Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,770,938	T→C	Y86Y (TAT→TAC)	yfjS →	CP4‑57 prophage; inner membrane lipoprotein YfjS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,770,938	0	T	C	100.0%	34.1 / NA	20	Y86Y (TAT→TAC)	yfjS	CP4‑57 prophage; inner membrane lipoprotein YfjS
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (10/10);  total (10/10)

CTTCAGCGATGTGGTCAGCCGTCAGGATGATGTCAGCGAAGAATGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAATGCGCTTTGTATTGCCGA  >  NC_000913/2770803‑2770997                                                                                                                                        |                                                            cTTCAGCGATGTGGTCAGCCGTCAGGATGATGTCAGCGAAGAATGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCtcg                                                         >  1:383452/1‑138 (MQ=255)         aTGTGGTCAGCCGTCAGGATGATGTCAGCGAAGAATGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATg                                                 <  1:736817/140‑1 (MQ=14)            tgGTCAGCCGTCAGGATGATGTCAGCGAAGAATGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATgcag                                              >  2:604731/1‑140 (MQ=14)                      tCAGGATGATGTCAGCGAAGAATGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCg                                    >  1:605505/1‑140 (MQ=14)                       cAGGATGATGTCAGCGAAGAATGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGt                                   <  1:70014/140‑1 (MQ=11)                                    gCGAAGAATGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCTGGCAAAAACCGTCCAGCCACtgatg                      >  1:299533/1‑140 (MQ=11)                                     cGAAGAATGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACtgatga                     >  1:557611/1‑140 (MQ=11)                                        agaaTGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACGACTACCTCGTGGGTATACAGGAAAAGACCGTCCAGCCATTGATGAATg                  >  2:324562/1‑140 (MQ=255)                                          aaTGGTCTCAGGTTGGCTTCTCTTCTGGTCTCACCCTCCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACTGATGAATgcg                <  1:219880/140‑1 (MQ=11)                                          aaTGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACTGATGAATgcg                <  1:604731/140‑1 (MQ=11)                                          aaTGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACTGATGAATgcg                <  1:550718/140‑1 (MQ=11)                                          aaTGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACTGATGAATgcg                <  1:667976/140‑1 (MQ=11)                                          aaTGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACTGATGAATgcg                <  1:432538/140‑1 (MQ=11)                                           aTGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACTGATGAATgcgc               <  2:41507/140‑1 (MQ=11)                                              gTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGccact                          <  1:563009/126‑4 (MQ=11)                                              gTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACt                          >  2:563009/1‑126 (MQ=14)                                                  caGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACTGATGAATgcgc               <  1:488952/133‑1 (MQ=11)                                                  caGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACTGATGAATgcgc               >  2:488952/1‑133 (MQ=14)                                                    ggTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGTATATGCAGTAAAGAACTGTCCAGCCGCTGAAGAATGCGCTGTGTATTg      >  2:219880/1‑140 (MQ=11)                                                        ggCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGATGGCAGTTACTACTACCTCGTGGATATGCAGGAAAAAACCGTCCAGCCACTGATGAATGCGCTGTGTATTGCCGa  >  1:71781/1‑140 (MQ=11)                                                                                                                                        |                                                            CTTCAGCGATGTGGTCAGCCGTCAGGATGATGTCAGCGAAGAATGGTCACAGGTTGGCTTCTCATCCGGTCTCACCCTGCAGGTCTTACGTACCCGTGAGTCGCCCGATGGTTGCGAGGGTGGCAGTTACTACTATCTGGTAGATATGGAGGAGAAAACCGTCCAGCCGCTGATGAATGCGCTTTGTATTGCCGA  >  NC_000913/2770803‑2770997

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑