github.com/vertgenlab/gonomics@v1.0.0/cmd/DEPRECATED/primateRecon/testdata/VisualizeAln/oneHuman.aln.txt (about) 1 Start: 0. refCounter: 0. alignCounter: 0 2 Position: 0 3 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 4 |panTro6 | .................................................................................................... 5 |panPan2 | ....................................CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGGGGGGGGGGGGGGGGGGGGGGGGGGGG 6 |gorGor5 | ......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNN 7 |ponAbe3 | .CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGT 8 |hcaHumanBiasedParsimony| .................................................................................................... 9 |hcaParsimonyMessyToN | ...................................N...................................N............................ 10 |hcaHumanBiasedMle80 | .................................................................................................... 11 |hcaHumanBiasedMle99 | .................................................................................................... 12 13 14 Position: 100 15 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 16 |panTro6 | .................................................................................................... 17 |panPan2 | GGGGGGGGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-------------------- 18 |gorGor5 | NN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTT 19 |ponAbe3 | N-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.C 20 |hcaHumanBiasedParsimony| .................................................................................................... 21 |hcaParsimonyMessyToN | .......N...................................N...................................N.................... 22 |hcaHumanBiasedMle80 | .................................................................................................... 23 |hcaHumanBiasedMle99 | .................................................................................................... 24 25 26 Position: 200 27 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 28 |panTro6 | ................CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC 29 |panPan2 | ----------------....................................CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGGGGGGGGGGGG 30 |gorGor5 | TTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCC 31 |ponAbe3 | GTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN- 32 |hcaHumanBiasedParsimony| .....................................................C....CCCCCC.CG....C.T...C.....C.....CG....CGCCC 33 |hcaParsimonyMessyToN | ...............N...................................N.C....CCCCCC.CGNNN.CNTNN.CNNNN.CNNNN.CG....CGCCC 34 |hcaHumanBiasedMle80 | ..........................................................CCCCCC.CG....C.T...C.....C...........CCCCC 35 |hcaHumanBiasedMle99 | ...........................................................CCCCC.C.....C.....C.....C...........CCCCC 36 37 38 Position: 300 39 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 40 |panTro6 | CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC 41 |panPan2 | GGGGGGGGGGGGGGGGGGGGGGGGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN---- 42 |gorGor5 | GGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------.... 43 |ponAbe3 | .CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGT 44 |hcaHumanBiasedParsimony| .CGGGG.CGT...CG....CG....C.T...CCTCC.CGT...CTTTT.C.T...C.T...C.....CCCCC.CG....C.T...C.....C.....C.. 45 |hcaParsimonyMessyToN | .CGGGG.CGTNN.CGNNN.CGNNN.C.T...CCTCC.CGTNN.CTTTT.CNTNN.CNTNN.C.....CCCCC.CGNNN.CNTNN.CNNNN.CNNNN.C.. 46 |hcaHumanBiasedMle80 | .GGGGG.CG....CG....CG..........CCCCC.C.T...TTTTT.C.T...C.T.........CCCCC.C.....C.....C.....C........ 47 |hcaHumanBiasedMle99 | .GGGGG.........................CCCCC.......TTTTT...................CCCCC............................ 48 49 50 Position: 400 51 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 52 |panTro6 | CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 53 |panPan2 | --------------------------------....................................CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC 54 |gorGor5 | ..CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN-- 55 |ponAbe3 | N-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.C 56 |hcaHumanBiasedParsimony| ...CCCCC.CG....C.T...C.....C.........................................CG....CGCCC.CGGGG.CGT...CG....C 57 |hcaParsimonyMessyToN | ...CCCCC.CGNNN.CNTNN.CNNNN.CNNNN...................................N.CG....CGCCC.CGGGG.CGTNN.CGNNN.C 58 |hcaHumanBiasedMle80 | ...CCCCC.C.....C.....C.....C...............................................CCCCC.GGGGG.CG....CG....C 59 |hcaHumanBiasedMle99 | ...CCCCC...................................................................CCCCC.GGGGG.............. 60 61 62 Position: 500 63 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 64 |panTro6 | GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 65 |panPan2 | CCCCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTNNNNNNNNNNNNNNNNNNNNNNNN 66 |gorGor5 | ----......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTT 67 |ponAbe3 | GTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN- 68 |hcaHumanBiasedParsimony| G.....G....CG...GGGGGG..GT....G.....G.....GT...CGT...GGTGG.TGTTT..GT....GT....G....CG....GGGGG..GT.. 69 |hcaParsimonyMessyToN | GNNN..G....CGNNNGGGGGG.NGTNN.NGNNN.NGNNN..GT...CGTNN.GGTGG.TGTTT.NGTNN.NGTNN..G....CGNNN.GGGGG.NGTNN 70 |hcaHumanBiasedMle80 | G..........CG...GGGGGG..GT....G.....G...........GT...GGGGG.TTTTT..GT....GT..........G....GGGGG..G... 71 |hcaHumanBiasedMle99 | ............G....GGGGG..G.....G.....G................GGGGG.TTTTT.........................GGGGG...... 72 73 74 Position: 600 75 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 76 |panTro6 | GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 77 |panPan2 | NNNNNNNNNNNN------------------------------------....................................CCCCCCCCCCCCCCCC 78 |gorGor5 | NNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGG 79 |ponAbe3 | .CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGT 80 |hcaHumanBiasedParsimony| ..G.....G.....G....CG....GGGGG..GT....G.....G........................................C.T...CCTCC.CGT 81 |hcaParsimonyMessyToN | .NGNNN.NGNNN..G....CGNNN.GGGGG.NGTNN.NGNNN.NGNNN...................................N.C.T...CCTCC.CGT 82 |hcaHumanBiasedMle80 | ..G.....G...........G....GGGGG..G.....G.....G..............................................CCCCC.C.T 83 |hcaHumanBiasedMle99 | .........................GGGGG.............................................................CCCCC.... 84 85 86 Position: 700 87 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 88 |panTro6 | TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 89 |panPan2 | CCCCCCCCCCCCCCCCCCCCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTNNNNNNNN 90 |gorGor5 | GGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CC 91 |ponAbe3 | N-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.C 92 |hcaHumanBiasedParsimony| ...CTTTT.C.T...C.T....GT...CGT...GGTGG.TGTTT..GT....GT.....T...C.T....GT..TTTTTT...T.....T.....T...C 93 |hcaParsimonyMessyToN | NN.CTTTT.CNTNN.CNTNN..GT...CGTNN.GGTGG.TGTTT.NGTNN.NGTNN...T...CNTNN.NGTNNTTTTTT.NNTNN.NNTNN...T...C 94 |hcaHumanBiasedMle80 | ...TTTTT.C.T...C.T..........GT...GGGGG.TTTTT..GT....GT.........C.T....GT..TTTTTT...T.....T.......... 95 |hcaHumanBiasedMle99 | ...TTTTT.........................GGGGG.TTTTT.....................T.....T...TTTTT...T.....T.......... 96 97 98 Position: 800 99 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 100 |panTro6 | TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 101 |panPan2 | NNNNNNNNNNNNNNNNNNNNNNNNNNNN------------------------------------.................................... 102 |gorGor5 | CCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------ 103 |ponAbe3 | GTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN- 104 |hcaHumanBiasedParsimony| .T....GT...TTTTT...T.....T.....T...C.T....GT...TTTTT...T.....T...................................... 105 |hcaParsimonyMessyToN | NTNN.NGTNN.TTTTT.NNTNN.NNTNN...T...CNTNN.NGTNN.TTTTT.NNTNN.NNTNN...................................N 106 |hcaHumanBiasedMle80 | .T.....T...TTTTT...T.....T...........T.....T...TTTTT...T.....T...................................... 107 |hcaHumanBiasedMle99 | ...........TTTTT...............................TTTTT................................................ 108 109 110 Position: 900 111 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 112 |panTro6 | NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 113 |panPan2 | CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTTTTTTTTTTTTTTTTTTTTTTTTTTTT 114 |gorGor5 | ......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNN 115 |ponAbe3 | .CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGT 116 |hcaHumanBiasedParsimony| .C.....CCCCC.CG....C.T...C.....C......G....CG....GGGGG..GT....G.....G......T...C.T....GT...TTTTT...T 117 |hcaParsimonyMessyToN | .C.....CCCCC.CGNNN.CNTNN.CNNNN.CNNNN..G....CGNNN.GGGGG.NGTNN.NGNNN.NGNNN...T...CNTNN.NGTNN.TTTTT.NNT 118 |hcaHumanBiasedMle80 | .......CCCCC.C.....C.....C.....C............G....GGGGG..G.....G.....G............T.....T...TTTTT...T 119 |hcaHumanBiasedMle99 | .......CCCCC.....................................GGGGG.....................................TTTTT.... 120 121 122 Position: 1000 123 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 124 |panTro6 | NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-------------------- 125 |panPan2 | TTTTTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN------------------------------------.................... 126 |gorGor5 | NN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTT 127 |ponAbe3 | N-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.C 128 |hcaHumanBiasedParsimony| .....T.........C......G......T.....................C......G......T.................................. 129 |hcaParsimonyMessyToN | NN.NNTNN.......CNNNN.NGNNN.NNTNN.NNNNN.NNNNN.......CNNNN.NGNNN.NNTNN.NNNNN.NNNNN.................... 130 |hcaHumanBiasedMle80 | .....T.............................................................................................. 131 |hcaHumanBiasedMle99 | .................................................................................................... 132 133 134 Position: 1100 135 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 136 |panTro6 | ---------------------------------------------------------------------------------------------------- 137 |panPan2 | ................CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTTTTTTTTTTTT 138 |gorGor5 | TTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCC 139 |ponAbe3 | GTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN- 140 |hcaHumanBiasedParsimony| .................C.....CCCCC.CG....C.T...C.....C......G....CG....GGGGG..GT....G.....G......T...C.T.. 141 |hcaParsimonyMessyToN | ...............N.C.....CCCCC.CGNNN.CNTNN.CNNNN.CNNNN..G....CGNNN.GGGGG.NGTNN.NGNNN.NGNNN...T...CNTNN 142 |hcaHumanBiasedMle80 | .......................CCCCC.C.....C.....C.....C............G....GGGGG..G.....G.....G............T.. 143 |hcaHumanBiasedMle99 | .......................CCCCC.....................................GGGGG.............................. 144 145 146 Position: 1200 147 |hg38 | AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 148 |panTro6 | ------------------------------------------------------------------------------------------------ 149 |panPan2 | TTTTTTTTTTTTTTTTTTTTTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN------------------------------------ 150 |gorGor5 | GGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------......CCCCCCGGGGGGTTTTTTNNNNNN------ 151 |ponAbe3 | .CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN-.CGTN- 152 |hcaHumanBiasedParsimony| ..GT...TTTTT...T.....T.........C......G......T.................................................- 153 |hcaParsimonyMessyToN | .NGTNN.TTTTT.NNTNN.NNTNN.......CNNNN.NGNNN.NNTNN.NNNNN.NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN- 154 |hcaHumanBiasedMle80 | ...T...TTTTT...T.....T.........................................................................- 155 |hcaHumanBiasedMle99 | .......TTTTT...................................................................................- 156 157