Locus 5405

Sequence ID 2R_DroMel_CAF1
Location 17,450,130 – 17,450,263
Length 133
Max. P 0.938057
window8622 window8623

overview

Window 2

Location 17,450,130 – 17,450,229
Length 99
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 71.71
Mean single sequence MFE -24.66
Consensus MFE -11.51
Energy contribution -11.70
Covariance contribution 0.19
Combinations/Pair 1.11
Mean z-score -2.38
Structure conservation index 0.47
SVM decision value 1.27
SVM RNA-class probability 0.938057
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17450130 99 + 20766785
UUGGGUAAUGCACUACACACACA------CACACACACUUGCCCAGCAUCCUUGCAGUCCUGCAUCCUCUCCCCCAAGUCAGCGACUUAGCG-CGUUGACUUAACU
((((((((((.............------......)).))))))))......((((....))))...........(((((((((........-))))))))).... ( -21.91)
>DroVir_CAF1 186197 77 + 1
AUAGGUAAUGCACUGCCUGCAGC--------------------------UGCUGCAG--CAACUGCAAGUG-CUGCAGUCAGCGACUUUGCGACGUUGACUUAACU
..(((((......)))))(((((--------------------------.(((((((--...)))).))))-))))((((((((.(.....).))))))))..... ( -28.70)
>DroSim_CAF1 169751 99 + 1
UUGGGUAAUACACUGCACACACA------CGCACACACUCGCCCAGCAUCCUUGCAGUCCUGCAUCCUUUCCCCCAAGUCAGCGACUUAGCG-CGUUGACUUAACU
((((((.......(((.......------.))).......))))))......((((....))))...........(((((((((........-))))))))).... ( -23.84)
>DroYak_CAF1 150026 105 + 1
UUGGGUAAUGCACUGCACACACACACACGCAUACACACUCGCUUAGCAUCCUUGCAGUCCUGCAUCCUUUCCCCCAAGUCAGCGACUUAGCG-CGUUGACUUAACU
..(((..(((((..((............((..........))...(((....))).))..))))).....)))..(((((((((........-))))))))).... ( -24.20)
>consensus
UUGGGUAAUGCACUGCACACACA______CACACACACUCGCCCAGCAUCCUUGCAGUCCUGCAUCCUUUCCCCCAAGUCAGCGACUUAGCG_CGUUGACUUAACU
..(((((......))).....................................(((....))).........)).(((((((((.(.....).))))))))).... (-11.51 = -11.70 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 17,450,154 – 17,450,263
Length 109
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 70.95
Mean single sequence MFE -32.25
Consensus MFE -16.45
Energy contribution -17.03
Covariance contribution 0.58
Combinations/Pair 1.06
Mean z-score -1.72
Structure conservation index 0.51
SVM decision value 0.70
SVM RNA-class probability 0.826802
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17450154 109 + 20766785
ACACACACUUGCCCAGCAUCCUUGC----AGUCCUGCAUCCUCUCCCCCAAGUCAGCGACUUAGCG-CGUUGACUUAACUUGGCAGGGAUUUACGACAACGCUCCACGGAGCUC------
.......((((((.((......(((----(....))))...........(((((((((........-)))))))))..)).)))))).............((((....))))..------ ( -32.20)
>DroVir_CAF1 186220 94 + 1
-------------------UGCUGC----AG--CAACUGCAAGUG-CUGCAGUCAGCGACUUUGCGACGUUGACUUAACUUGGCAGGGAUUUACGGCAACGCUUCACGGAGCUGCGACAC
-------------------((.(((----((--(..((((((((.-....((((((((.(.....).))))))))..)))).)))).((....((....))..)).....)))))).)). ( -31.70)
>DroGri_CAF1 181823 86 + 1
-------------------UGUUGC----AA--GUGCGGCUGCUG-CUGCAGUCAGCGACUUUGCGACGUUGACUUAACUUGGCAGGGAUUUACAGCCACGCUUCGCGGAGC--------
-------------------..((((----((--(((.((((((((-(((.((((((((.(.....).)))))))).....)))))).......))))).))))).))))...-------- ( -31.01)
>DroEre_CAF1 163691 109 + 1
ACACACACUGGCCCUGCAUCCUUGC----AGUCCUGCAUCCUUUCCCCCAAGUCAGCGACUUAGCG-CGUUGACUUAACUUGGCAGGGAUUUACGACAACGCUCCACGGAGCUC------
...........((((((.....(((----(....))))...........(((((((((........-)))))))))......))))))............((((....))))..------ ( -34.20)
>DroYak_CAF1 150056 109 + 1
AUACACACUCGCUUAGCAUCCUUGC----AGUCCUGCAUCCUUUCCCCCAAGUCAGCGACUUAGCG-CGUUGACUUAACUUGGCAGGGAUUUACGACAACGCUCCACGGAGCUC------
...............(((....)))----.(((.((.((((((.((...(((((((((........-))))))))).....)).)))))).)).)))...((((....))))..------ ( -32.90)
>DroMoj_CAF1 229830 91 + 1
-C-----------------UGCUGCCUGCUG-CCUGCUGCCUG----UGCAGUCAGCGACUUUGCGACGUUGACUUAACUUGGCAGGGAUUUACGGCAACGCUUCACGGAGCUU------
-.-----------------.(.(((((((((-.((((......----.)))).))))).((((((.(.((((...)))).).))))))......)))).)((((....))))..------ ( -31.50)
>consensus
_C_________________CCUUGC____AG_CCUGCAGCCUCUC_CCCAAGUCAGCGACUUAGCG_CGUUGACUUAACUUGGCAGGGAUUUACGACAACGCUCCACGGAGCUC______
................................(((((.............((((((((.(.....).)))))))).......))))).............((((....))))........ (-16.45 = -17.03 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:59 2006