Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,429,534	C→T	A162A (GCC→GCT)	stfR →	putative prophage side tail fiber protein StfR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,429,534	0	C	T	100.0%	61.0 / NA	22	A162A (GCC→GCT)	stfR	putative prophage side tail fiber protein StfR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (13/9);  total (13/9)

GGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGCACAGAACACGGCAGCCGCGAAGAAGTCAGCCAGTGATGCCAGCACATCAGC‑CCGTGAGGCGGCAACCCATGCGG‑CTGATGCTGCGGACTCAGCACGCGCAGCCAGCACGTCAGCCGGACAGGCCGCGTCGTCGGCTCAGTCAGCGTCTTCCAGCGCAGGAACGGCATCAACAAAGGCCACTGAAGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTTCAGCGTCACTACAATCAGCAGCCACATCTGCATCCACCGCGACCACGAAGGCATCAGAAGCTGCGACCTCGGCCCGGGATGCGGCGGCCTCAAAAG  >  NC_000913/1429298‑1429778                                                                                                                                                                                                                                               |                                                                                                                                                                                                                                                     gggaCGCTGAATGATTTTCTCTGTGCCATGACGGAGGATGATGCCCGGCCGGAGGTGCTGCGTCGTCTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGC‑TGCTCAGGTCGCGGCCCTTGTGA‑CTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCtc                                                                                                                                                                                                                                         >  2:128612/4‑250 (MQ=255)                           cATGACGGAGGATGATGCCCGGCCGGAGGTGCTGCGTCGTCTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGC‑TGCTCAGGTCGCGGCCCTTGTGA‑CTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAgaagcgg                                                                                                                                                                                                              >  1:197314/1‑245 (MQ=255)                               aCGGAGGATGATGCCCGGCCGGAGGTGCTGCGTCGTCTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGCTGCG‑CAGGTCGCGGCCCTTGTGA‑CTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATc                                                                                                                                                                                                          <  1:157527/251‑1 (MQ=255)                                         atgCCCGGCCGGAGGTGCTGCGTCGTCTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGC‑TGCTCAGGTCGCGGCCCTTGTGA‑CTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGACGCGGCATCAGCAAAggac                                                                                                                                                                                                >  2:64283/1‑249 (MQ=255)                                               ggcgggaggtgctgcgtcggcttGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGC‑TGCTCAGGTCGCGGCCCGTGTGA‑CTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGGCAGGTCAGGAAGCGTCCTCGGGCGCAGAAGCGGCAGCAGCAAAGGCCTCTGaa                                                                                                                                                                                          <  2:42057/230‑1 (MQ=255)                                               ggccGGAGGTGCTGCGTCGTCTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGC‑TGCTCAGGTCGCGGCCCTTGTGA‑CTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGa                                                                                                                                                                                           >  2:2884/3‑250 (MQ=255)                                                   ggatgtgcTGCGTCGTCTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGCTGCCAGTGCATCAGC‑TGCTCAGGTCGCGGCCATTGTGA‑CTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGAAAGCGTCCTCAGGAGCAGAAGCGGCCTCAGCAAAGGCCACTGCAGcgg                                                                                                                                                                                      >  2:73486/8‑249 (MQ=255)                                                    gaggtgcTGCGTCGTCTTTAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGC‑TGCTCAGGTCGCGGCCCTTGTGA‑CTGATGCAACGGACTCAGCACGCGCCGCCAGCACTTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGcgga                                                                                                                                                                                     <  1:120666/245‑4 (MQ=255)                                                           ggcgtcgtcttGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGGCACAGAGTACGGCAGACGCGAAGAAATCAGCCGGCGATGCCAGTGCATCAGC‑TGCTCAGGTCGCGGCCCTTGTGA‑CTGATGCAACTGACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGcggaaaaaagt                                                                                                                                                                              <  2:104673/242‑11 (MQ=255)                                                                     tGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGTGGTGTCACAGAGTACGGCAGACGCGAAGAAAGCAGCCGGCGATGCCAGTGCATCAGC‑TGCTCAGGTCGCGGCCC‑TGGGGTCTGATGCAACTGACTCAGCCCGCGCCGCCAGCACGTCCGCGGGACAGGCTGCAGCGTCAGCGCAGGAAGCGTCCTACGGCGCATAAGCGGCATCAGCAAAGGCCACTGAAGctgaaaatagtgccgcagcc                                                                                                                                                                     <  2:238391/250‑20 (MQ=255)                                                                                                                                                                                            gactgatgcaactgACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGaaa                                                <  1:99782/237‑2 (MQ=255)                                                                                                                                                                                            gactgatgcaactgACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGaa                                                 >  1:61930/14‑249 (MQ=255)                                                                                                                                                                                                gatgcaactgACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGATCAGGAAGCGTCCTCCGGCGCAGAAGCGGAATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGaaagcgtc                                           >  1:138256/10‑245 (MQ=255)                                                                                                                                                                                                      actgACTCAGCACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCCCCGCGGCCACGaaagcggcagaggc                                     >  2:225193/4‑239 (MQ=255)                                                                                                                                                                                                         gACTCAGAACGCGCCGCCAGCACGTCCGCCGGACAGGCTGCATCGTCAGCTCCGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGCGGCAAAAAGTGCCGCAGCCGCAGCGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGAAAGCGTCAGaggccgc                                  >  1:35351/1‑245 (MQ=255)                                                                                                                                                                                                            tCAGCACGCGCCGCCAGCACGTCCTCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCAGCAGCCGCAGAGTCCTCAACAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATAAGCCGCCCCGTCTGCCTCCACCGCGGCCACGAAAGCGTCAGaggccgccac                               >  1:152939/1‑242 (MQ=255)                                                                                                                                                                                                            tCAGCACGCGCCGCCAGCAAGTACGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGACATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGACCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCTCCACGTCTGCCTCCACCGCGGCCACGAAAGCGTCAGaggccgccac                               >  1:101583/1‑242 (MQ=255)                                                                                                                                                                                                                         ccagcACGTCCGCCGGACAGGCTGCAGCGTCAGCTCAGGAAGCGTCCTCCGGCGCAAAAGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGAAAGCGTCAGaggccgccacttcagcacgagat                  <  1:69270/251‑23 (MQ=255)                                                                                                                                                                                                                          cagcACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGAAAGCGTCAGaggccgccacttcagcacgagatg                 >  1:244063/1‑228 (MQ=255)                                                                                                                                                                                                                          cagcACGTCCGCCGGACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGACGCAACGTCTGCCTCCACCGCGGCCACGAAAGCGTCAGaggccgccacttcaccacgagt                   >  2:62616/1‑228 (MQ=255)                                                                                                                                                                                                                                        gACAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAAGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTAAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGAAAGCGTAAGAGGCCGCCACTTCAGCACGAGATGCGGTGGCCTCaaaa   <  2:136606/251‑1 (MQ=255)                                                                                                                                                                                                                                         aCAGGCTGCATCGTCAGCTCAGGAAGCGTCCTCCGGCGCAGAGGCGGCATCAGCAAAGGCCACTGAAGCGGAAAAAAGTGCCGCAGCCGCAGAGTCCTCAAAAAACGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTGCAGCGTCACAACAATCAGCCGCCACGTCTGCCTCCACCGCGGCCACGAAAGCGTCAGAGGCCGCCACTTCAGCACGAGATGCGGTGGCCTCAAaag  <  1:51890/251‑1 (MQ=255)                                                                                                                                                                                                                                               |                                                                                                                                                                                                                                                     GGTACGCTGAATGATTTTCTCGGTGCCATGACGGAGGATGATGCCCGTCCGGAGGCACTGCGCCGTTTTGAACTGATGGTGGAAGAGGTGGCGCGTAACGCGTCCGCGGTGGCACAGAACACGGCAGCCGCGAAGAAGTCAGCCAGTGATGCCAGCACATCAGC‑CCGTGAGGCGGCAACCCATGCGG‑CTGATGCTGCGGACTCAGCACGCGCAGCCAGCACGTCAGCCGGACAGGCCGCGTCGTCGGCTCAGTCAGCGTCTTCCAGCGCAGGAACGGCATCAACAAAGGCCACTGAAGCATCAAAAAGTGCTGCCGCTGCAGAGTCCTCAAAAAGCGCGGCGGCCACCAGTGCCGGTGCGGCGAAAACGTCAGAAACGAATGCTTCAGCGTCACTACAATCAGCAGCCACATCTGCATCCACCGCGACCACGAAGGCATCAGAAGCTGCGACCTCGGCCCGGGATGCGGCGGCCTCAAAAG  >  NC_000913/1429298‑1429778

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑