Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,201,067	G→C	11.0%	E74Q (GAA→CAA) ‡	sdaA →	L‑serine deaminase I

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,201,067	0	G	C	11.0%	225.5 / 15.2	82	E74Q (GAA→CAA) ‡	sdaA	L‑serine deaminase I
Reads supporting (aligned to +/- strand):  ref base G (31/42);  new base C (5/4);  total (36/46)
Fisher's exact test for biased strand distribution p-value = 4.96e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.01e-01

TGGTTCACTGTCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTCTGCT  >  minE/1200997‑1201137                                                                       |                                                                       tGGTTCACTGTCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACg                                                                        <  1:3669786/71‑1 (MQ=255)   gTTCACTGTCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGa                                                                       <  1:718191/70‑1 (MQ=255)   gTTCACTGTCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGa                                                                       <  1:2893648/70‑1 (MQ=255)    ttCACTGTCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAAc                                                                     <  1:260318/71‑1 (MQ=255)    ttCACTGTCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAAc                                                                     <  1:2552819/71‑1 (MQ=255)      cACTGTCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCt                                                                   >  1:3847740/1‑71 (MQ=255)         tGTCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGc                                                                 >  1:3577907/1‑70 (MQ=255)           tCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACg                                                                        <  1:3503918/61‑1 (MQ=255)           tCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCAc                                                              >  1:3246124/1‑71 (MQ=255)           tCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCAc                                                              >  1:1524997/1‑71 (MQ=255)             gCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCAcc                                                             <  1:1479701/70‑1 (MQ=255)             gCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCg                                                            <  1:191605/71‑1 (MQ=255)             gCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCg                                                            <  1:2339332/71‑1 (MQ=255)                  ccggTAAAGGCCACCACACTGATATCGCCATTATTATGGGCCTGGCGGGTAACCTGCCGGATACCGTGGat                                                       <  1:2709983/69‑1 (MQ=255)                  cGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGat                                                       <  1:2131114/71‑1 (MQ=255)                    ggTAAAGGCCACCACACTGATATCGCCATTATTATGGGCCTGGCGGGTAACCTGCCGGATACCGTGGatat                                                     >  1:1541547/1‑71 (MQ=255)                     gTAAAGGCCACCACACTGATATCGCCATTATTATGGGCCTGGCGGGTAACCTGCCGGATACCGTGGatat                                                     >  1:3463086/1‑70 (MQ=255)                     gTAAAGGCCACCACACTGATATCGCCATTATTATGGGCCTGGCGGGTAACCTGCCGGATACCGTGGATATc                                                    >  1:3458611/1‑71 (MQ=255)                     gTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGatat                                                     >  1:3475882/1‑70 (MQ=255)                      tAAAGGCCACCACACTGATATCGCCATTATTATGGGCCTGGCGGGTAACCTGCCGGATACCGTGGATATCg                                                   <  1:3424658/71‑1 (MQ=255)                      tAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCt                                                                   <  1:1739371/55‑1 (MQ=255)                      tAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATc                                                    >  1:2437087/1‑70 (MQ=255)                       aaaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCg                                                   >  1:3160451/1‑70 (MQ=255)                       aaaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGa                                                  >  1:28292/1‑71 (MQ=255)                       aaaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGa                                                  >  1:1698745/1‑71 (MQ=255)                       aaaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGa                                                  >  1:2807012/1‑71 (MQ=255)                        aaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCg                                                            <  1:2795167/60‑1 (MQ=255)                        aaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTg                                                          >  1:221149/1‑62 (MQ=255)                        aaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGa                                                  >  1:2524524/1‑70 (MQ=255)                        aaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGAc                                                 <  1:1115253/71‑1 (MQ=255)                        aaGGCCACCACACCGATATCCCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCg                                                            <  1:1499202/60‑1 (MQ=255)                         aGGCCACCACACTGATATCGCCATTATTATGGGCCTGGCGGGTAACCTGCCGGATACCGTGGATATCGatt                                                <  1:2122150/71‑3 (MQ=255)                         aGGCCACCACACCGATATCGCCA‑TATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAg                                               <  1:1121595/71‑1 (MQ=255)                          ggCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGc                                                                 >  1:2891181/1‑53 (MQ=255)                          ggCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCg                                                   <  1:693914/67‑1 (MQ=255)                          ggCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAg                                               <  1:242644/71‑1 (MQ=255)                           gCCACCACACTGATATCGCCATTATTATGGGCCTGGCGGGTAACCTGCCGGATACCGTGGATATCGattc                                               >  1:36065/1‑67 (MQ=255)                           gCCACCACACTGATATCGCCATTATTATGGGCCTGGCGGGTAACCTGCCGGATACCGTGGATATCGattc                                               >  1:2613467/1‑67 (MQ=255)                             caccacACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCAcc                                                             <  1:1450100/54‑1 (MQ=255)                             caccacACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTAt                                            >  1:658597/1‑71 (MQ=255)                             caccacACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTAt                                            <  1:1369986/71‑1 (MQ=255)                             caccacACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTAt                                            <  1:3356469/71‑1 (MQ=255)                               ccacACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCg                                                   <  1:1035295/62‑1 (MQ=255)                                 acacCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAAc                                                                     >  1:850225/1‑42 (MQ=255)                                  cacCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTa                                             >  1:2320488/1‑65 (MQ=255)                                  cacCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTAtt                                           <  1:762724/67‑1 (MQ=255)                                  cacCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATAGACAGt                                              >  1:1564110/1‑64 (MQ=255)                                     cGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGtt                                    <  1:2998993/71‑1 (MQ=255)                                            gCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTcg                             >  1:2261783/1‑71 (MQ=255)                                             ccATTATTATGGGCCTGGCGGGTAACCTGCCGGATACCGTGGATATCGATTCCATCCCCAGTTTTATTcag                            <  1:923037/71‑3 (MQ=255)                                                ttattaTGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGAc                         <  1:2480922/71‑1 (MQ=255)                                                    tatGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTcgcg                           <  1:910709/65‑1 (MQ=255)                                                     atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                     <  1:765074/70‑1 (MQ=255)                                                     atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                     <  1:1986121/70‑1 (MQ=255)                                                     atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                     <  1:2999549/70‑1 (MQ=255)                                                     atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                     <  1:3080664/70‑1 (MQ=255)                                                     atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                     >  1:2038524/1‑70 (MQ=255)                                                     atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                     <  1:1646315/70‑1 (MQ=255)                                                      tGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTaga                    <  1:2166205/70‑1 (MQ=255)                                                      tGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTaga                    <  1:2338361/70‑1 (MQ=255)                                                      tGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTaga                    <  1:1195346/70‑1 (MQ=255)                                                         gTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAagag                <  1:24227/71‑1 (MQ=255)                                                          tCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAagag                <  1:2159079/70‑1 (MQ=255)                                                            ttGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAgcgc             >  1:1185062/1‑71 (MQ=255)                                                             tGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAgcgc             >  1:3569103/1‑70 (MQ=255)                                                             tGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAgcgc             >  1:3573672/1‑70 (MQ=255)                                                              gCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTcgc                            >  1:3881240/1‑54 (MQ=255)                                                              gCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAgcgc             <  1:1174304/69‑1 (MQ=255)                                                              gCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGcgcg            <  1:681754/70‑1 (MQ=255)                                                              gCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGcgcg            <  1:1485302/70‑1 (MQ=255)                                                              gCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATT‑‑CGACGTAGAAGAGCGCGAAc         >  1:2948877/1‑71 (MQ=255)                                                               cAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACg                        >  1:3610725/1‑57 (MQ=255)                                                               cAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGa           <  1:453335/70‑1 (MQ=255)                                                                aGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAAc         >  1:2086589/1‑71 (MQ=255)                                                                 ggTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACg        <  1:2962713/71‑1 (MQ=255)                                                                  gTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTagaa                   <  1:288050/59‑1 (MQ=255)                                                                   tAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTagaa                   <  1:2480684/58‑1 (MQ=255)                                                                   tAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTagaa                   <  1:66606/58‑1 (MQ=255)                                                                   tAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAgcgc             <  1:2145602/64‑1 (MQ=255)                                                                    aaCGAACCTGCCACCGTGGATATCGACAGTATTCCCGGtt                                    >  1:2614726/1‑40 (MQ=255)                                                                    aaCGAACCTGCCACCGTGGATATCGACAGTATTCCCGGtt                                    >  1:1307446/1‑40 (MQ=255)                                                                      cGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGt       >  1:3659357/1‑67 (MQ=255)                                                                      cGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgc   >  1:147160/1‑71 (MQ=255)                                                                      cGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgc   >  1:1764377/1‑71 (MQ=255)                                                                       gAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgct  <  1:697878/71‑1 (MQ=255)                                                                       gAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgct  <  1:2278587/71‑1 (MQ=255)                                                                       gAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgct  <  1:1674090/71‑1 (MQ=255)                                                                       |                                                                       TGGTTCACTGTCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTCTGCT  >  minE/1200997‑1201137

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑