Locus 4746

Sequence ID	2R_DroMel_CAF1
Location	15,593,219 – 15,593,343
Length	124
Max. P	0.971175

overview

Window 8

Location	15,593,219 – 15,593,327
Length	108
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	83.39
Mean single sequence MFE	-20.78
Consensus MFE	-17.50
Energy contribution	-17.50
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.88
Structure conservation index	0.84
SVM decision value	0.64
SVM RNA-class probability	0.809557
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15593219 108 + 20766785
CAA-GAUACACCGACAACCCACACAGGGUAUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCA
...-(((((.......((((.....))))................(((((((((.....)))))..)))).....)))))......(((((((((.....))))))))) ( -26.30)
>DroPse_CAF1 433422 101 + 1
CGA-GAGACU-CGACU------GGAGAGUAUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCA
...-...(((-(....------...)))).............((((((.(((((.....)))))((((((.....))))))))))))((((((((.....)))))))). ( -21.10)
>DroGri_CAF1 473007 82 + 1
---------------------------AUAUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCA
---------------------------...............((((((.(((((.....)))))((((((.....))))))))))))((((((((.....)))))))). ( -17.50)
>DroMoj_CAF1 597729 83 + 1
C--------------------------AUAUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCA
.--------------------------...............((((((.(((((.....)))))((((((.....))))))))))))((((((((.....)))))))). ( -17.50)
>DroAna_CAF1 359884 107 + 1
CAAACACACACUCAGAGUCCG--GGGAGUAUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCA
.....((((((((.(....).--..))))................(((((((((.....)))))..)))).....)))).......(((((((((.....))))))))) ( -21.20)
>DroPer_CAF1 392316 101 + 1
CGA-GAGACU-CGACU------GGAGAGUAUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCA
...-...(((-(....------...)))).............((((((.(((((.....)))))((((((.....))))))))))))((((((((.....)))))))). ( -21.10)
>consensus
C_A_GA_AC__CGAC________GAGAGUAUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCA
..........................................((((((.(((((.....)))))((((((.....))))))))))))((((((((.....)))))))). (-17.50 = -17.50 +   0.00)

alignment

secondary structure

dotplot

Window 9

Location	15,593,247 – 15,593,343
Length	96
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	88.72
Mean single sequence MFE	-21.83
Consensus MFE	-19.00
Energy contribution	-19.67
Covariance contribution	0.67
Combinations/Pair	1.08
Mean z-score	-2.50
Structure conservation index	0.87
SVM decision value	1.67
SVM RNA-class probability	0.971175
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15593247 96 + 20766785
AUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCAAGCAGGCACCA-CA---UCC------------
................(((((((((.....)))))((((((.....))))))...(((((((((((.....)))))))))))...))))..-..---...------------ ( -22.40)
>DroPse_CAF1 433443 97 + 1
AUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCAAACAGGCACCA-UA---UCCA-----------
................(((((((((.....)))))((((((.....))))))...(((((((((((.....)))))))))))...))))..-..---....----------- ( -22.70)
>DroGri_CAF1 473009 98 + 1
AUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCAAGCAA----CA-CACGCUCCACA---------
................(((((((((.....)))))..)))).....((((.....(((((((((((.....)))))))))))...----.)-)))........--------- ( -20.80)
>DroSim_CAF1 364126 93 + 1
AUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCAAGCAGGCACCA-CA------------------
................(((((((((.....)))))((((((.....))))))...(((((((((((.....)))))))))))...))))..-..------------------ ( -22.40)
>DroEre_CAF1 371752 99 + 1
AUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGGCACUCGUUUGUCAAGCAGCCAUCC-CA---UCCACA---------
.................((((((((.....)))))((((((.....))))))....((((((((((.....))))))))))))).......-..---......--------- ( -18.70)
>DroWil_CAF1 714003 109 + 1
AUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAAUUUGAUAAAUGACACUCGUUUGUCAAACGGGCACCAUCA---UCCAGACUUUGAGGC
....(((.........(((((((((.....)))))..)))).....(((((....(((((((((((.....)))))))))))..))))).....---........))).... ( -24.00)
>consensus
AUAACAAUAAAAUAAAGUGCAGUUAACACAUGACUUGGCGCAAAUAGUGUCACAUUUUGAUAAAUGACACUCGUUUGUCAAGCAGGCACCA_CA___UCCA___________
................(((((((((.....)))))..)))).....(((((....(((((((((((.....)))))))))))..)))))....................... (-19.00 = -19.67 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:23 2006