Locus 8023

Sequence ID	dm3.chr3L
Location	19,525,787 – 19,525,881
Length	94
Max. P	0.938294

overview

Window 2

Location	19,525,787 – 19,525,881
Length	94
Sequences	8
Columns	98
Reading direction	forward
Mean pairwise identity	86.83
Shannon entropy	0.27585
G+C content	0.58380
Mean single sequence MFE	-36.20
Consensus MFE	-26.00
Energy contribution	-26.69
Covariance contribution	0.69
Combinations/Pair	1.05
Mean z-score	-1.82
Structure conservation index	0.72
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.57
SVM RNA-class probability	0.747277
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 19525787 94 + 24543557
AGCUUUUC---GCGACUGUUGGCCAACUGACCGAACGUAUAUAAGCGAUUAUAGGGCCGGGC-UGGCCAACAGUCCAGUCCAGUCGGCCGCGUGGCUC
((((...(---((((((((((((((.....(((..(.((((........)))).)..)))..-))))))))))))..(.((....)).)))).)))). ( -39.70, z-score =  -2.59, R)
>droSec1.super_29 228505 94 + 700605
AGCUUUUC---GCGACUGUUGGCCAACUGACCGAACGUAUAUAAGCGAUUAUAGGGCCGGGC-UGGCCAACAGUCCAGUCCAGUCGGCCGCGUGGCUC
((((...(---((((((((((((((.....(((..(.((((........)))).)..)))..-))))))))))))..(.((....)).)))).)))). ( -39.70, z-score =  -2.59, R)
>droYak2.chr3L 3181394 94 - 24197627
AGCUUUUC---GCGAGUGUUGGCCAACUGACCGAACGUAUAUAAGCGAUUAUAGGGCCGGGC-UGGCCAACAGUCCAGUCCAGUCGGCCGCGUGGCUC
((((...(---((((.(((((((((.....(((..(.((((........)))).)..)))..-))))))))).))..(.((....)).)))).)))). ( -35.80, z-score =  -1.38, R)
>droEre2.scaffold_4784 19323555 93 + 25762168
AGCUUUUC---GCG-GUGUUGGCCAACUGACCGAACGUAUAUAAGCGAUUAUAGGGCCGGGC-UGGCCAACAGUCCAGUCCAGUCGGCCGCGUGGCUC
((((...(---(((-((((..(....)..))(((.(((......)))......((((.((((-((.....)))))).))))..))))))))).)))). ( -38.20, z-score =  -1.89, R)
>dp4.chrXR_group8 7601529 97 + 9212921
AGCUUUUCUGUGCGAGUGUUGGCCAACUGACCGAACGUAUAUAAGCGAUUAUAGGGCCGGGC-UGGCCAACAGUCCAGUCCAGUCGGCCGCGCUGCCU
...........((.(((((.((((.(((.......(((......)))......((((.((((-((.....)))))).))))))).))))))))))).. ( -36.40, z-score =  -1.12, R)
>droPer1.super_48 379598 97 + 581423
AGCUUUUCUGUGCGAGUGUUGGCCAACUGACCGAACGUAUAUAAGCGAUUAUAGGGCCGGGC-UGGCCAACAGUCCAGUCCAGUCGGCCGCGCUGCCU
...........((.(((((.((((.(((.......(((......)))......((((.((((-((.....)))))).))))))).))))))))))).. ( -36.40, z-score =  -1.12, R)
>droSim1.chr3L 18856427 94 + 22553184
AGCUUUUC---GCGACUGUUGGCCAACUGACCGAACGUAUAUAAGCGAUUAUAGGGCCGGGC-UGGCCAACAGUCCAGUCCAGUCGGCCGCGUAGCUC
((((...(---((((((((((((((.....(((..(.((((........)))).)..)))..-))))))))))))..(.((....)).)))).)))). ( -39.70, z-score =  -3.05, R)
>droWil1.scaffold_180727 806549 74 + 2741493
---------GCACCCGACUUGGCCAACUGACCGAACGUAUAUAAGCGAUUAUAGGGCCGGGCCUGGCCAUCAGUCCACCGCGU---------------
---------((....((((((((((.....(((..(.((((........)))).)..)))...))))))..))))....))..--------------- ( -23.70, z-score =  -0.80, R)
>consensus
AGCUUUUC___GCGAGUGUUGGCCAACUGACCGAACGUAUAUAAGCGAUUAUAGGGCCGGGC_UGGCCAACAGUCCAGUCCAGUCGGCCGCGUGGCUC
.............((.(((((((((.....(((..(.((((........)))).)..)))...))))))))).))..........(((......))). (-26.00 = -26.69 +   0.69)

alignment

secondary structure

dotplot

Window 3

Location	19,525,787 – 19,525,881
Length	94
Sequences	8
Columns	98
Reading direction	reverse
Mean pairwise identity	86.83
Shannon entropy	0.27585
G+C content	0.58380
Mean single sequence MFE	-35.71
Consensus MFE	-29.33
Energy contribution	-30.35
Covariance contribution	1.02
Combinations/Pair	1.04
Mean z-score	-1.93
Structure conservation index	0.82
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.42
SVM RNA-class probability	0.938294
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 19525787 94 - 24543557
GAGCCACGCGGCCGACUGGACUGGACUGUUGGCCA-GCCCGGCCCUAUAAUCGCUUAUAUACGUUCGGUCAGUUGGCCAACAGUCGC---GAAAAGCU
.(((..(((((((....)).)).((((((((((((-(((((..(.((((........)))).)..)))...))))))))))))))))---)....))) ( -38.80, z-score =  -2.70, R)
>droSec1.super_29 228505 94 - 700605
GAGCCACGCGGCCGACUGGACUGGACUGUUGGCCA-GCCCGGCCCUAUAAUCGCUUAUAUACGUUCGGUCAGUUGGCCAACAGUCGC---GAAAAGCU
.(((..(((((((....)).)).((((((((((((-(((((..(.((((........)))).)..)))...))))))))))))))))---)....))) ( -38.80, z-score =  -2.70, R)
>droYak2.chr3L 3181394 94 + 24197627
GAGCCACGCGGCCGACUGGACUGGACUGUUGGCCA-GCCCGGCCCUAUAAUCGCUUAUAUACGUUCGGUCAGUUGGCCAACACUCGC---GAAAAGCU
(((......(((((((((.(((((((....((((.-....)))).(((((....)))))...))))))))))))))))....)))((---.....)). ( -35.70, z-score =  -2.08, R)
>droEre2.scaffold_4784 19323555 93 - 25762168
GAGCCACGCGGCCGACUGGACUGGACUGUUGGCCA-GCCCGGCCCUAUAAUCGCUUAUAUACGUUCGGUCAGUUGGCCAACAC-CGC---GAAAAGCU
.(((..((((((((((((.(((((((....((((.-....)))).(((((....)))))...)))))))))))))))).....-.))---)....))) ( -35.30, z-score =  -1.93, R)
>dp4.chrXR_group8 7601529 97 - 9212921
AGGCAGCGCGGCCGACUGGACUGGACUGUUGGCCA-GCCCGGCCCUAUAAUCGCUUAUAUACGUUCGGUCAGUUGGCCAACACUCGCACAGAAAAGCU
....(((..(((((((((.(((((((....((((.-....)))).(((((....)))))...)))))))))))))))).....((.....))...))) ( -35.50, z-score =  -1.32, R)
>droPer1.super_48 379598 97 - 581423
AGGCAGCGCGGCCGACUGGACUGGACUGUUGGCCA-GCCCGGCCCUAUAAUCGCUUAUAUACGUUCGGUCAGUUGGCCAACACUCGCACAGAAAAGCU
....(((..(((((((((.(((((((....((((.-....)))).(((((....)))))...)))))))))))))))).....((.....))...))) ( -35.50, z-score =  -1.32, R)
>droSim1.chr3L 18856427 94 - 22553184
GAGCUACGCGGCCGACUGGACUGGACUGUUGGCCA-GCCCGGCCCUAUAAUCGCUUAUAUACGUUCGGUCAGUUGGCCAACAGUCGC---GAAAAGCU
.((((.(((((((....)).)).((((((((((((-(((((..(.((((........)))).)..)))...))))))))))))))))---)...)))) ( -40.50, z-score =  -3.31, R)
>droWil1.scaffold_180727 806549 74 - 2741493
---------------ACGCGGUGGACUGAUGGCCAGGCCCGGCCCUAUAAUCGCUUAUAUACGUUCGGUCAGUUGGCCAAGUCGGGUGC---------
---------------..(((.(.((((..((((((((((..((..(((((....)))))...))..))))...)))))))))).).)))--------- ( -25.60, z-score =  -0.08, R)
>consensus
GAGCCACGCGGCCGACUGGACUGGACUGUUGGCCA_GCCCGGCCCUAUAAUCGCUUAUAUACGUUCGGUCAGUUGGCCAACACUCGC___GAAAAGCU
.........(((((((((.(((((((....((((......)))).(((((....)))))...)))))))))))))))).................... (-29.33 = -30.35 +   1.02)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:37:57 2011