Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,978,245	A→C	intergenic (‑48/+273)	flhD ← / ← insB5	DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,978,245	0	A	C	100.0%	64.8 / NA	22	intergenic (‑48/+273)	flhD/insB5	DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (11/11);  total (11/11)

GTTTCTGCCAGCTTAACCATTTGCGGAAGAGTCAGTGCCGCTAACGTTGTCGCCATTTCTTCATTTATGCCGAGACGAAACATAGCGGACGCTTTGTCCTGAACAATCAAACGCTGTGCAAGTAGTAAATATGACAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCACCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACAC  >  NC_000913/1978019‑1978482                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                              gTTTCTGCCAGCTTAACCATGTGCGGAAGAGTCAGTGCCGCTAACGTTGTCGCCATTTCTTCATTTATGCCGAGACGAAACATAGCGGACGCTTTGTCCTGAACAATCAAACGCTGTGCAAGTAGTAAATATGACAAGTTGATGTCAGAAATGTGTTTCAGCAACTCGGATGTATGCATTATTCCCCCCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCGCCggg                                                                                                                                                                                                                             <  1:221916/245‑1 (MQ=255)               naCCATTTGCGGAAGAGTCAGTGCCGCTAACGTTGTCGCCATTTCTTCATTTATGCCGAGACGAAACATAGCGGACGCTTTGTCCTGAACAATCAAACGCTGTGCAAGTAGTAAATATGACAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGa                                                                                                                                                                                                                                       >  1:300393/2‑221 (MQ=255)                  naTTTGCGGAAGAGTCAGTGCCGCTAACGTTGTCGCCATTTCTTCATTTATGCCGAGACGAAACATAGCGGACGCTTTGTCCTGAACAATCAAACGCTGTGCAAGTAGTAAATATGACAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAAtt                                                                                                                                                                                                        >  1:299664/2‑249 (MQ=255)                                 cAGTGCCGCTAACGTTGTCGCCATTTCTTCATTTATGCCGAGACGAAACATAGCGGACGCTTTGTCCTGAACAATCAAACGCTGTGCAAGTAGTAAATATGACAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGc                                                                                                                                                                                       <  1:140105/251‑1 (MQ=255)                                                   cGCCATTTCTTCAGTTAGGCCGAGACGAAACATAGCGGAGGCTTTGTCCTGAACAATCAAACGCTGTGCAAGTAGTAAAGATGACAAGTTGATGTCATAAATGTTTTTCAGCAACGCGGAGGTAGGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGGGGTTTCACCGCCTCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCAGTAGAATAGTTGCGATAAGCTGCAATAAGCa                                                                                                                                                                     <  1:192661/251‑1 (MQ=255)                                                                     gCCGAGACGAAACATAGCGGACGCTTTGTCCTGAACAATCAAACGCTGTGCAAGTATTAAATATGACAAGTTTATGTCATAAATGTGTTTCAGCAACTCGTAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCTCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAg                                                                                                                                                                                                <  1:459160/206‑1 (MQ=255)                                                                                     gCGGACGCTTTGTCCTGAACACTCAAACGCTGTGCAAGTAGTAAATATGACAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACaa                                                                                                                                    >  1:385567/1‑250 (MQ=255)                                                                                            cTNNNNNCTGNACAATCAAACGCTGTGCAAGTAGTAAATATGACAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGa                                                                                                                                                                                                                                       <  2:300393/144‑1 (MQ=255)                                                                                                  ccTGAACAATCAAACGCTGTGCAAGTAGTAAATATGCCAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCNGTGNNNNNGc                                                                                                                                                                                                                                 >  2:314623/1‑144 (MQ=255)                                                                                                  ccTGAACAATCAAACGCTGTGCAAGTAGTAAATATGAAAAGTTGATGTCATCAATGAGTTTCAGTAACTCGGAGGCATGAATTATTCCCACCCAGACTAACCAAATTTATTTTTATGCGGTTTCACCGCCCCACGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTg                                                                                                                                                                                        >  1:328453/1‑185 (MQ=255)                                                                                                   cTGAACAATCAAACGCTGTGCAAGTAGTAAATATGACAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACGCAGAATAACCATCTTTATTTTGATGCGGTTTCACCGCCCCCCGTGATGTCGcc                                                                                                                                                                                                                                <  1:216895/144‑1 (MQ=255)                                                                                                        cAATCNNACNNNGTNNAAGTAGTAAATATGACAAGTTGANGTCATAAATGTGTTTCAGCAACTCGGAGGNANGNATTANNCCCNCCCAGAATAANCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCGCCGGGANGNCCCGGTAAAAAATAATTAGCATTAGAATAGTNGCGATAAGCTGCAATAAGc                                                                                                                                                                      >  2:365446/1‑197 (MQ=255)                                                                                                        cAATCAAACGCTGTGCAAGTAGTAAATATGACAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATAAGCTGCAATAAGc                                                                                                                                                                      <  1:365446/197‑1 (MQ=255)                                                                                                                                  tatGACAAGTTGATGTCATAAATGTGTTTCAGCAACTCTGAGGTATGCATTATGCCCTCCCAGAATAACCAACTTTATTTTTATTCGGTTTCACCGTCTCCCGAGCTGCCGCCTGGAAGCCCCGGTAAATAATAATTAGCATGAGACTAGTTGCGATAAGCTGc                                                                                                                                                                             <  1:434010/164‑1 (MQ=255)                                                                                                                                      aCAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAaataa                                                                                                                                                                                                          >  1:284248/1‑131 (MQ=255)                                                                                                                                       cAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAAc                                                                                 >  1:145412/1‑251 (MQ=255)                                                                                                                                                                         gAGGTATGCATTATTCCCTCCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCGCCGGGAAGCCCCgn                                                                                                                                                                                                                    <  1:305501/86‑2 (MQ=255)                                                                                                                                                                         gAGGAATGCATTATTCCCACCCAGGATAACCCACTTTATTTTTATGCGGTTTCACCGCCCCCCGTGATGTCGCCGGGAAGCCCCgg                                                                                                                                                                                                                    >  2:305501/1‑86 (MQ=255)                                                                                                                                                                                                                    aTGCGGTTTCACCGCCCCCCGTGACGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGACTAGTTGCGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAACTAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAac    >  1:153188/1‑251 (MQ=255)                                                                                                                                                                                                                      gCGGTTTCACCGCCCCCCGTGAGGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAacan  <  1:313976/251‑2 (MQ=255)                                                                                                                                                                                                                         gTTTCACCGCCCCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACgn                                                                                    <  1:306258/166‑2 (MQ=255)                                                                                                                                                                                                                         gTTTCACCGCCCCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTNACANNNNNCtnnnnnnnnnn                                                                                                >  2:306258/1‑144 (MQ=255)                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                              GTTTCTGCCAGCTTAACCATTTGCGGAAGAGTCAGTGCCGCTAACGTTGTCGCCATTTCTTCATTTATGCCGAGACGAAACATAGCGGACGCTTTGTCCTGAACAATCAAACGCTGTGCAAGTAGTAAATATGACAAGTTGATGTCATAAATGTGTTTCAGCAACTCGGAGGTATGCATTATTCCCACCCAGAATAACCAACTTTATTTTTATGCGGTTTCACCGCACCCCGTGATGTCGCCGGGAAGCCCCGGTAAAAAATAATTAGCATTAGAATAGTTGCGATAAGCTGCAATAAGCAGAACCACCTTTTTGGTTTAATATGTCCTTACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACAC  >  NC_000913/1978019‑1978482

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑