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%	89.4 / NA	19	intergenic (+182/‑22)	ssrA/intA	tmRNA/CP4‑57 prophage; integrase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (0/19);  total (0/19)

CCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGT  >  NC_000913/2756095‑2756180                                           |                                            ccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGc                                     <  1:3257973/50‑1 (MQ=255)    ttGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                  <  1:3535245/50‑1 (MQ=255)      gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAggg                                 <  1:3280501/49‑1 (MQ=255)       aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgag                               <  1:1584000/50‑1 (MQ=255)       aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgag                               <  1:1202881/50‑1 (MQ=255)          ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACt                            <  1:1894906/50‑1 (MQ=255)          ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACt                            <  1:2609196/50‑1 (MQ=255)            cccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGTAGACTcc                          <  1:852685/50‑1 (MQ=255)             ccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                         <  1:3862987/50‑1 (MQ=255)                  gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                    <  1:2895201‑M1/50‑4 (MQ=255)                  gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                    <  1:2900219‑M1/50‑4 (MQ=255)                   aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctt                   <  1:827002‑M1/50‑5 (MQ=255)                       gCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa               <  1:2208699‑M1/50‑9 (MQ=255)                           tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa             <  1:573473‑M1/48‑11 (MQ=255)                             ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag          <  1:677844‑M1/49‑14 (MQ=255)                             ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaac            <  1:1503126‑M1/47‑12 (MQ=255)                                tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg      <  1:2487391‑M1/50‑18 (MQ=255)                                    cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc  <  1:2592615‑M1/50‑22 (MQ=255)                                    cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtag   <  1:1667151‑M1/49‑21 (MQ=255)                                           |                                            CCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGT  >  NC_000913/2756095‑2756180

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑