Locus 1415

Sequence ID	3R_DroMel_CAF1
Location	4,098,706 – 4,098,866
Length	160
Max. P	0.997525

overview

Window 0

Location	4,098,706 – 4,098,826
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	99.33
Mean single sequence MFE	-29.06
Consensus MFE	-28.26
Energy contribution	-28.46
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.31
Structure conservation index	0.97
SVM decision value	0.30
SVM RNA-class probability	0.678648
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4098706 120 + 27905053
GGUGAUAAUCGGUCUGACUUCUGACUGACCAUCCACUCCUGCUCCUGAUCCCACUCCAUUUAUAUCUGCGAUUCGCGUACGGUACGCGAAUUUCGCUGUUUCGCCUAAUUAAAUGUAAUU
(((((...((((((........)))))).......................................((((((((((((...))))))))..))))....)))))............... ( -28.10)
>DroSec_CAF1 10615 120 + 1
GGUGGUAAUCGGUCUGACUUCUGACUGACCAUCCACUCCUGCUCCUGAUCCCACUCCAUUUAUAUCUGCGAUUCGCGUACGGUACGCGAAUUUCGCUGUUUCGCCUAAUUAAAUGUAAUU
(((((...((((((........))))))....)))))...................((((((.....((((((((((((...))))))))..........)))).....))))))..... ( -29.30)
>DroSim_CAF1 10641 120 + 1
GGUGGUAAUCGGUCUGACUUCUGACUGACCAUCCACUCCUGCUCCUGAUCCCACUCCAUUUAUAUCUGCGAUUCGCGUACGGUACGCGAAUUUCGCUGUUUCGCCUAAUUAAAUGUAAUU
(((((...((((((........))))))....)))))...................((((((.....((((((((((((...))))))))..........)))).....))))))..... ( -29.30)
>DroEre_CAF1 10666 120 + 1
GGUGGUAAUCGGUCUGACUUCUGACUGACCAUCCACUUCUGCUCCUGAUCCCACUCCAUUUAUAUCUGCGAUUCGCGUACGGUACGCGAAUUUCGCUGUUUCGCCUAAUUAAAUGUAAUU
(((((...((((((........))))))....)))))...................((((((.....((((((((((((...))))))))..........)))).....))))))..... ( -29.30)
>DroYak_CAF1 10617 120 + 1
GGUGGUAAUCGGUCUGACUUCUGACUGACCAUCCACUCCUGCUCCUGAUCCCACUCCAUUUAUAUCUGCGAUUCGCGUACGGUACGCGAAUUUCGCUGUUUCGCCUAAUUAAAUGUAAUU
(((((...((((((........))))))....)))))...................((((((.....((((((((((((...))))))))..........)))).....))))))..... ( -29.30)
>consensus
GGUGGUAAUCGGUCUGACUUCUGACUGACCAUCCACUCCUGCUCCUGAUCCCACUCCAUUUAUAUCUGCGAUUCGCGUACGGUACGCGAAUUUCGCUGUUUCGCCUAAUUAAAUGUAAUU
(((((...((((((........))))))....)))))...................((((((.....((((((((((((...))))))))..........)))).....))))))..... (-28.26 = -28.46 +   0.20)

alignment

secondary structure

dotplot

Window 1

Location	4,098,746 – 4,098,866
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	100.00
Mean single sequence MFE	-32.40
Consensus MFE	-32.40
Energy contribution	-32.40
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.31
Structure conservation index	1.00
SVM decision value	2.88
SVM RNA-class probability	0.997525
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4098746 120 - 27905053
ACUAUUUAUAUGCAUUAUUUCGGCUGAAAAGGAAGUACCAAAUUACAUUUAAUUAGGCGAAACAGCGAAAUUCGCGUACCGUACGCGAAUCGCAGAUAUAAAUGGAGUGGGAUCAGGAGC
.((((((((((......(((((.((((....((((((......))).)))..)))).)))))..((((..((((((((...))))))))))))..))))))))))............... ( -32.40)
>DroSec_CAF1 10655 120 - 1
ACUAUUUAUAUGCAUUAUUUCGGCUGAAAAGGAAGUACCAAAUUACAUUUAAUUAGGCGAAACAGCGAAAUUCGCGUACCGUACGCGAAUCGCAGAUAUAAAUGGAGUGGGAUCAGGAGC
.((((((((((......(((((.((((....((((((......))).)))..)))).)))))..((((..((((((((...))))))))))))..))))))))))............... ( -32.40)
>DroSim_CAF1 10681 120 - 1
ACUAUUUAUAUGCAUUAUUUCGGCUGAAAAGGAAGUACCAAAUUACAUUUAAUUAGGCGAAACAGCGAAAUUCGCGUACCGUACGCGAAUCGCAGAUAUAAAUGGAGUGGGAUCAGGAGC
.((((((((((......(((((.((((....((((((......))).)))..)))).)))))..((((..((((((((...))))))))))))..))))))))))............... ( -32.40)
>DroEre_CAF1 10706 120 - 1
ACUAUUUAUAUGCAUUAUUUCGGCUGAAAAGGAAGUACCAAAUUACAUUUAAUUAGGCGAAACAGCGAAAUUCGCGUACCGUACGCGAAUCGCAGAUAUAAAUGGAGUGGGAUCAGGAGC
.((((((((((......(((((.((((....((((((......))).)))..)))).)))))..((((..((((((((...))))))))))))..))))))))))............... ( -32.40)
>DroYak_CAF1 10657 120 - 1
ACUAUUUAUAUGCAUUAUUUCGGCUGAAAAGGAAGUACCAAAUUACAUUUAAUUAGGCGAAACAGCGAAAUUCGCGUACCGUACGCGAAUCGCAGAUAUAAAUGGAGUGGGAUCAGGAGC
.((((((((((......(((((.((((....((((((......))).)))..)))).)))))..((((..((((((((...))))))))))))..))))))))))............... ( -32.40)
>consensus
ACUAUUUAUAUGCAUUAUUUCGGCUGAAAAGGAAGUACCAAAUUACAUUUAAUUAGGCGAAACAGCGAAAUUCGCGUACCGUACGCGAAUCGCAGAUAUAAAUGGAGUGGGAUCAGGAGC
.((((((((((......(((((.((((....((((((......))).)))..)))).)))))..((((..((((((((...))))))))))))..))))))))))............... (-32.40 = -32.40 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:51 2006