Locus 1888

Sequence ID	2L_DroMel_CAF1
Location	5,186,067 – 5,186,160
Length	93
Max. P	0.714629

overview

Window 2

Location	5,186,067 – 5,186,160
Length	93
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	80.88
Mean single sequence MFE	-39.38
Consensus MFE	-21.90
Energy contribution	-23.57
Covariance contribution	1.67
Combinations/Pair	1.19
Mean z-score	-2.25
Structure conservation index	0.56
SVM decision value	0.38
SVM RNA-class probability	0.714629
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5186067 93 + 22407834
GUUGC---UGUUGUGGCCAGGUUCCGACCAACGGACGCUGCUGCGGCAACACAUUGCAACAG---GCAGCA---GCAGCAGAUCAGGGAAAUUGCCCGCCGU
(((((---((((((...(((((.(((.....))))).)))(((..((((....))))..)))---))))))---)))))......(((......)))..... ( -36.30)
>DroVir_CAF1 103015 90 + 1
GUUGUUGUUGUUGCGGCCCUGCCAGCAGCAGCACAUGCUG---------CACAUUGCUGCCA---CCAGCAACAGAAACGCACCCUGGUAAUGGCCCGCAGU
..........((((((((.((((((..(((((....))))---------)...((((((...---.))))))............))))))..)).)))))). ( -34.20)
>DroSec_CAF1 63290 96 + 1
GUUGC---UGUUGUGGCCAGGUUUCGACCAACGGAUGCUGCUGCGGCAACACAUUGCAACAG---GCAGCAGCAGCAGCAGAUCCGGGAAAUUGCCCGCCGU
(((((---((((((.(((.(((....)))......(((...((.(....).))..)))...)---)).))))))))))).....((((......)))).... ( -38.60)
>DroSim_CAF1 36294 96 + 1
GUUGC---UGUUGUGGCCAGGUUCCGACCAACGGAUGCUGCUGCGGCAACACAUUGCAACAG---GCAGCAGCAGCAGCAGAUCCGGGAAAUUGCCCGCCGU
(((((---((((((.(((((..((((.....))))..)))(((..((((....))))..)))---)).))))))))))).....((((......)))).... ( -40.40)
>DroEre_CAF1 65615 99 + 1
GUUGC---UGUUGUGGCCAGGCUCCGACCAACGGAUGCUGCUGCGGCAACACCUUGCAACACAUUGCGGCAGCAGCAACAGAUCCGGGAAACUGCCCGCCGU
(((((---((((((.((..(((((((.....)))).)))..((..((((....))))..))....)).))))))))))).....((((......)))).... ( -40.20)
>DroYak_CAF1 65066 96 + 1
GUUGC---UGUUGUGGCCAGGUUCCGACCAACGGAUGCUGCUGCAGCAACGCAUUGCAGCAG---GCAGCAGCAGCAACAGAUCCGGGAAAUUGCCCGCCGU
(((((---((((((.(((....((((.....))))(((((((((......)))..)))))))---)).))))))))))).....((((......)))).... ( -46.60)
>consensus
GUUGC___UGUUGUGGCCAGGUUCCGACCAACGGAUGCUGCUGCGGCAACACAUUGCAACAG___GCAGCAGCAGCAACAGAUCCGGGAAAUUGCCCGCCGU
(((((...((((((.((..(((((((.....)))).)))...)).))))))....))))).....((.((....)).........(((......)))))... (-21.90 = -23.57 +   1.67)

alignment

secondary structure

dotplot

Window 3

Location	5,186,067 – 5,186,160
Length	93
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	80.88
Mean single sequence MFE	-38.55
Consensus MFE	-22.49
Energy contribution	-23.94
Covariance contribution	1.45
Combinations/Pair	1.26
Mean z-score	-1.81
Structure conservation index	0.58
SVM decision value	0.05
SVM RNA-class probability	0.557232
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5186067 93 - 22407834
ACGGCGGGCAAUUUCCCUGAUCUGCUGC---UGCUGC---CUGUUGCAAUGUGUUGCCGCAGCAGCGUCCGUUGGUCGGAACCUGGCCACAACA---GCAAC
.(((.(((.....))))))...(((((.---.(((((---.(((.((((....)))).))))))))....((.((((((...))))))))..))---))).. ( -33.90)
>DroVir_CAF1 103015 90 - 1
ACUGCGGGCCAUUACCAGGGUGCGUUUCUGUUGCUGG---UGGCAGCAAUGUG---------CAGCAUGUGCUGCUGCUGGCAGGGCCGCAACAACAACAAC
..(((((.((.....(((((.....))))).(((..(---..(((((((((..---------...))).))))))..)..))))).)))))........... ( -41.50)
>DroSec_CAF1 63290 96 - 1
ACGGCGGGCAAUUUCCCGGAUCUGCUGCUGCUGCUGC---CUGUUGCAAUGUGUUGCCGCAGCAGCAUCCGUUGGUCGAAACCUGGCCACAACA---GCAAC
....((((......))))....(((((.(((((((((---.....((((....)))).)))))))))...((.(((((.....)))))))..))---))).. ( -36.40)
>DroSim_CAF1 36294 96 - 1
ACGGCGGGCAAUUUCCCGGAUCUGCUGCUGCUGCUGC---CUGUUGCAAUGUGUUGCCGCAGCAGCAUCCGUUGGUCGGAACCUGGCCACAACA---GCAAC
....((((......))))....(((((.(((((((((---.....((((....)))).)))))))))...((.((((((...))))))))..))---))).. ( -37.90)
>DroEre_CAF1 65615 99 - 1
ACGGCGGGCAGUUUCCCGGAUCUGUUGCUGCUGCCGCAAUGUGUUGCAAGGUGUUGCCGCAGCAGCAUCCGUUGGUCGGAGCCUGGCCACAACA---GCAAC
..(((((((................(((((((((.((((..(.(....).)..)))).)))))))))((((.....)))))))).)))......---..... ( -41.20)
>DroYak_CAF1 65066 96 - 1
ACGGCGGGCAAUUUCCCGGAUCUGUUGCUGCUGCUGC---CUGCUGCAAUGCGUUGCUGCAGCAGCAUCCGUUGGUCGGAACCUGGCCACAACA---GCAAC
....((((......)))).....(((((((.((((((---.(((.((((....)))).)))))))))...((.((((((...))))))))..))---))))) ( -40.40)
>consensus
ACGGCGGGCAAUUUCCCGGAUCUGCUGCUGCUGCUGC___CUGUUGCAAUGUGUUGCCGCAGCAGCAUCCGUUGGUCGGAACCUGGCCACAACA___GCAAC
...(((((......)))(((((((((((.(((((.((.....)).))).......)).))))))).))))((.((((((...)))))))).......))... (-22.49 = -23.94 +   1.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:48 2006