Locus 10595

Sequence ID	dm3.chr3R
Location	14,926,530 – 14,926,645
Length	115
Max. P	0.805407

overview

Window 5

Location	14,926,530 – 14,926,627
Length	97
Sequences	7
Columns	99
Reading direction	reverse
Mean pairwise identity	70.45
Shannon entropy	0.55820
G+C content	0.34095
Mean single sequence MFE	-18.28
Consensus MFE	-7.76
Energy contribution	-8.15
Covariance contribution	0.39
Combinations/Pair	1.18
Mean z-score	-1.72
Structure conservation index	0.42
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.75
SVM RNA-class probability	0.805407
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14926530 97 - 27905053
ACAACAAGCCGAUGAUUUACUG-ACGAAAAAGCACGCAAAAAAUAUCAUCAUUGGCUU-GAGUUAUUUAUUUAUUUAGCAAAAACGAUUUCGUGCCUUA
....((((((((((((....((-.((........)))).........)))))))))))-).((((..........))))....(((....)))...... ( -18.22, z-score =  -1.46, R)
>droSim1.chr3R 20968241 97 + 27517382
ACAACAAGCCGAUGAUUUACUG-ACGAAAAAGCACGCAAAAAAUAUCAUCAUUGGCUU-GAGUUAUUUAUUUAUUUAGCAAAAACGAUUUCGUGCCUAA
....((((((((((((....((-.((........)))).........)))))))))))-).((((..........))))....(((....)))...... ( -18.22, z-score =  -1.52, R)
>droSec1.super_77 107558 97 + 117255
ACAACAAGCCGAUGAUUUACUG-ACGAAAAAGCACGCAAAAAAUAUCAUCAUUGGCUU-GAGUUAUUUAUUUAUUUAGCAAAAACGAUUUCGUGCCUAA
....((((((((((((....((-.((........)))).........)))))))))))-).((((..........))))....(((....)))...... ( -18.22, z-score =  -1.52, R)
>droYak2.chr3R 3610285 77 - 28832112
ACUACAAGCCGAUGAUUUACUG-ACGAAUAA------GGAAAAAAUUAUCAUUGCCUU-GAGUUAUUUAUUUAUUUUGCGGCUAA--------------
......((((((((((((.((.-.......)------)....))))))))...((..(-((((.....)))))....))))))..-------------- ( -14.00, z-score =  -1.76, R)
>droEre2.scaffold_4770 11042753 92 + 17746568
ACAACAAGCCGAUGAUUUACUG-ACAAAAAAG-----GAGAAAAAUUAUCAUUGGCUU-GAGUUAUUUAUUUAUUUCGCAAAAGAGAUUUCGCGGCUAA
....((((((((((((......-.........-----..........)))))))))))-)...............((((.(((....))).)))).... ( -19.81, z-score =  -2.04, R)
>droVir3.scaffold_13047 1734302 93 + 19223366
ACAACAAGCAGAUGAUUUACAGCAUAAAUAA------UGAAAUGGUCAUUGUGGGCUUUGAGUUAUUUGCCAAAAGAGUCAGCGAGACACGACCACAAA
.......((((((((((((.(((....((((------(((.....)))))))..))).)))))))))))).......(((.....)))........... ( -24.40, z-score =  -3.00, R)
>droGri2.scaffold_15074 7099561 86 - 7742996
ACAACAAGCAGAUGAUUUACAGCACAAAUAA------UAAAAUGGUCAUUAUGGGCUUGGAGUUAUUUGUC-AAAGAGUCAGCGAGACACGAA------
.......(((((((((((..(((....((((------(.........)))))..)))..))))))))))).-.....(((.....))).....------ ( -15.10, z-score =  -0.77, R)
>consensus
ACAACAAGCCGAUGAUUUACUG_ACGAAAAAG_____AAAAAAUAUCAUCAUUGGCUU_GAGUUAUUUAUUUAUUUAGCAAAAAAGAUUUCGUGCCUAA
.....(((((((((((...............................)))))))))))......................................... ( -7.76 =  -8.15 +   0.39)

alignment

secondary structure

dotplot

Window 6

Location	14,926,554 – 14,926,645
Length	91
Sequences	8
Columns	111
Reading direction	reverse
Mean pairwise identity	65.61
Shannon entropy	0.62653
G+C content	0.31801
Mean single sequence MFE	-18.04
Consensus MFE	-4.71
Energy contribution	-4.18
Covariance contribution	-0.53
Combinations/Pair	1.30
Mean z-score	-2.09
Structure conservation index	0.26
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.19
SVM RNA-class probability	0.584161
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14926554 91 - 27905053
-------------------GAGAGAAGCGAAAAAUUAACAACAAGCCGAUGAUUUACUGACGAAAAAGCACGCAAAAAAUAUCAUCAUUGGCUU-GAGUUAUUUAUUUAUU
-------------------.........(((.((.((((..((((((((((((....((.((........)))).........)))))))))))-).)))).)).)))... ( -16.72, z-score =  -2.15, R)
>droSim1.chr3R 20968265 91 + 27517382
-------------------GAGAGAAGUGAAAAAUUAACAACAAGCCGAUGAUUUACUGACGAAAAAGCACGCAAAAAAUAUCAUCAUUGGCUU-GAGUUAUUUAUUUAUU
-------------------......((((((.((.((((..((((((((((((....((.((........)))).........)))))))))))-).)))).)).)))))) ( -19.02, z-score =  -3.08, R)
>droSec1.super_77 107582 91 + 117255
-------------------GAGAGAAGCGAAAAAUUAACAACAAGCCGAUGAUUUACUGACGAAAAAGCACGCAAAAAAUAUCAUCAUUGGCUU-GAGUUAUUUAUUUAUU
-------------------.........(((.((.((((..((((((((((((....((.((........)))).........)))))))))))-).)))).)).)))... ( -16.72, z-score =  -2.15, R)
>droYak2.chr3R 3610295 99 - 28832112
CAGAUGCAGACAGA-----GAGAGAAGCGAAAAAUUUACUACAAGCCGAUGAUUUACUGACGAAUAAG-----GA-AAAAAUUAUCAUUGCCUU-GAGUUAUUUAUUUAUU
....(((.......-----.......)))..((((..(((.((((.(((((((.......(......)-----..-.......))))))).)))-)))).))))....... ( -11.63, z-score =   0.06, R)
>droEre2.scaffold_4770 11042777 105 + 17746568
CAGUUGCAGACAGAGAGAGGAGAGAAGCGCAAAAUGAACAACAAGCCGAUGAUUUACUGACAAAAAAG-----GAGAAAAAUUAUCAUUGGCUU-GAGUUAUUUAUUUAUU
....(((.....................)))((((((....((((((((((((...............-----..........)))))))))))-)..))))))....... ( -17.81, z-score =  -1.32, R)
>droVir3.scaffold_13047 1734326 101 + 19223366
-----UUUGUGUGGUAAAAAAAAAAGAAAAGAAAUGUACAACAAGCAGAUGAUUUACAGCAUAAAUAA-----UGAAAUGGUCAUUGUGGGCUUUGAGUUAUUUGCCAAAA
-----.((((...(((....................))).))))((((((((((((.(((....((((-----(((.....)))))))..))).))))))))))))..... ( -23.05, z-score =  -2.81, R)
>droMoj3.scaffold_6540 14185831 91 - 34148556
--------------UAUAUGUAUAUGUGAAGAAAUGUACAACAAGCAGAUGAUUUACAGCAUAAAUAA-----UGAAAUGGUCAUUGGGGGCUUUGAGUUAUUUGCCAAA-
--------------....(((((((........)))))))....((((((((((((.(((.....(((-----(((.....))))))...))).))))))))))))....- ( -25.80, z-score =  -3.89, R)
>droGri2.scaffold_15074 7099579 78 - 7742996
---------------------------AAAGAAAUGAACAACAAGCAGAUGAUUUACAGCACAAAUAA-----UAAAAUGGUCAUUAUGGGCUUGGAGUUAUUUGUCAAA-
---------------------------...((....(((..(((((.(((((((..............-----......)))))))....)))))..))).....))...- ( -13.55, z-score =  -1.38, R)
>consensus
___________________GAGAGAAGCGAAAAAUGAACAACAAGCCGAUGAUUUACUGACGAAAAAG_____AAAAAAGAUCAUCAUUGGCUU_GAGUUAUUUAUUUAUU
..........................................((((.((((((...........................))))))....))))................. ( -4.71 =  -4.18 +  -0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:26:53 2011