Locus 4732

Sequence ID	2R_DroMel_CAF1
Location	15,525,452 – 15,525,562
Length	110
Max. P	0.809070

overview

Window 4

Location	15,525,452 – 15,525,562
Length	110
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	88.55
Mean single sequence MFE	-23.91
Consensus MFE	-16.86
Energy contribution	-18.70
Covariance contribution	1.84
Combinations/Pair	1.04
Mean z-score	-1.94
Structure conservation index	0.71
SVM decision value	0.20
SVM RNA-class probability	0.628980
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15525452 110 + 20766785
GAAAACUGUCAACAGCUGGCCAUAUUUUAUAUUAGUUAUUUAAUGCCUUAUAAGAGAGUAUUUAAGGUGAAUAAGGCAAAGAGCAACAAGUUCUUUAUAGAUGAAAUUGA
.....(((....)))((((((.(((((...(((((....)))))((((((............))))))))))).)))(((((((.....))))))).))).......... ( -19.40)
>DroSec_CAF1 319291 110 + 1
AAAAACUGUCACCAGCUGGCCAUAUUUUAUAUUAGUUAUUUAAUGCCUUAUAAGAGAGUAUUAAAGGUAAAUAUGGCAAAGAGCAACAAGUUCAUUAUAGAUGGUAUUAA
..........((((.((((((((((((...........(((((((((((....))).))))))))...)))))))))...((((.....))))....))).))))..... ( -26.14)
>DroSim_CAF1 299196 110 + 1
GAAAACUGUCACCAGCUGGCCAUAUUUUAUAUUAGUUAUUUAAUGCCUUAUAAGAGGGUAUUUAAGGUGAAUAUGGCAAAGAGCGACAAGUUCAUUAUAGAUGGUAUUAA
..........((((.((((((((((((....(((.......((((((((.....)))))))))))...)))))))))...((((.....))))....))).))))..... ( -27.11)
>DroEre_CAF1 308072 110 + 1
GAAAACUGUCACCAGCUGGCCAUAAAUUGAAUUAGUAAUUCAAUGCCUUAUUAGAGAUUAUUUAAGGUGAAUAUGGCAAAGAGCAACAAGUUCAUUAAAUGUGGUAUUGA
..........((((....((((((.(((((((.....)))))))((((((............))))))...))))))...((((.....))))........))))..... ( -24.80)
>DroYak_CAF1 317234 109 + 1
GAAAACUGUCACCAACUGGCCAUAUAUUAUAUUAGUUAUUCAAUGCCUUAUACCAAUGUAUUUAAGGUGAA-AUGGCAAAGAGCAACAAGUUCGUUAUAUAUGGUACUAA
..................(((((((((...(((.(((.(((..((((((.((((...........)))).)-).))))..))).))).))).....)))))))))..... ( -22.10)
>consensus
GAAAACUGUCACCAGCUGGCCAUAUUUUAUAUUAGUUAUUUAAUGCCUUAUAAGAGAGUAUUUAAGGUGAAUAUGGCAAAGAGCAACAAGUUCAUUAUAGAUGGUAUUAA
..........((((....(((((((((...(((((....)))))((((((............)))))))))))))))...((((.....))))........))))..... (-16.86 = -18.70 +   1.84)

alignment

secondary structure

dotplot

Window 5

Location	15,525,452 – 15,525,562
Length	110
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	88.55
Mean single sequence MFE	-19.93
Consensus MFE	-15.02
Energy contribution	-16.02
Covariance contribution	1.00
Combinations/Pair	1.07
Mean z-score	-1.94
Structure conservation index	0.75
SVM decision value	0.64
SVM RNA-class probability	0.809070
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15525452 110 - 20766785
UCAAUUUCAUCUAUAAAGAACUUGUUGCUCUUUGCCUUAUUCACCUUAAAUACUCUCUUAUAAGGCAUUAAAUAACUAAUAUAAAAUAUGGCCAGCUGUUGACAGUUUUC
..........(((((((((.(.....).))))((((((((...................))))))))...................)))))..(((((....)))))... ( -14.21)
>DroSec_CAF1 319291 110 - 1
UUAAUACCAUCUAUAAUGAACUUGUUGCUCUUUGCCAUAUUUACCUUUAAUACUCUCUUAUAAGGCAUUAAAUAACUAAUAUAAAAUAUGGCCAGCUGGUGACAGUUUUU
.................(((((.((..((..(((((((((((.((((..............)))).((((......))))...)))))))).)))..))..))))))).. ( -19.54)
>DroSim_CAF1 299196 110 - 1
UUAAUACCAUCUAUAAUGAACUUGUCGCUCUUUGCCAUAUUCACCUUAAAUACCCUCUUAUAAGGCAUUAAAUAACUAAUAUAAAAUAUGGCCAGCUGGUGACAGUUUUC
.................(((((.((((((..((((((((((..(((((.(........).))))).((((......))))....))))))).)))..))))))))))).. ( -21.60)
>DroEre_CAF1 308072 110 - 1
UCAAUACCACAUUUAAUGAACUUGUUGCUCUUUGCCAUAUUCACCUUAAAUAAUCUCUAAUAAGGCAUUGAAUUACUAAUUCAAUUUAUGGCCAGCUGGUGACAGUUUUC
.................(((((.((..((..((((((((....(((((............))))).(((((((.....))))))).))))).)))..))..))))))).. ( -21.60)
>DroYak_CAF1 317234 109 - 1
UUAGUACCAUAUAUAACGAACUUGUUGCUCUUUGCCAU-UUCACCUUAAAUACAUUGGUAUAAGGCAUUGAAUAACUAAUAUAAUAUAUGGCCAGUUGGUGACAGUUUUC
......((((((((.........((((.((..((((.(-(..(((...........)))..))))))..)).)))).......))))))))....(((....)))..... ( -22.69)
>consensus
UUAAUACCAUCUAUAAUGAACUUGUUGCUCUUUGCCAUAUUCACCUUAAAUACUCUCUUAUAAGGCAUUAAAUAACUAAUAUAAAAUAUGGCCAGCUGGUGACAGUUUUC
.................(((((.((((((..((((((((((..(((((............))))).((((......))))....))))))).)))..))))))))))).. (-15.02 = -16.02 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:01 2006