Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,857,145	0	T	A	36.2%	55.2 / 51.0	47	L18H (CTC→CAC) ‡	mutS	methyl‑directed mismatch repair protein
Reads supporting (aligned to +/- strand):  ref base T (15/15);  new base A (9/8);  total (24/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

TATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑AT‑C‑TCAGGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACT  >  NC_000913/2857026‑2857256                                                                                                                           |                                                                                                                tATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCAt                                                                                              >  1:1105951/1‑139 (MQ=255)         tACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGAt                                                                                      >  2:31216/1‑139 (MQ=255)             aCGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCctg                                                                                  <  1:1013851/139‑1 (MQ=255)                             tCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCa                                                                                               >  2:286320/1‑110 (MQ=255)                                   cccATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATTATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGAtt                                                            <  2:438944/139‑1 (MQ=255)                                      aTTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCctgct                                                                                >  1:1279548/1‑116 (MQ=255)                                      aTTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCctgct                                                                                <  2:1279548/116‑1 (MQ=255)                                       tttAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTa                                                        >  1:1518772/1‑139 (MQ=255)                                          aaTATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGa                                                     <  2:1720832/139‑1 (MQ=255)                                           atatCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGaa                                                    <  2:1518772/139‑1 (MQ=255)                                           atatCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGaa                                                    <  2:1771457/139‑1 (MQ=255)                                               cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCgg                                                                      <  2:385798/117‑1 (MQ=255)                                               cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGaa                                                    >  1:1117646/1‑135 (MQ=255)                                               cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGaa                                                    <  2:1117646/135‑1 (MQ=255)                                               cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAACATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGt                                                >  1:62747/1‑139 (MQ=255)                                               cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCgg                                                                      >  1:385798/1‑117 (MQ=255)                                               cAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGt                                                >  1:42691/1‑139 (MQ=255)                                                aGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGa                                                              >  2:1053634/1‑124 (MQ=255)                                                aGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGa                                                              <  1:1053634/124‑1 (MQ=255)                                                 gggAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAAc                                                   <  1:588672/134‑1 (MQ=255)                                                 gggAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAAc                                                   >  2:588672/1‑134 (MQ=255)                                                 gggAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGttt                                              >  2:1028556/1‑139 (MQ=255)                                                        ggACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATgacg                                       >  1:644465/1‑139 (MQ=255)                                                              aaCCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑CCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCaa                                 >  1:1197946/1‑139 (MQ=255)                                                                ggcgtatggTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGc                                   >  1:733104/9‑135 (MQ=255)                                                                ggcgtatggTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGc                                   <  2:733104/127‑1 (MQ=255)                                                                   cATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAAcgc                            >  1:1318418/1‑139 (MQ=255)                                                                    aTGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAAcgcg                           >  1:995951/1‑139 (MQ=255)                                                                     tGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAAcgcgc                          >  2:1030595/1‑139 (MQ=255)                                                                         ttcAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCctgctg                                                                               <  1:217772/80‑1 (MQ=255)                                                                         tGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCctgctg                                                                               >  2:217772/1‑82 (MQ=255)                                                                          gCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAACATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGc                     <  2:62747/139‑1 (MQ=255)                                                                           cAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGt                                                                <  1:510432/95‑1 (MQ=255)                                                                           cAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGt                                                                >  2:510432/1‑95 (MQ=255)                                                                               aGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAActg                <  2:644465/139‑1 (MQ=255)                                                                                 aaaaTTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGa                                                     <  2:1374665/100‑1 (MQ=255)                                                                                 aaaaTTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGa                                                     >  1:1374665/1‑100 (MQ=255)                                                                                 aaaaTTTCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAActgct              <  2:1197946/139‑1 (MQ=255)                                                                                 aaaaTTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAActgct              <  1:1028556/139‑1 (MQ=255)                                                                                 aaaaTTTCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAActgct              <  1:31216/139‑1 (MQ=255)                                                                                     tttCGACGCCCATGCGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGCTGCGTGATTTTTATGAACTTTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGat          <  1:1211262/139‑1 (MQ=255)                                                                                     tttCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGaa                                                    <  2:1383728/97‑1 (MQ=255)                                                                                     tttCGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGaa                                                    >  1:1383728/1‑97 (MQ=255)                                                                                      ttCGACGCCCATACGCCCATGATGCAGCAGT‑GA‑T‑AGTCGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGata         <  2:1318418/139‑1 (MQ=255)                                                                                        cGACGCCCATACGCCCATGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGa                                                                     >  1:214942/1‑77 (MQ=255)                                                                                        cGACGCCCATACGCCCATGATGCAGCAGTGAT‑AGTC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGa                                                                     <  2:214942/77‑1 (MQ=255)                                                                                             cccatacgcccatGATGCAGCAGTGATAG‑TC‑‑GCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACt  >  2:819549/1‑139 (MQ=255)                                                                                                                           |                                                                                                                TATGTGATTACAACGAAAATAAAAACCATCACACCCCATTTAATATCAGGGAACCGGACATAACCCCATGAGTGCAATAGAAAATTTCGACGCCCATACGCCCATGATGCAGCAGT‑AT‑C‑TCAGGCTGAAAGCCCAGCATCCCGAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACT  >  NC_000913/2857026‑2857256

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑