Locus 8364

Sequence ID dm3.chr3L
Location 22,272,671 – 22,272,797
Length 126
Max. P 0.768519
window11489 window11490

overview

Window 9

Location 22,272,671 – 22,272,761
Length 90
Sequences 12
Columns 109
Reading direction reverse
Mean pairwise identity 62.40
Shannon entropy 0.78052
G+C content 0.54263
Mean single sequence MFE -30.86
Consensus MFE -13.85
Energy contribution -13.63
Covariance contribution -0.22
Combinations/Pair 1.31
Mean z-score -0.63
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.767577
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22272671 90 - 24543557
UCAGUGGCCACUUGGCCCGCGACUUGGUCUGCUUCUCGAUGGAGCUGACUAAGGGUGGA----AC-GCAUUAGCCAUUGGCAACUCAACUUGGAU--------------
..(((.((((..((((((((..(((((((.(((((.....))))).))))))).)))).----..-......)))).)))).)))..........-------------- ( -34.50, z-score =  -2.37, R)
>droGri2.scaffold_15110 14649673 109 - 24565398
UCAGCGGCCACUUGGCCCGCGUCUUCGUUUGCUUCUCAAUCGAGCUGACUAAGGAUGGGAAGGAACAAAGUGACAGAUGAUCCAACCACCAGCAAGAGCAGAAAAUACG
...((((((....)).)))).(((.(.((((((.(((....)))........((.(((...(((.((..........)).)))..))))))))))).).)))....... ( -26.50, z-score =   0.38, R)
>droMoj3.scaffold_6680 2189095 97 + 24764193
UCAGCGGCCACUUGGCCCUCGUCUUCGUCUGCUUCUCGAUUGAGCUGACUGCAAGGGAAA-CAAGAGGAAGACUGAGUGGACUCUAGACUCUUUGGGC-----------
.....((((....))))(((((((((.(((..(((((......((.....))..))))).-..))).)))))).((((.........))))...))).----------- ( -28.80, z-score =   0.85, R)
>droVir3.scaffold_13049 7695395 99 + 25233164
UCAGCGGCCACUUGGCACGCGUCUUCGUUUGCUUCUCAAUCGAGCUGACUGUGGGCGAGG--GGAGCGAUUAGUGGGGAAUGGCAAGAAUAGCAUUUGUGC--------
...((((((....))).))).((((((.(((((((((..(((.((.....))...)))))--)))))))....))))))...(((.((((...)))).)))-------- ( -29.20, z-score =   0.74, R)
>droWil1.scaffold_180698 841297 107 - 11422946
UAAUUGGCCAUUUGGCCCGAGUCUUGGUCUGUUUCUCAAUCGAACUGACUGCAAAAGAGA-AAAGAAAAGGAGAGAUGUAAUGCUCAGAGAAAGUGGCAACUAAAUUC-
......(((((((...((...((((..(((.(((..((.((.....)).))..))).)))-.))))...)).(((........))).....)))))))..........- ( -22.60, z-score =   0.12, R)
>droPer1.super_29 316758 87 - 1099123
UCAGCGGCCACUUGGACCGCGUCUUGGUCUGCUUCUCGAUGGAGCUGACUGGGGGAGGGA--GAGCAGAGGUUUAGCUGAC-GGCUGGAU-------------------
...((((((....)).)))).(((..(((.(((((.....))))).)))..)))......--........(((((((....-.)))))))------------------- ( -32.40, z-score =  -0.28, R)
>dp4.chrXR_group8 4084282 88 - 9212921
UCAGCGGCCACUUGGACCGCGUCUUGGUCUGCUUCUCGAUGGAGCUGACUGGGGGAGGGA--GAGCAGAGGUUUAGCUGACUGGCUGGAU-------------------
...((((((....)).)))).(((..(((.(((((.....))))).)))..)))......--........((((((((....))))))))------------------- ( -33.40, z-score =  -0.47, R)
>droAna3.scaffold_13337 22009992 89 - 23293914
UCAACGGCCACUUGGCCCUCGUCUUGGUUUGCUUUUCGAUUGAACUGACUGCAACCGAGA-AAGUUAGUGGGCCGCGAUGCUAUUUAUGC-------------------
.....(((....((((((.(.((((((((.((...(((.......)))..))))))))))-......).))))))....)))........------------------- ( -26.20, z-score =  -1.18, R)
>droEre2.scaffold_4784 21943033 90 - 25762168
UGAGUGGCCACUUGGCCCGCGACUUGGUCUGCUUCUCGAUGGAGCUGACUGUAAGUGGA----AC-GCAUUAGCCAGUGGCUACUAAUGUUGGGU--------------
..((((((((((.(((((((....(((((.(((((.....))))).)))))...)))).----..-......)))))))))))))..........-------------- ( -37.60, z-score =  -2.96, R)
>droYak2.chr3L 22667826 93 - 24197627
UAAGCGGCCACUUGGCCCGCGACUUGGUCUGCUUCUCGAUGGAGCUGACUGUGAGUGGAA--CGCAGUGGAAGCCAGUGGCAAAUAAGGUUGAGU--------------
......((((((.(((((((.....((((.(((((.....))))).))))(((.......--))).))))..)))))))))..............-------------- ( -33.70, z-score =  -1.17, R)
>droSec1.super_11 2202751 92 - 2888827
UCAGUGGCCACUUGGCCCGCGACUUGGUCUGCUUUUCGAUGGAGCUGACUGUGGGUGGAA--CAC-GCAUUAGCCAUUGGCAACUCAAGUUGGGU--------------
.....((((....))))(.((((((((((.(((((.....))))).)))(((.(((((..--...-.......))))).)))...))))))).).-------------- ( -31.60, z-score =  -0.42, R)
>droSim1.chr3L 21611087 92 - 22553184
UCAGUGGCCACUUGGCCCGCGACUUGGUCUGCUUCUCGAUGGAGCUGACUGUGGGUGGAA--CAC-GCAUUAGCCAUUGGCAACUCAAGUUGGGU--------------
.....((((....))))(.((((((((((.(((((.....))))).)))(((.(((((..--...-.......))))).)))...))))))).).-------------- ( -33.80, z-score =  -0.85, R)
>consensus
UCAGCGGCCACUUGGCCCGCGUCUUGGUCUGCUUCUCGAUGGAGCUGACUGUGGGUGGAA__GAC_GGAGUAGCCAGUGGCAACUCAAGUUGGGU______________
...((((((....)).))))......(((.((((.......)))).)))............................................................ (-13.85 = -13.63 +  -0.22)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 22,272,698 – 22,272,797
Length 99
Sequences 11
Columns 116
Reading direction reverse
Mean pairwise identity 71.60
Shannon entropy 0.56304
G+C content 0.54620
Mean single sequence MFE -35.83
Consensus MFE -17.56
Energy contribution -17.35
Covariance contribution -0.21
Combinations/Pair 1.26
Mean z-score -1.30
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.768519
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22272698 99 - 24543557
UGUUAGUGUUGGUGUUGGUCGAUCCAUUUGGCUCGAUCAGUGGCCACUUGGCCCGCGACUUGGUCUGCUUCUCGAUGGAGCUGACUAAGGGUGGAACGC-----------------
.....(((((....((((((((.((....)).)))))))).((((....))))(((..(((((((.(((((.....))))).))))))).))).)))))----------------- ( -41.00, z-score =  -2.84, R)
>droGri2.scaffold_15110 14649702 107 - 24565398
---------UGUUCGUCGUCGAGCCAUUCGGUUCGAUCAGCGGCCACUUGGCCCGCGUCUUCGUUUGCUUCUCAAUCGAGCUGACUAAGGAUGGGAAGGAACAAAGUGACAGAUGA
---------...(((((((((((((....))))))))..((((((....)).))))(((...((((.(((((((.((...........)).))))))))))).....))).))))) ( -37.70, z-score =  -1.11, R)
>droMoj3.scaffold_6680 2189117 99 + 24764193
------------UGGUCGUGGAGCCAUUAGGCUCGAUCAGCGGCCACUUGGCCCUCGUCUUCGUCUGCUUCUCGAUUGAGCUGACUGCAAGGGAAACAAGAGGAAGACUGA-----
------------(((((...(((((....))))))))))..((((....))))...((((((.(((..(((((......((.....))..)))))...))).))))))...----- ( -36.80, z-score =  -1.02, R)
>droWil1.scaffold_180698 841329 101 - 11422946
----------GGUAUUUGUUGAGCCAUUCGGUUCAAUAAUUGGCCAUUUGGCCCGAGUCUUGGUCUGUUUCUCAAUCGAACUGACUGCAAAAGAGAAAAGAAAAGGAGAGA-----
----------.....((((((((((....))))))))))..((((....))))....((((..(((.((((((...................)))))))))..))))....----- ( -28.01, z-score =  -1.17, R)
>droPer1.super_29 316776 105 - 1099123
UGUUCGUGUUGGUGUUCGUGGAUCCGUUAGGUUCGAUCAGCGGCCACUUGGACCGCGUCUUGGUCUGCUUCUCGAUGGAGCUGACUGGGGGAGGGAGAGCAGAGG-----------
..(((.((((..(.(((((((.((((...(((.((.....)))))...)))))))).(((..(((.(((((.....))))).)))..)))))).)..))))))).----------- ( -37.40, z-score =  -0.04, R)
>dp4.chrXR_group8 4084301 105 - 9212921
UGUUCGUGUUGGUGUUCGUGGAUCCGUUAGGUUCGAUCAGCGGCCACUUGGACCGCGUCUUGGUCUGCUUCUCGAUGGAGCUGACUGGGGGAGGGAGAGCAGAGG-----------
..(((.((((..(.(((((((.((((...(((.((.....)))))...)))))))).(((..(((.(((((.....))))).)))..)))))).)..))))))).----------- ( -37.40, z-score =  -0.04, R)
>droAna3.scaffold_13337 22010019 95 - 23293914
UGUUCGUAUUCGUGU---UGGACCCGUUUGGCUCGAUCAACGGCCACUUGGCCCUCGUCUUGGUUUGCUUUUCGAUUGAACUGACUGCAACCGAGAAA------------------
.....((..(((.((---..((....))..)).)))...))((((....))))....((((((((.((...(((.......)))..))))))))))..------------------ ( -28.10, z-score =  -1.29, R)
>droEre2.scaffold_4784 21943060 99 - 25762168
UGUUCGUGUUGGUAUGUGCCGAUCCAUUUGGCUCGAUGAGUGGCCACUUGGCCCGCGACUUGGUCUGCUUCUCGAUGGAGCUGACUGUAAGUGGAACGC-----------------
....(((.(((((....)))))((((((((..(((....(.((((....))))).)))...((((.(((((.....))))).)))).))))))))))).----------------- ( -33.80, z-score =  -1.10, R)
>droYak2.chr3L 22667856 93 - 24197627
------UGUUGGUAUUUGUCGAUCCAUUUGGCUCGAUAAGCGGCCACUUGGCCCGCGACUUGGUCUGCUUCUCGAUGGAGCUGACUGUGAGUGGAACGC-----------------
------.........(((((((.((....)).)))))))((((((....)))((((....(((((.(((((.....))))).)))))...))))..)))----------------- ( -34.00, z-score =  -1.95, R)
>droSec1.super_11 2202778 101 - 2888827
UGUUCGUGUUGGUGUUGGUCGAUCCAUUUGGCUCGAUCAGUGGCCACUUGGCCCGCGACUUGGUCUGCUUUUCGAUGGAGCUGACUGUGGGUGGAACACGC---------------
....(((((((((..(((((((.((....)).)))))))..).))).((.((((((.....((((.(((((.....))))).)))))))))).))))))).--------------- ( -39.20, z-score =  -1.82, R)
>droSim1.chr3L 21611114 101 - 22553184
UGUUCGUGUUGGUGUUGGUCGAUCCGUUUGGCUCGAUCAGUGGCCACUUGGCCCGCGACUUGGUCUGCUUCUCGAUGGAGCUGACUGUGGGUGGAACACGC---------------
....(((((((((..(((((((.((....)).)))))))..).))).((.((((((.....((((.(((((.....))))).)))))))))).))))))).--------------- ( -40.70, z-score =  -1.88, R)
>consensus
UGUUCGUGUUGGUGUUCGUCGAUCCAUUUGGCUCGAUCAGCGGCCACUUGGCCCGCGUCUUGGUCUGCUUCUCGAUGGAGCUGACUGUGGGUGGAACAC_A_______________
....................((.((....)).)).....((((((....)).))))....(((((.((((.......)))).)))))............................. (-17.56 = -17.35 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:44:15 2011