Locus 2934

Sequence ID	2L_DroMel_CAF1
Location	8,424,772 – 8,424,931
Length	159
Max. P	0.728471

overview

Window 5

Location	8,424,772 – 8,424,879
Length	107
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	88.00
Mean single sequence MFE	-20.93
Consensus MFE	-17.76
Energy contribution	-17.92
Covariance contribution	0.16
Combinations/Pair	1.05
Mean z-score	-1.51
Structure conservation index	0.85
SVM decision value	0.39
SVM RNA-class probability	0.718187
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8424772 107 - 22407834
CAUAGCAACAACUGUUGUU-CCUUCCUCUUUCACUUCCCCUUUAUCGUCAUCGUCC------CCAUCCUCGUCCUCUGCCCACAACCCCCUGCGGUGGGGCGUGUGAAAAUAAU
...((((((....))))))-.....................((((..((((((.((------((((((.......................).))))))))).))))..)))). ( -21.40)
>DroSec_CAF1 22883 108 - 1
CAUAGCAACAACUGUUGUU-CCUCCCUCUUUCACUUCCCCUUUAUCGUCAUCGUCC-----CCCAUCCUCGUCCUCUGCCCACAACCCCCUGCGGUGGGGCGUGUGAAAAUAAU
...((((((....))))))-........((((((...........((....))...-----................((((...(((......))).))))..))))))..... ( -20.30)
>DroSim_CAF1 22786 108 - 1
CAUAGCAACAACUGUUGUU-UCUCCUUCUUUCACUUCCCCUUUAUCGUCAUCGUCC-----CCCAUCCUCGUCCUCUGCCCACAACCCCAUGCGGUGGGGCGUGUGAAAAUAAU
...((((((....))))))-.....................((((..(((.((..(-----((((.((.(((....((....)).....))).)))))))..)))))..)))). ( -20.40)
>DroEre_CAF1 23181 112 - 1
CCUAGCAACAACUGUUGUUCGCCC--CCUUUCUUUUCCCCUUUAUCGUCAUCGUCAUCGUCCCCAUCCUCGUCCUCUGCCCACAACCCCCUGUGGUGGGGCGUGUGAAAAUAAU
...((((((....)))))).....--...........................((((((.(((((.....((.....))(((((......)))))))))))).))))....... ( -21.80)
>DroYak_CAF1 23321 111 - 1
CCUAGCAACAACUGUUGUU-ACUC--CCUUUCUUCUCUUCUUCUUCGUCAUCGUCCCCAUCUCCAUUCUCGUCCUCUGCCCACAACCCCCUGCGGUGGGGCGUGUGAAAAUAAU
..(((((((....))))))-)...--.................((((.((.((.(((((((................................)))))))))))))))...... ( -20.75)
>consensus
CAUAGCAACAACUGUUGUU_CCUCC_UCUUUCACUUCCCCUUUAUCGUCAUCGUCC_____CCCAUCCUCGUCCUCUGCCCACAACCCCCUGCGGUGGGGCGUGUGAAAAUAAU
...((((((....)))))).........((((((...........((....))........................((((...(((......))).))))..))))))..... (-17.76 = -17.92 +   0.16)

alignment

secondary structure

dotplot

Window 6

Location	8,424,840 – 8,424,931
Length	91
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	78.68
Mean single sequence MFE	-17.37
Consensus MFE	-11.74
Energy contribution	-11.52
Covariance contribution	-0.22
Combinations/Pair	1.24
Mean z-score	-1.41
Structure conservation index	0.68
SVM decision value	0.42
SVM RNA-class probability	0.728471
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8424840 91 - 22407834
CU----ACAACAAUAAUAACAUUAGCGGGUCUGGUCAUUGCACGUUGCUAUGCCAACAUAGCAACAACUGUUGUU-CCUUCCUCUUUCACUUCCCC
..----((((((............((((.........))))..(((((((((....)))))))))...)))))).-.................... ( -19.50)
>DroSec_CAF1 22952 91 - 1
CU----ACAACAAUAAUAACAUUAGCGGGUCUGGUCAUUGCACGUUGCCAUGCCAACAUAGCAACAACUGUUGUU-CCUCCCUCUUUCACUUCCCC
..----.................((.(((..(((.(((.((.....)).))))))....((((((....))))))-...))).))........... ( -16.00)
>DroSim_CAF1 22855 91 - 1
CU----ACAACAAUAAUAACAUUAGCGGGUCUGGUCAUUGCACGUUGCCAUGCCGACAUAGCAACAACUGUUGUU-UCUCCUUCUUUCACUUCCCC
..----((((((.((((...))))((..(((.((.(((.((.....)).))))))))...))......)))))).-.................... ( -15.80)
>DroEre_CAF1 23255 90 - 1
CU----ACAACAAUAAUAACAUUAACGGGUCUGGUCAUUGCACGUUGCCAUGCCAACCUAGCAACAACUGUUGUUCGCCC--CCUUUCUUUUCCCC
..----....................((((.(((.(((.((.....)).))))))....((((((....)))))).))))--.............. ( -16.90)
>DroYak_CAF1 23395 89 - 1
CU----ACAACAAUAAUAACAUUAACGGGUCUGGUCAUUGCACGUUGCCAUGCCAACCUAGCAACAACUGUUGUU-ACUC--CCUUUCUUCUCUUC
..----....................(((..(((.(((.((.....)).))))))...(((((((....))))))-)..)--))............ ( -17.20)
>DroPer_CAF1 23080 77 - 1
CGUAACGCAACGGG--------GAUCGGGUCUGGUCAUCGCACGUUGCCAUGCCAACGAUGUA------GUUGUC-UCU----CUGCCGCUGCUUC
......(((.(((.--------(((((....)))))...((((((((......))))).))).------......-...----...))).)))... ( -18.80)
>consensus
CU____ACAACAAUAAUAACAUUAGCGGGUCUGGUCAUUGCACGUUGCCAUGCCAACAUAGCAACAACUGUUGUU_CCUC__UCUUUCACUUCCCC
..........................(((..(((.(((.((.....)).))))))....((((((....)))))).................))). (-11.74 = -11.52 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:54 2006