Locus 61

Sequence ID	dm3.chr2L
Location	464,856 – 464,950
Length	94
Max. P	0.790313

overview

Window 1

Location	464,856 – 464,950
Length	94
Sequences	7
Columns	115
Reading direction	forward
Mean pairwise identity	74.17
Shannon entropy	0.44663
G+C content	0.59762
Mean single sequence MFE	-37.87
Consensus MFE	-20.50
Energy contribution	-22.31
Covariance contribution	1.81
Combinations/Pair	1.15
Mean z-score	-1.70
Structure conservation index	0.54
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.68
SVM RNA-class probability	0.786112
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 464856 94 + 23011544
CUAAGCCCGGAUACGGAUCCGGA------------ACCGGACGAUCCCAUGGCAAUGGCCAUAGCGGCCGUGUCCAUGACCGCUUGCAUCUUGUUGGCUGCAAAGA---------
..((((..((((.((..((((..------------..))))))))))(((((..((((((.....))))))..)))))...))))(((.((....)).))).....--------- ( -34.50, z-score =  -1.22, R)
>droSim1.chr2L 471425 94 + 22036055
CUAAGCCCGGAUACGGAUCCGGA------------ACCGGACGAUCCCAUGGCGAUGGCCAUAGCGGCCGUGUCCAUGACCGCUUGCAUCUUGUUGGCUGCAAAGA---------
..((((..((((.((..((((..------------..))))))))))(((((..((((((.....))))))..)))))...))))(((.((....)).))).....--------- ( -34.50, z-score =  -1.03, R)
>droSec1.super_14 448024 94 + 2068291
CUAAGCCCGGAUACGGAUCCGGA------------ACCGGACGAUCCCAUGGCGAUGGCCAUAGCGGCCGUGUCCAUGACCGCUUGCAUCUUGUUGGCUGCAAAGA---------
..((((..((((.((..((((..------------..))))))))))(((((..((((((.....))))))..)))))...))))(((.((....)).))).....--------- ( -34.50, z-score =  -1.03, R)
>droYak2.chr2L 449511 100 + 22324452
CUAAGCCCGGAUACGGAUCCGGAGCC------GGAACCGGACGACCCCAUGGCGAUGGCCAUGGCGGCCGUGUCCAUGACGGCUUGCAUCUUGUUGGCUGCAAAGA---------
........((((((((.(((((....------....)))))...(((((((((....))))))).)))))))))).((.(((((.((.....)).)))))))....--------- ( -45.20, z-score =  -2.42, R)
>droEre2.scaffold_4929 516806 106 + 26641161
CUAAGCCCGGAUACGGAUCCGGAGCCGGAGCCGGAACCGGACGAUCCCAUGGCGAUGGCCAUAGCGGCCGUGUCCAUGACCGCUUGCAUCUUGUUGACUGCAAAGA---------
..((((..((((.((..(((((..(((....)))..)))))))))))(((((..((((((.....))))))..)))))...))))(((((.....)).))).....--------- ( -43.30, z-score =  -2.13, R)
>droAna3.scaffold_12943 257348 91 - 5039921
------------ACCGAGCCGGA------------UCCGGGUGCACCCACAGAGAUGGCCAUGGCGGCCGUGUCCAUGGCCGCUUGCAUUUUUCUGGCUGGAAAUGGAAAAUUAA
------------.(((..((((.------------...(((....))).((((((..((...(((((((((....))))))))).))...)))))).))))...)))........ ( -38.90, z-score =  -2.22, R)
>droWil1.scaffold_180772 5946513 76 - 8906247
---------------GAGCUGCU------------GCCCAUGGCUGCAGCAGCAAUGGCCAUGGAGGCCGAGUCCAUGACCGCUUGCAUCUUGUAAGCUGCAA------------
---------------..(((((.------------(((...))).))))).(((..((.((((((.......)))))).))((((((.....)))))))))..------------ ( -34.20, z-score =  -1.82, R)
>consensus
CUAAGCCCGGAUACGGAUCCGGA____________ACCGGACGAUCCCAUGGCGAUGGCCAUAGCGGCCGUGUCCAUGACCGCUUGCAUCUUGUUGGCUGCAAAGA_________
......(((....))).(((((..............)))))......(((((..((((((.....))))))..))))).....(((((.((....)).)))))............ (-20.50 = -22.31 +   1.81)

alignment

secondary structure

dotplot

Window 2

Location	464,856 – 464,950
Length	94
Sequences	7
Columns	115
Reading direction	reverse
Mean pairwise identity	74.17
Shannon entropy	0.44663
G+C content	0.59762
Mean single sequence MFE	-37.51
Consensus MFE	-21.40
Energy contribution	-21.91
Covariance contribution	0.52
Combinations/Pair	1.24
Mean z-score	-1.59
Structure conservation index	0.57
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.70
SVM RNA-class probability	0.790313
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 464856 94 - 23011544
---------UCUUUGCAGCCAACAAGAUGCAAGCGGUCAUGGACACGGCCGCUAUGGCCAUUGCCAUGGGAUCGUCCGGU------------UCCGGAUCCGUAUCCGGGCUUAG
---------.......((((.....(((((.(((((((........)))))))(((((....))))).(((...((((..------------..))))))))))))..))))... ( -35.80, z-score =  -1.32, R)
>droSim1.chr2L 471425 94 - 22036055
---------UCUUUGCAGCCAACAAGAUGCAAGCGGUCAUGGACACGGCCGCUAUGGCCAUCGCCAUGGGAUCGUCCGGU------------UCCGGAUCCGUAUCCGGGCUUAG
---------.......((((.....(((((.(((((((........)))))))(((((....))))).(((...((((..------------..))))))))))))..))))... ( -35.90, z-score =  -1.30, R)
>droSec1.super_14 448024 94 - 2068291
---------UCUUUGCAGCCAACAAGAUGCAAGCGGUCAUGGACACGGCCGCUAUGGCCAUCGCCAUGGGAUCGUCCGGU------------UCCGGAUCCGUAUCCGGGCUUAG
---------.......((((.....(((((.(((((((........)))))))(((((....))))).(((...((((..------------..))))))))))))..))))... ( -35.90, z-score =  -1.30, R)
>droYak2.chr2L 449511 100 - 22324452
---------UCUUUGCAGCCAACAAGAUGCAAGCCGUCAUGGACACGGCCGCCAUGGCCAUCGCCAUGGGGUCGUCCGGUUCC------GGCUCCGGAUCCGUAUCCGGGCUUAG
---------.......((((.....(((((..........((((..((((.(((((((....)))))))))))))))((.(((------(....)))).)))))))..))))... ( -44.40, z-score =  -2.46, R)
>droEre2.scaffold_4929 516806 106 - 26641161
---------UCUUUGCAGUCAACAAGAUGCAAGCGGUCAUGGACACGGCCGCUAUGGCCAUCGCCAUGGGAUCGUCCGGUUCCGGCUCCGGCUCCGGAUCCGUAUCCGGGCUUAG
---------...(((((.((.....)))))))((((((........))))))((((((....)))))).....((((((...(((.((((....)))).)))...)))))).... ( -44.80, z-score =  -2.14, R)
>droAna3.scaffold_12943 257348 91 + 5039921
UUAAUUUUCCAUUUCCAGCCAGAAAAAUGCAAGCGGCCAUGGACACGGCCGCCAUGGCCAUCUCUGUGGGUGCACCCGGA------------UCCGGCUCGGU------------
..............((((((.((...........((((((((.(......)))))))))...((((.((.....))))))------------)).)))).)).------------ ( -31.10, z-score =  -0.50, R)
>droWil1.scaffold_180772 5946513 76 + 8906247
------------UUGCAGCUUACAAGAUGCAAGCGGUCAUGGACUCGGCCUCCAUGGCCAUUGCUGCUGCAGCCAUGGGC------------AGCAGCUC---------------
------------(((((.((....)).)))))..(((((((((.......)))))))))...((((((((........))------------))))))..--------------- ( -34.70, z-score =  -2.10, R)
>consensus
_________UCUUUGCAGCCAACAAGAUGCAAGCGGUCAUGGACACGGCCGCUAUGGCCAUCGCCAUGGGAUCGUCCGGU____________UCCGGAUCCGUAUCCGGGCUUAG
............(((((..........)))))((((((........))))))((((((....))))))(((((...(((..............)))))))).............. (-21.40 = -21.91 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:05:56 2011