Locus 7601

Sequence ID dm3.chr3L
Location 15,783,840 – 15,783,938
Length 98
Max. P 0.965321
window10465 window10466

overview

Window 5

Location 15,783,840 – 15,783,938
Length 98
Sequences 5
Columns 128
Reading direction forward
Mean pairwise identity 66.28
Shannon entropy 0.53517
G+C content 0.36032
Mean single sequence MFE -17.78
Consensus MFE -10.36
Energy contribution -10.60
Covariance contribution 0.24
Combinations/Pair 1.21
Mean z-score -0.86
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.21
SVM RNA-class probability 0.595684
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15783840 98 + 24543557
CAUUUCGGCACACAAGUUAGCCAGGCAAAUUGCAGAAUUUCACAAUCAGUAUGGCUAAUAUUCCUUAAACAUUC----UUUUGUGCGCCUUCUAUAAAUACU--------------------------
......(((.(((((((((((((.((..((((..........))))..)).))))))))...............----..))))).))).............-------------------------- ( -21.82, z-score =  -2.86, R)
>droEre2.scaffold_4784 18039017 104 + 25762168
CAUUUCGGCACACAAGUUGGCCAGACAAACUGCAGAAUUUCACAAUAAUUGUGGCCAAUUUUACCUAAAUAUCGCUAUGACCGAAA-CUAACUAGUAUAACUAUU-----------------------
..((((((.....(((((((((((.....)))........((((.....))))))))))))..........((.....))))))))-..................----------------------- ( -16.30, z-score =  -0.63, R)
>droYak2.chr3L 18336917 99 + 24197627
GCUUUCGGCACACAAGCUAGCCAGGCAAAUUGCAGAAUUUUACAAUCAGUUUGGCUAAU-UUUCUUAAAUUUUA----GUCUGUUC-UCGUCUAUGACAACUACC-----------------------
((.....))........(((((((((..((((..........))))..)))))))))..-............((----((.(((.(-........))))))))..----------------------- ( -16.80, z-score =  -0.27, R)
>droSec1.super_0 7894206 97 + 21120651
CAUUUCGGCACACAAGUUGGCCAGGCAAAUUGCAGAAUUUCACAAUCAGUAUAGCUAAUAUAUGUACCUUA-------AACUGUGU-CUAAUUAGUAAAACUAUU-----------------------
......((((((...((((((...((..((((..........))))..))...))))))....((......-------.)))))))-).................----------------------- ( -12.70, z-score =   1.02, R)
>droSim1.chr3L 15124513 116 + 22553184
CAUUUCGGCACACUAGUUAGCCAGGCAAAUUGCAGAAUUUUACAAUCAGUAUGGCUAAUAUU----CCAUA-------AACUGGGU-CUAAUUAGUAAAACUAUUUAACAACCUCUACGAAAAGAACU
..(((((........((((((((.((..((((..........))))..)).))))))))...----.....-------....((((-.(((.(((.....))).)))...))))...)))))...... ( -21.30, z-score =  -1.53, R)
>consensus
CAUUUCGGCACACAAGUUAGCCAGGCAAAUUGCAGAAUUUCACAAUCAGUAUGGCUAAUAUUUCUUAAAUAU______AACUGUGC_CUAACUAGUAAAACUAUU_______________________
...............((((((((.((..((((..........))))..)).))))))))..................................................................... (-10.36 = -10.60 +   0.24)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,783,840 – 15,783,938
Length 98
Sequences 5
Columns 128
Reading direction reverse
Mean pairwise identity 66.28
Shannon entropy 0.53517
G+C content 0.36032
Mean single sequence MFE -24.70
Consensus MFE -13.08
Energy contribution -12.52
Covariance contribution -0.56
Combinations/Pair 1.36
Mean z-score -1.84
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.75
SVM RNA-class probability 0.965321
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15783840 98 - 24543557
--------------------------AGUAUUUAUAGAAGGCGCACAAAA----GAAUGUUUAAGGAAUAUUAGCCAUACUGAUUGUGAAAUUCUGCAAUUUGCCUGGCUAACUUGUGUGCCGAAAUG
--------------------------.............(((((((((..----.(((((((...)))))))(((((..(.((((((........)))))).)..)))))...)))))))))...... ( -28.20, z-score =  -3.25, R)
>droEre2.scaffold_4784 18039017 104 - 25762168
-----------------------AAUAGUUAUACUAGUUAG-UUUCGGUCAUAGCGAUAUUUAGGUAAAAUUGGCCACAAUUAUUGUGAAAUUCUGCAGUUUGUCUGGCCAACUUGUGUGCCGAAAUG
-----------------------..(((.....)))....(-((((((((((((...(((....)))...(((((((.....(((((........))))).....))))))).))))).)))))))). ( -25.10, z-score =  -1.46, R)
>droYak2.chr3L 18336917 99 - 24197627
-----------------------GGUAGUUGUCAUAGACGA-GAACAGAC----UAAAAUUUAAGAAA-AUUAGCCAAACUGAUUGUAAAAUUCUGCAAUUUGCCUGGCUAGCUUGUGUGCCGAAAGC
-----------------------(((((((.((......))-.)))....----..............-.(((((((..(.(((((((......))))))).)..)))))))......))))...... ( -22.60, z-score =  -1.36, R)
>droSec1.super_0 7894206 97 - 21120651
-----------------------AAUAGUUUUACUAAUUAG-ACACAGUU-------UAAGGUACAUAUAUUAGCUAUACUGAUUGUGAAAUUCUGCAAUUUGCCUGGCCAACUUGUGUGCCGAAAUG
-----------------------....(((((.....((((-((...)))-------)))((((((((..((.((((..(.((((((........)))))).)..)))).))..))))))))))))). ( -22.70, z-score =  -1.94, R)
>droSim1.chr3L 15124513 116 - 22553184
AGUUCUUUUCGUAGAGGUUGUUAAAUAGUUUUACUAAUUAG-ACCCAGUU-------UAUGG----AAUAUUAGCCAUACUGAUUGUAAAAUUCUGCAAUUUGCCUGGCUAACUAGUGUGCCGAAAUG
..(((.(((((((((((((..(((.(((.....))).))))-)))...))-------)))))----))..(((((((..(.(((((((......))))))).)..)))))))..........)))... ( -24.90, z-score =  -1.20, R)
>consensus
_______________________AAUAGUUUUACUAGUUAG_ACACAGUC______AUAUUUAAGAAAUAUUAGCCAUACUGAUUGUGAAAUUCUGCAAUUUGCCUGGCUAACUUGUGUGCCGAAAUG
......................................................................(((((((....(((((((......)))))))....)))))))................ (-13.08 = -12.52 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:29:59 2011