Locus 2916

Sequence ID	2L_DroMel_CAF1
Location	8,391,309 – 8,391,421
Length	112
Max. P	0.804998

overview

Window 6

Location	8,391,309 – 8,391,421
Length	112
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	81.69
Mean single sequence MFE	-37.38
Consensus MFE	-22.55
Energy contribution	-22.89
Covariance contribution	0.34
Combinations/Pair	1.24
Mean z-score	-1.74
Structure conservation index	0.60
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8391309 112 + 22407834
UCAUAUCCAAAUAGCGUCGUCGCUGCUCUUGCAGGAACGCCUGUCGCUCCUGGGUUCGAGUUUCCUCAUGGAACCCGCACAGAUCCCU------CGCUUUCUGUGCAGGAUCC-GUGGU
((..(((((...((((.(((..((((....))))..))).....))))..)))))..))......(((((((.((.(((((((.....------.....))))))).)).)))-)))). ( -40.70)
>DroSec_CAF1 12883 112 + 1
CCAUAUCCAAAUAGCGUCGUCGCUGCUCUUGCAGGAACGCCUGUCGCUCCUGGGUUCGAGUUUCCUCAUGGAACUCGCACAGAUCCCU------CGCUUUCUGUGCAAGAUCG-GUGGU
(((((((((...((((.(((..((((....))))..))).....))))..)))))(((((((.((....)))))))(((((((.....------.....)))))))..))...-)))). ( -38.50)
>DroSim_CAF1 11965 112 + 1
CCAUAUCCAAAUAGCGUCGUCGCUGCUCUUGCAGGAACGCCUGUCGCUCCUGGGUUCGAGUUUCCUCAUGGAACUCGCACAGAUCCCU------CGCUUUCUGUGCAGGAUCG-GUGGU
.............((((..((.((((....))))))))))(..(((.((((......(((((.((....)))))))(((((((.....------.....))))))))))).))-)..). ( -40.40)
>DroEre_CAF1 12989 112 + 1
UCAUAUCCAAAUAGCGUCGUCGCUGCGCUUGCAGAAACGCCUGACGCUCCUGUGAUCUAGUUUCCUCAUGGAACUCGCACAGAUCCCU------CGCUUCCUGUGCAGGAUCA-GUGGC
............((((((((..((((....))))..))....))))))((..((((((((((.((....)))))).((((((......------......)))))).))))))-..)). ( -34.00)
>DroYak_CAF1 13061 112 + 1
UCAUUUCCAAAUAGCGUCGUCGCUGCUCCUGCAGAAACGCCUUUCGCUCCUGGGAUCGAGUUUCCUCAUGGAACUCGCACAGAUCCCU------CACUUCCUGUGCAGGAUCA-GGAGC
.............((((.....((((....))))..)))).....((((((((..(((((((.((....)))))))((((((......------......)))))).)).)))-))))) ( -39.80)
>DroAna_CAF1 14393 119 + 1
UCAUUUCCAGGUAACGAUUCCGCUGAUCAACCAGAAAGGCUUGACGUUCCAGUGACCUGGUCUCCUCAUGGAAACUGCAAAGUUCCUUUGAGGUCGAUUCUUUGACCGAAUCCUGUGGU
......((((((........(((((.((((((.....)).)))).....)))))))))))...((.((.(((.....(((((...))))).((((((....))))))...))))).)). ( -30.90)
>consensus
UCAUAUCCAAAUAGCGUCGUCGCUGCUCUUGCAGAAACGCCUGUCGCUCCUGGGAUCGAGUUUCCUCAUGGAACUCGCACAGAUCCCU______CGCUUCCUGUGCAGGAUCA_GUGGU
....(((((...((((.(((..((((....))))..))).....))))..)))))..((((.(((....)))))))((((((..................))))))............. (-22.55 = -22.89 +   0.34)

alignment

secondary structure

dotplot

Window 7

Location	8,391,309 – 8,391,421
Length	112
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	81.69
Mean single sequence MFE	-40.98
Consensus MFE	-28.34
Energy contribution	-27.37
Covariance contribution	-0.96
Combinations/Pair	1.41
Mean z-score	-2.10
Structure conservation index	0.69
SVM decision value	0.63
SVM RNA-class probability	0.804998
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8391309 112 - 22407834
ACCAC-GGAUCCUGCACAGAAAGCG------AGGGAUCUGUGCGGGUUCCAUGAGGAAACUCGAACCCAGGAGCGACAGGCGUUCCUGCAAGAGCAGCGACGACGCUAUUUGGAUAUGA
.....-(((.((((((((((.....------.....)))))))))).))).((((....))))...(((((((((.....((((.((((....)))).)))).)))).)))))...... ( -46.60)
>DroSec_CAF1 12883 112 - 1
ACCAC-CGAUCUUGCACAGAAAGCG------AGGGAUCUGUGCGAGUUCCAUGAGGAAACUCGAACCCAGGAGCGACAGGCGUUCCUGCAAGAGCAGCGACGACGCUAUUUGGAUAUGG
.(((.-.((.((((((((((.....------.....)))))))))).))..((((....))))...(((((((((.....((((.((((....)))).)))).)))).)))))...))) ( -41.60)
>DroSim_CAF1 11965 112 - 1
ACCAC-CGAUCCUGCACAGAAAGCG------AGGGAUCUGUGCGAGUUCCAUGAGGAAACUCGAACCCAGGAGCGACAGGCGUUCCUGCAAGAGCAGCGACGACGCUAUUUGGAUAUGG
.(((.-..((((((((((((.....------.....)))))))).((((..((((....))))....((((((((.....))))))))...))))((((....))))....)))).))) ( -41.60)
>DroEre_CAF1 12989 112 - 1
GCCAC-UGAUCCUGCACAGGAAGCG------AGGGAUCUGUGCGAGUUCCAUGAGGAAACUAGAUCACAGGAGCGUCAGGCGUUUCUGCAAGCGCAGCGACGACGCUAUUUGGAUAUGA
.(((.-...((((....))))((((------..(...((((((.((((((....)).))))......((((((((.....))))))))...))))))...)..))))...)))...... ( -35.10)
>DroYak_CAF1 13061 112 - 1
GCUCC-UGAUCCUGCACAGGAAGUG------AGGGAUCUGUGCGAGUUCCAUGAGGAAACUCGAUCCCAGGAGCGAAAGGCGUUUCUGCAGGAGCAGCGACGACGCUAUUUGGAAAUGA
(((((-((.((((....))))....------.((((((.(((.(....))))(((....)))))))))(((((((.....))))))).)))))))((((....))))............ ( -45.10)
>DroAna_CAF1 14393 119 - 1
ACCACAGGAUUCGGUCAAAGAAUCGACCUCAAAGGAACUUUGCAGUUUCCAUGAGGAGACCAGGUCACUGGAACGUCAAGCCUUUCUGGUUGAUCAGCGGAAUCGUUACCUGGAAAUGA
....((((...(((((.....(((((((..(((((.((.((.((((..((.((.(....)))))..)))).)).))....)))))..))))))).....).))))...))))....... ( -35.90)
>consensus
ACCAC_CGAUCCUGCACAGAAAGCG______AGGGAUCUGUGCGAGUUCCAUGAGGAAACUCGAACCCAGGAGCGACAGGCGUUCCUGCAAGAGCAGCGACGACGCUAUUUGGAUAUGA
.(((.....(((((((((((................)))))))(((((((....)))).)))......))))(((.....((((.((((....)))).)))).)))....)))...... (-28.34 = -27.37 +  -0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:26 2006