Locus 6767

Sequence ID	2L_DroMel_CAF1
Location	18,916,732 – 18,916,831
Length	99
Max. P	0.761824

overview

Window 6

Location	18,916,732 – 18,916,831
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	88.27
Mean single sequence MFE	-27.36
Consensus MFE	-20.19
Energy contribution	-20.07
Covariance contribution	-0.12
Combinations/Pair	1.12
Mean z-score	-1.63
Structure conservation index	0.74
SVM decision value	0.08
SVM RNA-class probability	0.571752
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18916732 99 + 22407834
CCCACUUCCUACCCCUUUCAACUGGCUACCUUUUGGGCCAGGACACUCCACACUUGUUAAUCGCCCGGAGCGUUCAAAGGCACGGGGUAGAACACGACU
........(((((((......((((((........))))))(((.((((.................)))).))).........)))))))......... ( -29.73)
>DroSec_CAF1 41859 92 + 1
CCCACUUC----CC-CUUCAACUGGCUACCUUUUGGGCCAGGACACUCCACACUUGUUAAUCGCCCGGAGCGUUCAAAGGCACGGGGUGGAA--CGACU
.(((((((----.(-(((...((((((........))))))(((.((((.................)))).)))..))))...)))))))..--..... ( -27.93)
>DroSim_CAF1 41458 96 + 1
CCCACUUCCUACCC-CUUCAACUGGCUACCUUUUGGGCCAGGACACUCCACACUUGUUAAUCGCCCGGAGCGUUCAAAGGCACGGGGUAGAA--CGACU
........((((((-(.....((((((........))))))(((.((((.................)))).))).........)))))))..--..... ( -29.73)
>DroEre_CAF1 40380 96 + 1
CCCACAUCCCAGCC-CUUCAACUGGCCACCUUUUGGGCCAGGCCACUCCACACUUGUUAAUCGCCCGGAGCGUUCAAAGGCACGGGGCAAAA--CAACU
...........(((-((....((((((........))))))(((.....((....))....(((.....)))......)))..)))))....--..... ( -27.00)
>DroYak_CAF1 40860 90 + 1
CCCACGUCCUACCC-AUUCAAAUGGCUACCUUUCGGGCCAGGAUACUCCACACUUGUUAAUCGCCCGGAGCGUUC------ACGGGGCAAAA--CAACU
.....(((((..((-((....))))..((.((((((((..((.....))((....)).....)))))))).))..------..)))))....--..... ( -22.40)
>consensus
CCCACUUCCUACCC_CUUCAACUGGCUACCUUUUGGGCCAGGACACUCCACACUUGUUAAUCGCCCGGAGCGUUCAAAGGCACGGGGUAGAA__CGACU
(((...................(((((........)))))((((.((((.................)))).))))........)))............. (-20.19 = -20.07 +  -0.12)

alignment

secondary structure

dotplot

Window 7

Location	18,916,732 – 18,916,831
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	88.27
Mean single sequence MFE	-37.02
Consensus MFE	-26.66
Energy contribution	-27.82
Covariance contribution	1.16
Combinations/Pair	1.12
Mean z-score	-2.07
Structure conservation index	0.72
SVM decision value	0.50
SVM RNA-class probability	0.761824
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18916732 99 - 22407834
AGUCGUGUUCUACCCCGUGCCUUUGAACGCUCCGGGCGAUUAACAAGUGUGGAGUGUCCUGGCCCAAAAGGUAGCCAGUUGAAAGGGGUAGGAAGUGGG
..(((..(((((((((..........((((((((.((.........)).)))))))).(((((((....))..)))))......)))))))))..))). ( -40.20)
>DroSec_CAF1 41859 92 - 1
AGUCG--UUCCACCCCGUGCCUUUGAACGCUCCGGGCGAUUAACAAGUGUGGAGUGUCCUGGCCCAAAAGGUAGCCAGUUGAAG-GG----GAAGUGGG
.....--..((((....(.((((..(((((((((.((.........)).)))))))).(((((((....))..))))))..)))-).----)..)))). ( -34.60)
>DroSim_CAF1 41458 96 - 1
AGUCG--UUCUACCCCGUGCCUUUGAACGCUCCGGGCGAUUAACAAGUGUGGAGUGUCCUGGCCCAAAAGGUAGCCAGUUGAAG-GGGUAGGAAGUGGG
.....--(((((((((..........((((((((.((.........)).)))))))).(((((((....))..))))).....)-))))))))...... ( -38.20)
>DroEre_CAF1 40380 96 - 1
AGUUG--UUUUGCCCCGUGCCUUUGAACGCUCCGGGCGAUUAACAAGUGUGGAGUGGCCUGGCCCAAAAGGUGGCCAGUUGAAG-GGCUGGGAUGUGGG
.....--..(..(((((.((((((.(((((((((.((.........)).))))))((((..(((.....))))))).))).)))-)))))))..)..). ( -39.50)
>DroYak_CAF1 40860 90 - 1
AGUUG--UUUUGCCCCGU------GAACGCUCCGGGCGAUUAACAAGUGUGGAGUAUCCUGGCCCGAAAGGUAGCCAUUUGAAU-GGGUAGGACGUGGG
....(--((((((((...------....((((((.((.........)).))))))....((((((....))..)))).......-)))))))))..... ( -32.60)
>consensus
AGUCG__UUCUACCCCGUGCCUUUGAACGCUCCGGGCGAUUAACAAGUGUGGAGUGUCCUGGCCCAAAAGGUAGCCAGUUGAAG_GGGUAGGAAGUGGG
.......((((((((...........((((((((.((.........)).)))))))).(((((((....))..))))).......))))))))...... (-26.66 = -27.82 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:30 2006