Locus 5000

Sequence ID	3R_DroMel_CAF1
Location	13,179,094 – 13,179,220
Length	126
Max. P	0.974464

overview

Window 5

Location	13,179,094 – 13,179,194
Length	100
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	95.40
Mean single sequence MFE	-24.02
Consensus MFE	-23.07
Energy contribution	-22.68
Covariance contribution	-0.39
Combinations/Pair	1.13
Mean z-score	-1.32
Structure conservation index	0.96
SVM decision value	1.73
SVM RNA-class probability	0.974464
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13179094 100 - 27905053
CUUCCUCCUUGGGAUAUGUAAAUACUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCAUCGUGAUUAGAUUGAUUGGGACUCAUUUGCAUGAUA
....((((...(((((((((((((..((...))....)))))))))))))...))))(..((((((.(((((.....))))).))......))))..).. ( -24.10)
>DroSec_CAF1 206961 100 - 1
CUUCCUCCUUGGGAUAUGUAAAUACUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCAUCGUGAUUAGAUUGAUUGGGACUCAUUUGCAUGAUA
....((((...(((((((((((((..((...))....)))))))))))))...))))(..((((((.(((((.....))))).))......))))..).. ( -24.10)
>DroSim_CAF1 193011 100 - 1
CUUCCUCCUUGGGAUAUGUAAAUACUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCAUCGUGAUUAGAUUGAUUGGGACUCAUUUGCAUGAUA
....((((...(((((((((((((..((...))....)))))))))))))...))))(..((((((.(((((.....))))).))......))))..).. ( -24.10)
>DroEre_CAF1 197876 100 - 1
CUUCCUCCUUGGGAUAUGUAAAUAUUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCGCCGUGAUUAGAUUGAUUGGGACUCAUUUGCAUGAUA
....((((...(((((((((((((..((...))....)))))))))))))...))))(..((((..((((................)))).))))..).. ( -23.29)
>DroYak_CAF1 206346 100 - 1
CUUCCUCCUUGGGAUAUGUAAAUAUUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCAUCGUGAUUAGAUUGAUUGGGACUCAUUUGCAUGAUA
....((((...(((((((((((((..((...))....)))))))))))))...))))(..((((((.(((((.....))))).))......))))..).. ( -24.80)
>DroAna_CAF1 193749 100 - 1
CUUCCUUCCUGGAAUAUGUAAAUAUUCGCCAUGUAAUUAUUUACAUAUUCUGUGGGGUUGUGCAUCCUGAUUAGAUUGAUUGAGACUCAUUUGCAUGAGA
...(((..(.((((((((((((((.(..(...)..).)))))))))))))))..)))(..((((((..((((.....))))..))......))))..).. ( -23.70)
>consensus
CUUCCUCCUUGGGAUAUGUAAAUACUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCAUCGUGAUUAGAUUGAUUGGGACUCAUUUGCAUGAUA
....((((...(((((((((((((..((...))....)))))))))))))...))))(..((((((.(((((.....))))).))......))))..).. (-23.07 = -22.68 +  -0.39)

alignment

secondary structure

dotplot

Window 6

Location	13,179,126 – 13,179,220
Length	94
Sequences	6
Columns	94
Reading direction	reverse
Mean pairwise identity	92.62
Mean single sequence MFE	-22.40
Consensus MFE	-18.10
Energy contribution	-17.55
Covariance contribution	-0.55
Combinations/Pair	1.17
Mean z-score	-2.14
Structure conservation index	0.81
SVM decision value	0.09
SVM RNA-class probability	0.576712
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13179126 94 - 27905053
UUUGCGAUACAUUUAAAUUGAUUUGACUUCCUCCUUGGGAUAUGUAAAUACUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCAUCGU
...(((((.((((((((....)))))....((((...(((((((((((((..((...))....)))))))))))))...))))..))).))))) ( -22.10)
>DroSec_CAF1 206993 94 - 1
UUUGCGAUACAUUUAAAUUGAUUUGACUUCCUCCUUGGGAUAUGUAAAUACUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCAUCGU
...(((((.((((((((....)))))....((((...(((((((((((((..((...))....)))))))))))))...))))..))).))))) ( -22.10)
>DroSim_CAF1 193043 94 - 1
UUUGCGAUACAUUUAAAUUGAUUUGACUUCCUCCUUGGGAUAUGUAAAUACUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCAUCGU
...(((((.((((((((....)))))....((((...(((((((((((((..((...))....)))))))))))))...))))..))).))))) ( -22.10)
>DroEre_CAF1 197908 94 - 1
UUUGCGAUACGUUUAAAUUGAUUUGACUUCCUCCUUGGGAUAUGUAAAUAUUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCGCCGU
...(((.((((((...........)))...((((...(((((((((((((..((...))....)))))))))))))...))))..))))))... ( -22.90)
>DroYak_CAF1 206378 94 - 1
UUUGCGAUACAUUUAAAUUGAUUUGACUUCCUCCUUGGGAUAUGUAAAUAUUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCAUCGU
...(((((.((((((((....)))))....((((...(((((((((((((..((...))....)))))))))))))...))))..))).))))) ( -22.80)
>DroAna_CAF1 193781 94 - 1
UUUUCUAGGAAUUUCACAUGAUUUGACUUCCUUCCUGGAAUAUGUAAAUAUUCGCCAUGUAAUUAUUUACAUAUUCUGUGGGGUUGUGCAUCCU
......((((....((((...........(((..(.((((((((((((((.(..(...)..).)))))))))))))))..))).))))..)))) ( -22.40)
>consensus
UUUGCGAUACAUUUAAAUUGAUUUGACUUCCUCCUUGGGAUAUGUAAAUACUCGUCUCGUAAUUAUUUACAUAUUCAGUGGGGUUGUGCAUCGU
.......................((((..((.((...(((((((((((((..((...))....)))))))))))))...))))..)).)).... (-18.10 = -17.55 +  -0.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:59 2006