Locus 2284

Sequence ID	3R_DroMel_CAF1
Location	6,496,959 – 6,497,072
Length	113
Max. P	0.806640

overview

Window 3

Location	6,496,959 – 6,497,049
Length	90
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	80.61
Mean single sequence MFE	-38.77
Consensus MFE	-23.02
Energy contribution	-24.33
Covariance contribution	1.31
Combinations/Pair	1.08
Mean z-score	-1.72
Structure conservation index	0.59
SVM decision value	0.06
SVM RNA-class probability	0.563388
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6496959 90 + 27905053
------------------CAUCGCAUGGGCGUGUUGCUCGGGGGCGUCUUU--GCCAGUUGCAUUUGGCUUUCAAUUUGCCAUCGAGCUGGGUACACCUCUGGGCGUUCC
------------------...(((..(((.((((.(((((..((((.....--(((((......)))))........))))..))))).....)))))))...))).... ( -32.82)
>DroVir_CAF1 298159 106 + 1
--CCAGCAGCAAUAUUCAAAGCACAUGGGCGUGUUGCUCGGGGGCGUCUGU--GGCUCUCGCAUUUGGCUUUCAAUUUACAAUCGAGCUGGCUACACCUCUGGGCGUUGC
--...(((((.........(((((......)))))(((((((((....(((--((((((((...(((............))).))))..))))))))))))))))))))) ( -37.70)
>DroPse_CAF1 268334 106 + 1
--GCAAUUGCAUGCCACAUGCCGCAUGGGCGUGUUGCUUGGGGGCGUCUUU--GCCGGUUGCAUUUGGCUUUCAAUUUGCCAUCGAGCUGGCUACACCUCUGGGCGUUCC
--......(((((((.((((...))))))))))).(((..((((.((....--(((((((.(...((((.........))))..)))))))).)).))))..)))..... ( -43.90)
>DroEre_CAF1 273631 90 + 1
------------------CGGCGCAUGGGCGUGUUGCUCGGGGGCGUCUUA--GCCAGUUGCAUUUGGCUUUCAAUUUGCCAUCGAGCUGGCUACACCUCUGGGCGUUCC
------------------..((((....))))...(((((((((.((...(--(((((((.(...((((.........))))..))))))))))).)))))))))..... ( -39.00)
>DroWil_CAF1 380182 110 + 1
CAUCAACUUCAACAUCCACGGCACAUGGGCGUGUUGCUUGGGGGCGUUUGUGUGGCUGUUGCAUUUGGCUUUCAAUUUGCAAUCGAGCUGGCUACACCUCUGGGCGUUGC
.........((((...((((.(.....).))))..(((..((((.((..((.(((((((((((.(((.....)))..))))))..))))))).)).))))..))))))). ( -35.30)
>DroPer_CAF1 273049 106 + 1
--GCAAUUGCAUGCCACAUGCCGCAUGGGCGUGUUGCUUGGGGGCGUCUUU--GCCGGUUGCAUUUGGCUUUCAAUUUGCCAUCGAGCUGGCUACACCUCUGGGCGUUCC
--......(((((((.((((...))))))))))).(((..((((.((....--(((((((.(...((((.........))))..)))))))).)).))))..)))..... ( -43.90)
>consensus
___CAA_UGCA_____CACGGCGCAUGGGCGUGUUGCUCGGGGGCGUCUUU__GCCAGUUGCAUUUGGCUUUCAAUUUGCCAUCGAGCUGGCUACACCUCUGGGCGUUCC
.....................(((..(((.((((.((((((.((((.......(((((......)))))........)))).)))))).....)))))))...))).... (-23.02 = -24.33 +   1.31)

alignment

secondary structure

dotplot

Window 4

Location	6,496,973 – 6,497,072
Length	99
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	75.88
Mean single sequence MFE	-36.42
Consensus MFE	-23.84
Energy contribution	-25.20
Covariance contribution	1.36
Combinations/Pair	1.09
Mean z-score	-1.42
Structure conservation index	0.65
SVM decision value	0.63
SVM RNA-class probability	0.806640
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6496973 99 + 27905053
GUUGCUCGGGGGCGUCUUUGCCAGUUGCAUUUGGCUUUCAAUUUGCCAUCGAGCUGGGUACACCUCUGGGCGUUCC-------------AAGAUCCGU-GACU-----CCGAGAGGCA
...(((((..((((.....(((((......)))))........))))..)))))........(((((.((.((..(-------------.......).-.)).-----)).))))).. ( -35.52)
>DroVir_CAF1 298189 85 + 1
GUUGCUCGGGGGCGUCUGUGGCUCUCGCAUUUGGCUUUCAAUUUACAAUCGAGCUGGCUACACCUCUGGGCGUUGC-------------AGCAGCAAC--------------------
...(((((((((....(((((((((((...(((............))).))))..))))))))))))))))(((((-------------....)))))-------------------- ( -32.30)
>DroPse_CAF1 268364 89 + 1
GUUGCUUGGGGGCGUCUUUGCCGGUUGCAUUUGGCUUUCAAUUUGCCAUCGAGCUGGCUACACCUCUGGGCGUUCC-------------AGCAGCA----------------GCAGCA
((((((..(((((((((..(((((((.(...((((.........))))..)))))))).........)))))))))-------------...))))----------------)).... ( -35.90)
>DroEre_CAF1 273645 99 + 1
GUUGCUCGGGGGCGUCUUAGCCAGUUGCAUUUGGCUUUCAAUUUGCCAUCGAGCUGGCUACACCUCUGGGCGUUCC-------------GAGAUCCGC-GACU-----CCAAGGGGCA
...(((((((((.((...((((((((.(...((((.........))))..))))))))))).)))))))))(((((-------------(((......-..))-----)...))))). ( -40.90)
>DroYak_CAF1 269279 112 + 1
GUUGCUCGGGGGCGUCUUUGCCAGUUGCAUUUGGCUUUCAAUUUGCCAUCGAGCUGGCUACACCUCUGGGCGUUUCUCCGGCGUUCCUGCAGAUCUGC-GACU-----CCAAGGGGCA
...(((((((((.((....(((((((.(...((((.........))))..)))))))).)).)))))))))((..((..((.(((...(((....)))-))).-----)).))..)). ( -44.90)
>DroMoj_CAF1 361384 102 + 1
GUUGCUCGGGGGCGUCUGGGCCGCUCACAUUUGGCUUUCAAUUUGCAAUUGCGCUGGCUACACCUCUGGGCGUUGC-------------AACAGCAUCCGACUUAUCUGC---CAGCA
(((((..((((((......))).)))....(((.....)))...)))))...((((((........(((..((((.-------------..))))..)))........))---)))). ( -28.99)
>consensus
GUUGCUCGGGGGCGUCUUUGCCAGUUGCAUUUGGCUUUCAAUUUGCCAUCGAGCUGGCUACACCUCUGGGCGUUCC_____________AACAGCAGC_GACU_____CC__GCGGCA
...(((((((((.((....(((((((.....((((.........))))...))))))).)).)))))))))............................................... (-23.84 = -25.20 +   1.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:36 2006