Locus 5798

Sequence ID	X_DroMel_CAF1
Location	15,032,760 – 15,032,858
Length	98
Max. P	0.819326

overview

Window 7

Location	15,032,760 – 15,032,858
Length	98
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	83.56
Mean single sequence MFE	-27.37
Consensus MFE	-20.58
Energy contribution	-20.47
Covariance contribution	-0.11
Combinations/Pair	1.04
Mean z-score	-2.52
Structure conservation index	0.75
SVM decision value	0.68
SVM RNA-class probability	0.819326
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15032760 98 + 22224390
--CCU-----CCCCUUUUUCUCCUCCUCUUCCAUUUGCAUGCUUCGAGA-GCCAAAAAUUGCUCUCCAAUGCGUGGCAAAGCAGAGUGCAAAGCCAAAAGGAGAAU
--...-----.......(((((((.((((....(((((((((((.((((-((........)))))).)).)))).)))))..)))).((...))....))))))). ( -29.00)
>DroPse_CAF1 62658 106 + 1
CACUUGAACUUGUUCUGUUCUGCUUCUUUUCCAUUUGCAUGCUUCGAGAUGCCAAAAAUUGCUCUCCAAUGCGUGACAAAGCAAAGUGAAAAGCCCAAAGUAGAAU
.....(((....))).((((((((((((((((.(((((((((((.((((.((........)))))).)).))))).)))).....).))))))....))))))))) ( -26.10)
>DroSim_CAF1 53552 95 + 1
----------CCCCCUUUUCUCCUCCUCUUCCAUUUGCAUGCUUCGAGA-GCCAAAAAUUGCUCUCCAAUGCGUGGCAAAGCAGAGUGCAAAGCCAAAAGGAGAAU
----------.......(((((((.((((....(((((((((((.((((-((........)))))).)).)))).)))))..)))).((...))....))))))). ( -29.00)
>DroEre_CAF1 51014 97 + 1
--CCA-----CCGCUUUUCCUCCUCUUCGUCCAUUUGCAUGCUUCG-GA-GCCAAAAAUUGCUCUCCAAUGCGUGGCAAAGCAGAGUGCAAAGCCAAAAGGAGAAU
--...-----.........(((((.((.((...(((((((.((.(.-..-((((...((((.....))))...))))...).)).))))))))).)).)))))... ( -24.30)
>DroYak_CAF1 50828 94 + 1
-----------CGAAUUUUCUCCUCUUCAUCCAUUUGCAUGCUUCGAGA-GCCAAAAAUUGCUCUCCAAUGCGUGGCAAAGCAGAGGGCAAAGCCAAAAGGAGAAU
-----------......(((((((.....((..(((((((((((.((((-((........)))))).)).)))).)))))...)).(((...)))...))))))). ( -30.10)
>DroPer_CAF1 63287 106 + 1
CACUUGUACUUGUUCUGUUCUGCUUCUUUUCCAUUUGCAUGCUUCGAGAUGCCAAAAAUUGCUCUCCAAUGCGUGACAAAGCAAAGUGAAAAGCCCAAAGUAGAAU
................((((((((((((((((.(((((((((((.((((.((........)))))).)).))))).)))).....).))))))....))))))))) ( -25.70)
>consensus
__C_U_____CCCCCUUUUCUCCUCCUCUUCCAUUUGCAUGCUUCGAGA_GCCAAAAAUUGCUCUCCAAUGCGUGGCAAAGCAGAGUGCAAAGCCAAAAGGAGAAU
.................(((((((.........(((((((((((.((((.((........)))))).)).))))).))))((..........))....))))))). (-20.58 = -20.47 +  -0.11)

alignment

secondary structure

dotplot

Window 8

Location	15,032,760 – 15,032,858
Length	98
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	83.56
Mean single sequence MFE	-31.17
Consensus MFE	-23.60
Energy contribution	-23.97
Covariance contribution	0.36
Combinations/Pair	1.16
Mean z-score	-2.13
Structure conservation index	0.76
SVM decision value	0.45
SVM RNA-class probability	0.742514
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15032760 98 - 22224390
AUUCUCCUUUUGGCUUUGCACUCUGCUUUGCCACGCAUUGGAGAGCAAUUUUUGGC-UCUCGAAGCAUGCAAAUGGAAGAGGAGGAGAAAAAGGGG-----AGG--
.((((((((((..(((..(.((((.((((((...((.((.((((((........))-)))).))))..))))).)..)))))..))).))))))))-----)).-- ( -37.40)
>DroPse_CAF1 62658 106 - 1
AUUCUACUUUGGGCUUUUCACUUUGCUUUGUCACGCAUUGGAGAGCAAUUUUUGGCAUCUCGAAGCAUGCAAAUGGAAAAGAAGCAGAACAGAACAAGUUCAAGUG
....(((((.(((((((((..((((((((.((..(((((.((((((........)).)))).)...)))).....))...))))))))...))).))))))))))) ( -26.40)
>DroSim_CAF1 53552 95 - 1
AUUCUCCUUUUGGCUUUGCACUCUGCUUUGCCACGCAUUGGAGAGCAAUUUUUGGC-UCUCGAAGCAUGCAAAUGGAAGAGGAGGAGAAAAGGGGG----------
...((((((((..(((..(.((((.((((((...((.((.((((((........))-)))).))))..))))).)..)))))..))).))))))))---------- ( -33.60)
>DroEre_CAF1 51014 97 - 1
AUUCUCCUUUUGGCUUUGCACUCUGCUUUGCCACGCAUUGGAGAGCAAUUUUUGGC-UC-CGAAGCAUGCAAAUGGACGAAGAGGAGGAAAAGCGG-----UGG--
.((((((((((.((((((((...((((((((((.....))).((((........))-))-))))))))))))..)).).)))))))))).......-----...-- ( -32.60)
>DroYak_CAF1 50828 94 - 1
AUUCUCCUUUUGGCUUUGCCCUCUGCUUUGCCACGCAUUGGAGAGCAAUUUUUGGC-UCUCGAAGCAUGCAAAUGGAUGAAGAGGAGAAAAUUCG-----------
.(((((((((((((...))).((((.(((((...((.((.((((((........))-)))).))))..)))))))))..))))))))))......----------- ( -33.20)
>DroPer_CAF1 63287 106 - 1
AUUCUACUUUGGGCUUUUCACUUUGCUUUGUCACGCAUUGGAGAGCAAUUUUUGGCAUCUCGAAGCAUGCAAAUGGAAAAGAAGCAGAACAGAACAAGUACAAGUG
....(((((.(..((((((..((((((((.((..(((((.((((((........)).)))).)...)))).....))...))))))))...))).)))..)))))) ( -23.80)
>consensus
AUUCUCCUUUUGGCUUUGCACUCUGCUUUGCCACGCAUUGGAGAGCAAUUUUUGGC_UCUCGAAGCAUGCAAAUGGAAGAGGAGGAGAAAAGGAGG_____A_G__
.(((((((((((((...((.....))...)))..((.((.((((((........)).)))).)))).............))))))))))................. (-23.60 = -23.97 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:37 2006