Locus 12716

Sequence ID dm3.chrX
Location 1,703,227 – 1,703,319
Length 92
Max. P 0.986252
window17484 window17485

overview

Window 4

Location 1,703,227 – 1,703,319
Length 92
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 65.54
Shannon entropy 0.61904
G+C content 0.56180
Mean single sequence MFE -32.36
Consensus MFE -18.08
Energy contribution -16.56
Covariance contribution -1.52
Combinations/Pair 1.62
Mean z-score -1.58
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.23
SVM RNA-class probability 0.986252
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1703227 92 + 22422827
AAGGACCUGCCGGCGAGGACCGAGGAAUCGGGCACGUGAGAAGAUGGCACAUAGCCA---UAUGUGCCUGCCAUA-UGCCAUGGAUGUCCUAACGG
.(((((...((((((.....(((....)))(((((....).....((((((((....---))))))))))))...-))))..))..)))))..... ( -35.20, z-score =  -2.17, R)
>droSim1.chrX 1196667 92 + 17042790
AGGGACCUGCCGGCGAGUACCGACGAAUCGGGCACGUGAGAAGAUGGCACAUAGCCA---UAUGUGCCUGCCAUA-UGCCAUGGAUGUCCUUACGG
((((((...((((((.....(((....)))(((((....).....((((((((....---))))))))))))...-))))..))..)))))).... ( -34.50, z-score =  -1.76, R)
>droSec1.super_10 1498314 92 + 3036183
AGGGACCUGCCGGCGAGAACCGAGGAAUCGGGCACGUGAGAAGAUGGCACAUAGCCA---UAUGUGCCUGCCAUA-UGCCAUGGAUGUCCUUACGG
((((((...((((((.....(((....)))(((((....).....((((((((....---))))))))))))...-))))..))..)))))).... ( -35.50, z-score =  -2.17, R)
>droYak2.chrX 1548894 73 + 21770863
AUAGACCUGUCGGCGAGGCCCAAGGAAUCAGGCACGUGAGAACAUGGCACAUAGCCUGGCUAUGUGCCUGCCA-----------------------
.....(((...(((...)))..))).....(((((....).....((((((((((...)))))))))))))).----------------------- ( -30.00, z-score =  -2.26, R)
>droAna3.scaffold_12929 1721308 93 - 3277472
AAACAGCUGCCGGUUAGUCCUGGAGCUUCAGGCACGU-ACCAGGCUCUGUGUCCUUAUGCCAUAUGGAAGACUUAGUGGCUUAUGUGUGUGUGU--
....((((.((((......)))))))).((.((((((-(...(((((((.(((......((....))..))).))).))))))))))).))...-- ( -26.60, z-score =   0.46, R)
>consensus
AAGGACCUGCCGGCGAGGACCGAGGAAUCGGGCACGUGAGAAGAUGGCACAUAGCCA___UAUGUGCCUGCCAUA_UGCCAUGGAUGUCCUUACGG
...........((((....((((....))))..............((((((((.......))))))))))))........................ (-18.08 = -16.56 +  -1.52)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 1,703,227 – 1,703,319
Length 92
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 65.54
Shannon entropy 0.61904
G+C content 0.56180
Mean single sequence MFE -28.96
Consensus MFE -15.18
Energy contribution -14.86
Covariance contribution -0.32
Combinations/Pair 1.43
Mean z-score -0.90
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.62
SVM RNA-class probability 0.764989
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1703227 92 - 22422827
CCGUUAGGACAUCCAUGGCA-UAUGGCAGGCACAUA---UGGCUAUGUGCCAUCUUCUCACGUGCCCGAUUCCUCGGUCCUCGCCGGCAGGUCCUU
.....(((((....((((((-((((((.........---..)))))))))))).........((((.((....))(((....))))))).))))). ( -30.80, z-score =  -0.88, R)
>droSim1.chrX 1196667 92 - 17042790
CCGUAAGGACAUCCAUGGCA-UAUGGCAGGCACAUA---UGGCUAUGUGCCAUCUUCUCACGUGCCCGAUUCGUCGGUACUCGCCGGCAGGUCCCU
((....))........((((-..(((..((((((((---....))))))))......)))..)))).(((..((((((....))))))..)))... ( -33.50, z-score =  -1.42, R)
>droSec1.super_10 1498314 92 - 3036183
CCGUAAGGACAUCCAUGGCA-UAUGGCAGGCACAUA---UGGCUAUGUGCCAUCUUCUCACGUGCCCGAUUCCUCGGUUCUCGCCGGCAGGUCCCU
......((((....((((((-((((((.........---..)))))))))))).........((((.((....))(((....))))))).)))).. ( -29.90, z-score =  -0.58, R)
>droYak2.chrX 1548894 73 - 21770863
-----------------------UGGCAGGCACAUAGCCAGGCUAUGUGCCAUGUUCUCACGUGCCUGAUUCCUUGGGCCUCGCCGACAGGUCUAU
-----------------------.(((.((((((((((...))))))))))((((....)))))))........(((((((.......))))))). ( -29.20, z-score =  -1.82, R)
>droAna3.scaffold_12929 1721308 93 + 3277472
--ACACACACACAUAAGCCACUAAGUCUUCCAUAUGGCAUAAGGACACAGAGCCUGGU-ACGUGCCUGAAGCUCCAGGACUAACCGGCAGCUGUUU
--.............(((......(((((((....))....))))).....(((.(((-..((.((((......))))))..)))))).))).... ( -21.40, z-score =   0.20, R)
>consensus
CCGUAAGGACAUCCAUGGCA_UAUGGCAGGCACAUA___UGGCUAUGUGCCAUCUUCUCACGUGCCCGAUUCCUCGGUACUCGCCGGCAGGUCCCU
........................(((.((((((((.......))))))))..............(((......))).....)))........... (-15.18 = -14.86 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:07:28 2011