Locus 1871

Sequence ID	3L_DroMel_CAF1
Location	5,237,688 – 5,237,804
Length	116
Max. P	0.907936

overview

Window 4

Location	5,237,688 – 5,237,804
Length	116
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	91.13
Mean single sequence MFE	-27.85
Consensus MFE	-23.22
Energy contribution	-23.46
Covariance contribution	0.24
Combinations/Pair	1.16
Mean z-score	-1.71
Structure conservation index	0.83
SVM decision value	1.06
SVM RNA-class probability	0.907936
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5237688 116 + 23771897
CUCCAAAGACUUGGCGUCCCAGCUGCACAUUUUGGCUAUGUUUUUAAUAUGCUAAGCACUUUUUUAUGCAUUUUACAACACUAUCGAAUGUGCCAGUCCGCAGCUGCAAUGCUG---UC
.......(((..(((((..(((((((.....(((((...(((..(((.((((((((......)))).)))).))).)))((........)))))))...)))))))..))))))---)) ( -29.70)
>DroSec_CAF1 102084 116 + 1
CUCCAAAGAAUUGGCGUCCCAGCUGCACAUUUUGGCUAUGUUUUUAAUAUGCUAAGCACUUUUUUAUGAAUUUUACAACACUAUCGAAUGUGCCAGUCCGCAGCUGCAAUGCUG---UC
............(((((..(((((((.....(((((.((((.....)))))))))((((..(((.(((.............))).))).))))......)))))))..))))).---.. ( -27.32)
>DroEre_CAF1 105100 119 + 1
CUCCAAAGACUUGGUGUCCCAGCUGCACAUUUCGGCUAUGUUUUUAAUAUGCUAAGCACUUCUUUAUGCGUUUUACAACACUAUCGAAUGUGCCAGUCCGCAGCUGCAAUGCUGUCGUC
.......(((..(((((..(((((((.......(((.((((.....)))))))..(((((((..((.(.(((....))).)))..))).))))......)))))))..))))))))... ( -29.50)
>DroYak_CAF1 104652 116 + 1
CUCCAAAGACUUGGCGUCCCAGCUGCACAUUUUGGCUAUGUUUUUAAUAUGCUAAGCACUUUUUUAUGCGCUUUACAACACUAUCGAAUGUGCCAGUCCGCAGCUGCAAUGCUG---UC
.......(((..(((((..(((((((.....(((((.((((((......((..((((.(........).))))..))........)))))))))))...)))))))..))))))---)) ( -31.74)
>DroAna_CAF1 99695 116 + 1
CCCCAAAGACAACGCGUCGCAGCUGCACAUUUCGGCUAUGUUUUUAAUAUGCUAAGCACUUUUUUAUGCAUUUUACAACACUAUCAAAUGUGCCACUCAGCAACUGCAACAUCC---UG
.......(((.....)))((((((((((((((.((...((((..(((.((((((((......)))).)))).))).))))...)))))))))).....)))...))).......---.. ( -21.00)
>consensus
CUCCAAAGACUUGGCGUCCCAGCUGCACAUUUUGGCUAUGUUUUUAAUAUGCUAAGCACUUUUUUAUGCAUUUUACAACACUAUCGAAUGUGCCAGUCCGCAGCUGCAAUGCUG___UC
............(((((..(((((((.....(((((.((((.....)))))))))(((((((..((((..........)).))..))).))))......)))))))..)))))...... (-23.22 = -23.46 +   0.24)

alignment

secondary structure

dotplot

Window 5

Location	5,237,688 – 5,237,804
Length	116
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	91.13
Mean single sequence MFE	-31.98
Consensus MFE	-25.84
Energy contribution	-25.72
Covariance contribution	-0.12
Combinations/Pair	1.19
Mean z-score	-1.64
Structure conservation index	0.81
SVM decision value	0.63
SVM RNA-class probability	0.806290
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5237688 116 - 23771897
GA---CAGCAUUGCAGCUGCGGACUGGCACAUUCGAUAGUGUUGUAAAAUGCAUAAAAAAGUGCUUAGCAUAUUAAAAACAUAGCCAAAAUGUGCAGCUGGGACGCCAAGUCUUUGGAG
((---(.((.((.((((((((.(.((((((((......))))(((.....((((......))))...))).............))))...).)))))))).)).))...)))....... ( -31.10)
>DroSec_CAF1 102084 116 - 1
GA---CAGCAUUGCAGCUGCGGACUGGCACAUUCGAUAGUGUUGUAAAAUUCAUAAAAAAGUGCUUAGCAUAUUAAAAACAUAGCCAAAAUGUGCAGCUGGGACGCCAAUUCUUUGGAG
..---..((.((.((((((((.(.((((((((......))))..................((((...))))............))))...).)))))))).)).))(((....)))... ( -27.20)
>DroEre_CAF1 105100 119 - 1
GACGACAGCAUUGCAGCUGCGGACUGGCACAUUCGAUAGUGUUGUAAAACGCAUAAAGAAGUGCUUAGCAUAUUAAAAACAUAGCCGAAAUGUGCAGCUGGGACACCAAGUCUUUGGAG
(((.......((.(((((((.(...(((((.(((..(((((((....))))).))..))))))))...).........((((.......))))))))))).))......)))....... ( -31.62)
>DroYak_CAF1 104652 116 - 1
GA---CAGCAUUGCAGCUGCGGACUGGCACAUUCGAUAGUGUUGUAAAGCGCAUAAAAAAGUGCUUAGCAUAUUAAAAACAUAGCCAAAAUGUGCAGCUGGGACGCCAAGUCUUUGGAG
((---(.((.((.((((((((.(.((((((((......))))(((.((((((........)))))).))).............))))...).)))))))).)).))...)))....... ( -36.90)
>DroAna_CAF1 99695 116 - 1
CA---GGAUGUUGCAGUUGCUGAGUGGCACAUUUGAUAGUGUUGUAAAAUGCAUAAAAAAGUGCUUAGCAUAUUAAAAACAUAGCCGAAAUGUGCAGCUGCGACGCGUUGUCUUUGGGG
((---(..((((((((((((....((((...(((((((.(((((......((((......)))).))))))))))))......))))......))))))))))))..)))......... ( -33.10)
>consensus
GA___CAGCAUUGCAGCUGCGGACUGGCACAUUCGAUAGUGUUGUAAAAUGCAUAAAAAAGUGCUUAGCAUAUUAAAAACAUAGCCAAAAUGUGCAGCUGGGACGCCAAGUCUUUGGAG
.......((.((.((((((((.(.((((..........(((((....)))))........((((...))))............))))...).)))))))).)).))............. (-25.84 = -25.72 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:45 2006