))))))).))).)))))-------------- ( -33.40, z-score =  -1.55, R)
>droSec1.super_18 884662 106 - 1342155
----------GAGGGCCAGAGUGCAAAGAAGCCACUGACAGACCUCCGGAGCAUUUGCCAUUAUCAAAGCGAAAAGGCGCCGCUCCACUCUGACCCACUCCCAACCAGCCACCCCC
----------..(((.((((((((......))...............(((((...((((.((.((.....)).))))))..))))))))))).))).................... ( -29.30, z-score =  -2.03, R)
>droSim1.chr2L 20564745 106 - 22036055
----------GAGGGCCAGAGUGCAAAGAAGCCACUGACAGACCUCCGGAGCAUUUGCCAUUAUCAAAGCGAAAAGGCGCCGCUCCACUCUGACCCACUCCCAGCCAGCCACCCCC
----------..(((.((((((((......))...............(((((...((((.((.((.....)).))))))..))))))))))).))).................... ( -29.30, z-score =  -1.47, R)
>consensus
__________GAGGGCCAGAGUGCAAAGAAGCCACUGACAGACCUCCGGAGCAUUUGCCAUUAUCAAAGCGAAAAGGCGCCGCUCCACUCUGACCCACUCCCA_C_AGCCACCCCC
............(((.((((((((......))...............(((((...((((................))))..))))))))))).))).................... (-21.12 = -22.46 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:55:37 2011