### Mx1 in bats

#### fragment_2

D | E | C | M | K
R | S | T | F | Y
N | Q | G | L | V
I | A | W | H | P

Input

- Fasta (nt)
- Fasta (aa)

Alignment

- nt:
  full, no gaps
- aa:
  full, no gaps

Tree

- nt:
  newick, pdf, svg
- aa:
  newick, pdf, svg

Codeml

- Go to overview

Recombination

- Model: 010010
- Tree topologies
- GARD

- full_aln
- fragment_1
- fragment_3

Significant sites

- no gaps:
  tex, pdf
- with gaps:
  tex, pdf

go back to full alignment

Parameters

PoSeiDon v1.1

|  | Fragment_2
|  | 107 | 108 | 109 | 110 | 111 | 112 | 113 | 114 | 115 | 116 | 117 | 118 | 119 | 120 | 121 | 122 | 123 | 124 | 125 | 126 | 127 | 128 | 129 | 130 | 131 | 132 | 133 | 134 | 135 | 136 | 137 | 138 | 139 | 140 | 141 | 142 | 143 | 144 | 145 | 146 | 147 | 148 | 149 | 150 | 151 | 152 | 153 | 154 | 155 | 156 | 157 | 158 | 159 | 160 | 161 | 162 | 163 | 164 | 165 | 166 | 167 | 168 | 169 | 170 | 171 | 172 | 173 | 174 | 175 | 176 | 177 | 178 | 179 | 180 | 181 | 182 | 183 | 184 | 185 | 186 | 187 | 188 | 189 | 190 | 191 | 192 | 193 | 194 | 195 | 196 | 197 | 198 | 199 | 200 | 201
|  | GGA | ATC | GTA | ACC | AGG | TGT | CCA | CTG | GTG | CTA | AAG | CTG | AAA | AAG | CAG | CTC | TCG | AGG | --- | GAT | GTG | TCT | TGG | AGG | GGG | AAG | ATC | AGC | TAC | CAG | AAC | ACG | GAG | CTC | CCG | CTT | CAG | GAC | CCC | TCC | CAG | GTG | GAG | AGG | GAA | ATC | AAC | AAA | GCC | CAA | AAC | ATC | GTG | GCT | GGG | AGT | GGA | GTT | GGC | ATC | AGC | CAC | GAG | CTC | ATC | AGT | CTG | GAG | ATC | TCC | TCC | CCT | GAC | GTC | CCG | GAC | CTG | ACC | CTT | ATT | GAT | CTT | CCC | GGC | ATC | ACC | AGG | GTG | CCT | GTG | GGA | AAT | CAG | CCC | GTG
| GGC | ATC | GTC | ACC | AGG | TGT | CCT | CTG | GTG | CTG | AAG | CTG | AGA | CAA | --- | GCG | AGG | GAC | --- | GGC | GGT | GCC | TGG | AAA | GGC | AAA | GTC | AGT | TAC | CAG | GAC | GAG | GAG | GTT | GAG | ATT | CCA | GAC | CCT | TCG | GCG | GTG | GAG | AGG | GAA | ATC | CGG | AAA | GCC | CAG | GAC | GCC | ATG | GCT | GGG | GTA | GGA | GTG | GGC | ATC | AGC | CAC | GAG | CTG | ATC | ACC | CTG | GAG | GTC | AGC | TCC | CCT | CAC | GCC | CCG | GAC | CTG | ACC | CTC | ATC | GAC | CTC | CCC | GGC | ATC | ACC | AGG | GTG | GCA | GTG | GGC | AAC | CAG | CCC | GCT
| GGT | ATC | GTC | ACG | AGG | TGT | CCT | CTG | GTG | CTG | AAG | CTG | AGA | AAA | --- | GTG | ACG | GAC | --- | GGA | GAT | GGA | TGG | AAA | GGC | AAA | GTC | AGT | TAC | CAG | GAC | GTG | GAG | ATT | GAG | ATT | TCA | GAT | CCT | TTG | GCG | GTG | GAA | AAG | GAA | ATC | AGT | AAA | GCC | CAG | GAT | GTC | ATT | GCT | GGG | GTA | GGA | GTG | GAC | ATC | AGC | CAC | GAG | CTG | ATC | AAC | CTG | GAG | GTC | AGC | TCC | CCT | CAC | GCC | CCA | GAC | CTG | ACC | CTC | ATC | GAC | CTC | CCC | GGC | ATC | ACC | AGG | GTG | GCC | GTG | GGC | AAC | CAG | CCC | GCT
| GGT | ATC | GTC | ACA | AGG | TGT | CCT | CTG | GTG | CTG | AAG | CTG | AGA | AAA | --- | GTG | AGG | GAC | --- | GGA | GAC | GAA | TGG | AAA | GGC | AAA | GTC | AGT | TAC | CAC | GAC | GTG | GAG | GTT | GAG | ATT | TCA | GAT | CCT | TTG | GAG | GTG | GAA | AAG | GAA | ATC | AGT | AAA | GCC | CAG | GAT | GCC | ATT | GCA | GGG | GTA | GGA | ATG | GAC | ATC | AGC | CAT | GAG | CTG | ATC | GAC | CTG | GAG | GTC | AGC | TCC | CCT | CAC | GTC | CCA | GAC | CTG | ACC | CTC | ATC | GAC | CTC | CCC | GGC | ATC | ACC | AGG | GTG | GCC | GTG | GGC | AAC | CAG | CCA | GCT
| GGT | ATC | GTG | ACG | AGG | TGT | CCT | CTG | GTG | CTG | AAG | CTG | AGA | AAA | --- | CTG | AGG | GAC | --- | GGG | GAC | GAA | TGG | AAA | GGC | AAA | GTC | AGT | TAC | AAG | GAC | CAG | GAG | ATT | GAG | ATG | TCA | GAT | GCT | TCG | GAG | GTG | GAA | GAG | GAA | ATC | AGG | AAA | GCC | CAG | GAT | GTC | ATT | GCT | GGG | GTA | GGA | ATG | GAC | ATC | AGC | CAT | GAG | CTG | ATC | AAC | CTG | GAG | GTC | AGC | TCC | CCT | CAC | GTC | CCA | GAC | CTG | ACC | CTC | ATC | GAC | CTC | CCC | GGC | ATC | ACC | AGG | GTG | GCC | CTG | GGC | AAT | CAG | CCA | GCT
| GGT | ATT | GTT | ACA | AGA | TGT | CCC | CTG | GTG | CTG | AAA | CTG | AGA | AAA | --- | CTT | AGG | CAT | --- | GAT | GAT | GAG | TGG | AAA | GGC | AAA | GTC | ACT | TAC | CGG | GAC | CTG | GAG | ATT | GAT | CTT | TCA | GCT | GCT | TCG | GAG | GTA | GAA | CAG | GAA | ATC | AGG | AAA | GCC | CAG | AAT | GTC | ATT | GCT | GGG | GAA | GGT | GTG | GGA | ATC | AGT | CAA | GAG | CTA | ATT | AAT | CTG | GAG | GTC | AGC | TCC | CCT | CAC | GTG | CCA | GAT | CTG | ACC | CTG | ATA | GAC | CTT | CCT | GGC | ATC | ACC | AGG | GTG | GCT | GTG | GGC | AAT | CAG | CCA | GCT
| GGT | ATT | GTT | ACA | AGA | TGT | CCC | CTG | GTG | CTG | AAA | CTG | AGA | AAA | --- | CTT | AGG | CAT | --- | GAT | GAT | GAG | TGG | AAA | GGC | AAA | GTC | ACT | TAC | CGG | GAC | CTG | GAG | ATT | GAT | CTT | TCA | ACT | GCT | TCG | GAG | GTA | GAA | CAG | GAA | ATC | AGG | AAA | GCC | CAG | AAT | GTC | ATT | GCT | GGG | GAA | GGT | GTG | GGA | ATC | AGT | CAA | GAG | CTA | ATT | AAT | CTG | GAG | GTC | AGC | TCC | CCT | CAC | GTG | CCA | GAT | CTG | ACC | CTG | ATA | GAC | CTT | CCT | GGC | ATC | ACC | AGG | GTG | GCT | GTG | GGC | AAT | CAG | CCA | GCT
| GGT | ATT | GTT | ACA | AGA | TGT | CCC | CTG | GTG | CTG | AAA | CTG | AGA | AAA | --- | CTT | AGG | CAT | --- | GAT | GAT | GAG | TGG | AAA | GGC | AAA | GTC | ACT | TAC | CGA | GAC | CTG | GAG | ATT | GAG | CTT | TCT | ACT | GCT | TCG | GAG | GTA | GAA | CAG | GAA | ATC | AGG | AAA | GCC | CAG | AAT | GTC | ATT | GCT | GGG | GAA | GGT | GTG | GGA | ATC | AGT | CAA | GAG | CTA | ATT | AAT | CTG | GAG | GTC | AGC | TCC | CCT | CAC | GTG | CCA | GAT | CTG | ACC | CTG | ATA | GAC | CTT | CCT | GGC | ATC | ACC | AGG | GTG | GCT | GTG | GGG | AAT | CAG | CCA | GCT
| GGT | ATT | GTT | ACA | AGA | TGT | CCC | TTG | GTG | CTG | AAG | CTG | AGA | AAA | --- | CTT | AGG | CAT | --- | GAT | GAT | GAG | TGG | AAA | GGC | AAA | GTC | ACT | TAC | CGG | GAC | CTG | GAG | ATT | AAC | CTT | TCA | ACT | GCT | TTG | GAG | GTA | GAA | CAG | GAA | ATC | AGG | AAA | GCC | CAG | AAT | GTC | ATT | GCT | GGG | GAA | GGT | GTG | GGA | ATC | AGT | CAA | GAG | CTA | ATT | AAT | CTG | GAG | GTC | AGC | TCC | CCT | CAT | GTG | CCA | GAT | CTG | ACC | CTG | ATA | GAC | CTT | CCT | GGC | ATC | ACC | AGG | GTG | GCT | GTG | GGC | AAT | CAG | CCA | GCT
| GGT | ATT | GTT | ACA | AGA | TGC | CCC | CTG | GTG | CTG | AAA | CTG | AGA | AAA | --- | CTT | AGG | CAT | GAT | GAT | GAT | GAG | TGG | AAA | GGC | AAA | GTC | ACT | TAC | CGG | GAC | ATG | GAG | ATC | GAT | CTT | ACG | GCC | GCT | TCG | GAG | GTA | GAA | CAG | GAA | ATC | AGG | AAA | GCC | CAG | AAT | GTC | ATT | GCT | GGG | GAA | GGT | GTG | GGA | ATC | AGT | CAG | GAG | CTA | ATT | AAT | CTG | GAG | GTC | AGC | TCC | CCT | CAC | GTG | CCA | GAT | CTG | ACC | CTG | ATA | GAC | CTT | CCT | GGC | ATC | ACC | AGA | GTC | GCT | GTG | GGC | AAT | CAG | CCA | GCT
| GGT | ATT | GTG | ACA | AGA | TGC | CCC | CTG | GTG | CTG | AAA | CTG | AAA | AAA | --- | CTT | AAG | AGT | --- | GAA | GAG | AAG | TGG | ACA | GGC | AAG | ATC | AGT | TAC | AAG | GAC | ATT | GAG | ATT | AAC | CTT | TCA | TCC | CCG | TCA | GAG | GTC | GAG | AAG | GAA | ATC | AGC | AAG | TCT | CAG | AAT | ATC | ATT | GCC | GGG | GAA | GGT | GTG | GGG | ATC | AGT | CAT | GAG | CTA | ATC | AGT | CTG | GAA | GTC | AGC | TCC | CCA | CAC | GTC | CCA | GAT | CTG | ACC | CTG | ATA | GAT | CTT | CCT | GGC | ATC | ACC | AGG | GTG | GCC | GTG | GGT | GAT | CAG | CCA | GCT
| GGT | ATT | GTG | ACA | AGA | TGC | CCC | CTG | GTG | CTG | AAG | CTG | AAG | AAT | --- | CTT | AAG | GAT | --- | GAA | GAG | AAG | TGG | ACA | GGC | AAA | ATC | AGT | TAC | AAG | GAT | ATT | GAG | ATT | AAC | CTT | TCA | GAT | CCT | TCA | GAG | GTA | GAG | AAG | GAA | ATC | AAC | AAG | TCC | CAG | AAT | GTC | ATT | GCC | GGG | GAA | GGT | GTG | GGG | ATC | AGT | CAT | GAG | CTG | ATC | AGT | CTG | GAA | GTC | AGG | TCC | CCG | CAC | GTC | CCA | GAT | CTG | ACC | CTG | ATA | GAT | CTT | CCT | GGC | ATC | ACC | AGG | GTG | GCT | ATG | GGC | AAC | CAG | CCA | GCT
| GGT | ATT | GTT | ACA | AGA | TGC | CCC | CTG | GTG | CTG | AAA | CTG | AGA | AAA | --- | CTT | AGG | CAT | GAT | GAT | GAT | GAG | TGG | AAA | GGC | AAA | GTC | ACT | TAC | CGG | GAC | ATG | GAG | ATC | AAT | CTT | TCA | GCC | GCT | TCC | GAG | GTA | GAA | CAG | GAA | ATC | AGG | AAA | GCC | CAG | AAT | GTC | ATT | GCT | GGG | GAA | GGT | GTG | GGA | ATC | AGT | CAT | GAG | CTA | ATT | AGT | CTG | GAG | GTC | AGC | TCC | CCT | CAC | GTG | CCA | GAT | CTG | ACC | CTG | ATA | GAC | CTT | CCT | GGC | ATC | ACC | AGG | GTG | GCT | GTG | GGC | AAT | CAG | CCA | GCT
| F3X4, M1a vs M2a | LRT not significant lnL_M1a = -1306.83 lnL_M2a = -1306.83 LRT: χ2 = 0.0 % sites with ω > 1 = NA avg(ω) = NA p = 1.0 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
| F3X4, M7/M8a vs M8 | LRT not significant lnL_M7 = -1305.99 / lnL_M8a = -1305.9 lnL_M8 = -1305.9 LRT: χ2 = 0.19 / LRT: χ2 = 0.0 % sites with ω > 1 = NA avg(ω) = NA p = 0.908 / p = 1.0 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | 0.547 |  | 0.760 |  |  |  | 0.531 |  |  |  |  |  |  |  | 0.604 |  | 0.813 |  |  | 0.673 |  | 0.655 | 0.537 |  | 0.568 |  |  |  |  |  |  | 0.714 |  |  |  |  | 0.584 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
| F1X4, M1a vs M2a | LRT not significant lnL_M1a = -1321.27 lnL_M2a = -1321.27 LRT: χ2 = 0.0 % sites with ω > 1 = NA avg(ω) = NA p = 1.0 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
| F1X4, M7/M8a vs M8 | LRT not significant lnL_M7 = -1320.34 / lnL_M8a = -1320.29 lnL_M8 = -1320.29 LRT: χ2 = 0.09 / LRT: χ2 = 0.0 % sites with ω > 1 = NA avg(ω) = NA p = 0.956 / p = 0.999 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | 0.526 |  | 0.761 |  |  |  |  |  |  |  |  |  |  |  | 0.558 |  | 0.832 |  |  | 0.690 |  |  | 0.517 |  |  |  |  |  |  |  |  | 0.673 |  |  |  |  | 0.599 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
| F61, M1a vs M2a | LRT not significant lnL_M1a = -1327.27 lnL_M2a = -1327.27 LRT: χ2 = 0.0 % sites with ω > 1 = NA avg(ω) = NA p = 1.0 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | 0.505 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
| F61, M7/M8a vs M8 | LRT not significant lnL_M7 = -1326.73 / lnL_M8a = -1326.56 lnL_M8 = -1326.53 LRT: χ2 = 0.39 / LRT: χ2 = 0.06 % sites with ω > 1 = NA avg(ω) = NA p = 0.821 / p = 0.803 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | 0.582 | 0.620 | 0.838 |  |  |  | 0.636 |  |  |  |  |  |  |  | 0.688 |  | 0.888 |  |  | 0.799 |  | 0.557 | 0.588 |  | 0.539 |  |  |  | 0.592 |  |  | 0.781 |  |  |  |  | 0.667 |  |  |  |  |  |  |  |  |  |  |  |  |  | 0.550 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | G | I | V | T | R | C | P | L | V | L | K | L | K | K | Q | L | S | R | - | D | V | S | W | R | G | K | I | S | Y | Q | N | T | E | L | P | L | Q | D | P | S | Q | V | E | R | E | I | N | K | A | Q | N | I | V | A | G | S | G | V | G | I | S | H | E | L | I | S | L | E | I | S | S | P | D | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | P | V | G | N | Q | P | V |
| G | I | V | T | R | C | P | L | V | L | K | L | R | K | - | L | R | H | D | D | D | E | W | K | G | K | V | T | Y | R | D | M | E | I | D | L | T | A | A | S | E | V | E | Q | E | I | R | K | A | Q | N | V | I | A | G | E | G | V | G | I | S | Q | E | L | I | N | L | E | V | S | S | P | H | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | V | G | N | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | R | K | - | L | R | H | - | D | D | E | W | K | G | K | V | T | Y | R | D | L | E | I | D | L | S | T | A | S | E | V | E | Q | E | I | R | K | A | Q | N | V | I | A | G | E | G | V | G | I | S | Q | E | L | I | N | L | E | V | S | S | P | H | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | V | G | N | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | R | K | - | L | R | H | - | D | D | E | W | K | G | K | V | T | Y | R | D | L | E | I | E | L | S | T | A | S | E | V | E | Q | E | I | R | K | A | Q | N | V | I | A | G | E | G | V | G | I | S | Q | E | L | I | N | L | E | V | S | S | P | H | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | V | G | N | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | R | K | - | L | R | H | - | D | D | E | W | K | G | K | V | T | Y | R | D | L | E | I | N | L | S | T | A | L | E | V | E | Q | E | I | R | K | A | Q | N | V | I | A | G | E | G | V | G | I | S | Q | E | L | I | N | L | E | V | S | S | P | H | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | V | G | N | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | R | K | - | L | R | H | - | D | D | E | W | K | G | K | V | T | Y | R | D | L | E | I | D | L | S | A | A | S | E | V | E | Q | E | I | R | K | A | Q | N | V | I | A | G | E | G | V | G | I | S | Q | E | L | I | N | L | E | V | S | S | P | H | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | V | G | N | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | R | K | - | L | R | H | D | D | D | E | W | K | G | K | V | T | Y | R | D | M | E | I | N | L | S | A | A | S | E | V | E | Q | E | I | R | K | A | Q | N | V | I | A | G | E | G | V | G | I | S | H | E | L | I | S | L | E | V | S | S | P | H | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | V | G | N | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | R | Q | - | A | R | D | - | G | G | A | W | K | G | K | V | S | Y | Q | D | E | E | V | E | I | P | D | P | S | A | V | E | R | E | I | R | K | A | Q | D | A | M | A | G | V | G | V | G | I | S | H | E | L | I | T | L | E | V | S | S | P | H | A | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | V | G | N | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | R | K | - | V | T | D | - | G | D | G | W | K | G | K | V | S | Y | Q | D | V | E | I | E | I | S | D | P | L | A | V | E | K | E | I | S | K | A | Q | D | V | I | A | G | V | G | V | D | I | S | H | E | L | I | N | L | E | V | S | S | P | H | A | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | V | G | N | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | R | K | - | V | R | D | - | G | D | E | W | K | G | K | V | S | Y | H | D | V | E | V | E | I | S | D | P | L | E | V | E | K | E | I | S | K | A | Q | D | A | I | A | G | V | G | M | D | I | S | H | E | L | I | D | L | E | V | S | S | P | H | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | V | G | N | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | R | K | - | L | R | D | - | G | D | E | W | K | G | K | V | S | Y | K | D | Q | E | I | E | M | S | D | A | S | E | V | E | E | E | I | R | K | A | Q | D | V | I | A | G | V | G | M | D | I | S | H | E | L | I | N | L | E | V | S | S | P | H | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | L | G | N | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | K | K | - | L | K | S | - | E | E | K | W | T | G | K | I | S | Y | K | D | I | E | I | N | L | S | S | P | S | E | V | E | K | E | I | S | K | S | Q | N | I | I | A | G | E | G | V | G | I | S | H | E | L | I | S | L | E | V | S | S | P | H | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | V | G | D | Q | P | A |
| G | I | V | T | R | C | P | L | V | L | K | L | K | N | - | L | K | D | - | E | E | K | W | T | G | K | I | S | Y | K | D | I | E | I | N | L | S | D | P | S | E | V | E | K | E | I | N | K | S | Q | N | V | I | A | G | E | G | V | G | I | S | H | E | L | I | S | L | E | V | R | S | P | H | V | P | D | L | T | L | I | D | L | P | G | I | T | R | V | A | M | G | N | Q | P | A |