Locus 1202

Sequence ID dm3.chr2L
Location 9,054,292 – 9,054,416
Length 124
Max. P 0.897105
window1641

overview

Window 1

Location 9,054,292 – 9,054,416
Length 124
Sequences 12
Columns 151
Reading direction forward
Mean pairwise identity 55.51
Shannon entropy 0.89770
G+C content 0.34878
Mean single sequence MFE -19.87
Consensus MFE -6.99
Energy contribution -7.02
Covariance contribution 0.03
Combinations/Pair 1.20
Mean z-score -1.15
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.13
SVM RNA-class probability 0.897105
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 9054292 124 + 23011544
----------------GUCUUUAAUCUUAGUUCGACUUUCAAUCCACUGUCAAGAAAGCGCAAUAACCAUUUUCCAA------UCGAUAACUUAAAAACGU----UCGCAACCAUCGAAUCCAUCACGUAAUUAAAC-UAAAUACGUGAUA
----------------.............(((((.(((((.............))))))).))).............------((((((((........))----).......)))))....((((((((.(((...-))).)))))))). ( -15.13, z-score =  -1.00, R)
>droGri2.scaffold_15126 5144708 119 - 8399593
----------------AUUUAUAAUCCGACUCUGAUGUAUAAUUUAGUUUGUAGUUGAA---------GCCAGUCC------AAACCACAUUUGGCAACUUUAAGCUGCCCUCAGCAAAUCCAUCACGUAAUUAAAC-UAAAAACGUGAUA
----------------..........(((((((((........)))).....)))))..---------(((((...------.........)))))........((((....))))......(((((((........-.....))))))). ( -20.52, z-score =  -1.33, R)
>droMoj3.scaffold_6500 20500649 134 - 32352404
----------------AUUUUUAACUGGAAUCGAACAUAUAAUUUAGUUAAUUGUAGCGCUAGGAAAUGCGAUUUCUAUCGCGCACAGUCUUCGGCAACUUAAAGCUGCCCUCAGCAAAUCCAUCACGUAAUUAAAC-UUAAAACGUGAUA
----------------..........(((.(((((..(((((((.....)))))))((((((((((......))))))..))))......))))).........((((....))))...)))(((((((........-.....))))))). ( -29.62, z-score =  -1.66, R)
>droVir3.scaffold_12963 19828531 120 - 20206255
------------------------UUAGACUCGGGCACAAAAUUUCGUUCAUUGUGGAGCAAAGAAAUGCCAUUUC------GUUCAACCUUCGGCAACUUAAAGCAGCCCUCAGCAAAUCCAUCACGUAAUUAAAC-UUAAAACGUGAUA
------------------------........((((..........((((......)))).......((((.....------...........))))..........))))...........(((((((........-.....))))))). ( -22.81, z-score =  -0.68, R)
>droWil1.scaffold_180703 3855746 106 + 3946847
------------------------------UC--ACUUAAAGUGAAAUAUAGAUUUGGUUCA--AGUUUGAAAGAAAU-----UAUUUUCUUUAAGAAUUU-----CGCUUUGCGCAAAUCUAUCACGUAAUUAAAC-UAAAAACGUGAUA
------------------------------..--...(((((((((((.((((((((...))--))))))(((((((.-----...)))))))....))))-----)))))))........((((((((........-.....)))))))) ( -24.22, z-score =  -3.15, R)
>droPer1.super_5 5750353 137 + 6813705
UCUUUUAAAUUUGUUCUAUCUUUCUAUCUUCC--ACG---AAUGUUAUCUUAAAGUUCCACA--UCCUUGGGCGGAAU-----UUCCCAAUCGAUAAGUUUAA--AUUUCUUGAACGAAUCCAUCACGUAAUUAAACGUAAAGACGUGAUA
........((((((((................--..(---(((.(((...))).))))...(--((.(((((......-----..)))))..)))........--.......))))))))..(((((((..(((....)))..))))))). ( -20.70, z-score =  -0.13, R)
>dp4.chr4_group5 1344360 137 + 2436548
UCUUUUAAAUUUCUUCUAUCUUUCUAUCUUUC--ACG---AAUGUUAUCUUAAAGUUCCACA--UCCUUGGGCGGAAU-----UUCCCAAUCGAUAAGUUUAA--AUUUCUUGAACGAAUCCAUCACGUAAUUAAACGUAAAGACGUGAUA
..........................((.(((--(.(---((..(((.(((((((((((.(.--.......).)))))-----)).........))))..)))--..))).)))).))....(((((((..(((....)))..))))))). ( -19.80, z-score =  -0.11, R)
>droAna3.scaffold_12943 393573 120 + 5039921
----------------AAAUUUAAUAACAUUC--ACUCC-AAUUUUAUGGGAAUGGUUUUCA--AACUAAAGUCCCUA-----UCGAUAACUGAACGAUUU----UUCCCUUCGAAGAAGCCAUCACGUAAUUAAAC-UGAAGACGUGAUA
----------------.............(((--.....-........((((.(((((....--)))))...))))..-----((((.....(((......----)))...)))).)))...(((((((..((....-.))..))))))). ( -19.30, z-score =  -0.33, R)
>droEre2.scaffold_4929 9655441 124 + 26641161
----------------GUCCUUAAUCUCAGUCAGACUUGCAAUCCACUGUCAAGAACGCGCAAUAACCAUUCUCCAA------UCGAUAACUUAAAAACGU----UCGCUGCCAUCGAAUCCAUCACGUAAUUAAAC-UAAAUACGUGAUA
----------------...........((((..(((............)))..(((((............((.....------..))...........)))----))))))...........((((((((.(((...-))).)))))))). ( -16.60, z-score =  -0.79, R)
>droYak2.chr2L 11714322 125 + 22324452
----------------CACUUUAAUCUCAGUCAGACUUUCAAUCCACUGUCAAGAAACAGCAAUAACCAUUCCCCAAA-----UCGAUAACUUAAAAACGU----UCGCUACCAUCGAAUCCAUCACGUAAUUAAAC-UAAAUACGUGAUA
----------------..............................((((......))))..................-----((((((((........))----).......)))))....((((((((.(((...-))).)))))))). ( -12.81, z-score =  -1.17, R)
>droSec1.super_3 4520493 124 + 7220098
----------------GUCUUUAAUCUCAGUUCGACUUUCAAUUCACUGUCAAGUGGCAGCAAUAACCAUUUUCCAA------UCGAUAACUUUAAAACGU----UCGCUACCAUCGAAUCCAUCACGUAAUUAAAC-UAAAUACGUGAUA
----------------.............((((((...........(((((....))))).................------.(((..............----)))......))))))..((((((((.(((...-))).)))))))). ( -18.44, z-score =  -1.68, R)
>droSim1.chr2L 8834738 124 + 22036055
----------------GUCUUUAAUCUCAGUUCGACUUUCAAUCCACUGUCAAGAGGCAGCAAUAACCAUUUUCCAA------UCGAUAACUUAAAAACAU----UCGCUACCAUCGAAUCCGUCACGUAAUUAAAC-UAAAUACGUGAUA
----------------.............((((((...........(((((....))))).................------.(((..............----)))......))))))..((((((((.(((...-))).)))))))). ( -18.44, z-score =  -1.74, R)
>consensus
________________GUCUUUAAUCUCAGUC_GACUUACAAUUUACUGUCAAGUAGCAGCAA_AACUAUUAUCCAA______UCGAUAACUUAAAAACUU____UCGCCAUCAUCGAAUCCAUCACGUAAUUAAAC_UAAAUACGUGAUA
..........................................................................................................................(((((((..(((....)))..))))))). ( -6.99 =  -7.02 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:27:30 2011