Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,913,584	Δ1 bp	coding (68/2235 nt)	relA ←	(p)ppGpp synthetase I/GTP pyrophosphokinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,913,584	0	C	.	100.0%	186.6 / NA	44	coding (68/2235 nt)	relA	(p)ppGpp synthetase I/GTP pyrophosphokinase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (24/20);  total (24/20)

GAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGC  >  NC_000913/2913452‑2913711                                                                                                                                     |                                                                                                                                gagaGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGAt                                                                                                                          >  2:446800/1‑139 (MQ=255) gagaGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGAt                                                                                                                          >  1:417774/1‑139 (MQ=255)  agagGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATc                                                                                                                         >  2:756830/1‑139 (MQ=255)                        accacGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCAc                                                                                                   <  1:201288/139‑1 (MQ=255)                         ccacGCCACAATAACAGACTGGCAGCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCATGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCAcc                                                                                                  <  1:36694/139‑1 (MQ=255)                           acGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAg                                                                                                <  1:606251/139‑1 (MQ=255)                            cGCCACAATAACAGACTGGCCTCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:741270/1‑139 (MQ=255)                            cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCa                                                                                                    <  1:209845/134‑1 (MQ=255)                            cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCa                                                                                                    >  2:209845/1‑134 (MQ=255)                            cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:196905/1‑139 (MQ=255)                            cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  2:649175/1‑139 (MQ=255)                            cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:231040/1‑139 (MQ=255)                            cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:506315/1‑139 (MQ=255)                            cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:670280/1‑139 (MQ=255)                            cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:799743/1‑139 (MQ=255)                            cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGc                                                                                               >  1:771417/1‑139 (MQ=255)                            cGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCA‑TTTTCCGGATCAAATTCACCAGcc                                                                                              >  1:582187/1‑139 (MQ=255)                              ccACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCt                                                                                             <  1:452214/139‑1 (MQ=255)                               cacaATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCtt                                                                                            >  2:543354/1‑139 (MQ=255)                                     aaCAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGat                                                                                      <  2:358231/139‑1 (MQ=255)                                     aaCAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGat                                                                                      <  2:773745/139‑1 (MQ=255)                                       cAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGatat                                                                                    >  1:695009/1‑139 (MQ=255)                                           cTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGc                                                                                <  2:231040/139‑1 (MQ=255)                                            tGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGAGCa                                                                               >  1:75407/1‑139 (MQ=255)                                              gCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTAtt                                                                                         >  2:474807/1‑127 (MQ=255)                                              gCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTAtt                                                                                         <  1:474807/127‑1 (MQ=255)                                              gCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCAct                                                                             >  1:451970/1‑139 (MQ=255)                                                    ggATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTAc                                                                       <  1:756830/139‑1 (MQ=255)                                                      aTGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCA‑TTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGc                                                                    <  2:582187/139‑1 (MQ=255)                                                              gCGTCTGTTGCAGACAATTCGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATc                                                             <  1:49893/139‑1 (MQ=255)                                                                 tCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTc                                                          <  1:797611/139‑1 (MQ=255)                                                                 tCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAACACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTc                                                          <  2:621747/139‑1 (MQ=255)                                                                             aaTACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTAtt                                                                                         >  2:363790/1‑96 (MQ=255)                                                                             aaTACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTAtt                                                                                         <  1:363790/96‑1 (MQ=255)                                                                               tACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCAc                                                                                                   >  2:308960/1‑84 (MQ=255)                                                                               tACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCAc                                                                                                   <  1:308960/84‑1 (MQ=255)                                                                               tACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAg                                                                                                <  1:648621/87‑1 (MQ=255)                                                                               tACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAg                                                                                                >  2:648621/1‑87 (MQ=255)                                                                                aCGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGAc                                           <  2:24906/139‑1 (MQ=255)                                                                                                         acacGACTTCTGGCTGGTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCg                  <  1:446800/139‑1 (MQ=255)                                                                                                              aCTTCTGGCTGGTAATACCCAGA‑TTACGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCaatt             >  2:624363/1‑137 (MQ=255)                                                                                                                         gTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCtctc                                                     <  2:710350/88‑1 (MQ=255)                                                                                                                         gTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCtctc                                                     >  1:710350/1‑88 (MQ=255)                                                                                                                         gTAATACCCAGA‑TTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAATTATTTAAcgcgc  >  1:781955/1‑139 (MQ=255)                                                                                                                                     |                                                                                                                                GAGAGGATCTCCACCATCTCAACACCACGCCACAATAACAGACTGGCATCCGGATGCCCCTGCGTCTGTTGCAGACAATACGCCCAGGTTTCGGCTAAGCACTCACACGACTTCTGGCTGGTAATACCCAGACTTGCGATCCATTTTTCCGGATCAAATTCACCAGCCTTATTGATATGTGCACTTCTTACCGCAACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGC  >  NC_000913/2913452‑2913711

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑