Locus 905

Sequence ID	2L_DroMel_CAF1
Location	2,595,498 – 2,595,592
Length	94
Max. P	0.991217

overview

Window 8

Location	2,595,498 – 2,595,592
Length	94
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	71.14
Mean single sequence MFE	-36.85
Consensus MFE	-15.95
Energy contribution	-16.82
Covariance contribution	0.86
Combinations/Pair	1.17
Mean z-score	-2.51
Structure conservation index	0.43
SVM decision value	2.25
SVM RNA-class probability	0.991217
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2595498 94 + 22407834
UUGA-AACUCACCACGAAGUCA-----------------------GUUUGGCUACA-UCCGCUGCAAAGCUGCAGAAUGUUGUAG-CUUUGUGGUCGUGUGGAACGUAAGUUCUUCGCUG
...(-((((.((......)).)-----------------------))))(((..((-..(((..(((((((((((....))))))-)))))..).))..))((((....))))...))). ( -34.10)
>DroPse_CAF1 20607 114 + 1
-GCC-AAGCCACCACCAACCCUCCAGUGGCAGCCGAAGAGCCAC---UGUGCAACA-GCCGCAGCAAAGCUACAAAAUGUUGCUGCCUUUGUGGCCGUGUGGACUGCGAGUUUGUAGGUG
-...-.......((((.......(((((((.........)))))---))(((((..-(((((((((..((((((((..((....)).))))))))..))....))))).))))))))))) ( -36.70)
>DroSec_CAF1 16259 94 + 1
UUGA-AACUCACCACGAAGUCA-----------------------GUUCGGCUUCA-UCCGCUGCAAAGCUACAGAAUAUAUUAG-CUUUGUGGUCGUGUGGAACGUAAGUUGUUCGCUG
..((-(.....((((((((((.-----------------------....)))))).-..(((..((((((((..........)))-)))))..).)).))))(((....))).))).... ( -30.60)
>DroSim_CAF1 16236 94 + 1
UUGA-AACUCACCACGAAGUCA-----------------------GUUCGGCUACA-UCCGUUGAAAAGCUACAGAAUGUUGUAG-CUUUGUGGUCGUGUGGAACGUAAGUUGUUCGCUG
....-.....(((((....(((-----------------------(..(((.....-.)))))))((((((((((....))))))-))))))))).(((.(.(((....))).).))).. ( -27.10)
>DroEre_CAF1 24230 112 + 1
UUAAGAACUCACCACGAAUUCA------GCAGCCACAUCGCUGUAGUUCGGCUACA-GCCGAAGCAAAGCUGCAGAAAGUUGUAG-CUUUGUGGUCGUGUGGAAGGUGAGUUGGUCGGUG
.........((((((.((((((------.(..(((((..(((((((.....)))))-))(((.((((((((((((....))))))-))))))..))))))))..).)))))).)).)))) ( -52.20)
>DroYak_CAF1 16824 112 + 1
UGGA-AACCCACCACGAAUUCA------GCAGCCACAACGCCGAAGUUCGGCUACAAACCGAAGCAAAGCUGCAGAAAGUUGUAG-CUUUGUGGUCGUGUGGAAGGUGAUUGCUUCGCUU
(((.-...)))...((((.(((------.(..(((((..((((.....)))).......(((.((((((((((((....))))))-))))))..))))))))..).)))....))))... ( -40.40)
>consensus
UUGA_AACUCACCACGAAGUCA_______________________GUUCGGCUACA_UCCGCAGCAAAGCUACAGAAUGUUGUAG_CUUUGUGGUCGUGUGGAACGUAAGUUGUUCGCUG
........((((.((((...............................(((.......)))..((((((((((((....)))))).))))))..)))))))).................. (-15.95 = -16.82 +   0.86)

alignment

secondary structure

dotplot

Window 9

Location	2,595,498 – 2,595,592
Length	94
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	71.14
Mean single sequence MFE	-32.02
Consensus MFE	-11.23
Energy contribution	-12.32
Covariance contribution	1.09
Combinations/Pair	1.17
Mean z-score	-1.93
Structure conservation index	0.35
SVM decision value	0.20
SVM RNA-class probability	0.628582
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2595498 94 - 22407834
CAGCGAAGAACUUACGUUCCACACGACCACAAAG-CUACAACAUUCUGCAGCUUUGCAGCGGA-UGUAGCCAAAC-----------------------UGACUUCGUGGUGAGUU-UCAA
.......((((((.(((.....)))(((((...(-(((((.(...((((......))))..).-)))))).....-----------------------.(....)))))))))))-)... ( -24.00)
>DroPse_CAF1 20607 114 - 1
CACCUACAAACUCGCAGUCCACACGGCCACAAAGGCAGCAACAUUUUGUAGCUUUGCUGCGGC-UGUUGCACA---GUGGCUCUUCGGCUGCCACUGGAGGGUUGGUGGUGGCUU-GGC-
((((.((.((((((((......((((((.(((((((.((((....)))).)))))..)).)))-)))))).((---(((((.(....)..)))))))..))))).))))))....-...- ( -46.20)
>DroSec_CAF1 16259 94 - 1
CAGCGAACAACUUACGUUCCACACGACCACAAAG-CUAAUAUAUUCUGUAGCUUUGCAGCGGA-UGAAGCCGAAC-----------------------UGACUUCGUGGUGAGUU-UCAA
....(((..((((((......(((((...(((((-(((..........))))))))((((((.-.....)))..)-----------------------))...))))))))))))-)).. ( -22.40)
>DroSim_CAF1 16236 94 - 1
CAGCGAACAACUUACGUUCCACACGACCACAAAG-CUACAACAUUCUGUAGCUUUUCAACGGA-UGUAGCCGAAC-----------------------UGACUUCGUGGUGAGUU-UCAA
....(((..((((.(((.....)))(((((((((-(((((......)))))))))....(((.-.....)))...-----------------------.......))))))))))-)).. ( -24.60)
>DroEre_CAF1 24230 112 - 1
CACCGACCAACUCACCUUCCACACGACCACAAAG-CUACAACUUUCUGCAGCUUUGCUUCGGC-UGUAGCCGAACUACAGCGAUGUGGCUGC------UGAAUUCGUGGUGAGUUCUUAA
........((((((((..((((((((...(((((-((.((......)).)))))))..)))((-(((((.....)))))))..)))))..((------.......))))))))))..... ( -37.60)
>DroYak_CAF1 16824 112 - 1
AAGCGAAGCAAUCACCUUCCACACGACCACAAAG-CUACAACUUUCUGCAGCUUUGCUUCGGUUUGUAGCCGAACUUCGGCGUUGUGGCUGC------UGAAUUCGUGGUGGGUU-UCCA
..(.(((((...((((......((((...((.((-(((((((....(((((....((....)))))))((((.....)))))))))))))..------))...)))))))).)))-))). ( -37.30)
>consensus
CAGCGAACAACUCACGUUCCACACGACCACAAAG_CUACAACAUUCUGCAGCUUUGCAGCGGA_UGUAGCCGAAC_______________________UGACUUCGUGGUGAGUU_UCAA
........(((((((......(((((...(((((.((.((......)).)))))))...(((.......)))...............................))))))))))))..... (-11.23 = -12.32 +   1.09)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:23 2006