Locus 7591

Sequence ID	3L_DroMel_CAF1
Location	20,423,550 – 20,423,653
Length	103
Max. P	0.896797

overview

Window 3

Location	20,423,550 – 20,423,653
Length	103
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	79.90
Mean single sequence MFE	-30.06
Consensus MFE	-19.45
Energy contribution	-21.62
Covariance contribution	2.17
Combinations/Pair	1.14
Mean z-score	-2.18
Structure conservation index	0.65
SVM decision value	0.99
SVM RNA-class probability	0.896797
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20423550 103 + 23771897
ACAUGGAAAGCGAGU------AAGCUAAGUACUAAAGCGCUAAACGGCGCCUCGGGGGCACUAGAUUGUGCGCCCCAGCA-AACAAUCGACUGUUUUCCAUACUAUAGCU
..(((((((((.(((------..(((..........(((((....)))))...((((((((......)))).))))))).-..(....)))))))))))))......... ( -36.40)
>DroSec_CAF1 33781 99 + 1
ACAUGAAGAGCGAGU------AAGCUAAGUACUA----GCUAAACCGCGCCUCGGGGGCACUAGAUUGUGCGCCCCAGCA-AACAAUCGACUGUUUUCCAUACUAUAGCU
....((((((((.((------.(((((.....))----)))..)))))((...((((((((......)))).)))).)).-............)))))............ ( -27.60)
>DroSim_CAF1 34775 98 + 1
ACAUGGAAAGCGAGU------AAGCUAAGUACUA----GCUAAACGGCGCCUCGGGGGCACUAGAUUGUGCGCC-CAGCA-AACAAUCGACUGUUUUCCAUACUACAGCU
..(((((((((.(((------.(((((.....))----))).......((...(((.((((......)))).))-).)).-........))))))))))))......... ( -32.50)
>DroEre_CAF1 29920 99 + 1
ACAUGGAAACCGUGU------AAGCUAAGUACAAAAGCGCUAAACGGCGCCUCGGGGGCACUAGAUUGUGCAGGCCAGCA-AACAAUCGAAUGUUUUCCAUAGUAU----
((((((...))))))------..((((.........(((((....)))))...(..((((...((((((((......)).-.))))))...))))..)..))))..---- ( -27.30)
>DroYak_CAF1 51335 98 + 1
ACAUGGAAUCCGAGU------AAACUUAAUACAAAAGCGCUAAACGGCGCCUCGG-GGCACUAGAUUGUGUACCCCAGCA-AACAAUCGAAUGUUUUCCAUAGUAU----
((((((((((((((.------...............(((((....))))))))))-)(((...((((((...........-.))))))...))).)))))).))..---- ( -25.49)
>DroAna_CAF1 27157 107 + 1
--ACGGAAUGCCUGUAAUUAGAAACUAAAUACAAAAGCGUUAAAUGGCGCCCCGGGGGCACCAGAUUGUGUGCCCCACCGCCACAAUCGAAUCUCUCCCAUAGA-UCCCA
--..(((((((.((((.((((...)))).))))...)))))...(((((.....((((((((.....).)))))))..)))))..............)).....-..... ( -31.10)
>consensus
ACAUGGAAAGCGAGU______AAGCUAAGUACAAAAGCGCUAAACGGCGCCUCGGGGGCACUAGAUUGUGCGCCCCAGCA_AACAAUCGAAUGUUUUCCAUACUAUAGCU
..(((((((((.........................((((......))))...((((((((......)))).))))................)))))))))......... (-19.45 = -21.62 +   2.17)

alignment

secondary structure

dotplot

Window 4

Location	20,423,550 – 20,423,653
Length	103
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	79.90
Mean single sequence MFE	-33.33
Consensus MFE	-19.05
Energy contribution	-20.88
Covariance contribution	1.84
Combinations/Pair	1.28
Mean z-score	-2.13
Structure conservation index	0.57
SVM decision value	0.58
SVM RNA-class probability	0.789970
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20423550 103 - 23771897
AGCUAUAGUAUGGAAAACAGUCGAUUGUU-UGCUGGGGCGCACAAUCUAGUGCCCCCGAGGCGCCGUUUAGCGCUUUAGUACUUAGCUU------ACUCGCUUUCCAUGU
........(((((((...((.(((..((.-.(((((((.((((......))))))))(((((((......))))))).......)))..------)))))))))))))). ( -37.50)
>DroSec_CAF1 33781 99 - 1
AGCUAUAGUAUGGAAAACAGUCGAUUGUU-UGCUGGGGCGCACAAUCUAGUGCCCCCGAGGCGCGGUUUAGC----UAGUACUUAGCUU------ACUCGCUCUUCAUGU
(((.(((((.((.....))....))))).-.)))((((.((((......))))))))((((.(((((..(((----(((...)))))).------)).))).)))).... ( -34.60)
>DroSim_CAF1 34775 98 - 1
AGCUGUAGUAUGGAAAACAGUCGAUUGUU-UGCUG-GGCGCACAAUCUAGUGCCCCCGAGGCGCCGUUUAGC----UAGUACUUAGCUU------ACUCGCUUUCCAUGU
........((((((((((((....)))))-)..((-((.((((......)))).))))(((((..((..(((----(((...)))))).------)).))))))))))). ( -28.40)
>DroEre_CAF1 29920 99 - 1
----AUACUAUGGAAAACAUUCGAUUGUU-UGCUGGCCUGCACAAUCUAGUGCCCCCGAGGCGCCGUUUAGCGCUUUUGUACUUAGCUU------ACACGGUUUCCAUGU
----....((((((((....(((..(((.-.(((((...((((......))))..))(((((((......))))))).......)))..------)))))))))))))). ( -28.40)
>DroYak_CAF1 51335 98 - 1
----AUACUAUGGAAAACAUUCGAUUGUU-UGCUGGGGUACACAAUCUAGUGCC-CCGAGGCGCCGUUUAGCGCUUUUGUAUUAAGUUU------ACUCGGAUUCCAUGU
----....((((((....((((((..((.-.((((((((((........)))))-))(((((((......))))))).......)))..------)))))))))))))). ( -34.40)
>DroAna_CAF1 27157 107 - 1
UGGGA-UCUAUGGGAGAGAUUCGAUUGUGGCGGUGGGGCACACAAUCUGGUGCCCCCGGGGCGCCAUUUAACGCUUUUGUAUUUAGUUUCUAAUUACAGGCAUUCCGU--
..(((-(((.......))))))(((((((((......)).)))))))((((((((...))))))))......(((..((((.((((...)))).))))))).......-- ( -36.70)
>consensus
AGCUAUACUAUGGAAAACAGUCGAUUGUU_UGCUGGGGCGCACAAUCUAGUGCCCCCGAGGCGCCGUUUAGCGCUUUAGUACUUAGCUU______ACUCGCUUUCCAUGU
........((((((((...............((((((((((........))))))).(((((((......))))))).......)))..............)))))))). (-19.05 = -20.88 +   1.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:03 2006