Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,756,138	Δ1 bp	intergenic (+183/‑21)	ssrA → / → intA	tmRNA/CP4‑57 prophage; integrase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,756,137	0	C	.	100.0%	98.6 / NA	21	intergenic (+182/‑22)	ssrA/intA	tmRNA/CP4‑57 prophage; integrase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (8/13);  total (8/13)

AGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCC  >  NC_000913/2756091‑2756178                                               |                                          aGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGct                                          <  1:772597/48‑2 (MQ=255)    cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                     <  1:2045780/49‑1 (MQ=255)       aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                    >  1:1969955/1‑47 (MQ=255)       aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCa                                  <  1:1015848/49‑1 (MQ=255)          gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                <  1:1964799/48‑1 (MQ=255)           aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                >  1:888431/1‑47 (MQ=255)           aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                >  1:1976233/1‑47 (MQ=255)           aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGga                              <  1:1210183/49‑1 (MQ=255)            tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                >  1:907712/1‑46 (MQ=255)            tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgag                             <  1:2049959/49‑1 (MQ=255)            tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgag                             <  1:290823/49‑1 (MQ=255)                cccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                         <  1:238910/49‑1 (MQ=255)                       aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                  <  1:1635752‑M1/49‑4 (MQ=255)                       aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                  >  1:1336955‑M1/1‑46 (MQ=255)                       aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                  >  1:108320‑M1/1‑46 (MQ=255)                                aTTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa           >  1:1509195‑M1/1‑37 (MQ=255)                                 ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag        >  1:880285‑M1/1‑36 (MQ=255)                                 ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaaca         <  1:2082753‑M1/48‑13 (MQ=255)                                 ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa           <  1:1560886‑M1/46‑11 (MQ=255)                                 ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa           <  1:261567‑M1/46‑11 (MQ=255)                                    tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagga      <  1:1874605‑M1/48‑16 (MQ=255)                                        cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta  <  1:1473986‑M1/48‑20 (MQ=255)                                               |                                          AGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCC  >  NC_000913/2756091‑2756178

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑