Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	KT2440	4,200,802	T→A	6.5%	M207L (ATG→TTG)	CJ019_03944 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	KT2440	4,200,802	0	T	A	6.5%	198.2 / 3.2	61	M207L (ATG→TTG)	CJ019_03944	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (29/28);  new base A (2/2);  total (31/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01

CAGGGCAGCGCAGAACAGCAGGGTGAGATCCATGCAGGTAGCCAAACCAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCGTTCAAC  >  KT2440/4200671‑4200934                                                                                                                                    |                                                                                                                                     cAGGGCAGCGCAGAACAGCAGGGTGAGATCCATGCAGGTAGCCAAACCAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCg                                                                                                                                   >  1:352372/1‑135 (MQ=255)   gggCAGCGCAGAACAGCAGGGTGAGATCCATGCAGGTAGCCAAACCAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTg                                                                                                                                 <  5:394290/135‑1 (MQ=255)      cAGCGCAGAACAGCAGGGTGAGATCCATGCAGGTAGCCAAACCAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGa                                                                                                                              >  4:197126/1‑135 (MQ=255)             gAACAGCAGGGTGAGATCCATGCAGGTAGCCAAACCAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCt                                                                                                                       <  4:138691/135‑1 (MQ=255)                 agcagGGTGAGATCCATGCAGGTAGCCAAACCAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCaa                                                                                                                   >  6:177336/1‑135 (MQ=255)                      ggTGAGATCCATGCAGGTAGCCAAACCAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAAcc                                                                                                                >  1:61513/1‑133 (MQ=255)                              ccATGCAGGTAGCCAAACCAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGa                                                                                                      >  5:152001/1‑135 (MQ=255)                                   cAGGTAGCCAAACCAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTg                                                                                                  >  1:23664/1‑134 (MQ=255)                                            aaaCCAGTATCAGCAATCTGGCTTGGGCAACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGc                                                                                        >  3:364013/1‑135 (MQ=255)                                            aaaCCAGTATCAGCAATCTGGCTTGGACTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGc                                                                                        >  5:106337/1‑135 (MQ=255)                                                cAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCCTCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTcg                                                                                    <  1:289221/135‑1 (MQ=255)                                                cAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTcgc                                                                                   <  8:23715/136‑1 (MQ=255)                                                      cAGCAATCTGTCTTGGGCTACGCACCTTGAGACCTGACTGGTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGAAGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCAc                                                                              <  6:23777/135‑1 (MQ=255)                                                         cAATCTGGCTTGGGCTACGCTGTTTTTGAGCTGTCTGTTAAATGCTGGCTGGCGGCTATGTTTAGTCGAGGTTGATGCGTGCGACGGGTGTCCATAGCGGAGAGGGGAGTTGCCAAGCTCGCTTGgcgcgtccgt                                                                           <  4:364013/135‑7 (MQ=255)                                                           atttGGCTTGGGCTAGGCACCTTTTGACCTGACTGTTCAAAGCTGGGTGGGGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTAGCTTCGCGCCACCCTCg                                                                         <  2:197877/132‑1 (MQ=255)                                                                gCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAAcc                                                                    <  8:44122/135‑1 (MQ=255)                                                                gCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAAcc                                                                    >  3:127463/1‑135 (MQ=255)                                                                 cTTGGGCTACGCACCTTTTGACCTGAATGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCAt                                                                  <  8:331799/136‑1 (MQ=255)                                                                  ttGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCAt                                                                  <  2:23664/135‑1 (MQ=255)                                                                           gCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGAt                                                          <  3:133888/134‑1 (MQ=255)                                                                            cACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGa                                                        <  6:152001/135‑1 (MQ=255)                                                                            cACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGa                                                        <  6:128437/135‑1 (MQ=255)                                                                            cACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGa                                                        <  5:177336/135‑1 (MQ=255)                                                                            cACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGa                                                        <  4:127463/135‑1 (MQ=255)                                                                                            tGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGa                                                     >  4:90133/1‑122 (MQ=255)                                                                                            tGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGa                                                     <  3:90133/122‑1 (MQ=255)                                                                                            tGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTgg                                        <  5:130741/135‑1 (MQ=255)                                                                                            tGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGc                                       >  7:256033/1‑136 (MQ=255)                                                                                              ttCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCg                                      <  7:252323/135‑1 (MQ=255)                                                                                               tCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCg                                      <  2:352372/134‑1 (MQ=255)                                                                                                   aGCTGGCTGGCGGCAATGCATAGTGGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAagca                                 >  2:37969/1‑135 (MQ=255)                                                                                                         ctggcGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAg                           <  2:61513/135‑1 (MQ=255)                                                                                                         ctggcGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGc                          <  7:52625/136‑1 (MQ=255)                                                                                                           ggcggcAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCCCGCTCGCTTCGCGCCACCCTCGTACCCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGcc                         >  2:378259/1‑135 (MQ=255)                                                                                                           ggcggcAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGa                                                     >  6:62737/1‑107 (MQ=255)                                                                                                           ggcggcAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGa                                                     <  5:62737/107‑1 (MQ=255)                                                                                                           ggcggcAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGcc                         >  4:38412/1‑135 (MQ=255)                                                                                                           ggcggcAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGcc                         >  3:422176/1‑135 (MQ=255)                                                                                                                     cATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGcc                         <  2:151022/125‑1 (MQ=255)                                                                                                                     cATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGcc                         >  1:151022/1‑125 (MQ=255)                                                                                                                           cGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCg        >  8:347856/1‑136 (MQ=255)                                                                                                                             aGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCg                                                                         <  6:419671/69‑1 (MQ=255)                                                                                                                             aGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCg                                                                         >  5:419671/1‑69 (MQ=255)                                                                                                                             aGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCTAAGCAGCTCAGCCGTCTGCTTCAAGAGTCg        <  1:37969/134‑1 (MQ=255)                                                                                                                             aGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCg        <  3:38412/134‑1 (MQ=255)                                                                                                                             aGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCGt       >  1:401609/1‑135 (MQ=255)                                                                                                                             aGCTTCAACCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGcc                         <  1:422500/117‑1 (MQ=255)                                                                                                                             aGCTTCAACCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGcc                         <  1:417182/117‑1 (MQ=255)                                                                                                                             aGCTTCAACCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGcc                         >  2:417182/1‑117 (MQ=255)                                                                                                                             aGCTTCAACCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGcc                         >  2:422500/1‑117 (MQ=255)                                                                                                                                ttCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTgg                                        >  7:100325/1‑99 (MQ=255)                                                                                                                                ttCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTgg                                        <  8:100325/99‑1 (MQ=255)                                                                                                                                ttCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCGTTCa    >  3:387475/1‑135 (MQ=255)                                                                                                                                ttCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCGTTCa    >  2:425463/1‑135 (MQ=255)                                                                                                                                ttCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACCTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCGTTCa    >  4:310646/1‑135 (MQ=255)                                                                                                                                ttCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACAATCCAGCGATCAGGACAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCGTTCa    >  3:440467/1‑135 (MQ=255)                                                                                                                                  cATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCAt                                                                  >  2:361076/1‑71 (MQ=255)                                                                                                                                  cATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCAt                                                                  <  1:361076/71‑1 (MQ=255)                                                                                                                                  cATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGCCAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCGGTCAAc  >  6:95603/1‑135 (MQ=255)                                                                                                                                  cATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCGTTCAAc  >  5:278193/1‑135 (MQ=255)                                                                                                                                  cATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCGTTCAAc  >  3:327689/1‑135 (MQ=255)                                                                                                                                    |                                                                                                                                     CAGGGCAGCGCAGAACAGCAGGGTGAGATCCATGCAGGTAGCCAAACCAGTATCAGCAATCTGGCTTGGGCTACGCACCTTTTGACCTGACTGTTCAAAGCTGGCTGGCGGCAATGCATAGTCGAGCTTCATCCGTGCGACGGCGCTCCAAACCGCAGACGCGAGTTGCCAAGCTCGCTTCGCGCCACCCTCGTAACCATCCAGCGATGAGGACAGTTCACTTTGGCGAAGCAGCTCAGCCGTCTGCTTCAAGAGTCGTTCAAC  >  KT2440/4200671‑4200934

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: ‑