Locus 4857

Sequence ID	3L_DroMel_CAF1
Location	13,597,140 – 13,597,260
Length	120
Max. P	0.935147

overview

Window 2

Location	13,597,140 – 13,597,260
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	92.78
Mean single sequence MFE	-40.80
Consensus MFE	-32.96
Energy contribution	-33.68
Covariance contribution	0.72
Combinations/Pair	1.05
Mean z-score	-2.03
Structure conservation index	0.81
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13597140 120 + 23771897
GCCUUUGGGCACGCCUUUUGUUUGGACACAGGCGCUGAAAUUGAUUAAGUUUGUUGCCUGCCAAUGCAAAAGGCACUCAAUCAAAUGCCGCGCUAUUCGUUCGUUCGGCGACAAGGCAAA
(((((((((...(((((((((((((...((((((...(((((.....)))))..)))))))))).))))))))).))))......(((((.((.........)).)))))..)))))... ( -41.90)
>DroSec_CAF1 3975 120 + 1
GCCUUUGGACACGCCUUUUGUUUGGACACAGGCGCUGAAAUUGAUUAAGUUUGUUGCCUGCCAAUGCAAAAGGCACUCAAUCAAACGCCGCGCUGUUCGUUCGAUCGGCGACAAGGCAAA
(((((.......(((((((((((((...((((((...(((((.....)))))..)))))))))).)))))))))...............((((((.((....)).))))).))))))... ( -41.60)
>DroSim_CAF1 13349 120 + 1
GCCUUUGGACACGCCUUUUGUUUGGACACAGGCGCUGAAAUUGAUUAAGUUUGUUGCCUGCCAAUGCAAAAGGCACUCAAUCAAACGCCGCGCUGUUCGUUCGAUCGGCGACAAGGCAAA
(((((.......(((((((((((((...((((((...(((((.....)))))..)))))))))).)))))))))...............((((((.((....)).))))).))))))... ( -41.60)
>DroEre_CAF1 5185 120 + 1
GCCUUUGGGCACGCCUUUUGUUUGGACACAGGCGCUGAAAUUGAUUAAGUUUGUUGCCUGCCAAUGGAAAAGGCACUCAAUCAAACGCCGCGCUGCUCGUUCGAUCGGCGACAAGGCAAA
(((....)))..(((((((.(((((...((((((...(((((.....)))))..)))))))))).).)))))))............(((.(((((.((....)).)))))....)))... ( -41.20)
>DroYak_CAF1 10141 120 + 1
GCCUUUGGGCACGCCUUUUGUUUGGACACAGGCGCUGAAAUUGAUUAAGUUUGUUGCCUGCCAAUGGAAAAGGCACUCAAUCAAACGCCGCGCUGUUCGUUCGAUCGGCGACAAGGCAAA
(((....)))..(((((((.(((((...((((((...(((((.....)))))..)))))))))).).)))))))............(((.(((((.((....)).)))))....)))... ( -41.30)
>DroAna_CAF1 39733 107 + 1
GCCUUUGGGCACGCCUUUUGUUUGGACACAGGCGCUGAAAUUGAUUAAGUUUGUUGCCUGCCAAUGGAAAAGGCACUCAAUCAAGCGCC-------------GAUCGGCGGCGAGUGCAA
........(((((((((((.(((((...((((((...(((((.....)))))..)))))))))).).)))))))...........((((-------------(.....))))).)))).. ( -37.20)
>consensus
GCCUUUGGGCACGCCUUUUGUUUGGACACAGGCGCUGAAAUUGAUUAAGUUUGUUGCCUGCCAAUGCAAAAGGCACUCAAUCAAACGCCGCGCUGUUCGUUCGAUCGGCGACAAGGCAAA
(((((((((...(((((((..((((...((((((...(((((.....)))))..))))))))))...))))))).))))......(((((..(.........)..)))))..)))))... (-32.96 = -33.68 +   0.72)

alignment

secondary structure

dotplot

Window 3

Location	13,597,140 – 13,597,260
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	92.78
Mean single sequence MFE	-38.85
Consensus MFE	-34.14
Energy contribution	-34.67
Covariance contribution	0.53
Combinations/Pair	1.03
Mean z-score	-1.89
Structure conservation index	0.88
SVM decision value	1.24
SVM RNA-class probability	0.935147
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13597140 120 - 23771897
UUUGCCUUGUCGCCGAACGAACGAAUAGCGCGGCAUUUGAUUGAGUGCCUUUUGCAUUGGCAGGCAACAAACUUAAUCAAUUUCAGCGCCUGUGUCCAAACAAAAGGCGUGCCCAAAGGC
...(((((..((((.............((((.....(((((((((((((.........))).(....)..)))))))))).....)))).(((......)))...))))......))))) ( -37.50)
>DroSec_CAF1 3975 120 - 1
UUUGCCUUGUCGCCGAUCGAACGAACAGCGCGGCGUUUGAUUGAGUGCCUUUUGCAUUGGCAGGCAACAAACUUAAUCAAUUUCAGCGCCUGUGUCCAAACAAAAGGCGUGUCCAAAGGC
...(((((..(((((((((((((..........))))))))))...((((((((..(((((((((......................)))))...)))).)))))))))))....))))) ( -39.35)
>DroSim_CAF1 13349 120 - 1
UUUGCCUUGUCGCCGAUCGAACGAACAGCGCGGCGUUUGAUUGAGUGCCUUUUGCAUUGGCAGGCAACAAACUUAAUCAAUUUCAGCGCCUGUGUCCAAACAAAAGGCGUGUCCAAAGGC
...(((((..(((((((((((((..........))))))))))...((((((((..(((((((((......................)))))...)))).)))))))))))....))))) ( -39.35)
>DroEre_CAF1 5185 120 - 1
UUUGCCUUGUCGCCGAUCGAACGAGCAGCGCGGCGUUUGAUUGAGUGCCUUUUCCAUUGGCAGGCAACAAACUUAAUCAAUUUCAGCGCCUGUGUCCAAACAAAAGGCGUGCCCAAAGGC
...(((((((.((((......)).)).))(.(((..(((((((((((((.........))).(....)..)))))))))).....((((((.(((....)))..)))))))))).))))) ( -40.30)
>DroYak_CAF1 10141 120 - 1
UUUGCCUUGUCGCCGAUCGAACGAACAGCGCGGCGUUUGAUUGAGUGCCUUUUCCAUUGGCAGGCAACAAACUUAAUCAAUUUCAGCGCCUGUGUCCAAACAAAAGGCGUGCCCAAAGGC
...((((((.(((.(.((....)).).))))(((..(((((((((((((.........))).(....)..)))))))))).....((((((.(((....)))..)))))))))..))))) ( -40.20)
>DroAna_CAF1 39733 107 - 1
UUGCACUCGCCGCCGAUC-------------GGCGCUUGAUUGAGUGCCUUUUCCAUUGGCAGGCAACAAACUUAAUCAAUUUCAGCGCCUGUGUCCAAACAAAAGGCGUGCCCAAAGGC
........((((((....-------------((((((((((((((((((.........))).(....)..))))))))).....))))))(((......)))...)))).))........ ( -36.40)
>consensus
UUUGCCUUGUCGCCGAUCGAACGAACAGCGCGGCGUUUGAUUGAGUGCCUUUUCCAUUGGCAGGCAACAAACUUAAUCAAUUUCAGCGCCUGUGUCCAAACAAAAGGCGUGCCCAAAGGC
...(((((..((((.................((((((((((((((((((.........))).(....)..)))))))))).....)))))(((......)))...))))......))))) (-34.14 = -34.67 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:19 2006