Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,201,075	C→T	11.2%	A76A (GCC→GCT) ‡	sdaA →	L‑serine deaminase I

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,201,075	0	C	T	11.2%	218.8 / 15.1	80	A76A (GCC→GCT) ‡	sdaA	L‑serine deaminase I
Reads supporting (aligned to +/- strand):  ref base C (29/42);  new base T (5/4);  total (34/46)
Fisher's exact test for biased strand distribution p-value = 4.84e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.24e-01

TCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTCTGCTGCT  >  minE/1201007‑1201140                                                                     |                                                                  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)            tAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATc                                                       >  1:2437087/1‑70 (MQ=255)             aaaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCg                                                      >  1:3160451/1‑70 (MQ=255)             aaaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGa                                                     >  1:2807012/1‑71 (MQ=255)             aaaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGa                                                     >  1:28292/1‑71 (MQ=255)             aaaGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGa                                                     >  1:1698745/1‑71 (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)                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                                               <  1:3356469/71‑1 (MQ=255)                   caccacACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTAt                                               <  1:1369986/71‑1 (MQ=255)                   caccacACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTAt                                               >  1:658597/1‑71 (MQ=255)                     ccacACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCg                                                      <  1:1035295/62‑1 (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                        <  1:1646315/70‑1 (MQ=255)                                           atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                        <  1:1986121/70‑1 (MQ=255)                                           atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                        >  1:2038524/1‑70 (MQ=255)                                           atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                        <  1:3080664/70‑1 (MQ=255)                                           atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                        <  1:2999549/70‑1 (MQ=255)                                           atGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTag                        <  1:765074/70‑1 (MQ=255)                                            tGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTaga                       <  1:1195346/70‑1 (MQ=255)                                            tGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTaga                       <  1:2166205/70‑1 (MQ=255)                                            tGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTaga                       <  1:2338361/70‑1 (MQ=255)                                               gTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAagag                   <  1:24227/71‑1 (MQ=255)                                                tCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAagag                   <  1:2159079/70‑1 (MQ=255)                                                  ttGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAgcgc                >  1:1185062/1‑71 (MQ=255)                                                   tGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAgcgc                >  1:3573672/1‑70 (MQ=255)                                                   tGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAgcgc                >  1:3569103/1‑70 (MQ=255)                                                    gCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTcgc                               >  1:3881240/1‑54 (MQ=255)                                                    gCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAgcgc                <  1:1174304/69‑1 (MQ=255)                                                    gCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGcgcg               <  1:1485302/70‑1 (MQ=255)                                                    gCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGcgcg               <  1:681754/70‑1 (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                      <  1:66606/58‑1 (MQ=255)                                                         tAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTagaa                      <  1:2480684/58‑1 (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     <  1:1674090/71‑1 (MQ=255)                                                             gAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgct     <  1:2278587/71‑1 (MQ=255)                                                             gAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgct     <  1:697878/71‑1 (MQ=255)                                                               aCCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTAt                                   <  1:99089/39‑1 (MQ=255)                                                               aCCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgctgc   >  1:50924/1‑71 (MQ=255)                                                               aCCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgctgc   <  1:3620426/71‑1 (MQ=255)                                                                ccTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgctgct  >  1:622907/1‑71 (MQ=255)                                                                     cACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTctgc      >  1:1997993/1‑62 (MQ=255)                                                                     |                                                                  TCGCTGACGGGTAAAGGCCACCACACCGATATCGCCATTATTATGGGTCTTGCAGGTAACGAACCTGCCACCGTGGATATCGACAGTATTCCCGGTTTTATTCGCGACGTAGAAGAGCGCGAACGTCTGCTGCT  >  minE/1201007‑1201140

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: ‑