Locus 14757

Sequence ID dm3.chrX
Location 15,281,454 – 15,281,561
Length 107
Max. P 0.790408
window20310 window20311 window20312 window20313

overview

Window 0

Location 15,281,454 – 15,281,558
Length 104
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 65.43
Shannon entropy 0.63872
G+C content 0.30001
Mean single sequence MFE -18.65
Consensus MFE -6.30
Energy contribution -6.92
Covariance contribution 0.62
Combinations/Pair 1.54
Mean z-score -1.66
Structure conservation index 0.34
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.43
SVM RNA-class probability 0.693044
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15281454 104 + 22422827
------------UUUUUGAAGAAAGUCAUCGAUAAAUAUCGCUUACUUAUUAAAAUGUACAUCAAUUUGUAUGUGUUCUUACCACGAAAGGUGCGAACACUCAUUCAAGAUAUUCA
------------.(((((((((((((...((((....))))...))))........(((((......)))))((((((.((((......)))).)))))))).)))))))...... ( -24.00, z-score =  -2.97, R)
>droSim1.chrX 11801595 104 + 17042790
------------UUUUUGAGGAAAGUCAUUGAUAAAUAUCGCUUACUUGUUAAAAUGUACAUAAAUUUGUAUGCGUUCGUACCACGAAAGGUGAGAACACUCAUUCAAGAUACUCA
------------....((((....(((.((((.........(((((((........(((((......)))))...((((.....))))))))))).........))))))).)))) ( -19.67, z-score =  -0.65, R)
>droSec1.super_56 166269 91 + 192059
------------CUUUUGAGGAAAGCAAUCGGUAAACAUCGCUUACUUGUUAAAAUGUACAUAAAUUUGUAUGUGUUCAUA-------------AAACACUCAUUCAAGAUACUCA
------------....((((..((((.((.(.....))).)))).((((.......(((((......)))))(((((....-------------.))))).....))))...)))) ( -14.60, z-score =  -0.80, R)
>droYak2.chrX 9478386 104 + 21770863
------------UUUUUGAGGAAAGUCAUCGAUAAAUAUUGCUUACUCGUUAAAAUUUGCAUAAAUUUAAAUCUGUUCCUACCACAGAAGGUAGGAACACUUUUUCAAGAUACUUG
------------.((((((((((.........(((((..(((................)))...)))))....((((((((((......)))))))))).))))))))))...... ( -24.99, z-score =  -3.38, R)
>droEre2.scaffold_4690 7007169 103 - 18748788
------------UUUUUGAGGAAAGUCAGCGAUAAAUAUUGAUUACUCGUUAAAAUUUUCAUAAAUUGUAAUGCGUUCCUACCAUUUAAGGUAGAAAC-CUUUUUCAAAAUACUUG
------------.((((((((((((((((.........))))))...(((((.(((((....))))).))))).(((.(((((......))))).)))-.))))))))))...... ( -18.40, z-score =  -1.61, R)
>triCas2.ChLG4 6087498 108 + 13894384
UUUAAACACCAACUUUUUAAAAAAAUCAACAUUACAAACUAUAUAAUUGCAAUAAUUCACGUAAAAC-GCAAAUACUUUCAGUUCAAAAGUUGGCGA-AUUAACUCGAGA------
........(((((((((.............................((((.................-))))..((.....))..)))))))))(((-......)))...------ ( -10.23, z-score =  -0.55, R)
>consensus
____________UUUUUGAGGAAAGUCAUCGAUAAAUAUCGCUUACUUGUUAAAAUGUACAUAAAUUUGUAUGUGUUCCUACCACAAAAGGUGGGAACACUCAUUCAAGAUACUCA
.............(((((((..((((...((((....))))...))))........................(((((..((((......))))..)))))...)))))))...... ( -6.30 =  -6.92 +   0.62)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,281,454 – 15,281,558
Length 104
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 65.43
Shannon entropy 0.63872
G+C content 0.30001
Mean single sequence MFE -21.57
Consensus MFE -5.01
Energy contribution -6.48
Covariance contribution 1.48
Combinations/Pair 1.38
Mean z-score -2.18
Structure conservation index 0.23
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.527631
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15281454 104 - 22422827
UGAAUAUCUUGAAUGAGUGUUCGCACCUUUCGUGGUAAGAACACAUACAAAUUGAUGUACAUUUUAAUAAGUAAGCGAUAUUUAUCGAUGACUUUCUUCAAAAA------------
((((......(((((.((((((..(((......)))..)))))).((((......)))))))))....((((...((((....))))...))))..))))....------------ ( -22.40, z-score =  -1.83, R)
>droSim1.chrX 11801595 104 - 17042790
UGAGUAUCUUGAAUGAGUGUUCUCACCUUUCGUGGUACGAACGCAUACAAAUUUAUGUACAUUUUAACAAGUAAGCGAUAUUUAUCAAUGACUUUCCUCAAAAA------------
((((......(((((.((((((..(((......)))..)))))).((((......)))))))))....((((....(((....)))....))))..))))....------------ ( -19.10, z-score =  -0.93, R)
>droSec1.super_56 166269 91 - 192059
UGAGUAUCUUGAAUGAGUGUUU-------------UAUGAACACAUACAAAUUUAUGUACAUUUUAACAAGUAAGCGAUGUUUACCGAUUGCUUUCCUCAAAAG------------
((((...((((((((.((((((-------------...)))))).((((......))))))))....)))).(((((((........)))))))..))))....------------ ( -16.30, z-score =  -1.13, R)
>droYak2.chrX 9478386 104 - 21770863
CAAGUAUCUUGAAAAAGUGUUCCUACCUUCUGUGGUAGGAACAGAUUUAAAUUUAUGCAAAUUUUAACGAGUAAGCAAUAUUUAUCGAUGACUUUCCUCAAAAA------------
........((((.((((((((((((((......))))))))).((..(((((...(((..((((....))))..)))..)))))))....)))))..))))...------------ ( -23.70, z-score =  -2.89, R)
>droEre2.scaffold_4690 7007169 103 + 18748788
CAAGUAUUUUGAAAAAG-GUUUCUACCUUAAAUGGUAGGAACGCAUUACAAUUUAUGAAAAUUUUAACGAGUAAUCAAUAUUUAUCGCUGACUUUCCUCAAAAA------------
......((((((.((((-(((((((((......)))))))))((.(((.(((((....))))).))).((....))..........))...))))..)))))).------------ ( -22.00, z-score =  -3.07, R)
>triCas2.ChLG4 6087498 108 - 13894384
------UCUCGAGUUAAU-UCGCCAACUUUUGAACUGAAAGUAUUUGC-GUUUUACGUGAAUUAUUGCAAUUAUAUAGUUUGUAAUGUUGAUUUUUUUAAAAAGUUGGUGUUUAAA
------.......((((.-.(((((((((((.....(((((((((..(-(.....))..)))((((((((.........))))))))...))))))...))))))))))).)))). ( -25.90, z-score =  -3.26, R)
>consensus
UGAGUAUCUUGAAUGAGUGUUCCCACCUUUCGUGGUAAGAACACAUACAAAUUUAUGUAAAUUUUAACAAGUAAGCAAUAUUUAUCGAUGACUUUCCUCAAAAA____________
........((((....((((((..(((......)))..))))))........................((((...((((....))))...))))...))))............... ( -5.01 =  -6.48 +   1.48)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,281,455 – 15,281,561
Length 106
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 65.79
Shannon entropy 0.64160
G+C content 0.29611
Mean single sequence MFE -19.35
Consensus MFE -6.15
Energy contribution -6.77
Covariance contribution 0.62
Combinations/Pair 1.54
Mean z-score -1.90
Structure conservation index 0.32
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.70
SVM RNA-class probability 0.790408
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15281455 106 + 22422827
----------UUUUGAAGAAAGUCAUCGAUAAAUAUCGCUUACUUAUUAAAAUGUACAUCAAUUUGUAUGUGUUCUUACCACGAAAGGUGCGAACACUCAUUCAAGAUAUUCAAAC
----------(((((((((((((...((((....))))...))))........(((((......)))))((((((.((((......)))).)))))))).)))))))......... ( -23.80, z-score =  -2.95, R)
>droSim1.chrX 11801596 106 + 17042790
----------UUUUGAGGAAAGUCAUUGAUAAAUAUCGCUUACUUGUUAAAAUGUACAUAAAUUUGUAUGCGUUCGUACCACGAAAGGUGAGAACACUCAUUCAAGAUACUCAAAU
----------.((((((....(((.((((.........(((((((........(((((......)))))...((((.....))))))))))).........))))))).)))))). ( -22.07, z-score =  -1.60, R)
>droSec1.super_56 166270 93 + 192059
----------UUUUGAGGAAAGCAAUCGGUAAACAUCGCUUACUUGUUAAAAUGUACAUAAAUUUGUAUGUGUUCAUA-------------AAACACUCAUUCAAGAUACUCAAAU
----------.((((((..((((.((.(.....))).)))).((((.......(((((......)))))(((((....-------------.))))).....))))...)))))). ( -17.00, z-score =  -1.89, R)
>droYak2.chrX 9478387 106 + 21770863
----------UUUUGAGGAAAGUCAUCGAUAAAUAUUGCUUACUCGUUAAAAUUUGCAUAAAUUUAAAUCUGUUCCUACCACAGAAGGUAGGAACACUUUUUCAAGAUACUUGAAU
----------((((((((((.........(((((..(((................)))...)))))....((((((((((......)))))))))).))))))))))......... ( -24.79, z-score =  -3.01, R)
>droEre2.scaffold_4690 7007170 105 - 18748788
----------UUUUGAGGAAAGUCAGCGAUAAAUAUUGAUUACUCGUUAAAAUUUUCAUAAAUUGUAAUGCGUUCCUACCAUUUAAGGUAGAAAC-CUUUUUCAAAAUACUUGAAU
----------((((((((((((((((.........))))))...(((((.(((((....))))).))))).(((.(((((......))))).)))-.))))))))))......... ( -18.20, z-score =  -1.32, R)
>triCas2.ChLG4 6087501 105 + 13894384
AAACACCAACUUUUUAAAAAAAUCAACAUUACAAACUAUAUAAUUGCAAUAAUUCACGUAAAAC-GCAAAUACUUUCAGUUCAAAAGUUGGCGA-AUUAACUCGAGA---------
.....(((((((((.............................((((.................-))))..((.....))..)))))))))(((-......)))...--------- ( -10.23, z-score =  -0.66, R)
>consensus
__________UUUUGAGGAAAGUCAUCGAUAAAUAUCGCUUACUUGUUAAAAUGUACAUAAAUUUGUAUGUGUUCCUACCACAAAAGGUGGGAACACUCAUUCAAGAUACUCAAAU
..........(((((((..((((...((((....))))...))))........................(((((..((((......))))..)))))...)))))))......... ( -6.15 =  -6.77 +   0.62)

alignment

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secondary structure

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dotplot

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Window 3

Location 15,281,455 – 15,281,561
Length 106
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 65.79
Shannon entropy 0.64160
G+C content 0.29611
Mean single sequence MFE -22.42
Consensus MFE -5.01
Energy contribution -6.48
Covariance contribution 1.48
Combinations/Pair 1.38
Mean z-score -2.38
Structure conservation index 0.22
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.660068
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15281455 106 - 22422827
GUUUGAAUAUCUUGAAUGAGUGUUCGCACCUUUCGUGGUAAGAACACAUACAAAUUGAUGUACAUUUUAAUAAGUAAGCGAUAUUUAUCGAUGACUUUCUUCAAAA----------
.((((((......(((((.((((((..(((......)))..)))))).((((......)))))))))....((((...((((....))))...))))..)))))).---------- ( -24.40, z-score =  -2.20, R)
>droSim1.chrX 11801596 106 - 17042790
AUUUGAGUAUCUUGAAUGAGUGUUCUCACCUUUCGUGGUACGAACGCAUACAAAUUUAUGUACAUUUUAACAAGUAAGCGAUAUUUAUCAAUGACUUUCCUCAAAA----------
.((((((......(((((.((((((..(((......)))..)))))).((((......)))))))))....((((....(((....)))....))))..)))))).---------- ( -21.20, z-score =  -1.56, R)
>droSec1.super_56 166270 93 - 192059
AUUUGAGUAUCUUGAAUGAGUGUUU-------------UAUGAACACAUACAAAUUUAUGUACAUUUUAACAAGUAAGCGAUGUUUACCGAUUGCUUUCCUCAAAA----------
.((((((...((((((((.((((((-------------...)))))).((((......))))))))....)))).(((((((........)))))))..)))))).---------- ( -18.40, z-score =  -1.89, R)
>droYak2.chrX 9478387 106 - 21770863
AUUCAAGUAUCUUGAAAAAGUGUUCCUACCUUCUGUGGUAGGAACAGAUUUAAAUUUAUGCAAAUUUUAACGAGUAAGCAAUAUUUAUCGAUGACUUUCCUCAAAA----------
.((((((...))))))((((((((((((((......))))))))).((..(((((...(((..((((....))))..)))..)))))))....)))))........---------- ( -24.30, z-score =  -2.91, R)
>droEre2.scaffold_4690 7007170 105 + 18748788
AUUCAAGUAUUUUGAAAAAG-GUUUCUACCUUAAAUGGUAGGAACGCAUUACAAUUUAUGAAAAUUUUAACGAGUAAUCAAUAUUUAUCGCUGACUUUCCUCAAAA----------
.........((((((.((((-(((((((((......)))))))))((.(((.(((((....))))).))).((....))..........))...))))..))))))---------- ( -21.20, z-score =  -2.65, R)
>triCas2.ChLG4 6087501 105 - 13894384
---------UCUCGAGUUAAU-UCGCCAACUUUUGAACUGAAAGUAUUUGC-GUUUUACGUGAAUUAUUGCAAUUAUAUAGUUUGUAAUGUUGAUUUUUUUAAAAAGUUGGUGUUU
---------............-.(((((((((((.....(((((((((..(-(.....))..)))((((((((.........))))))))...))))))...)))))))))))... ( -25.00, z-score =  -3.09, R)
>consensus
AUUUGAGUAUCUUGAAUGAGUGUUCCCACCUUUCGUGGUAAGAACACAUACAAAUUUAUGUAAAUUUUAACAAGUAAGCAAUAUUUAUCGAUGACUUUCCUCAAAA__________
...........((((....((((((..(((......)))..))))))........................((((...((((....))))...))))...))))............ ( -5.01 =  -6.48 +   1.48)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:46:08 2011