Locus 1897

Sequence ID	2R_DroMel_CAF1
Location	7,152,234 – 7,152,371
Length	137
Max. P	0.999406

overview

Window 6

Location	7,152,234 – 7,152,350
Length	116
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	91.97
Mean single sequence MFE	-39.54
Consensus MFE	-34.86
Energy contribution	-35.34
Covariance contribution	0.48
Combinations/Pair	1.07
Mean z-score	-2.53
Structure conservation index	0.88
SVM decision value	3.58
SVM RNA-class probability	0.999406
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7152234 116 + 20766785
CUAGGAGACAACUGGCAAACGAGGUGCCACUGUAAUGAGCUUUCCACGGAAAAGCGGAAAGUUUAAGGUUGAGAGCGCAGACAGCUGCGACAUCAAAGCCAAGUGUGGCGGCCAUA
((((.......)))).......((((((((.....((((((((((.(......).)))))))))).((((..((.(((((....)))))...))..))))....))))).)))... ( -42.00)
>DroSec_CAF1 15537 111 + 1
-----GGACAACUGGCGAACGAGGUGCCACUGUAAUGAGCUUUCCACGGAAAAGCGGAAAGUUUAAGGUUGAGAGCGCAGACAGCUGCGACAUCAAAGCCAAGUGUGGCGGCCAUA
-----.................((((((((.....((((((((((.(......).)))))))))).((((..((.(((((....)))))...))..))))....))))).)))... ( -39.90)
>DroSim_CAF1 15946 116 + 1
CUAGGGGACAACUGGCGAACGAGGUGCCAGUGUAAUGAGCUUUCCACGGAAAAGCGGAAAGUUUAAGGUUGAGAGCGCAGACAGCUGCGACAUCAAAGCCAAGUGUGGCGGCCAUA
...(....).(((((((.......)))))))....((((((((((.(......).)))))))))).((((((...(((((....)))))...))...((((....))))))))... ( -42.70)
>DroEre_CAF1 17464 111 + 1
U--GGGGGCGA---GCGAACGAGGUGGCACUGUAAUGAGCUUUCCACGGAAAAGCGAAAAGUUUAAGGUUGAGAGCAUAGACAGCUGCGACAUCAAAGCCAAGUGUGGCGACCAGU
(--((......---......((.((.(((((((.....((((((.((....((((.....))))...)).))))))....)))).))).)).))...((((....))))..))).. ( -30.70)
>DroYak_CAF1 15925 116 + 1
CAAGGGGGCAACUGGCGAACGAGGUGCCACUGUAAUGAGCUUUCCACGGAAAAGCGGAAAGUUUAAGGUUGAGAGCGCAGACAGCUGCGACAUCAAAGCCAAGUGUGGCGGCCAUU
......(((..((.(....).)).((((((.....((((((((((.(......).)))))))))).((((..((.(((((....)))))...))..))))....)))))))))... ( -42.40)
>consensus
C_AGGGGACAACUGGCGAACGAGGUGCCACUGUAAUGAGCUUUCCACGGAAAAGCGGAAAGUUUAAGGUUGAGAGCGCAGACAGCUGCGACAUCAAAGCCAAGUGUGGCGGCCAUA
......................((((((((.....((((((((((.(......).)))))))))).((((..((.(((((....)))))...))..))))....))))).)))... (-34.86 = -35.34 +   0.48)

alignment

secondary structure

dotplot

Window 7

Location	7,152,274 – 7,152,371
Length	97
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	91.10
Mean single sequence MFE	-19.74
Consensus MFE	-18.78
Energy contribution	-18.66
Covariance contribution	-0.12
Combinations/Pair	1.10
Mean z-score	-1.11
Structure conservation index	0.95
SVM decision value	0.09
SVM RNA-class probability	0.576856
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7152274 97 - 20766785
GUUUUACCAA------------UCACCUACCAAUAUGGCCGCCACACUUGGCUUUGAUGUCGCAGCUGUCUGCGCUCUCAACCUUAAACUUUCCGCUUUUCCGUGGAAA
..........------------..............((..((((....)))).((((...(((((....)))))...)))))).......((((((......)))))). ( -20.50)
>DroSec_CAF1 15572 109 - 1
GUUUUUCCAAUCACUCCCACAAUCACCUCCCAAUAUGGCCGCCACACUUGGCUUUGAUGUCGCAGCUGUCUGCGCUCUCAACCUUAAACUUUCCGCUUUUCCGUGGAAA
....................................((..((((....)))).((((...(((((....)))))...)))))).......((((((......)))))). ( -20.50)
>DroSim_CAF1 15986 109 - 1
GUUUUUCCAAUCACUCCCACAAUCACCUCCCAAUAUGGCCGCCACACUUGGCUUUGAUGUCGCAGCUGUCUGCGCUCUCAACCUUAAACUUUCCGCUUUUCCGUGGAAA
....................................((..((((....)))).((((...(((((....)))))...)))))).......((((((......)))))). ( -20.50)
>DroEre_CAF1 17499 108 - 1
GUUUUUCCAAUCACUCCCACAAUCAGCUCCCU-ACUGGUCGCCACACUUGGCUUUGAUGUCGCAGCUGUCUAUGCUCUCAACCUUAAACUUUUCGCUUUUCCGUGGAAA
................((((.(((((...((.-...))..((((....)))).)))))...(((........)))...........................))))... ( -16.70)
>DroYak_CAF1 15965 109 - 1
GUUUUUCCAAUCACUCCCACAAUCACCUCCCCAAAUGGCCGCCACACUUGGCUUUGAUGUCGCAGCUGUCUGCGCUCUCAACCUUAAACUUUCCGCUUUUCCGUGGAAA
....................................((..((((....)))).((((...(((((....)))))...)))))).......((((((......)))))). ( -20.50)
>consensus
GUUUUUCCAAUCACUCCCACAAUCACCUCCCAAUAUGGCCGCCACACUUGGCUUUGAUGUCGCAGCUGUCUGCGCUCUCAACCUUAAACUUUCCGCUUUUCCGUGGAAA
....................................((..((((....)))).((((...(((((....)))))...)))))).......((((((......)))))). (-18.78 = -18.66 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:54 2006