Locus 3093

Sequence ID	X_DroMel_CAF1
Location	8,258,694 – 8,258,844
Length	150
Max. P	0.901541

overview

Window 6

Location	8,258,694 – 8,258,812
Length	118
Sequences	3
Columns	118
Reading direction	forward
Mean pairwise identity	96.05
Mean single sequence MFE	-26.40
Consensus MFE	-23.91
Energy contribution	-23.47
Covariance contribution	-0.44
Combinations/Pair	1.06
Mean z-score	-1.68
Structure conservation index	0.91
SVM decision value	-0.04
SVM RNA-class probability	0.511200
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8258694 118 + 22224390
CUUCCUUUGCCUUUAAAUUAAGCCCAUUAAAAUUAAUUAAGAUAUUGACCCAGUUCGCUGGCAGUCGUCGGAAAAGCGUCGGCACAGAAACAAAAUUGUUUCAAGUGCCUGACAUUUU
.((((..........((((((...........))))))..(((((((..((((....)))))))).)))))))....((((((((.((((((....))))))..))))).)))..... ( -29.30)
>DroSec_CAF1 8956 118 + 1
CUUCCUUUGCCUUUAAAUUAAGCCCAUUAAAAUUAAUUAAGAUAUUGACCCAGUUCGCUGGCAGUCGUCGGAAAACCGCCGGUACAGAAAUAAAAUUGUUUCAAGUGCCUGACAUUUU
.((((..........((((((...........))))))..(((((((..((((....)))))))).))))))).......(((((.((((((....))))))..)))))......... ( -21.70)
>DroYak_CAF1 13550 118 + 1
CUUCCUUUGUCUUUAAAUUAAGCCCAUUAAAAUUAAUUAAGAUAUUGACCCAGUUCGCUGGCAGUCUACGGAAAACCGCCGGCACAGAAACAAAAUUGUUUCAAGUGCCUGACAUUUU
.((((..((((((..((((((...........))))))))))))..(((((((....))))..)))...)))).......(((((.((((((....))))))..)))))......... ( -28.20)
>consensus
CUUCCUUUGCCUUUAAAUUAAGCCCAUUAAAAUUAAUUAAGAUAUUGACCCAGUUCGCUGGCAGUCGUCGGAAAACCGCCGGCACAGAAACAAAAUUGUUUCAAGUGCCUGACAUUUU
.((((.....(((..((((((...........))))))))).....(((((((....))))..)))...)))).......(((((.((((((....))))))..)))))......... (-23.91 = -23.47 +  -0.44)

alignment

secondary structure

dotplot

Window 7

Location	8,258,732 – 8,258,844
Length	112
Sequences	3
Columns	112
Reading direction	forward
Mean pairwise identity	95.83
Mean single sequence MFE	-28.67
Consensus MFE	-25.51
Energy contribution	-25.73
Covariance contribution	0.23
Combinations/Pair	1.07
Mean z-score	-1.80
Structure conservation index	0.89
SVM decision value	0.03
SVM RNA-class probability	0.550455
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8258732 112 + 22224390
AAGAUAUUGACCCAGUUCGCUGGCAGUCGUCGGAAAAGCGUCGGCACAGAAACAAAAUUGUUUCAAGUGCCUGACAUUUUUACAUUAAAGCGACAUGACGUCAUUAGAUGAA
....((.((((((((....))))..(((((..((((((.((((((((.((((((....))))))..))))).))).))))).)......))))).....)))).))...... ( -32.00)
>DroSec_CAF1 8994 112 + 1
AAGAUAUUGACCCAGUUCGCUGGCAGUCGUCGGAAAACCGCCGGUACAGAAAUAAAAUUGUUUCAAGUGCCUGACAUUUUUACAUUAAAGCGACAUGACGUCAUUAGAUGAA
....((.((((((((....))))..((((((((....)))..(((((.((((((....))))))..)))))..................))))).....)))).))...... ( -26.50)
>DroYak_CAF1 13588 112 + 1
AAGAUAUUGACCCAGUUCGCUGGCAGUCUACGGAAAACCGCCGGCACAGAAACAAAAUUGUUUCAAGUGCCUGACAUUUUUACAUUAAAACGACAUGACGUCAUUAGAUGAA
....((.((((((((....))))..(((..(((....)))..(((((.((((((....))))))..)))))....................))).....)))).))...... ( -27.50)
>consensus
AAGAUAUUGACCCAGUUCGCUGGCAGUCGUCGGAAAACCGCCGGCACAGAAACAAAAUUGUUUCAAGUGCCUGACAUUUUUACAUUAAAGCGACAUGACGUCAUUAGAUGAA
....((.((((((((....))))..(((((((......))..(((((.((((((....))))))..)))))..................))))).....)))).))...... (-25.51 = -25.73 +   0.23)

alignment

secondary structure

dotplot

Window 8

Location	8,258,732 – 8,258,844
Length	112
Sequences	3
Columns	112
Reading direction	reverse
Mean pairwise identity	95.83
Mean single sequence MFE	-31.70
Consensus MFE	-28.72
Energy contribution	-29.83
Covariance contribution	1.11
Combinations/Pair	1.03
Mean z-score	-2.45
Structure conservation index	0.91
SVM decision value	1.02
SVM RNA-class probability	0.901541
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8258732 112 - 22224390
UUCAUCUAAUGACGUCAUGUCGCUUUAAUGUAAAAAUGUCAGGCACUUGAAACAAUUUUGUUUCUGUGCCGACGCUUUUCCGACGACUGCCAGCGAACUGGGUCAAUAUCUU
.........(((((((..(((((......))((((.((((.(((((..((((((....)))))).))))))))).))))..))))))..((((....))))))))....... ( -32.20)
>DroSec_CAF1 8994 112 - 1
UUCAUCUAAUGACGUCAUGUCGCUUUAAUGUAAAAAUGUCAGGCACUUGAAACAAUUUUAUUUCUGUACCGGCGGUUUUCCGACGACUGCCAGCGAACUGGGUCAAUAUCUU
.........((((.(((..(((((.................((.((..((((........)))).)).))(((((((.......))))))))))))..)))))))....... ( -26.30)
>DroYak_CAF1 13588 112 - 1
UUCAUCUAAUGACGUCAUGUCGUUUUAAUGUAAAAAUGUCAGGCACUUGAAACAAUUUUGUUUCUGUGCCGGCGGUUUUCCGUAGACUGCCAGCGAACUGGGUCAAUAUCUU
.........((((.(((..(((((.................(((((..((((((....)))))).)))))((((((((.....)))))))))))))..)))))))....... ( -36.60)
>consensus
UUCAUCUAAUGACGUCAUGUCGCUUUAAUGUAAAAAUGUCAGGCACUUGAAACAAUUUUGUUUCUGUGCCGGCGGUUUUCCGACGACUGCCAGCGAACUGGGUCAAUAUCUU
.........((((.(((..(((((.................(((((..((((((....)))))).)))))(((((((.......))))))))))))..)))))))....... (-28.72 = -29.83 +   1.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:46 2006