Locus 6056

Sequence ID	3R_DroMel_CAF1
Location	15,925,943 – 15,926,051
Length	108
Max. P	0.990874

overview

Window 9

Location	15,925,943 – 15,926,051
Length	108
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	96.32
Mean single sequence MFE	-29.95
Consensus MFE	-26.48
Energy contribution	-26.70
Covariance contribution	0.22
Combinations/Pair	1.07
Mean z-score	-1.56
Structure conservation index	0.88
SVM decision value	0.80
SVM RNA-class probability	0.853362
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15925943 108 + 27905053
GUGCUUGUGUUUGAACAGGAUAUGCUCGUGCUCCGCUUAUAAUUGGAGCAUAAAGAGAAGCUGUAAGAGAUGUGCAAGGCCGUAAAAAAGGCCAGGAAGUGGCAACAG--
.(((.(((.(((..((((......(((((((((((........))))))))...)))...)))).))).))).))).((((........))))......((....)).-- ( -31.30)
>DroSec_CAF1 42887 108 + 1
GUGCUUGUGUUUGAACAGGAUAUGCUCGUGCUCCGCUUAUAAUUGGAGCAUAAAGUGAAGCUGUAAGAGAUGUGCAAGGCCGUAAAAAAGGCCAGGAAGUGGCAACAG--
.(((.(((.(((..((((..(.((((.((((((((........))))))))..)))).).)))).))).))).))).((((........))))......((....)).-- ( -30.50)
>DroSim_CAF1 32992 108 + 1
GUGCUUGUGUUUGAACAGGAUAUGCUCGUGCUCCGCUUAUAUUUGGAGCAUAAAGUGAAGCUGUAAGAGAUGUGCAAGGCCGUAAAAAAGGCCAGGAAGUGGCAACAG--
.(((.(((.(((..((((..(.((((.((((((((........))))))))..)))).).)))).))).))).))).((((........))))......((....)).-- ( -30.50)
>DroEre_CAF1 32258 110 + 1
GUGCCUGUGUUUGAACAGGAUAUGCUCGUGCUCCGCUUAUAAUUGGAGCAUAAAGUGAAGCUGUAAGAGAUGUGCAAGGCCGUAAAAAAGGCCAGGAAGUGGCAACAGCA
...(((((......)))))((((.(((((((((((........))))))))..((.....))....)))))))((..((((........))))......((....)))). ( -34.70)
>DroYak_CAF1 45207 107 + 1
G-GCUUGUGUUUGAACAGGAUAUGCUCGUGCUCCGCUUAUAAUUGGAGCAUAAAGUGAAGCUGUAAGAGAUGUGCAAGACCGUAAAAAAGGCCAGGAAGUGGCAACAG--
(-((((((.(((..((((..(.((((.((((((((........))))))))..)))).).))))..)))....))))).)).........((((.....)))).....-- ( -28.20)
>DroAna_CAF1 27032 108 + 1
GUGCUUGUGUUUGAACAGGAUAUUCUCGUGCUCUGCUUAUAAUUGGAGCAUAAAGUGAAGCUGUAAGAAAUGUGCAAGGCCGUAAAAAGGGCCAGGAAGUGGCAAAAG--
.(((((((.(((..((((....(((.(((((((((........))))))))...).))).))))..)))....))))((((........))))........)))....-- ( -24.50)
>consensus
GUGCUUGUGUUUGAACAGGAUAUGCUCGUGCUCCGCUUAUAAUUGGAGCAUAAAGUGAAGCUGUAAGAGAUGUGCAAGGCCGUAAAAAAGGCCAGGAAGUGGCAACAG__
.(((((((......)))(.((((.(((((((((((........))))))))..((.....))....))))))).)..((((........)))).......))))...... (-26.48 = -26.70 +   0.22)

alignment

secondary structure

dotplot

Window 0

Location	15,925,943 – 15,926,051
Length	108
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	96.32
Mean single sequence MFE	-23.07
Consensus MFE	-21.01
Energy contribution	-21.07
Covariance contribution	0.06
Combinations/Pair	1.11
Mean z-score	-1.95
Structure conservation index	0.91
SVM decision value	2.24
SVM RNA-class probability	0.990874
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15925943 108 - 27905053
--CUGUUGCCACUUCCUGGCCUUUUUUACGGCCUUGCACAUCUCUUACAGCUUCUCUUUAUGCUCCAAUUAUAAGCGGAGCACGAGCAUAUCCUGUUCAAACACAAGCAC
--.(((.((........((((........))))..))))).........((((.......((((((..........)))))).(((((.....)))))......)))).. ( -23.70)
>DroSec_CAF1 42887 108 - 1
--CUGUUGCCACUUCCUGGCCUUUUUUACGGCCUUGCACAUCUCUUACAGCUUCACUUUAUGCUCCAAUUAUAAGCGGAGCACGAGCAUAUCCUGUUCAAACACAAGCAC
--.(((.((........((((........))))..))))).........((((.......((((((..........)))))).(((((.....)))))......)))).. ( -23.70)
>DroSim_CAF1 32992 108 - 1
--CUGUUGCCACUUCCUGGCCUUUUUUACGGCCUUGCACAUCUCUUACAGCUUCACUUUAUGCUCCAAAUAUAAGCGGAGCACGAGCAUAUCCUGUUCAAACACAAGCAC
--.(((.((........((((........))))..))))).........((((.......((((((..........)))))).(((((.....)))))......)))).. ( -23.70)
>DroEre_CAF1 32258 110 - 1
UGCUGUUGCCACUUCCUGGCCUUUUUUACGGCCUUGCACAUCUCUUACAGCUUCACUUUAUGCUCCAAUUAUAAGCGGAGCACGAGCAUAUCCUGUUCAAACACAGGCAC
.(((((...........((((........)))).............))))).....((..((((((..........))))))..)).....(((((......)))))... ( -27.25)
>DroYak_CAF1 45207 107 - 1
--CUGUUGCCACUUCCUGGCCUUUUUUACGGUCUUGCACAUCUCUUACAGCUUCACUUUAUGCUCCAAUUAUAAGCGGAGCACGAGCAUAUCCUGUUCAAACACAAGC-C
--.....((((.....)))).........((.((((........................((((((..........)))))).(((((.....))))).....)))))-) ( -21.70)
>DroAna_CAF1 27032 108 - 1
--CUUUUGCCACUUCCUGGCCCUUUUUACGGCCUUGCACAUUUCUUACAGCUUCACUUUAUGCUCCAAUUAUAAGCAGAGCACGAGAAUAUCCUGUUCAAACACAAGCAC
--...............((((........))))................((((.......((((.........))))(((((.((.....)).)))))......)))).. ( -18.40)
>consensus
__CUGUUGCCACUUCCUGGCCUUUUUUACGGCCUUGCACAUCUCUUACAGCUUCACUUUAUGCUCCAAUUAUAAGCGGAGCACGAGCAUAUCCUGUUCAAACACAAGCAC
.................((((........))))................((((.......((((((..........)))))).(((((.....)))))......)))).. (-21.01 = -21.07 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:33 2006