Locus 4031

Sequence ID	2L_DroMel_CAF1
Location	11,690,820 – 11,690,925
Length	105
Max. P	0.963655

overview

Window 1

Location	11,690,820 – 11,690,925
Length	105
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	83.93
Mean single sequence MFE	-23.93
Consensus MFE	-19.07
Energy contribution	-19.02
Covariance contribution	-0.05
Combinations/Pair	1.19
Mean z-score	-2.66
Structure conservation index	0.80
SVM decision value	0.96
SVM RNA-class probability	0.890389
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11690820 105 + 22407834
AUAUGCCAUGUUCCCAUGCCGGAAUUCAUAUUUCUGUGCAUAUGCAU--GUGCACGGGCAGAUGAAAUUGUUAUUUUCUUUU---UUUUUUUGUCUGUUCUAUAGGCAUU
..(((((..(((((......)))))..........(((((((....)--))))))(((((((..(((..(..(......)..---)..)))..)))))))....))))). ( -29.50)
>DroSec_CAF1 152341 102 + 1
AUAUGCCAUGUUCCCAUGCCGGAAUUCAUAUUUCUGUGCAUAUGCAU--GUGCACA-ACAGAUGAAAUUGUUAUUUUCUUUU---UUUUUU--UUUGUUCUAUAGGCAUU
..(((((...((((......))))(((((.....((((((((....)--)))))))-....)))))................---......--...........))))). ( -22.30)
>DroSim_CAF1 149919 98 + 1
AUAUGCCAUGUUCCCAUGCCGGAAUUCAUAUUUCUGUGCAUAUGCAU--GUGCACA-ACAGAUGAAAUUGUUAUUUUCUUUU-------UU--UUUGUUCUAUAGGCAUU
..(((((...((((......))))(((((.....((((((((....)--)))))))-....)))))................-------..--...........))))). ( -22.30)
>DroEre_CAF1 175263 107 + 1
AUAUGCCAUGUUCCCAUGCCGGAAUUCAUAUUUCUGUGCAUAUGCAU--GUGCACAGGCAGAUGAAAUUGUUAUUUCUUUUUUCUUUUUUUUUUGUGUUAUAUAGGCAU-
..(((((((((..((((((((((((....)))))((((((((....)--)))))))))))...(((((....)))))................)).)..)))).)))))- ( -28.00)
>DroYak_CAF1 148959 104 + 1
AUAUGCCAUGUUCCCAGGCCGGAAUUCAUAUUUCUGUGCAUAUGCAU--GUGCACAGGCAGAUGAAAUUGUUAUUUCUUUUU----UUCUUUUUGUCUUCUAUAGGCAUU
..(((((...((((......))))(((((...((((((((((....)--)))))))))...)))))................----..................))))). ( -26.80)
>DroAna_CAF1 158322 89 + 1
AUAUGCCAUGUUCCCAUGCCGGAAUUCAUAUUUCUGUAAAUAUGCAUAUAUGAACAUUCAGGUGAAAUUGUU---------------------UUUGUUCCAUAGUUAUC
((((((.(((((....(((.(((((....))))).))))))))))))))..(((((..(((......)))..---------------------..))))).......... ( -14.70)
>consensus
AUAUGCCAUGUUCCCAUGCCGGAAUUCAUAUUUCUGUGCAUAUGCAU__GUGCACAGGCAGAUGAAAUUGUUAUUUUCUUUU____UUUUU__UUUGUUCUAUAGGCAUU
..(((((...((((......))))(((((.....(((((((........))))))).....)))))......................................))))). (-19.07 = -19.02 +  -0.05)

alignment

secondary structure

dotplot

Window 2

Location	11,690,820 – 11,690,925
Length	105
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	83.93
Mean single sequence MFE	-21.18
Consensus MFE	-18.33
Energy contribution	-18.42
Covariance contribution	0.08
Combinations/Pair	1.12
Mean z-score	-2.74
Structure conservation index	0.87
SVM decision value	1.56
SVM RNA-class probability	0.963655
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11690820 105 - 22407834
AAUGCCUAUAGAACAGACAAAAAAA---AAAAGAAAAUAACAAUUUCAUCUGCCCGUGCAC--AUGCAUAUGCACAGAAAUAUGAAUUCCGGCAUGGGAACAUGGCAUAU
.(((((...................---....((((.......)))).....(((((((..--...(((((........))))).......))))))).....))))).. ( -23.60)
>DroSec_CAF1 152341 102 - 1
AAUGCCUAUAGAACAAA--AAAAAA---AAAAGAAAAUAACAAUUUCAUCUGU-UGUGCAC--AUGCAUAUGCACAGAAAUAUGAAUUCCGGCAUGGGAACAUGGCAUAU
.(((((...........--......---................(((((...(-((((((.--.......)))))))....)))))((((......))))...))))).. ( -20.90)
>DroSim_CAF1 149919 98 - 1
AAUGCCUAUAGAACAAA--AA-------AAAAGAAAAUAACAAUUUCAUCUGU-UGUGCAC--AUGCAUAUGCACAGAAAUAUGAAUUCCGGCAUGGGAACAUGGCAUAU
.(((((...........--..-------................(((((...(-((((((.--.......)))))))....)))))((((......))))...))))).. ( -20.90)
>DroEre_CAF1 175263 107 - 1
-AUGCCUAUAUAACACAAAAAAAAAAGAAAAAAGAAAUAACAAUUUCAUCUGCCUGUGCAC--AUGCAUAUGCACAGAAAUAUGAAUUCCGGCAUGGGAACAUGGCAUAU
-((((((((((......................(((((....)))))......(((((((.--.......)))))))..)))))..((((......))))...))))).. ( -22.60)
>DroYak_CAF1 148959 104 - 1
AAUGCCUAUAGAAGACAAAAAGAA----AAAAAGAAAUAACAAUUUCAUCUGCCUGUGCAC--AUGCAUAUGCACAGAAAUAUGAAUUCCGGCCUGGGAACAUGGCAUAU
.(((((..................----................(((((.(..(((((((.--.......)))))))..).)))))((((......))))...))))).. ( -22.90)
>DroAna_CAF1 158322 89 - 1
GAUAACUAUGGAACAAA---------------------AACAAUUUCACCUGAAUGUUCAUAUAUGCAUAUUUACAGAAAUAUGAAUUCCGGCAUGGGAACAUGGCAUAU
.........((((....---------------------((((..(((....)))))))........(((((((....)))))))..))))(.((((....)))).).... ( -16.20)
>consensus
AAUGCCUAUAGAACAAA__AAAAA____AAAAGAAAAUAACAAUUUCAUCUGCCUGUGCAC__AUGCAUAUGCACAGAAAUAUGAAUUCCGGCAUGGGAACAUGGCAUAU
.(((((..................................(((((((...(((.((((((....)))))).)))..))))).))..((((......))))...))))).. (-18.33 = -18.42 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:34 2006