Locus 4479

Sequence ID	2R_DroMel_CAF1
Location	14,736,167 – 14,736,289
Length	122
Max. P	0.988040

overview

Window 4

Location	14,736,167 – 14,736,262
Length	95
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	82.05
Mean single sequence MFE	-25.76
Consensus MFE	-17.14
Energy contribution	-18.82
Covariance contribution	1.68
Combinations/Pair	1.11
Mean z-score	-2.91
Structure conservation index	0.67
SVM decision value	2.10
SVM RNA-class probability	0.988040
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14736167 95 + 20766785
CCAAAC-CG------CACCCAC--ACACACGCAAAAUCCUCACCGCCAGAGCUGCUGCAUCAUUAUCAUUAUGAACCAGGAGCAGCAGCUCAUCUUGUGGCCAC
......-..------...((((--(.....((............))..((((((((((.((....((.....)).....))))))))))))....))))).... ( -27.10)
>DroSec_CAF1 41382 95 + 1
CCAAAC-CG------CACCCAC--ACGCACGCAAAGUCCUCACUGCCGGAGCUGCUGCAUCAUUAUCAUUAUGAACCAGGAGCAGCAGCUCAUCUUGUGGCCAC
......-..------...((((--(....((...(((....)))..))((((((((((.((....((.....)).....))))))))))))....))))).... ( -28.70)
>DroEre_CAF1 41329 95 + 1
CCAAAC-CA------CACCCAC--ACACACGCAAAGUCCUCACCGCCAGAGCAGCUGCAUCAUUAUCAUUAUGAACCAGGAGCAGCAGCUCGUCUUGUGGCCAC
.....(-((------((...((--......((............))..((((.(((((.((....((.....)).....))))))).))))))..))))).... ( -22.30)
>DroYak_CAF1 42222 103 + 1
CCAAAC-CACUGCCACACCCACACACACACGCAGAAUCCUCACCGCCGGAGCUGCUGCAUCAUUAUCAUUAUGAACCAGGAGCAGCAGCUCAUCUUGUGGCCAC
......-....((((((.............((.(........).))..((((((((((.((....((.....)).....))))))))))))....))))))... ( -30.70)
>DroAna_CAF1 33178 81 + 1
CAAGGCACU------CACUCAC--GGAGAUGCAA-------ACCACC--------AGCAUCAUUAUCAUUAUGAACCAGGAGGAGCAGCUCGUCUUGUGGCCAC
...(((...------.......--...(((((..-------......--------.)))))..............((((((.(((...))).))))).)))).. ( -20.00)
>consensus
CCAAAC_CA______CACCCAC__ACACACGCAAAAUCCUCACCGCCAGAGCUGCUGCAUCAUUAUCAUUAUGAACCAGGAGCAGCAGCUCAUCUUGUGGCCAC
..........................................((((..((((((((((.((....((.....)).....)))))))))))).....)))).... (-17.14 = -18.82 +   1.68)

alignment

secondary structure

dotplot

Window 5

Location	14,736,194 – 14,736,289
Length	95
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	86.16
Mean single sequence MFE	-31.04
Consensus MFE	-20.02
Energy contribution	-22.82
Covariance contribution	2.80
Combinations/Pair	1.00
Mean z-score	-2.61
Structure conservation index	0.64
SVM decision value	0.65
SVM RNA-class probability	0.813075
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14736194 95 + 20766785
UCCUCACCGCCAGAGCUGCUGCAUCAUUAUCAUUAUGAACCAGGAGCAGCAGCUCAUCUUGUGGCCACCUUGGUUUAUUACCGGCCAU-CUGCCUG
........((..((((((((((.((....((.....)).....)))))))))))).....((((((.....(((.....)))))))))-..))... ( -32.50)
>DroSec_CAF1 41409 96 + 1
UCCUCACUGCCGGAGCUGCUGCAUCAUUAUCAUUAUGAACCAGGAGCAGCAGCUCAUCUUGUGGCCACCUUGGUUUAUUACCGGCCAGGCAGAUGG
....(((((((.((((((((((.((....((.....)).....))))))))))))......(((((.....(((.....))))))))))))).)). ( -41.00)
>DroEre_CAF1 41356 95 + 1
UCCUCACCGCCAGAGCAGCUGCAUCAUUAUCAUUAUGAACCAGGAGCAGCAGCUCGUCUUGUGGCCACCUAGGUUUAUUACCGGCCAU-CUGCCCG
........((..((((.(((((.((....((.....)).....))))))).)))).....((((((.....(((.....)))))))))-..))... ( -27.20)
>DroYak_CAF1 42257 95 + 1
UCCUCACCGCCGGAGCUGCUGCAUCAUUAUCAUUAUGAACCAGGAGCAGCAGCUCAUCUUGUGGCCACCUUGGUUUAUUACCGGCCAU-CUGCCUG
........((.(((((((((((.((....((.....)).....)))))))))))).....((((((.....(((.....)))))))))-).))... ( -32.50)
>DroAna_CAF1 33204 82 + 1
-----ACCACC--------AGCAUCAUUAUCAUUAUGAACCAGGAGGAGCAGCUCGUCUUGUGGCCACCUUGCUUUAUUACGGCCCAU-GUGGCCG
-----......--------....((((.......))))..(((((.(((...))).))))).((((((...(((.......)))....-)))))). ( -22.00)
>consensus
UCCUCACCGCCAGAGCUGCUGCAUCAUUAUCAUUAUGAACCAGGAGCAGCAGCUCAUCUUGUGGCCACCUUGGUUUAUUACCGGCCAU_CUGCCCG
............((((((((((.((....((.....)).....)))))))))))).....((((((.....(((.....)))))))))........ (-20.02 = -22.82 +   2.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:47 2006