Locus 3857

Sequence ID	3L_DroMel_CAF1
Location	11,166,087 – 11,166,185
Length	98
Max. P	0.996547

overview

Window 5

Location	11,166,087 – 11,166,185
Length	98
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	76.38
Mean single sequence MFE	-25.20
Consensus MFE	-14.70
Energy contribution	-15.20
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-3.36
Structure conservation index	0.58
SVM decision value	2.71
SVM RNA-class probability	0.996547
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11166087 98 + 23771897
ACGCAUGCACAGAUGGCAUUUUUAAUUUCCAUUGCCUUUCGAAAUUGCUUUUGAAAUGGCAUUUUAAAAAUUUAAUUGCCAGCUCUGGCCCGCCAACA-------------
..((..((.(((((((((.....(((((....((((((((((((....)))))))).))))......)))))....)))))..))))))..)).....------------- ( -26.60)
>DroPse_CAF1 76081 103 + 1
ACUGGCAGACAGUUGGCAUUUUUAAUUUGCACUGCCGUUCGAAAUUGCUUUUGAAAUGGCAUUUUAAAAAUUUAAUUGCCAGGCUCC--------CUCUCUGCCCUCGCUU
...((((((.((((((((.....(((((....((((((((((((....))))).)))))))......)))))....)))))).....--------)).))))))....... ( -28.90)
>DroSec_CAF1 26496 84 + 1
ACGCAUGCACAGUUGGCAUUUUUAAUUUCCAUUGCCGUUCGAAAUUGCUUUUGAAAUGGAAUUUUAAAAAUUUAAUUGC--------------CAACA-------------
...........((((((((((((((.(((((((.....((((((....)))))))))))))..)))))))......)))--------------)))).------------- ( -20.90)
>DroSim_CAF1 27235 84 + 1
ACGCAUGCACAGUUGGCAUUUUUAAUUUCCAUUGCCGUUCGAAAUUGCUUUUGAAAUGGCAUUUUAAAAAUUUAAUUGC--------------CAACA-------------
...........(((((((.....(((((....((((((((((((....))))).)))))))......)))))....)))--------------)))).------------- ( -22.90)
>DroYak_CAF1 28227 108 + 1
ACGCGUGCACAGUUGGCAUUUUUAAUUUCCAUUGCCGUUCGAAAUUGCUUUUGAAAUGGCAUUUUAAAAAUUUAAUUGCCAGCUCUGCCGCCCCAACUCCUUG---UCCCU
..(((.(((.((((((((.....(((((....((((((((((((....))))).)))))))......)))))....)))))))).))))))............---..... ( -33.30)
>DroAna_CAF1 29696 103 + 1
ACACAUACACAGUUGGCAUUUUUAAUUUGCACUGCCGUUCGAAAUUGCUUUUGAAAUGGCAUUUUAAAAAUUUAAUUGCCCGC--------CCCAUCUUCUCCUAUCGCCU
...........((.((((.....(((((....((((((((((((....))))).)))))))......)))))....)))).))--------.................... ( -18.60)
>consensus
ACGCAUGCACAGUUGGCAUUUUUAAUUUCCAUUGCCGUUCGAAAUUGCUUUUGAAAUGGCAUUUUAAAAAUUUAAUUGCCAGC__________CAACA_____________
.........(((((((.((((((((.......((((((((((((....))))).)))))))..)))))))))))))))................................. (-14.70 = -15.20 +   0.50)

alignment

secondary structure

dotplot

Window 6

Location	11,166,087 – 11,166,185
Length	98
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	76.38
Mean single sequence MFE	-23.73
Consensus MFE	-11.75
Energy contribution	-12.58
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.05
Structure conservation index	0.50
SVM decision value	0.68
SVM RNA-class probability	0.819632
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11166087 98 - 23771897
-------------UGUUGGCGGGCCAGAGCUGGCAAUUAAAUUUUUAAAAUGCCAUUUCAAAAGCAAUUUCGAAAGGCAAUGGAAAUUAAAAAUGCCAUCUGUGCAUGCGU
-------------.....(((.((((((..(((((....((((((((...((((.((((.(((....))).)))))))).)))))))).....))))))))).)).))).. ( -29.20)
>DroPse_CAF1 76081 103 - 1
AAGCGAGGGCAGAGAG--------GGAGCCUGGCAAUUAAAUUUUUAAAAUGCCAUUUCAAAAGCAAUUUCGAACGGCAGUGCAAAUUAAAAAUGCCAACUGUCUGCCAGU
..((...((((((.((--------(....)(((((....(((((.((...((((..(((.(((....))).))).)))).)).))))).....))))).)).)))))).)) ( -28.30)
>DroSec_CAF1 26496 84 - 1
-------------UGUUG--------------GCAAUUAAAUUUUUAAAAUUCCAUUUCAAAAGCAAUUUCGAACGGCAAUGGAAAUUAAAAAUGCCAACUGUGCAUGCGU
-------------.((((--------------(((......(((((((..(((((((((.(((....))).)).....))))))).))))))))))))))........... ( -17.50)
>DroSim_CAF1 27235 84 - 1
-------------UGUUG--------------GCAAUUAAAUUUUUAAAAUGCCAUUUCAAAAGCAAUUUCGAACGGCAAUGGAAAUUAAAAAUGCCAACUGUGCAUGCGU
-------------.((((--------------(((....((((((((...((((..(((.(((....))).))).)))).)))))))).....)))))))........... ( -20.20)
>DroYak_CAF1 28227 108 - 1
AGGGA---CAAGGAGUUGGGGCGGCAGAGCUGGCAAUUAAAUUUUUAAAAUGCCAUUUCAAAAGCAAUUUCGAACGGCAAUGGAAAUUAAAAAUGCCAACUGUGCACGCGU
.....---............((((((.((.(((((....((((((((...((((..(((.(((....))).))).)))).)))))))).....))))).)).))).))).. ( -29.80)
>DroAna_CAF1 29696 103 - 1
AGGCGAUAGGAGAAGAUGGG--------GCGGGCAAUUAAAUUUUUAAAAUGCCAUUUCAAAAGCAAUUUCGAACGGCAGUGCAAAUUAAAAAUGCCAACUGUGUAUGUGU
...............(((.(--------(..((((....(((((.((...((((..(((.(((....))).))).)))).)).))))).....))))..)).)))...... ( -17.40)
>consensus
_____________UGUUG__________GCUGGCAAUUAAAUUUUUAAAAUGCCAUUUCAAAAGCAAUUUCGAACGGCAAUGGAAAUUAAAAAUGCCAACUGUGCAUGCGU
...............................((((....((((((((...((((..(((.(((....))).))).)))).)))))))).....)))).............. (-11.75 = -12.58 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:29 2006