Locus 9326

Sequence ID	3R_DroMel_CAF1
Location	24,788,700 – 24,788,856
Length	156
Max. P	0.893912

overview

Window 9

Location	24,788,700 – 24,788,820
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.63
Mean single sequence MFE	-32.60
Consensus MFE	-32.35
Energy contribution	-32.46
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-1.33
Structure conservation index	0.99
SVM decision value	-0.05
SVM RNA-class probability	0.508961
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24788700 120 - 27905053
CCACAUGGCGUAUACGUAAGCGUAAACGAACGUAAGCGUAGCCAGCCGUAUGGGUAGCAUUUUAACAAAGUGUUAAACUGAGAAUUUUAUCUGCUGUUCGGUAAUUCACAGCUCAGGCUC
(((.(((((...(((((..((((......))))..)))))....))))).)))..(((..((((((.....))))))(((((.........((((....))))........)))))))). ( -34.63)
>DroEre_CAF1 28880 116 - 1
CCACAUGGCGUAUACGUAAGCGUAAACGAACGUAAGCGUA----GCCGUAUGGGUAGCAUUUUAACAAAGUGUUAAACUGAGAAUUUUAUCUGCUGUUCGGUAAUUCACAGCUCAGGCUC
(((.(((((...(((((..((((......))))..)))))----))))).)))..(((..((((((.....))))))(((((.........((((....))))........)))))))). ( -32.13)
>DroYak_CAF1 20959 116 - 1
CCACAUGGCGUAUACGUAAGCGUAAACGAACGUAAGCGCA----GCCGUAUGGGUGGCAUUUUAACAAAGUGUUAAACUGAGAAUUUUAUCUGCUGUUCGGUAAUUCACAGCUCAGGCUC
(((.(((((((.((((....)))).))(..(....)..).----))))).)))..(((..((((((.....))))))(((((.........((((....))))........)))))))). ( -31.03)
>consensus
CCACAUGGCGUAUACGUAAGCGUAAACGAACGUAAGCGUA____GCCGUAUGGGUAGCAUUUUAACAAAGUGUUAAACUGAGAAUUUUAUCUGCUGUUCGGUAAUUCACAGCUCAGGCUC
(((.(((((...(((((..((((......))))..)))))....))))).)))..(((..((((((.....))))))(((((.........((((....))))........)))))))). (-32.35 = -32.46 +   0.11)

alignment

secondary structure

dotplot

Window 0

Location	24,788,740 – 24,788,856
Length	116
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	93.26
Mean single sequence MFE	-33.40
Consensus MFE	-31.39
Energy contribution	-31.17
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-1.89
Structure conservation index	0.94
SVM decision value	0.68
SVM RNA-class probability	0.819930
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24788740 116 + 27905053
CAGUUUAACACUUUGUUAAAAUGCUACCCAUACGGCUGGCUACGCUUACGUUCGUUUACGCUUACGUAUACGCCAUGUGGCGCGUCCGCCCAUAAAGUGUGCCAACAUUUGGCACC----
.......(((((((((......(((........))).(((.((((((((((.(((.((((....)))).)))..)))))).))))..))).)))))))))((((.....))))...---- ( -34.00)
>DroEre_CAF1 28920 116 + 1
CAGUUUAACACUUUGUUAAAAUGCUACCCAUACGGC----UACGCUUACGUUCGUUUACGCUUACGUAUACGCCAUGUGGCGCGUCCGCCCAUAAAGUGUGCCAACACUUGGCACCCCGU
.......(((((((((....(((.....)))..(((----.((((((((((.(((.((((....)))).)))..)))))).))))..))).)))))))))((((.....))))....... ( -31.70)
>DroYak_CAF1 20999 116 + 1
CAGUUUAACACUUUGUUAAAAUGCCACCCAUACGGC----UGCGCUUACGUUCGUUUACGCUUACGUAUACGCCAUGUGGCGCGUCCGCCCAUAAAGUGUGCCAACAUUUGGCGCCCCGU
.......(((((((((....(((.....))).(((.----((((((.((((.(((.((((....)))).)))..)))))))))).)))...)))))))))((((.....))))....... ( -34.50)
>consensus
CAGUUUAACACUUUGUUAAAAUGCUACCCAUACGGC____UACGCUUACGUUCGUUUACGCUUACGUAUACGCCAUGUGGCGCGUCCGCCCAUAAAGUGUGCCAACAUUUGGCACCCCGU
.......(((((((((....((((...(((((.(((....((((....(((......)))....))))...))).))))).))))......)))))))))((((.....))))....... (-31.39 = -31.17 +  -0.22)

alignment

secondary structure

dotplot

Window 1

Location	24,788,740 – 24,788,856
Length	116
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	93.26
Mean single sequence MFE	-40.13
Consensus MFE	-36.70
Energy contribution	-36.03
Covariance contribution	-0.66
Combinations/Pair	1.06
Mean z-score	-2.25
Structure conservation index	0.91
SVM decision value	0.98
SVM RNA-class probability	0.893912
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24788740 116 - 27905053
----GGUGCCAAAUGUUGGCACACUUUAUGGGCGGACGCGCCACAUGGCGUAUACGUAAGCGUAAACGAACGUAAGCGUAGCCAGCCGUAUGGGUAGCAUUUUAACAAAGUGUUAAACUG
----.((((((.....))))))........(((((.((((((....))))).(((((..((((......))))..)))))))).)))....(..((((((((.....))))))))..).. ( -39.80)
>DroEre_CAF1 28920 116 - 1
ACGGGGUGCCAAGUGUUGGCACACUUUAUGGGCGGACGCGCCACAUGGCGUAUACGUAAGCGUAAACGAACGUAAGCGUA----GCCGUAUGGGUAGCAUUUUAACAAAGUGUUAAACUG
((((.((((((.....))))))....((((((((....)))).))))((((.(((((...((....)).))))).)))).----.))))..(..((((((((.....))))))))..).. ( -40.40)
>DroYak_CAF1 20999 116 - 1
ACGGGGCGCCAAAUGUUGGCACACUUUAUGGGCGGACGCGCCACAUGGCGUAUACGUAAGCGUAAACGAACGUAAGCGCA----GCCGUAUGGGUGGCAUUUUAACAAAGUGUUAAACUG
.(((...((((..(((((((......((((((((....)))).))))((((.(((((...((....)).))))).)))).----)))).)))..))))..((((((.....))))))))) ( -40.20)
>consensus
ACGGGGUGCCAAAUGUUGGCACACUUUAUGGGCGGACGCGCCACAUGGCGUAUACGUAAGCGUAAACGAACGUAAGCGUA____GCCGUAUGGGUAGCAUUUUAACAAAGUGUUAAACUG
....(.((((......((((......((((((((....)))).))))((((.(((((...((....)).))))).)))).....))))....)))).)..((((((.....))))))... (-36.70 = -36.03 +  -0.66)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:31:48 2006