Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	KT2440	1,278,086	0	C	G	30.4%	64.8 / 16.9	46	G63G (GGC→GGG)	ompA_1	Outer membrane protein A
Reads supporting (aligned to +/- strand):  ref base C (3/29);  new base G (14/0);  total (17/29)
Fisher's exact test for biased strand distribution p-value = 2.83e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

ACGGGCTGCGCTACGCACAGCGATGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACACGGCGGTTGACCACATGGGCTGCCC  >  KT2440/1277952‑1278220                                                                                                                                        |                                                                                                                                         aCGGGCTGCGCTACGCACAGCGATGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑Ggcgg                                                                                                                                        >  7:363250/1‑136 (MQ=255) aCGGGCTGCGCTACGCACAGCGATGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑Ggcgc                                                                                                                                        >  6:328840/1‑137 (MQ=255)          gcTACGCACCTCACTGGCAGCGCGCCCCTCAATCAACGGACCGGGCCCAGCTGCCGCCTGCGGGGCGGCTGGGGCGGGGGGGGCGTGGGTGCCAGCGAGAGTTCTGCCTGGGCCGCCGGTGGG‑GGCGCCTTGGg‑cg‑c                                                                                                                             <  6:52272/137‑1 (MQ=255)            tACGCACAGCGATGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGCCGTGGG‑GG‑ccc                                                                                                                           >  2:53968/1‑136 (MQ=255)            tACGCACAGCGATGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGGCGTGGG‑CG‑ccc                                                                                                                           >  6:439585/1‑136 (MQ=255)                  caGCGATGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCcg                                                                                                                     <  5:382966/137‑1 (MQ=255)                      gATGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGGCGTGGG‑GGCCCATTG‑cggcgg                                                                                                                 >  5:361937/1‑137 (MQ=255)                      gATGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGCCGTGGG‑GG‑CCCATGGcggcgg                                                                                                                 >  2:342924/1‑137 (MQ=255)                      gATGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGCCGGTGG‑GG‑CCATTGGccgcgg                                                                                                                 >  1:122567/1‑137 (MQ=255)                       aTGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCGTGTG‑GG‑CCAGTGACGGCggg                                                                                                                >  6:351434/1‑137 (MQ=255)                        tGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGCCGTGGG‑CG‑CCATTTGCCGCgggg                                                                                                               >  2:382852/1‑136 (MQ=255)                           cAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGCCGTGGG‑GG‑GCCTTTGCGGCggggggg                                                                                                            >  8:67310/1‑133 (MQ=255)                              cgcgcCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGAttt                                                                                                         <  8:462654/137‑1 (MQ=255)                              cgcgcCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGAttt                                                                                                         <  8:133648/137‑1 (MQ=255)                              cgcgcCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGGCGGGGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGAttt                                                                                                         <  4:134178/137‑1 (MQ=255)                                cgcCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGGCGTGGG‑GG‑CCCGTTCCGGCGGGCGGGttttt                                                                                                       >  3:216126/1‑135 (MQ=255)                                cgcCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGCGTTTGG‑GG‑CCAATGACGGCGGGCGGAgtttt                                                                                                       >  7:59286/1‑135 (MQ=255)                                cgcCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCGTGGG‑GG‑CCAATGGCGCCCGGCGGATTTGt                                                                                                       >  8:326290/1‑137 (MQ=255)                                   cccTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGGGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTAc                                                                                                    <  1:378302/137‑1 (MQ=255)                                          acaaAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAgg                                                                                             <  5:73377/136‑1 (MQ=255)                                           caaAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGa                                                                                            <  7:326290/137‑1 (MQ=255)                                                 aCCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGCCTTGGG‑CG‑GCAGAGCCGGCGGGCTGTTTTGTTTCAGCCAGGACgggtt                                                                                      >  8:445767/1‑134 (MQ=255)                                                              gCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGCCGTGGG‑GG‑CCCTTGCCGGCGGGCGGATTTTTTTAGCCCCCGGCGGGGGCGGAGATGGTggg                                                                         >  5:182911/1‑135 (MQ=255)                                                                       tgGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGCCCTGGG‑GG‑CCCGTGGCCGCGGGGGGGTTTGTTTAGCCCCAGCCGGGGACGGAGCTTGTGACGGGAtgttt                                                                >  3:294149/1‑136 (MQ=255)                                                                         ggcggcTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGTGGGGGCGTGGGG‑GG‑CCATT‑CCGGGGGGGGGGGTTGTTTGGGCCCGGCCGGTGGCGAAGATGGTGGCGGGAgttttgt                                                              >  8:34089/1‑134 (MQ=255)                                                                         ggcggcTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGGCGTGGGCCG‑CCTTTG‑CGGCGGGGGGGTTTTTTTAGGCCACGGCCGTGGCGCAGAAGGTGAGCGCATTTTAGa                                                              >  5:372703/1‑137 (MQ=255)                                                                           gggcTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGAcc                                                            <  4:47811/136‑1 (MQ=255)                                                                                   tCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGGGCCGTTGG‑GG‑CCAATGCCGGCGGGCTGATTTTTTTAGCCCCGCACGGTGGCGAATATTGTGTCGGCAATTTAGACCGGggcggg                                                    >  6:465086/1‑135 (MQ=255)                                                                                    gggtgggtgCCTTGGTGCCATCGAGAGGTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATc                                                   <  8:337267/136‑1 (MQ=255)                                                                                     ggtggtGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCa                                                  <  5:439585/137‑1 (MQ=255)                                                                                     ggggggggCCTTGTGGCCAGCGAGAGTTCTTCCGGGGCCGCCGGTGGG‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCa                                                  <  2:229260/131‑1 (MQ=255)                                                                                     ggggggggCCTGGGTGCCATCGAGAGTTCTTCGGGGGCCGCCGGGGGG‑GGCTCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCa                                                  <  2:254959/131‑1 (MQ=255)                                                                                          gggCCTTGGTGCCAGCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGcc                                             <  4:107259/136‑1 (MQ=255)                                                                                                     ccATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCGTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCg                                  <  8:363250/137‑1 (MQ=255)                                                                                                            gagTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGAAACGAGACCCCGGCCAaca                           <  3:155142/137‑1 (MQ=255)                                                                                                                tcttcCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACAcggc                       <  1:342924/137‑1 (MQ=255)                                                                                                                 gttcCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCGGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACAcggcg                      <  7:215365/136‑1 (MQ=255)                                                                                                                 cttcCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACAcggcg                      <  7:231829/137‑1 (MQ=255)                                                                                                                 cttcCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACAcggcg                      <  4:34880/137‑1 (MQ=255)                                                                                                                    ccTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCTGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACTTCATTTTAGACCTTATATATCAATTCCCCGAGACCCCGGCCAACACGGCGGtt                   <  8:59286/137‑1 (MQ=255)                                                                                                                         gccgcgGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCAGAGACCCCGGCCAACACGGCGGTTGACca              <  6:372703/137‑1 (MQ=255)                                                                                                                               ggtggt‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACACGGCGGTTGACCACATggg        <  1:53968/137‑1 (MQ=255)                                                                                                                                 gggt‑ggCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACACGGCGGTTGACCACATGGGCt      <  2:346523/136‑1 (MQ=255)                                                                                                                                   gt‑ggCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACACGGCGGTTGACCACATGGGCTGc    <  2:149540/137‑1 (MQ=255)                                                                                                                                    t‑ggCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACACGGCGGTTGACCACATGGGCTGcc   <  7:34089/137‑1 (MQ=255)                                                                                                                                     gggCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACACGGCGGTTGACCACATGGGCTGcc   <  1:199256/136‑1 (MQ=255)                                                                                                                                     gggCGCCTTGGG‑AG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACACGGCGGTTGACCACATGGGCTGcc   <  4:294149/136‑1 (MQ=255)                                                                                                                                      ggCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACACGGCGGTTGACCACATGGGCTGccc  <  1:74805/137‑1 (MQ=255)                                                                                                                                        |                                                                                                                                         ACGGGCTGCGCTACGCACAGCGATGGCAGCGCGCCCCTCAATCAAAGGACCTGGCCCATCTGCAGCCTGCTGGGCGGCTTGGTCGGTGGTGGCCTTGGTGCCATCGAGAGTTCTTCCTGGGCCGCCGGTGGT‑GGCGCCTTGGG‑CG‑CCATTGCCGGCGGGCTGATTTGTTACGCCCAGGACGGTGACGAAGATGGTGACGGCATTTTCGACCGGCGCGATCACTGCCCCGAGACCCCGGCCAACACGGCGGTTGACCACATGGGCTGCCC  >  KT2440/1277952‑1278220

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑