Locus 3085

Sequence ID	2R_DroMel_CAF1
Location	10,556,704 – 10,556,796
Length	92
Max. P	0.792390

overview

Window 6

Location	10,556,704 – 10,556,796
Length	92
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	76.67
Mean single sequence MFE	-15.28
Consensus MFE	-8.92
Energy contribution	-10.70
Covariance contribution	1.78
Combinations/Pair	1.08
Mean z-score	-1.56
Structure conservation index	0.58
SVM decision value	0.25
SVM RNA-class probability	0.653416
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10556704 92 + 20766785
UAUCAUGCAUGACAAUA-AUUAUAUACAUGGUAAA-G----------------AAG-UUAAUGCAUGCACGCGUGAGCGCCAAAAAUUAUGCUAAAGAAUUCUAUAAAUAC
..((.((((((.((.((-(((...(((...)))..-.----------------.))-))).))))))))(((....))).................))............. ( -15.60)
>DroPse_CAF1 38744 94 + 1
UAUCAUGCAUGACAAUAAAUUAUAUACAUGAUAAC-G----------------AAGGAUGAUCCGAGCACGCGUGAGCGCCAAAAAUUAUGCUAAAGAAAUCUACGAAUAC
(((((((.(((...........))).))))))).(-(----------------..((((......(((((((....)))..........))))......)))).))..... ( -16.70)
>DroGri_CAF1 32789 88 + 1
UAUCAUGCAUGACAAUAAAUUAUAUACAUGAUAAA-A----------------A------AUGCGUAAACGCGCAAGCGCCAAAAAUUAUGCUAAACAUAACAGAAAAGCU
(((((((.(((...........))).)))))))..-.----------------.------..((.....(((....))).......(((((.....))))).......)). ( -14.00)
>DroMoj_CAF1 40068 89 + 1
UAUCAUGCAUGACAAUAAAAUAUAUACAUGAUAAACA----------------U------AUGCGUACACGCGCAAGCGCCAAAAAUUAUGUUAAACAAAGCAGAAAAGCG
(((((((.(((...........))).)))))))((((----------------(------(........(((....)))........)))))).......((......)). ( -16.49)
>DroAna_CAF1 39754 104 + 1
UAUCAUGCAUGACAAUA-AUUAUAUACAUGGUAAA-AAAAAGAAACGAAAAACAAG-UUGAU----ACACGCGUGAGCGCCAAAAAUUAUGCUAAAGAACUCUAUAAAUAC
......((((((..(((-....)))...((((...-.......(((.........)-))...----....((....))))))....))))))................... ( -12.20)
>DroPer_CAF1 39750 94 + 1
UAUCAUGCAUGACAAUAAAUUAUAUACAUGAUAAC-G----------------AAGGAUGAUCCGAGCACGCGUGAGCGCCAAAAAUUAUGCUAAAGAAAUCUACGAAUAC
(((((((.(((...........))).))))))).(-(----------------..((((......(((((((....)))..........))))......)))).))..... ( -16.70)
>consensus
UAUCAUGCAUGACAAUAAAUUAUAUACAUGAUAAA_A________________AAG__UGAUGCGUACACGCGUGAGCGCCAAAAAUUAUGCUAAAGAAAUCUAAAAAUAC
(((((((.(((...........))).)))))))....................................(((....)))................................ ( -8.92 = -10.70 +   1.78)

alignment

secondary structure

dotplot

Window 7

Location	10,556,704 – 10,556,796
Length	92
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	76.67
Mean single sequence MFE	-17.36
Consensus MFE	-12.63
Energy contribution	-13.13
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.19
Structure conservation index	0.73
SVM decision value	0.59
SVM RNA-class probability	0.792390
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10556704 92 - 20766785
GUAUUUAUAGAAUUCUUUAGCAUAAUUUUUGGCGCUCACGCGUGCAUGCAUUAA-CUU----------------C-UUUACCAUGUAUAUAAU-UAUUGUCAUGCAUGAUA
...................((((........((((......)))))))).....-...----------------.-.....((((((((((..-...))).)))))))... ( -12.50)
>DroPse_CAF1 38744 94 - 1
GUAUUCGUAGAUUUCUUUAGCAUAAUUUUUGGCGCUCACGCGUGCUCGGAUCAUCCUU----------------C-GUUAUCAUGUAUAUAAUUUAUUGUCAUGCAUGAUA
.....((..(((.(((..(((((........(((....)))))))).)))..)))...----------------)-).((((((((((((((....)))).)))))))))) ( -17.60)
>DroGri_CAF1 32789 88 - 1
AGCUUUUCUGUUAUGUUUAGCAUAAUUUUUGGCGCUUGCGCGUUUACGCAU------U----------------U-UUUAUCAUGUAUAUAAUUUAUUGUCAUGCAUGAUA
.(((.....((((((.....))))))....)))......(((....)))..------.----------------.-..((((((((((((((....)))).)))))))))) ( -21.90)
>DroMoj_CAF1 40068 89 - 1
CGCUUUUCUGCUUUGUUUAACAUAAUUUUUGGCGCUUGCGCGUGUACGCAU------A----------------UGUUUAUCAUGUAUAUAUUUUAUUGUCAUGCAUGAUA
.((......)).......((((((.......((....))(((....))).)------)----------------))))(((((((((((((......))).)))))))))) ( -19.60)
>DroAna_CAF1 39754 104 - 1
GUAUUUAUAGAGUUCUUUAGCAUAAUUUUUGGCGCUCACGCGUGU----AUCAA-CUUGUUUUUCGUUUCUUUUU-UUUACCAUGUAUAUAAU-UAUUGUCAUGCAUGAUA
(((.....((((......((((.........((((....))))..----.....-..))))......))))....-..)))((((((((((..-...))).)))))))... ( -14.97)
>DroPer_CAF1 39750 94 - 1
GUAUUCGUAGAUUUCUUUAGCAUAAUUUUUGGCGCUCACGCGUGCUCGGAUCAUCCUU----------------C-GUUAUCAUGUAUAUAAUUUAUUGUCAUGCAUGAUA
.....((..(((.(((..(((((........(((....)))))))).)))..)))...----------------)-).((((((((((((((....)))).)))))))))) ( -17.60)
>consensus
GUAUUUAUAGAUUUCUUUAGCAUAAUUUUUGGCGCUCACGCGUGCACGCAUCA__CUU________________C_UUUAUCAUGUAUAUAAUUUAUUGUCAUGCAUGAUA
...............................((((....))))...................................((((((((((((((....)))).)))))))))) (-12.63 = -13.13 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:12 2006