Locus 37

Sequence ID	2L_DroMel_CAF1
Location	168,397 – 168,497
Length	100
Max. P	0.979340

overview

Window 5

Location	168,397 – 168,497
Length	100
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	91.96
Mean single sequence MFE	-18.98
Consensus MFE	-16.34
Energy contribution	-16.98
Covariance contribution	0.64
Combinations/Pair	1.05
Mean z-score	-1.87
Structure conservation index	0.86
SVM decision value	1.83
SVM RNA-class probability	0.979340
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 168397 100 + 22407834
CGAUGACAAAGCUUUUUCUGUUCUCAAUAUUCCAUUUUCUAUUUUAUGUUACUUCUUGCUCCCGCCAAGCGGUCUUCGGACCUUG-AGCUUUGUUCGCUCU
.(((((((((((((...........................................(((.......)))((((....))))..)-))))))).))).)). ( -21.80)
>DroSec_CAF1 14837 101 + 1
CGAUGACAAAGCUUUUUCUGUUCUCAAUUUUCCAUUUUCUAUUUUAUGUUACUUCUUGCUCCCGCCAAGCGGUCUUUGGAUCUUGUAGCUUUGCUCGCUCU
.((((((((((((...........(((...((((.............((........))..((((...))))....))))..))).))))))).))).)). ( -16.90)
>DroSim_CAF1 15001 101 + 1
CGAUGACAAAGCUUUUUCUGUUCUCAAUUUUCCAUUUUCUAUUUUAUGUUACUUCUUGCUCCCGCCAAGCGGUCUUUGGACCCUGUAGCUUUGGUCGCUCU
.((((((((((((............................................(((.......)))((((....))))....)))))).)))).)). ( -17.10)
>DroEre_CAF1 15042 100 + 1
CGAUGACAAAGCUCUUUCUGUUCUCAAUUUUCCAUUUUCUAUUUUAUUUCCCUUCUUGCACUCAUCAAGCGGUCUUUGGACCUUG-AGCUUUGGUCGCUCU
.(((((((((((((........................................((((.......)))).((((....))))..)-)))))).)))).)). ( -20.00)
>DroYak_CAF1 14892 100 + 1
CGAUGACAAAGCUUUUUCCGUUCUCGAUUUUCCAUUUUCUAUUUUAUUUUACUUCUCGCUCUCAUCAAGCGGUCUUUGGACCUUG-AGCUUUGGUCGCUCU
.(((((((((((((...........................................(((.......)))((((....))))..)-)))))).)))).)). ( -19.10)
>consensus
CGAUGACAAAGCUUUUUCUGUUCUCAAUUUUCCAUUUUCUAUUUUAUGUUACUUCUUGCUCCCGCCAAGCGGUCUUUGGACCUUG_AGCUUUGGUCGCUCU
.((((((((((((............................................(((.......)))((((....))))....))))))).))).)). (-16.34 = -16.98 +   0.64)

alignment

secondary structure

dotplot

Window 6

Location	168,397 – 168,497
Length	100
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	91.96
Mean single sequence MFE	-20.47
Consensus MFE	-17.96
Energy contribution	-17.76
Covariance contribution	-0.20
Combinations/Pair	1.10
Mean z-score	-1.79
Structure conservation index	0.88
SVM decision value	1.82
SVM RNA-class probability	0.978758
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 168397 100 - 22407834
AGAGCGAACAAAGCU-CAAGGUCCGAAGACCGCUUGGCGGGAGCAAGAAGUAACAUAAAAUAGAAAAUGGAAUAUUGAGAACAGAAAAAGCUUUGUCAUCG
.((..((.(((((((-...((((....))))((((.((....))...)))).....................................))))))))).)). ( -20.90)
>DroSec_CAF1 14837 101 - 1
AGAGCGAGCAAAGCUACAAGAUCCAAAGACCGCUUGGCGGGAGCAAGAAGUAACAUAAAAUAGAAAAUGGAAAAUUGAGAACAGAAAAAGCUUUGUCAUCG
.((..((.(((((((......((((....((((...))))..((.....))................))))...(((....)))....))))))))).)). ( -18.40)
>DroSim_CAF1 15001 101 - 1
AGAGCGACCAAAGCUACAGGGUCCAAAGACCGCUUGGCGGGAGCAAGAAGUAACAUAAAAUAGAAAAUGGAAAAUUGAGAACAGAAAAAGCUUUGUCAUCG
.((..(((.((((((....((((....))))((((.((....))...)))).....................................))))))))).)). ( -21.30)
>DroEre_CAF1 15042 100 - 1
AGAGCGACCAAAGCU-CAAGGUCCAAAGACCGCUUGAUGAGUGCAAGAAGGGAAAUAAAAUAGAAAAUGGAAAAUUGAGAACAGAAAGAGCUUUGUCAUCG
.((..(((.((((((-(..((((....)))).((..((...(.((......................)).)..))..))........)))))))))).)). ( -22.05)
>DroYak_CAF1 14892 100 - 1
AGAGCGACCAAAGCU-CAAGGUCCAAAGACCGCUUGAUGAGAGCGAGAAGUAAAAUAAAAUAGAAAAUGGAAAAUCGAGAACGGAAAAAGCUUUGUCAUCG
.((..(((.((((((-...((((....))))((((.....))))............................................))))))))).)). ( -19.70)
>consensus
AGAGCGACCAAAGCU_CAAGGUCCAAAGACCGCUUGGCGGGAGCAAGAAGUAACAUAAAAUAGAAAAUGGAAAAUUGAGAACAGAAAAAGCUUUGUCAUCG
.((..((.(((((((....((((....)))).((((.(....))))).........................................))))))))).)). (-17.96 = -17.76 +  -0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:23:53 2006