Locus 1936

Sequence ID	2R_DroMel_CAF1
Location	7,301,513 – 7,301,637
Length	124
Max. P	0.978710

overview

Window 9

Location	7,301,513 – 7,301,607
Length	94
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	88.71
Mean single sequence MFE	-29.13
Consensus MFE	-22.90
Energy contribution	-23.14
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-2.15
Structure conservation index	0.79
SVM decision value	1.30
SVM RNA-class probability	0.939805
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7301513 94 - 20766785
CCCAUUUGCCGUCAACGGCAGUUGAA-AACGCUCAUCAAACUAAUUGGCCAGCCAACGGCGUGGGUGGUCAUUUUAACCUCUUGGCCAACUACUC-
(((((..(((((((((....))))).-.................((((....)))))))))))))((((((...........)))))).......- ( -27.60)
>DroSim_CAF1 101221 94 - 1
CCCAUUUGCCGUCAACGGCAGUUGAA-AACGCUCAUCAAACUAAUUGGCUAGCCGACGGCGUGGGUGGUCAUUUUAACCUCUUGGCCAACUACAC-
(((((..((((((...((((((..(.-.................)..))).))))))))))))))((((((...........)))))).......- ( -30.07)
>DroEre_CAF1 97432 94 - 1
CCCAUUUGCCGUCAACGGCAGUUGAA-AACGCUCAUCAAACUAAUUGGCCAGCCGACGGCGUGGGUGGUCAUUUUAGCCUCUUGGCCAACUACUC-
(((((..(((((((((....)))...-...(((..((((.....))))..))).)))))))))))((((((...........)))))).......- ( -28.50)
>DroYak_CAF1 99710 94 - 1
CCCAUUUGCCGUCAACGGCAGUGGAA-AACGCUCAUCAAACUAAUUGGCCAGCCGACGGCGUGGGUGGCCAUUUUAACCUCUUGGCCAACUACUC-
(((((..((((((...(((((((...-..))))..((((.....))))...))))))))))))))((((((...........)))))).......- ( -33.30)
>DroAna_CAF1 91690 81 - 1
CCCAUUUGCCGUCAACGGCAGCCGAAAAACGCUCAUCAAACUAAUUGGCCAG-------CGUGGGUGGUC--------UUCUUGGCCAACUACAUG
(((..((((((....)))))).......(((((..((((.....))))..))-------))))))(((((--------.....)))))........ ( -26.20)
>consensus
CCCAUUUGCCGUCAACGGCAGUUGAA_AACGCUCAUCAAACUAAUUGGCCAGCCGACGGCGUGGGUGGUCAUUUUAACCUCUUGGCCAACUACUC_
(((((((((((....)))))).........(((..((((.....))))..))).......)))))((((((...........))))))........ (-22.90 = -23.14 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	7,301,542 – 7,301,637
Length	95
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	91.58
Mean single sequence MFE	-28.65
Consensus MFE	-22.19
Energy contribution	-22.13
Covariance contribution	-0.06
Combinations/Pair	1.04
Mean z-score	-2.69
Structure conservation index	0.77
SVM decision value	1.82
SVM RNA-class probability	0.978710
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7301542 95 - 20766785
CCGCAAAAAGCUAAUUAAUUUUUU-----GCUCUACCCAUUUGCCGUCAACGGCAGUUGAA-AACGCUCAUCAAACUAAUUGGCCAGCCAACGGCGUGGGU
..((((((((........))))))-----))...((((((..(((((((((....))))).-.................((((....)))))))))))))) ( -28.10)
>DroSim_CAF1 101250 95 - 1
CCGCAAAAAGCUAAUUAAUUUUUU-----GCUCUACCCAUUUGCCGUCAACGGCAGUUGAA-AACGCUCAUCAAACUAAUUGGCUAGCCGACGGCGUGGGU
..((((((((........))))))-----))...((((((..((((((...((((((..(.-.................)..))).))))))))))))))) ( -30.57)
>DroEre_CAF1 97461 95 - 1
CCGCAAAAAGCUAAUUAAUUUUUU-----GCUCUACCCAUUUGCCGUCAACGGCAGUUGAA-AACGCUCAUCAAACUAAUUGGCCAGCCGACGGCGUGGGU
..((((((((........))))))-----))...((((((..(((((((((....)))...-...(((..((((.....))))..))).)))))))))))) ( -29.00)
>DroYak_CAF1 99739 95 - 1
CCGCAAAAAGCUAAUUAAUUUUUU-----GCUCUACCCAUUUGCCGUCAACGGCAGUGGAA-AACGCUCAUCAAACUAAUUGGCCAGCCGACGGCGUGGGU
..((((((((........))))))-----))...((((((..((((((...(((((((...-..))))..((((.....))))...))))))))))))))) ( -31.10)
>DroAna_CAF1 91712 94 - 1
CCGCAAAAAGUUAAUUAAUUUUUUCCCUUGCACUGCCCAUUUGCCGUCAACGGCAGCCGAAAAACGCUCAUCAAACUAAUUGGCCAG-------CGUGGGU
..((((((((((....)))))).....))))...((((..((((((....)))))).......(((((..((((.....))))..))-------))))))) ( -24.50)
>consensus
CCGCAAAAAGCUAAUUAAUUUUUU_____GCUCUACCCAUUUGCCGUCAACGGCAGUUGAA_AACGCUCAUCAAACUAAUUGGCCAGCCGACGGCGUGGGU
((((.....((((((((.(((........((.........((((((....)))))).........)).....))).))))))))..(((...))))))).. (-22.19 = -22.13 +  -0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:45 2006