Locus 5147

Sequence ID	2L_DroMel_CAF1
Location	14,598,847 – 14,598,959
Length	112
Max. P	0.962025

overview

Window 9

Location	14,598,847 – 14,598,959
Length	112
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.24
Mean single sequence MFE	-35.87
Consensus MFE	-32.40
Energy contribution	-32.40
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.19
Structure conservation index	0.90
SVM decision value	0.36
SVM RNA-class probability	0.706249
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14598847 112 + 22407834
GUUUACCAACUGGCUCGUUGGUCUAGGGGUAUGAUUUCCGCUUAGGGUGCGGGAGGUCCCGGGUUCAAAUCCCGGACGAGCCCAAGAUGGAGUAGUUUUUU------UGUGUUUAUUU--
.....(((.((((((((((.......(((.....(((((((.......)))))))..)))(((.......))).))))))))..)).)))...........------...........-- ( -36.30)
>DroPse_CAF1 10250 117 + 1
AUACGUCAACUGGCUCGUUGGUCUAGGGGUAUGAUUUCCGCUUAGGGUGCGGGAGGUCCCGGGUUCAAAUCCCGGACGAGCCCAAGUCAAUNNNNNNNNNNN---NNNNNNNNNNNNNNN
........(((((((((((.......(((.....(((((((.......)))))))..)))(((.......))).))))))))..)))...............---............... ( -32.50)
>DroSim_CAF1 7247 115 + 1
AAUGAACAACUGGCUCGUUGGUCUAGGGGUAUGAUUUCCGCUUAGGGUGCGGGAGGUCCCGGGUUCAAAUCCCGGACGAGCCCAAGAAAGAGUAGUUUUUUU---AUUGUGUUUAUUU--
((((((((...((((((((.......(((.....(((((((.......)))))))..)))(((.......))).))))))))(((.((((((....))))))---.))))))))))).-- ( -39.40)
>DroWil_CAF1 153632 111 + 1
AUGUGGCAACUGGCUCGUUGGUCUAGGGGUAUGAUUUCCGCUUAGGGUGCGGGAGGUCCCGGGUUCAAAUCCCGGACGAGCCCAAGUGAAGUUGAA----UU---AUUUUGUUUUUUU--
......(((((((((((((.......(((.....(((((((.......)))))))..)))(((.......))).)))))))).......)))))..----..---.............-- ( -35.11)
>DroYak_CAF1 7876 117 + 1
GCUGUUCAACUGGCUCGUUGGUCUAGGGGUAUGAUUUCCGCUUAGGGUGCGGGAGGUCCCGGGUUCAAAUCCCGGACGAGCCCAAGAAGG-UUAUCUUUUUUGCCAAUCUUUUGAUCU--
.....((((..((((((((.......(((.....(((((((.......)))))))..)))(((.......))).))))))))((((((((-....))))))))........))))...-- ( -38.80)
>DroPer_CAF1 10124 117 + 1
AUACGUCAACUGGCUCGUUGGUCUAGGGGUAUGAUUUCCGCUUAGGGUGCGGGAGGUCCCGGGUUCAAAUCCCGGACGAGCCCAAGUAAAAUAACUUUUUUU---UCUCUUCUUAUAUUU
........(((((((((((.......(((.....(((((((.......)))))))..)))(((.......))).))))))))..)))...............---............... ( -33.10)
>consensus
AUUCGUCAACUGGCUCGUUGGUCUAGGGGUAUGAUUUCCGCUUAGGGUGCGGGAGGUCCCGGGUUCAAAUCCCGGACGAGCCCAAGAAAAAUUAGUUUUUUU___A_UCUGUUUAUUU__
...........((((((((.......(((.....(((((((.......)))))))..)))(((.......))).))))))))...................................... (-32.40 = -32.40 +  -0.00)

alignment

secondary structure

dotplot

Window 0

Location	14,598,847 – 14,598,959
Length	112
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.24
Mean single sequence MFE	-29.89
Consensus MFE	-27.80
Energy contribution	-27.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.17
Structure conservation index	0.93
SVM decision value	1.53
SVM RNA-class probability	0.962025
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14598847 112 - 22407834
--AAAUAAACACA------AAAAAACUACUCCAUCUUGGGCUCGUCCGGGAUUUGAACCCGGGACCUCCCGCACCCUAAGCGGAAAUCAUACCCCUAGACCAACGAGCCAGUUGGUAAAC
--...........------...........(((.((..((((((((((((.......)))))......((((.......))))...................))))))))).)))..... ( -30.00)
>DroPse_CAF1 10250 117 - 1
NNNNNNNNNNNNNNN---NNNNNNNNNNNAUUGACUUGGGCUCGUCCGGGAUUUGAACCCGGGACCUCCCGCACCCUAAGCGGAAAUCAUACCCCUAGACCAACGAGCCAGUUGACGUAU
...............---............(..(((..((((((((((((.......)))))......((((.......))))...................))))))))))..)..... ( -30.30)
>DroSim_CAF1 7247 115 - 1
--AAAUAAACACAAU---AAAAAAACUACUCUUUCUUGGGCUCGUCCGGGAUUUGAACCCGGGACCUCCCGCACCCUAAGCGGAAAUCAUACCCCUAGACCAACGAGCCAGUUGUUCAUU
--........(((((---..........(........)((((((((((((.......)))))......((((.......))))...................))))))).)))))..... ( -28.40)
>DroWil_CAF1 153632 111 - 1
--AAAAAAACAAAAU---AA----UUCAACUUCACUUGGGCUCGUCCGGGAUUUGAACCCGGGACCUCCCGCACCCUAAGCGGAAAUCAUACCCCUAGACCAACGAGCCAGUUGCCACAU
--.............---..----..(((((.......((((((((((((.......)))))......((((.......))))...................))))))))))))...... ( -28.81)
>DroYak_CAF1 7876 117 - 1
--AGAUCAAAAGAUUGGCAAAAAAGAUAA-CCUUCUUGGGCUCGUCCGGGAUUUGAACCCGGGACCUCCCGCACCCUAAGCGGAAAUCAUACCCCUAGACCAACGAGCCAGUUGAACAGC
--.........(.(..((....((((...-...)))).((((((((((((.......)))))......((((.......))))...................))))))).))..).)... ( -32.90)
>DroPer_CAF1 10124 117 - 1
AAAUAUAAGAAGAGA---AAAAAAAGUUAUUUUACUUGGGCUCGUCCGGGAUUUGAACCCGGGACCUCCCGCACCCUAAGCGGAAAUCAUACCCCUAGACCAACGAGCCAGUUGACGUAU
...............---.....((((......)))).((((((((((((.......)))))......((((.......))))...................)))))))........... ( -28.90)
>consensus
__AAAUAAACACA_U___AAAAAAACUAAUCUUACUUGGGCUCGUCCGGGAUUUGAACCCGGGACCUCCCGCACCCUAAGCGGAAAUCAUACCCCUAGACCAACGAGCCAGUUGACAAAU
......................................((((((((((((.......)))))......((((.......))))...................)))))))........... (-27.80 = -27.80 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:15 2006