Locus 8497

Sequence ID	3L_DroMel_CAF1
Location	22,290,520 – 22,290,661
Length	141
Max. P	0.975456

overview

Window 7

Location	22,290,520 – 22,290,640
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	97.92
Mean single sequence MFE	-23.59
Consensus MFE	-22.79
Energy contribution	-23.29
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.60
Structure conservation index	0.97
SVM decision value	0.06
SVM RNA-class probability	0.562827
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22290520 120 - 23771897
CAUACACUUACGAUUUCAAUUUGUUCGCUUUAAUAAUUCACAAUUCAAUAAAUGCUAACAAAUUGACAUUGUCCAAAGGCCCAAAGAAAGAACGAAAAAGUUUCUAUGGAUUUCUGUGGG
......((((((((.((((((((((.((((((................)))).)).)))))))))).)))))...))).((((.(((((((((......)))).......))))).)))) ( -24.50)
>DroSec_CAF1 48917 120 - 1
CAUACACUUACGAUUUCAAUUUGUUCGCUUUAAUAAUUCACAAUUCAAUAAAUGCUAACAAAUUGACAUUGUCCAAAGGCCCAAAGAAAGAUCGAAAAAGUUUCUAUGGAUUUCUGUGGG
......((((((((.((((((((((.((((((................)))).)).)))))))))).)))))...))).((((.(((((.((.(((.....))).))...))))).)))) ( -23.89)
>DroEre_CAF1 47357 120 - 1
CAUACACUUACGAUUUCAAUUUGUUCGCUUUAAUAAUUCACAAUUCAAUAAAUGCUAACAAAUUGACAUUGUGCAAAGGCCCAAAGAAUGAACGAAAAAGUUUCUAUGGAUUUCUGUGGG
....(((.((((((.((((((((((.((((((................)))).)).)))))))))).)))))).......(((.((((...((......)))))).)))......))).. ( -23.99)
>DroYak_CAF1 13350 120 - 1
CUUACACUUACGAUUUCAAUUUGUACGCUUUAAUAAUUCACAAUUCAAUAAAUGCUAACAAAUUGACAUUGUCCAAAGGCCCAAAGAAAGAACGAAAAAGUUUCUAUGGAUUUCUGUGGG
......((((((((.(((((((((..((((((................)))).))..))))))))).)))))...))).((((.(((((((((......)))).......))))).)))) ( -22.00)
>consensus
CAUACACUUACGAUUUCAAUUUGUUCGCUUUAAUAAUUCACAAUUCAAUAAAUGCUAACAAAUUGACAUUGUCCAAAGGCCCAAAGAAAGAACGAAAAAGUUUCUAUGGAUUUCUGUGGG
......((((((((.((((((((((.((((((................)))).)).)))))))))).)))))...))).((((.(((((....(((.....)))......))))).)))) (-22.79 = -23.29 +   0.50)

alignment

secondary structure

dotplot

Window 8

Location	22,290,560 – 22,290,661
Length	101
Sequences	3
Columns	116
Reading direction	reverse
Mean pairwise identity	87.39
Mean single sequence MFE	-24.19
Consensus MFE	-20.29
Energy contribution	-20.29
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-3.72
Structure conservation index	0.84
SVM decision value	1.75
SVM RNA-class probability	0.975456
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22290560 101 - 23771897
UCCA---------------UAGGGGAGAUCCACACCCAUACACUUACGAUUUCAAUUUGUUCGCUUUAAUAAUUCACAAUUCAAUAAAUGCUAACAAAUUGACAUUGUCCAAAGGC
.((.---------------..(((..........)))........(((((.((((((((((.((((((................)))).)).)))))))))).))))).....)). ( -20.09)
>DroSec_CAF1 48957 116 - 1
UCCAUAUCUCCCCUAUGCAUAGGGGAGACCCACACCCAUACACUUACGAUUUCAAUUUGUUCGCUUUAAUAAUUCACAAUUCAAUAAAUGCUAACAAAUUGACAUUGUCCAAAGGC
.((...(((((((((....))))))))).................(((((.((((((((((.((((((................)))).)).)))))))))).))))).....)). ( -30.89)
>DroEre_CAF1 47397 100 - 1
UCCA---------------CAGGGGAG-CGCCCACCCAUACACUUACGAUUUCAAUUUGUUCGCUUUAAUAAUUCACAAUUCAAUAAAUGCUAACAAAUUGACAUUGUGCAAAGGC
.((.---------------..(((...-......))).......((((((.((((((((((.((((((................)))).)).)))))))))).))))))....)). ( -21.59)
>consensus
UCCA_______________UAGGGGAGACCCACACCCAUACACUUACGAUUUCAAUUUGUUCGCUUUAAUAAUUCACAAUUCAAUAAAUGCUAACAAAUUGACAUUGUCCAAAGGC
.((..................(((..........)))........(((((.((((((((((.((((((................)))).)).)))))))))).))))).....)). (-20.29 = -20.29 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:07 2006