Locus 639

Sequence ID dm3.chr2L
Location 4,435,497 – 4,435,597
Length 100
Max. P 0.847068
window847 window848

overview

Window 7

Location 4,435,497 – 4,435,597
Length 100
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 82.03
Shannon entropy 0.34084
G+C content 0.46545
Mean single sequence MFE -25.14
Consensus MFE -15.61
Energy contribution -16.03
Covariance contribution 0.42
Combinations/Pair 1.19
Mean z-score -1.66
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.13
SVM RNA-class probability 0.558073
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4435497 100 + 23011544
-----CCAUCAAAAGGCCAGCAUUUUUGCCCA-GCCGUGUAAUUUUCCACAGCCUGCGAAUGCAAUCAAAGUCGCAUCUCAAUUAUGUGAUCGAUUGCCGCUGAAC
-----............((((...(((((...-((.(((........))).))..))))).((((((...(((((((.......))))))).)))))).))))... ( -26.40, z-score =  -2.10, R)
>droSim1.chr2L 4362569 100 + 22036055
-----CCAUCAAAAGGCCAGCAUUUUUGCCCA-GCCGUGUAAUUUUCCACAGCCUGCGAAUGCAAUCAAAGUCGCAUCUCAAUUAUGUGAUCGAUUGCCGCCGAAC
-----.........(((.......(((((...-((.(((........))).))..))))).((((((...(((((((.......))))))).)))))).))).... ( -25.10, z-score =  -1.88, R)
>droSec1.super_5 2533565 91 + 5866729
--------------AGCCAGCAUUUUUGCACA-GCCGUGUAAUUUUCCACAGCCUGCGAAUGCAAUCAAAGUCGCAUCUCAAUUAUGUGAUCGAUUGACGCCGAAC
--------------.....((...((((((..-((.(((........))).)).))))))..(((((...(((((((.......))))))).)))))..))..... ( -20.30, z-score =  -0.51, R)
>droYak2.chr2L 4469516 100 + 22324452
-----CCAUCAAAAGGCCAGCAUUUUUACACA-GCCGUGUAAUUUUCCACAGCCUGCGAAUGCAAUCAAAGUCGCAUCUCAAUUAUGUGAUCGAUUGCCGCUGAAC
-----...(((..((((........((((((.-...)))))).........))))(((...((((((...(((((((.......))))))).)))))))))))).. ( -26.53, z-score =  -2.53, R)
>droEre2.scaffold_4929 4519819 100 + 26641161
-----CCAUCAAAAGGCCAGCAUUUUUCCCCA-GUCGUGUAAUUUUCCACAGCCUGCGAAUGCAAUCAAAGUCGCAUCUCAAUUAUGUGAUCGAUUGCCGCUGAAC
-----............((((....(((..((-(.((((........))).).))).))).((((((...(((((((.......))))))).)))))).))))... ( -21.90, z-score =  -1.37, R)
>droAna3.scaffold_12943 1621636 104 - 5039921
GGAUCGCACCCAGGGGCAGGCCUAUUUCCAGGCAAUAUCCGAUUUUCCAUGGUACACCA-UGUAAUCAAAGUCGCAUCUCAAUUAUGUGAUUGAUUGCCAA-GUGC
.....((((....(((....))).......((((((....((((...(((((....)))-)).))))..((((((((.......)))))))).))))))..-)))) ( -30.60, z-score =  -1.58, R)
>consensus
_____CCAUCAAAAGGCCAGCAUUUUUGCACA_GCCGUGUAAUUUUCCACAGCCUGCGAAUGCAAUCAAAGUCGCAUCUCAAUUAUGUGAUCGAUUGCCGCUGAAC
..............(((..((((((.....((.((.(((........))).)).)).))))))((((...(((((((.......))))))).)))))))....... (-15.61 = -16.03 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 4,435,497 – 4,435,597
Length 100
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 82.03
Shannon entropy 0.34084
G+C content 0.46545
Mean single sequence MFE -30.92
Consensus MFE -20.01
Energy contribution -20.27
Covariance contribution 0.25
Combinations/Pair 1.27
Mean z-score -1.94
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.90
SVM RNA-class probability 0.847068
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4435497 100 - 23011544
GUUCAGCGGCAAUCGAUCACAUAAUUGAGAUGCGACUUUGAUUGCAUUCGCAGGCUGUGGAAAAUUACACGGC-UGGGCAAAAAUGCUGGCCUUUUGAUGG-----
(..(((((((((((((((.(((.......))).))..))))))))....((.(((((((........))))))-)..)).....)))))..).........----- ( -33.20, z-score =  -2.47, R)
>droSim1.chr2L 4362569 100 - 22036055
GUUCGGCGGCAAUCGAUCACAUAAUUGAGAUGCGACUUUGAUUGCAUUCGCAGGCUGUGGAAAAUUACACGGC-UGGGCAAAAAUGCUGGCCUUUUGAUGG-----
(..(((((((((((((((.(((.......))).))..))))))))....((.(((((((........))))))-)..)).....)))))..).........----- ( -32.50, z-score =  -2.20, R)
>droSec1.super_5 2533565 91 - 5866729
GUUCGGCGUCAAUCGAUCACAUAAUUGAGAUGCGACUUUGAUUGCAUUCGCAGGCUGUGGAAAAUUACACGGC-UGUGCAAAAAUGCUGGCU--------------
..((((((.(((((((((.(((.......))).))..))))))))....((((((((((........))))))-).)))......)))))..-------------- ( -27.80, z-score =  -1.47, R)
>droYak2.chr2L 4469516 100 - 22324452
GUUCAGCGGCAAUCGAUCACAUAAUUGAGAUGCGACUUUGAUUGCAUUCGCAGGCUGUGGAAAAUUACACGGC-UGUGUAAAAAUGCUGGCCUUUUGAUGG-----
(..(((((((((((((((.(((.......))).))..))))))))...(((((.(((((........))))))-))))......)))))..).........----- ( -31.90, z-score =  -2.23, R)
>droEre2.scaffold_4929 4519819 100 - 26641161
GUUCAGCGGCAAUCGAUCACAUAAUUGAGAUGCGACUUUGAUUGCAUUCGCAGGCUGUGGAAAAUUACACGAC-UGGGGAAAAAUGCUGGCCUUUUGAUGG-----
(..(((((((((((((((.(((.......))).))..)))))))).(((.(((..((((........)))).)-)).)))....)))))..).........----- ( -29.30, z-score =  -1.93, R)
>droAna3.scaffold_12943 1621636 104 + 5039921
GCAC-UUGGCAAUCAAUCACAUAAUUGAGAUGCGACUUUGAUUACA-UGGUGUACCAUGGAAAAUCGGAUAUUGCCUGGAAAUAGGCCUGCCCCUGGGUGCGAUCC
((((-((((((.((.(((.((....)).)))..)).(((((((.((-(((....)))))...)))))))....(((((....))))).))))...))))))..... ( -30.80, z-score =  -1.35, R)
>consensus
GUUCAGCGGCAAUCGAUCACAUAAUUGAGAUGCGACUUUGAUUGCAUUCGCAGGCUGUGGAAAAUUACACGGC_UGGGCAAAAAUGCUGGCCUUUUGAUGG_____
(..((((.((((((((((.(((.......))).))..)))))))).....((.((((((........)))))).)).........))))..).............. (-20.01 = -20.27 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:16:27 2011