Locus 1256

Sequence ID	X_DroMel_CAF1
Location	3,749,632 – 3,749,778
Length	146
Max. P	0.998195

overview

Window 0

Location	3,749,632 – 3,749,741
Length	109
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	73.65
Mean single sequence MFE	-34.02
Consensus MFE	-13.08
Energy contribution	-14.44
Covariance contribution	1.36
Combinations/Pair	1.22
Mean z-score	-1.88
Structure conservation index	0.38
SVM decision value	0.57
SVM RNA-class probability	0.785626
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3749632 109 + 22224390
AAAUUUAAGUUGUGUGAAGAUCCGCCAGGUAAACCGCCACCGCCACCGCCAAUGCCAUCGGAUCCCACAAUUCCCGGCUUUCCGGCUUCACCGGUAGCGGGUACCUGGG
........................(((((((..((((.((((.....(((...(((...(((.........))).))).....))).....)))).)))).))))))). ( -35.20)
>DroSec_CAF1 3361 91 + 1
AAAUUUAAGUUGUGUGAAGAUCCG------------------CCUCCGCCAAUGCCAUCGGAUCCCACAAUUCCCGGCUUCCCGGCUUCACCAGAAGCGGGUGGCUGGG
.......(((((((.(..((((((------------------.....((....))...))))))))))))))(((((((.((((.((((....)))))))).))))))) ( -37.30)
>DroSim_CAF1 3384 91 + 1
AAAUUUAAGUUGUGUGAAGAUCCG------------------CCACCGCCAAUGCCAUCGGAUCCCACAAUUCCCGGCUGCCCGGCUUCACCAGAAGCGGGUGGCUGGG
.......(((((((.(..((((((------------------.....((....))...))))))))))))))((((((..((((.((((....))))))))..)))))) ( -40.70)
>DroEre_CAF1 3315 97 + 1
AAAUUUAGGUUUUGUGAAGAUCCACCAGGUAGACCG---------CCACCAAUGGCAUCGGAUCCCAACAUUCCGGGAUU---AUUUUCACCGGCACCGCUUGCCUGGG
....((((((...(((..(((((....((....))(---------(((....))))...)))))........((((((..---....)).))))...)))..)))))). ( -30.50)
>DroYak_CAF1 3468 97 + 1
AAAUUUAGAUUGUGUGAAGAUCCGCCAGGCAAACUG---------CUACCUACGGCAUCGGAUCCCACAAUGCCCGGCAU---GUUUUCACCGGCACCGGCUGCUUGGG
.............((((((((..(((.((((...((---------((......))))..((...))....)))).)))..---))))))))((((....))))...... ( -26.40)
>consensus
AAAUUUAAGUUGUGUGAAGAUCCGCCAGG_A_AC_G______CC_CCGCCAAUGCCAUCGGAUCCCACAAUUCCCGGCUU_CCGGCUUCACCGGAAGCGGGUGCCUGGG
.......(((((((.(..((((((..................................))))))))))))))(((((...((((.............))))...))))) (-13.08 = -14.44 +   1.36)

alignment

secondary structure

dotplot

Window 1

Location	3,749,663 – 3,749,778
Length	115
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	77.79
Mean single sequence MFE	-42.50
Consensus MFE	-20.62
Energy contribution	-22.22
Covariance contribution	1.60
Combinations/Pair	1.21
Mean z-score	-3.05
Structure conservation index	0.49
SVM decision value	3.03
SVM RNA-class probability	0.998195
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3749663 115 + 22224390
AACCGCCACCGCCACCGCCAAUGCCAUCGGAUCCCACAAUUCCCGGCUUUCCGGCUUCACCGGUAGCGGGUACCUGGGAAUUUAGCGAUCCCACUGUGCCAUACUGUGGUGACAC
...(((((((((.((((.....(((...(((.........))).((....))))).....)))).)))(((((.(((((.........)))))..))))).....)))))).... ( -40.00)
>DroSec_CAF1 3385 104 + 1
-----------CCUCCGCCAAUGCCAUCGGAUCCCACAAUUCCCGGCUUCCCGGCUUCACCAGAAGCGGGUGGCUGGGGAUUCAGCGAUCCCACUGUGCCAUACUGCGGUGACAC
-----------.(.((((..(((.(((.(((((....(((((((((((.((((.((((....)))))))).)))))))))))....)))))....))).)))...)))).).... ( -45.50)
>DroSim_CAF1 3408 104 + 1
-----------CCACCGCCAAUGCCAUCGGAUCCCACAAUUCCCGGCUGCCCGGCUUCACCAGAAGCGGGUGGCUGGGGAUUCAGCGAUCCCACUGUGCCAUACUGCGGUGACAC
-----------.((((((..(((.(((.(((((....((((((((((..((((.((((....))))))))..))))))))))....)))))....))).)))...)))))).... ( -52.90)
>DroEre_CAF1 3346 103 + 1
GACCG---------CCACCAAUGGCAUCGGAUCCCAACAUUCCGGGAUU---AUUUUCACCGGCACCGCUUGCCUGGGGAUUCAGGGAACCCACUGUGCCAUAUUGUGGCGACAC
...((---------((((..(((((((.(((((((........((((..---....)).))((((.....))))..))))))).((....))...)))))))...)))))).... ( -42.70)
>DroYak_CAF1 3499 103 + 1
AACUG---------CUACCUACGGCAUCGGAUCCCACAAUGCCCGGCAU---GUUUUCACCGGCACCGGCUGCUUGGGGAUUCAGCGAUCCCACUGUUCCAUACUGUGGUGACAC
...((---------((......))))..(((((((.(((.((((((..(---(((......))))))))..))))))))))))...(.((((((.((.....)).)))).))).. ( -31.40)
>consensus
_AC_G______CC_CCGCCAAUGCCAUCGGAUCCCACAAUUCCCGGCUU_CCGGCUUCACCGGAAGCGGGUGCCUGGGGAUUCAGCGAUCCCACUGUGCCAUACUGUGGUGACAC
..............((((..(((.(((.(((((....(((((((((...((((.............))))...)))))))))....)))))....))).)))...))))...... (-20.62 = -22.22 +   1.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:10 2006