Locus 5248

Sequence ID	X_DroMel_CAF1
Location	13,696,033 – 13,696,151
Length	118
Max. P	0.885415

overview

Window 5

Location	13,696,033 – 13,696,151
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	80.32
Mean single sequence MFE	-25.96
Consensus MFE	-13.54
Energy contribution	-14.18
Covariance contribution	0.64
Combinations/Pair	1.15
Mean z-score	-2.16
Structure conservation index	0.52
SVM decision value	0.54
SVM RNA-class probability	0.773480
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13696033 118 + 22224390
AUCAGGAAACUAAUU-UGUUGAAUUUUCGAAAUGUUUUCGAUAUAAUGUCAAAU-UUCUUAUGAAGGCUUUGGAAAAUUUGGAAAUUAGUUUACCUGAUUUUCCUGAACCCACACAGACG
(((((((((((((((-(.(..(((((((.(((.((((((.(((.(((.....))-)...)))))))))))).)))))))..))))))))))).))))))....(((........)))... ( -32.80)
>DroSec_CAF1 7963 118 + 1
AUCAGGAAACUAAUU-UGUUGAAUUUUCGAAAUGUUUUCGAAAUAAUGUCAAAU-UUCUUAUGAGGAAUUUUGAAAAUUUUGAAACUAGUUUGCCUGAUUUUCCUGAACUCACACAGACG
((((((((((((.((-(...(((((((((((((.((((((((((........))-)))....))))))))))))))))))..))).)))))).))))))....(((........)))... ( -27.30)
>DroSim_CAF1 15644 107 + 1
AUCAGGAAACUAAUU-UGUUGAAUUUUC-----------GAAAUAAUGUCAAAU-UUCUUAUGAGGAAUUUUGAAAAUUUUGAAACUAGUUUACCUGAUUUUCCUGAACUCACACAGACG
((((((((((((.((-(...((((((((-----------(((((..(.(((...-......))).).)))))))))))))..))).)))))).))))))....(((........)))... ( -23.70)
>DroEre_CAF1 8279 101 + 1
AUCAGGAAACUAAUU-UGUGGAAUUUUUG-UGUGUUCUCGAAAUGGUGUCAGAU-----------------UUAAAGUUUUGAAACUAGUUUACCUGAUUUUGCUGAACUCACACAGACG
((((((((((...((-((.(((((.....-...))))))))).((((.(((((.-----------------.......))))).)))))))).))))))....(((........)))... ( -21.00)
>DroYak_CAF1 13617 118 + 1
AUCAGGAAACUAAUUUUGUGAAUAAUUUU-UGUAUUCUCGAAAUAGUGUCAAAUGUUGUUUUGAAG-AUUUUGAAAGUUUUGAAACUAGUUUACCUGAUUUUCCUGAACUCACACAGACG
((((((((((((.(((((.....((((((-((...(((((((((((..(...)..)))))))).))-)...)))))))).))))).)))))).))))))....(((........)))... ( -25.00)
>consensus
AUCAGGAAACUAAUU_UGUUGAAUUUUCG_AAUGUUCUCGAAAUAAUGUCAAAU_UUCUUAUGAAG_AUUUUGAAAAUUUUGAAACUAGUUUACCUGAUUUUCCUGAACUCACACAGACG
((((((((((((.((...((((((((((............................................)))))))))).)).)))))).))))))....(((........)))... (-13.54 = -14.18 +   0.64)

alignment

secondary structure

dotplot

Window 6

Location	13,696,033 – 13,696,151
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	80.32
Mean single sequence MFE	-22.21
Consensus MFE	-13.26
Energy contribution	-14.50
Covariance contribution	1.24
Combinations/Pair	1.04
Mean z-score	-2.19
Structure conservation index	0.60
SVM decision value	0.94
SVM RNA-class probability	0.885415
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13696033 118 - 22224390
CGUCUGUGUGGGUUCAGGAAAAUCAGGUAAACUAAUUUCCAAAUUUUCCAAAGCCUUCAUAAGAA-AUUUGACAUUAUAUCGAAAACAUUUCGAAAAUUCAACA-AAUUAGUUUCCUGAU
..((((........))))...((((((.((((((((((.((((((((...............)))-)))))........(((((.....))))).........)-))))))))))))))) ( -24.16)
>DroSec_CAF1 7963 118 - 1
CGUCUGUGUGAGUUCAGGAAAAUCAGGCAAACUAGUUUCAAAAUUUUCAAAAUUCCUCAUAAGAA-AUUUGACAUUAUUUCGAAAACAUUUCGAAAAUUCAACA-AAUUAGUUUCCUGAU
..((((........))))...((((((.((((((((((........(((((.(((.......)))-.))))).....(((((((.....))))))).......)-))))))))))))))) ( -26.40)
>DroSim_CAF1 15644 107 - 1
CGUCUGUGUGAGUUCAGGAAAAUCAGGUAAACUAGUUUCAAAAUUUUCAAAAUUCCUCAUAAGAA-AUUUGACAUUAUUUC-----------GAAAAUUCAACA-AAUUAGUUUCCUGAU
..((((........))))...((((((.((((((((((...(((((((.((((...(((.((...-.)))))....)))).-----------)))))))....)-))))))))))))))) ( -24.10)
>DroEre_CAF1 8279 101 - 1
CGUCUGUGUGAGUUCAGCAAAAUCAGGUAAACUAGUUUCAAAACUUUAA-----------------AUCUGACACCAUUUCGAGAACACA-CAAAAAUUCCACA-AAUUAGUUUCCUGAU
....((((((..(((.......((((((.....((((....))))....-----------------)))))).........)))..))))-))...........-.(((((....))))) ( -14.99)
>DroYak_CAF1 13617 118 - 1
CGUCUGUGUGAGUUCAGGAAAAUCAGGUAAACUAGUUUCAAAACUUUCAAAAU-CUUCAAAACAACAUUUGACACUAUUUCGAGAAUACA-AAAAUUAUUCACAAAAUUAGUUUCCUGAU
..((((........))))...((((((.((((((((((........((.((((-..(((((......)))))....)))).))(((((..-.....)))))...)))))))))))))))) ( -21.40)
>consensus
CGUCUGUGUGAGUUCAGGAAAAUCAGGUAAACUAGUUUCAAAAUUUUCAAAAU_CCUCAUAAGAA_AUUUGACAUUAUUUCGAAAACACA_CGAAAAUUCAACA_AAUUAGUUUCCUGAU
..((((........))))...((((((.(((((((((....(((((((............................................)))))))......))))))))))))))) (-13.26 = -14.50 +   1.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:16 2006