Locus 9065

Sequence ID	3R_DroMel_CAF1
Location	24,221,282 – 24,221,373
Length	91
Max. P	0.899592

overview

Window 6

Location	24,221,282 – 24,221,373
Length	91
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	89.46
Mean single sequence MFE	-25.20
Consensus MFE	-25.20
Energy contribution	-25.20
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.35
Structure conservation index	1.00
SVM decision value	1.01
SVM RNA-class probability	0.899592
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24221282 91 + 27905053
----------CAC-UU------CCACUCCAGCCCACUGGGCCACUACAUCGCCUUUGGACUGAAGGAGCUGUAGCCUUGUUUGCUCUUCCUUGCGUCGCCUGCAGUUC
----------...-..------...((.(((.(((..((((.........)))).))).))).))((((((((((..(((..(......)..)))..).))))))))) ( -25.20)
>DroSec_CAF1 43927 97 + 1
----------CAC-UUCCACUUCCACUCCAGCCCACUGGGCCACUACAUCGCCUUUGGACUGAAGGAGCUGUAGCCUUGUUUGCUUUUCCUUGCGUCGCCUGCAGUUC
----------...-...........((.(((.(((..((((.........)))).))).))).))((((((((((..(((..(......)..)))..).))))))))) ( -25.20)
>DroSim_CAF1 47926 97 + 1
----------CAC-UUCCACUUCCACUCCAGCCCACUGGGCCACUACAUCGCCUUUGGACUGAAGGAGCUGUAGCCUUGUUUGCUUUUCCUUGCGUCGCCUGCAGUUC
----------...-...........((.(((.(((..((((.........)))).))).))).))((((((((((..(((..(......)..)))..).))))))))) ( -25.20)
>DroEre_CAF1 48691 107 + 1
CUCCCAAUUCCAC-ACCCAAUUCCACUCCAGCCCACUGGGCCACUACAUCGCCUUUGGACUGAAGGAGCUGUAGCCUUGUUUGCUUUUCCUUGCGUCGCCUGCAGUUC
.............-...........((.(((.(((..((((.........)))).))).))).))((((((((((..(((..(......)..)))..).))))))))) ( -25.20)
>DroYak_CAF1 46513 108 + 1
CUCCCACAUCCACUACCCAAUUCCACUCCAGCCCACUGGGCCACUACAUCGCCUUUGGACUGAAGGAGCUGUAGCCUUGUUUGCUUUUCCUUGCGUCGCCUGCAGUUC
.........................((.(((.(((..((((.........)))).))).))).))((((((((((..(((..(......)..)))..).))))))))) ( -25.20)
>consensus
__________CAC_UUCCAAUUCCACUCCAGCCCACUGGGCCACUACAUCGCCUUUGGACUGAAGGAGCUGUAGCCUUGUUUGCUUUUCCUUGCGUCGCCUGCAGUUC
.........................((.(((.(((..((((.........)))).))).))).))((((((((((..(((..(......)..)))..).))))))))) (-25.20 = -25.20 +  -0.00)

alignment

secondary structure

dotplot

Window 7

Location	24,221,282 – 24,221,373
Length	91
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	89.46
Mean single sequence MFE	-32.06
Consensus MFE	-26.88
Energy contribution	-26.88
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.49
Structure conservation index	0.84
SVM decision value	0.45
SVM RNA-class probability	0.739968
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24221282 91 - 27905053
GAACUGCAGGCGACGCAAGGAAGAGCAAACAAGGCUACAGCUCCUUCAGUCCAAAGGCGAUGUAGUGGCCCAGUGGGCUGGAGUGG------AA-GUG----------
....(((.(....))))......(((.......)))((..(..((((((((((..(((.((...)).)))...))))))))))..)------..-)).---------- ( -27.70)
>DroSec_CAF1 43927 97 - 1
GAACUGCAGGCGACGCAAGGAAAAGCAAACAAGGCUACAGCUCCUUCAGUCCAAAGGCGAUGUAGUGGCCCAGUGGGCUGGAGUGGAAGUGGAA-GUG----------
....(((......(....).....)))..((...((((..(..((((((((((..(((.((...)).)))...))))))))))..)..))))..-.))---------- ( -31.60)
>DroSim_CAF1 47926 97 - 1
GAACUGCAGGCGACGCAAGGAAAAGCAAACAAGGCUACAGCUCCUUCAGUCCAAAGGCGAUGUAGUGGCCCAGUGGGCUGGAGUGGAAGUGGAA-GUG----------
....(((......(....).....)))..((...((((..(..((((((((((..(((.((...)).)))...))))))))))..)..))))..-.))---------- ( -31.60)
>DroEre_CAF1 48691 107 - 1
GAACUGCAGGCGACGCAAGGAAAAGCAAACAAGGCUACAGCUCCUUCAGUCCAAAGGCGAUGUAGUGGCCCAGUGGGCUGGAGUGGAAUUGGGU-GUGGAAUUGGGAG
...((.(..((..(....).....))...(((..(((((.(((((((((((((..(((.((...)).)))...)))))))))).).....)).)-))))..)))).)) ( -34.20)
>DroYak_CAF1 46513 108 - 1
GAACUGCAGGCGACGCAAGGAAAAGCAAACAAGGCUACAGCUCCUUCAGUCCAAAGGCGAUGUAGUGGCCCAGUGGGCUGGAGUGGAAUUGGGUAGUGGAUGUGGGAG
...(..((.((..(....).....)).......(((((..(..((((((((((..(((.((...)).)))...))))))))))..)......)))))...))..)... ( -35.20)
>consensus
GAACUGCAGGCGACGCAAGGAAAAGCAAACAAGGCUACAGCUCCUUCAGUCCAAAGGCGAUGUAGUGGCCCAGUGGGCUGGAGUGGAAGUGGAA_GUG__________
...(((.((.(...((........))......).)).)))(..((((((((((..(((.((...)).)))...))))))))))..)...................... (-26.88 = -26.88 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:53 2006