Locus 14100

Sequence ID dm3.chrX
Location 11,146,363 – 11,146,464
Length 101
Max. P 0.920976
window19392 window19393

overview

Window 2

Location 11,146,363 – 11,146,464
Length 101
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 90.64
Shannon entropy 0.16032
G+C content 0.53519
Mean single sequence MFE -32.44
Consensus MFE -28.30
Energy contribution -29.60
Covariance contribution 1.30
Combinations/Pair 1.07
Mean z-score -2.03
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.28
SVM RNA-class probability 0.920976
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11146363 101 + 22422827
CGAGAUGGUCGACAUGGUCGAGGAGCAGCCAUGUGAACAUGAGGGGGAAAUUAAGUGCAAGGAUCCAUGGAUCCAUGGCCAUCAUGGACAUCAUCGAGAAA
(((((((.((.(((((((.(.....).)))))))...(((((...((..........((.(((((....))))).)).)).))))))))))).)))..... ( -30.80, z-score =  -1.11, R)
>droEre2.scaffold_4690 14749606 89 - 18748788
CGAGAUGGUCGACAUGGUCGAGGAGCAGCCAUGUGAACAUGGGGGG-AAAUUAAGUGCAAGGAUCCAUGGAUCCAUGGCCAU---GGACGUCU--------
..(((((.....((((((((........(((((....)))))....-.............(((((....))))).)))))))---)..)))))-------- ( -32.00, z-score =  -2.08, R)
>droYak2.chrX 10774855 90 - 21770863
CGAGAUGGUCGACAUGGUCGAGGAGCAGCCAUGUGAACAUGGAGGGGAAAUUAAGUGCAAGGAUCCAUGGAUCCAUGGCCAU---GGACGUCG--------
...((((.....((((((((.....(..(((((....)))))..)...............(((((....))))).)))))))---)..)))).-------- ( -32.60, z-score =  -2.56, R)
>droSec1.super_15 1835648 97 + 1954846
CGAGAUGGUCGACAUGGUCGAGGAGCAGCCAUGUGAACAUGGGGGG-AAAUUAAGUGCAAGGAUCCAUGGAUCCAUGGCCAU---GGACAUCGGCGAGAGA
((.((((.....((((((((........(((((....)))))....-.............(((((....))))).)))))))---)..))))..))..... ( -33.50, z-score =  -2.16, R)
>droSim1.chrX_random 3133187 98 + 5698898
CGAGAUGGUCGACAUGGUCGAGGAGCAGCCAUGUGAACAUGGGGGGGAAAUUAAGUGCAAGGAUCCAUGGAUCCAUGGCCAU---GGACAUCGACGAGAGA
.......(((((((((((((........(((((....)))))..................(((((....))))).)))))))---)....)))))...... ( -33.30, z-score =  -2.24, R)
>consensus
CGAGAUGGUCGACAUGGUCGAGGAGCAGCCAUGUGAACAUGGGGGGGAAAUUAAGUGCAAGGAUCCAUGGAUCCAUGGCCAU___GGACAUCG_CGAGA_A
...((((..(...(((((((....(((.(((((....)))))((......))...)))..(((((....))))).)))))))...)..))))......... (-28.30 = -29.60 +   1.30)

alignment

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secondary structure

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dotplot

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Window 3

Location 11,146,363 – 11,146,464
Length 101
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 90.64
Shannon entropy 0.16032
G+C content 0.53519
Mean single sequence MFE -23.57
Consensus MFE -21.81
Energy contribution -22.05
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.20
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.46
SVM RNA-class probability 0.703066
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11146363 101 - 22422827
UUUCUCGAUGAUGUCCAUGAUGGCCAUGGAUCCAUGGAUCCUUGCACUUAAUUUCCCCCUCAUGUUCACAUGGCUGCUCCUCGACCAUGUCGACCAUCUCG
.....(((.(((((((((((.((.((.(((((....))))).))............)).)))))...(((((((........).)))))).)).))))))) ( -24.72, z-score =  -0.81, R)
>droEre2.scaffold_4690 14749606 89 + 18748788
--------AGACGUCC---AUGGCCAUGGAUCCAUGGAUCCUUGCACUUAAUUU-CCCCCCAUGUUCACAUGGCUGCUCCUCGACCAUGUCGACCAUCUCG
--------....((((---((((.(..(((((....))))).............-....(((((....))))).........).)))))..)))....... ( -21.80, z-score =  -0.97, R)
>droYak2.chrX 10774855 90 + 21770863
--------CGACGUCC---AUGGCCAUGGAUCCAUGGAUCCUUGCACUUAAUUUCCCCUCCAUGUUCACAUGGCUGCUCCUCGACCAUGUCGACCAUCUCG
--------(((.....---..(((((((((..((((((....................)))))).)).))))))).....(((((...))))).....))) ( -22.05, z-score =  -1.12, R)
>droSec1.super_15 1835648 97 - 1954846
UCUCUCGCCGAUGUCC---AUGGCCAUGGAUCCAUGGAUCCUUGCACUUAAUUU-CCCCCCAUGUUCACAUGGCUGCUCCUCGACCAUGUCGACCAUCUCG
.........(((((((---((((.(..(((((....))))).............-....(((((....))))).........).)))))..)).))))... ( -24.00, z-score =  -1.33, R)
>droSim1.chrX_random 3133187 98 - 5698898
UCUCUCGUCGAUGUCC---AUGGCCAUGGAUCCAUGGAUCCUUGCACUUAAUUUCCCCCCCAUGUUCACAUGGCUGCUCCUCGACCAUGUCGACCAUCUCG
......(((((....(---((((.(..(((((....)))))..................(((((....))))).........).))))))))))....... ( -25.30, z-score =  -1.76, R)
>consensus
U_UCUCG_CGAUGUCC___AUGGCCAUGGAUCCAUGGAUCCUUGCACUUAAUUUCCCCCCCAUGUUCACAUGGCUGCUCCUCGACCAUGUCGACCAUCUCG
.........((((........(((((((((..(((((......................))))).)).))))))).....(((((...))))).))))... (-21.81 = -22.05 +   0.24)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:33:38 2011