Locus 4375

Sequence ID	2L_DroMel_CAF1
Location	12,606,169 – 12,606,269
Length	100
Max. P	0.997689

overview

Window 0

Location	12,606,169 – 12,606,269
Length	100
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	95.50
Mean single sequence MFE	-20.29
Consensus MFE	-18.13
Energy contribution	-18.05
Covariance contribution	-0.08
Combinations/Pair	1.14
Mean z-score	-1.55
Structure conservation index	0.89
SVM decision value	1.25
SVM RNA-class probability	0.935721
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12606169 100 + 22407834
AGAUUUCUGAUCCUUGGCUUUGAUCUUUAGCUGCCACAUUUCAGCAGCGGUAUAGUUGAAAGCAUUUUUCAAUGAUUUUUCGCUUUGUUUUUGCCUUCUU
...............(((...(((.....((((........))))(((((....((((((((...))))))))......)))))..)))...)))..... ( -18.10)
>DroSec_CAF1 172996 100 + 1
AGAUUUCUGAUCCUUGGCUUUGAUCUUUAGCUGCCACAUUUCAGCAGCGGUAGAGUUGAAAGCAUUUUUCAAUGAUUUUUCGCUUUUUUUUUGCCUUCUU
........((((.........))))....(((((.........)))))(((((((..((((((..................)))))).)))))))..... ( -20.07)
>DroSim_CAF1 177000 100 + 1
AGAUUUCUGAUCCUUGGCUUUGAUCUUUAGCUGCCACAUUUCAGUAGCGGUAGAGUUGAAAGCAUUUUUCAAUGAUUUUUCGCUUUGUUUUUGCCUUCUU
(((((..(((......(((((.(.(((((.((((.((......)).))))))))).).))))).....)))..)))))...((.........))...... ( -19.20)
>DroEre_CAF1 171219 100 + 1
AGAUUUCUGAUCCUUGGCUUUGAUCUUCAGCUGCCACAUUUCAGCAGCGGCAAAGUUGAAAGCAUUUUUCAAUGAUUUUUCGCUUUGUUUUUGCCUUUUU
.......(((....((((.(((.....)))..))))....)))((((..(((((((.(((((((((....)))).))))).)))))))..))))...... ( -24.50)
>DroAna_CAF1 171930 99 + 1
AGAUUUUUGAUCCUUGACUUUGAUCUUUGGCUGCCACAUUUCAGCAGCGGCA-AGUUGAAAGCAUUUUUCAAUGAUUUUUCGCUUUGUUUUUGCCUUUUU
........((((.........))))....(((((.........)))))((((-((...(((((..................)))))...))))))..... ( -19.57)
>consensus
AGAUUUCUGAUCCUUGGCUUUGAUCUUUAGCUGCCACAUUUCAGCAGCGGUAGAGUUGAAAGCAUUUUUCAAUGAUUUUUCGCUUUGUUUUUGCCUUCUU
........((((.........))))....(((((.........)))))(((((((...(((((..................)))))..)))))))..... (-18.13 = -18.05 +  -0.08)

alignment

secondary structure

dotplot

Window 1

Location	12,606,169 – 12,606,269
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	95.50
Mean single sequence MFE	-20.98
Consensus MFE	-17.74
Energy contribution	-17.78
Covariance contribution	0.04
Combinations/Pair	1.06
Mean z-score	-2.76
Structure conservation index	0.85
SVM decision value	2.91
SVM RNA-class probability	0.997689
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12606169 100 - 22407834
AAGAAGGCAAAAACAAAGCGAAAAAUCAUUGAAAAAUGCUUUCAACUAUACCGCUGCUGAAAUGUGGCAGCUAAAGAUCAAAGCCAAGGAUCAGAAAUCU
.....(((...........((((...((((....)))).)))).........((((((.......))))))...........)))............... ( -19.50)
>DroSec_CAF1 172996 100 - 1
AAGAAGGCAAAAAAAAAGCGAAAAAUCAUUGAAAAAUGCUUUCAACUCUACCGCUGCUGAAAUGUGGCAGCUAAAGAUCAAAGCCAAGGAUCAGAAAUCU
..((((((...........((....))(((....)))))))))...(((...((((((.......))))))....((((.........)))))))..... ( -20.30)
>DroSim_CAF1 177000 100 - 1
AAGAAGGCAAAAACAAAGCGAAAAAUCAUUGAAAAAUGCUUUCAACUCUACCGCUACUGAAAUGUGGCAGCUAAAGAUCAAAGCCAAGGAUCAGAAAUCU
..((((((...........((....))(((....)))))))))...(((...(((((......))))).......((((.........)))))))..... ( -18.20)
>DroEre_CAF1 171219 100 - 1
AAAAAGGCAAAAACAAAGCGAAAAAUCAUUGAAAAAUGCUUUCAACUUUGCCGCUGCUGAAAUGUGGCAGCUGAAGAUCAAAGCCAAGGAUCAGAAAUCU
.....((((((...(((((((....))(((....))))))))....))))))((((((.......))))))....((((.........))))........ ( -23.90)
>DroAna_CAF1 171930 99 - 1
AAAAAGGCAAAAACAAAGCGAAAAAUCAUUGAAAAAUGCUUUCAACU-UGCCGCUGCUGAAAUGUGGCAGCCAAAGAUCAAAGUCAAGGAUCAAAAAUCU
.....(((((....(((((((....))(((....))))))))....)-))))((((((.......))))))....((((.........))))........ ( -23.00)
>consensus
AAGAAGGCAAAAACAAAGCGAAAAAUCAUUGAAAAAUGCUUUCAACUCUACCGCUGCUGAAAUGUGGCAGCUAAAGAUCAAAGCCAAGGAUCAGAAAUCU
.....(((...........((((...((((....)))).)))).........((((((.......))))))...........)))............... (-17.74 = -17.78 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:18 2006