Locus 6870

Sequence ID	3L_DroMel_CAF1
Location	18,468,024 – 18,468,123
Length	99
Max. P	0.980974

overview

Window 2

Location	18,468,024 – 18,468,123
Length	99
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	82.29
Mean single sequence MFE	-31.22
Consensus MFE	-23.46
Energy contribution	-23.42
Covariance contribution	-0.04
Combinations/Pair	1.13
Mean z-score	-2.54
Structure conservation index	0.75
SVM decision value	1.88
SVM RNA-class probability	0.980974
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18468024 99 + 23771897
CUAACAUGGCCAAGUGGGUGGUCUUU-UGGCCAACAGUUUACCUGUUUGCUGGGCACUGUUAAGAAACAGUGCCUUAAAUAUGUUCGUUUCCCUAUCAUA
..((((((((.(((..(((((((...-.))))........)))..))))))((((((((((....)))))))))).....)))))............... ( -29.80)
>DroSec_CAF1 110147 98 + 1
UUAACAUGGCCAAGUGGGUGGUCUUU-UGGCCAACAGCUUACCUGUUUGCUGGCCACUGUUAAGAAACAGUGCCUUAAAUAUGUUCGUUUCCC-AUCAUA
.............((((((((((...-.)))))..(((..((.((((((..(((.((((((....))))))))).)))))).))..))).)))-)).... ( -27.80)
>DroEre_CAF1 106559 99 + 1
UUAACAUGGCCAAGUGGGUGGUCUUU-UGGCCAACAGCUUACCUGUUUGCUGGGCACUGUUAACAAACAGUGCCUUAAAUAAGUGCGUUCCGCCAUCAUU
.....(((((.((((...(((((...-.)))))...))))((.((((((..((((((((((....)))))))))))))))).)).......))))).... ( -35.10)
>DroYak_CAF1 110260 99 + 1
UUAACAUGGCCAAGUGGGUGGUCUCU-UGGCCAACAGCUUACCUGUUUGCCGGGCACUGUUAAGAAACAGUGCCUUAAAUAUGUUCGUUUCGCUAUCAUA
......((((((((.((....)).))-))))))..(((..((.((((((..((((((((((....)))))))))))))))).))..)))........... ( -33.90)
>DroAna_CAF1 104213 87 + 1
-------------GUGGGUGGUCGUUUAGGCCAAGAGCUUACCUGUUUGCUUGGCUCUGUUAGCGAACAGUGCCUGCGAAAUGUACAAUGCCCUGCCAUA
-------------((((.(((((.....)))))((.((.(((...(((((..(((.(((((....))))).))).)))))..)))....)).)).)))). ( -29.50)
>consensus
UUAACAUGGCCAAGUGGGUGGUCUUU_UGGCCAACAGCUUACCUGUUUGCUGGGCACUGUUAAGAAACAGUGCCUUAAAUAUGUUCGUUUCCCUAUCAUA
.............((((.(((((.....))))).((((..(....)..))))(((((((((....))))))))).....................)))). (-23.46 = -23.42 +  -0.04)

alignment

secondary structure

dotplot

Window 3

Location	18,468,024 – 18,468,123
Length	99
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	82.29
Mean single sequence MFE	-29.46
Consensus MFE	-19.70
Energy contribution	-20.70
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.65
Structure conservation index	0.67
SVM decision value	1.68
SVM RNA-class probability	0.971619
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18468024 99 - 23771897
UAUGAUAGGGAAACGAACAUAUUUAAGGCACUGUUUCUUAACAGUGCCCAGCAAACAGGUAAACUGUUGGCCA-AAAGACCACCCACUUGGCCAUGUUAG
........(....).(((((......(((((((((....))))))))).....(((((.....)))))(((((-(..(......)..))))))))))).. ( -31.90)
>DroSec_CAF1 110147 98 - 1
UAUGAU-GGGAAACGAACAUAUUUAAGGCACUGUUUCUUAACAGUGGCCAGCAAACAGGUAAGCUGUUGGCCA-AAAGACCACCCACUUGGCCAUGUUAA
((((.(-.(....).).)))).....(((((((((....)))))).)))(((((((((.....)))))(((((-(..(......)..)))))).)))).. ( -30.10)
>DroEre_CAF1 106559 99 - 1
AAUGAUGGCGGAACGCACUUAUUUAAGGCACUGUUUGUUAACAGUGCCCAGCAAACAGGUAAGCUGUUGGCCA-AAAGACCACCCACUUGGCCAUGUUAA
(((((..(((...)))..)))))...(((((((((....))))))))).(((((((((.....)))))(((((-(..(......)..)))))).)))).. ( -31.00)
>DroYak_CAF1 110260 99 - 1
UAUGAUAGCGAAACGAACAUAUUUAAGGCACUGUUUCUUAACAGUGCCCGGCAAACAGGUAAGCUGUUGGCCA-AGAGACCACCCACUUGGCCAUGUUAA
...((((((.................(((((((((....)))))))))..((......))..))))))(((((-((.(......).)))))))....... ( -33.00)
>DroAna_CAF1 104213 87 - 1
UAUGGCAGGGCAUUGUACAUUUCGCAGGCACUGUUCGCUAACAGAGCCAAGCAAACAGGUAAGCUCUUGGCCUAAACGACCACCCAC-------------
...((((((((....(((.....((.(((.(((((....))))).)))..))......))).)))))..)))...............------------- ( -21.30)
>consensus
UAUGAUAGGGAAACGAACAUAUUUAAGGCACUGUUUCUUAACAGUGCCCAGCAAACAGGUAAGCUGUUGGCCA_AAAGACCACCCACUUGGCCAUGUUAA
.......(((................(((((((((....)))))))))..((.(((((.....))))).))...........)))............... (-19.70 = -20.70 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:48 2006