Locus 976

Sequence ID	2R_DroMel_CAF1
Location	4,123,188 – 4,123,283
Length	95
Max. P	0.984513

overview

Window 7

Location	4,123,188 – 4,123,283
Length	95
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	86.72
Mean single sequence MFE	-18.33
Consensus MFE	-15.45
Energy contribution	-16.03
Covariance contribution	0.58
Combinations/Pair	1.09
Mean z-score	-2.01
Structure conservation index	0.84
SVM decision value	0.60
SVM RNA-class probability	0.794787
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4123188 95 + 20766785
ACUCUUUGCCAAAGUCGUAAAUCUGCCAUCGAAUCGGUAUUAAUUUAGAUACCGCCCCUUUGGCUUAUUUACCCAACGUUUAUUGACUCCAAUUG
............((((((((((..((((......(((((((......)))))))......))))..))))))............))))....... ( -19.80)
>DroSec_CAF1 11040 87 + 1
--------CCAAAGUCGUAAAUCUGCCAUCGAAUCGGUAUUAAUUUAGAUACCGCCCCUUUGGCUUAUUUACCCAACGUUUAUUGACUCCAAUUG
--------....((((((((((..((((......(((((((......)))))))......))))..))))))............))))....... ( -19.80)
>DroSim_CAF1 3453 87 + 1
--------CCAAAGUCGUAAAUCUGCCAUCGAAUCGGUAUUAAUUUAGAUACCGCCCCUUUGGCUUAUUUACCCAACGUUUAUUGACUCCAAUUG
--------....((((((((((..((((......(((((((......)))))))......))))..))))))............))))....... ( -19.80)
>DroEre_CAF1 4781 94 + 1
ACUCUUUGCCAAAGUCGUAAAUCUGCCAUCGAAUCGGUAUUAAUUUAGAUACCGCC-CUCUGGCUUAUUUACCCAACGUUUAUUGACUCCAAUUG
............((((((((((..((((......(((((((......)))))))..-...))))..))))))............))))....... ( -18.70)
>DroYak_CAF1 3075 94 + 1
ACUCUUUGCCAAAGUCGUAAAUCUGCCAUCGAAUCGGUAUUAAUUUAGAUACCGGC-CUCUGGCUUAUUUACCCAACGUUUAUUGACUCCAAUUG
............((((((((((..((((..((.((((((((......)))))))).-.))))))..))))))............))))....... ( -19.90)
>DroAna_CAF1 2335 93 + 1
CCUCGCCGCC-GAGUCGUAAAUCUUCCAUCCAAUCAUUAUUCAUUUAUAUAUCCGCUGUUUGGCUAAUUUCUCGAAUGUUUAUUGACUCCAAUU-
..........-(((((((((((.(((...........(((......))).....(((....))).........))).))))).)))))).....- ( -12.00)
>consensus
ACUCUUUGCCAAAGUCGUAAAUCUGCCAUCGAAUCGGUAUUAAUUUAGAUACCGCCCCUUUGGCUUAUUUACCCAACGUUUAUUGACUCCAAUUG
............((((((((((..((((..(...(((((((......)))))))...)..))))..))))))............))))....... (-15.45 = -16.03 +   0.58)

alignment

secondary structure

dotplot

Window 8

Location	4,123,188 – 4,123,283
Length	95
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	86.72
Mean single sequence MFE	-24.67
Consensus MFE	-22.20
Energy contribution	-22.73
Covariance contribution	0.53
Combinations/Pair	1.15
Mean z-score	-2.52
Structure conservation index	0.90
SVM decision value	1.98
SVM RNA-class probability	0.984513
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4123188 95 - 20766785
CAAUUGGAGUCAAUAAACGUUGGGUAAAUAAGCCAAAGGGGCGGUAUCUAAAUUAAUACCGAUUCGAUGGCAGAUUUACGACUUUGGCAAAGAGU
...(..(((((......(....)((((((..((((..(((.((((((........)))))).)))..))))..)))))))))))..)........ ( -27.10)
>DroSec_CAF1 11040 87 - 1
CAAUUGGAGUCAAUAAACGUUGGGUAAAUAAGCCAAAGGGGCGGUAUCUAAAUUAAUACCGAUUCGAUGGCAGAUUUACGACUUUGG--------
...(..(((((......(....)((((((..((((..(((.((((((........)))))).)))..))))..)))))))))))..)-------- ( -26.60)
>DroSim_CAF1 3453 87 - 1
CAAUUGGAGUCAAUAAACGUUGGGUAAAUAAGCCAAAGGGGCGGUAUCUAAAUUAAUACCGAUUCGAUGGCAGAUUUACGACUUUGG--------
...(..(((((......(....)((((((..((((..(((.((((((........)))))).)))..))))..)))))))))))..)-------- ( -26.60)
>DroEre_CAF1 4781 94 - 1
CAAUUGGAGUCAAUAAACGUUGGGUAAAUAAGCCAGAG-GGCGGUAUCUAAAUUAAUACCGAUUCGAUGGCAGAUUUACGACUUUGGCAAAGAGU
...(..(((((......(....)((((((..((((..(-((((((((........)))))).)))..))))..)))))))))))..)........ ( -28.10)
>DroYak_CAF1 3075 94 - 1
CAAUUGGAGUCAAUAAACGUUGGGUAAAUAAGCCAGAG-GCCGGUAUCUAAAUUAAUACCGAUUCGAUGGCAGAUUUACGACUUUGGCAAAGAGU
...(..(((((......(....)((((((..((((..(-(.((((((........))))))..))..))))..)))))))))))..)........ ( -25.90)
>DroAna_CAF1 2335 93 - 1
-AAUUGGAGUCAAUAAACAUUCGAGAAAUUAGCCAAACAGCGGAUAUAUAAAUGAAUAAUGAUUGGAUGGAAGAUUUACGACUC-GGCGGCGAGG
-.((((....))))......(((..(((((..(((..(((((..(((........))).)).)))..)))..))))).)))(((-(....)))). ( -13.70)
>consensus
CAAUUGGAGUCAAUAAACGUUGGGUAAAUAAGCCAAAGGGGCGGUAUCUAAAUUAAUACCGAUUCGAUGGCAGAUUUACGACUUUGGCAAAGAGU
...(..(((((......(....)((((((..((((..(((.((((((........)))))).)))..))))..)))))))))))..)........ (-22.20 = -22.73 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:13 2006