Locus 1806

Sequence ID	3L_DroMel_CAF1
Location	5,081,176 – 5,081,333
Length	157
Max. P	0.860434

overview

Window 6

Location	5,081,176 – 5,081,293
Length	117
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.78
Mean single sequence MFE	-29.65
Consensus MFE	-26.80
Energy contribution	-27.55
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-1.50
Structure conservation index	0.90
SVM decision value	-0.01
SVM RNA-class probability	0.526221
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5081176 117 + 23771897
CACCCUUUGGAAAAACGUGCAACAGGGUGCUUCUAUUUUUCUUGCCUGGCAUUUUUCCGUUGACCUUCUUCU---CUGGGCAACAUUUCUGCACAGUUGUUGGCUUUUCUUUUGGGCCGA
..(((...((((((..((.((((((.((((............(((...))).......((((.(((......---..)))))))......))))..))))))))))))))...))).... ( -28.40)
>DroSec_CAF1 287442 117 + 1
CACCCUUUGGAAAAACGUGCAACAGGGUGCUUCUAUUUUUCUUGCCUGGUAUUUUUCCGUUGUCCUUCUUCU---CUGGGCAACAUUUCUGCACUGUUGUUGGCUUUUCUUUUGGGCCGA
..(((...((((((..((.(((((((((((.................((.......))(((((((.......---..)))))))......))))).))))))))))))))...))).... ( -32.00)
>DroSim_CAF1 308786 117 + 1
CACCCUUUGGAAAAACGUGCAACAGGGUGCUUCUAUUUUUCUUGCCUGGUAUUUUUCCGUUGUCCUUCUUCU---CUGGGCAACAUUUCUGCACAGUUGUUGGCUUUUCUUUUGGGCCGA
..(((...((((((..((.((((((.((((.................((.......))(((((((.......---..)))))))......))))..))))))))))))))...))).... ( -31.60)
>DroYak_CAF1 298884 120 + 1
CACCCUACGGAAAAACGUGCAACAGGGUGCUUCUAUUUUUCUUGCCUGCUAUUUUUCCGUUGUCCUUCUUCUUCACUGGGCCACAUUUCUGCACAGUUGUUGGCUUUUCUUUUGGGCCGA
..(((.(((((((((...(((.(((((............)))))..)))..))))))))).................((((((((...((....)).)).)))))).......))).... ( -26.60)
>consensus
CACCCUUUGGAAAAACGUGCAACAGGGUGCUUCUAUUUUUCUUGCCUGGUAUUUUUCCGUUGUCCUUCUUCU___CUGGGCAACAUUUCUGCACAGUUGUUGGCUUUUCUUUUGGGCCGA
..(((...((((((.(..(((((...((((.................((.......))(((((((............)))))))......)))).)))))..).))))))...))).... (-26.80 = -27.55 +   0.75)

alignment

secondary structure

dotplot

Window 7

Location	5,081,216 – 5,081,333
Length	117
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	96.62
Mean single sequence MFE	-33.88
Consensus MFE	-31.33
Energy contribution	-32.08
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-1.98
Structure conservation index	0.92
SVM decision value	0.83
SVM RNA-class probability	0.860434
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5081216 117 + 23771897
CUUGCCUGGCAUUUUUCCGUUGACCUUCUUCU---CUGGGCAACAUUUCUGCACAGUUGUUGGCUUUUCUUUUGGGCCGACUGUUGUAAUUGUUGCUAAAGCAGCAAAACGUCGACGCUG
.......(((........((((.(((......---..)))))))...((.((((((..((((((((.......))))))))..))))..(((((((....)))))))...)).)).))). ( -34.30)
>DroSec_CAF1 287482 117 + 1
CUUGCCUGGUAUUUUUCCGUUGUCCUUCUUCU---CUGGGCAACAUUUCUGCACUGUUGUUGGCUUUUCUUUUGGGCCGACUGUUGUAAUUGUUGCUAAAGCAGCAAAACGUCGACGCUG
.......((.......))(((((((.......---..)))))))......((......((((((((.......)))))))).((((...(((((((....))))))).....)))))).. ( -34.00)
>DroSim_CAF1 308826 117 + 1
CUUGCCUGGUAUUUUUCCGUUGUCCUUCUUCU---CUGGGCAACAUUUCUGCACAGUUGUUGGCUUUUCUUUUGGGCCGACUGUUGUAAUUGUUGCUAAAGCAGCAAAACGUCGACGCUG
..(((..((.......))(((((((.......---..)))))))......)))((((.((((((((.......)))))))).((((...(((((((....))))))).....)))))))) ( -36.40)
>DroYak_CAF1 298924 120 + 1
CUUGCCUGCUAUUUUUCCGUUGUCCUUCUUCUUCACUGGGCCACAUUUCUGCACAGUUGUUGGCUUUUCUUUUGGGCCGACUGUUGUAAUUGUUGCUAAAGCAGCAAAACGUCGACGCUG
.......((.........((.((((............)))).))...((.((((((..((((((((.......))))))))..))))..(((((((....)))))))...)).)).)).. ( -30.80)
>consensus
CUUGCCUGGUAUUUUUCCGUUGUCCUUCUUCU___CUGGGCAACAUUUCUGCACAGUUGUUGGCUUUUCUUUUGGGCCGACUGUUGUAAUUGUUGCUAAAGCAGCAAAACGUCGACGCUG
...((.............(((((((............)))))))...((.((((((..((((((((.......))))))))..))))..(((((((....)))))))...)).)).)).. (-31.33 = -32.08 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:02 2006