Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,171,455	Δ1 bp	pseudogene (273/299 nt)	gatR ←	DNA‑binding transcriptional repressor GatR, N‑terminal fragment

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,171,455	0	T	.	100.0%	189.1 / NA	46	pseudogene (273/299 nt)	gatR	DNA‑binding transcriptional repressor GatR, N‑terminal fragment
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (24/22);  total (24/22)

TGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGACTGCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCACCGCCATGAAAGCGCGTAACCACGCC  >  NC_000913/2171320‑2171589                                                                                                                                        |                                                                                                                                       tgATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAc‑gccgc                                                                                                                                   <  1:177714/140‑1 (MQ=255)    ttACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTg                                                                                                                                <  2:231871/140‑1 (MQ=255)    ttACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTg                                                                                                                                <  1:305921/140‑1 (MQ=255)      aCAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTgcg                                                                                                                              <  1:732600/140‑1 (MQ=255)        aaTCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCt                                                                                                                            >  2:385733/1‑140 (MQ=255)          tCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTAt                                                                                                                          >  1:446478/1‑140 (MQ=255)           cGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTAtt                                                                                                                         <  1:701263/140‑1 (MQ=255)            ggTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTc                                                                                                                        >  2:81706/1‑140 (MQ=255)             gTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCt                                                                                                                       >  2:625574/1‑140 (MQ=255)                          aGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGgcgcg                                                                                                          <  1:442096/140‑1 (MQ=255)                          aGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGgcgcg                                                                                                          <  1:486023/140‑1 (MQ=255)                            ttGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCCGCGCTATTCTGTTTTTTGGCGCGCt                                                                                                        >  2:250681/1‑140 (MQ=255)                                          tCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATc                                                                                          <  1:571636/140‑1 (MQ=255)                                          tCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATc                                                                                          >  2:55286/1‑140 (MQ=255)                                           cAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCg                                                                                         <  1:55286/140‑1 (MQ=255)                                               ccGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGctct                                                                                     <  2:23158/140‑1 (MQ=255)                                                       aTTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAAccc                                                                             <  1:537189/140‑1 (MQ=255)                                                        tttGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCg                                                                            >  1:98602/1‑140 (MQ=255)                                                          tGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTGTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGAc                                                                          >  1:192996/1‑140 (MQ=255)                                                             aaaCAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTc                                                                       >  1:358155/1‑140 (MQ=255)                                                                   gAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGt                                                                 <  2:192996/140‑1 (MQ=255)                                                                    aaCCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGtc                                                                <  1:250681/140‑1 (MQ=255)                                                                     aCCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGtct                                                               <  2:446478/140‑1 (MQ=255)                                                                     aCCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGtct                                                               <  2:218564/140‑1 (MQ=255)                                                                     aCCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGtct                                                               <  2:347678/140‑1 (MQ=255)                                                                         cGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTCGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGt                                                           >  1:115251/1‑140 (MQ=255)                                                                          gCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGtt                                                          <  2:358155/140‑1 (MQ=255)                                                                          gCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGtt                                                          >  2:254484/1‑140 (MQ=255)                                                                          gCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGtt                                                          <  1:254484/140‑1 (MQ=255)                                                                              aGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCAc                                                      <  2:98602/140‑1 (MQ=255)                                                                               ggCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACt                                                     >  2:492272/1‑140 (MQ=255)                                                                                   tgtgTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTa                                                 >  1:139945/1‑140 (MQ=255)                                                                                    gtgtCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTAc                                                >  1:68166/1‑140 (MQ=255)                                                                                    gtgtCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTAc                                                <  1:625574/140‑1 (MQ=255)                                                                                     tgtCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTAcc                                               >  1:203181/1‑140 (MQ=255)                                                                                      gtCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCa                                              <  1:492272/140‑1 (MQ=255)                                                                                                         gATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCAc                           <  2:203181/140‑1 (MQ=255)                                                                                                         gATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCAc                           <  2:415560/140‑1 (MQ=255)                                                                                                         gATCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCAc                           >  1:475583/1‑140 (MQ=255)                                                                                                          aTCAGTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCAcc                          >  2:15307/1‑140 (MQ=255)                                                                                                              gTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGGGCTGGCGTGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCACCGCCa                      >  1:558793/1‑140 (MQ=255)                                                                                                              gTCATCCCTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCACCGCCa                      >  1:353790/1‑140 (MQ=255)                                                                                                                 ttccatgcGTGAATCATTTTGAC‑GCCGCTTGCGCAATTTTGTTTTTTGGCGCGCTGGCGGGTATAAATCGCTATTTAAACCCAACTACTTGGGTCGCGGTTTCATTATTACCTGACATTGTTTCCGCCGCTCCGCCATGa                   <  2:515227/133‑1 (MQ=255)                                                                                                                   cccTTCGTGGATCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCACCGCCATGaaa                 >  2:30250/1‑140 (MQ=255)                                                                                                                        cGTGGATCATTTTGAC‑GCCGCCTGCGCTATTGTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGCTTCACTATTACCAGACATTATTTTCGCCGCACCGCCATGAAAGcgcg            >  2:478929/1‑140 (MQ=255)                                                                                                                              tCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCACCGCCATGAAAGCGCGTAACCa      >  2:187880/1‑140 (MQ=255)                                                                                                                              tCATTTTGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCACCGCCATGAAAGCGCGTAACCa      >  2:572772/1‑140 (MQ=255)                                                                                                                                  tttGAC‑GCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGCCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCACCGCCATGAAACCGCGTAACCACGcc  >  2:86836/1‑140 (MQ=255)                                                                                                                                        |                                                                                                                                       TGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAGTCATCCCTTCGTGGATCATTTTGACTGCCGCCTGCGCTATTCTGTTTTTTGGCGCGCTGGCGAGCTGAAATCGCTCTTTAAACCCGACTTCCTGGGTCTCGGTTTCACTATTACCAGACATTATTTTCGCCGCACCGCCATGAAAGCGCGTAACCACGCC  >  NC_000913/2171320‑2171589

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑