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%	123.9 / NA	26	intergenic (+182/‑22)	ssrA/intA	tmRNA/CP4‑57 prophage; integrase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (13/13);  total (13/13)

CCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTT  >  NC_000913/2756094‑2756181                                            |                                             cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                        <  1:403371/49‑1 (MQ=255) cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                        <  1:219589/49‑1 (MQ=255)  ccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  1:1977554/1‑49 (MQ=255)   cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  1:701027/1‑48 (MQ=255)   cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  1:276251/1‑48 (MQ=255)    aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  1:1006647/1‑47 (MQ=255)    aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  1:388550/1‑47 (MQ=255)         tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:1461868/1‑46 (MQ=255)         tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:1108684/1‑46 (MQ=255)           ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                              >  1:770871/1‑49 (MQ=255)           ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                              <  1:1006056/49‑1 (MQ=255)              ccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcc                           <  1:1463733/49‑1 (MQ=255)                    aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                     >  1:460619‑M1/1‑46 (MQ=255)                      aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   <  1:1735543‑M1/49‑6 (MQ=255)                      aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   <  1:1324050‑M1/49‑6 (MQ=255)                      aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   >  1:1426100‑M1/1‑44 (MQ=255)                        gCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                  >  1:1753671‑M1/1‑42 (MQ=255)                          tctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                >  1:1157767‑M1/1‑40 (MQ=255)                          tctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                >  1:802037‑M1/1‑40 (MQ=255)                                 tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat        <  1:704744‑M1/49‑17 (MQ=255)                                 tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat        <  1:1426755‑M1/49‑17 (MQ=255)                                   tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg       <  1:58650‑M1/48‑18 (MQ=255)                                   tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg       <  1:703357‑M1/48‑18 (MQ=255)                                     cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta     <  1:603987‑M1/48‑20 (MQ=255)                                       ttGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg  <  1:1294233‑M1/49‑23 (MQ=255)                                       ttGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg  <  1:1317715‑M1/49‑23 (MQ=255)                                            |                                             CCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTT  >  NC_000913/2756094‑2756181

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑