github.com/vertgenlab/gonomics@v1.0.0/cmd/DEPRECATED/mouseRecon/testdata/README.txt (about)

     1  Here is the expected multiple alignment of all possible rodent position configurations, visualized with multFaVisualizer.
     2  Position: 0
     3  |mm10       | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
     4  |rn7        | ....................................CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGGGGGGGGGGGGGGGGGGGGGGGGGGGG
     5  |criGriChoV2| ......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNN
     6  |speTri2    | .CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGT
     7  |mra        | ...........................................CCCCC.C.....C.....C.....C............G....GGGGG..G.....G.
     8  
     9  
    10  Position: 100
    11  |mm10       | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    12  |rn7        | GGGGGGGGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN--------------------
    13  |criGriChoV2| NN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTT
    14  |speTri2    | N-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.C
    15  |mra        | ....G............T.....T...TTTTT...T.....T..........................................................
    16  
    17  
    18  Position: 200
    19  |mm10       | AAAAAAAAAAAAAAAA
    20  |rn7        | ----------------
    21  |criGriChoV2| TTTTNNNNNN------
    22  |speTri2    | GTN-.CGTN-.CGTN-
    23  |mra        | ...............-
    24  
    25  Here is the expected output for when nonBiasProbThreshold = 0
    26  Position: 0
    27  |mm10       | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    28  |rn7        | ....................................CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGGGGGGGGGGGGGGGGGGGGGGGGGGGG
    29  |criGriChoV2| ......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNN
    30  |speTri2    | .CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGT
    31  |mra        | ..........................................CCCCCC.CG....C.T...C.....C...........CG...GGGGGG..GT....G.
    32  
    33  
    34  Position: 100
    35  |mm10       | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
    36  |rn7        | GGGGGGGGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN--------------------
    37  |criGriChoV2| NN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTT
    38  |speTri2    | N-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.C
    39  |mra        | ....G..........C.T....GT..TTTTTT...T.....T.........C......G......T.....................C......G.....
    40  
    41  
    42  Position: 200
    43  |mm10       | AAAAAAAAAAAAAAAA
    44  |rn7        | ----------------
    45  |criGriChoV2| TTTTNNNNNN------
    46  |speTri2    | GTN-.CGTN-.CGTN-
    47  |mra        | .T.............-
    48  
    49