Locus 4822

Sequence ID	2R_DroMel_CAF1
Location	15,827,264 – 15,827,354
Length	90
Max. P	0.939070

overview

Window 2

Location	15,827,264 – 15,827,354
Length	90
Sequences	4
Columns	90
Reading direction	forward
Mean pairwise identity	96.11
Mean single sequence MFE	-28.40
Consensus MFE	-25.20
Energy contribution	-25.45
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-1.87
Structure conservation index	0.89
SVM decision value	0.50
SVM RNA-class probability	0.760427
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15827264 90 + 20766785
UGUGGCACAUUCAAAAUAGCCGCAUUUGCGUAUUCAAUCGCAGGCACGCGCAAUUGUUGCUAAUUGCACGUGAAUCACCGGAUGUGAGAG
((((((............))))))((((((........))))))((((.(((((((....))))))).))))..((((.....))))... ( -27.80)
>DroSec_CAF1 2845 90 + 1
UGUGGCACAUUCAAAAUAGCCGCAUUUGCGUAUUCAAUCGCAGGCACGCGCAAUUGUUGCUAAUUGCACGUGAAUCACCGGAUGUGAGAG
((((((............))))))((((((........))))))((((.(((((((....))))))).))))..((((.....))))... ( -27.80)
>DroSim_CAF1 2848 90 + 1
UGUGGCACAUUCAAAAUAGCCGCAUUUGCGUAUUCAAGCGCAGGCACGCGCAAUUGUUGCUAAUUGCACGUGAAUCACCGGAUGUGAGAG
((((((............))))))(((((((......)))))))((((.(((((((....))))))).))))..((((.....))))... ( -29.50)
>DroEre_CAF1 2844 90 + 1
UGUGCCACAUUCAAAGUACCCGCAUUUGAGUUCUCAAUCGCAGGCACGCGCAAUUGUUGCUAAUUGCACGUGAAUCACCGGAUGUGAGAG
.....(((((((......((.((..((((....))))..)).))((((.(((((((....))))))).)))).......))))))).... ( -28.50)
>consensus
UGUGGCACAUUCAAAAUAGCCGCAUUUGCGUAUUCAAUCGCAGGCACGCGCAAUUGUUGCUAAUUGCACGUGAAUCACCGGAUGUGAGAG
.....(((((((............((((((........))))))((((.(((((((....))))))).)))).......))))))).... (-25.20 = -25.45 +   0.25)

alignment

secondary structure

dotplot

Window 3

Location	15,827,264 – 15,827,354
Length	90
Sequences	4
Columns	90
Reading direction	reverse
Mean pairwise identity	96.11
Mean single sequence MFE	-28.75
Consensus MFE	-25.75
Energy contribution	-25.75
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.46
Structure conservation index	0.90
SVM decision value	1.30
SVM RNA-class probability	0.939070
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15827264 90 - 20766785
CUCUCACAUCCGGUGAUUCACGUGCAAUUAGCAACAAUUGCGCGUGCCUGCGAUUGAAUACGCAAAUGCGGCUAUUUUGAAUGUGCCACA
...........((((((((((((((((((......))))))))))(((.(((.(((......))).))))))......)))).))))... ( -27.30)
>DroSec_CAF1 2845 90 - 1
CUCUCACAUCCGGUGAUUCACGUGCAAUUAGCAACAAUUGCGCGUGCCUGCGAUUGAAUACGCAAAUGCGGCUAUUUUGAAUGUGCCACA
...........((((((((((((((((((......))))))))))(((.(((.(((......))).))))))......)))).))))... ( -27.30)
>DroSim_CAF1 2848 90 - 1
CUCUCACAUCCGGUGAUUCACGUGCAAUUAGCAACAAUUGCGCGUGCCUGCGCUUGAAUACGCAAAUGCGGCUAUUUUGAAUGUGCCACA
...........((((((((((((((((((......))))))))))(((.(((.(((......))).))))))......)))).))))... ( -27.30)
>DroEre_CAF1 2844 90 - 1
CUCUCACAUCCGGUGAUUCACGUGCAAUUAGCAACAAUUGCGCGUGCCUGCGAUUGAGAACUCAAAUGCGGGUACUUUGAAUGUGGCACA
...((((.....)))).((((((((((((......))))))))(((((((((.((((....)))).))))))))).......)))).... ( -33.10)
>consensus
CUCUCACAUCCGGUGAUUCACGUGCAAUUAGCAACAAUUGCGCGUGCCUGCGAUUGAAUACGCAAAUGCGGCUAUUUUGAAUGUGCCACA
....(((((.(((.....(((((((((((......))))))))))).(((((.(((......))).))))).....))).)))))..... (-25.75 = -25.75 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:02 2006