Locus 5649

Sequence ID	3L_DroMel_CAF1
Location	15,500,787 – 15,500,947
Length	160
Max. P	0.936346

overview

Window 4

Location	15,500,787 – 15,500,907
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	97.78
Mean single sequence MFE	-15.50
Consensus MFE	-15.50
Energy contribution	-15.50
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.58
Structure conservation index	1.00
SVM decision value	0.40
SVM RNA-class probability	0.722486
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15500787 120 + 23771897
AACUACACAUAUUAAAUGCUAUUAUACACGGGCCGAGCAAAGCCAUUUCUAAAGCGGUUUACUGCCCAUUCACACACAAAACACAUCAAAAAAUUCAAUUAAAUCAAUUGAAAUCGUAAU
........................(((..((((.((((...((..........)).))))...))))..........................(((((((.....)))))))...))).. ( -15.50)
>DroSec_CAF1 42017 120 + 1
AACUACACAUAUUAUAUGCUAUUAUACACGGGCCGAGCAAAGCCAUUUCAAAAGCGGUUUACUGCCCAUCCACACACAAAACACAUAAAAAAAUUCAAUUAAAUCAAUUGAAAUCGUAAU
........................(((..((((.((((...((..........)).))))...))))..........................(((((((.....)))))))...))).. ( -15.50)
>DroSim_CAF1 42248 120 + 1
AACUACACAUAUUAAAUGCUAUUAUACACGGGCCGAGCAAAGCCAUUUCAAAAGCGGUUUACUGCCCAUCCACACACAAAACACAUCAAAAAAUUCAAUUAAAUCAAUUGAAAUCGUAAU
........................(((..((((.((((...((..........)).))))...))))..........................(((((((.....)))))))...))).. ( -15.50)
>consensus
AACUACACAUAUUAAAUGCUAUUAUACACGGGCCGAGCAAAGCCAUUUCAAAAGCGGUUUACUGCCCAUCCACACACAAAACACAUCAAAAAAUUCAAUUAAAUCAAUUGAAAUCGUAAU
........................(((..((((.((((...((..........)).))))...))))..........................(((((((.....)))))))...))).. (-15.50 = -15.50 +   0.00)

alignment

secondary structure

dotplot

Window 5

Location	15,500,787 – 15,500,907
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.78
Mean single sequence MFE	-29.97
Consensus MFE	-29.33
Energy contribution	-29.33
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.20
Structure conservation index	0.98
SVM decision value	1.25
SVM RNA-class probability	0.936346
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15500787 120 - 23771897
AUUACGAUUUCAAUUGAUUUAAUUGAAUUUUUUGAUGUGUUUUGUGUGUGAAUGGGCAGUAAACCGCUUUAGAAAUGGCUUUGCUCGGCCCGUGUAUAAUAGCAUUUAAUAUGUGUAGUU
(((((...((((((((...)))))))).......(((((((.(((.((((.((((((((((((..(((........)))))))))..)))))).))))...)))...)))))))))))). ( -28.00)
>DroSec_CAF1 42017 120 - 1
AUUACGAUUUCAAUUGAUUUAAUUGAAUUUUUUUAUGUGUUUUGUGUGUGGAUGGGCAGUAAACCGCUUUUGAAAUGGCUUUGCUCGGCCCGUGUAUAAUAGCAUAUAAUAUGUGUAGUU
((((((..((((((((...)))))))).....(((((((((.....((((.((((((((((((..(((........)))))))))..)))))).))))..)))))))))....)))))). ( -31.80)
>DroSim_CAF1 42248 120 - 1
AUUACGAUUUCAAUUGAUUUAAUUGAAUUUUUUGAUGUGUUUUGUGUGUGGAUGGGCAGUAAACCGCUUUUGAAAUGGCUUUGCUCGGCCCGUGUAUAAUAGCAUUUAAUAUGUGUAGUU
(((((...((((((((...)))))))).......(((((((.(((.((((.((((((((((((..(((........)))))))))..)))))).))))...)))...)))))))))))). ( -30.10)
>consensus
AUUACGAUUUCAAUUGAUUUAAUUGAAUUUUUUGAUGUGUUUUGUGUGUGGAUGGGCAGUAAACCGCUUUUGAAAUGGCUUUGCUCGGCCCGUGUAUAAUAGCAUUUAAUAUGUGUAGUU
(((((...((((((((...)))))))).......(((((((.(((.((((.((((((((((((..(((........)))))))))..)))))).))))...)))...)))))))))))). (-29.33 = -29.33 +  -0.00)

alignment

secondary structure

dotplot

Window 6

Location	15,500,827 – 15,500,947
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-14.13
Consensus MFE	-13.60
Energy contribution	-13.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.83
Structure conservation index	0.96
SVM decision value	0.55
SVM RNA-class probability	0.777703
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15500827 120 + 23771897
AGCCAUUUCUAAAGCGGUUUACUGCCCAUUCACACACAAAACACAUCAAAAAAUUCAAUUAAAUCAAUUGAAAUCGUAAUCGAGUCCAAAACACAGUACAGCGAAAAGAAAAAUCAAAUA
.....(((((....((.(.(((((.............................(((((((.....))))))).(((....)))..........))))).).))...)))))......... ( -15.20)
>DroSec_CAF1 42057 120 + 1
AGCCAUUUCAAAAGCGGUUUACUGCCCAUCCACACACAAAACACAUAAAAAAAUUCAAUUAAAUCAAUUGAAAUCGUAAUCGAGUCCAAAACACAGUACAGCGAAAAGAAAAAUCAAAUA
.....((((.....((.(.(((((.............................(((((((.....))))))).(((....)))..........))))).).))....))))......... ( -13.60)
>DroSim_CAF1 42288 120 + 1
AGCCAUUUCAAAAGCGGUUUACUGCCCAUCCACACACAAAACACAUCAAAAAAUUCAAUUAAAUCAAUUGAAAUCGUAAUCGAGUCCAAAACACAGUACAGCGAAAAGAAAAAUCAAAUA
.....((((.....((.(.(((((.............................(((((((.....))))))).(((....)))..........))))).).))....))))......... ( -13.60)
>consensus
AGCCAUUUCAAAAGCGGUUUACUGCCCAUCCACACACAAAACACAUCAAAAAAUUCAAUUAAAUCAAUUGAAAUCGUAAUCGAGUCCAAAACACAGUACAGCGAAAAGAAAAAUCAAAUA
.....((((.....((.(.(((((.............................(((((((.....))))))).(((....)))..........))))).).))....))))......... (-13.60 = -13.60 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:41 2006