Locus 1983

Sequence ID	X_DroMel_CAF1
Location	5,447,775 – 5,447,878
Length	103
Max. P	0.980839

overview

Window 2

Location	5,447,775 – 5,447,878
Length	103
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	93.18
Mean single sequence MFE	-26.24
Consensus MFE	-21.17
Energy contribution	-21.77
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.35
Structure conservation index	0.81
SVM decision value	1.87
SVM RNA-class probability	0.980839
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5447775 103 + 22224390
UAAUUGCGCGUCAUAUUGGCUCAGCUAUACUUAGCCCUCGUCUUUCGCCCCAGACGAGAAAAGCCAAC-CCCCAGAAAAACGCCCGGAAAAACGGCCCACCCAC-
.....(((..((...((((((..((((....)))).(((((((........)))))))...)))))).-.....))....)))(((......))).........- ( -25.10)
>DroSec_CAF1 54441 98 + 1
UAAUUGCGCGUCAUAUUGGCUCAGCUAUACUUAGCCCUCGUCUUUCGCCCCAGACGA-----GCCAAC-CCCACGAAAAACGACCGGAAAAACCGCCCACCCAC-
....((.(((.....(((((((.((((....))))....((((........))))))-----)))))(-(...((.....))...))......))).)).....- ( -23.10)
>DroSim_CAF1 53232 104 + 1
UAAUUGCGCGUCAUAUUGGCUCAGCUAUACUUAGCCCUCGUCUUUCGCCCCAGACGAGAAAAGCCAACCCCCACGAAAAACGCCCGGAAAAACGGCCCACCCAC-
.....((((((....((((((..((((....)))).(((((((........)))))))...)))))).....))).....)))(((......))).........- ( -26.20)
>DroEre_CAF1 65813 104 + 1
UAAUUGCGCGUCAUAUUGGCUCAGCUAUACUUAGCCCUCGUCUUUCGCCCCAGACGAGAAAAGCCAAC-CCCCGAGAAAACGCCCGGAAAAACGGACUACCCACC
.........(((...((((((..((((....)))).(((((((........)))))))...)))))).-..(((.(......).))).......)))........ ( -26.10)
>DroYak_CAF1 56289 104 + 1
UAAUUGCGCGUCAUAUUGGCUCAGCUAUACUUAGCCCUCGUCUUUCGCCCCAGACGAGAAAAGCCAAC-CCCCAGAAAAACGCCCGGAAAAACGGGCCACCCACC
...............((((((..((((....)))).(((((((........)))))))...)))))).-............(((((......)))))........ ( -30.70)
>consensus
UAAUUGCGCGUCAUAUUGGCUCAGCUAUACUUAGCCCUCGUCUUUCGCCCCAGACGAGAAAAGCCAAC_CCCCAGAAAAACGCCCGGAAAAACGGCCCACCCAC_
.......((((....(((((...((((....)))).(((((((........)))))))....)))))............))))(((......))).......... (-21.17 = -21.77 +   0.60)

alignment

secondary structure

dotplot

Window 3

Location	5,447,775 – 5,447,878
Length	103
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	93.18
Mean single sequence MFE	-37.18
Consensus MFE	-32.78
Energy contribution	-33.78
Covariance contribution	1.00
Combinations/Pair	1.07
Mean z-score	-1.59
Structure conservation index	0.88
SVM decision value	1.36
SVM RNA-class probability	0.945797
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5447775 103 - 22224390
-GUGGGUGGGCCGUUUUUCCGGGCGUUUUUCUGGGG-GUUGGCUUUUCUCGUCUGGGGCGAAAGACGAGGGCUAAGUAUAGCUGAGCCAAUAUGACGCGCAAUUA
-(((.((((((((..(..(((((......)))))..-).))))))..(((((((........)))))))((((.((.....)).))))......)).)))..... ( -37.80)
>DroSec_CAF1 54441 98 - 1
-GUGGGUGGGCGGUUUUUCCGGUCGUUUUUCGUGGG-GUUGGC-----UCGUCUGGGGCGAAAGACGAGGGCUAAGUAUAGCUGAGCCAAUAUGACGCGCAAUUA
-(((...((.(((.....))).))......(((.(.-((((((-----((((((........))))...(((((....))))))))))))).).))))))..... ( -33.50)
>DroSim_CAF1 53232 104 - 1
-GUGGGUGGGCCGUUUUUCCGGGCGUUUUUCGUGGGGGUUGGCUUUUCUCGUCUGGGGCGAAAGACGAGGGCUAAGUAUAGCUGAGCCAAUAUGACGCGCAAUUA
-.((.((((.(((......))).).....((((....((((((((..(((((((........)))))))(((((....)))))))))))))))))))).)).... ( -36.00)
>DroEre_CAF1 65813 104 - 1
GGUGGGUAGUCCGUUUUUCCGGGCGUUUUCUCGGGG-GUUGGCUUUUCUCGUCUGGGGCGAAAGACGAGGGCUAAGUAUAGCUGAGCCAAUAUGACGCGCAAUUA
.(((.((.(((((......))))).......((...-((((((((..(((((((........)))))))(((((....))))))))))))).)))).)))..... ( -38.10)
>DroYak_CAF1 56289 104 - 1
GGUGGGUGGCCCGUUUUUCCGGGCGUUUUUCUGGGG-GUUGGCUUUUCUCGUCUGGGGCGAAAGACGAGGGCUAAGUAUAGCUGAGCCAAUAUGACGCGCAAUUA
.(((.((.(((((......)))))............-((((((((..(((((((........)))))))(((((....)))))))))))))...)).)))..... ( -40.50)
>consensus
_GUGGGUGGGCCGUUUUUCCGGGCGUUUUUCGGGGG_GUUGGCUUUUCUCGUCUGGGGCGAAAGACGAGGGCUAAGUAUAGCUGAGCCAAUAUGACGCGCAAUUA
.(((.((.(((((......))))).............((((((((..(((((((........)))))))(((((....)))))))))))))...)).)))..... (-32.78 = -33.78 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:31 2006