Locus 3972

Sequence ID	X_DroMel_CAF1
Location	10,530,959 – 10,531,056
Length	97
Max. P	0.981276

overview

Window 2

Location	10,530,959 – 10,531,056
Length	97
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	91.27
Mean single sequence MFE	-28.70
Consensus MFE	-21.98
Energy contribution	-22.18
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.99
Structure conservation index	0.77
SVM decision value	0.76
SVM RNA-class probability	0.844587
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10530959 97 + 22224390
GUGACGUUGACAUUUUGAGUGUCAUUUUGUUGGCUUGGCGUGACUGCCACAGC------UACAGCCACUUGCAACAUCCAAACUCCUGACUUACAUCGCCUUU
((((.((((((((.....))))))..((((((((((((((((.....))).))------)).)))))...))))..................)).)))).... ( -23.70)
>DroSec_CAF1 62465 103 + 1
GUGACGUUGACAUUUUGAGUGUCAUUUUGUUGGCUUGGCGUGGCUGCCACAGCCACAGCCACAGCCACUUGCAACAUCCAAACUCCUGACUUACAUCGCCUUU
((((.((((((((.....))))))..((((((((((((((((((((...))))))).)))).)))))...))))..................)).)))).... ( -35.30)
>DroSim_CAF1 66282 103 + 1
GUGACGUUGACAUUUUGAGUGUCAUUUUGUUGGCUUGGCGUGGCUGCCACAGCCACAGCCACAGCCACUUGCAACAUCCAAACUCCCGACUUACAUCGCCUUU
((((.((((....((((..(((.....(((((((((((((((((((...))))))).)))).)))))...))))))..))))....))))))))......... ( -35.50)
>DroEre_CAF1 64001 91 + 1
GUGACGUUGACAUUUUGAGUGUCAUUUUGUUGGCUUGGCGUGGCUGCCA------------CAGCCACUUGCAACAUCCAAACUCCCGACUUACAGCGCCUUU
((((.((((((((.....)))))......((((....(((((((((...------------)))))))..)).....))))......)))))))......... ( -23.80)
>DroYak_CAF1 64833 93 + 1
GUGACGUUGACAUUUUGAGUGUCAUUUUGUUGGCUUGGCGUGGCUGCCAC----------ACAGCCACUUGCAACAUCCAAACUCCUGACUUACAUCGCCUUA
((((.((((((((.....)))))).....((((....(((((((((....----------.)))))))..)).....))))...........)).)))).... ( -25.20)
>consensus
GUGACGUUGACAUUUUGAGUGUCAUUUUGUUGGCUUGGCGUGGCUGCCACAGC_______ACAGCCACUUGCAACAUCCAAACUCCUGACUUACAUCGCCUUU
((((.((((((((.....)))))......((((....(((((((((...............)))))))..)).....))))......)))))))......... (-21.98 = -22.18 +   0.20)

alignment

secondary structure

dotplot

Window 3

Location	10,530,959 – 10,531,056
Length	97
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	91.27
Mean single sequence MFE	-31.12
Consensus MFE	-26.24
Energy contribution	-26.28
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-2.01
Structure conservation index	0.84
SVM decision value	1.88
SVM RNA-class probability	0.981276
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10530959 97 - 22224390
AAAGGCGAUGUAAGUCAGGAGUUUGGAUGUUGCAAGUGGCUGUA------GCUGUGGCAGUCACGCCAAGCCAACAAAAUGACACUCAAAAUGUCAACGUCAC
......(((((..((...(.((((((.........((((((((.------......)))))))).))))))).))....(((((.......)))))))))).. ( -26.00)
>DroSec_CAF1 62465 103 - 1
AAAGGCGAUGUAAGUCAGGAGUUUGGAUGUUGCAAGUGGCUGUGGCUGUGGCUGUGGCAGCCACGCCAAGCCAACAAAAUGACACUCAAAAUGUCAACGUCAC
......(((((..(.((....((((..((((.....(((((.((((.(((((((...)))))))))))))))).......))))..)))).)).).))))).. ( -37.80)
>DroSim_CAF1 66282 103 - 1
AAAGGCGAUGUAAGUCGGGAGUUUGGAUGUUGCAAGUGGCUGUGGCUGUGGCUGUGGCAGCCACGCCAAGCCAACAAAAUGACACUCAAAAUGUCAACGUCAC
...((((((....)))((.(.((((..((((.....(((((.((((.(((((((...)))))))))))))))).......))))..)))).).))...))).. ( -37.80)
>DroEre_CAF1 64001 91 - 1
AAAGGCGCUGUAAGUCGGGAGUUUGGAUGUUGCAAGUGGCUG------------UGGCAGCCACGCCAAGCCAACAAAAUGACACUCAAAAUGUCAACGUCAC
...(((((((.....)))((.((((..((((.....(((((.------------((((......))))))))).......))))..))))...))..)))).. ( -25.90)
>DroYak_CAF1 64833 93 - 1
UAAGGCGAUGUAAGUCAGGAGUUUGGAUGUUGCAAGUGGCUGU----------GUGGCAGCCACGCCAAGCCAACAAAAUGACACUCAAAAUGUCAACGUCAC
......(((((..((...(.((((((.........(((((((.----------....))))))).))))))).))....(((((.......)))))))))).. ( -28.10)
>consensus
AAAGGCGAUGUAAGUCAGGAGUUUGGAUGUUGCAAGUGGCUGU_______GCUGUGGCAGCCACGCCAAGCCAACAAAAUGACACUCAAAAUGUCAACGUCAC
...((((......((...(.((((((.........((((((((.............)))))))).))))))).))....(((((.......))))).)))).. (-26.24 = -26.28 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:16 2006