Locus 5102

Sequence ID	X_DroMel_CAF1
Location	13,324,331 – 13,324,429
Length	98
Max. P	0.962364

overview

Window 8

Location	13,324,331 – 13,324,429
Length	98
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	65.04
Mean single sequence MFE	-31.20
Consensus MFE	-13.21
Energy contribution	-13.27
Covariance contribution	0.06
Combinations/Pair	1.14
Mean z-score	-2.12
Structure conservation index	0.42
SVM decision value	1.54
SVM RNA-class probability	0.962364
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13324331 98 + 22224390
GCU----GCCAUGUUUUAUUGCUAAUUGCAACUUCAGGUUGCAUUGUGGCUUCUUCGACAGCGUUUGCCACGCCCACUUUG--GC--AAUCUACAACCGCCCCCCG----------
...----((..(((...((((((((.((((((.....))))))..(((((.....((....))...))))).......)))--))--)))..)))...))......---------- ( -25.80)
>DroSec_CAF1 36908 108 + 1
GCU----GCCAUGUUUUAUUGCUAAUUGCAACUUCAGGUUGCAUUGUGGCUUCUUCGACAGCGUCUGACACGCCCCCUUUG--GC--AGUCUACAACCGCCGCCCCAGCCCCACAC
(((----((((((((.....((((..((((((.....))))))...))))......))))((((.....))))......))--))--))).......................... ( -28.90)
>DroEre_CAF1 28455 104 + 1
GCU----GCCAUGUUUUAUUGCUAAUUGCAACUUCAGGUUGCAUUGUGGCUUCUUCGACAGCGUCUGGCACGCCCUCUUUG--GC--ACUUUACAACCCC----CAAACUCCUCAC
..(----((((((((.....((((..((((((.....))))))...))))......))))((((.....))))......))--))--)............----............ ( -24.80)
>DroYak_CAF1 28251 108 + 1
GCUGCCUGCCAUGUUUUAUUGCUAAUUGCAACUUCAGGUUGCAUUGUGGCUUCUUCGACAGCGUAUGCCACGCCCCCGUUGGGGC--ACUCGACAACC------AGAAGCCGGCAG
.....(((((........((((.....))))((((.((((((...(((((.....((....))...)))))(((((....)))))--....).)))))------.))))..))))) ( -41.80)
>DroMoj_CAF1 2887 106 + 1
GCU----G-CAUAUUGUUAUGCUAAUUGCAACAUCUGGUUGCAAUUGGGCCAAAUGAGCAAGUGGAUGAGUGACAACUCGU--CUGGCAAG---UGGCAAAGCUGGAGCUGUAGCU
(((----(-(...(((((((.(((((((((((.....)))))))))))(((..((......))((((((((....))))))--)))))..)---))))))(((....)))))))). ( -41.30)
>DroAna_CAF1 13362 83 + 1
GCU----GCCAUGUUUUAUUGCUAAUUGCAACUUCAGGUUGCAUUGUGGCUUCUUCGACAGU------CCCGGCCAGUUCG--GC--AGUCUGCC---------AG----------
(((----(((.((((.....((((..((((((.....))))))...))))......))))((------....))......)--))--))).....---------..---------- ( -24.60)
>consensus
GCU____GCCAUGUUUUAUUGCUAAUUGCAACUUCAGGUUGCAUUGUGGCUUCUUCGACAGCGUCUGCCACGCCCACUUUG__GC__AAUCUACAACC_C____CGA_C_C__CA_
...........((((.....((((..((((((.....))))))...))))......))))........................................................ (-13.21 = -13.27 +   0.06)

alignment

secondary structure

dotplot

Window 9

Location	13,324,331 – 13,324,429
Length	98
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	65.04
Mean single sequence MFE	-32.20
Consensus MFE	-9.02
Energy contribution	-11.02
Covariance contribution	2.00
Combinations/Pair	1.00
Mean z-score	-1.99
Structure conservation index	0.28
SVM decision value	0.19
SVM RNA-class probability	0.624945
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13324331 98 - 22224390
----------CGGGGGGCGGUUGUAGAUU--GC--CAAAGUGGGCGUGGCAAACGCUGUCGAAGAAGCCACAAUGCAACCUGAAGUUGCAAUUAGCAAUAAAACAUGGC----AGC
----------..((.((((.((((....(--((--(......))))..)))).)))).))......((((...((((((.....)))))).(((....)))....))))----... ( -30.30)
>DroSec_CAF1 36908 108 - 1
GUGUGGGGCUGGGGCGGCGGUUGUAGACU--GC--CAAAGGGGGCGUGUCAGACGCUGUCGAAGAAGCCACAAUGCAACCUGAAGUUGCAAUUAGCAAUAAAACAUGGC----AGC
((((...(((((((((((((((...))))--))--)...((.(((((.....))))).))......)))....((((((.....)))))).)))))......))))...----... ( -37.40)
>DroEre_CAF1 28455 104 - 1
GUGAGGAGUUUG----GGGGUUGUAAAGU--GC--CAAAGAGGGCGUGCCAGACGCUGUCGAAGAAGCCACAAUGCAACCUGAAGUUGCAAUUAGCAAUAAAACAUGGC----AGC
((.(...((((.----.((((((((..((--((--....((.(((((.....))))).))......).)))..))))))))...(((((.....))))).)))).).))----... ( -28.60)
>DroYak_CAF1 28251 108 - 1
CUGCCGGCUUCU------GGUUGUCGAGU--GCCCCAACGGGGGCGUGGCAUACGCUGUCGAAGAAGCCACAAUGCAACCUGAAGUUGCAAUUAGCAAUAAAACAUGGCAGGCAGC
(((((((((((.------((((((.....--(((((....)))))(((((.....((.....))..)))))...)))))).)))))(((.....)))........))))))..... ( -44.30)
>DroMoj_CAF1 2887 106 - 1
AGCUACAGCUCCAGCUUUGCCA---CUUGCCAG--ACGAGUUGUCACUCAUCCACUUGCUCAUUUGGCCCAAUUGCAACCAGAUGUUGCAAUUAGCAUAACAAUAUG-C----AGC
.((...(((....)))..))..---...(((((--(.((((.((.........))..)))).))))))..(((((((((.....))))))))).(((((....))))-)----... ( -28.80)
>DroAna_CAF1 13362 83 - 1
----------CU---------GGCAGACU--GC--CGAACUGGCCGGG------ACUGUCGAAGAAGCCACAAUGCAACCUGAAGUUGCAAUUAGCAAUAAAACAUGGC----AGC
----------.(---------(((((.((--((--(.....)).))).------.)))))).....((((...((((((.....)))))).(((....)))....))))----... ( -23.80)
>consensus
_UG__G_G_UCG____G_GGUUGUAGACU__GC__CAAAGUGGGCGUGCCAGACGCUGUCGAAGAAGCCACAAUGCAACCUGAAGUUGCAAUUAGCAAUAAAACAUGGC____AGC
..........................................(((((.....))))).........((((...((((((.....)))))).(((....)))....))))....... ( -9.02 = -11.02 +   2.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:11 2006