Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,129,090	Δ1 bp	coding (1126/1173 nt)	yghO ←	putative DNA‑binding transcriptional regulator YghO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,129,087	0	C	.	100.0%	185.1 / NA	44	coding (1129/1173 nt)	yghO	putative DNA‑binding transcriptional regulator YghO
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (20/24);  total (20/24)

GTGCCGCTGGAGATGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCGCCCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAGCGCATCGATCTT  >  NC_000913/3129010‑3129162                                                                              |                                                                            gTGCCGCTGGAGATGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCGccc                                                                           >  2:578064/1‑80 (MQ=255)    ccGCTGGAGATGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCGcccaatg                                                                       <  1:578002/81‑5 (MQ=255)    ccGCTGGAGATGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCGcccaat                                                                        <  1:578003/80‑4 (MQ=255)     cGCTGGAGATGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGc                                                                     <  2:578004/81‑1 (MQ=255)      gCTGGAGATGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCg                                                                    >  2:578089/1‑81 (MQ=255)          gagaTGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGtt                                                                  <  1:578005/79‑1 (MQ=255)           agaTGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTc                                                                 >  1:578070/1‑79 (MQ=255)             aTGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGc                                                             <  1:578007/81‑1 (MQ=255)             aTGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGc                                                             <  2:578008/81‑1 (MQ=255)             aTGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGc                                                             <  2:578006/81‑1 (MQ=255)                 aCCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGt                                                         >  2:578084/1‑81 (MQ=255)                    tGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTAt                                                      >  1:578085/1‑81 (MQ=255)                     gAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTAtt                                                     >  1:578090/1‑81 (MQ=255)                      aGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTAtt                                                     <  2:578009/80‑1 (MQ=255)                      aGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTAt                                                      <  2:578010/79‑1 (MQ=255)                       gTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCa                                                   >  2:578078/1‑81 (MQ=255)                               gTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTg                                             <  1:578011/79‑1 (MQ=255)                               gTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGt                                            <  2:578012/80‑1 (MQ=255)                                tATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTAt                                          >  1:578074/1‑81 (MQ=255)                                 aTTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTAtt                                         >  2:578095/1‑81 (MQ=255)                                 aTTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTAtt                                         >  1:578076/1‑81 (MQ=255)                                    aaaTCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGt                                      >  1:578081/1‑81 (MQ=255)                                     aaTCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGtt                                     >  2:578093/1‑81 (MQ=255)                                           cTTTTCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTc                                   <  1:578013/77‑1 (MQ=255)                                               tCATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATc                            <  1:578014/80‑1 (MQ=255)                                                cATACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATcc                           <  2:578015/80‑1 (MQ=255)                                                 aTACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCa                          <  2:578016/80‑1 (MQ=255)                                                 aTACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCAt                         <  1:578019/81‑1 (MQ=255)                                                 aTACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCAt                         <  1:578017/81‑1 (MQ=255)                                                 aTACAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCAt                         <  1:578018/81‑1 (MQ=255)                                                    cAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGa                       >  2:578079/1‑80 (MQ=255)                                                    cAATCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGa                       >  1:578092/1‑80 (MQ=255)                                                      aTCGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACAt                    <  1:578020/81‑1 (MQ=255)                                                        cGGTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACAtct                  >  1:578088/1‑81 (MQ=255)                                                         ggTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACAtctc                 >  2:578075/1‑81 (MQ=255)                                                         ggTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACAtctc                 >  2:578129/1‑81 (MQ=255)                                                          gTAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTcc                <  2:578021/81‑1 (MQ=255)                                                           tAACGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCa               <  2:578022/81‑1 (MQ=255)                                                            aaCGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAg              >  1:578102/1‑81 (MQ=255)                                                             aCGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAgc             <  1:578024/81‑1 (MQ=255)                                                             aCGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAg              <  1:578023/80‑1 (MQ=255)                                                              cGCTTGTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAgcg            <  1:578025/81‑1 (MQ=255)                                                                   gTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAGCGCATc        <  2:578026/80‑1 (MQ=255)                                                                   gTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAGCGCATc        >  1:578104/1‑80 (MQ=255)                                                                   gTACGGCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAGCGCATc        >  2:578080/1‑80 (MQ=255)                                                                       ggCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAGCGCATCGATCt   <  1:578027/81‑1 (MQ=255)                                                                        gCTCCG‑CCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAGCGCATCGATCtt  >  2:578094/1‑81 (MQ=255)                                                                              |                                                                            GTGCCGCTGGAGATGAACCTGAGTTAGCTGGTATTAAATCTGCTTTTCATACAATCGGTAACGCTTGTACGGCTCCGCCCCAATGCGTTCCAGCATGTTATTCATGCCTGTATTGGTTTCGAGGATCCATGACATCTCCAGCGCATCGATCTT  >  NC_000913/3129010‑3129162

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑