Locus 546

Sequence ID	2R_DroMel_CAF1
Location	2,863,551 – 2,863,693
Length	142
Max. P	0.898927

overview

Window 7

Location	2,863,551 – 2,863,663
Length	112
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	75.75
Mean single sequence MFE	-32.90
Consensus MFE	-19.26
Energy contribution	-18.97
Covariance contribution	-0.30
Combinations/Pair	1.44
Mean z-score	-1.49
Structure conservation index	0.59
SVM decision value	0.22
SVM RNA-class probability	0.637786
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2863551 112 + 20766785
UGGCAAAAGUGGAGAGCAGUGGAACCUGUUGUUGAAAGACCAUCACGCCUGUUGGAACCGACGGAGCCUUGGAACCAAUAGGUUCUGGGAAAUUUUAAUAAGUUG---GCAUUCU
((.(((..((((..(((((......)))))(((....)))..))))((((((((....)))))).))((..(((((....)))))..)).............)))---.)).... ( -32.90)
>DroVir_CAF1 15051 108 + 1
UCGCAAAGCUGAAGCCCAAUGGAACAUGUUGCUGGAAUGUCUGCACGCCCGUGGGCACAGCCGGCGCCUUUGAACCAAUAGGCUCUAAGAAAAU-AAAGC--UU--AUAAAU--U
.....(((((.........((((.......(((((..((((..(......)..))))...)))))((((.(......).)))))))).......-..)))--))--......--. ( -28.27)
>DroSec_CAF1 15184 112 + 1
UGGCAAAAGUGGAUAGCAGUGGAACCUGUUGUUGAAAGACCAUCACGCCUGUUGGAACCGACGGAGCCUUGGAACCAAUAGGUUCUGGGAAAUUUUAAUAGGUUG---GCUUUAU
.....(((((.((((((((......))))))))....((((.....((((((((....)))))).))((..(((((....)))))..))...........)))).---))))).. ( -36.10)
>DroSim_CAF1 22055 112 + 1
UGGCAAAAGUGGAGAGCAGUGGAACCUGUUGUUGAAAGACCAUCACGCCUGUUGGAACCGAUGGAGCCUUGGAACCAAUAGGUUCUGGGAAAUUUUAAUAGGUUG---GCAUUAU
((.((...((((..(((((......)))))(((....)))..))))(((((((((((((...))...((..(((((....)))))..))...)))))))))))))---.)).... ( -32.40)
>DroEre_CAF1 14534 110 + 1
UGGCAAAAGUGGAGAGCAGUGGAACCUGUUGUUGAAAGACCAUGACCCCUGUUGGAACCGACGGAGCCUUGGAGCCAAUGGGCUCUGAGAAGUUUUAAAA--UUU---GAAUAAU
.(((....((((..(((((......))))).((....)))))).....((((((....)))))).)))(..(((((....)))))..)............--...---....... ( -29.70)
>DroMoj_CAF1 15700 111 + 1
UUGCGAAACUAGCGCCCAAUGGAACCACUUGUUGGAAUGUUUGCACGCCCGCGGGCACAGCGGGAGCUUUGGAGCCAAUGGGCUCUAAGAAAAUUAAAGC--GUUUAAACAU--U
..(((.......)))((((..(......)..))))((((((((.((((((((.......))))....(((((((((....))))))))).........))--)).)))))))--) ( -38.00)
>consensus
UGGCAAAAGUGGAGAGCAGUGGAACCUGUUGUUGAAAGACCAUCACGCCUGUUGGAACCGACGGAGCCUUGGAACCAAUAGGCUCUGAGAAAUUUUAAUA__UUG___GCAUUAU
........((((....(((..(......)..))).....))))...((((((((....)))))).))(((((((((....))))))))).......................... (-19.26 = -18.97 +  -0.30)

alignment

secondary structure

dotplot

Window 8

Location	2,863,591 – 2,863,693
Length	102
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	68.48
Mean single sequence MFE	-23.75
Consensus MFE	-16.38
Energy contribution	-16.77
Covariance contribution	0.39
Combinations/Pair	1.35
Mean z-score	-1.24
Structure conservation index	0.69
SVM decision value	1.01
SVM RNA-class probability	0.898927
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2863591 102 + 20766785
CAUCACGCCUGUUGGAACCGACGGAGCCUUGGAACCAAUAGGUUCUGGGAAAUUUUAAUAAGUUG---GCAUUCUGAUUAAGUUGUGUUCCAAAAAUCAUACCAC
...........(((((((((((.....((..(((((....)))))..)).....(((((.((...---.....)).))))))))).)))))))............ ( -26.70)
>DroVir_CAF1 15091 82 + 1
CUGCACGCCCGUGGGCACAGCCGGCGCCUUUGAACCAAUAGGCUCUAAGAAAAU-AAAGC--UU--AUAAAU--UUAACAAUU-A---------------AACCA
..((..(((....)))......((.((((.(......).)))).))........-...))--..--......--.........-.---------------..... ( -13.80)
>DroSec_CAF1 15224 102 + 1
CAUCACGCCUGUUGGAACCGACGGAGCCUUGGAACCAAUAGGUUCUGGGAAAUUUUAAUAGGUUG---GCUUUAUAAAUAAGUUGUGUUCCAAACGUCAUACCAC
....(((....((((((((((((((((((..(((((....)))))..)..(((((....))))))---)))))........)))).))))))).)))........ ( -27.50)
>DroSim_CAF1 22095 102 + 1
CAUCACGCCUGUUGGAACCGAUGGAGCCUUGGAACCAAUAGGUUCUGGGAAAUUUUAAUAGGUUG---GCAUUAUAAAUAAGUUGUGUUCCAAACGUCAUACCAC
......((((((((....)))))).))((..(((((....)))))..))...........(((((---((.(((....)))(((........))))))).))).. ( -25.20)
>DroEre_CAF1 14574 100 + 1
CAUGACCCCUGUUGGAACCGACGGAGCCUUGGAGCCAAUGGGCUCUGAGAAGUUUUAAAA--UUU---GAAUAAUAAAUAAGUUGUGUUACAAACUUCGUACUAC
((..((..((((((....))))))...((..(((((....)))))..))...........--...---.............))..)).................. ( -24.90)
>DroMoj_CAF1 15740 85 + 1
UUGCACGCCCGCGGGCACAGCGGGAGCUUUGGAGCCAAUGGGCUCUAAGAAAAUUAAAGC--GUUUAAACAU--UAAAUAAUU-G---------------ACCAC
..((...(((((.......)))))...(((((((((....))))))))).........))--..........--.........-.---------------..... ( -24.40)
>consensus
CAUCACGCCUGUUGGAACCGACGGAGCCUUGGAACCAAUAGGCUCUGAGAAAUUUUAAUA__UUG___GCAUUAUAAAUAAGUUGUGUUCCAAAC_UCAUACCAC
......((((((((....)))))).))(((((((((....)))))))))........................................................ (-16.38 = -16.77 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:25 2006