Locus 3421

Sequence ID	2L_DroMel_CAF1
Location	9,917,454 – 9,917,654
Length	200
Max. P	0.793407

overview

Window 9

Location	9,917,454 – 9,917,574
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.39
Mean single sequence MFE	-32.85
Consensus MFE	-19.67
Energy contribution	-19.23
Covariance contribution	-0.44
Combinations/Pair	1.42
Mean z-score	-2.38
Structure conservation index	0.60
SVM decision value	0.59
SVM RNA-class probability	0.793407
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9917454 120 - 22407834
UACCUGGCCGUUAUCAUUUUCAUCAGCUUCUUUAUCCUGAAGAACUCGACGCCGUUCAUCAACUACAUCUUUUCCGUGGGCAUCGCCAGCGGCGCUCUGUCGCUCUUCUCCACCAGCGCA
......((((((......(((.((((..........)))).)))..(((.((((((....)))..(((.......)))))).)))..))))))((.(((..(........)..))).)). ( -23.80)
>DroVir_CAF1 15291 120 - 1
UACCUGGCCAUCAUCAUUUUCAUCAGCUUCUUCCUGCUGAAGAAUGCCACGCCAUUUGUCAACUACAUCUUCUCCAUUGGCGUGGCCAGCGGUGUCCUGGCGUUGUUCUCUACCAGCGCC
.....((.((((......(((.(((((........))))).))).(((((((((.......................)))))))))....)))).)).(((((((........))))))) ( -41.80)
>DroGri_CAF1 14681 120 - 1
UAUUUGGCCAUCAUCAUCUUCAUCAGUUUCUUUCUGCUGAAGAACGCGACGCCAUUUGUGAACUACAUCUUCUCAAUUGGUGUGGCGAGCGGUGUCCUCGCGCUAUUCUCCACCAGCGCC
.....((.((((....((((((.(((.......))).)))))).(((.((((((.(((.(((.......))).))).)))))).)))...)))).))..(((((..........))))). ( -41.50)
>DroWil_CAF1 31727 120 - 1
UUCCUGGCUAUCAUCAUUUUCAUUAGCUUCUUUUUGCUAAAGAAUAUUUCACCAUUUGUCAACUACAUUUUCUCCAUUGGUCUGGCCAGUGGUGCCUUGGCGUUAUUCUCCACAAGCGCU
.....(((..........(((.(((((........))))).)))......((((((.((((((((............)))).)))).)))))))))..((((((..........)))))) ( -26.80)
>DroMoj_CAF1 16470 120 - 1
UACUUGGCCAUCAUCAUCUUCAUCAGCUUCUUCCUGCUGAAGAAUGCCACACCGUUUGUCAACUACAUCUUUUCCAUCGGCAUCGCGAGUGGUGUCCUGGCGUUGUUCUCCACCAGCGCU
.....((.(((((((.((((((.(((.......))).))))))(((((........(((.....)))...........)))))...)).))))).)).(((((((........))))))) ( -28.71)
>DroAna_CAF1 13948 120 - 1
UACCUGGCCGUGAUUAUCUUCAUCAGCUUCUUCCUGCUGAAGAACUCCACGCCGUUCGUCAACUACAUCUUCUCCGUGGGCAUUGCCAGCGGCGCCCUGGCGCUCUUCUCCACCAGUGCC
.....(((.(((....((((((.(((.......))).))))))....)))((((((.((...((((.........)))).....)).)))))))))..((((((..........)))))) ( -34.50)
>consensus
UACCUGGCCAUCAUCAUCUUCAUCAGCUUCUUCCUGCUGAAGAACGCCACGCCAUUUGUCAACUACAUCUUCUCCAUUGGCAUGGCCAGCGGUGCCCUGGCGCUAUUCUCCACCAGCGCC
...(((((..........(((.(((((........))))).)))......((((.......................))))...))))).(((((..(((.(.....).)))...))))) (-19.67 = -19.23 +  -0.44)

alignment

secondary structure

dotplot

Window 0

Location	9,917,534 – 9,917,654
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	85.56
Mean single sequence MFE	-31.71
Consensus MFE	-23.92
Energy contribution	-23.45
Covariance contribution	-0.47
Combinations/Pair	1.27
Mean z-score	-2.13
Structure conservation index	0.75
SVM decision value	0.05
SVM RNA-class probability	0.558321
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9917534 120 - 22407834
ACGAGCGCAUCCUGUGGAAGAAGAACGAGGUAGCCGACUACGAGGCCACCACCUUCUCCAUCUUCUACAACAACGCCAUCUACCUGGCCGUUAUCAUUUUCAUCAGCUUCUUUAUCCUGA
..((((......(((((((((((((.(.(((.(((........))).))).).))))...)))))))))..(((((((......))).)))).............))))........... ( -32.90)
>DroVir_CAF1 15371 120 - 1
ACGAACGCAUCCUGUGGAAGAAGAACGAGGUUGCCGACUAUGAAGCGACCACAUACUCGAUUUUCUAUAACAACGCCCUCUACCUGGCCAUCAUCAUUUUCAUCAGCUUCUUCCUGCUGA
..((((((.....)))((((((((.(((((((((..........))))))......))).))))))........(((........)))..))......))).(((((........))))) ( -24.80)
>DroGri_CAF1 14761 120 - 1
ACGAACGCAUCCUGUGGAAGAAGAACGAGGUGGCUGACUAUGAGGCAACCACAUAUUCGAUUUUCUACAACAAUGCCAUCUAUUUGGCCAUCAUCAUCUUCAUCAGUUUCUUUCUGCUGA
.....(((.....)))...(((((..((((((((..(.((.((((((..........................)))).)))).)..)))))).)).))))).(((((........))))) ( -28.77)
>DroWil_CAF1 31807 120 - 1
AUGAACGCAUCUUGUGGAAAAAGAACGAAGUGGCUGACUAUGAAGCCACCACGUAUUCGAUUUUCUAUAACAAUGCCCUCUUCCUGGCUAUCAUCAUUUUCAUUAGCUUCUUUUUGCUAA
(((((.((((.((((((((((.(((((..((((((........))))))..)))..))..))))))))))..))))((.......))...........)))))((((........)))). ( -30.00)
>DroMoj_CAF1 16550 120 - 1
ACGAACGCAUCCUGUGGAAGAAGAAUGAAGUUGCCGACUACGAGGCCACGACCUAUUCGAUUUUCUACAACAAUGCCAUCUACUUGGCCAUCAUCAUCUUCAUCAGCUUCUUCCUGCUGA
..(((.......(((((((((.(((((..((.(((........))).))....)))))..))))))))).....((((......))))..........))).(((((........))))) ( -30.70)
>DroAna_CAF1 14028 120 - 1
AUGAGCGUAUCCUGUGGAAGAAGAACGAGGUGGCCGACUACGAGGCCACCACCUUCUCCAUCUUCUACAAUAACGCCAUCUACCUGGCCGUGAUUAUCUUCAUCAGCUUCUUCCUGCUGA
.((((.(((((((((((((((((((.(.(((((((........))))))).).))))...))))))))).....((((......)))).).)).))).))))(((((........))))) ( -43.10)
>consensus
ACGAACGCAUCCUGUGGAAGAAGAACGAGGUGGCCGACUACGAGGCCACCACCUACUCGAUUUUCUACAACAACGCCAUCUACCUGGCCAUCAUCAUCUUCAUCAGCUUCUUCCUGCUGA
..(((.......(((((((((.((..(.(((.(((........))).))).)....))..))))))))).....((((......))))..........))).(((((........))))) (-23.92 = -23.45 +  -0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:10 2006