Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,664,096	T→C	I163T (ATA→ACA)	ynfH →	oxidoreductase, membrane subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,664,096	0	T	C	100.0%	145.0 / NA	40	I163T (ATA→ACA)	ynfH	oxidoreductase, membrane subunit
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (21/19);  total (21/19)

TTTTCAGCATGGCGCTCGGCGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAATACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCTATTCA  >  NC_000913/1663964‑1664228                                                                                                                                     |                                                                                                                                     ttttCAGCATGGCGCTCGGCGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTtgc                                                                                                                                >  1:71817/1‑139 (MQ=255)           ggCGCTCGGCGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAAtt                                                                                                                      >  2:519507/1‑139 (MQ=255)                    cGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCa                                                                                                             <  1:205594/139‑1 (MQ=255)                           ttCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcgcg                                                                                                      <  1:743365/139‑1 (MQ=255)                             cGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGtt                                                                                                    <  1:484565/139‑1 (MQ=255)                                    atgatgACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTa                                                                                             <  2:71817/139‑1 (MQ=255)                                        tgaCCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGtt                                                                                                    <  2:246921/128‑1 (MQ=255)                                        tgaCCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGtt                                                                                                    >  1:246921/1‑128 (MQ=255)                                          aCCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACca                                                                                       >  1:704729/1‑139 (MQ=255)                                               cGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTAGACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCa                                                                                  >  1:607823/1‑139 (MQ=255)                                                     tCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGcc                                                                            <  2:704729/139‑1 (MQ=255)                                                     tCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGcc                                                                            >  1:54611/1‑139 (MQ=255)                                                              cacCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGc                                                                   >  1:383106/1‑139 (MQ=255)                                                                 cGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGtt                                                                <  2:826216/139‑1 (MQ=255)                                                                   tGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAg                                                                    <  2:709777/133‑1 (MQ=255)                                                                   tGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAg                                                                    >  1:709777/1‑133 (MQ=255)                                                                       aaCCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGgcg                                                          >  2:9194/1‑139 (MQ=255)                                                                        aCCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGgcgc                                                         >  1:62358/1‑139 (MQ=255)                                                                                     gTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcgcg                                                                                                      <  1:245509/81‑1 (MQ=255)                                                                                     gTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcgcg                                                                                                      >  2:245509/1‑81 (MQ=255)                                                                                              cGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcgcg                                                                                                      >  1:58269/1‑72 (MQ=255)                                                                                              cGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcgcg                                                                                                      <  2:58269/72‑1 (MQ=255)                                                                                                cTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGc                                                  <  2:210651/122‑1 (MQ=255)                                                                                                cTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGc                                                  >  1:210651/1‑122 (MQ=255)                                                                                                   gCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcg                                                                                                        >  1:574670/1‑65 (MQ=255)                                                                                                   gCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTcg                                                                                                        <  2:574670/65‑1 (MQ=255)                                                                                                    cTTTCTTCCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGtgct                             >  2:292364/1‑139 (MQ=255)                                                                                                        cttcCTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCaa                         >  2:615113/1‑139 (MQ=255)                                                                                                           ccTGACGGTATTGTTGAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGt                      <  2:54611/139‑1 (MQ=255)                                                                                                                     ttgttgAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGAGGTGATTGTGCTGCAAGGTTTGTCTCTgg            <  1:9194/139‑1 (MQ=255)                                                                                                                          gAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCt       <  2:383106/139‑1 (MQ=255)                                                                                                                          gAGCGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCt       >  2:588631/1‑139 (MQ=255)                                                                                                                             cGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGAt                                                     <  2:150701/90‑1 (MQ=255)                                                                                                                             cGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGAt                                                     >  1:150701/1‑90 (MQ=255)                                                                                                                             cGGTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCTAtt    >  2:697306/1‑139 (MQ=255)                                                                                                                               gTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTgg                                                            <  2:284642/81‑1 (MQ=255)                                                                                                                               gTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTgg                                                            >  1:284642/1‑81 (MQ=255)                                                                                                                               gTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCa                          >  2:17978/1‑115 (MQ=255)                                                                                                                               gTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCa                          <  1:17978/115‑1 (MQ=255)                                                                                                                               gTCCAACACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCTATTCa  <  1:292364/139‑1 (MQ=255)                                                                                                                                     |                                                                                                                                     TTTTCAGCATGGCGCTCGGCGTCATTTTCGTCTGGATGATGACCTGCGTGTATCAAATCGACACCGTGCCAACCTGGCATAACGGTTACACTACGCTGGCTTTCTTCCTGACGGTATTGTTGAGCGGTCCAATACTTGCTGCCGCAATTCTGCGGGCAGCTCGCGTTACATTTAATACCACACCATTTGCCATCATTAGCGTTCTGGCGCTGATCGCTTGTGCCGGGGTGATTGTGCTGCAAGGTTTGTCTCTGGCGTCTATTCA  >  NC_000913/1663964‑1664228

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑