Locus 6208

Sequence ID 2R_DroMel_CAF1
Location 19,541,246 – 19,541,396
Length 150
Max. P 0.982236
window9941 window9942

overview

Window 1

Location 19,541,246 – 19,541,361
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 75.11
Mean single sequence MFE -29.60
Consensus MFE -12.52
Energy contribution -12.80
Covariance contribution 0.28
Combinations/Pair 1.22
Mean z-score -2.09
Structure conservation index 0.42
SVM decision value 1.09
SVM RNA-class probability 0.913676
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19541246 115 - 20766785
UUUCCAUUUCGAACGCGAACGGGCCG-UGAAAAGUGUG----UGUGUGUACACACAUAUUUUGUAAAUGCAGUGCGACAUACAGACAAGUGCAUACACAUACGCAUGGGCACCAUAAAAA
.......((((....)))).((((((-((....(((((----(((((((((..(((.....)))...(((...)))............)))))))))))))).))).))).))....... ( -33.80)
>DroPse_CAF1 3580 97 - 1
-----------------UAUUGGCUGAAAAACAGUGUUCUUAAAUGUAUAUACACAUAUUUUUAAAAU-CACUUGGGCCUUAAGACAAGUGCACAC--AUACGUACAUGCG---UAUUAA
-----------------................((((..(((((.((((......)))).)))))...-((((((..........)))))).))))--((((((....)))---)))... ( -15.20)
>DroSim_CAF1 110 115 - 1
UUUCCAUUUCGAACGCGAACGGGCCG-UGAAAAGUGUG----UGUGUGUACACACAUAUUUUGUAAAUGCAGUGCGACAUACAGACAAGUGCAUACACAUACGCAUGGGCACCAUAAAAA
.......((((....)))).((((((-((....(((((----(((((((((..(((.....)))...(((...)))............)))))))))))))).))).))).))....... ( -33.80)
>DroYak_CAF1 106 115 - 1
UUUCCAUUUCGAAUGCGAACGGGCCG-UGAAAAGUGUG----UGUGUGUACACACAUAUUUUGUAAAUGCAGUGCGACAUACAGACAAGUGCAUACACAUACGCAUGGGCACCAUAAAAA
.......((((....)))).((((((-((....(((((----(((((((((..(((.....)))...(((...)))............)))))))))))))).))).))).))....... ( -33.80)
>DroAna_CAF1 101 110 - 1
UUUUCUCC-CCGAUGCGAAUCGGUCGAAGAAAAGUGUG----UGUGUGUACACACAUAUUUUGUAAAUGCAGUUGGACAUACAGACAAGUGCAUAC--AUACGUACAGGCUC-AU--AAA
(((((((.-(((((....)))))..).)))))).((((----.((.(((((..(((.....)))..(((((.(((..........))).)))))..--....))))).)).)-))--).. ( -31.40)
>consensus
UUUCCAUUUCGAACGCGAACGGGCCG_UGAAAAGUGUG____UGUGUGUACACACAUAUUUUGUAAAUGCAGUGCGACAUACAGACAAGUGCAUACACAUACGCAUGGGCACCAUAAAAA
......................(((........(((((....(((((((((........((((((..............))))))...)))))))))))))).....))).......... (-12.52 = -12.80 +   0.28)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,541,286 – 19,541,396
Length 110
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 82.15
Mean single sequence MFE -39.66
Consensus MFE -27.69
Energy contribution -28.37
Covariance contribution 0.69
Combinations/Pair 1.20
Mean z-score -2.61
Structure conservation index 0.70
SVM decision value 1.91
SVM RNA-class probability 0.982236
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19541286 110 - 20766785
CACUGAAAUCCGGCCGA-----UCCGGCCCUUCGCAGCGUUUUCCAUUUCGAACGCGAACGGGCCG-UGAAAAGUGUGUGUGUGUACACACAUAUUUUGUAAAUGCAGUGCGACAU
(((((............-----(((((((((((((..((..........))...))))).))))))-.))((((((((((((....)))))))))))).......)))))...... ( -41.10)
>DroSim_CAF1 150 110 - 1
CACUGAAAUCCGGCCGA-----UCCGGCCCUUCGCAGCGUUUUCCAUUUCGAACGCGAACGGGCCG-UGAAAAGUGUGUGUGUGUACACACAUAUUUUGUAAAUGCAGUGCGACAU
(((((............-----(((((((((((((..((..........))...))))).))))))-.))((((((((((((....)))))))))))).......)))))...... ( -41.10)
>DroYak_CAF1 146 110 - 1
CACUGAAAUCCGGGCGA-----UGCGGCCCUCCGCAGCGUUUUCCAUUUCGAAUGCGAACGGGCCG-UGAAAAGUGUGUGUGUGUACACACAUAUUUUGUAAAUGCAGUGCGACAU
(((((........((..-----.(((((((..((((.((..........))..))))...))))))-)..((((((((((((....)))))))))))))).....)))))...... ( -38.52)
>DroAna_CAF1 136 109 - 1
CA------UUUGGGAGAGCGCCUUGGGGCCUUCCAACCACUUUUCUCC-CCGAUGCGAAUCGGUCGAAGAAAAGUGUGUGUGUGUACACACAUAUUUUGUAAAUGCAGUUGGACAU
..------.(((((((.((.(....).)))))))))(((.(((((...-(((((....)))))..)))))((((((((((((....))))))))))))...........))).... ( -37.90)
>consensus
CACUGAAAUCCGGCCGA_____UCCGGCCCUUCGCAGCGUUUUCCAUUUCGAACGCGAACGGGCCG_UGAAAAGUGUGUGUGUGUACACACAUAUUUUGUAAAUGCAGUGCGACAU
...........(((((........)))))..(((((((((((........))))))......((......((((((((((((....))))))))))))......))..)))))... (-27.69 = -28.37 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:33 2006