Locus 3008

Sequence ID 3R_DroMel_CAF1
Location 8,054,281 – 8,054,395
Length 114
Max. P 0.575170
window4842

overview

Window 2

Location 8,054,281 – 8,054,395
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.92
Mean single sequence MFE -25.60
Consensus MFE -22.89
Energy contribution -23.00
Covariance contribution 0.11
Combinations/Pair 1.12
Mean z-score -1.28
Structure conservation index 0.89
SVM decision value 0.08
SVM RNA-class probability 0.575170
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8054281 114 + 27905053
--CGAAUGAGUUUUCCACU-UCGCAGGCAAUUAAUUUUCGCACUCGC---UUGCAAGUGGAAAAUUAAUUGCGUGUUUUGCAUAAUCAGUAAAUUGGUCGUUUAUUUUAGUACUUAAUUU
--.((((((.....(((..-..(((.(((((((((((((.((((.(.---...).))))))))))))))))).)))(((((.......))))).)))))))))................. ( -29.50)
>DroPse_CAF1 140181 119 + 1
CCAGAAUGAGUUUUCCACUCUCUCAGGCAAUUAAUUUUGGU-CUGGAAAAAAGCGAGCGGAAAAUUAAUUGCGUGUUUUGCAUAAUCAGUAAAUUGGUCGUUUAUUUUAGUACUUAAUUU
((((....((((((((.(((.(((((((((......)).))-)))......)).))).))))))))...((((.....))))...........))))....................... ( -21.50)
>DroEre_CAF1 125689 114 + 1
--CGAAUGAGUUUUCCGCC-UCGCAGGCAAUUAAUUUUCGCACUCGA---CUGCAAGUGGAAAAUUAAUUGCGUGUUUUGCAUAAUCAGUAAAUUGGUCGUUUAUUUUAGUACUUAAUUU
--....(((((.....((.-..(((.(((((((((((((.((((...---.....))))))))))))))))).)))...))......(((((((.....))))))).....))))).... ( -28.90)
>DroYak_CAF1 125587 114 + 1
--CGAAUGAGUUUUCCGCU-UCGCAGGCAAUUAAUUUUCGCACUCGG---UUGCAAGUGGAAAAUUAAUUGCGUGUUUUGCAUAAUCAGUAAAUUGGUCGUUUAUUUUAGUACUUAAUUU
--....(((((.....((.-..(((.(((((((((((((.((((.(.---...).))))))))))))))))).)))...))......(((((((.....))))))).....))))).... ( -29.70)
>DroAna_CAF1 128730 115 + 1
--CGAAUGAGUUUUCCACUCUCUUAGGCAAUUAAUUUUCGCAUUCGU---UUCCAUGUGGAAAAUUAAUUGCGUGUUUUGCAUAAUCAGUAAAUUGGUCGUUUAUUUUAGUACUUAAUUU
--.((((((.....(((......((.(((((((((((((((((....---....)))).))))))))))))).)).(((((.......))))).)))))))))................. ( -22.50)
>DroPer_CAF1 138731 119 + 1
CCAGAAUGAGUUUUCCACUCUCUCAGGCAAUUAAUUUUGGU-CUGGAAAAAAGCGAGCGGAAAAUUAAUUGCGUGUUUUGCAUAAUCAGUAAAUUGGUCGUUUAUUUUAGUACUUAAUUU
((((....((((((((.(((.(((((((((......)).))-)))......)).))).))))))))...((((.....))))...........))))....................... ( -21.50)
>consensus
__CGAAUGAGUUUUCCACU_UCGCAGGCAAUUAAUUUUCGCACUCGA___UUGCAAGUGGAAAAUUAAUUGCGUGUUUUGCAUAAUCAGUAAAUUGGUCGUUUAUUUUAGUACUUAAUUU
...((((((.....(((......((.(((((((((((((.((((.(.......).))))))))))))))))).)).(((((.......))))).)))))))))................. (-22.89 = -23.00 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:03 2006