Locus 1923

Sequence ID	2L_DroMel_CAF1
Location	5,230,215 – 5,230,334
Length	119
Max. P	0.997327

overview

Window 5

Location	5,230,215 – 5,230,334
Length	119
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	98.49
Mean single sequence MFE	-33.23
Consensus MFE	-32.68
Energy contribution	-32.52
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-2.02
Structure conservation index	0.98
SVM decision value	2.84
SVM RNA-class probability	0.997327
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5230215 119 + 22407834
AUAAACUUGUACGCAGACAUUGUAUAUAUAGUAUAUAUGGCUAUAGCUUGGCGGCACGAAAAUAAAGUCAAGCUGUCUGCGCAUUUGUCGUCUGCGAUUUGUUGGCAACAUUUUACGUG
...(((..((.(((((((..(((((((...)))))))((((.((((((((((..............))))))))))..)).))......)))))))))..)))(....).......... ( -33.54)
>DroSec_CAF1 7578 119 + 1
AUAAACUUGUACGCAGACAUUGUAUAUAUAGUAUAUAUGGCUAUAGCUUGGCGGCACGAAAAUAAAGUCAAGCUGUCUGCGCAUUUGUCGUCUGCGAUUUGUUGGCAACAUUUAACGUG
...(((..((.(((((((..(((((((...)))))))((((.((((((((((..............))))))))))..)).))......)))))))))..)))(....).......... ( -33.54)
>DroSim_CAF1 8500 119 + 1
AUAAACUUGUACGCAGACAUUGUAUAUAUAGUAUAUAUGGCUAUGGCUUGGCGGCACGAAAAUAAAGUCAAGCUGUCUGCGCAUUUGUCGUCUGCGAUUUGUUGGCAACAUUUAACGUG
...(((..((.(((((((...(((((((...)))))))(((.(((((..((((((..((........))..)))))).)).)))..))))))))))))..)))(....).......... ( -33.00)
>DroEre_CAF1 365 119 + 1
AUAAACUUGUACGCAGACAUUGUAUAUAUAGUAUAUAUGGCUAUAGCUUGGCGGCACAAAAAUAAAGUCAAGCUGUCUGCGCAUUUGUCGUCUGCGAUUUGUUGGCAACAUUUAACGUG
...(((..((.(((((((..(((((((...)))))))((((.((((((((((..............))))))))))..)).))......)))))))))..)))(....).......... ( -33.54)
>DroYak_CAF1 9384 119 + 1
AUAAACUUGUACGCAGACAUUGUAUAUAUAGUAUAUAUGGCUAUAGCUUGGCGGCACGAAAAUAAAGUCAAGCUGUCUGCGCAUUUGUCGUCUGCGAUUUGUUGCCAACAUUUUACGUG
...(((..((.(((((((..(((((((...)))))))((((.((((((((((..............))))))))))..)).))......)))))))))..)))................ ( -32.54)
>consensus
AUAAACUUGUACGCAGACAUUGUAUAUAUAGUAUAUAUGGCUAUAGCUUGGCGGCACGAAAAUAAAGUCAAGCUGUCUGCGCAUUUGUCGUCUGCGAUUUGUUGGCAACAUUUAACGUG
...(((..((.(((((((..(((((((...)))))))((((.((((((((((..............))))))))))..)).))......)))))))))..)))(....).......... (-32.68 = -32.52 +  -0.16)

alignment

secondary structure

dotplot

Window 6

Location	5,230,215 – 5,230,334
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	98.49
Mean single sequence MFE	-24.98
Consensus MFE	-23.72
Energy contribution	-24.12
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.22
Structure conservation index	0.95
SVM decision value	0.11
SVM RNA-class probability	0.588941
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5230215 119 - 22407834
CACGUAAAAUGUUGCCAACAAAUCGCAGACGACAAAUGCGCAGACAGCUUGACUUUAUUUUCGUGCCGCCAAGCUAUAGCCAUAUAUACUAUAUAUACAAUGUCUGCGUACAAGUUUAU
...(((((.(((((.(...........).)))))..(((((((((((((((.(..(((....)))..).)))))(((((.........))))).......))))))))))....))))) ( -24.10)
>DroSec_CAF1 7578 119 - 1
CACGUUAAAUGUUGCCAACAAAUCGCAGACGACAAAUGCGCAGACAGCUUGACUUUAUUUUCGUGCCGCCAAGCUAUAGCCAUAUAUACUAUAUAUACAAUGUCUGCGUACAAGUUUAU
..((((.....(((....)))......)))).....(((((((((((((((.(..(((....)))..).)))))(((((.........))))).......))))))))))......... ( -24.40)
>DroSim_CAF1 8500 119 - 1
CACGUUAAAUGUUGCCAACAAAUCGCAGACGACAAAUGCGCAGACAGCUUGACUUUAUUUUCGUGCCGCCAAGCCAUAGCCAUAUAUACUAUAUAUACAAUGUCUGCGUACAAGUUUAU
..((((.....(((....)))......)))).....(((((((((((((((.(..(((....)))..).))))).......((((((...))))))....))))))))))......... ( -23.50)
>DroEre_CAF1 365 119 - 1
CACGUUAAAUGUUGCCAACAAAUCGCAGACGACAAAUGCGCAGACAGCUUGACUUUAUUUUUGUGCCGCCAAGCUAUAGCCAUAUAUACUAUAUAUACAAUGUCUGCGUACAAGUUUAU
..((((.....(((....)))......)))).....(((((((((((((((.(..(((....)))..).)))))(((((.........))))).......))))))))))......... ( -25.10)
>DroYak_CAF1 9384 119 - 1
CACGUAAAAUGUUGGCAACAAAUCGCAGACGACAAAUGCGCAGACAGCUUGACUUUAUUUUCGUGCCGCCAAGCUAUAGCCAUAUAUACUAUAUAUACAAUGUCUGCGUACAAGUUUAU
..(((......(((....))).......))).....(((((((((((((((.(..(((....)))..).)))))(((((.........))))).......))))))))))......... ( -27.82)
>consensus
CACGUUAAAUGUUGCCAACAAAUCGCAGACGACAAAUGCGCAGACAGCUUGACUUUAUUUUCGUGCCGCCAAGCUAUAGCCAUAUAUACUAUAUAUACAAUGUCUGCGUACAAGUUUAU
..((((.....(((....)))......)))).....(((((((((((((((.(..(((....)))..).))))).......((((((...))))))....))))))))))......... (-23.72 = -24.12 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:58 2006