Locus 2715

Sequence ID	X_DroMel_CAF1
Location	7,281,539 – 7,281,631
Length	92
Max. P	0.878424

overview

Window 3

Location	7,281,539 – 7,281,631
Length	92
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	70.78
Mean single sequence MFE	-16.65
Consensus MFE	-11.39
Energy contribution	-12.03
Covariance contribution	0.64
Combinations/Pair	1.20
Mean z-score	-1.23
Structure conservation index	0.68
SVM decision value	0.90
SVM RNA-class probability	0.878424
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7281539 92 + 22224390
CAAAGGGCUUAUACUA------CAAC--CAAACCAGUUUUCCUUCUUCAUCGACACUAAUUUGUCUUCAAUGAAGUACAAAAUGAGCCGCUCAAGUGGCC
....((..........------...)--)......(((((....((((((.((((......))))....))))))...)))))..(((((....))))). ( -16.52)
>DroVir_CAF1 45833 89 + 1
-CAUGGAGAAUGGGCGCUCGCUCAGU--U----GAGCUUUUUGACUUCAUCGACACUAAUUUGUUUUCAAUGACUAGCAAA----CACACUCAAGUGGCG
-....(((........)))((.((.(--(----(((...((((.((((((.((.((......))..)).))))..))))))----....))))).)))). ( -17.20)
>DroSec_CAF1 31376 100 + 1
UAAAAAGCCUAUACUACUCGUACAACCCCUAACCAGUUUUCCUUCUUCAUCGACACUAAUUUGUCUUCAAUGAAGUACAAAAUGAGCCGCUCAAGUGGCC
...................................(((((....((((((.((((......))))....))))))...)))))..(((((....))))). ( -15.70)
>DroSim_CAF1 31436 98 + 1
CGAAAAGCUUAUGCUACUCGUACAGC--CAAACCAAUUUUCCUUCUUCAUCGACACUAAUUUGUCUUCAAUGAAGUACGAAAUGAGCCGCUCAAGUGGCC
(((..(((....)))..)))......--.........((((...((((((.((((......))))....))))))...))))...(((((....))))). ( -21.70)
>DroEre_CAF1 41033 76 + 1
----------------------CAGC--CAAACCAGUUUUCCUUCUUCAUCGACACUAAUUUGCCUUCAAUGAAGUACAAAAUGAGCCGCUCAAGUGGCC
----------------------....--.......(((((....((((((.((..(......)...)).))))))...)))))..(((((....))))). ( -13.10)
>DroYak_CAF1 57500 76 + 1
----------------------AAAA--AAAAACAGUUUUCCAUCUUCAUCGACACUAAUUUGUCUUCAAUGAAGUACAAAAUGAGCCGCUCAAGUGGCC
----------------------....--.......(((((....((((((.((((......))))....))))))...)))))..(((((....))))). ( -15.70)
>consensus
__AA__GC_UAU_CUA______CAAC__CAAACCAGUUUUCCUUCUUCAUCGACACUAAUUUGUCUUCAAUGAAGUACAAAAUGAGCCGCUCAAGUGGCC
...................................(((((....((((((.((((......))))....))))))...)))))..(((((....))))). (-11.39 = -12.03 +   0.64)

alignment

secondary structure

dotplot

Window 4

Location	7,281,539 – 7,281,631
Length	92
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	70.78
Mean single sequence MFE	-23.55
Consensus MFE	-13.55
Energy contribution	-14.47
Covariance contribution	0.92
Combinations/Pair	1.14
Mean z-score	-1.51
Structure conservation index	0.58
SVM decision value	0.65
SVM RNA-class probability	0.811577
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7281539 92 - 22224390
GGCCACUUGAGCGGCUCAUUUUGUACUUCAUUGAAGACAAAUUAGUGUCGAUGAAGAAGGAAAACUGGUUUG--GUUG------UAGUAUAAGCCCUUUG
((((.(....).))))..((((.(.(((((((((..((......)).))))))))).).))))...((((((--....------.....))))))..... ( -21.20)
>DroVir_CAF1 45833 89 - 1
CGCCACUUGAGUGUG----UUUGCUAGUCAUUGAAAACAAAUUAGUGUCGAUGAAGUCAAAAAGCUC----A--ACUGAGCGAGCGCCCAUUCUCCAUG-
(((((.((((((...----((((((..(((((((..((......)).))))))))).))))..))))----)--).)).))).................- ( -22.90)
>DroSec_CAF1 31376 100 - 1
GGCCACUUGAGCGGCUCAUUUUGUACUUCAUUGAAGACAAAUUAGUGUCGAUGAAGAAGGAAAACUGGUUAGGGGUUGUACGAGUAGUAUAGGCUUUUUA
(((((((((.(((((((.((((.(.(((((((((..((......)).))))))))).).)))).((....))))))))).)))))......))))..... ( -28.20)
>DroSim_CAF1 31436 98 - 1
GGCCACUUGAGCGGCUCAUUUCGUACUUCAUUGAAGACAAAUUAGUGUCGAUGAAGAAGGAAAAUUGGUUUG--GCUGUACGAGUAGCAUAAGCUUUUCG
.((.(((((.((((((((((((.(.(((((((((..((......)).))))))))).).))))..))....)--))))).))))).))............ ( -29.40)
>DroEre_CAF1 41033 76 - 1
GGCCACUUGAGCGGCUCAUUUUGUACUUCAUUGAAGGCAAAUUAGUGUCGAUGAAGAAGGAAAACUGGUUUG--GCUG----------------------
(((((...((.(((....((((.(.(((((((((..((......)).))))))))).).)))).))).))))--))).---------------------- ( -21.10)
>DroYak_CAF1 57500 76 - 1
GGCCACUUGAGCGGCUCAUUUUGUACUUCAUUGAAGACAAAUUAGUGUCGAUGAAGAUGGAAAACUGUUUUU--UUUU----------------------
((((.(....).))))..(((..(.(((((((((..((......)).))))))))))..)))..........--....---------------------- ( -18.50)
>consensus
GGCCACUUGAGCGGCUCAUUUUGUACUUCAUUGAAGACAAAUUAGUGUCGAUGAAGAAGGAAAACUGGUUUG__GCUG______UAG_AUA_GC__UU__
((((.(....).))))..((((.(.(((((((((..((......)).))))))))).).))))..................................... (-13.55 = -14.47 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:37 2006