Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_KO_pgi	3,486,594	A→C	T159P (ACT→CCT)	crp →	cAMP‑activated global transcription factor, mediator of catabolite repression

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_KO_pgi	3,486,594	0	A	C	100.0%	192.7 / NA	55	T159P (ACT→CCT)	crp	cAMP‑activated global transcription factor, mediator of catabolite repression
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (25/30);  total (25/30)

ATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGACTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTA  >  NC_000913_3_KO_pgi/3486456‑3486739                                                                                                                                           |                                                                                                                                                  aTTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGAc                                                                                                                                        <  1:58572/150‑1 (MQ=255)  ttCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACg                                                                                                                                       <  1:169708/150‑1 (MQ=255)         gCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCa                                                                                                                                >  3:24351/1‑150 (MQ=255)           gTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCaaa                                                                                                                              <  2:437830/150‑1 (MQ=255)                tCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCaaa                                                                                                                         >  1:545331/1‑150 (MQ=255)                 cTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCaaaa                                                                                                                        <  1:591929/150‑1 (MQ=255)                    cacaGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACACCCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTa                                                                                                                     <  1:122617/150‑1 (MQ=255)                    cacaGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTa                                                                                                                     >  3:373990/1‑150 (MQ=255)                    cacaGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTa                                                                                                                     >  1:5647/1‑150 (MQ=255)                         aTGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGt                                                                                                                >  1:323332/1‑150 (MQ=255)                           ggCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGTGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCa                                                                                                              <  2:443935/150‑1 (MQ=255)                                  cgtcTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAAtt                                                                                                       <  1:347662/150‑1 (MQ=255)                                    tcTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTgg                                                                                                     >  3:41996/1‑150 (MQ=255)                                      tGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTc                                                                                                   >  3:226355/1‑150 (MQ=255)                                          aGTCACTTCAGAGAAAGTGGGCAACCTGGCGTGCCTCGACGGGACGGTCCGCATTGCACAGACTCTGCTGACTCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGAt                                                                                               <  2:463680/150‑1 (MQ=255)                                             cACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGGCTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGt                                                                                            <  1:352336/150‑1 (MQ=255)                                              aCTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTc                                                                                           <  4:373990/150‑1 (MQ=255)                                               cTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCg                                                                                          >  2:442774/1‑150 (MQ=255)                                                ttCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCaaa                                                                                                                         <  1:2817/118‑1 (MQ=255)                                                ttCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCaaa                                                                                                                         >  2:2817/1‑118 (MQ=255)                                                ttCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGa                                                                                                <  1:574337/143‑1 (MQ=255)                                                ttCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGa                                                                                                >  2:574337/1‑143 (MQ=255)                                                 tCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGc                                                                                        >  3:254528/1‑150 (MQ=255)                                                   agagAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTg                                                                                      >  1:349555/1‑150 (MQ=255)                                                   agagAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTg                                                                                      >  3:100394/1‑150 (MQ=255)                                                        aaGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTtctc                                                                                 <  2:323332/150‑1 (MQ=255)                                                                  ccTGGCGTCCCCCGACGTCCCAGGCCTCACTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGACAGGAGATTAGTCAGATTGTCGGCTGTTCTCGTGAAACCGt                                                                       <  2:442081/150‑1 (MQ=255)                                                                      gCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGa                                                                   >  1:306468/1‑150 (MQ=255)                                                                       cGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGAc                                                                  <  1:144287/150‑1 (MQ=255)                                                                       cGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGAc                                                                  <  1:358456/150‑1 (MQ=255)                                                                            cTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCAtt                                                             <  2:449355/150‑1 (MQ=255)                                                                                aCGTGACGGGCCGCATTGCACAGGCCCCGCTGACTCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAACTCAAAATTACCCGTCAGGAAATTGGTGAGATTGTCGGCTGCTCTCGTGAAACCGTGGGACGCCTTCTGa                                                         <  2:64913/150‑1 (MQ=255)                                                                                 cGTGACAGGCCACATTACACAGACGATGGTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCAGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCAGTTCTCGTGAAACCGTGGGACGCATTCTGaa                                                        <  2:369850/150‑1 (MQ=255)                                                                                       gggCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCt                                                  >  1:528289/1‑150 (MQ=255)                                                                                        ggCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTg                                                 >  3:123911/1‑150 (MQ=255)                                                                                          ccGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGa                                               <  2:306468/150‑1 (MQ=255)                                                                                            gCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAg                                             >  1:120113/1‑150 (MQ=255)                                                                                              aTTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGAt                                           <  4:123911/150‑1 (MQ=255)                                                                                               ttGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATc                                          <  1:139671/150‑1 (MQ=255)                                                                                                  cacaGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGa                                       <  1:659130/150‑1 (MQ=255)                                                                                                      gACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCt                                   <  3:80675/150‑1 (MQ=255)                                                                                                         tctGCTGAATCTGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGAt                                <  2:105187/150‑1 (MQ=255)                                                                                                         tctGCTGAATCGGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGAt                                <  2:333913/150‑1 (MQ=255)                                                                                                                    tGGCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACg                     >  2:543672/1‑150 (MQ=255)                                                                                                                     ggCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACgg                    >  4:197249/1‑150 (MQ=255)                                                                                                                      gCAAAACAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGt                   >  3:4807/1‑150 (MQ=255)                                                                                                                        aaaaCAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCACAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATCCTGAAGATGCTGGGAGATCAGAACCTGATCTCCGCACACGGTaa                 >  3:321872/1‑150 (MQ=255)                                                                                                                        aaaaCAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTggg                                                                    >  4:283266/1‑99 (MQ=255)                                                                                                                        aaaaCAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTggg                                                                    <  3:283266/99‑1 (MQ=255)                                                                                                                        aaaaCAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGAt                                           <  2:581855/124‑1 (MQ=255)                                                                                                                        aaaaCAACCAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGAt                                           >  1:581855/1‑124 (MQ=255)                                                                                                                                cAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCAtcg         >  2:224496/1‑150 (MQ=255)                                                                                                                                cAGACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCAtcg         <  1:646198/150‑1 (MQ=255)                                                                                                                                  gACGCTATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCAtcgtc       >  4:361275/1‑150 (MQ=255)                                                                                                                                       tATGCCTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTa  <  2:349555/150‑1 (MQ=255)                                                                                                                                           |                                                                                                                                                  ATTCTGATGCGTTTGTCTGCACAGATGGCGCGTCGTCTGCAAGTCACTTCAGAGAAAGTGGGCAACCTGGCGTTCCTCGACGTGACGGGCCGCATTGCACAGACTCTGCTGAATCTGGCAAAACAACCAGACGCTATGACTCACCCGGACGGTATGCAAATCAAAATTACCCGTCAGGAAATTGGTCAGATTGTCGGCTGTTCTCGTGAAACCGTGGGACGCATTCTGAAGATGCTGGAAGATCAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTA  >  NC_000913_3_KO_pgi/3486456‑3486739

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑