Locus 6202

Sequence ID	3R_DroMel_CAF1
Location	16,193,133 – 16,193,292
Length	159
Max. P	0.909621

overview

Window 5

Location	16,193,133 – 16,193,252
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	80.63
Mean single sequence MFE	-28.38
Consensus MFE	-18.46
Energy contribution	-19.10
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-1.76
Structure conservation index	0.65
SVM decision value	0.27
SVM RNA-class probability	0.662449
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16193133 119 + 27905053
CAGUUCGCAAGUUUUCACAAGAGUGCCUAGCCAAA-AAAGGGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGCAGGGAAAACGAUUUAACUGAAAAUUGAGGUUGAACUUAAUCAUAA
(((((.....((((((.(..(...((((..((...-...))......((.(((....))))).....))))...)..))))))).....)))))...((((((......))))))..... ( -28.10)
>DroSec_CAF1 22449 120 + 1
CAGUUCGCAAGUUUUCACCAGAAUCCCUAGCCAAAAAAAGGGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGCAGGGAAAACGAUUUAACUGAAAAUUGAGGUUGAACUUAAUCAUAA
(((((.....((((((.((((..(((((..((.......))))))).((.(((....)))))........))))....)))))).....)))))...((((((......))))))..... ( -32.70)
>DroSim_CAF1 15977 120 + 1
CAGUUCGCAAGUUUUCACCAGAAUCCCUAGCCAAAAAAAGGGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
(((((((................(((((..((.......))))))).((.(((....)))))...))).))))............................................... ( -19.70)
>DroEre_CAF1 21677 119 + 1
CAGUUCGCAAGUUUCCACCAGAAUCCCUAGCCAAGAAAA-GGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGCAGGGAAAACGAUUUAACUGAAAAUUGAGGUUGAACUUAAUCAUAA
(((((......(((((.((((..(((((...........-.))))).((.(((....)))))........))))...))))).......)))))...((((((......))))))..... ( -30.32)
>DroYak_CAF1 23099 117 + 1
CAGCUCGCAAGUUUUCGCCAGAAUCCCUAGCCAAA--AA-AGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGCAGGGAAAACGAUUUAACUGAAAAUUGAGGUUGAACUUAAUCAUAA
(((((....((((((((((((..(((((.......--..-.))))).((.(((....)))))........)))))((..(((....)))..)))))))))..)))))............. ( -31.10)
>consensus
CAGUUCGCAAGUUUUCACCAGAAUCCCUAGCCAAAAAAAGGGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGCAGGGAAAACGAUUUAACUGAAAAUUGAGGUUGAACUUAAUCAUAA
(((((((................(((((.............))))).((.(((....)))))...))).)))).(((..(((....)))..)))...((((((......))))))..... (-18.46 = -19.10 +   0.64)

alignment

secondary structure

dotplot

Window 6

Location	16,193,172 – 16,193,292
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	99.58
Mean single sequence MFE	-30.65
Consensus MFE	-30.65
Energy contribution	-30.65
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.60
Structure conservation index	1.00
SVM decision value	1.07
SVM RNA-class probability	0.909621
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16193172 120 + 27905053
GGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGCAGGGAAAACGAUUUAACUGAAAAUUGAGGUUGAACUUAAUCAUAAAUCAAUGCUAAUGAUGCUAAAAUGCUAGAAAAUUUCCCAA
.((((((((.(((....)))))........((((((........((((((..(((...(((((......))))))))))))))...((.......)).....))))))....)))))).. ( -30.60)
>DroSec_CAF1 22489 120 + 1
GGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGCAGGGAAAACGAUUUAACUGAAAAUUGAGGUUGAACUUAAUCAUAAAUCAAUGCUAAUGAUGCUAAAAUGCUAGAAAAUUUCCCAA
.((((((((.(((....)))))........((((((........((((((..(((...(((((......))))))))))))))...((.......)).....))))))....)))))).. ( -30.60)
>DroEre_CAF1 21716 120 + 1
GGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGCAGGGAAAACGAUUUAACUGAAAAUUGAGGUUGAACUUAAUCAUAAAUCAAUGCUAAUGAUGCUAAAAUGCUAGAAAAUUUCCCAA
.((((((((.(((....)))))........((((((........((((((..(((...(((((......))))))))))))))...((.......)).....))))))....)))))).. ( -30.60)
>DroYak_CAF1 23136 120 + 1
AGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGCAGGGAAAACGAUUUAACUGAAAAUUGAGGUUGAACUUAAUCAUAAAUCAAUGCUAAUGAUGCUAAAAUGCUAGAAAAUUUCCCAA
.((((((((.(((....)))))........((((((........((((((..(((...(((((......))))))))))))))...((.......)).....))))))....)))))).. ( -30.80)
>consensus
GGGGGAAGGACGCACAAGCGCCAAACGAGGCUGGCAGGGAAAACGAUUUAACUGAAAAUUGAGGUUGAACUUAAUCAUAAAUCAAUGCUAAUGAUGCUAAAAUGCUAGAAAAUUUCCCAA
.((((((((.(((....)))))........((((((........((((((..(((...(((((......))))))))))))))...((.......)).....))))))....)))))).. (-30.65 = -30.65 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:26 2006