Locus 7049

Sequence ID dm3.chr3L
Location 11,737,968 – 11,738,063
Length 95
Max. P 0.996005
window9709 window9710

overview

Window 9

Location 11,737,968 – 11,738,063
Length 95
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 60.15
Shannon entropy 0.75350
G+C content 0.38587
Mean single sequence MFE -19.80
Consensus MFE -7.97
Energy contribution -8.67
Covariance contribution 0.70
Combinations/Pair 1.41
Mean z-score -2.13
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.87
SVM RNA-class probability 0.996005
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11737968 95 + 24543557
CUUUAGAAAAGGAAAAGUUCCAAUGUUUUUUUCCCAUCCCACUUUUGGCCUGCCAGAGAUAUAACUAUCUUAUGAUAGGAACUUUUUCCCACUUU--------
..........(((((((((((.....................((((((....)))))).......((((....))))))))))))))).......-------- ( -21.40, z-score =  -2.42, R)
>droSim1.chrU 245641 94 - 15797150
CUUUAAAGCAGGAAAAGUUCCAAUGUUUUGC-CCCAUCCCACUUUUGACCUCCCAGAGAUAUUCCUAUCUUAUGAUAGGAACUUUUCCCCACUUU--------
....((((..(((((((((((((((((((..-....((........)).......))))))))..((((....)))))))))))))))...))))-------- ( -21.02, z-score =  -3.18, R)
>droSec1.super_0 3923549 89 + 21120651
CUUUAAAGCAGGAAA-GUUCCAAUGUUUUUC-CUCAUCCCAUUUUUGGC----CAGAGAUAUUCCUAUCUUAUGAUUGGAACUUUUCCCCACUUU--------
..........(((((-((((((((.......-......(((....))).----..((((((....))))))...)))))))))))))........-------- ( -21.60, z-score =  -2.94, R)
>droYak2.chr3L 11766539 103 + 24197627
GUUUAAAGACGGAAAAGUUCCAACGUUUUUGCCCAAUCCCACUUUCGGCCUCCCAGAGAUAUUUCUAUCUAAUAAAAGGAACUUUGCCAACGUUCGCCACUUU
(((....)))((.((((((((.........(((.((.......)).))).......(((((....))))).......)))))))).))............... ( -19.10, z-score =  -1.17, R)
>droEre2.scaffold_4784 11716531 95 + 25762168
GCUUAAAGGAGGAAAAGUUUCAGUGUUUUUCCCCAAUC--------GGCCUCCCAGAGAUAUUUCUGUCUAAUGAAAGGAACUUUACCAUCGUUCGCCACUUU
.......((.(((((((........)))))))))....--------(((....(((((....)))))...........((((.........)))))))..... ( -18.70, z-score =   0.00, R)
>droAna3.scaffold_13337 5993678 96 + 23293914
UUUUACGUAAUAUUACGUAUACGCAAUGUUUGCUGAAU-------UGAACUUUCUUUUCAAGCCCUAACAUUCCCUGUACCCUUUUCUCUCAGUGAAGUAUUU
(((((((((....)))(((((.(.((((((.((((((.-------.((....))..))).)))...)))))).).)))))............))))))..... ( -17.00, z-score =  -3.07, R)
>consensus
CUUUAAAGAAGGAAAAGUUCCAAUGUUUUUC_CCCAUCCCACUUUUGGCCUCCCAGAGAUAUUCCUAUCUUAUGAUAGGAACUUUUCCCCACUUU________
..........((.((((((((.........................((....))..(((((....))))).......)))))))).))............... ( -7.97 =  -8.67 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,737,968 – 11,738,063
Length 95
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 60.15
Shannon entropy 0.75350
G+C content 0.38587
Mean single sequence MFE -23.04
Consensus MFE -9.02
Energy contribution -9.08
Covariance contribution 0.06
Combinations/Pair 1.65
Mean z-score -1.32
Structure conservation index 0.39
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.21
SVM RNA-class probability 0.910187
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11737968 95 - 24543557
--------AAAGUGGGAAAAAGUUCCUAUCAUAAGAUAGUUAUAUCUCUGGCAGGCCAAAAGUGGGAUGGGAAAAAAACAUUGGAACUUUUCCUUUUCUAAAG
--------..((.(((((((.(((((((((....))))....(((((((((....))).....)))))).............))))))))))))...)).... ( -22.30, z-score =  -1.12, R)
>droSim1.chrU 245641 94 + 15797150
--------AAAGUGGGGAAAAGUUCCUAUCAUAAGAUAGGAAUAUCUCUGGGAGGUCAAAAGUGGGAUGGG-GCAAAACAUUGGAACUUUUCCUGCUUUAAAG
--------.....(((((...(((((((((....))))))))).))))).........((((..(((..((-.(((....)))...))..)))..)))).... ( -27.20, z-score =  -2.38, R)
>droSec1.super_0 3923549 89 - 21120651
--------AAAGUGGGGAAAAGUUCCAAUCAUAAGAUAGGAAUAUCUCUG----GCCAAAAAUGGGAUGAG-GAAAAACAUUGGAAC-UUUCCUGCUUUAAAG
--------((((..((((..((((((((((((.(((((....)))))...----.(((....))).))))(-......).)))))))-)))))..)))).... ( -25.50, z-score =  -2.90, R)
>droYak2.chr3L 11766539 103 - 24197627
AAAGUGGCGAACGUUGGCAAAGUUCCUUUUAUUAGAUAGAAAUAUCUCUGGGAGGCCGAAAGUGGGAUUGGGCAAAAACGUUGGAACUUUUCCGUCUUUAAAC
(((((..(.((((((.((..((((((((((...(((((....)))))...))))..(....).))))))..))...)))))).).)))))............. ( -26.40, z-score =  -0.96, R)
>droEre2.scaffold_4784 11716531 95 - 25762168
AAAGUGGCGAACGAUGGUAAAGUUCCUUUCAUUAGACAGAAAUAUCUCUGGGAGGCC--------GAUUGGGGAAAAACACUGAAACUUUUCCUCCUUUAAGC
((((((((((((.........))))((..((..(((.(....).))).))..)))))--------)...((((((((..........)))))))))))).... ( -21.20, z-score =   0.11, R)
>droAna3.scaffold_13337 5993678 96 - 23293914
AAAUACUUCACUGAGAGAAAAGGGUACAGGGAAUGUUAGGGCUUGAAAAGAAAGUUCA-------AUUCAGCAAACAUUGCGUAUACGUAAUAUUACGUAAAA
...(((....(((.............)))(.((((((...(((.(((..((....)).-------.)))))).)))))).))))((((((....))))))... ( -15.62, z-score =  -0.65, R)
>consensus
________AAAGGGGGGAAAAGUUCCUAUCAUAAGAUAGGAAUAUCUCUGGGAGGCCAAAAGUGGGAUGGG_GAAAAACAUUGGAACUUUUCCUUCUUUAAAG
........((((((.((.((((((((.......(((((....)))))..((....)).........................)))))))).)))))))).... ( -9.02 =  -9.08 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:19:33 2011