Locus 5433

Sequence ID	X_DroMel_CAF1
Location	14,164,859 – 14,164,949
Length	90
Max. P	0.921933

overview

Window 0

Location	14,164,859 – 14,164,949
Length	90
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	70.48
Mean single sequence MFE	-22.44
Consensus MFE	-3.56
Energy contribution	-3.84
Covariance contribution	0.28
Combinations/Pair	1.29
Mean z-score	-2.12
Structure conservation index	0.16
SVM decision value	1.14
SVM RNA-class probability	0.921933
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14164859 90 + 22224390
UAAUA------UUUAUUUUAUGUAUCUCAGGUUGGCCUUGAAAGUAAGGUGCUAAUGAAAAUUGGAGCUGAUAAGUUUGACAACCCCAAUGCA--CCC
.....------.........(((((....(((((((((((....)))))).(((((....)))))((((....))))...)))))...)))))--... ( -18.70)
>DroSec_CAF1 75439 96 + 1
UAACAUUGGGAUUUAUUUAAUGUAUCUCCAAAUGGCCUUGAAAAUAAGGUGCCAAUGAAAAUUGGAGAUGAUAAGUUUGACAAUCCCAAUGCA--CCC
...((((((((((.(((((...(((((((((.(((((((.......))).)))).(....)))))))))).))))).....))))))))))..--... ( -30.70)
>DroSim_CAF1 53292 96 + 1
UAAUAUUGGGAUUUAUUUAAUGUAUCUCAAAAUGGCCUUGAAAAUAAGGUGCCAAUGAAAAUUGGAGAUGAUAAGUUGACAAAUCCCAAUGCA--CCC
...(((((((((((..(((((.((((((......((((((....)))))).(((((....))))).)).)))).))))).)))))))))))..--... ( -29.90)
>DroEre_CAF1 65143 85 + 1
-----------UCUGUGGAAGAUAUUGUCAAUUGGCCCUGAAAAUAAGGUGCUAAUGAAAACGGGUUAAGUUAAGCUAGAUAGCCCCAAUGCA--CCC
-----------.....((..(.((((((((.((((((((.......))).))))))))....((((((((.....))...)))))))))))).--.)) ( -19.00)
>DroYak_CAF1 65923 87 + 1
-----------UCUGUGGGAAAAGUGGUCGAAUGGCCUUGAAAUUAAGAUGGAAAUGAAAACAGGAGCCGAUAGGUUAGACAACCCAAAUGCAACCCC
-----------....((((......((((....))))..........................(.((((....))))...)..))))........... ( -13.90)
>consensus
UAA_A______UUUAUUUAAUGUAUCUCCAAAUGGCCUUGAAAAUAAGGUGCCAAUGAAAAUUGGAGAUGAUAAGUUAGACAACCCCAAUGCA__CCC
................................(((((((.......))).))))............................................ ( -3.56 =  -3.84 +   0.28)

alignment

secondary structure

dotplot

Window 1

Location	14,164,859 – 14,164,949
Length	90
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	70.48
Mean single sequence MFE	-20.47
Consensus MFE	-4.58
Energy contribution	-5.02
Covariance contribution	0.44
Combinations/Pair	1.42
Mean z-score	-1.92
Structure conservation index	0.22
SVM decision value	0.68
SVM RNA-class probability	0.821744
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14164859 90 - 22224390
GGG--UGCAUUGGGGUUGUCAAACUUAUCAGCUCCAAUUUUCAUUAGCACCUUACUUUCAAGGCCAACCUGAGAUACAUAAAAUAAA------UAUUA
(((--(((((((((((((..........))))))))))........))))))...(((((.((....))))))).............------..... ( -22.40)
>DroSec_CAF1 75439 96 - 1
GGG--UGCAUUGGGAUUGUCAAACUUAUCAUCUCCAAUUUUCAUUGGCACCUUAUUUUCAAGGCCAUUUGGAGAUACAUUAAAUAAAUCCCAAUGUUA
...--.(((((((((((............((((((((.......((((..(((......))))))).))))))))..........))))))))))).. ( -27.75)
>DroSim_CAF1 53292 96 - 1
GGG--UGCAUUGGGAUUUGUCAACUUAUCAUCUCCAAUUUUCAUUGGCACCUUAUUUUCAAGGCCAUUUUGAGAUACAUUAAAUAAAUCCCAAUAUUA
...--...((((((((((((.....((((.((.(((((....)))))..((((......)))).......))))))......)))))))))))).... ( -21.00)
>DroEre_CAF1 65143 85 - 1
GGG--UGCAUUGGGGCUAUCUAGCUUAACUUAACCCGUUUUCAUUAGCACCUUAUUUUCAGGGCCAAUUGACAAUAUCUUCCACAGA-----------
(((--(......(((((....)))))......))))(((...(((.((.(((.......))))).))).)))...............----------- ( -17.10)
>DroYak_CAF1 65923 87 - 1
GGGGUUGCAUUUGGGUUGUCUAACCUAUCGGCUCCUGUUUUCAUUUCCAUCUUAAUUUCAAGGCCAUUCGACCACUUUUCCCACAGA-----------
..(((((....((((((....))))))..((((..((.....................)).))))...)))))..............----------- ( -14.10)
>consensus
GGG__UGCAUUGGGGUUGUCAAACUUAUCAUCUCCAAUUUUCAUUAGCACCUUAUUUUCAAGGCCAUUUGGAGAUACAUUAAAUAAA______U_UUA
(((.........(((((....)))))......))).(((((((......((((......)))).....)))))))....................... ( -4.58 =  -5.02 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:46 2006