Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007793	1,674,837	T→C	S156S (TCA→TCG)	SAUSA300_RS08310 ←	phosphoenolpyruvate synthetase regulatory protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007793	1,674,837	0	T	C	100.0%	148.7 / NA	52	S156S (TCA→TCG)	SAUSA300_RS08310	phosphoenolpyruvate synthetase regulatory protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (1/51);  total (1/51)

TGGCGGTGTCACTTCTGGTACAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTTGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCATCA  >  NC_007793/1674756‑1674933                                                                                  |                                                                                                 tGGCGGTGTCACTTCTGGTACAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCa                                                                                <  1:3756035/100‑1 (MQ=255)    cGGTGTCACTTCTGGTACAATCGGTACATTCATAACTTTGTAACTCTTATGAGCTAAATACTGAGATAATGGTGTCTTCGAAGTTATCGAAATACCAAGt                                                                             <  1:5277869/100‑1 (MQ=255)     ggTGTCACTTCTGGTACAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTa                                                                            <  1:2246150/100‑1 (MQ=255)      gtgtCACTTCTGGTACAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTaa                                                                           <  1:5323719/100‑1 (MQ=255)            cTTCTGGTACAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAat                                                                     <  1:3065137/100‑1 (MQ=255)               cTGGTACAATCGGTACATTCATACCTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATc                                                                  <  1:282882/100‑1 (MQ=255)               cTGGTACAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATc                                                                  <  1:3946039/100‑1 (MQ=255)               cTGGTACAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATc                                                                  <  1:3185978/100‑1 (MQ=255)               cTGGTACAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATc                                                                  <  1:3089099/100‑1 (MQ=255)                 ggTACGATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAg                                                                >  1:5331441/1‑100 (MQ=255)                   tACAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCt                                                              <  1:4033557/100‑1 (MQ=255)                    aCAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCtt                                                             <  1:1689976/100‑1 (MQ=255)                    aCAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCtt                                                             <  1:35038/100‑1 (MQ=255)                     cAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCtaa                                                            <  1:3624385/100‑3 (MQ=255)                         cGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGt                                                        <  1:3420457/100‑1 (MQ=255)                          ggTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCGTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTa                                                       <  1:5527702/100‑1 (MQ=255)                             aCATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTaggt                                                    <  1:422399/100‑4 (MQ=255)                                 tCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCttt                                                <  1:3694198/100‑1 (MQ=255)                                 tCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCttt                                                <  1:4753544/100‑1 (MQ=255)                                    tAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAgg                                             <  1:280975/100‑1 (MQ=255)                                    tAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAgg                                             <  1:1682908/100‑1 (MQ=255)                                                tctTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACcatc                                 <  1:431012/100‑1 (MQ=255)                                                tctTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACcatc                                 <  1:1582264/100‑1 (MQ=255)                                                tctTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACcatc                                 <  1:4620971/100‑1 (MQ=255)                                                tctTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACcatc                                 <  1:3282048/100‑1 (MQ=255)                                                 ctTATGCGCTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACcatca                                <  1:1016855/100‑1 (MQ=255)                                                      gcgcTAAATACTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCata                           <  1:3346781/100‑1 (MQ=255)                                                               aCTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGc                  <  1:4374596/100‑1 (MQ=255)                                                               aCTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGc                  <  1:1099085/100‑1 (MQ=255)                                                                cTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCa                 <  1:3400540/100‑1 (MQ=255)                                                                cTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCa                 <  1:5481955/100‑1 (MQ=255)                                                                cTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCa                 <  1:2127231/100‑1 (MQ=255)                                                                cTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCa                 <  1:2579556/100‑1 (MQ=255)                                                                cTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCa                 <  1:2892003/100‑1 (MQ=255)                                                                cTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCa                 <  1:3031639/100‑1 (MQ=255)                                                                cTGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCa                 <  1:3368667/100‑1 (MQ=255)                                                                 tGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGctt                <  1:4336612/100‑3 (MQ=255)                                                                 tGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGcca                <  1:2185672/100‑3 (MQ=255)                                                                 tGAGATAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCaa                <  1:4877661/100‑1 (MQ=255)                                                                    gaTAATGGTGTCTTCGAGGTGCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCaaagg             <  1:652451/100‑3 (MQ=255)                                                                    gaTAATGGTGTCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAAcg             <  1:5008222/100‑2 (MQ=255)                                                                           gtgtCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGc      <  1:1806427/100‑1 (MQ=255)                                                                            tgtCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCa     <  1:2873578/100‑1 (MQ=255)                                                                            tgtCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCa     <  1:4500137/100‑1 (MQ=255)                                                                            tgtCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCa     <  1:17197/100‑1 (MQ=255)                                                                              tCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGccgg   <  1:4061000/100‑4 (MQ=255)                                                                              tCTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCATc   <  1:1610328/100‑1 (MQ=255)                                                                               cTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCaaga  <  1:3968047/100‑4 (MQ=255)                                                                               cTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCATCa  <  1:3917232/100‑1 (MQ=255)                                                                               cTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCATCa  <  1:860551/100‑1 (MQ=255)                                                                               cTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCATCa  <  1:903359/100‑1 (MQ=255)                                                                               cTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCATCa  <  1:4682611/100‑1 (MQ=255)                                                                               cTTCGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCATCa  <  1:4063688/100‑1 (MQ=255)                                                                                  |                                                                                                 TGGCGGTGTCACTTCTGGTACAATCGGTACATTCATAACTTTGTAACTCTTATGCGCTAAATACTGAGATAATGGTGTCTTTGAAGTTCTCGAAATACCAAGTAAAACAATATCAGCTTTAGGTAATCCTTTAGGATCTTTACCATCATCATATTTAACTGCAAACTCTATCGCATCA  >  NC_007793/1674756‑1674933

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑