Locus 15471

Sequence ID	dm3.chrX
Location	19,219,534 – 19,219,734
Length	200
Max. P	0.827084

overview

Window 9

Location	19,219,534 – 19,219,632
Length	98
Sequences	3
Columns	98
Reading direction	forward
Mean pairwise identity	90.44
Shannon entropy	0.13119
G+C content	0.28771
Mean single sequence MFE	-20.23
Consensus MFE	-16.89
Energy contribution	-16.90
Covariance contribution	0.01
Combinations/Pair	1.11
Mean z-score	-2.01
Structure conservation index	0.83
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.74
SVM RNA-class probability	0.803385
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19219534 98 + 22422827
UUACUGGCAUUUCUGGAUGAUUUUUUUUUGGGUAUGAUAGAAGAAAUAAAUUUUGGAACUGAUUGUUCGGAUAUAAAAGCGUUUAUUUGCUUUUAUAA
..........(((..((....(((((((((.......))))))))).....))..)))((((....)))).((((((((((......)))))))))). ( -20.50, z-score =  -2.42, R)
>droSim1.chrX 14859246 97 + 17042790
UUACUGGCAUUUCUUGAUU-UUUUCUUUUGGGUAUAAUAGAAGAAAUAUAUCUUCGGACUGAUUGUUCGCAUAUAAAAGCGUUUAAUUGCUGUUAUAA
......((.......(((.-.(((((((((.......)))))))))...)))...((((.....)))))).(((((.((((......)))).))))). ( -19.50, z-score =  -1.65, R)
>droSec1.super_8 1512943 97 + 3762037
UUACUGGCAUUUCUUGAUU-UUUUCUUUUGCGUACAAUAGAAGAAAUAUAUCUUCGGACUGAUUGUUCGGAUAUAAAAGCGUUUAAUUGCUGUUAUAA
................(((-((((((.(((....))).))))))))).....(((((((.....)))))))(((((.((((......)))).))))). ( -20.70, z-score =  -1.95, R)
>consensus
UUACUGGCAUUUCUUGAUU_UUUUCUUUUGGGUAUAAUAGAAGAAAUAUAUCUUCGGACUGAUUGUUCGGAUAUAAAAGCGUUUAAUUGCUGUUAUAA
...............(((...(((((((((.......)))))))))...)))(((((((.....)))))))(((((.((((......)))).))))). (-16.89 = -16.90 +   0.01)

alignment

secondary structure

dotplot

Window 0

Location	19,219,596 – 19,219,699
Length	103
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	77.90
Shannon entropy	0.38230
G+C content	0.30163
Mean single sequence MFE	-21.98
Consensus MFE	-10.39
Energy contribution	-13.39
Covariance contribution	3.00
Combinations/Pair	1.11
Mean z-score	-2.39
Structure conservation index	0.47
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.82
SVM RNA-class probability	0.827084
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19219596 103 - 22422827
CAAUGAUUGUUUGGGCAUAGUUUGAUUUGUUUUUAAUCUGACGCACCUUAUUGAAAACGUUAUUA-------UUUUAUAAAAGCAAAUAAACGCUUUUAUAUCCGAACAA----
......(((((((((.......((((.((((((((((..(......)..))))))))))..))))-------...(((((((((........))))))))))))))))))---- ( -24.00, z-score =  -3.24, R)
>droSim1.chrX 14859307 103 - 17042790
CAAUGAUUGUUUGGUUAUAGUUUGAUUUGUUUUUAAUCAGACGCACCUUAUUGAAAGCGUUAAUA-------UUUUAUAACAGCAAUUAAACGCUUUUAUAUGCGAACAA----
...(((((((...(((((((..((...((((((((((.((......)).))))))))))....))-------..))))))).)))))))..(((........))).....---- ( -22.50, z-score =  -2.20, R)
>droSec1.super_8 1513004 103 - 3762037
CAAUGAUUGUUUGGGUAAAGUUUGAUUUGUUUUUAAUCAGACGCACCUUAUUGAAAGCGUUAUUA-------UUUUAUAACAGCAAUUAAACGCUUUUAUAUCCGAACAA----
......(((((((((((..((((((((.......)))))))).........((((((((((....-------.................)))))))))))))))))))))---- ( -28.10, z-score =  -4.52, R)
>droYak2.chrX 9665233 110 + 21770863
CAAUGAUUGUAUGGGUAUCGUUUGAUUUGUUUUUAAUCUGACGCGCCCUAAUGAGAACGUUAUGAAAACAAGUUUUAUAAUACCAAUUAAACGCUUUUAUAUCCGCACAA----
......((((...(((((..(..((((((((((((...(((((..(.(....).)..)))))))))))))))))..)..)))))........((..........))))))---- ( -22.20, z-score =  -1.48, R)
>droEre2.scaffold_4690 9476320 98 - 18748788
----------------AUUGAUUGAUUUUCUUUUAAUCGAACGCACCCUAUUGAAAACGUUAUUAAAACAUGUUUUGAAAUAGCAAUUAAACGCCUUUAUAUCCGGACACGCAG
----------------.((((((((.......))))))))..((...(((((.(((((((.........)))))))..))))).........(((.........)).)..)).. ( -13.10, z-score =  -0.49, R)
>consensus
CAAUGAUUGUUUGGGUAUAGUUUGAUUUGUUUUUAAUCAGACGCACCUUAUUGAAAACGUUAUUA_______UUUUAUAACAGCAAUUAAACGCUUUUAUAUCCGAACAA____
.......((((((((((..((((((((.......)))))))).........(((((.((((............................)))).)))))))))))))))..... (-10.39 = -13.39 +   3.00)

alignment

secondary structure

dotplot

Window 1

Location	19,219,632 – 19,219,734
Length	102
Sequences	4
Columns	109
Reading direction	reverse
Mean pairwise identity	68.05
Shannon entropy	0.49038
G+C content	0.30153
Mean single sequence MFE	-18.80
Consensus MFE	-10.82
Energy contribution	-12.38
Covariance contribution	1.56
Combinations/Pair	1.27
Mean z-score	-1.14
Structure conservation index	0.58
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.32
SVM RNA-class probability	0.643261
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19219632 102 - 22422827
AAUUGCAUUUGUGACAUGUUGUCAAUCAUGUCUAUCAAUGAUUGUUUGGGCAUAGUUUGAUUUGUUUUUAAUCUGACGCACCUUAUUGAAAACGUUAUUAUU-------
..........((((((((((..(((((((........)))))))....)))))..........(((((((((..(......)..))))))))))))))....------- ( -18.40, z-score =   0.03, R)
>droSim1.chrX 14859343 93 - 17042790
---------AAUUGCAUUUGUGAAAUGUUGUCAAUCAAUGAUUGUUUGGUUAUAGUUUGAUUUGUUUUUAAUCAGACGCACCUUAUUGAAAGCGUUAAUAUU-------
---------..(..(....)..)((((((.(((((..((((((....)))))).((((((((.......)))))))).......))))).))))))......------- ( -16.30, z-score =  -0.28, R)
>droSec1.super_8 1513040 81 - 3762037
---------------------UCAAUCAUGUCAAUCAAUGAUUGUUUGGGUAAAGUUUGAUUUGUUUUUAAUCAGACGCACCUUAUUGAAAGCGUUAUUAUU-------
---------------------.(((((((........)))))))...((((...((((((((.......))))))))..))))...................------- ( -17.20, z-score =  -1.85, R)
>droYak2.chrX 9665269 95 + 21770863
--------------AAUUGUAUUUGUAACGAAUUGCAAUGAUUGUAUGGGUAUCGUUUGAUUUGUUUUUAAUCUGACGCGCCCUAAUGAGAACGUUAUGAAAACAAGUU
--------------..((((.((..(((((...((((.....)))).((((..((((.((((.......)))).)))).)))).........)))))..)).))))... ( -23.30, z-score =  -2.47, R)
>consensus
______________CAUUUU_UCAAUCAUGUCAAUCAAUGAUUGUUUGGGUAUAGUUUGAUUUGUUUUUAAUCAGACGCACCUUAUUGAAAACGUUAUUAUU_______
.......................((((((((...((((((.......((((...((((((((.......))))))))..))))))))))..)))))))).......... (-10.82 = -12.38 +   1.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:00:05 2011