Locus 5273

Sequence ID	3L_DroMel_CAF1
Location	14,568,768 – 14,568,881
Length	113
Max. P	0.999475

overview

Window 0

Location	14,568,768 – 14,568,881
Length	113
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	88.40
Mean single sequence MFE	-19.87
Consensus MFE	-18.45
Energy contribution	-18.95
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-3.56
Structure conservation index	0.93
SVM decision value	3.64
SVM RNA-class probability	0.999475
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14568768 113 + 23771897
AUAUCAAAAAAUCGAAAAUGCCC-GACACAUGUUUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCCAACCCCU-CGC--UCGCCCACAAA--AAAU
......((((((.(((((((...-(((....))).....))))))).))))))......((((((((.......))))))))..............-...--...........--.... ( -19.10)
>DroPse_CAF1 45647 118 + 1
AUAUCAAAAAAUCGAAAAUGCCC-GACACAUGUUUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUUUGCUGACACUUUUCUAUCUCCUUUGCUGCCACCCUCCGAUCAGGU
......((((((.(((((((...-(((....))).....))))))).))))))......((((((((.......))))))))........................(((......))). ( -20.90)
>DroSec_CAF1 42908 113 + 1
AUAUCAAAAAAUCGAAAACGCCC-GACACAUGU-UCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCCAACCCCUCCGC--UCGCCCACAGA--AAAU
...((.((((((.(((((.(...-(((....))-)....).))))).))))))......((((((((.......))))))))..................--.........))--.... ( -15.70)
>DroSim_CAF1 44856 115 + 1
AUAUCAAAAAAUCGAAAAUGCCCGGACACAUGUUUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCCAACCCCUCCGC--UCGCCCACAGA--AAAU
...((.((((((.(((((((...((((....))))....))))))).))))))......((((((((.......))))))))..................--.........))--.... ( -20.50)
>DroAna_CAF1 40655 110 + 1
AUAUCAAAAAAUCGAAAAUACCC-GACACAUGUUUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCUGGCACCC-CUC--UU-CC--CAGA--AACC
......((((((.((((((....-(((....)))......)))))).))))))......((((((((.......))))))))..(((((((.....-...--..-.)--))))--)).. ( -22.10)
>DroPer_CAF1 48958 115 + 1
AUAUCAAAAAAUCGAAAAUGCCC-GACACAUGUUUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUUUGCUGACACUUUUCUAUCUCCUUUG---CCACCCUCCGAUCAGGU
......((((((.(((((((...-(((....))).....))))))).))))))......((((((((.......)))))))).................---....(((......))). ( -20.90)
>consensus
AUAUCAAAAAAUCGAAAAUGCCC_GACACAUGUUUCAAUCAUUUUCCAUUUUUAUUUAUUGUCAGCAUUUAUUCUGCUGACACUUUUCCAACCCCU_CGC__UCGCCCACAGA__AAAU
......((((((.(((((((....(((....))).....))))))).))))))......((((((((.......))))))))..................................... (-18.45 = -18.95 +   0.50)

alignment

secondary structure

dotplot

Window 1

Location	14,568,768 – 14,568,881
Length	113
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	88.40
Mean single sequence MFE	-28.03
Consensus MFE	-21.36
Energy contribution	-21.08
Covariance contribution	-0.28
Combinations/Pair	1.09
Mean z-score	-2.82
Structure conservation index	0.76
SVM decision value	0.22
SVM RNA-class probability	0.637764
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14568768 113 - 23771897
AUUU--UUUGUGGGCGA--GCG-AGGGGUUGGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAAACAUGUGUC-GGGCAUUUUCGAUUUUUUGAUAU
..((--(((((......--)))-))))((..(((((.((((((((.......)))))))).............(((((((.((((........))-)).)))))))..)))))..)).. ( -27.60)
>DroPse_CAF1 45647 118 - 1
ACCUGAUCGGAGGGUGGCAGCAAAGGAGAUAGAAAAGUGUCAGCAAAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAAACAUGUGUC-GGGCAUUUUCGAUUUUUUGAUAU
((((.......))))......................((((((((.......))))))))......((((((.(((((((.((((........))-)).))))))).))))))...... ( -25.70)
>DroSec_CAF1 42908 113 - 1
AUUU--UCUGUGGGCGA--GCGGAGGGGUUGGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGA-ACAUGUGUC-GGGCGUUUUCGAUUUUUUGAUAU
.(((--(((((......--))))))))((..(((((.((((((((.......)))))))).............(((((((.((((-.(....)))-)).)))))))..)))))..)).. ( -30.40)
>DroSim_CAF1 44856 115 - 1
AUUU--UCUGUGGGCGA--GCGGAGGGGUUGGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAAACAUGUGUCCGGGCAUUUUCGAUUUUUUGAUAU
.(((--(((((......--))))))))((..(((((.((((((((.......)))))))).............(((((((.(((..((....)).))).)))))))..)))))..)).. ( -29.10)
>DroAna_CAF1 40655 110 - 1
GGUU--UCUG--GG-AA--GAG-GGGUGCCAGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAAACAUGUGUC-GGGUAUUUUCGAUUUUUUGAUAU
..((--((((--(.-(.--...-...).)))))))..((((((((.......))))))))......((((((.(((((((.((((........))-)).))))))).))))))...... ( -29.70)
>DroPer_CAF1 48958 115 - 1
ACCUGAUCGGAGGGUGG---CAAAGGAGAUAGAAAAGUGUCAGCAAAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAAACAUGUGUC-GGGCAUUUUCGAUUUUUUGAUAU
((((.......))))..---.................((((((((.......))))))))......((((((.(((((((.((((........))-)).))))))).))))))...... ( -25.70)
>consensus
AUUU__UCUGUGGGCGA__GCG_AGGGGUUAGAAAAGUGUCAGCAGAAUAAAUGCUGACAAUAAAUAAAAAUGGAAAAUGAUUGAAACAUGUGUC_GGGCAUUUUCGAUUUUUUGAUAU
.....................................((((((((.......))))))))......((((((.(((((((......((....)).....))))))).))))))...... (-21.36 = -21.08 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:07 2006