Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,081,649	C→T	intergenic (‑14/‑264)	tktA ← / → loiP	transketolase 1/metalloprotease LoiP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,081,649	0	C	T	100.0%	119.7 / NA	34	intergenic (‑14/‑264)	tktA/loiP	transketolase 1/metalloprotease LoiP
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (13/21);  total (13/21)

TTTCTGTACTGCGTCCATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATCGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAA  >  NC_000913/3081573‑3081722                                                                             |                                                                          tttCTGTACTGCGTCCATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGgat                                                                       >  2:535330/1‑81 (MQ=255)     tGTACTGCGTCCATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGgatgat                                                                    >  2:535361/1‑80 (MQ=255)       tACTGCGTCCATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGatgatg                                                                   <  2:535297/79‑1 (MQ=255)        aCTGCGTCCATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAg                                                                >  2:535346/1‑81 (MQ=255)          tGCGTCCATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAggg                                                              >  2:535343/1‑81 (MQ=255)             gTCCATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCAc                                                           >  1:535353/1‑81 (MQ=255)             gTCCATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCAc                                                           >  1:535344/1‑81 (MQ=255)                cATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGcc                                                        <  1:535299/81‑1 (MQ=255)                cATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGc                                                         <  1:535298/80‑1 (MQ=255)                    cTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTa                                                    <  1:535300/81‑1 (MQ=255)                                 tAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTgacgac                                       <  1:535301/81‑1 (MQ=255)                                  aGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTgacga                                        >  2:535356/1‑79 (MQ=255)                                     aTTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAgcg                                   <  1:535302/81‑1 (MQ=255)                                      ttGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAgcgc                                  <  2:535303/81‑1 (MQ=255)                                        ggCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGcgcg                                 <  1:535304/80‑1 (MQ=255)                                           aaGCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGtttt                             <  2:535305/81‑1 (MQ=255)                                             gCTCTTTACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTgg                           <  1:535306/81‑1 (MQ=255)                                                   tACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCt                        <  1:535308/78‑1 (MQ=255)                                                   tACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTa                       <  1:535307/79‑1 (MQ=255)                                                   tACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTAc                      <  1:535309/80‑1 (MQ=255)                                                   tACGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACg                     >  2:535349/1‑81 (MQ=255)                                                    aCGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACg                     <  2:535310/80‑1 (MQ=255)                                                    aCGTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGc                    >  2:535366/1‑81 (MQ=255)                                                      gTGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCg                  <  2:535311/81‑1 (MQ=255)                                                       tGAGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCgg                 <  2:535312/81‑1 (MQ=255)                                                         aGGACATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCGGa                <  2:535313/80‑1 (MQ=255)                                                            aCATTTTGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAAt            <  1:535314/81‑1 (MQ=255)                                                               ttttGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTg         >  1:535357/1‑81 (MQ=255)                                                               ttttGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTg         <  1:535315/81‑1 (MQ=255)                                                                 ttGACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGc        >  2:535358/1‑80 (MQ=255)                                                                   gACTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGTGCTACGCCGGAAAATTTGCcaa     >  1:535347/1‑81 (MQ=255)                                                                    aCTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCcaac    <  2:535316/81‑1 (MQ=255)                                                                    aCTCCAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCcaa     >  1:535345/1‑80 (MQ=255)                                                                        cAGATTGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCcaacaa  <  2:535317/79‑1 (MQ=255)                                                                             |                                                                          TTTCTGTACTGCGTCCATGCTCAGCGCACGAATAGCATTGGCAAGCTCTTTACGTGAGGACATTTTGACTCCAGATCGGATGATGAAGGGCACGCCCTTAACGACTTGACGACAGCGCGTTTTGGGCTACGCCGGAAAATTTGCCAACAA  >  NC_000913/3081573‑3081722

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑