Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	315,244	G→A	intergenic (+16/‑47)	eaeH → / → insE1	pseudogene, attaching and effacing protein homology,factor, Not classified/IS3 transposase A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	315,244	0	G	A	100.0%	197.3 / NA	63	intergenic (+16/‑47)	eaeH/insE1	pseudogene, attaching and effacing protein homology,factor, Not classified/IS3 transposase A
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (31/32);  total (31/32)

TTGGCGCAAGCCTGATGTATGAACAGTATTATGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCTGAAG  >  NC_000913/315111‑315365                                                                                                                                      |                                                                                                                          ttGGCGCAAGCCTGATGTATGAACAGTATTATGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGac                                                                                                                      <  2:875221/139‑1 (MQ=255)   ggCGCAAGCCTGATGTATGAACAGTATTATGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGacac                                                                                                                    <  1:398451/139‑1 (MQ=255)         aGCCTGATGTATGAACAGTATTATGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCt                                                                                                              <  2:261523/139‑1 (MQ=255)            cTGATGTATGAACAGTATTATGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAg                                                                                                           <  1:844013/139‑1 (MQ=255)                      aaCAGTATTATGGCGATGAAGTCGGGCGGTTTGGTAAAGATAAGCGCCAGAAAAACCCGCATGCTATTTCTGCCGAGGTAACCTATACGCCAGGGCCTCTTACCAAGCAATAATGGACACGCGGCTAAGTGAGTAAAct                                                                                                 >  1:1171283/1‑139 (MQ=39)                          gTATTATGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCtca                                                                                             >  1:783607/1‑139 (MQ=255)                           tattatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGacac                                                                                                                    >  1:63856/1‑115 (MQ=255)                           tattatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGacac                                                                                                                    <  2:63856/115‑1 (MQ=255)                           tattatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTa                                                                                                     >  2:690630/1‑130 (MQ=255)                           tattatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTa                                                                                                     <  1:690630/130‑1 (MQ=255)                           tattatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAActct                                                                                               <  2:1302350/136‑1 (MQ=255)                           tattatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAActct                                                                                               >  1:1302350/1‑136 (MQ=255)                           tattatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCtcag                                                                                            >  2:1242376/1‑139 (MQ=255)                           tattatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCtcag                                                                                            >  1:701056/1‑139 (MQ=255)                            attatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCtcagt                                                                                           <  2:783607/139‑1 (MQ=255)                             ttatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCtcagtc                                                                                          <  1:1443539/139‑1 (MQ=255)                              tatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAActct                                                                                               >  2:688617/1‑133 (MQ=255)                              tatGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAActct                                                                                               <  1:688617/133‑1 (MQ=255)                                 ggCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCagag                                                                                      <  1:1242376/139‑1 (MQ=255)                                   cGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAg                                                                                                           >  2:203832/1‑116 (MQ=255)                                   cGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAg                                                                                                           <  1:203832/116‑1 (MQ=255)                                     aTGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGac                                                                                                                      <  2:281572/103‑1 (MQ=255)                                     aTGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGac                                                                                                                      >  1:281572/1‑103 (MQ=255)                                     aTGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTaaa                                                                                                   >  1:760394/1‑122 (MQ=255)                                     aTGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTaaa                                                                                                   <  2:760394/122‑1 (MQ=255)                                     aTGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGa                                                                                  >  1:185135/1‑139 (MQ=255)                                               gCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAc                                                                        <  2:701056/139‑1 (MQ=255)                                                            gATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCa                                                           <  2:591272/139‑1 (MQ=255)                                                                 gcgcCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAActc                                                                                                <  1:157839/97‑1 (MQ=255)                                                                 gcgcCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAActc                                                                                                >  2:157839/1‑97 (MQ=255)                                                                      aGAAAGACCCGCATGCTTTTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCACCAATAATGGacac                                                                                                                    <  2:1189696/72‑1 (MQ=255)                                                                      aGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGacac                                                                                                                    >  1:1189696/1‑72 (MQ=255)                                                                                 cATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTaaa                                      >  1:621358/1‑139 (MQ=255)                                                                                 cATGCTATTTCCGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTCTCAACCAGTAAAAAACCCCGTaaa                                      >  2:1210568/1‑139 (MQ=255)                                                                                      tATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAC‑AAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAt                                >  1:1043023/1‑139 (MQ=255)                                                                                        tttCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTa                                                              >  1:486565/1‑108 (MQ=255)                                                                                        tttCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTa                                                              <  2:486565/108‑1 (MQ=255)                                                                                              ccGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTa                                                                                                     >  1:472606/1‑63 (MQ=255)                                                                                              ccGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTa                                                                                                     <  2:472606/63‑1 (MQ=255)                                                                                              ccGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCg                                          <  1:1365385/122‑1 (MQ=255)                                                                                              ccGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCg                                          >  2:1365385/1‑122 (MQ=255)                                                                                               cGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACaaaa                                                                    >  1:221831/1‑95 (MQ=255)                                                                                               cGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACaaaa                                                                    <  2:221831/95‑1 (MQ=255)                                                                                               cGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGa                        >  1:1447831/1‑139 (MQ=255)                                                                                                     gACCTATACGCCAGTGCCTCGTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCg                  <  1:1210568/139‑1 (MQ=255)                                                                                                        cTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAAc                                                         >  1:713287/1‑97 (MQ=255)                                                                                                        cTATACGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAAc                                                         <  2:713287/97‑1 (MQ=255)                                                                                                         tataCGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAC‑AAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTg             <  2:1043023/139‑1 (MQ=255)                                                                                                          ataCGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTg             <  2:689866/139‑1 (MQ=255)                                                                                                           taCGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCg                  <  2:1281066/133‑1 (MQ=255)                                                                                                           taCGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCg                  >  1:1281066/1‑133 (MQ=255)                                                                                                             cGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGc                            <  2:103863/121‑1 (MQ=255)                                                                                                             cGCCAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGc                            >  1:103863/1‑121 (MQ=255)                                                                                                                cAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTa                                                                                                             <  2:163394/37‑1 (MQ=255)                                                                                                                cAGTGCCTCTTACCCAGCAATAATGGACACGCGGCTa                                                                                                             >  1:163394/1‑37 (MQ=38)                                                                                                                  gTGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCTg     >  1:349508/1‑139 (MQ=18)                                                                                                                   tGCCTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCTGa    >  1:365220/1‑139 (MQ=18)                                                                                                                     ccTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAActct                                                                                               <  2:315705/46‑1 (MQ=255)                                                                                                                     ccTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAActct                                                                                               >  1:315705/1‑46 (MQ=255)                                                                                                                     ccTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAActc                                                                                                >  2:1241478/1‑45 (MQ=255)                                                                                                                     ccTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAActc                                                                                                <  1:1241478/45‑1 (MQ=255)                                                                                                                     ccTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAc                                              >  2:1153210/1‑95 (MQ=17)                                                                                                                     ccTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAc                                              <  1:1153210/95‑1 (MQ=17)                                                                                                                     ccTCTTACCCAGCAATAATGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCTGAAg  >  1:424210/1‑139 (MQ=14)                                                                                                                                      |                                                                                                                          TTGGCGCAAGCCTGATGTATGAACAGTATTATGGCGATGAAGTCGGGCTGTTTGGTAAAGATAAGCGCCAGAAAGACCCGCATGCTATTTCTGCCGAGGTGACCTATACGCCAGTGCCTCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCTGAAG  >  NC_000913/315111‑315365

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑