Locus 12281

Sequence ID dm3.chr3R
Location 27,072,062 – 27,072,164
Length 102
Max. P 0.992024
window16888 window16889

overview

Window 8

Location 27,072,062 – 27,072,164
Length 102
Sequences 9
Columns 105
Reading direction forward
Mean pairwise identity 69.62
Shannon entropy 0.61278
G+C content 0.43199
Mean single sequence MFE -27.34
Consensus MFE -13.01
Energy contribution -13.90
Covariance contribution 0.89
Combinations/Pair 1.12
Mean z-score -2.10
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.51
SVM RNA-class probability 0.992024
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27072062 102 + 27905053
UAAUCUGUCGGCAUUGUUUGCUAAUGUCUCAAUUG-CACAGCCCACGAUGCGUCACGGUUUCAUUGCGAUCGCAAUUGGGCUCAUCAGAAACUGUGACAACUG--
..........(((((((..(((..(((.......)-)).)))..)))))))((((((((((((((((....)))))(((.....)))))))))))))).....-- ( -32.80, z-score =  -2.46, R)
>droSim1.chr3R 26715171 102 + 27517382
UAAUCUGUCGGCAUUGUUUGCUAAUGUCUCAAUUG-CGCAGGCCACGACGCGUCACGGUUUCAUUGCGAUCGCAAUAGGGCUCAUCAGAAACUGUGACAACUG--
......((((.....((((((((((......))))-.))))))..))))..((((((((((((((((....))))).((.....)).))))))))))).....-- ( -33.70, z-score =  -2.30, R)
>droSec1.super_4 5889723 102 + 6179234
UAAUCUGUCGGCAUUGUUUGCUAAUGUCUCAAUUG-CGCAGGCCACGAUGCGUCACGGUUUCAUUGCGAUCGCAAUAGGGCUCAUCAGAAACUGUGACAACUG--
..........(((((((((((((((......))))-.))))...)))))))((((((((((((((((....))))).((.....)).))))))))))).....-- ( -33.60, z-score =  -2.27, R)
>droEre2.scaffold_4820 9562527 102 - 10470090
UAAUCUGUUGGCAUUGUUUGCUAAUGUCUCAAUUG-CACAUGCUACAAUGCGUCACGGUUUCAUUGCGAUCGCAAAAGGGCUCAUCGGAAACUGUGACAACUG--
......(((.(((((((..((..(((((......)-.)))))).)))))))(((((((((((.((((....))))..((.....)).))))))))))))))..-- ( -32.40, z-score =  -3.03, R)
>droYak2.chr3R 28008681 102 + 28832112
UAAUGUAUCGGCAUUAUUUGCUAAUGUCUCAAUUG-CGCAGGCCACAAUGCGUCACGGUUUCAUUGCGAUCGCAAUAGGGCUCAUCAGAAACUGUGACAACUG--
.........(((((((.....))))))).......-.(((........)))((((((((((((((((....))))).((.....)).))))))))))).....-- ( -29.80, z-score =  -1.84, R)
>droAna3.scaffold_13340 4955109 101 + 23697760
UAAUCUAUUGACAUUAUUUGCUGAUGUCUCAAUUG----CAAUGGCAAUGCGUCACGGCUCCAUUGCGUUCAAAAUUAAGCUCAUCAGUAACUGCGACAUCGGAG
....................((((((((.((.(((----(....((((((.((....))..))))))(((........)))......)))).)).)))))))).. ( -24.30, z-score =  -1.07, R)
>dp4.chr2 4266079 77 + 30794189
--------------------------UAUUGACAGAUGGAUGUCUCAAUGCGUCACGGUUUCAUUGCGUUCAAAAUUGAGCUCAUCAGAAACUAUGACAAUUG--
--------------------------....((((......)))).((((..((((..(((((..((.(((((....))))).))...)))))..)))).))))-- ( -22.50, z-score =  -2.58, R)
>droPer1.super_7 4359139 77 - 4445127
--------------------------UAUUGACAGAUGGAUGUCUCAAUGCGUCACGGUUUCAUUGCGUUCAAAAUUGAGCUCAUCAGAAACUAUGACAAUUG--
--------------------------....((((......)))).((((..((((..(((((..((.(((((....))))).))...)))))..)))).))))-- ( -22.50, z-score =  -2.58, R)
>droWil1.scaffold_181130 10494467 89 + 16660200
-----UAUGGACAAUGCAAUCUGAUGACUCAAU--------ACAUCAAUUCGUCACGGCUUUAUAAC-AUCAAGAUUAAGCUCAUCAAACACUGUGACGAUUU--
-----................(((((.......--------.)))))..((((((((((((......-.........)))))...........)))))))...-- ( -14.46, z-score =  -0.73, R)
>consensus
UAAUCUGUCGGCAUUGUUUGCUAAUGUCUCAAUUG_CGCAGGCCACAAUGCGUCACGGUUUCAUUGCGAUCGCAAUUGGGCUCAUCAGAAACUGUGACAACUG__
...................................................(((((((((((..((.(.((......)).).))...)))))))))))....... (-13.01 = -13.90 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 27,072,062 – 27,072,164
Length 102
Sequences 9
Columns 105
Reading direction reverse
Mean pairwise identity 69.62
Shannon entropy 0.61278
G+C content 0.43199
Mean single sequence MFE -24.10
Consensus MFE -10.50
Energy contribution -9.89
Covariance contribution -0.61
Combinations/Pair 1.46
Mean z-score -1.01
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.01
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr3R 27072062 102 - 27905053
--CAGUUGUCACAGUUUCUGAUGAGCCCAAUUGCGAUCGCAAUGAAACCGUGACGCAUCGUGGGCUGUG-CAAUUGAGACAUUAGCAAACAAUGCCGACAGAUUA
--..((((.((..((((((((((((((((..((((.((((.........))))))))...))))))...-(....)...)))))).))))..)).))))...... ( -32.00, z-score =  -1.91, R)
>droSim1.chr3R 26715171 102 - 27517382
--CAGUUGUCACAGUUUCUGAUGAGCCCUAUUGCGAUCGCAAUGAAACCGUGACGCGUCGUGGCCUGCG-CAAUUGAGACAUUAGCAAACAAUGCCGACAGAUUA
--..((((.((..((((((((((..(.(.((((((...((.((((...((.....)))))).))...))-)))).).).)))))).))))..)).))))...... ( -25.70, z-score =   0.04, R)
>droSec1.super_4 5889723 102 - 6179234
--CAGUUGUCACAGUUUCUGAUGAGCCCUAUUGCGAUCGCAAUGAAACCGUGACGCAUCGUGGCCUGCG-CAAUUGAGACAUUAGCAAACAAUGCCGACAGAUUA
--..((((.((..((((((((((.(((....((((.((((.........))))))))....)))((.((-....)))).)))))).))))..)).))))...... ( -25.10, z-score =  -0.07, R)
>droEre2.scaffold_4820 9562527 102 + 10470090
--CAGUUGUCACAGUUUCCGAUGAGCCCUUUUGCGAUCGCAAUGAAACCGUGACGCAUUGUAGCAUGUG-CAAUUGAGACAUUAGCAAACAAUGCCAACAGAUUA
--..((((((((.(((((((((..((......)).))))....))))).)))))(((((((.((..(((-(......).)))..))..))))))).)))...... ( -27.10, z-score =  -1.76, R)
>droYak2.chr3R 28008681 102 - 28832112
--CAGUUGUCACAGUUUCUGAUGAGCCCUAUUGCGAUCGCAAUGAAACCGUGACGCAUUGUGGCCUGCG-CAAUUGAGACAUUAGCAAAUAAUGCCGAUACAUUA
--((((((.(.(((..((....))(((.((.((((.((((.........)))))))).)).)))))).)-))))))....((..(((.....)))..))...... ( -24.80, z-score =  -0.40, R)
>droAna3.scaffold_13340 4955109 101 - 23697760
CUCCGAUGUCGCAGUUACUGAUGAGCUUAAUUUUGAACGCAAUGGAGCCGUGACGCAUUGCCAUUG----CAAUUGAGACAUCAGCAAAUAAUGUCAAUAGAUUA
....(((((.....((.((((((..(((((((......(((((((.((......))....))))))----)))))))).)))))).))...)))))......... ( -23.30, z-score =  -0.32, R)
>dp4.chr2 4266079 77 - 30794189
--CAAUUGUCAUAGUUUCUGAUGAGCUCAAUUUUGAACGCAAUGAAACCGUGACGCAUUGAGACAUCCAUCUGUCAAUA--------------------------
--(((((((((..(((((...((.(.(((....))).).))..)))))..))))).)))).((((......))))....-------------------------- ( -19.20, z-score =  -1.80, R)
>droPer1.super_7 4359139 77 + 4445127
--CAAUUGUCAUAGUUUCUGAUGAGCUCAAUUUUGAACGCAAUGAAACCGUGACGCAUUGAGACAUCCAUCUGUCAAUA--------------------------
--(((((((((..(((((...((.(.(((....))).).))..)))))..))))).)))).((((......))))....-------------------------- ( -19.20, z-score =  -1.80, R)
>droWil1.scaffold_181130 10494467 89 - 16660200
--AAAUCGUCACAGUGUUUGAUGAGCUUAAUCUUGAU-GUUAUAAAGCCGUGACGAAUUGAUGU--------AUUGAGUCAUCAGAUUGCAUUGUCCAUA-----
--........((((((((((((((.((((((((..((-(((((......)))))..))..).).--------)))))))))))))...))))))).....----- ( -20.50, z-score =  -1.08, R)
>consensus
__CAGUUGUCACAGUUUCUGAUGAGCCCAAUUGCGAUCGCAAUGAAACCGUGACGCAUUGUGGCCUGCG_CAAUUGAGACAUUAGCAAACAAUGCCGACAGAUUA
......((((((.(((((......((............))...))))).)))))).................................................. (-10.50 =  -9.89 +  -0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:59:13 2011