Locus 6789

Sequence ID	3R_DroMel_CAF1
Location	17,935,202 – 17,935,323
Length	121
Max. P	0.633905

overview

Window 8

Location	17,935,202 – 17,935,293
Length	91
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.94
Mean single sequence MFE	-27.77
Consensus MFE	-16.02
Energy contribution	-15.92
Covariance contribution	-0.11
Combinations/Pair	1.23
Mean z-score	-2.10
Structure conservation index	0.58
SVM decision value	0.06
SVM RNA-class probability	0.565008
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17935202 91 + 27905053
----------------GUUGGUCACAUAAAUGUCACUGCAUGUGGCACAAUUGUGUCGCAAUUGUUGUG----------GCGAAUAAACACGUCAUAAACCGUUGGCUAUC--UUCAAU-
----------------..((((((......((((((.(((((((((((....))))))))..))).)))----------))).......(((........)))))))))..--......- ( -25.50)
>DroVir_CAF1 8184 120 + 1
CUGACCAAUGCGAAGCGUUGGUCACAUAAAUGUCACUGCAUGUGGCACGAAUGUGUUGCAAUUGUGUUGAAAUUGGGCCGCAAAUAAACACGUCACAAACGGUUCGCAUUGCUAUCGAGU
.(((.(((((((((.((((.((.((.....((((((.....)))))).....(((((....(((((............)))))...))))))).)).)))).)))))))))...)))... ( -36.00)
>DroPse_CAF1 12498 92 + 1
----------------GUUGGUCACAUAAAUGUCACUGCAUGUGGCACAAUUGUGUCGCAAUUGUUGUG----------GCAAAUAAACACGUCAUAAACCGUUGACUAUC--UUCAAGU
----------------..((((((......((((((.(((((((((((....))))))))..))).)))----------))).......(((........)))))))))..--....... ( -26.80)
>DroYak_CAF1 9115 91 + 1
----------------GUUGGUCACAUAAAUGUCACUGCAUGUGGCACAAUUGUGUCGCAAUUGUUGUG----------GCGAAUAAACACGUCAUAAACCGUUGGCCAUC--UUCAAU-
----------------..((((((......((((((.(((((((((((....))))))))..))).)))----------))).......(((........)))))))))..--......- ( -27.80)
>DroAna_CAF1 12100 91 + 1
----------------GUUGGUCACAUAAAUGUCACUGCAUGUGGCACAAUUGUGUCGCAAUUGUUGUG----------GCGAAUAAACACGUCAUAAACCGCCGGGUAUC--UCCAGU-
----------------.((((.........((((((.(((((((((((....))))))))..))).)))----------)))................(((....)))...--.)))).- ( -24.90)
>DroPer_CAF1 16416 92 + 1
----------------GUUGGUCACAUAAAUGUCACUGCAUGUGGCACAAUUGUGUCGCAAUUGUUGUG----------GCAAAUAAACCCGUCAUAAACCGUUGACUAUC--UUCAAGU
----------------..((((((......((((((.(((((((((((....))))))))..))).)))----------)))........((........)).))))))..--....... ( -25.60)
>consensus
________________GUUGGUCACAUAAAUGUCACUGCAUGUGGCACAAUUGUGUCGCAAUUGUUGUG__________GCAAAUAAACACGUCAUAAACCGUUGGCUAUC__UUCAAG_
.................((((............(((.(((((((((((....))))))))..))).)))......................((((........)))).......)))).. (-16.02 = -15.92 +  -0.11)

alignment

secondary structure

dotplot

Window 9

Location	17,935,226 – 17,935,323
Length	97
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	77.71
Mean single sequence MFE	-28.21
Consensus MFE	-17.97
Energy contribution	-19.05
Covariance contribution	1.08
Combinations/Pair	1.09
Mean z-score	-1.37
Structure conservation index	0.64
SVM decision value	0.21
SVM RNA-class probability	0.633905
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17935226 97 + 27905053
UGUGGCACAAUUGUGUCGCAAUUGUUGUGGCGAAUAAACACGUCAUAAACCGUUGGCUAUCUUCAAU-GCCUCG----------UUGAAGGGCCUCAAAUGCACUGGA
...(((((....)))))(((.(((((((((((........))))))))......((((..(((((((-(...))----------)))))))))).))).)))...... ( -31.10)
>DroPse_CAF1 12522 102 + 1
UGUGGCACAAUUGUGUCGCAAUUGUUGUGGCAAAUAAACACGUCAUAAACCGUUGACUAUCUUCAAGUGCCCCCC--GCCCCGACUGUAGGCU----GCUGACCAAGA
...(((((.....(((((((.....))))))).........((((........)))).........)))))....--(((.........))).----........... ( -22.90)
>DroEre_CAF1 14220 97 + 1
UGUGGCACAAUUGUGUCGCAAUUGUUGUGGCGAAUAAACACGUCAUAAACCGUUGGCUAUCUUCAAU-GCCUCG----------UUGAAGGGCCUCAAAUGCACAGCA
((((((((....))))))))..((((((((((........))))..........((((..(((((((-(...))----------))))))))))........)))))) ( -31.70)
>DroYak_CAF1 9139 97 + 1
UGUGGCACAAUUGUGUCGCAAUUGUUGUGGCGAAUAAACACGUCAUAAACCGUUGGCCAUCUUCAAU-GACUCG----------UUGAAGGGCCUCAAAUGCACAGGA
((((((((....)))))(((.(((((((((((........))))))))......((((..(((((((-(...))----------)))))))))).))).))))))... ( -33.30)
>DroAna_CAF1 12124 96 + 1
UGUGGCACAAUUGUGUCGCAAUUGUUGUGGCGAAUAAACACGUCAUAAACCGCCGGGUAUCUCCAGU-UGCCUG-------UGUUUGGAGUGU----GCUGACCAACA
((((((((....))))))))..((((((((((..................)))))(((((((((((.-......-------...)))))).))----)))...))))) ( -29.87)
>DroPer_CAF1 16440 99 + 1
UGUGGCACAAUUGUGUCGCAAUUGUUGUGGCAAAUAAACCCGUCAUAAACCGUUGACUAUCUUCAAGUGCCCCCCCCCCCCCGACUAUAGGCU----GCUGAC-----
.(..(((((((((.....)))))))...((((.........((((........))))..........))))...................)).----.)....----- ( -20.41)
>consensus
UGUGGCACAAUUGUGUCGCAAUUGUUGUGGCGAAUAAACACGUCAUAAACCGUUGGCUAUCUUCAAU_GCCCCG__________UUGAAGGGC____AAUGAACAGGA
((((((((....))))))))....((((((((........))))))))...........(((((((..................)))))))................. (-17.97 = -19.05 +   1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:56 2006