Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	KT2440	44,301	(T)9→8	intergenic (+132/‑359)	oprD_1 → / → czcR_2	Porin D/Transcriptional activator protein CzcR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	KT2440	44,293	0	T	.	100.0%	254.8 / NA	53	intergenic (+124/‑367)	oprD_1/czcR_2	Porin D/Transcriptional activator protein CzcR
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (18/35);  total (18/35)

GATTCTGTAATTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGAAGCCAGC  >  KT2440/44160‑44424                                                                                                                                      |                                                                                                                                    gATTCTGTAATTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCTCCtttt                                                                                                                                  >  4:19635/1‑137 (MQ=255)      tGTAATTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCttttttttg                                                                                                                             <  2:107228/137‑2 (MQ=255)                 aaCTGTGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCa                                                                                                                 <  1:251716/137‑1 (MQ=255)                   cTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCaat                                                                                                               >  8:291807/1‑136 (MQ=255)                   cTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAg                                                                                                               <  6:316352/137‑1 (MQ=255)                   cTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAg                                                                                                               <  8:285947/137‑1 (MQ=255)                   cTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTAAAg                                                                                                               >  7:94215/1‑137 (MQ=255)                        cgaGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTAGGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTTGTAAAAGGTGGATATTTGGCGCCCATTTGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGc                                                                                                          <  4:157215/135‑1 (MQ=255)                        ccAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGc                                                                                                          <  4:187224/137‑1 (MQ=255)                             tATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCg                                                                                                     <  7:124293/137‑1 (MQ=255)                                  aTTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGt                                                                                                <  5:190360/137‑1 (MQ=255)                                  aTTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGt                                                                                                <  1:242071/137‑1 (MQ=255)                                       cGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTAcgca                                                                                           >  7:149316/1‑137 (MQ=255)                                         ggTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTAcgcatc                                                                                         >  6:265115/1‑137 (MQ=255)                                         ggTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTAcgcatc                                                                                         <  4:132438/137‑1 (MQ=255)                                                 tAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGc                                                                                                          <  4:159415/112‑1 (MQ=255)                                                 tAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGc                                                                                                          >  3:159415/1‑112 (MQ=255)                                                 tAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg                                                                                 <  6:354321/137‑1 (MQ=255)                                                 tAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg                                                                                 <  6:188343/137‑1 (MQ=255)                                                 tAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg                                                                                 <  5:29190/137‑1 (MQ=255)                                                      aaaCGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTCTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGaa                                                                            <  7:382696/137‑1 (MQ=255)                                                       aaCGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAg                                                                           <  3:19899/137‑1 (MQ=255)                                                       aaCGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAg                                                                           <  1:350569/137‑1 (MQ=255)                                                       aaCGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTATATTTTAAGCATCTCATGCCGGTGAAg                                                                           <  1:30854/137‑1 (MQ=255)                                                        aCGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAg                                                                                                               >  5:119874/1‑100 (MQ=255)                                                        aCGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAg                                                                                                               <  6:119874/100‑1 (MQ=255)                                                             cATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATg                                                                     >  3:267521/1‑137 (MQ=255)                                                              aTTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa                                                                    <  3:196203/137‑1 (MQ=255)                                                              aTTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa                                                                    <  7:135071/137‑1 (MQ=255)                                                              aTTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa                                                                    <  8:149316/137‑1 (MQ=255)                                                               ttACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGAc                                                                   >  4:96669/1‑137 (MQ=255)                                                                       tCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCaa                                                           <  5:150776/137‑1 (MQ=255)                                                                       tCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCaa                                                           <  2:334540/137‑1 (MQ=255)                                                                           cTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAc                                                       <  1:331066/137‑1 (MQ=255)                                                                           cTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAc                                                       >  7:281211/1‑137 (MQ=255)                                                                             tGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCa                                                     <  1:37423/137‑1 (MQ=255)                                                                                 tGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGtct                                                 <  8:378157/137‑1 (MQ=255)                                                                                  ggCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑GTTTTTTTGCCTAAAATTAAAGTAGGCGTTATATTGTACGCATCCCATGCCGGTGAAGTTCAAGACTAAACCAATGACCAGtcta                                                >  3:366937/1‑136 (MQ=255)                                                                                   gCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTctct                                               <  2:25503/137‑1 (MQ=255)                                                                                        aGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAAt                                          <  8:281211/137‑1 (MQ=255)                                                                                          tGCTACTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAAtgt                                        <  4:282741/137‑1 (MQ=255)                                                                                               cTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCg                                   <  6:40220/137‑1 (MQ=255)                                                                                                tttGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAAAGACCAGTCTCTTCAATGTGAGCGa                                  >  7:395300/1‑137 (MQ=255)                                                                                                 ttGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGCCTACACCAATGACCAGTCTCTTCAATGTGAGCGAc                                 >  7:321301/1‑137 (MQ=255)                                                                                                  tGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg                                                                                 <  1:276616/88‑1 (MQ=255)                                                                                                  tGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg                                                                                 >  2:276616/1‑88 (MQ=255)                                                                                                            tGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAATTTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAc                                                       <  1:118726/104‑1 (MQ=255)                                                                                                            tGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAATTTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAc                                                       >  2:118726/1‑104 (MQ=255)                                                                                                            tGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCAt                      >  6:318056/1‑137 (MQ=255)                                                                                                            tGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCGTCAATGTGAGCGACCTCGCCGTCAt                      >  2:45727/1‑137 (MQ=255)                                                                                                            cggATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGCCCAGTATCTTCAATGTGAGCGACCTCGCCGTCag                      >  6:125431/2‑136 (MQ=255)                                                                                                              gATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAAAGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCt                    <  8:395300/137‑1 (MQ=255)                                                                                                               atatTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTg                   <  8:354543/137‑1 (MQ=255)                                                                                                                         cccATTGGGCGCC‑TTTTTTTTGCCTAAAATTAAAGTAGGAGTTCGATTGTACGCATCGCATGCAGGTGAAGTTCATGAATACACCAATGACCAGTCTCTTCAATTTGAGCGACCTAGCAGTCATCTGAGCGGAACGa         >  6:382993/1‑137 (MQ=255)                                                                                                                                ggCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGAAGCCAGc  <  1:157495/137‑1 (MQ=255)                                                                                                                                      |                                                                                                                                    GATTCTGTAATTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGAAGCCAGC  >  KT2440/44160‑44424

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑