Locus 6721

Sequence ID	3L_DroMel_CAF1
Location	17,964,815 – 17,964,908
Length	93
Max. P	0.999437

overview

Window 2

Location	17,964,815 – 17,964,908
Length	93
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	93.28
Mean single sequence MFE	-41.46
Consensus MFE	-33.66
Energy contribution	-33.78
Covariance contribution	0.12
Combinations/Pair	1.08
Mean z-score	-2.33
Structure conservation index	0.81
SVM decision value	1.94
SVM RNA-class probability	0.983300
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17964815 93 + 23771897
GUCGACGUCGGCGCUCUCCGCUUUGCACUC--UCUCGCACUUCGAACAUGUGCUGCCAUCCACCCAGCGAGUGCGAGCAGGAGCGCGCGAUCCCA
...(..(((((((((((..((((.((((((--....((((.........)))).((..........)))))))))))).))))))).))))..). ( -37.10)
>DroSec_CAF1 87552 93 + 1
GUCGACGUCGGCGCUCUCCGCUUCGCACUC--UCUCGGACUUCGAACAUGUGCUGCCAUCCACCCAGCGAGUGCGAGAAGGAGCGCGCGAUCCCA
...(..((((.(((.((((..(((((((((--..(((.....)))......((((.........)))))))))))))..)))).)))))))..). ( -37.60)
>DroSim_CAF1 94488 93 + 1
GUCGACGUCGGCGCUCUCCGCUUCGCACUC--UCUCGCACGUCGAACAUGUGCUGCCAUCCACCCAGCGAGUGCGAGCAGGAGCGCGCGAUCCCA
...(..(((((((((((..(((.(((((((--....((((((.....)))))).((..........)))))))))))).))))))).))))..). ( -40.90)
>DroEre_CAF1 89873 93 + 1
GUCGACGUCGGCGCUCUCCGGCUCGCACUC--UCUCGCACUUGGAACAUGUGCUGCCGUCCAGCCAGCGAGUGCGAGCAGGAGCGCGCGAUCCGA
.(((..(((((((((((...((((((((((--.((.((...((((.((.....))...)))))).)).)))))))))).))))))).)))).))) ( -46.20)
>DroYak_CAF1 93920 95 + 1
GUCGACGUCGGCGCUCUCCGCGUCGCACUCUCUCUCGCACUUGAAACAUGUGCUGCCAUCCAGCCAGCGAGUGCGAGCGGGAGCGCGCGAUCCCA
((((.(...(((((.....)))))((.(((((.((((((((((.....((.((((.....)))))).)))))))))).))))).))))))).... ( -45.50)
>consensus
GUCGACGUCGGCGCUCUCCGCUUCGCACUC__UCUCGCACUUCGAACAUGUGCUGCCAUCCACCCAGCGAGUGCGAGCAGGAGCGCGCGAUCCCA
......((((.(((.((((..(((((((((......((((.........)))).((..........)))))))))))..)))).))))))).... (-33.66 = -33.78 +   0.12)

alignment

secondary structure

dotplot

Window 3

Location	17,964,815 – 17,964,908
Length	93
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	93.28
Mean single sequence MFE	-45.74
Consensus MFE	-41.34
Energy contribution	-42.02
Covariance contribution	0.68
Combinations/Pair	1.06
Mean z-score	-2.33
Structure conservation index	0.90
SVM decision value	3.60
SVM RNA-class probability	0.999437
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17964815 93 - 23771897
UGGGAUCGCGCGCUCCUGCUCGCACUCGCUGGGUGGAUGGCAGCACAUGUUCGAAGUGCGAGA--GAGUGCAAAGCGGAGAGCGCCGACGUCGAC
.((..(((.(((((((((((.((((((((((......)))).((((.........))))....--))))))..))))).)))))))))..))... ( -41.70)
>DroSec_CAF1 87552 93 - 1
UGGGAUCGCGCGCUCCUUCUCGCACUCGCUGGGUGGAUGGCAGCACAUGUUCGAAGUCCGAGA--GAGUGCGAAGCGGAGAGCGCCGACGUCGAC
.((..(((.((((((((.(((((((((.((...(((((..((((....))).)..))))))).--))))))).)).)).)))))))))..))... ( -39.60)
>DroSim_CAF1 94488 93 - 1
UGGGAUCGCGCGCUCCUGCUCGCACUCGCUGGGUGGAUGGCAGCACAUGUUCGACGUGCGAGA--GAGUGCGAAGCGGAGAGCGCCGACGUCGAC
.((..(((.((((((((((((((((((((((......)))).((((.........))))....--))))))).))))).)))))))))..))... ( -45.80)
>DroEre_CAF1 89873 93 - 1
UCGGAUCGCGCGCUCCUGCUCGCACUCGCUGGCUGGACGGCAGCACAUGUUCCAAGUGCGAGA--GAGUGCGAGCCGGAGAGCGCCGACGUCGAC
((((.((((((.((((.((((((((((((((......)))).((((.((...)).))))....--)))))))))).)))).))).)))..)))). ( -51.50)
>DroYak_CAF1 93920 95 - 1
UGGGAUCGCGCGCUCCCGCUCGCACUCGCUGGCUGGAUGGCAGCACAUGUUUCAAGUGCGAGAGAGAGUGCGACGCGGAGAGCGCCGACGUCGAC
.((..(((.((((((((((((((((((((((.(.....).))))...(.((((......)))).))))))))).)))).)))))))))..))... ( -50.10)
>consensus
UGGGAUCGCGCGCUCCUGCUCGCACUCGCUGGGUGGAUGGCAGCACAUGUUCGAAGUGCGAGA__GAGUGCGAAGCGGAGAGCGCCGACGUCGAC
(((..(((.((((((((((((((((((((((......)))).((((.........))))......)))))))).)))).)))))))))..))).. (-41.34 = -42.02 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:25 2006