Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,470,108	0	A	C	24.4%	74.0 / 24.3	41	intergenic (‑255/+37)	chiA/tufA	periplasmic endochitinase/translation elongation factor EF‑Tu 1
Reads supporting (aligned to +/- strand):  ref base A (16/15);  new base C (5/5);  total (21/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01
Rejected as consensus: Frequency below/above cutoff threshold.

AAAAGCCTGACAAATGAAGCATTTTAAAAACAGAAACATTCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGATCAGGGTAACAACCATT  >  NC_000913/3469964‑3470256                                                                                                                                                 |                                                                                                                                                     aaaaGCCTGACAAATGAAGCATTTTAAAAACAGAAACATTCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGaa                                                                                                                                                     >  6:111420/1‑146 (MQ=255) aaaaGCCTGACAAATGAAGCATTTTAAAAACAGAAACATTCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGaa                                                                                                                                                     <  5:111420/146‑1 (MQ=255)   aaGCCTGACAAATGAAGCATTTTAAAAACAGAAACATTCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGcc                                                                                                                                                <  8:81756/149‑1 (MQ=255)             aaTGAAGCATTTTAAAAACAGAAACATTCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTttcaatt                                                                                                                                      <  5:1276/149‑1 (MQ=255)                               cAGAAACATTCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACgtg                                                                                                                     >  4:93600/1‑148 (MQ=255)                                 gAAACATTCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTaa                                                                                                                  <  3:93600/149‑1 (MQ=255)                                      aTTCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCGAAAAGGGCGCTTCGGCGCCCttttt                                                                                                                                          <  5:65540/120‑2 (MQ=255)                                      aTTCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCGAAAAGGGCGCTTCGGCGCCCttttt                                                                                                                                          >  6:65540/1‑119 (MQ=255)                                        tCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAAc                                                                                                                        <  7:41955/136‑1 (MQ=255)                                        tCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAAc                                                                                                                        >  8:41955/1‑136 (MQ=255)                                             tttAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCTTCGGCGCCCttt                                                                                                                                            <  6:133138/111‑1 (MQ=255)                                             tttAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCTTCGGCGCCCttt                                                                                                                                            >  5:133138/1‑111 (MQ=255)                                                       tAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAg                                                                                                 <  4:142558/144‑1 (MQ=255)                                                       tAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAg                                                                                                 >  3:142558/1‑144 (MQ=255)                                                        aaaTTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGcaacaa                                                                                           >  2:112991/1‑149 (MQ=255)                                                                   atatTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTa                                                                                                  >  7:74399/1‑131 (MQ=255)                                                                   atatTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTa                                                                                                  <  8:74399/131‑1 (MQ=255)                                                                       tttAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACgtgt                                                                                                                    >  8:22530/1‑109 (MQ=255)                                                                       tttAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACgtgt                                                                                                                    <  7:22530/109‑1 (MQ=255)                                                                           aaTATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACg                                                                        <  1:112991/149‑1 (MQ=255)                                                                            atatGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGc                                                                                                >  6:7471/1‑124 (MQ=255)                                                                                      tttATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGccc                                                                                                           <  8:102072/103‑1 (MQ=255)                                                                                      tttATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGccc                                                                                                           >  7:102072/1‑103 (MQ=255)                                                                                                 tGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAg                                                                                                 >  1:117348/1‑102 (MQ=255)                                                                                                 tGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAg                                                                                                 <  2:117348/102‑1 (MQ=255)                                                                                                       tACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGc                                                      <  8:40604/139‑1 (MQ=255)                                                                                                       tACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGc                                                      >  7:40604/1‑139 (MQ=255)                                                                                                                          caacaaATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAAtt                                                                                                                <  8:143138/62‑1 (MQ=255)                                                                                                                          caacaaATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAAtt                                                                                                                >  7:143138/1‑62 (MQ=255)                                                                                                                            acaaATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGc                                                      >  4:8071/1‑118 (MQ=255)                                                                                                                            acaaATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGc                                                      <  3:8071/118‑1 (MQ=255)                                                                                                                               gaattgaaaaGGGCGCTTCGGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAg                                             <  5:65837/118‑1 (MQ=21)                                                                                                                               gaattgaaaaGGGCGCTTCGGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAg                                             >  6:65837/7‑124 (MQ=21)                                                                                                                                aattgaaaaGGGCGCTTCGGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGa                   >  4:154403/6‑149 (MQ=18)                                                                                                                                aattgaaaaGGGCGCTTCGGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGa                   >  4:151981/6‑149 (MQ=18)                                                                                                                                 attgaaaaGGGCGCTTCGGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGAt                  <  3:154403/145‑1 (MQ=18)                                                                                                                                 attgaaaaGGGCGCTTCGGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGAt                  <  3:151981/145‑1 (MQ=18)                                                                                                                                      aaaGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGGCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGATCAggg             >  5:109839/1‑149 (MQ=255)                                                                                                                                              ccGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCgg                        >  4:34009/1‑130 (MQ=255)                                                                                                                                              ccGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCgg                        <  3:34009/130‑1 (MQ=255)                                                                                                                                              ccGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGATCAgg              >  4:161167/1‑140 (MQ=255)                                                                                                                                              ccGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGATCAgg              <  3:161167/140‑1 (MQ=255)                                                                                                                                               cGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCACCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGATCAGGGTAACAACCa    >  1:184999/1‑149 (MQ=255)                                                                                                                                                 aaGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCACCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGATCAGGGTAACAACCAtt  <  2:184999/149‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                     AAAAGCCTGACAAATGAAGCATTTTAAAAACAGAAACATTCATATTTAAAATGTTAAATTGAATTGATATTTTAAATATGAATAATTTATTCGTTCTGACAGTACGAATAAGATATGCCGTCAACAAATGCAAAAAGGGCGCCGAAGCGCCCTTTTCAATTCAAAACTAATTAACGTGTAATTAGCCCAGAACTTTAGCAACAACGCCCGCGCCAACGGTACGGCCGCCTTCACGGATTGCGAAACGCAGACCGTCGTCCATCGCGATCGGGTGGATCAGGGTAACAACCATT  >  NC_000913/3469964‑3470256

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑