Locus 237

Sequence ID	X_DroMel_CAF1
Location	816,421 – 816,541
Length	120
Max. P	0.999477

overview

Window 7

Location	816,421 – 816,541
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.67
Mean single sequence MFE	-29.52
Consensus MFE	-23.54
Energy contribution	-24.50
Covariance contribution	0.96
Combinations/Pair	1.09
Mean z-score	-2.43
Structure conservation index	0.80
SVM decision value	1.93
SVM RNA-class probability	0.983144
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 816421 120 + 22224390
AUUUUUUCAAUGAAACUGCUCCAUUGGCUGGAAUAAAUGACAAUCAUUCUGGUUUUCGAGUUCCGAAGAACUGCUCAAAAUAAUUGUUAAUUUAUAAUUGACGAUUACCAGCCAAGCGGU
..............((((((....(((((((......(((.((((.....)))).)))(((((....)))))........(((((((((((.....)))))))))))))))))))))))) ( -33.10)
>DroSec_CAF1 17639 118 + 1
--CAUUUCAAUGAAACUGCUCCAUUGGCUGGAAUAAAUGGCAAUCAUUCUGGUUUCCGAGUUCCGAAGAACUGCACAAAAUAAUUGUUCAUUUAUAAUUGACGAUUACCAGCCAAGCGGU
--............((((((....(((((((......(((.((((.....)))).)))(((((....)))))........(((((((.((........)))))))))))))))))))))) ( -31.80)
>DroSim_CAF1 13935 120 + 1
AUUUUUUCAAUGAAACUGCUCCAUUGGCUGGAAUAAAUGACAAUCAUUCUGGUUUCCGAGUUCCGAAGAACUGCACAAAAUAAUUGUUCAUUUAUAAUUGACGAUUACCAGCCAAGCGGU
..............((((((....(((((((..(((((((((((.(((.((((.....(((((....))))))).)).))).)))).)))))))(((((...)))))))))))))))))) ( -30.70)
>DroEre_CAF1 17340 120 + 1
AUUUUUUCAUUGAAACUGCCACAUUCGCUGGCAUAAAUGACAAUCAUUCUGGUUUUCGAGUUCCAGAAAGCUGCACAAAAUAAUUGUCCAUUUAUAAUUGACGAUUACCAGCCAAGCGAA
.......................(((((((((...((((.....)))).((((..(((.((..(((....))).))....(((((((......))))))).)))..))))))).)))))) ( -25.60)
>DroYak_CAF1 14280 120 + 1
AUUUUUUCAUUGAAACUGCAACAUUGGCUGGGAUAAAUGACAAUCACUCUGGUUUCCGAGUUCCAGAAAGCUGCACACAAUAAUUGUCCAUUUAUAAUUGACGAUUACCAGCCAAGCGAU
................(((....((((((((................(((((..........))))).............((((((((.((.....)).))))))))))))))))))).. ( -26.40)
>consensus
AUUUUUUCAAUGAAACUGCUCCAUUGGCUGGAAUAAAUGACAAUCAUUCUGGUUUCCGAGUUCCGAAGAACUGCACAAAAUAAUUGUUCAUUUAUAAUUGACGAUUACCAGCCAAGCGGU
..............(((((....((((((((......(((.((((.....)))).)))(((((....)))))........((((((((.((.....)).))))))))))))))))))))) (-23.54 = -24.50 +   0.96)

alignment

secondary structure

dotplot

Window 8

Location	816,421 – 816,541
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.67
Mean single sequence MFE	-34.67
Consensus MFE	-28.94
Energy contribution	-29.82
Covariance contribution	0.88
Combinations/Pair	1.08
Mean z-score	-3.30
Structure conservation index	0.83
SVM decision value	3.64
SVM RNA-class probability	0.999477
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 816421 120 - 22224390
ACCGCUUGGCUGGUAAUCGUCAAUUAUAAAUUAACAAUUAUUUUGAGCAGUUCUUCGGAACUCGAAAACCAGAAUGAUUGUCAUUUAUUCCAGCCAAUGGAGCAGUUUCAUUGAAAAAAU
.(((.((((((((............((((((..((((((((((((..((((((....))))).).....)))))))))))).)))))).))))))))))).................... ( -34.42)
>DroSec_CAF1 17639 118 - 1
ACCGCUUGGCUGGUAAUCGUCAAUUAUAAAUGAACAAUUAUUUUGUGCAGUUCUUCGGAACUCGGAAACCAGAAUGAUUGCCAUUUAUUCCAGCCAAUGGAGCAGUUUCAUUGAAAUG--
.(((.((((((((............(((((((..(((((((((((.(.(((((....))))))(....)))))))))))).))))))).)))))))))))....(((((...))))).-- ( -38.22)
>DroSim_CAF1 13935 120 - 1
ACCGCUUGGCUGGUAAUCGUCAAUUAUAAAUGAACAAUUAUUUUGUGCAGUUCUUCGGAACUCGGAAACCAGAAUGAUUGUCAUUUAUUCCAGCCAAUGGAGCAGUUUCAUUGAAAAAAU
.(((.((((((((............((((((((.(((((((((((.(.(((((....))))))(....)))))))))))))))))))).))))))))))).................... ( -40.92)
>DroEre_CAF1 17340 120 - 1
UUCGCUUGGCUGGUAAUCGUCAAUUAUAAAUGGACAAUUAUUUUGUGCAGCUUUCUGGAACUCGAAAACCAGAAUGAUUGUCAUUUAUGCCAGCGAAUGUGGCAGUUUCAAUGAAAAAAU
.((((((.(((((((...(.(((((((...((.((((.....)))).))....(((((..........)))))))))))).).....))))))).)).)))).................. ( -29.70)
>DroYak_CAF1 14280 120 - 1
AUCGCUUGGCUGGUAAUCGUCAAUUAUAAAUGGACAAUUAUUGUGUGCAGCUUUCUGGAACUCGGAAACCAGAGUGAUUGUCAUUUAUCCCAGCCAAUGUUGCAGUUUCAAUGAAAAAAU
...((((((((((((((.....))))((((((.(((((((((.((.(....((((((.....))))))))).)))))))))))))))..))))))))....))................. ( -30.10)
>consensus
ACCGCUUGGCUGGUAAUCGUCAAUUAUAAAUGAACAAUUAUUUUGUGCAGUUCUUCGGAACUCGGAAACCAGAAUGAUUGUCAUUUAUUCCAGCCAAUGGAGCAGUUUCAUUGAAAAAAU
...((((((((((............(((((((.((((((((((((.(.(((((....))))))(....)))))))))))))))))))).)))))))....)))................. (-28.94 = -29.82 +   0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:40 2006