Locus 760

Sequence ID	3R_DroMel_CAF1
Location	2,665,111 – 2,665,213
Length	102
Max. P	0.717318

overview

Window 4

Location	2,665,111 – 2,665,213
Length	102
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	96.99
Mean single sequence MFE	-21.72
Consensus MFE	-20.44
Energy contribution	-20.67
Covariance contribution	0.22
Combinations/Pair	1.03
Mean z-score	-0.96
Structure conservation index	0.94
SVM decision value	0.39
SVM RNA-class probability	0.717318
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2665111 102 + 27905053
UAUAGAUGGCUGCCUUUCACAUUGCCCUCAACCGAAUAUGAUUAAGAAAGUAAUUAAAUCUCGGCGAUGCAUGAAAACUCAUGGAAAAUGGCAGAGCCAGAC
......((((((((((((.(((((((.((....))...((((((......))))))......)))))))(((((....)))))))))..)))..)))))... ( -26.80)
>DroSec_CAF1 24608 102 + 1
UAUAGAUGGCUGCCUUUCACAUUGCCCUCAACCGAAUAUGAUUAAGAAAGUAAUUAAAUCUCGGCGAUGCAUGAAAACUCAGGGAAAAUGGCAGAGCCAGAC
......((((((((((((.(((((((.((....))...((((((......))))))......)))))))..(((....)))..))))..)))..)))))... ( -22.70)
>DroSim_CAF1 17691 102 + 1
UAUAGAUGGCUGCCUUUCACAUUGCCCUCAACCGAAUAUGAUUAAGAAAGUAAUUAAAUCUCGGCGAUGCAUGAAAACUCAGGGAAAAUGGCAGAGCCAGAC
......((((((((((((.(((((((.((....))...((((((......))))))......)))))))..(((....)))..))))..)))..)))))... ( -22.70)
>DroEre_CAF1 17636 102 + 1
UAUAGAUGGCUGCCUUUCACAUUGCCCUCAACCGAAUAUGAUUAAGAAAGUAAUUAAAUCUCGGCGAUGCAUGAAAACUCAAGGAAAAUGGCAGAGCCAGAC
......((((((((((((.(((((((.((....))...((((((......))))))......)))))))..(((....)))..))))..)))..)))))... ( -22.70)
>DroYak_CAF1 24808 102 + 1
UAUAGAUGGUUGCCUUUCACAUUGCCCUCAACCGAAUAUGAUUAAGAAAGUAAUUAAAUCCCGGCGAUGCAUGAAAACUCAAGGAAAAUGGCAGAGCCAGAC
......((((((((((((.(((((((.((....))...((((((......))))))......)))))))..(((....)))..))))..))))..))))... ( -21.30)
>DroAna_CAF1 12747 102 + 1
CAUAGAUGGCUGCCUUUCACAUUGCCCUCAACCGAAUAUGAUUAAGAAAGUAAUUAAAUCUCGACGAUGCAUGAAAACUCAAGGAAAAUGGCAAUACCAGAC
......(((.((((((((....(((..((...(((((.((((((......)))))).)).)))..)).)))(((....)))..))))..))))...)))... ( -14.10)
>consensus
UAUAGAUGGCUGCCUUUCACAUUGCCCUCAACCGAAUAUGAUUAAGAAAGUAAUUAAAUCUCGGCGAUGCAUGAAAACUCAAGGAAAAUGGCAGAGCCAGAC
......((((((((((((.(((((((.((....))...((((((......))))))......)))))))..(((....)))..))))..))))..))))... (-20.44 = -20.67 +   0.22)

alignment

secondary structure

dotplot

Window 5

Location	2,665,111 – 2,665,213
Length	102
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	96.99
Mean single sequence MFE	-23.58
Consensus MFE	-22.45
Energy contribution	-22.23
Covariance contribution	-0.22
Combinations/Pair	1.09
Mean z-score	-0.80
Structure conservation index	0.95
SVM decision value	0.08
SVM RNA-class probability	0.573405
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2665111 102 - 27905053
GUCUGGCUCUGCCAUUUUCCAUGAGUUUUCAUGCAUCGCCGAGAUUUAAUUACUUUCUUAAUCAUAUUCGGUUGAGGGCAAUGUGAAAGGCAGCCAUCUAUA
...(((((..(((.(((..(((..(((((((......((((((.....((((......))))....))))))))))))).)))..)))))))))))...... ( -25.10)
>DroSec_CAF1 24608 102 - 1
GUCUGGCUCUGCCAUUUUCCCUGAGUUUUCAUGCAUCGCCGAGAUUUAAUUACUUUCUUAAUCAUAUUCGGUUGAGGGCAAUGUGAAAGGCAGCCAUCUAUA
...(((((..(((((((.....))))((((..((((.((((((.........))).(((((((......)))))))))).))))))))))))))))...... ( -23.70)
>DroSim_CAF1 17691 102 - 1
GUCUGGCUCUGCCAUUUUCCCUGAGUUUUCAUGCAUCGCCGAGAUUUAAUUACUUUCUUAAUCAUAUUCGGUUGAGGGCAAUGUGAAAGGCAGCCAUCUAUA
...(((((..(((((((.....))))((((..((((.((((((.........))).(((((((......)))))))))).))))))))))))))))...... ( -23.70)
>DroEre_CAF1 17636 102 - 1
GUCUGGCUCUGCCAUUUUCCUUGAGUUUUCAUGCAUCGCCGAGAUUUAAUUACUUUCUUAAUCAUAUUCGGUUGAGGGCAAUGUGAAAGGCAGCCAUCUAUA
...(((((..(((((((.....))))((((..((((.((((((.........))).(((((((......)))))))))).))))))))))))))))...... ( -23.70)
>DroYak_CAF1 24808 102 - 1
GUCUGGCUCUGCCAUUUUCCUUGAGUUUUCAUGCAUCGCCGGGAUUUAAUUACUUUCUUAAUCAUAUUCGGUUGAGGGCAAUGUGAAAGGCAACCAUCUAUA
((((.((..((((....(((((((((......)).)))..))))............(((((((......)))))))))))..))...))))........... ( -22.20)
>DroAna_CAF1 12747 102 - 1
GUCUGGUAUUGCCAUUUUCCUUGAGUUUUCAUGCAUCGUCGAGAUUUAAUUACUUUCUUAAUCAUAUUCGGUUGAGGGCAAUGUGAAAGGCAGCCAUCUAUG
((((..(((((((.......(((((((((.(((...))).))))))))).......(((((((......))))))))))))))....))))........... ( -23.10)
>consensus
GUCUGGCUCUGCCAUUUUCCUUGAGUUUUCAUGCAUCGCCGAGAUUUAAUUACUUUCUUAAUCAUAUUCGGUUGAGGGCAAUGUGAAAGGCAGCCAUCUAUA
...((((..((((((((.....))))((((..((((.((((((.........))).(((((((......)))))))))).))))))))))))))))...... (-22.45 = -22.23 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:27 2006