Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,309,006	(C)6→5	intergenic (‑82/+27)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,309,001	0	C	.	100.0%	147.4 / NA	36	intergenic (‑77/+32)	nlpI/pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (16/20);  total (16/20)

TTACTGCATCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGCCCCCCGCCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGACGGATACGGCCCTGGCGATC  >  NC_000913/3308863‑3309131                                                                                                                                           |                                                                                                                                   ttACTACATCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGc                                                                                                                                    <  1:1031438/139‑1 (MQ=255)       cATCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCCCGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccccac                                                                                                                              >  2:907960/1‑137 (MQ=255)         tCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccccaccg                                                                                                                            >  1:624878/1‑135 (MQ=255)         tCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccccaccg                                                                                                                            >  2:382946/1‑135 (MQ=255)         tCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccccaccg                                                                                                                            >  1:371257/1‑135 (MQ=255)            tGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccccaccgcag                                                                                                                         >  1:138353/1‑132 (MQ=255)            tGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccccaccgcag                                                                                                                         >  2:1211979/1‑132 (MQ=255)             gCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGc                                                                                                                       >  1:1192212/1‑139 (MQ=255)                          cTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATgg                                                                                                          <  2:138353/139‑1 (MQ=255)                           tGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGc                                                                                                         >  2:924779/1‑139 (MQ=255)                             tCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCaa                                                                                                       >  1:948094/1‑139 (MQ=255)                                      aaCACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGCCCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAACG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCg                                                                                              <  1:340946/139‑1 (MQ=255)                                           cAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTg                                                                                         >  1:723167/1‑139 (MQ=255)                                              cgcAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CTCCCACCGCAGCGGAGGGc                                                                                                                <  2:802233/113‑1 (MQ=255)                                              cgcAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTCTTCCCGGTTGCTAACAAGGCGTCCTGCCCTGTTAAAAG‑CCCCCACCGCAGCGGAGGGc                                                                                                                >  1:802233/1‑113 (MQ=255)                                                   aaaaGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTcagcag                                                                                 >  1:1001733/1‑139 (MQ=255)                                                                      tCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGa                                                                            >  1:594757/1‑125 (MQ=255)                                                                      tCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGa                                                                            <  2:594757/125‑1 (MQ=255)                                                                        ccGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTgcag                                                            <  1:1211979/139‑1 (MQ=255)                                                                          gAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTgcagca                                                          <  1:382946/139‑1 (MQ=255)                                                                                cACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTga                                                    >  2:764190/1‑139 (MQ=255)                                                                                     ttGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGtgctgc                                                              >  1:604035/1‑124 (MQ=255)                                                                                     ttGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGtgctgc                                                              <  2:604035/124‑1 (MQ=255)                                                                                        aatgaaCGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTc                                            >  1:338107/1‑139 (MQ=255)                                                                                          tgaaCGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGc                                                                                                                <  2:1132475/69‑1 (MQ=255)                                                                                          tgaaCGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGc                                                                                                                >  1:1132475/1‑69 (MQ=255)                                                                                           gaaCGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGt                                         <  1:907960/139‑1 (MQ=255)                                                                                              cGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGc                                      <  2:624878/139‑1 (MQ=255)                                                                                              cGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGc                                      <  1:924779/139‑1 (MQ=255)                                                                                               gTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTAc                                                                                                 >  2:142354/1‑79 (MQ=255)                                                                                               gTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTAc                                                                                                 <  1:142354/79‑1 (MQ=255)                                                                                                     ttCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTa                               <  2:948094/139‑1 (MQ=255)                                                                                                        ccGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTAGCTTCTTTAATg                            <  1:908393/139‑1 (MQ=255)                                                                                                               cTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGctt                                    >  2:661516/1‑124 (MQ=255)                                                                                                               cTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGctt                                    <  1:661516/124‑1 (MQ=255)                                                                                                                    aaGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGACGGATa                <  2:1001733/139‑1 (MQ=255)                                                                                                                     aGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGcagcag                                                         <  2:682033/97‑1 (MQ=255)                                                                                                                     aGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGcagcag                                                         >  1:682033/1‑97 (MQ=255)                                                                                                                          tCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGACGGATACGGccc          <  1:342531/139‑1 (MQ=255)                                                                                                                            cTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGa                      >  1:940769/1‑125 (MQ=255)                                                                                                                            cTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGa                      <  2:940769/125‑1 (MQ=255)                                                                                                                              gCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGACGGATACGGCCCTGGc      >  2:342426/1‑139 (MQ=255)                                                                                                                                  ggTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGACGGATACGGCCCTGGCGATc  <  2:1192212/139‑1 (MQ=255)                                                                                                                                           |                                                                                                                                   TTACTGCATCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGCCCCCCGCCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGACGGATACGGCCCTGGCGATC  >  NC_000913/3308863‑3309131

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑