Locus 7342

Sequence ID dm3.chr3L
Location 14,157,885 – 14,158,022
Length 137
Max. P 0.962710
window10109 window10110

overview

Window 9

Location 14,157,885 – 14,157,990
Length 105
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 71.10
Shannon entropy 0.52546
G+C content 0.34173
Mean single sequence MFE -20.76
Consensus MFE -11.48
Energy contribution -12.76
Covariance contribution 1.28
Combinations/Pair 1.26
Mean z-score -1.79
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.71
SVM RNA-class probability 0.962710
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14157885 105 - 24543557
--AAAGAUUAUAUUUUUGAUGAAUUCUAGAAAUACCAC-UUGGAAACUCCAAAGUGUGUUUCAUAUUUGCCAAAGCUCUUAGCUUUGUAGGUCCUAAGGUCUAUUAAA
--............(((((((.((..(((((((((.((-((((.....)).)))))))))))..((((((.(((((.....)))))))))))..))..)).))))))) ( -22.70, z-score =  -1.70, R)
>droSim1.chr3L 13513860 98 - 22553184
--------UAUAUUUCUUGCAAAUUCUAGAAAUACCAC-UUGGAAACUCCAAAGUGUGUUUCAUAUUUGCCGAAGCUCUUAGCUAAGUAAG-ACUAAAGUCCAUUAAA
--------......((((((........(((((((.((-((((.....)).)))))))))))...........(((.....)))..)))))-)............... ( -20.80, z-score =  -2.60, R)
>droSec1.super_0 6304862 98 - 21120651
--------UAUAUUUCUUGCACAUUCUAGAAAUACCAC-CUGGAAACUCCAAAGUGUGUUUCAUAUUUGCCGAAGCUCUUAGCUUUGGAAG-ACUAAAGUCCAUUAAA
--------....................(((((((.((-.(((.....)))..))))))))).......(((((((.....)))))))..(-((....)))....... ( -21.50, z-score =  -2.19, R)
>droYak2.chr3L 14251183 107 - 24197627
AACGAUUGUGCAUACUUGUAGUAUUAUAAAAGUACCUCUUUGGAAAUUCCGAAGUGUGUUUCACGUUUGCCCAAGUUCUUAGCUUCAUAAG-GCUGAGUGCCAUUAAA
.....(((.(((.((.((..(((((.....)))))(.((((((.....)))))).).....)).)).))).)))((.(((((((......)-)))))).))....... ( -24.10, z-score =  -1.51, R)
>droEre2.scaffold_4784 14148411 95 - 25762168
AACUAUUAUACAUAUUU------UGAAAGAAUUACCGCUUUGGAAAUUCCGAAGUGUGUUUCAUGUUUACCAAAGCUCUUAGCCUUACGAA-GC------CCAUUAAA
..............(((------((.(((......((((((((.....)))))))).(((....((((....))))....)))))).))))-).------........ ( -14.70, z-score =  -0.94, R)
>consensus
____A___UAUAUUUUUGGCAAAUUCUAGAAAUACCAC_UUGGAAACUCCAAAGUGUGUUUCAUAUUUGCCAAAGCUCUUAGCUUUGUAAG_ACUAAAGUCCAUUAAA
............................(((((((.((.((((.....)))).)))))))))........((((((.....))))))..................... (-11.48 = -12.76 +   1.28)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,157,924 – 14,158,022
Length 98
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 75.15
Shannon entropy 0.44378
G+C content 0.29634
Mean single sequence MFE -16.54
Consensus MFE -9.32
Energy contribution -9.64
Covariance contribution 0.32
Combinations/Pair 1.23
Mean z-score -1.44
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.29
SVM RNA-class probability 0.629564
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14157924 98 - 24543557
GAUAAUUCUUCUACGGAUAAAUGAUACAUAACA-AAGAUUAUAUUUUUGAUGAAUUCUAGAAAUACCAC-UUGGAAACUCCAAAGUGUGUUUCAUAUUUG
...(((((.((....))..............((-(((((...)))))))..)))))...(((((((.((-((((.....)).)))))))))))....... ( -17.70, z-score =  -1.64, R)
>droSim1.chr3L 13513898 91 - 22553184
GAUAAUUCUUGUACAGACAAAUGAUACACAA--------UAUAUUUCUUGCAAAUUCUAGAAAUACCAC-UUGGAAACUCCAAAGUGUGUUUCAUAUUUG
........((((....))))((((.(((((.--------..(((((((..........)))))))....-((((.....))))..))))).))))..... ( -16.20, z-score =  -1.74, R)
>droSec1.super_0 6304900 91 - 21120651
GAUAAUUUUUGUACGGACAAAUGAUACACAA--------UAUAUUUCUUGCACAUUCUAGAAAUACCAC-CUGGAAACUCCAAAGUGUGUUUCAUAUUUG
........((((....))))((((.(((((.--------..(((((((..........)))))))....-.(((.....)))...))))).))))..... ( -15.40, z-score =  -1.23, R)
>droYak2.chr3L 14251221 99 - 24197627
GAUAUUUCUUAUACA-ACAAAUAAUACAAAAAACGAUUGUGCAUACUUGUAGUAUUAUAAAAGUACCUCUUUGGAAAUUCCGAAGUGUGUUUCACGUUUG
...............-..............(((((.....(((((((((..(((((.....)))))..)..(((.....)))))))))))....))))). ( -15.70, z-score =  -0.70, R)
>droEre2.scaffold_4784 14148443 94 - 25762168
GAUAAUUCCUAUACGGACAAUUGAUACACAA-A-ACUAUUAUACAUAUUUUGAA----AGAAUUACCGCUUUGGAAAUUCCGAAGUGUGUUUCAUGUUUA
..............(((((..(((.((((..-.-...........((.(((...----.))).))..(((((((.....))))))))))).)))))))). ( -17.70, z-score =  -1.87, R)
>consensus
GAUAAUUCUUAUACGGACAAAUGAUACACAA_A______UAUAUUUCUUGCGAAUUCUAGAAAUACCAC_UUGGAAACUCCAAAGUGUGUUUCAUAUUUG
...........................................................(((((((.((.((((.....)))).)))))))))....... ( -9.32 =  -9.64 +   0.32)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:25:07 2011