Locus 5166

Sequence ID	2L_DroMel_CAF1
Location	14,628,778 – 14,628,869
Length	91
Max. P	0.879337

overview

Window 5

Location	14,628,778 – 14,628,869
Length	91
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	79.99
Mean single sequence MFE	-27.90
Consensus MFE	-18.19
Energy contribution	-19.33
Covariance contribution	1.14
Combinations/Pair	1.12
Mean z-score	-2.09
Structure conservation index	0.65
SVM decision value	0.91
SVM RNA-class probability	0.879337
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14628778 91 + 22407834
GUUAAUAGAGUUGACUAUUAACUUGUCAGU-------GGGCCCCAUAGCACACUUGUUGGCC-------AUUUUGCAAGUGGCGACUAUUGCAAAAUAUAUACAU---------
((((((((......))))))))......((-------(((((....((((....))))))))-------(((((((((..(....)..)))))))))...)))..--------- ( -24.50)
>DroSec_CAF1 10954 91 + 1
GUUAAUAGAGUUGACUAUUAACUUGUCAGU-------GGGCCCCACAGCACACUUGUUGGCC-------AUUUUGCAAGUGGCGACCAUUGCGAAAUAUAUACAU---------
((((((((......))))))))(((.((((-------((......(((((....)))))(((-------(((.....))))))..)))))))))...........--------- ( -27.00)
>DroSim_CAF1 10604 100 + 1
GUUAAUAGAGUUGACUAUUAACUUGUCAGU-------GGGCCCCACAGCACACUUGUUGGCC-------AUUUUGCAAGUGGCGACCAUUGCGAAAUAUAUACAUACUUUAGCC
((((((((......))))))))(((.((((-------((......(((((....)))))(((-------(((.....))))))..))))))))).................... ( -27.00)
>DroEre_CAF1 10852 87 + 1
GUUAAUAGAGUUGACUAUUAACUUGUCAGU-------GGGCCCCACAGCACACUUGUUGGCC-------AUUUUGCAAGUGGCAACCAUUGCG------CGAAAUGA-------
((((((((......))))))))((((((((-------((......(((((....)))))(((-------(((.....))))))..)))))).)------))).....------- ( -27.60)
>DroYak_CAF1 11636 100 + 1
GUUAAUAGAGUUGACUAUUAACUUGUCAGUGGGCAGUGGGCCCCACAGCUCACUUGUUGGCC-------GUUUUGCAAGUGGCGAGCAUUGCGACAUAUCUACAUAC-------
((((((((......)))))))).(((((((((((.((((...)))).)))))))((((.(((-------(.........)))).))))....))))...........------- ( -33.80)
>DroAna_CAF1 9993 86 + 1
GUUAAUAGAGUUAACUAUUAACUUGUCAGU-------GGGCCCCACAGC------GUUGGCCGUUUUCCGUUUUGCAAGAGGCGCCCAUUGCGAAAGGC---------------
((((((((......))))))))(((.((((-------((((((....((------(.(((.......)))...)))....)).))))))))))).....--------------- ( -27.50)
>consensus
GUUAAUAGAGUUGACUAUUAACUUGUCAGU_______GGGCCCCACAGCACACUUGUUGGCC_______AUUUUGCAAGUGGCGACCAUUGCGAAAUAUAUACAU_________
((((((((......))))))))................((((..((((.....)))).)))).......(((((((((..(....)..)))))))))................. (-18.19 = -19.33 +   1.14)

alignment

secondary structure

dotplot

Window 6

Location	14,628,778 – 14,628,869
Length	91
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	79.99
Mean single sequence MFE	-24.80
Consensus MFE	-16.38
Energy contribution	-17.05
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-1.68
Structure conservation index	0.66
SVM decision value	0.50
SVM RNA-class probability	0.759786
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14628778 91 - 22407834
---------AUGUAUAUAUUUUGCAAUAGUCGCCACUUGCAAAAU-------GGCCAACAAGUGUGCUAUGGGGCCC-------ACUGACAAGUUAAUAGUCAACUCUAUUAAC
---------.(((...(((((((((..(((....)))))))))))-------)....)))((((.(((....))).)-------))).....((((((((......)))))))) ( -22.30)
>DroSec_CAF1 10954 91 - 1
---------AUGUAUAUAUUUCGCAAUGGUCGCCACUUGCAAAAU-------GGCCAACAAGUGUGCUGUGGGGCCC-------ACUGACAAGUUAAUAGUCAACUCUAUUAAC
---------.............(((.(((.(.((((..(((...(-------(.....))....))).)))).).))-------).)).)..((((((((......)))))))) ( -22.60)
>DroSim_CAF1 10604 100 - 1
GGCUAAAGUAUGUAUAUAUUUCGCAAUGGUCGCCACUUGCAAAAU-------GGCCAACAAGUGUGCUGUGGGGCCC-------ACUGACAAGUUAAUAGUCAACUCUAUUAAC
(((((((((((....)))))).(((((((...))).))))....)-------))))....((((.(((....))).)-------))).....((((((((......)))))))) ( -25.40)
>DroEre_CAF1 10852 87 - 1
-------UCAUUUCG------CGCAAUGGUUGCCACUUGCAAAAU-------GGCCAACAAGUGUGCUGUGGGGCCC-------ACUGACAAGUUAAUAGUCAACUCUAUUAAC
-------.......(------((((...(((((((.((....)))-------)).))))...)))))(((.((....-------.)).))).((((((((......)))))))) ( -24.70)
>DroYak_CAF1 11636 100 - 1
-------GUAUGUAGAUAUGUCGCAAUGCUCGCCACUUGCAAAAC-------GGCCAACAAGUGAGCUGUGGGGCCCACUGCCCACUGACAAGUUAAUAGUCAACUCUAUUAAC
-------...........((((.....((((((.....((.....-------.))......)))))).(((((........))))).)))).((((((((......)))))))) ( -27.70)
>DroAna_CAF1 9993 86 - 1
---------------GCCUUUCGCAAUGGGCGCCUCUUGCAAAACGGAAAACGGCCAAC------GCUGUGGGGCCC-------ACUGACAAGUUAAUAGUUAACUCUAUUAAC
---------------.......(((.(((((.(((((........)))..(((((....------))))))).))))-------).)).)..((((((((......)))))))) ( -26.10)
>consensus
_________AUGUAUAUAUUUCGCAAUGGUCGCCACUUGCAAAAU_______GGCCAACAAGUGUGCUGUGGGGCCC_______ACUGACAAGUUAAUAGUCAACUCUAUUAAC
......................((((((.....)).))))............((((....((....))....))))................((((((((......)))))))) (-16.38 = -17.05 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:40 2006