Locus 3774

Sequence ID	2R_DroMel_CAF1
Location	12,483,876 – 12,483,966
Length	90
Max. P	0.945128

overview

Window 2

Location	12,483,876 – 12,483,966
Length	90
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	80.08
Mean single sequence MFE	-27.27
Consensus MFE	-19.34
Energy contribution	-19.70
Covariance contribution	0.36
Combinations/Pair	1.23
Mean z-score	-2.53
Structure conservation index	0.71
SVM decision value	1.35
SVM RNA-class probability	0.945128
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12483876 90 + 20766785
-------GUUGCUGCUGCGUUCUUACUGCCAAUUUUAUUUGGCUCUCAUGGCAUAUUAAGUGCCAGCA-AUUUACCAAAA-CGAAGCAUGCAACCCGGG
-------(((((((((.((((......(((((......))))).....((((((.....))))))...-.........))-)).)))).)))))..... ( -29.40)
>DroPse_CAF1 14123 98 + 1
GCUGAUCGUUGCUGUUUUUUGUUUUCCCCCAAUUUUAUUUGGCUUUAAUGGGGUAUUAAGUGCCAGCAAAUUUGCCAAAAGUGUUGCAUGCAACAUGA-
((......((((((...((((...((((((((......)))).......))))...))))...))))))....)).....((((((....))))))..- ( -22.41)
>DroSim_CAF1 13487 90 + 1
-------GUUGCUGCUGCGUUCUUACUGUCAAUUUUAUUUGGCUCUCAUGGCAUAUUAAGUGCCAGCA-AUUUACCAAAA-CGAAGCAUGCAACCCGGG
-------(((((((((.((((......(((((......))))).....((((((.....))))))...-.........))-)).)))).)))))..... ( -26.70)
>DroEre_CAF1 13546 90 + 1
-------GUUGCUGCUGCGUUCUUGCUGCCAAUUUUAUUUGGCUCUCAUGGCAUAUUAAGUGCCAGCA-AUUUACCAAAA-CGAAGCAUGCAACCCGGG
-------(((((((((.((((.((((((((((......)))))......(((((.....)))))))))-)........))-)).)))).)))))..... ( -30.70)
>DroAna_CAF1 14127 90 + 1
-------GUUGCUGCUUCGUUUCUACUGUCAAUUUUAUUUGGCUCUCAUGGCAUAUUAAGUGCCAGCC-AUUUGCCAAAG-CGAGGCAUGCAACGUGUU
-------(((((((((((((.................((((((.....((((((.....))))))...-....)))))))-))))))).)))))..... ( -32.82)
>DroPer_CAF1 14039 97 + 1
GCUGAUCGUUGCUGUUUUUUGUUUUCCCCCAACUUUAUUUGGCUUUAAUGGGGUAUUAAGUGCCAGCA-AUUUGCCAAAAGUGUUGCAUGCAACAUGA-
((.....(((((((...((((...((((((((......)))).......))))...))))...)))))-))..)).....((((((....))))))..- ( -21.61)
>consensus
_______GUUGCUGCUGCGUUCUUACUGCCAAUUUUAUUUGGCUCUCAUGGCAUAUUAAGUGCCAGCA_AUUUACCAAAA_CGAAGCAUGCAACCCGGG
.......(((((((((.((........(((((......))))).....((((((.....))))))................)).)))).)))))..... (-19.34 = -19.70 +   0.36)

alignment

secondary structure

dotplot

Window 3

Location	12,483,876 – 12,483,966
Length	90
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	80.08
Mean single sequence MFE	-24.52
Consensus MFE	-14.85
Energy contribution	-14.38
Covariance contribution	-0.47
Combinations/Pair	1.19
Mean z-score	-2.13
Structure conservation index	0.61
SVM decision value	0.73
SVM RNA-class probability	0.834913
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12483876 90 - 20766785
CCCGGGUUGCAUGCUUCG-UUUUGGUAAAU-UGCUGGCACUUAAUAUGCCAUGAGAGCCAAAUAAAAUUGGCAGUAAGAACGCAGCAGCAAC-------
.....(((((.((((.((-((((.......-...(((((.......))))).....(((((......)))))....)))))).)))))))))------- ( -28.50)
>DroPse_CAF1 14123 98 - 1
-UCAUGUUGCAUGCAACACUUUUGGCAAAUUUGCUGGCACUUAAUACCCCAUUAAAGCCAAAUAAAAUUGGGGGAAAACAAAAAACAGCAACGAUCAGC
-...((((((...........(..(((....)))..).........(((((.................)))))..............))))))...... ( -19.63)
>DroSim_CAF1 13487 90 - 1
CCCGGGUUGCAUGCUUCG-UUUUGGUAAAU-UGCUGGCACUUAAUAUGCCAUGAGAGCCAAAUAAAAUUGACAGUAAGAACGCAGCAGCAAC-------
.....(((((.((((.((-((((.((.(((-(..((((.((((........)))).)))).....)))).))....)))))).)))))))))------- ( -25.90)
>DroEre_CAF1 13546 90 - 1
CCCGGGUUGCAUGCUUCG-UUUUGGUAAAU-UGCUGGCACUUAAUAUGCCAUGAGAGCCAAAUAAAAUUGGCAGCAAGAACGCAGCAGCAAC-------
.....(((((.((((.((-(((.......(-((((((((.......))))......(((((......))))))))))))))).)))))))))------- ( -30.21)
>DroAna_CAF1 14127 90 - 1
AACACGUUGCAUGCCUCG-CUUUGGCAAAU-GGCUGGCACUUAAUAUGCCAUGAGAGCCAAAUAAAAUUGACAGUAGAAACGAAGCAGCAAC-------
.....(((((.(((.((.-.((((((..((-(((.............)))))....))))))...........((....)))).))))))))------- ( -23.72)
>DroPer_CAF1 14039 97 - 1
-UCAUGUUGCAUGCAACACUUUUGGCAAAU-UGCUGGCACUUAAUACCCCAUUAAAGCCAAAUAAAGUUGGGGGAAAACAAAAAACAGCAACGAUCAGC
-...(((((....)))))...........(-(((((..........(((((.................)))))............))))))........ ( -19.18)
>consensus
CCCAGGUUGCAUGCUUCG_UUUUGGCAAAU_UGCUGGCACUUAAUAUGCCAUGAGAGCCAAAUAAAAUUGGCAGUAAAAACGAAGCAGCAAC_______
.....(((((.(((.......(..((......))..).........(((((.................)))))...........))))))))....... (-14.85 = -14.38 +  -0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:49 2006