Locus 14151

Sequence ID dm3.chrX
Location 11,474,049 – 11,474,253
Length 204
Max. P 0.999247
window19476 window19477 window19478 window19479

overview

Window 6

Location 11,474,049 – 11,474,154
Length 105
Sequences 9
Columns 115
Reading direction forward
Mean pairwise identity 73.06
Shannon entropy 0.52333
G+C content 0.29412
Mean single sequence MFE -24.84
Consensus MFE -12.38
Energy contribution -11.92
Covariance contribution -0.46
Combinations/Pair 1.26
Mean z-score -3.29
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.74
SVM RNA-class probability 0.999247
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11474049 105 + 22422827
-----AAGUCUUAAAAGACGUGUAAAAUGUUGCAAAUUAAGCAAAUAUAUA-UGCAUAUAUGGGUAACGUUUUACGCGCCUUAACCAGUCAAAAUACAAAAUAAA--UUGGUA--
-----.........(((.(((((((((((((((..((((.(((........-))).)).))..))))))))))))))).))).((((((...............)--))))).-- ( -26.96, z-score =  -3.59, R)
>droSim1.chrU 12343312 105 + 15797150
-----AAGUCUUAAAAGACGUGUAAAAUGUUGCAAAUUAAGCAAAUAUAUA-UGCAUAUAUGGGUAAUGUUUUACGCGCCUUAACCAGUCAAAAUACAAAAUAAA--UUGGUA--
-----.........(((.(((((((((((((((..((((.(((........-))).)).))..))))))))))))))).))).((((((...............)--))))).-- ( -24.46, z-score =  -2.71, R)
>droSec1.super_36 187210 105 + 449511
-----AAGUCUUAAAAGACGUGUAAAAUGUUGCAAAUUGAGCAAAUAUAUA-UGCAUAUAUGGGUAAUGUUUUACGCGCCUUAACCAGUCAAAAUACUAAAUAAA--UUGGUA--
-----.........(((.(((((((((((((((..((...(((........-)))....))..))))))))))))))).))).((((((...............)--))))).-- ( -24.46, z-score =  -2.42, R)
>droYak2.chrX 11080752 105 - 21770863
-----AAGUCUUAAAAGACGUGUAAAAUGUUGCAAAUUAAGCAAAUAUAUA-UGCAUAUAUGGGUAACGUUUUACGCGCCUUAACCAGUCAAAACACUAAAUAAA--UUGGCA--
-----..((((....))))((((((((((((((..((((.(((........-))).)).))..))))))))))))))(((......(((......))).......--..))).-- ( -26.66, z-score =  -3.23, R)
>droEre2.scaffold_4690 15060785 103 - 18748788
-----AAGUCUUAAAAGACGUGUAAAAUGUUGCAAAUUAAGCAAAUAUAUA-UGCAUACAUGGGUAACGUUUUACGCGCCUUAACCAGUCAAAAUACUAA--AAA--UGUAUA--
-----..(.((...(((.(((((((((((((((..((((.(((........-))).)).))..))))))))))))))).)))....)).)...((((...--...--.)))).-- ( -24.90, z-score =  -3.17, R)
>droAna3.scaffold_13417 6463227 105 - 6960332
-----AAGUCUUGAAAGGCAUGCAAAAUGUUGCAAAA-AUAUAUACAUAUAGUAUAUAAAAUGGUAAUGUUUUACGCGCCUUAACCAGCAACCAAACAAAAGUAU---UGAUUU-
-----.........(((((.((.((((((((((....-.(((((((.....))))))).....)))))))))).)).))))).......................---......- ( -21.10, z-score =  -1.54, R)
>dp4.chrXL_group1a 2821804 99 - 9151740
---CAAAAGUCAAAAAGGCACGUAAAAUGUUGCAAA-------AAAAUGCA-U---UGCAAUGGUAACGUUUUACGAGCCUUAAAAAAUCUCAAAACAAAAAUAUGUUUGAUA--
---.....(((...(((((.(((((((((((((...-------....(((.-.---.)))...))))))))))))).)))))...........(((((......)))))))).-- ( -26.40, z-score =  -4.80, R)
>droPer1.super_25 996521 99 + 1448063
---CAAAAGUCAAAAAGGCACGUAAAAUGUUGCAAA-------AAAAUGCA-U---UGCAAUGGUAACGUUUUACGAGCCUUAAAAAAUCUCAAAACAAAAUUAUGUUUGAUA--
---.....(((...(((((.(((((((((((((...-------....(((.-.---.)))...))))))))))))).)))))...........(((((......)))))))).-- ( -26.40, z-score =  -4.63, R)
>droWil1.scaffold_180777 4703622 102 - 4753960
UUAAGACCUAUAAAAAGGCAUGUGAAAUGUUGCAAAA-----AAAAAAAAA------AAAAGGGUAACGUUUUACGCGCCUUAACAAAUC--CAUCUAAAUUUAUAAUUUGUCUA
...((((.(((((((((((.(((((((((((((....-----.........------......))))))))))))).)))))........--........))))))....)))). ( -22.20, z-score =  -3.54, R)
>consensus
_____AAGUCUUAAAAGACGUGUAAAAUGUUGCAAAUUAAGCAAAUAUAUA_UGCAUAUAUGGGUAACGUUUUACGCGCCUUAACCAGUCAAAAUACAAAAUAAA__UUGGUA__
..............(((.(.(((((((((((((.......((...........))........))))))))))))).).)))................................. (-12.38 = -11.92 +  -0.46)

alignment

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secondary structure

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dotplot

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Window 7

Location 11,474,120 – 11,474,223
Length 103
Sequences 8
Columns 112
Reading direction forward
Mean pairwise identity 73.51
Shannon entropy 0.50680
G+C content 0.29150
Mean single sequence MFE -17.16
Consensus MFE -6.16
Energy contribution -5.81
Covariance contribution -0.34
Combinations/Pair 1.53
Mean z-score -2.20
Structure conservation index 0.36
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.58
SVM RNA-class probability 0.749154
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11474120 103 + 22422827
GCCUUAACCAGUCAAAAUACAAAAUAAA--UUGGUAAAUUUCAUAUAACUAGUGAAAUGUUAUACGAAAC-UUAACAAUUGCCAAAUAAUACAGAUCGAUUUAGAG------
............................--((((((((((((((.......)))))))((((........-.))))..))))))).....................------ ( -12.00, z-score =  -0.84, R)
>droSim1.chrU 12343383 103 + 15797150
GCCUUAACCAGUCAAAAUACAAAAUAAA--UUGGUAAAUUUCAUAUAACUAGUGAAAUGUUAUACGAAAC-UUAACAAUUGCCAAAUAAUACAGAUCUAUUUAGAG------
............................--((((((((((((((.......)))))))((((........-.))))..))))))).....................------ ( -12.00, z-score =  -0.89, R)
>droSec1.super_36 187281 103 + 449511
GCCUUAACCAGUCAAAAUACUAAAUAAA--UUGGUAAAUUUCAUAUAACUAGUGAAAUGUUAUACGAAAC-UUAACAAUUGCCAAAUAAUACAGAUCUAUUUAGAG------
...................(((((((..--((((((((((((((.......)))))))((((........-.))))..)))))))............)))))))..------ ( -13.34, z-score =  -1.30, R)
>droYak2.chrX 11080823 103 - 21770863
GCCUUAACCAGUCAAAACACUAAAUAAA--UUGGCAAAUUUCAUAUAACUAGUGAAAUGUUAUACGAAAC-UUGCCAAUUGUCAAAUAAUCCAGAUCUAUUUAGAG------
...................(((((((((--(((((((.((((.((((((.........)))))).)))).-)))))))))(((..........))).)))))))..------ ( -22.60, z-score =  -4.53, R)
>droEre2.scaffold_4690 15060856 101 - 18748788
GCCUUAACCAGUCAAAAUACUAA--AAA--UGUAUAAAUUUCAUAUAACUAGUGAAAUGUUGUACGAAAC-UUAGCAAUUGUCAAGUUAUUCAGAUCUAUUUAGAG------
...................((((--(..--((((((((((((((.......))))))).))))))).(((-((..(....)..)))))...........)))))..------ ( -15.90, z-score =  -1.44, R)
>droAna3.scaffold_13417 6463298 110 - 6960332
GCCUUAACCAGCAACCAAACAAAAGUAU--UGAUUUUUUUUCGUAUGACGCAUGCAACGUUAUACGAAACAUUCUCAAUAAACAAAAAACACAAAAGCGUCUUCAAUUCGAG
((........)).............(((--(((.....((((((((((((.......)))))))))))).....))))))................................ ( -18.20, z-score =  -2.41, R)
>dp4.chrXL_group1a 2821867 98 - 9151740
GCCUUAAAAAAUCUCAAAACAAAAAUAUGUUUGAUAAAUUUCGUAUGACUCAUGAAAUGUGAUACGAAAU-UUGUUGAUUAUCG-------CCGACUUGUUCAGAG------
............(((..(((((....(((.(..(((((((((((((.((.........)).)))))))))-))))..).)))..-------.....)))))..)))------ ( -21.60, z-score =  -3.16, R)
>droPer1.super_25 996584 98 + 1448063
GCCUUAAAAAAUCUCAAAACAAAAUUAUGUUUGAUAAAUUUCGUAUGACUCAUGAAAUGUGAUACGAAAU-UUGUUGAUUAUCG-------CCGACUUGUUCAGAG------
............(((..(((((....(((.(..(((((((((((((.((.........)).)))))))))-))))..).)))..-------.....)))))..)))------ ( -21.60, z-score =  -3.02, R)
>consensus
GCCUUAACCAGUCAAAAUACAAAAUAAA__UUGGUAAAUUUCAUAUAACUAGUGAAAUGUUAUACGAAAC_UUAACAAUUGUCAAAUAAUACAGAUCUAUUUAGAG______
..............................(((((((.((((.((((((.........)))))).)))).........)))))))........................... ( -6.16 =  -5.81 +  -0.34)

alignment

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secondary structure

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dotplot

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Window 8

Location 11,474,120 – 11,474,223
Length 103
Sequences 8
Columns 112
Reading direction reverse
Mean pairwise identity 73.51
Shannon entropy 0.50680
G+C content 0.29150
Mean single sequence MFE -22.06
Consensus MFE -6.48
Energy contribution -6.34
Covariance contribution -0.14
Combinations/Pair 1.18
Mean z-score -2.33
Structure conservation index 0.29
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.03
SVM RNA-class probability 0.508973
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11474120 103 - 22422827
------CUCUAAAUCGAUCUGUAUUAUUUGGCAAUUGUUAA-GUUUCGUAUAACAUUUCACUAGUUAUAUGAAAUUUACCAA--UUUAUUUUGUAUUUUGACUGGUUAAGGC
------.(((.(((((.((.((((........(((((.(((-((((((((((((.........))))))))))))))).)))--))......))))...)).))))).))). ( -22.44, z-score =  -3.01, R)
>droSim1.chrU 12343383 103 - 15797150
------CUCUAAAUAGAUCUGUAUUAUUUGGCAAUUGUUAA-GUUUCGUAUAACAUUUCACUAGUUAUAUGAAAUUUACCAA--UUUAUUUUGUAUUUUGACUGGUUAAGGC
------(..(((.(((.((.((((........(((((.(((-((((((((((((.........))))))))))))))).)))--))......))))...))))).)))..). ( -20.14, z-score =  -1.95, R)
>droSec1.super_36 187281 103 - 449511
------CUCUAAAUAGAUCUGUAUUAUUUGGCAAUUGUUAA-GUUUCGUAUAACAUUUCACUAGUUAUAUGAAAUUUACCAA--UUUAUUUAGUAUUUUGACUGGUUAAGGC
------(..(((.(((.((.((((((..((..(((((.(((-((((((((((((.........))))))))))))))).)))--))))..))))))...))))).)))..). ( -23.20, z-score =  -2.99, R)
>droYak2.chrX 11080823 103 + 21770863
------CUCUAAAUAGAUCUGGAUUAUUUGACAAUUGGCAA-GUUUCGUAUAACAUUUCACUAGUUAUAUGAAAUUUGCCAA--UUUAUUUAGUGUUUUGACUGGUUAAGGC
------..(((((((((..((..........)).(((((((-((((((((((((.........)))))))))))))))))))--))))))))).(((((((....))))))) ( -31.10, z-score =  -4.97, R)
>droEre2.scaffold_4690 15060856 101 + 18748788
------CUCUAAAUAGAUCUGAAUAACUUGACAAUUGCUAA-GUUUCGUACAACAUUUCACUAGUUAUAUGAAAUUUAUACA--UUU--UUAGUAUUUUGACUGGUUAAGGC
------....................((((((......(((-((((((((.(((.........))).)))))))))))....--...--.((((......)))))))))).. ( -16.60, z-score =  -0.78, R)
>droAna3.scaffold_13417 6463298 110 + 6960332
CUCGAAUUGAAGACGCUUUUGUGUUUUUUGUUUAUUGAGAAUGUUUCGUAUAACGUUGCAUGCGUCAUACGAAAAAAAAUCA--AUACUUUUGUUUGGUUGCUGGUUAAGGC
.((((((.((((((((....))))........((((((.....((((((((.((((.....)))).)))))))).....)))--))))))).))))))..(((......))) ( -27.80, z-score =  -2.08, R)
>dp4.chrXL_group1a 2821867 98 + 9151740
------CUCUGAACAAGUCGG-------CGAUAAUCAACAA-AUUUCGUAUCACAUUUCAUGAGUCAUACGAAAUUUAUCAAACAUAUUUUUGUUUUGAGAUUUUUUAAGGC
------..........(((..-------....((((...((-(((((((((.((.........)).))))))))))).(((((((......)).)))))))))......))) ( -17.60, z-score =  -1.45, R)
>droPer1.super_25 996584 98 - 1448063
------CUCUGAACAAGUCGG-------CGAUAAUCAACAA-AUUUCGUAUCACAUUUCAUGAGUCAUACGAAAUUUAUCAAACAUAAUUUUGUUUUGAGAUUUUUUAAGGC
------..........(((..-------....((((...((-(((((((((.((.........)).))))))))))).(((((((......)).)))))))))......))) ( -17.60, z-score =  -1.44, R)
>consensus
______CUCUAAAUAGAUCUGUAUUAUUUGACAAUUGAUAA_GUUUCGUAUAACAUUUCACUAGUUAUAUGAAAUUUACCAA__UUUAUUUUGUAUUUUGACUGGUUAAGGC
..........................................(((((((((.((.........)).)))))))))..................................... ( -6.48 =  -6.34 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 9

Location 11,474,154 – 11,474,253
Length 99
Sequences 8
Columns 109
Reading direction reverse
Mean pairwise identity 74.05
Shannon entropy 0.48994
G+C content 0.35903
Mean single sequence MFE -23.38
Consensus MFE -7.62
Energy contribution -7.75
Covariance contribution 0.13
Combinations/Pair 1.20
Mean z-score -2.37
Structure conservation index 0.33
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.690181
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11474154 99 - 22422827
---GAGAGAGAUCGCCUCUCUAUUGUCAUCUCGCUCUAAAUCGA------UCUGUAUUAUUUGGCAAUUGUUAA-GUUUCGUAUAACAUUUCACUAGUUAUAUGAAAUU
---.((((((.....))))))(((((((................------...........))))))).....(-((((((((((((.........))))))))))))) ( -21.83, z-score =  -2.11, R)
>droSim1.chrU 12343417 99 - 15797150
---GAGAGAGAUCGCCUCUCUAUGGCCAUCUCGCUCUAAAUAGA------UCUGUAUUAUUUGGCAAUUGUUAA-GUUUCGUAUAACAUUUCACUAGUUAUAUGAAAUU
---(((.(((((.(((.......))).))))).)))........------..........(((((....)))))-((((((((((((.........)))))))))))). ( -27.30, z-score =  -3.53, R)
>droSec1.super_36 187315 99 - 449511
---GAGAGAGAUCGCCUCUCUAUUGCCAUCUCGCUCUAAAUAGA------UCUGUAUUAUUUGGCAAUUGUUAA-GUUUCGUAUAACAUUUCACUAGUUAUAUGAAAUU
---.((((((.....))))))(((((((....(((((....)))------...))......))))))).....(-((((((((((((.........))))))))))))) ( -25.00, z-score =  -3.13, R)
>droYak2.chrX 11080857 99 + 21770863
---GAGGGAGAUCACCUCUCUAUUGCCAUCUUGCUCUAAAUAGA------UCUGGAUUAUUUGACAAUUGGCAA-GUUUCGUAUAACAUUUCACUAGUUAUAUGAAAUU
---.((((((.....)))))).((((((..(((.((.((((((.------......))))))))))).))))))-((((((((((((.........)))))))))))). ( -26.90, z-score =  -3.19, R)
>droEre2.scaffold_4690 15060888 99 + 18748788
---GAGAGAGAUCACCUCUCUAUUGCCAUCCUGCUCUAAAUAGA------UCUGAAUAACUUGACAAUUGCUAA-GUUUCGUACAACAUUUCACUAGUUAUAUGAAAUU
---.((((((.....)))))).......................------.......................(-((((((((.(((.........))).))))))))) ( -14.20, z-score =   0.03, R)
>droAna3.scaffold_13417 6463332 106 + 6960332
---GAAAGAGAUCGCCAAUGUCUAUCUGUCUCGCUCGAAUUGAAGACGCUUUUGUGUUUUUUGUUUAUUGAGAAUGUUUCGUAUAACGUUGCAUGCGUCAUACGAAAAA
---((.(((.((.....)).))).))..(((((...((((.((((((((....)))))))).))))..)))))...((((((((.((((.....)))).)))))))).. ( -28.40, z-score =  -1.90, R)
>dp4.chrXL_group1a 2821903 94 + 9151740
UCUGAAAGAGAUCGCCUCUAAGC-UCCAUCCUGCUCUGAACAAG------UCGG-------CGAUAAUCAACAA-AUUUCGUAUCACAUUUCAUGAGUCAUACGAAAUU
.......((.((((((((..(((-........)))..)).....------..))-------))))..))....(-(((((((((.((.........)).)))))))))) ( -20.81, z-score =  -1.96, R)
>droPer1.super_25 996620 94 - 1448063
UCUGAAAGAUAUCGCCUCUAAGC-UCCAUCCUGCUCUGAACAAG------UCGG-------CGAUAAUCAACAA-AUUUCGUAUCACAUUUCAUGAGUCAUACGAAAUU
.......(((((((((((..(((-........)))..)).....------..))-------)))).)))....(-(((((((((.((.........)).)))))))))) ( -22.61, z-score =  -3.17, R)
>consensus
___GAGAGAGAUCGCCUCUCUAUUGCCAUCUCGCUCUAAAUAGA______UCUGUAUUAUUUGACAAUUGAUAA_GUUUCGUAUAACAUUUCACUAGUUAUAUGAAAUU
......((((.....))))........................................................(((((((((.((.........)).))))))))). ( -7.62 =  -7.75 +   0.13)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:34:46 2011