Locus 14367

Sequence ID dm3.chrX
Location 12,905,418 – 12,905,568
Length 150
Max. P 0.999193
window19777 window19778 window19779 window19780

overview

Window 7

Location 12,905,418 – 12,905,530
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 71.05
Shannon entropy 0.52517
G+C content 0.48450
Mean single sequence MFE -33.20
Consensus MFE -19.90
Energy contribution -20.55
Covariance contribution 0.65
Combinations/Pair 1.48
Mean z-score -1.86
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.15
SVM RNA-class probability 0.983891
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12905418 112 + 22422827
------AAUUUAAUCCAUGACAACGCAACGAUAUGCUUCUGCAAAGUCAGUCUAAUGAUGGCCACGGCCGGGGGAAACCUAUUGCCAUGGCCCACACUGUAACGGACAGCACAUGUCC--
------...........((((...(((..((......)))))...))))(((....)))(((((.(((..(((....)))...))).)))))...........(((((.....)))))-- ( -33.90, z-score =  -1.63, R)
>droAna3.scaffold_13117 3834466 102 + 5790199
GAAAAAAAGGUGAUUUUUAAGGGGAUAGUUAUA-----CUAUAAUAUCAACCUAAUGAU--UUAAGGAAUGGGAACAAUUUUUGUAAACAAAAAAACUGAAAGGGAAAU-----------
.......(((((((..(((.((...........-----)).))).))).))))......--........((....)).((((((....))))))..((....)).....----------- ( -10.30, z-score =   0.44, R)
>droEre2.scaffold_4690 4789156 101 - 18748788
-------AUUUAAUCC-UGGCAACGCAGCGAUAUGCU-CUGCAAAGUCAGUUUGGUGAUGGUCGCGGCCGGGG-AAACCUACUGCCAUGGCCGACACUGUACCGGACGGCC---------
-------.........-.(((...((((.(.....).-))))...(((.((.(((((.((((((.(((.(((.-...)))...))).)))))).))))).))..))).)))--------- ( -37.00, z-score =  -1.14, R)
>droYak2.chrX 7176444 105 + 21770863
------AAUUUAAUCCCUGGCAACGCAGCGAUAUGCCUCUGCAAAGUCAGUCUAAUGAUGGCCACGGCCUGGGGAAACCUAUUGCCAUGGCCGACACUGUAACGGACAGUG---------
------..........(((((...((((.(......).))))...)))))........((((((.(((.((((....))))..))).)))))).((((((.....))))))--------- ( -39.90, z-score =  -3.26, R)
>droSec1.super_21 648804 113 + 1102487
------AAAUUAAACCCUGACAACGCAGCGAUAUGCUUCUGCAAAGUCUGUCUAAUGAUGGCCACGGCCGGGG-AGACCUAUUGCCAUGGCCGACACUGUAACGGACAGCACAUGUCCAG
------..................((((.....(((....)))..(((.(((....)))(((((.(((.(((.-...)))...))).)))))))).))))...(((((.....))))).. ( -38.70, z-score =  -2.80, R)
>droSim1.chrX 9835289 113 + 17042790
------AAUUUAAUCCCUGACAACGCAGCGAUAUGCUUCUGCAAAGUCAGUCUAAUGAUGGCCACGGCCGGGG-AGACCUAUUGCCAUGGCCGACACUGUAACGGACAGCACAUGUCCAG
------......(((.(((......))).))).(((....)))..(((.(((....)))(((((.(((.(((.-...)))...))).))))))))........(((((.....))))).. ( -39.40, z-score =  -2.79, R)
>consensus
______AAUUUAAUCCCUGACAACGCAGCGAUAUGCUUCUGCAAAGUCAGUCUAAUGAUGGCCACGGCCGGGG_AAACCUAUUGCCAUGGCCGACACUGUAACGGACAGCA_________
.............((((((((...((((.(......).))))...))))).....((.((((((.(((..(((....)))...))).)))))).)).......))).............. (-19.90 = -20.55 +   0.65)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,905,418 – 12,905,530
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 71.05
Shannon entropy 0.52517
G+C content 0.48450
Mean single sequence MFE -33.24
Consensus MFE -21.91
Energy contribution -24.72
Covariance contribution 2.81
Combinations/Pair 1.24
Mean z-score -1.37
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.60
SVM RNA-class probability 0.953658
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12905418 112 - 22422827
--GGACAUGUGCUGUCCGUUACAGUGUGGGCCAUGGCAAUAGGUUUCCCCCGGCCGUGGCCAUCAUUAGACUGACUUUGCAGAAGCAUAUCGUUGCGUUGUCAUGGAUUAAAUU------
--.(((((.(((.(((.(((..((((..(((((((((....((......)).)))))))))..)))).))).)))...))).).(((......)))..))))............------ ( -39.00, z-score =  -1.64, R)
>droAna3.scaffold_13117 3834466 102 - 5790199
-----------AUUUCCCUUUCAGUUUUUUUGUUUACAAAAAUUGUUCCCAUUCCUUAA--AUCAUUAGGUUGAUAUUAUAG-----UAUAACUAUCCCCUUAAAAAUCACCUUUUUUUC
-----------..........((((((((........))))))))..............--......((((.(((.((((((-----.....)))).......)).)))))))....... (  -6.51, z-score =   0.10, R)
>droEre2.scaffold_4690 4789156 101 + 18748788
---------GGCCGUCCGGUACAGUGUCGGCCAUGGCAGUAGGUUU-CCCCGGCCGCGACCAUCACCAAACUGACUUUGCAG-AGCAUAUCGCUGCGUUGCCA-GGAUUAAAU-------
---------(((((.((......).).)))))((((..((.((((.-....))))))..)))).......(((.(..(((((-.(.....).)))))..).))-)........------- ( -28.30, z-score =   0.92, R)
>droYak2.chrX 7176444 105 - 21770863
---------CACUGUCCGUUACAGUGUCGGCCAUGGCAAUAGGUUUCCCCAGGCCGUGGCCAUCAUUAGACUGACUUUGCAGAGGCAUAUCGCUGCGUUGCCAGGGAUUAAAUU------
---------....((((.....((((..(((((((((....((....))...)))))))))..))))...(((.(..(((((.((....)).)))))..).)))))))......------ ( -37.90, z-score =  -2.03, R)
>droSec1.super_21 648804 113 - 1102487
CUGGACAUGUGCUGUCCGUUACAGUGUCGGCCAUGGCAAUAGGUCU-CCCCGGCCGUGGCCAUCAUUAGACAGACUUUGCAGAAGCAUAUCGCUGCGUUGUCAGGGUUUAAUUU------
..(((((.....)))))(((..((((..(((((((((....((...-..)).)))))))))..)))).)))(((((((((((.(((.....)))...))).)))))))).....------ ( -43.20, z-score =  -2.68, R)
>droSim1.chrX 9835289 113 - 17042790
CUGGACAUGUGCUGUCCGUUACAGUGUCGGCCAUGGCAAUAGGUCU-CCCCGGCCGUGGCCAUCAUUAGACUGACUUUGCAGAAGCAUAUCGCUGCGUUGUCAGGGAUUAAAUU------
..(((((.....))))).....((((..(((((((((....((...-..)).)))))))))..))))...(((((..(((((..........)))))..)))))..........------ ( -44.50, z-score =  -2.88, R)
>consensus
_________UGCUGUCCGUUACAGUGUCGGCCAUGGCAAUAGGUUU_CCCCGGCCGUGGCCAUCAUUAGACUGACUUUGCAGAAGCAUAUCGCUGCGUUGUCAGGGAUUAAAUU______
.............((((.....((((..(((((((((....((....))...)))))))))..))))...(((((..(((((..........)))))..)))))))))............ (-21.91 = -24.72 +   2.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 12,905,452 – 12,905,568
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 61.90
Shannon entropy 0.70648
G+C content 0.48966
Mean single sequence MFE -35.74
Consensus MFE -15.75
Energy contribution -16.56
Covariance contribution 0.81
Combinations/Pair 1.35
Mean z-score -2.60
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.70
SVM RNA-class probability 0.999193
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12905452 116 + 22422827
GCAAAGUCAGUCUAAUGAUGGCCACGGCCGGGGGAAACCUAUUGCCAUGGCCCACACUGUAACGGACAGCACAUGUCC----GCCACACUGCGAAAAAAAAUAGUUGCAGCUCUCAGCUA
((...((((......))))(((((.(((..(((....)))...))).)))))....((((((((((((.....)))))----((......))...........)))))))......)).. ( -42.70, z-score =  -2.98, R)
>droAna3.scaffold_13117 3834501 96 + 5790199
AUAAUAUCAACCUAAUGAU--UUAAGGAAUGGGAACAAUUUUUGUAAACAAAAAAACUGAAAGGGAAAUGCAACUUUAUAAAAACACCUUGACUUCCA----------------------
.....((((......))))--((((((..((....)).((((((((((........((....))..........))))))))))..))))))......---------------------- ( -12.07, z-score =  -0.18, R)
>droEre2.scaffold_4690 4789187 88 - 18748788
GCAAAGUCAGUUUGGUGAUGGUCGCGGCCGGGG-AAACCUACUGCCAUGGCCGACACUGUACCGGACGGCCCUUACAU--UAGCUAUUUCA-----------------------------
((...(((.((.(((((.((((((.(((.(((.-...)))...))).)))))).))))).))..))).))........--...........----------------------------- ( -29.70, z-score =  -0.84, R)
>droYak2.chrX 7176478 100 + 21770863
GCAAAGUCAGUCUAAUGAUGGCCACGGCCUGGGGAAACCUAUUGCCAUGGCCGACACUGUAACGGACAGUG-----------GCCACACUGAGCGAAAA--UAGUUGUCAUCA-------
.....((((......))))(((((.(((.((((....))))..))).)))))((((((((..((..(((((-----------....)))))..))...)--))).))))....------- ( -39.90, z-score =  -3.48, R)
>droSec1.super_21 648838 111 + 1102487
GCAAAGUCUGUCUAAUGAUGGCCACGGCCGGGG-AGACCUAUUGCCAUGGCCGACACUGUAACGGACAGCACAUGUCCAGUGACCACACUGAGAAAAAAA-UAGUUGCAGCCA-------
.....(((.(((....)))(((((.(((.(((.-...)))...))).)))))))).((((((((((((.....)))))((((....))))..........-..)))))))...------- ( -44.10, z-score =  -4.01, R)
>droSim1.chrX 9835323 111 + 17042790
GCAAAGUCAGUCUAAUGAUGGCCACGGCCGGGG-AGACCUAUUGCCAUGGCCGACACUGUAACGGACAGCACAUGUCCAGUGGCCACACUGAGAAAAAAA-UAGUUGCAGCCA-------
.....(((.(((....)))(((((.(((.(((.-...)))...))).)))))))).((((((((((((.....)))))((((....))))..........-..)))))))...------- ( -46.00, z-score =  -4.12, R)
>consensus
GCAAAGUCAGUCUAAUGAUGGCCACGGCCGGGG_AAACCUAUUGCCAUGGCCGACACUGUAACGGACAGCACAUGUCC__U_GCCACACUGAGAAAAAA__UAGUUGCAGCCA_______
.....(((.......((.((((((.(((..(((....)))...))).)))))).))........)))..................................................... (-15.75 = -16.56 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,905,452 – 12,905,568
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 61.90
Shannon entropy 0.70648
G+C content 0.48966
Mean single sequence MFE -32.52
Consensus MFE -16.26
Energy contribution -18.32
Covariance contribution 2.06
Combinations/Pair 1.20
Mean z-score -1.17
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.71
SVM RNA-class probability 0.962371
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12905452 116 - 22422827
UAGCUGAGAGCUGCAACUAUUUUUUUUCGCAGUGUGGC----GGACAUGUGCUGUCCGUUACAGUGUGGGCCAUGGCAAUAGGUUUCCCCCGGCCGUGGCCAUCAUUAGACUGACUUUGC
(((((((((..................((((.((((((----(((((.....))))))))))).))))(((((((((....((......)).))))))))).)).)))).)))....... ( -48.40, z-score =  -3.36, R)
>droAna3.scaffold_13117 3834501 96 - 5790199
----------------------UGGAAGUCAAGGUGUUUUUAUAAAGUUGCAUUUCCCUUUCAGUUUUUUUGUUUACAAAAAUUGUUCCCAUUCCUUAA--AUCAUUAGGUUGAUAUUAU
----------------------((((((...((((((..((....))..))))))..))))))...((((((....)))))).................--((((......))))..... ( -11.10, z-score =   0.60, R)
>droEre2.scaffold_4690 4789187 88 + 18748788
-----------------------------UGAAAUAGCUA--AUGUAAGGGCCGUCCGGUACAGUGUCGGCCAUGGCAGUAGGUUU-CCCCGGCCGCGACCAUCACCAAACUGACUUUGC
-----------------------------...........--..(((((((((....))).((((...((..((((..((.((((.-....))))))..))))..))..)))).)))))) ( -22.40, z-score =   1.08, R)
>droYak2.chrX 7176478 100 - 21770863
-------UGAUGACAACUA--UUUUCGCUCAGUGUGGC-----------CACUGUCCGUUACAGUGUCGGCCAUGGCAAUAGGUUUCCCCAGGCCGUGGCCAUCAUUAGACUGACUUUGC
-------((((((((.((.--....((..(((((....-----------)))))..))....))))))(((((((((....((....))...)))))))))))))............... ( -34.40, z-score =  -1.96, R)
>droSec1.super_21 648838 111 - 1102487
-------UGGCUGCAACUA-UUUUUUUCUCAGUGUGGUCACUGGACAUGUGCUGUCCGUUACAGUGUCGGCCAUGGCAAUAGGUCU-CCCCGGCCGUGGCCAUCAUUAGACAGACUUUGC
-------((((..((.((.-..........))))..))))..(((((.....)))))(((..((((..(((((((((....((...-..)).)))))))))..)))).)))......... ( -38.30, z-score =  -1.46, R)
>droSim1.chrX 9835323 111 - 17042790
-------UGGCUGCAACUA-UUUUUUUCUCAGUGUGGCCACUGGACAUGUGCUGUCCGUUACAGUGUCGGCCAUGGCAAUAGGUCU-CCCCGGCCGUGGCCAUCAUUAGACUGACUUUGC
-------((((..((.((.-..........))))..))))..(((((.....)))))(((..((((..(((((((((....((...-..)).)))))))))..)))).)))......... ( -40.50, z-score =  -1.92, R)
>consensus
_______UGGCUGCAACUA__UUUUUUCUCAGUGUGGC_A__GGACAUGUGCUGUCCGUUACAGUGUCGGCCAUGGCAAUAGGUUU_CCCCGGCCGUGGCCAUCAUUAGACUGACUUUGC
.....................................................(((.(((...(((..(((((((((....((....))...)))))))))..)))..))).)))..... (-16.26 = -18.32 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:38:52 2011