Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,533,045	C→T	intergenic (+93/‑7)	ydcC → / → pptA	H repeat‑associated putative transposase/4‑oxalocrotonate tautomerase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,533,045	0	C	T	100.0%	157.8 / NA	50	intergenic (+93/‑7)	ydcC/pptA	H repeat‑associated putative transposase/4‑oxalocrotonate tautomerase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (24/26);  total (24/26)

TACCTGGCGTCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGCGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAGACAGTTCGATAAGCAT  >  NC_000913/1532914‑1533176                                                                                                                                    |                                                                                                                                    tACCTGGCGTCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCa                                                                                                                              <  1:1634783/139‑1 (MQ=255)           cAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACAt                                                                                                                    <  2:951890/139‑1 (MQ=255)             gTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCg                                                                                                                  >  1:1367143/1‑139 (MQ=255)                                   cGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAAt                                                                                                         <  2:902828/126‑1 (MQ=255)                                   cGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAAt                                                                                                         >  1:902828/1‑126 (MQ=255)                                             cccTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGaa                                                                                  >  1:1695571/1‑139 (MQ=255)                                                       tattGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATc                                                                                                                   >  1:1336181/1‑96 (MQ=255)                                                       tattGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATc                                                                                                                   <  2:1336181/96‑1 (MQ=255)                                                       tattGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAag                                                                        >  1:894125/1‑139 (MQ=255)                                                              gTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACt                                                                 >  1:46514/1‑139 (MQ=255)                                                                 taAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGaa                                                                                  >  2:790207/1‑119 (MQ=255)                                                                 taAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGaa                                                                                  <  1:790207/119‑1 (MQ=255)                                                                          tACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCATATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACt                                                                 >  1:1324937/1‑127 (MQ=255)                                                                          tACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCATATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACt                                                                 <  2:1324937/127‑1 (MQ=255)                                                                          tACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGaa                                                                                  >  1:538236/1‑110 (MQ=255)                                                                          tACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGaa                                                                                  <  2:538236/110‑1 (MQ=255)                                                                                acacATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGaa                                                                                  <  2:1777168/104‑1 (MQ=255)                                                                                acacATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGaa                                                                                  >  1:1777168/1‑104 (MQ=255)                                                                                acacATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGa                                               <  2:445623/139‑1 (MQ=255)                                                                                acacATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGa                                               <  2:1695571/139‑1 (MQ=255)                                                                                acacATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGa                                               >  2:1680087/1‑139 (MQ=255)                                                                                    aTGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGtt                                           >  1:14484/1‑139 (MQ=255)                                                                                                aTGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCAt                               >  2:1530674/1‑139 (MQ=255)                                                                                                 tgtgtgTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGc                                                                                                                           >  1:1707493/1‑46 (MQ=255)                                                                                                 tgtgtgTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGc                                                                                                                           <  2:1707493/46‑1 (MQ=255)                                                                                                   tgtgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTg                            >  2:1815252/1‑139 (MQ=255)                                                                                                    gtgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGa                           <  2:14484/139‑1 (MQ=255)                                                                                                    gtgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGa                           <  2:46514/139‑1 (MQ=255)                                                                                                    gtgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGa                           <  1:1815252/139‑1 (MQ=255)                                                                                                    gtgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTCTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTtgct                                                             >  2:1085124/1‑105 (MQ=255)                                                                                                    gtgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTCTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTtgct                                                             <  1:1085124/105‑1 (MQ=255)                                                                                                      gtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAAc                         <  2:894125/139‑1 (MQ=255)                                                                                                        tAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTg                            >  1:1806763/1‑134 (MQ=255)                                                                                                        tAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTg                            <  2:1806763/134‑1 (MQ=255)                                                                                                        tAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTg                            >  1:326601/1‑134 (MQ=255)                                                                                                        tAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTg                            <  2:326601/134‑1 (MQ=255)                                                                                                             ttACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTaaa                                                                                                          <  2:779232/51‑1 (MQ=255)                                                                                                             ttACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTaaa                                                                                                          >  1:779232/1‑51 (MQ=255)                                                                                                             ttACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACg                                             >  2:971647/1‑112 (MQ=255)                                                                                                             ttACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACg                                             >  2:498491/1‑112 (MQ=255)                                                                                                             ttACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACg                                             <  1:971647/112‑1 (MQ=255)                                                                                                             ttACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACg                                             <  1:498491/112‑1 (MQ=255)                                                                                                             ttACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAg                  >  2:352661/1‑139 (MQ=255)                                                                                                                 tGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAGACAg              <  1:352661/139‑1 (MQ=255)                                                                                                                        tttCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGt                                  >  2:215881/1‑112 (MQ=255)                                                                                                                        tttCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGt                                  <  1:215881/112‑1 (MQ=255)                                                                                                                             aaaGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAAc                         <  2:491910/116‑1 (MQ=255)                                                                                                                             aaaGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAAc                         >  1:491910/1‑116 (MQ=255)                                                                                                                             aaaGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAGACAGTTCGATAAGCAt  <  2:822595/139‑1 (MQ=255)                                                                                                                                 gAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACg                                             <  1:814331/92‑1 (MQ=255)                                                                                                                                    |                                                                                                                                    TACCTGGCGTCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGCGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAGACAGTTCGATAAGCAT  >  NC_000913/1532914‑1533176

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: ‑