Locus 6269

Sequence ID	2L_DroMel_CAF1
Location	17,435,096 – 17,435,237
Length	141
Max. P	0.892239

overview

Window 7

Location	17,435,096 – 17,435,198
Length	102
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	80.38
Mean single sequence MFE	-35.99
Consensus MFE	-23.71
Energy contribution	-23.93
Covariance contribution	0.22
Combinations/Pair	1.18
Mean z-score	-2.24
Structure conservation index	0.66
SVM decision value	0.97
SVM RNA-class probability	0.892239
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17435096 102 + 22407834
------AAAAUCU-CAACAGUCAACUUACUGCCAUCCUGGUGGUCAUUCU---GCAAUUGCUGUUUCUGCUGCUGCUGGAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUC
------.......-...((((......)))).....((((((((.(((((---(((.((((((((((.((....)).)))))))))).)))..))))).))))))))..... ( -40.10)
>DroPse_CAF1 32621 109 + 1
GGACAGAGAGUCUACAAGUAACAACUUACUGCCAUCCUGAUGAUCGUUCU---GUAAUUGCUGCUUCUGCUGCUGCUGCAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUC
((.(((.((((............)))).)))))...(((.(((((.(..(---(((.((((((((.(.((....)).).)))))))).)))).).)))))....)))..... ( -31.70)
>DroYak_CAF1 23418 102 + 1
------AAAAUCU-CAACAGUCAACUUACUGGCAUCCUGGUGGUCAUUCU---GCAACUGCUGUUUCUGCUGCUGCUGGAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUC
------.......-.....((((......))))...((((((((.(((((---(((.((((((((((.((....)).)))))))))).)))..))))).))))))))..... ( -43.40)
>DroMoj_CAF1 23782 95 + 1
G-----AAAAUAG-G-----AAAACUUAC---GAUCUUGAUGAUCAUUGU---GAUGCUGUUGCUUCUGCUGCUGCUGGAGCAACAGGUGCAUGGGAUCGCCGCCAGUCUUU
.-----.....((-(-----(.......(---((((((.((((((.....---))).((((((((((.((....)).))))))))))...)))))))))).......)))). ( -29.34)
>DroAna_CAF1 24860 105 + 1
------ACAAUGA-CAACUGAUGACUUACUGCCAUCCGGAUGGUCGCUCUGUUGCAACUGCUGUUUCUGCUGCUGCUGGAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUC
------.....((-(....((((.(.....).))))(((.(((((.(.....((((.((((((((((.((....)).)))))))))).)))).).))))))))...)))... ( -39.70)
>DroPer_CAF1 32398 109 + 1
GGACAGAGAGUCUACAAGUAACAACUUACUGCCAUCCUGAUGAUCGUUCU---GUAAUUGCUGCUUCUGCUGCUGCUGCAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUC
((.(((.((((............)))).)))))...(((.(((((.(..(---(((.((((((((.(.((....)).).)))))))).)))).).)))))....)))..... ( -31.70)
>consensus
______AAAAUCU_CAACUGACAACUUACUGCCAUCCUGAUGAUCAUUCU___GCAACUGCUGCUUCUGCUGCUGCUGGAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUC
...........................((((.(....................(((.((((((((((.((....)).)))))))))).)))..((.....))).)))).... (-23.71 = -23.93 +   0.22)

alignment

secondary structure

dotplot

Window 8

Location	17,435,096 – 17,435,198
Length	102
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	80.38
Mean single sequence MFE	-32.28
Consensus MFE	-21.38
Energy contribution	-21.93
Covariance contribution	0.56
Combinations/Pair	1.08
Mean z-score	-1.39
Structure conservation index	0.66
SVM decision value	0.10
SVM RNA-class probability	0.581907
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17435096 102 - 22407834
GAAGACUGGCGGUGAUCCCAUGCACCUGCUGCUCCAGCAGCAGCAGAAACAGCAAUUGC---AGAAUGACCACCAGGAUGGCAGUAAGUUGACUGUUG-AGAUUUU------
.....((((.(((.((....((((..((((((....))))))((.......))...)))---)..)).))).))))...((((((......)))))).-.......------ ( -32.10)
>DroPse_CAF1 32621 109 - 1
GAAGACUGGCGGUGAUCCCAUGCACCUGCUGCUGCAGCAGCAGCAGAAGCAGCAAUUAC---AGAACGAUCAUCAGGAUGGCAGUAAGUUGUUACUUGUAGACUCUCUGUCC
..........(((((((...(((..(((((((((...)))))))))..)))(......)---.....))))))).....(((((..((((..........))))..))))). ( -33.90)
>DroYak_CAF1 23418 102 - 1
GAAGACUGGCGGUGAUCCCAUGCACCUGCUGCUCCAGCAGCAGCAGAAACAGCAGUUGC---AGAAUGACCACCAGGAUGCCAGUAAGUUGACUGUUG-AGAUUUU------
....((((((((((.((...(((..((((((((.....)))))))).(((....)))))---)....)).)))).....)))))).............-.......------ ( -31.60)
>DroMoj_CAF1 23782 95 - 1
AAAGACUGGCGGCGAUCCCAUGCACCUGUUGCUCCAGCAGCAGCAGAAGCAACAGCAUC---ACAAUGAUCAUCAAGAUC---GUAAGUUUU-----C-CUAUUUU-----C
.((((((....((((((...(((..((((((((.....))))))))..)))...(.(((---.....)))).....))))---)).))))))-----.-.......-----. ( -26.30)
>DroAna_CAF1 24860 105 - 1
GAAGACUGGCGGUGAUCCCAUGCACCUGCUGCUCCAGCAGCAGCAGAAACAGCAGUUGCAACAGAGCGACCAUCCGGAUGGCAGUAAGUCAUCAGUUG-UCAUUGU------
((.((((.((.((.((((..(((..((((((((.....)))))))).....)))(((((......))))).....)))).)).)).)))).)).....-.......------ ( -35.90)
>DroPer_CAF1 32398 109 - 1
GAAGACUGGCGGUGAUCCCAUGCACCUGCUGCUGCAGCAGCAGCAGAAGCAGCAAUUAC---AGAACGAUCAUCAGGAUGGCAGUAAGUUGUUACUUGUAGACUCUCUGUCC
..........(((((((...(((..(((((((((...)))))))))..)))(......)---.....))))))).....(((((..((((..........))))..))))). ( -33.90)
>consensus
GAAGACUGGCGGUGAUCCCAUGCACCUGCUGCUCCAGCAGCAGCAGAAACAGCAAUUGC___AGAACGACCAUCAGGAUGGCAGUAAGUUGUCAGUUG_AGAUUUU______
...((((.((.((.((((..(((..((((((((.....)))))))).....))).............(.....).)))).)).)).))))...................... (-21.38 = -21.93 +   0.56)

alignment

secondary structure

dotplot

Window 9

Location	17,435,127 – 17,435,237
Length	110
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	85.33
Mean single sequence MFE	-37.87
Consensus MFE	-30.87
Energy contribution	-29.65
Covariance contribution	-1.22
Combinations/Pair	1.27
Mean z-score	-1.63
Structure conservation index	0.82
SVM decision value	0.02
SVM RNA-class probability	0.543567
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17435127 110 + 22407834
GGUGGUCAUUCU---GCAAUU------GCUGUUUCUGCUGCUGCUGGAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUCUGACGUUUCCGCCUCAAGUGCGCUGGAUCUAUAA-GACAA
((((((.(((((---(((.((------((((((((.((....)).)))))))))).)))..))))).)))))).(((((..((....((((((......).)).)))))...))-))).. ( -43.60)
>DroPse_CAF1 32659 111 + 1
GAUGAUCGUUCU---GUAAUU------GCUGCUUCUGCUGCUGCUGCAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUCUGACGUUUCCGCCUCAGGUGUGCUGGAUCUACAAAAACAA
(.(((((.(..(---(((.((------((((((.(.((....)).).)))))))).)))).).))))).).(((((..(((((.((....)).)))))...))))).............. ( -36.70)
>DroGri_CAF1 29095 116 + 1
GAUGAUCAUUCU---GAUGCUGCUGUUGUUGUUUCUGUUGUUGCUGGAGCAACAAGUGCAUUGGAUCACCGCCAGUCUUUUGACGUUUACGCCUCAAAUGUGCUGGAUCUACAA-UAAAA
...((((..((.---.((((.(((..(((((((((.((....)).))))))))))))))))..)).......((((..(((((.((....)).)))))...)))))))).....-..... ( -33.40)
>DroMoj_CAF1 23806 110 + 1
GAUGAUCAUUGU---GAUGCU------GUUGCUUCUGCUGCUGCUGGAGCAACAGGUGCAUGGGAUCGCCGCCAGUCUUUUGACGUUUCCGCCUCAAGUGUGCUGGAUCUAUAA-AAAAG
(((((((.(..(---(...((------((((((((.((....)).))))))))))...))..)))))....(((((..(((((.((....)).)))))...)))))))).....-..... ( -37.60)
>DroAna_CAF1 24891 113 + 1
GAUGGUCGCUCUGUUGCAACU------GCUGUUUCUGCUGCUGCUGGAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUCUGACGUUUCCGCUUCAAGUGCGCUGGAUCUAUAA-AACAA
((((((.(.(((..((((.((------((((((((.((....)).)))))))))).))))..))).)))).(((((...((((.((....)).)).))...)))))))).....-..... ( -39.20)
>DroPer_CAF1 32436 111 + 1
GAUGAUCGUUCU---GUAAUU------GCUGCUUCUGCUGCUGCUGCAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUCUGACGUUUCCGCCUCAGGUGUGCUGGAUCUACAAAAACAA
(.(((((.(..(---(((.((------((((((.(.((....)).).)))))))).)))).).))))).).(((((..(((((.((....)).)))))...))))).............. ( -36.70)
>consensus
GAUGAUCAUUCU___GAAACU______GCUGCUUCUGCUGCUGCUGGAGCAGCAGGUGCAUGGGAUCACCGCCAGUCUUCUGACGUUUCCGCCUCAAGUGUGCUGGAUCUACAA_AACAA
...((((....................((((((((.((....)).)))))))).(((((((..((.........(((....))).........))..))))))).))))........... (-30.87 = -29.65 +  -1.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:53 2006