Locus 3847

Sequence ID	3L_DroMel_CAF1
Location	11,146,115 – 11,146,229
Length	114
Max. P	0.988165

overview

Window 2

Location	11,146,115 – 11,146,229
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	80.29
Mean single sequence MFE	-27.45
Consensus MFE	-16.34
Energy contribution	-16.98
Covariance contribution	0.64
Combinations/Pair	1.18
Mean z-score	-2.80
Structure conservation index	0.60
SVM decision value	2.11
SVM RNA-class probability	0.988165
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11146115 114 + 23771897
ACUAACUUAUUCUCAGAAAUAUGUAACCUUGUAUGUGUUCAACUUGAUGGGCGAAAAUCCCGUCGAACCAUGACAAUAUGAAUGUAAUUAUUUUAUAAUAUGACAGAGAAUGAG------
.....(((((((((..............(((((((.((((.....((((((.......))))))))))))).))))......(((...((((....))))..))))))))))))------ ( -26.10)
>DroSec_CAF1 7065 120 + 1
ACUAACUUAUUCUCAGAAAUAUGUAACCUUGUAAGUGUUCAACUUGAUAGGCGAAAAUCCAGUCGAACCAUGACAAUAUGAAUGUAAUUGUUUUAUAAUAUGACAGAGAAUAAGUUGGAG
.(((((((((((((..............((((....((((.(((.(((........))).))).))))....))))......(((...((((....))))..)))))))))))))))).. ( -29.30)
>DroSim_CAF1 7113 119 + 1
ACUAACUUAUUCUCAGAAAUCGGUAACCUUGUA-GUGUUCAACUUGAUAGGCGAAAUUCCCGUCGAACCAUGACAAUAUGAAUGUAAUUGUUUUAUAAUAUGACAGAGAAUAAGUUGGAG
.(((((((((((((.....(((....(((...(-((.....)))....)))))).......((((......((((((.........))))))........)))).))))))))))))).. ( -28.04)
>DroEre_CAF1 7132 104 + 1
ACUAACUUGUUCUCAGAAAUAUUUAACCUUG----UGUUCAACU-------CGAAAAGCCCUUCGAACCAUGACAAUAUGAAUGCAGUUGUUAUAUAAU-----AGAGAAUGAGUUGGGG
.((((((..(((((.....(((.((((.(((----((((((..(-------((((......)))))...((....)).)))))))))..)))).)))..-----.)))))..)))))).. ( -27.40)
>DroYak_CAF1 7408 104 + 1
ACCAACUUAUUCUUAGAAAUAUUUAACCUUG----UGUUCAAAU-------CGAAAACACCUUCCAUCCAUGACAAUAUGAAUGCAGUUGUUAAAUUAU-----ACAGAAUAAGUUGGGU
.((((((((((((.......(((((((.(((----((((((...-------.(((......)))((....))......)))))))))..)))))))...-----..)))))))))))).. ( -26.40)
>consensus
ACUAACUUAUUCUCAGAAAUAUGUAACCUUGUA_GUGUUCAACUUGAU_GGCGAAAAUCCCGUCGAACCAUGACAAUAUGAAUGUAAUUGUUUUAUAAUAUGACAGAGAAUAAGUUGGAG
.(((((((((((((.....................................(((........)))......((((((.........)))))).............))))))))))))).. (-16.34 = -16.98 +   0.64)

alignment

secondary structure

dotplot

Window 3

Location	11,146,115 – 11,146,229
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	80.29
Mean single sequence MFE	-24.68
Consensus MFE	-13.19
Energy contribution	-14.35
Covariance contribution	1.16
Combinations/Pair	1.13
Mean z-score	-2.24
Structure conservation index	0.53
SVM decision value	0.76
SVM RNA-class probability	0.843738
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11146115 114 - 23771897
------CUCAUUCUCUGUCAUAUUAUAAAAUAAUUACAUUCAUAUUGUCAUGGUUCGACGGGAUUUUCGCCCAUCAAGUUGAACACAUACAAGGUUACAUAUUUCUGAGAAUAAGUUAGU
------((.((((((.(..((((.....................((((.((((((((((..(((........)))..))))))).)))))))(....)))))..).)))))).))..... ( -21.00)
>DroSec_CAF1 7065 120 - 1
CUCCAACUUAUUCUCUGUCAUAUUAUAAAACAAUUACAUUCAUAUUGUCAUGGUUCGACUGGAUUUUCGCCUAUCAAGUUGAACACUUACAAGGUUACAUAUUUCUGAGAAUAAGUUAGU
....(((((((((((.(..((((.....................((((....((((((((.(((........))).))))))))....))))(....)))))..).)))))))))))... ( -26.80)
>DroSim_CAF1 7113 119 - 1
CUCCAACUUAUUCUCUGUCAUAUUAUAAAACAAUUACAUUCAUAUUGUCAUGGUUCGACGGGAAUUUCGCCUAUCAAGUUGAACAC-UACAAGGUUACCGAUUUCUGAGAAUAAGUUAGU
....(((((((((((.(((.........................((((....(((((((..((..........))..)))))))..-.))))((...)))))....)))))))))))... ( -25.70)
>DroEre_CAF1 7132 104 - 1
CCCCAACUCAUUCUCU-----AUUAUAUAACAACUGCAUUCAUAUUGUCAUGGUUCGAAGGGCUUUUCG-------AGUUGAACA----CAAGGUUAAAUAUUUCUGAGAACAAGUUAGU
....((((..(((((.-----..(((.((((...((..((((..(((....((((.....))))...))-------)..))))..----))..)))).))).....)))))..))))... ( -17.60)
>DroYak_CAF1 7408 104 - 1
ACCCAACUUAUUCUGU-----AUAAUUUAACAACUGCAUUCAUAUUGUCAUGGAUGGAAGGUGUUUUCG-------AUUUGAACA----CAAGGUUAAAUAUUUCUAAGAAUAAGUUGGU
..((((((((((((..-----...(((((((..((.(((((((......)))))))..))((((((...-------....)))))----)...))))))).......)))))))))))). ( -32.30)
>consensus
CCCCAACUUAUUCUCUGUCAUAUUAUAAAACAAUUACAUUCAUAUUGUCAUGGUUCGACGGGAUUUUCGCC_AUCAAGUUGAACAC_UACAAGGUUACAUAUUUCUGAGAAUAAGUUAGU
....(((((((((((...............((...(((.......)))..))(((((((..................)))))))......................)))))))))))... (-13.19 = -14.35 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:17 2006