Locus 6798

Sequence ID	dm3.chr3L
Location	9,893,658 – 9,893,798
Length	140
Max. P	0.723714

overview

Window 0

Location	9,893,658 – 9,893,798
Length	140
Sequences	14
Columns	140
Reading direction	reverse
Mean pairwise identity	77.68
Shannon entropy	0.50277
G+C content	0.46658
Mean single sequence MFE	-29.15
Consensus MFE	-12.02
Energy contribution	-11.81
Covariance contribution	-0.21
Combinations/Pair	1.93
Mean z-score	-1.92
Structure conservation index	0.41
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.51
SVM RNA-class probability	0.723714
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 9893658 140 - 24543557
ACCUCUCGUCUCAUCCAUUAAUCGCUGUAGUUUUUCCUGCAGCAAUCCCUUUUCAUCCACUUCCAGCUCCAGAAGGGCGUUCUUCUCGUAGGCCUGAUCCAGCAUCUUCUCGAAAUUCUCUAUGCUUUCGUUAAGUAUGC
...((..(((((...........(((((((......)))))))...(((((((.................)))))))..........).))))..))....(((((((..(((((..........)))))..))).)))) ( -27.93, z-score =  -1.81, R)
>droSim1.chr3L 9279444 140 - 22553184
ACCUCUCGUCUCAUCCAUUAAUCGCUGUAGUUUCUCCUGCAGCAAACCCUUUUCAUCCACUUCCAGCUCCAGGAGGGCGUUCUUCUCGUAGGCCUGAUCCAGCAUCUUCUCGAAAUUUUCUAUGCUUUCGUUAAGUAUAC
.....(((...............(((((((......)))))))......................(((.((((...(((.......)))...))))....))).......))).......(((((((.....))))))). ( -27.20, z-score =  -1.40, R)
>droSec1.super_0 2126071 140 - 21120651
ACCUCUCGUCUCAUCCAUUAAUCGCUGUAGUUUUUCCUGCAGCAAACCCUUUUCAUCCACUUCCAGCUCCAGGAGGGCGUUCUUCUCGUAGGCCUGAUCCAGCAUCUUCUCGAAAUUCUCUAUGCUUUCGUUAAGUAUAC
.....(((...............(((((((......)))))))......................(((.((((...(((.......)))...))))....))).......))).......(((((((.....))))))). ( -27.20, z-score =  -1.40, R)
>droYak2.chr3L 9869998 140 - 24197627
ACCUCUCGUCUCAUCCAUCAACCGCUGCAGUUUUUCCUGCAGCAAUCCCUUUUCAUCCACUUCCAGCUCUAGAAGGGCGUUCUUCUCGUAGGCCUGAUCCAGCAUUUUCUCGAAAUUCUCUAUGCUUUCGUUGAGUAUGC
...((..(((((...........(((((((......)))))))......................((((.....)))).........).))))..))....((((.(((.(((((..........)))))..))).)))) ( -29.20, z-score =  -1.27, R)
>droEre2.scaffold_4784 9885297 140 - 25762168
ACCUCUCGUCUCAUCCAUCAACCGCUGCAGUUUUUCCUGCAGCAAUCCCUUUUCAUCCACUUCCAGCUCUAGAAGGGCGUUCUUUUCGUAGGCCUGAUCCAGCAUUUUCUCGAAAUUCUCUAUGCUUUCAUUGAGUAUGC
......(((((((..........(((((((......)))))))....................(((..(((((((((....)))))).)))..)))....(((((................))))).....)))).))). ( -28.19, z-score =  -1.23, R)
>droAna3.scaffold_13337 14823416 139 - 23293914
-CCUCUCGUCUCAUCCAUCAACCGCUGCAGCUUCUCCUGCAACACACCCUUUUCGUCUACCUCCAGCUCGAGAAGAGCGUUCUUCUCGUACGCCACAUCCAACAUCUUCUCGAAAUUCUCUAUGCUUUCGUUGAGUAUGC
-..........(((...(((((.(.(((((......))))).)........................(((((((((((((.(.....).))))...........)))))))))................)))))..))). ( -25.80, z-score =  -1.91, R)
>dp4.chrXR_group6 5562147 140 + 13314419
ACCUCGCGUCUCAUCCAUUAGCCGUUGCAGCUUCUCUUGCAGCAGACCCUUUUCAUCCACCUCCAACUCGAGCAGAGCAUUCUUCUCAUAUGCUUGAUCCAACAUCUUUUCAAAGUUCUCUAUGCUUUCGUUGAGUAUGC
.....((((((((......(((.(((((((......)))))))(((..((((...............((((((((((.......)))...)))))))..............))))...)))..))).....)))).)))) ( -26.85, z-score =  -1.24, R)
>droPer1.super_27 702977 140 - 1201981
ACCUCGCGUCUCAUCCAUUAGCCGUUGCAGCUUCUCUUGCAGCAGACCCUUUUCAUCCACCUCCAACUCGAGCAGAGCAUUCUUCUCAUAUGCUUGAUCCAACAUCUUUUCAAAGUUCUCUAUGCUUUCGUUGAGUAUGC
.....((((((((......(((.(((((((......)))))))(((..((((...............((((((((((.......)))...)))))))..............))))...)))..))).....)))).)))) ( -26.85, z-score =  -1.24, R)
>droWil1.scaffold_180698 4999920 140 + 11422946
ACCUCGCGUCUCAUCCAUGAGCCGCUGCAGUUUUUCCUGCAGCAAUCCUUUCUCGUCUACCUCCAGUUCAAGCAGGGCAUUCUUUUCGUAUGCCUGAUCCAACAUUUUCUCAAAAUUCUCUAUGCUCUCGUUGAGAAUGC
.....((((((((.....((((.(((((((......)))))))......................(((......((((((.(.....).)))))).....)))....................))))....)))).)))) ( -34.70, z-score =  -3.10, R)
>droVir3.scaffold_13049 9022484 140 - 25233164
ACCGCGGGUCUCGUCCAUUAGCCGCUGCAGCUUCUCCUGCAGCAUUUCCUUUUCGUCCACCUCCAUCUCGAGAAGUGCAUUUUUCUCAUAGGCUUUGUCCAACAUUUUCUCAAAGUCUACUAUGCUCUCAUUGAGUAUGC
...(.((((..((..........(((((((......)))))))..........))...)))).).....((((((......)))))).(((((((((.............))))))))).(((((((.....))))))). ( -37.67, z-score =  -3.83, R)
>droMoj3.scaffold_6680 18444653 140 + 24764193
ACCACGAGUCUCGUCCAUUAGUCGCUGUAACUUCUCUUGCAGAACCUCCUUCUCGUCCACCUCCAUCUCAAGGAGUGCAUUCUUUUCAUAGGCUUUGUCCAACAUCUUCUCAAAGUCUACUAUGCUCUCGUUGAGUAUGC
...(((((...((.(.....).))((((((......)))))).........))))).......((((((((.(((.((((........(((((((((.............)))))))))..)))).))).))))).))). ( -33.12, z-score =  -3.28, R)
>droGri2.scaffold_15110 4796307 140 - 24565398
ACCGCGGGUCUCGUCCAUUAGCCGCUGCAGCUUCUCUUGCAGCAUCUCCUUCUCGUCCACCUCCAUCUCAAGGAGCGCAUUCUUUUCAUAGGCUUUGUCCAACAUCUUCUCAAAGUCUACUAUGCUCUCGUUGAGUAUUC
...(.((((..((......((..(((((((......)))))))..))......))...)))).)..(((((.(((.((((........(((((((((.............)))))))))..)))).))).)))))..... ( -37.22, z-score =  -4.06, R)
>anoGam1.chr3R 7372569 140 + 53272125
AUCGCGCGCCUCAUCCAUUAAUCGCUGCAGCUUAAUCUGCAUGCGCUCCUUCUCGUCCACCUCCAGCUCGAGCAGUGCGUUCUUCUCGUACGCCUGGUUCAGCAUCGAUUCGAAUUCGGCCACACUUUCGCUCGCUACCC
...(((.((.............((((((((......))))).))).........(.((.......(((.((.(((.((((.(.....).))))))).)).))).(((...)))....)).)........)).)))..... ( -33.00, z-score =  -0.54, R)
>apiMel3.GroupUn 43091088 140 - 399230636
ACCUCUUAUUUCAUCCAUUAGUCUUUGUACUAUAACUUUUAAAGCUUCUUUUUCAUCAAGUUCUGAUUCUAACAAAGCAUUCUUUUCAAUAGCAGAAUUAAGUUUAGCUUCUAUUUCUUCUUCUGUUACCCUAUUUAUUC
..................((((......))))...........((((..((...((((.....))))...))..))))...........((((((((..(((..(((...)))...))).))))))))............ ( -13.10, z-score =  -0.52, R)
>consensus
ACCUCGCGUCUCAUCCAUUAACCGCUGCAGCUUCUCCUGCAGCAAUCCCUUUUCAUCCACCUCCAGCUCGAGAAGGGCAUUCUUCUCGUAGGCCUGAUCCAACAUCUUCUCGAAAUUCUCUAUGCUUUCGUUGAGUAUGC
.......................(((((((......))))))).............................................................................(((((((.....))))))). (-12.02 = -11.81 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:14:36 2011