Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,133,273	G→A	G234S (GGC→AGC)	flgE →	flagellar hook protein FlgE

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,133,273	0	G	A	95.0%	46.9 / ‑3.8	20	G234S (GGC→AGC)	flgE	flagellar hook protein FlgE
Reads supporting (aligned to +/- strand):  ref base G (1/0);  new base A (12/7);  total (13/7)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.14e-01

TGATCCGCTTCCTACTGTTACGCCATTCAGCGCCAGCAATGCGGATAGCTATAACAAAAAAGGTTCGGTGACTGTTTTCGACAGTCAGGGTAATGCTCATGACATGAGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGGAATTTAATGCTAATGGCACATTAGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCAATTAACGGTGCAGAACCCGCCACGTTTAGTCTGAGCTTCCTCAACTCCAT‑GCAGCAAAATACCGGCGCTAACAATATTGTGGCAACCACCCAGAACGGC‑TACAAACCGGGCGATCTGGTGAGTTATCAAATCAATGATGACGGTACGGTTGTCGGCAACTATTCCAACGAACAAACC  >  NC_000913/1133056‑1133497                                                                                                                                                                                                                          |                                                                                                                                                                                                                                   tGATCCGCTTCCTACTGTTACGCCATTCAGCGCCAGCAATGCGGATAGCTATCACAAAAAAGGTTCGGTGACTGTTTTCGACAGTCAGGGTAATGCTCATGACATGAGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAAACAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGATGGTGCGTTGGCGagtaat                                                                                                                                                                                                    >  2:62000/1‑250 (MQ=255)     ccGCTTTCGACTGTGACGTCATTCAGCGCCAGCCATGCGGATAGCTATAACAAAAAAGGTCTGGTGACAGTTTACGACAGTCAGGGTAATGCACATGTCATTAGCGTCTACTTTGTGAAGACCGGGGATAATAACGGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGTAATTTTATGCTAATAGCACATTAGTGGATGGTGCGATGGCGACTAATATCGc                                                                                                                                                                                               <  2:336366/251‑1 (MQ=255)                tGTTACGCCATTCAGCGCCAGCAATGCGGATAGCTATAACAAAAAAGGTTCGGTGACTGTTTTCGACAGTCAGGGTAATGCTCATGACATGAGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCa                                                                                                                                                                                     >  1:297651/1‑250 (MQ=255)                    aCGCCATTCAGCGCCAGCAATGCGGATAGCTATAACAAAAAAGGTTCGGTGACTGTTTTCGACAGTCAGGGTAATGCTCATGACATGAGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCAATTaa                                                                                                                                                                                <  1:241059/251‑1 (MQ=255)                       ccATTCAGCGACAGCAATGCGGATAGCTATAACAACAAAGGTTCGGTGACTGTTTTCGACAGTCAGGTTAATGCTCATGACATGAGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGTTAGCAGTGATCCAAACAGCATTACGAAGACAGCGACAACACTGGACTTTCATGCTCATAGCACATTAGTAGCTGGTGCGATGGAGAATAAAATCGAAACCGGCGCAATTaaagg                                                                                                                                                                             >  2:333163/1‑248 (MQ=255)                                                gCTATAACAAAAAAGGTTCGGTGACTGTTTTCGACAGTCAGGGTAATGCTCATGACATGAGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGATGGTGCGATGACGAATAATATCGCAACCGGCGCAATTAACGGTGCAGAACCCGCCACGATTAGTCTg                                                                                                                                                    >  1:364612/1‑251 (MQ=255)                                                     aaCAAAAAAGGTTCGGTGACTGTTTTCGACAGTCAGGGTAATGCTCATGACATGAGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCAATTAACGGTGCAGAACCCGCCACGTTTAGTCTGAGCtt                                                                                                                                               >  1:5251/1‑251 (MQ=255)                                                                           ttttCGACAGTCAGGGTAATGCTCATGACATGAGCGTCTACTTTGTGACGACCGGGGATACTAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCCTTGAGAAGACAGCGACACCACTGGAATTTAATGCTAATAGCACATTAGTGGATGGTGCGCTGGCGAATAATATCGCAACCGGCGACATTAACGGTGCAGAACCCGCCACGTTTAGTCTGAGCTTCCTCAACTCCAT‑GCAGCAAAAt                                                                                                                        >  1:359100/1‑251 (MQ=255)                                                                             ttCGACAGTCAGGGTAATGCTCAGGACATGAGCGTCTATTTTGGGAAGCCCGGGGATAATACCTGGCAGGCTTCCCCCCAGGATAGCATTGACCCAAACAGCATTGCGAAGACAGCGACAACACTGAAATTTAATGCTAATAGCACATAAGTGGATGGTGCGAGGGCGAATAATATCGCACCGGGCGAAATTAACGGTGCAGAACCCGCCACGTTTAGTCTGAGCTTCCTCAACTCCAT‑GCAGCAAAATa                                                                                                                       <  1:101509/250‑1 (MQ=255)                                                                                        gggtaaatcTCATGACATGAAAGTCTAATTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCACGGCTAGAAGTGATCCAAACAGCATTTCGAAGAAAGCGACACCCCTGGAATTTAATGATAATAGCAATTTAGTGGATGGTTCCATGACGTATAATATCGACACCGTCGCACTTAAAGGGGCATAACCCGCCACGTTTAGTGTGAACGTCCTCAACTA‑ATCGCACCAAAATACCGgcggttgcc                                                                                                           >  2:27720/9‑245 (MQ=255)                                                                                             aTGCTCATGACATGAGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCAATTAACGGTg                                                                                                                                                                           <  2:34212/183‑1 (MQ=255)                                                                                             aTGCTCATGACATGAGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCAATTAACGGTg                                                                                                                                                                           >  1:34212/1‑183 (MQ=255)                                                                                                       catgaGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGATGGAGCGATGGCGAATAATATCGCAACCGGCGCAATTAACGGTGCAGAACCCGCCACGTTTAGTCTGCGCTTCCTCAACTCCAT‑GCAGCAAAATACCGGCGCTAACAATATTTCGGCAacc                                                                                             >  2:78679/1‑250 (MQ=255)                                                                                                                                      cataaCTGACAGGTCTACACCCAGGATAGCAGTGCTCCAAACAGCATTGCGACGCCAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGCTGGTGCGATGGCGAATAATATCGCCACCGGCGCAATTATCGGTGAAGACCCCGCCACGTTTAGTCTGAGCTTCCTCAACTCCAT‑GCAGCAAAATACCGGCGCTAACAATATTGTGGCAACCACCCAGA‑CAGCATACAAACCGGGCGACCTggg                                                            >  2:230003/2‑250 (MQ=255)                                                                                                                                                      acacCCAGGATATCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACAGGAATTTAATGCTAATAGCACATTAGTGGGTGGTGCGAGGGCGAATAAAATCGCACCCGGCGCAATTAACGGTGCAGAACCCGCCACGTTTAGTCTGAGCTTCCTCAACTCCAT‑GCAGCAAAATACCGGCGCTAACAATATTGTGGCAACCACCCAGAACGGC‑TACAAACCGGGCGATCTGGTTAGTTATCAAATCAat                                            <  1:339331/251‑1 (MQ=255)                                                                                                                                                      acacCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCAATTAACGGTGCAGAACCCGCCACGTTTAGTCTGAGCTTCCTCAACTCCAT‑GCAGCAAAATACCGGCGCTAACAATATTGTGGCAACCACCCAGAACGGC‑TACAAACCGGGCGATCTGGTGAGTTATCAAATCAat                                            >  1:48258/1‑251 (MQ=255)                                                                                                                                                                 aGCAGTGATCCAAACAGCATTGCGAATACAGCGACAACACTGGAATTTAATGTAAATAGCCCATTTGTGGATGGTGCGATGGAAAATAATACCGCAACCGGCGCAATTAACGGTCCAAAAACCGCCACGTTTAGTCTGAGCTTCCTCAACTCCAT‑GCAGCAAAATACCGGCGCTAACAATATTGTGGCAACCACCCAGAACGGC‑TACAAACCGGGCGATCTGGTGAGTTATCAAATCAATGATGacggtac                                 <  1:333515/251‑1 (MQ=255)                                                                                                                                                                                     tGCGAAGACAGCGACAACACTGGAATTTAATGCTAATAGCACATTAGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCAATTAACGGTGCAGAACCCGCCACGTTTAGTCTGAGCTTCCTCAACTCCAT‑GCAGCAAAATACCGGCGCTAACAATATTGTGGCAACCACCCAGAACGGC‑TACAAACCGGGCGATCTGGTGAGTTATCAAATCAATGATGACGGTACGGTTGTCGGCAACTATTcc              <  1:230003/250‑1 (MQ=255)                                                                                                                                                                                          aGACAGCGACAACACTGGAATTTAATGCTAATGGCACATTAGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCAATTAACGGTGCAGAACCCGCCACGTTTAGTCTGAGCTTCCTCAACTCCAT‑GCAGCAAAATACCGGCGCTAACAATATTGTGGCAACCACCCAGCACGGC‑TACAAACCGGGCGATCTGGTGAGTTATCAAATCAATGATGCAGGACCGGCTGTAGGCACCTATTCCAACGa         >  2:180044/1‑250 (MQ=255)                                                                                                                                                                                                cGACAACACTGGAATTTAATGCTAATAGCACATTCGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCAATTAACGGTGCAGAACCCGCCACGTTTAGTCTGAGCTTCCTCAACTACAT‑GCAGAAAAATACCGGCGCTACCAATATTGTGTCATCCACCCAGAACGGC‑TAAAAACCGGGCGATTTGGTGTGTTATAACAACCATGATAACGGTACGGTTTTCGGTCACTATTCCCACTaaccaacc  >  2:337417/1‑251 (MQ=255)                                                                                                                                                                                                                          |                                                                                                                                                                                                                                   TGATCCGCTTCCTACTGTTACGCCATTCAGCGCCAGCAATGCGGATAGCTATAACAAAAAAGGTTCGGTGACTGTTTTCGACAGTCAGGGTAATGCTCATGACATGAGCGTCTACTTTGTGAAGACCGGGGATAATAACTGGCAGGTCTACACCCAGGATAGCAGTGATCCAAACAGCATTGCGAAGACAGCGACAACACTGGAATTTAATGCTAATGGCACATTAGTGGATGGTGCGATGGCGAATAATATCGCAACCGGCGCAATTAACGGTGCAGAACCCGCCACGTTTAGTCTGAGCTTCCTCAACTCCAT‑GCAGCAAAATACCGGCGCTAACAATATTGTGGCAACCACCCAGAACGGC‑TACAAACCGGGCGATCTGGTGAGTTATCAAATCAATGATGACGGTACGGTTGTCGGCAACTATTCCAACGAACAAACC  >  NC_000913/1133056‑1133497

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑