Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	28,269	C→T	intergenic (+62/‑105)	rihC → / → dapB	ribonucleoside hydrolase 3/dihydrodipicolinate reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	28,269	0	C	T	100.0%	120.5 / NA	39	intergenic (+62/‑105)	rihC/dapB	ribonucleoside hydrolase 3/dihydrodipicolinate reductase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (17/22);  total (17/22)

AGGTGGCATTGGATCTGGATGTGAAAGGCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCCCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGAATAGCTATGCATGATGCAAACATCCGCGTTGCCAT  >  NC_000913/28137‑28402                                                                                                                                     |                                                                                                                                      aGGTGGCATTGGATCTGGATGTGAAAGGCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGttt                                                                                                                                 >  1:173886/1‑139 (MQ=255)     ggCATTGGATCTGGATGTGAAAGGCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCa                                                                                                                             <  1:388043/139‑1 (MQ=255)        aTTGGATCTGGATGTGAAAGGCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTa                                                                                                                          >  1:414036/1‑139 (MQ=255)              tCTGGATGTGAAAGGCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCt                                                                                                                    <  2:1348379/139‑1 (MQ=255)              tCTGGATGTGAAAGGCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCt                                                                                                                    <  2:173886/139‑1 (MQ=255)                   aTGTGAAAGGCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTa                                                                                                               >  1:654791/1‑139 (MQ=255)                      tgAAAGGCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCa                                                                                                            <  1:1222450/139‑1 (MQ=255)                      tgAAAGGCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCa                                                                                                            <  1:204580/139‑1 (MQ=255)                            gCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGttt                                                                                                      >  2:125146/1‑139 (MQ=255)                             cTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCa                                                                                                            <  2:346143/132‑1 (MQ=255)                             cTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCa                                                                                                            >  1:346143/1‑132 (MQ=255)                                    cagTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTtggctgg                                                                                              <  1:36489/139‑1 (MQ=255)                                                            ctGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTAct                                                                      <  2:676549/139‑1 (MQ=255)                                                              ggCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCGTGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTActct                                                                    >  2:611672/1‑139 (MQ=255)                                                                cgtcgtAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTActc                                                                     <  1:36279/136‑1 (MQ=255)                                                                cgtcgtAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTActc                                                                     >  2:36279/1‑136 (MQ=255)                                                                       aCCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTGATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTTGCTGGCGGCGTAGCGATGCGCTGGTAACTCTGAAAACGGt                                                           <  2:893926/139‑1 (MQ=255)                                                                                      ttGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCGCTCTCTGTTTATCATTAATTTCTAAtt                                                                                                                >  1:1082243/1‑71 (MQ=255)                                                                                      ttGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAAtt                                                                                                                <  2:1082243/71‑1 (MQ=255)                                                                                       tGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACaa                                           <  1:125146/139‑1 (MQ=255)                                                                                         gCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACaaaa                                         <  2:1125142/139‑1 (MQ=255)                                                                                          cATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAAGTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAag                                        >  1:1003944/1‑139 (MQ=255)                                                                                            tGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAagag                                      >  2:1082994/1‑139 (MQ=255)                                                                                             gCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGtt                                                                         <  2:736365/103‑1 (MQ=255)                                                                                             gCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGtt                                                                         >  1:736365/1‑103 (MQ=255)                                                                                              cAGTCATTCATCGACTCATGCCTTTCACTTATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTctggctgg                                                                                              <  2:899872/81‑1 (MQ=255)                                                                                              cAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTtggcagg                                                                                              >  1:899872/1‑81 (MQ=255)                                                                                              cAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGaa                                    >  1:1047313/1‑139 (MQ=255)                                                                                                 tcattcatCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGAATAg                                 <  2:1003944/139‑1 (MQ=255)                                                                                                       atCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGAATAGCTATGc                           <  2:1047313/139‑1 (MQ=255)                                                                                                        tCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGAATAGCTATGCa                          <  1:1364388/139‑1 (MQ=255)                                                                                                        tCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGAATAGCTATGCa                          <  1:1082994/139‑1 (MQ=255)                                                                                                        tCGACTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGAATAGCTATGCa                          <  2:926003/139‑1 (MQ=255)                                                                                                           aCTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTtggct                                                                                                <  2:243127/66‑1 (MQ=255)                                                                                                           aCTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTtggct                                                                                                >  1:243127/1‑66 (MQ=255)                                                                                                           aCTCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGAATAGCTATGCatga                       >  1:237301/1‑139 (MQ=255)                                                                                                             tCATGCCTTTCACTGATATCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGAATAGCTATGCatgatg                     >  2:52286/1‑139 (MQ=255)                                                                                                                             tatCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTggcggc                                                                                          <  2:1205037/54‑1 (MQ=255)                                                                                                                             tatCCCTCTCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTggcggc                                                                                          >  1:1205037/1‑54 (MQ=255)                                                                                                                               tccctctcTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACaaaa                                         <  1:703731/101‑1 (MQ=255)                                                                                                                               tccctctcTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACaaaa                                         >  2:703731/1‑101 (MQ=255)                                                                                                                                ccctctctGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGAATAGCTATGCATGATGCAAACATCCGCGTTGCCAt  <  1:611672/139‑1 (MQ=255)                                                                                                                                     |                                                                                                                                      AGGTGGCATTGGATCTGGATGTGAAAGGCTTCCAGCAGTGGGTGGCTGAGGTGCTGGCTCTGGCGTCGTAACCTGTCACATGTTATTGGCATGCAGTCATTCATCGACTCATGCCTTTCACTGATATCCCTCCCTGTTTATCATTAATTTCTAATTATCAGCGTTTTTGGCTGGCGGCGTAGCGATGCGCTGGTTACTCTGAAAACGGTCTATGCAAATTAACAAAAGAGAATAGCTATGCATGATGCAAACATCCGCGTTGCCAT  >  NC_000913/28137‑28402

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑