Locus 5623

Sequence ID	3L_DroMel_CAF1
Location	15,429,771 – 15,429,865
Length	94
Max. P	0.998966

overview

Window 2

Location	15,429,771 – 15,429,865
Length	94
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	89.13
Mean single sequence MFE	-22.88
Consensus MFE	-21.00
Energy contribution	-22.20
Covariance contribution	1.20
Combinations/Pair	1.04
Mean z-score	-3.08
Structure conservation index	0.92
SVM decision value	3.30
SVM RNA-class probability	0.998966
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15429771 94 + 23771897
GCCUCCUUAAAUGGCAACUAAUUUGCCAGCGCAAUUUGCUUUUUACAACUAAAUUCGCAUUUCGGCUUUAGCAUCCUU--GGGAUGCUUAUGUU-----CC
(((........((((((.....))))))(((.((((((.((.....)).))))))))).....)))...(((((((..--.)))))))......-----.. ( -25.10)
>DroPse_CAF1 158792 95 + 1
UCUCCCUUUAAUGGCAACUAAU-UGCCAACGCAAUUUGCUUUUUAUAACUAAAUUCGCAAUUCGGCUUCAUUUUCCUCUUAGCUCUCUUUUCCU-----CC
...........((((((....)-)))))..((...((((..((((....))))...))))....))............................-----.. ( -12.10)
>DroSec_CAF1 158727 94 + 1
GCCUCCUUAAAUGGCAACUAAUUUGCCAGCGCAAUUUGCUUUUUACAACUAAAUUCGCAUUUCGGCUUUAGCAUCCUU--GGGAUGCUUAUGCU-----CC
(((........((((((.....))))))(((.((((((.((.....)).))))))))).....)))...(((((((..--.)))))))......-----.. ( -25.10)
>DroSim_CAF1 163219 94 + 1
GCCUCCUUAAAUGGCAACUAAUUUGCCAGCGCAAUUUGCUUUUUACAACUAAAUUCGCAUUUCGGCUUUAGCAUCCUU--GGGAUGCUUAUGCU-----CC
(((........((((((.....))))))(((.((((((.((.....)).))))))))).....)))...(((((((..--.)))))))......-----.. ( -25.10)
>DroEre_CAF1 159511 94 + 1
GCCUUCUUAAAUGGCAACUAAUUUGCCAGCGCAAUUUGCUUUUUACAACUAAAUUCGCAUUUCGGCUUUAGCAUCCUU--GGGAUGCUUAUGUU-----CC
(((........((((((.....))))))(((.((((((.((.....)).))))))))).....)))...(((((((..--.)))))))......-----.. ( -25.10)
>DroYak_CAF1 164508 99 + 1
GCCUUCUUAAAUGGCAACUAAUUUGCCAGCGCAAUUUGCUUUUUACAACUAAAUUCGCAUUUUGGCUUUAGCAUCCUU--GGGAUGCUUAUGUUCCGUUCC
(((........((((((.....))))))(((.((((((.((.....)).))))))))).....)))...(((((((..--.)))))))............. ( -24.80)
>consensus
GCCUCCUUAAAUGGCAACUAAUUUGCCAGCGCAAUUUGCUUUUUACAACUAAAUUCGCAUUUCGGCUUUAGCAUCCUU__GGGAUGCUUAUGCU_____CC
(((........((((((.....))))))(((.((((((.((.....)).))))))))).....)))...(((((((.....)))))))............. (-21.00 = -22.20 +   1.20)

alignment

secondary structure

dotplot

Window 3

Location	15,429,771 – 15,429,865
Length	94
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	89.13
Mean single sequence MFE	-24.68
Consensus MFE	-22.17
Energy contribution	-23.37
Covariance contribution	1.19
Combinations/Pair	1.04
Mean z-score	-2.56
Structure conservation index	0.90
SVM decision value	2.34
SVM RNA-class probability	0.992628
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15429771 94 - 23771897
GG-----AACAUAAGCAUCCC--AAGGAUGCUAAAGCCGAAAUGCGAAUUUAGUUGUAAAAAGCAAAUUGCGCUGGCAAAUUAGUUGCCAUUUAAGGAGGC
..-----......(((((((.--..)))))))...(((.....((((((((.(((......)))))))).)))((((((.....))))))........))) ( -26.90)
>DroPse_CAF1 158792 95 - 1
GG-----AGGAAAAGAGAGCUAAGAGGAAAAUGAAGCCGAAUUGCGAAUUUAGUUAUAAAAAGCAAAUUGCGUUGGCA-AUUAGUUGCCAUUAAAGGGAGA
..-----...........................((((((.((((...((((....))))..)))).))).)))((((-(....)))))............ ( -13.60)
>DroSec_CAF1 158727 94 - 1
GG-----AGCAUAAGCAUCCC--AAGGAUGCUAAAGCCGAAAUGCGAAUUUAGUUGUAAAAAGCAAAUUGCGCUGGCAAAUUAGUUGCCAUUUAAGGAGGC
..-----......(((((((.--..)))))))...(((.....((((((((.(((......)))))))).)))((((((.....))))))........))) ( -26.90)
>DroSim_CAF1 163219 94 - 1
GG-----AGCAUAAGCAUCCC--AAGGAUGCUAAAGCCGAAAUGCGAAUUUAGUUGUAAAAAGCAAAUUGCGCUGGCAAAUUAGUUGCCAUUUAAGGAGGC
..-----......(((((((.--..)))))))...(((.....((((((((.(((......)))))))).)))((((((.....))))))........))) ( -26.90)
>DroEre_CAF1 159511 94 - 1
GG-----AACAUAAGCAUCCC--AAGGAUGCUAAAGCCGAAAUGCGAAUUUAGUUGUAAAAAGCAAAUUGCGCUGGCAAAUUAGUUGCCAUUUAAGAAGGC
..-----......(((((((.--..)))))))...(((.....((((((((.(((......)))))))).)))((((((.....))))))........))) ( -26.90)
>DroYak_CAF1 164508 99 - 1
GGAACGGAACAUAAGCAUCCC--AAGGAUGCUAAAGCCAAAAUGCGAAUUUAGUUGUAAAAAGCAAAUUGCGCUGGCAAAUUAGUUGCCAUUUAAGAAGGC
.............(((((((.--..)))))))...(((.....((((((((.(((......)))))))).)))((((((.....))))))........))) ( -26.90)
>consensus
GG_____AACAUAAGCAUCCC__AAGGAUGCUAAAGCCGAAAUGCGAAUUUAGUUGUAAAAAGCAAAUUGCGCUGGCAAAUUAGUUGCCAUUUAAGGAGGC
.............(((((((.....)))))))...(((.....((((((((.(((......)))))))).)))((((((.....))))))........))) (-22.17 = -23.37 +   1.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:51 2006