Locus 2370

Sequence ID	3L_DroMel_CAF1
Location	6,637,893 – 6,638,005
Length	112
Max. P	0.971866

overview

Window 2

Location	6,637,893 – 6,637,984
Length	91
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	81.19
Mean single sequence MFE	-28.00
Consensus MFE	-17.99
Energy contribution	-18.85
Covariance contribution	0.86
Combinations/Pair	1.06
Mean z-score	-2.90
Structure conservation index	0.64
SVM decision value	1.18
SVM RNA-class probability	0.926605
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6637893 91 - 23771897
ACUGCAAAAGAUAAACGUCCACUUGGUUCGCUUGGCUGGCCGAGCGAAAAACAAAAGACC-GA--AAAGGGUCAACAAUGGCCACG----GCGGAUUG-
.((((...........(((...(((.(((((((((....)))))))))...)))..))).-..--....(((((....)))))...----))))....- ( -29.90)
>DroVir_CAF1 74113 76 - 1
ACUGCAAAAGAUAUAUGCCCACUUGGC--GCUUGGCUGGCCGAGCGCAAAACUCAAGACA-----AAAGGGUCAACAAUGGAG----------------
...(((.........)))(((.(((((--((((((....)))))))).........(((.-----.....)))..))))))..---------------- ( -22.80)
>DroPse_CAF1 6136 86 - 1
ACUGCAAAAGAUAAACGUCCACUUGGCGCGCUUGGCUGGCCGAGCGAAAAACAAAAGACCCCA--AAAGGGUCAACAAUGG----------AGGAUUG-
...............(.((((.(((...(((((((....)))))))..........(((((..--...)))))..))))))----------).)....- ( -28.40)
>DroGri_CAF1 6710 97 - 1
ACUGCAAAAGAUAUAUGUCCACUUGGC--GCUUGGCUGGUCGAGCGCAAAGCUCAAGACACAAAAAAAGGGUCAACAAUGGAGGCGAGCAGUGAAUUCC
(((((..........((((..(((.((--((((((....)))))))).))).....))))..........(((.........)))..)))))....... ( -24.70)
>DroYak_CAF1 22420 92 - 1
ACUGCAAAAGAUAAACGUCCACUUGGCUCGCUUGGCUGGCCGAGCGAAAAACAAAAGACCCCA--AAAGGGUCAACAAUGGCCACG----UUGGAUUG-
................((((((.((((((((((((....)))))))).........(((((..--...))))).......)))).)----.)))))..- ( -33.80)
>DroPer_CAF1 6206 86 - 1
ACUGCAAAAGAUAAACGUCCACUUGGCGCGCUUGGCUGGCCGAGCGAAAAACAAAAGACCCCA--AAAGGGUCAACAAUGG----------AGGAUUG-
...............(.((((.(((...(((((((....)))))))..........(((((..--...)))))..))))))----------).)....- ( -28.40)
>consensus
ACUGCAAAAGAUAAACGUCCACUUGGC_CGCUUGGCUGGCCGAGCGAAAAACAAAAGACCCCA__AAAGGGUCAACAAUGG__________AGGAUUG_
..................(((.(((...(((((((....)))))))..........(((((.......)))))..)))))).................. (-17.99 = -18.85 +   0.86)

alignment

secondary structure

dotplot

Window 3

Location	6,637,913 – 6,638,005
Length	92
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	76.10
Mean single sequence MFE	-27.18
Consensus MFE	-16.02
Energy contribution	-16.91
Covariance contribution	0.89
Combinations/Pair	1.10
Mean z-score	-2.25
Structure conservation index	0.59
SVM decision value	1.68
SVM RNA-class probability	0.971866
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6637913 92 - 23771897
GCCA---------------GCUAGAAGU--GCACAGUGACUGCAAAAGAUAAACGUCCACUUGGUUCGCUUGGCUGGCCGAGCGAAAAACAAAAGACC-GA--AAAGGGUCA
((((---------------((.......--))..((((((..............)).))))))))((((((((....)))))))).........((((-..--....)))). ( -26.04)
>DroVir_CAF1 74122 78 - 1
---------------------------CACAUACAGUGACUGCAAAAGAUAUAUGCCCACUUGGC--GCUUGGCUGGCCGAGCGCAAAACUCAAGACA-----AAAGGGUCA
---------------------------(((.....)))................((((..(((((--((((((....))))))))....(....).))-----)..)))).. ( -22.00)
>DroPse_CAF1 6150 108 - 1
GCAAACUAACUAAAAUUUCGCUGCAAGU--GCACAGUGACUGCAAAAGAUAAACGUCCACUUGGCGCGCUUGGCUGGCCGAGCGAAAAACAAAAGACCCCA--AAAGGGUCA
...............((((((..(((((--(.((.((..((.....))....)))).))))))..))((((((....)))))))))).......(((((..--...))))). ( -31.30)
>DroGri_CAF1 6735 88 - 1
GC----------------------AAGUACACACAGUGACUGCAAAAGAUAUAUGUCCACUUGGC--GCUUGGCUGGUCGAGCGCAAAGCUCAAGACACAAAAAAAGGGUCA
((----------------------(.((.(((...))))))))..........((((..(((.((--((((((....)))))))).))).....)))).............. ( -21.50)
>DroYak_CAF1 22440 93 - 1
GCCA---------------GCUAGAAGU--GCACAGUGACUGCAAAAGAUAAACGUCCACUUGGCUCGCUUGGCUGGCCGAGCGAAAAACAAAAGACCCCA--AAAGGGUCA
((((---------------((.......--))..((((((..............)).))))))))((((((((....)))))))).........(((((..--...))))). ( -30.94)
>DroPer_CAF1 6220 108 - 1
GCAAACUAACUAAAAUUUCGCUGCAAGU--GCACAGUGACUGCAAAAGAUAAACGUCCACUUGGCGCGCUUGGCUGGCCGAGCGAAAAACAAAAGACCCCA--AAAGGGUCA
...............((((((..(((((--(.((.((..((.....))....)))).))))))..))((((((....)))))))))).......(((((..--...))))). ( -31.30)
>consensus
GC_A_______________GCU__AAGU__GCACAGUGACUGCAAAAGAUAAACGUCCACUUGGC_CGCUUGGCUGGCCGAGCGAAAAACAAAAGACCCCA__AAAGGGUCA
...............................((.((((((..............)).))))))...(((((((....)))))))..........(((((.......))))). (-16.02 = -16.91 +   0.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:36 2006