Locus 245

Sequence ID	2L_DroMel_CAF1
Location	717,549 – 717,641
Length	92
Max. P	0.927696

overview

Window 4

Location	717,549 – 717,641
Length	92
Sequences	6
Columns	92
Reading direction	forward
Mean pairwise identity	95.29
Mean single sequence MFE	-25.40
Consensus MFE	-22.03
Energy contribution	-22.62
Covariance contribution	0.59
Combinations/Pair	1.10
Mean z-score	-1.96
Structure conservation index	0.87
SVM decision value	1.19
SVM RNA-class probability	0.927696
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 717549 92 + 22407834
UUGUAGCCGCGUUUCUGCUGUUGUUGUCGUCGUCAUCCUUGGAAUCGUCAUCAUCGACAACUGCAAACAACAUUCGCCUGUCAGCGGCAACA
.(((.((((((((..(((.(((((((..(.((...((....))..))....)..))))))).)))))).(((......)))..))))).))) ( -26.20)
>DroSec_CAF1 96287 92 + 1
CUGUAGCCGCGUUUCUGCUGUUGUUGUCGUCGUCAUCCUUGGAAUCGUCAUCAUCAACAACUGCAAACAACAUUCGCCUGUCAGCGGCAACA
..((.((((((((..(((.(((((((..(.((...((....))..))....)..))))))).)))))).(((......)))..))))).)). ( -26.40)
>DroSim_CAF1 101490 92 + 1
UUGUAGCCGCGUUUCUGCUGUUGUUGUCGUCGUCAUCCUUGGAAUCGUCAUCAUCAACAACUGCAAACAACAUUCGCCUGUCAGCGGCAACA
.(((.((((((((..(((.(((((((..(.((...((....))..))....)..))))))).)))))).(((......)))..))))).))) ( -26.50)
>DroEre_CAF1 106181 92 + 1
UUGUAGCCGCGUUUCUGCUGUUGUUGUCGUCGUCAUCCUUGGAAUCGUCAUCAUCAACAACUGCAAACAACAUUCGCCUGUCAGCGGCAACA
.(((.((((((((..(((.(((((((..(.((...((....))..))....)..))))))).)))))).(((......)))..))))).))) ( -26.50)
>DroYak_CAF1 102213 92 + 1
UUGUAGCCGCGUUUCUGCUGUUGUUGUCGUCGUCAUCCUUGGAAUCGUCAUCAUCAACAACUGCAAACAACAUUCGCCUGUCAGCGGCAACA
.(((.((((((((..(((.(((((((..(.((...((....))..))....)..))))))).)))))).(((......)))..))))).))) ( -26.50)
>DroAna_CAF1 58702 87 + 1
UUGUUGUUGAGUUGC-----UUGUUGUCGUCAUCAUCCUUGGAAUCGUCAUCAUCAACAACUGCAAACAACAUUCGCCUGUCAGCGGCAACA
.(((((((.(((((.-----(((.((.((...(((....)))...)).))....))))))))...)))))))...(((.......))).... ( -20.30)
>consensus
UUGUAGCCGCGUUUCUGCUGUUGUUGUCGUCGUCAUCCUUGGAAUCGUCAUCAUCAACAACUGCAAACAACAUUCGCCUGUCAGCGGCAACA
.(((.((((((((..(((.(((((((..(.((...((....))..))....)..))))))).)))))).(((......)))..))))).))) (-22.03 = -22.62 +   0.59)

alignment

secondary structure

dotplot

Window 5

Location	717,549 – 717,641
Length	92
Sequences	6
Columns	92
Reading direction	reverse
Mean pairwise identity	95.29
Mean single sequence MFE	-28.38
Consensus MFE	-23.77
Energy contribution	-24.97
Covariance contribution	1.19
Combinations/Pair	1.03
Mean z-score	-1.88
Structure conservation index	0.84
SVM decision value	0.33
SVM RNA-class probability	0.690712
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 717549 92 - 22407834
UGUUGCCGCUGACAGGCGAAUGUUGUUUGCAGUUGUCGAUGAUGACGAUUCCAAGGAUGACGACGACAACAACAGCAGAAACGCGGCUACAA
(((.(((((......((...(((((((.(..(((((((....((.......))....)))))))..))))))))))......))))).))). ( -28.10)
>DroSec_CAF1 96287 92 - 1
UGUUGCCGCUGACAGGCGAAUGUUGUUUGCAGUUGUUGAUGAUGACGAUUCCAAGGAUGACGACGACAACAACAGCAGAAACGCGGCUACAG
(((.(((((((.(((((((...)))))))))(((((((.((.((.((..((....))...)).)).)).)))))))......))))).))). ( -29.80)
>DroSim_CAF1 101490 92 - 1
UGUUGCCGCUGACAGGCGAAUGUUGUUUGCAGUUGUUGAUGAUGACGAUUCCAAGGAUGACGACGACAACAACAGCAGAAACGCGGCUACAA
(((.(((((((.(((((((...)))))))))(((((((.((.((.((..((....))...)).)).)).)))))))......))))).))). ( -29.80)
>DroEre_CAF1 106181 92 - 1
UGUUGCCGCUGACAGGCGAAUGUUGUUUGCAGUUGUUGAUGAUGACGAUUCCAAGGAUGACGACGACAACAACAGCAGAAACGCGGCUACAA
(((.(((((((.(((((((...)))))))))(((((((.((.((.((..((....))...)).)).)).)))))))......))))).))). ( -29.80)
>DroYak_CAF1 102213 92 - 1
UGUUGCCGCUGACAGGCGAAUGUUGUUUGCAGUUGUUGAUGAUGACGAUUCCAAGGAUGACGACGACAACAACAGCAGAAACGCGGCUACAA
(((.(((((((.(((((((...)))))))))(((((((.((.((.((..((....))...)).)).)).)))))))......))))).))). ( -29.80)
>DroAna_CAF1 58702 87 - 1
UGUUGCCGCUGACAGGCGAAUGUUGUUUGCAGUUGUUGAUGAUGACGAUUCCAAGGAUGAUGACGACAACAA-----GCAACUCAACAACAA
(((((.((((....))))...((((((((..((((((.((.((..(........).)).))))))))..)))-----)))))....))))). ( -23.00)
>consensus
UGUUGCCGCUGACAGGCGAAUGUUGUUUGCAGUUGUUGAUGAUGACGAUUCCAAGGAUGACGACGACAACAACAGCAGAAACGCGGCUACAA
(((.(((((((.(((((((...)))))))))(((((((.((.((.((..((....))...)).)).)).)))))))......))))).))). (-23.77 = -24.97 +   1.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:06 2006