Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,147,527	0	T	G	48.4%	38.5 / 13.6	31	T136P (ACC→CCC)	unknown	ABC‑type Fe3+ transport system, periplasmic component
Reads supporting (aligned to +/- strand):  ref base T (1/15);  new base G (15/0);  total (16/15)
Fisher's exact test for biased strand distribution p-value = 5.66e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

CCAGTAAGTCACCGGAAGCGGTATCATCCACGACCTGACCGGCGCCTTTACCGATTTTGGTTTTATTTTCTTTTAACTTTTCAAAGAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTGAAGAAGTCAGGGACTTCACTGGTCCAAATAACATCTGCCATAATCTGACCGGATTCTTTTTCCGTGGCAATTTTTGCCATGAGTTTGCCCGCACCGGCAGATTGATAGTCCATCGCAA  >  1/1147293‑1147775                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                              ccAGTAAGTCACCGGAAGCGGTATCATCCACGACCTGACCGGCGCCTTTACCGATTTTGGTTTTATTTTCTTTTAACTTTTCAAAGAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TAcc                                                                                                                                                                                                                                               <  1:55317/250‑1 (MQ=255) ccAGTAAGTCACCGGAAGCGGTATCATCCACGACCTGACCGGCGCCTTTACCGATTTTGGTTTTATTTTCTTTTAACTTTTCAAAGAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TAcc                                                                                                                                                                                                                                               <  1:630291/250‑1 (MQ=255)     tAAGTCACCGGAAGCGGTATCATCCACGACCTGACCGGCGCCTTTACCGATTTTGGTTTTATTTTCTTTTAACTTTTCAAAGAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAAtg                                                                                                                                                                                                                                          <  1:43186/251‑1 (MQ=255)               gAAGCGGTATCATCCACGACCTGACCGGCGCCTTTACCGATTTTGGTTTTATTTTCTTTTAACTTTTCAAAGAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGc                                                                                                                                                                                                                                 <  1:14321/250‑1 (MQ=255)                aaGCGGTATCATCCACGACCTGACCGGCGCCTTTACCGATTTTGGTTTTATTTTCTTTTAACTTTTCAAAGAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCg                                                                                                                                                                                                                                <  1:249795/250‑1 (MQ=255)                                             ccTTTACCGATTTTGGTTTTATTTTCTTTTAACTTTTCAAAGAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTTTTTTTTTTCAAAAAGGGGGGTGTAGGGGG‑GAACTAATGTGGCTAAGAGTATCTGCGG‑AAAAAAAACGTC‑GAAAACggg                                                                                                                                                                                                >  1:510212/1‑251 (MQ=255)                                             ccTTTACCGATTTTGGTTTTATTTTCTTTTAACTTTTCAAAGAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCg                                                                                                                                                                                                                                <  1:509344/221‑1 (MQ=255)                                                            gTTTTATTTTCTTTTAACGTTTCAAAGAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGTGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGGAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTT‑GAAATCGGGAATCGGATTAATGa                                                                                                                                                                                  <  1:591233/250‑1 (MQ=255)                                                                                      gAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTTCAAAACGGGGGTTGTAGGCGA‑AACCTAATTTGCCTAAACGGATCTGCGT‑AAAAAAAACCTC‑GAAAAAGGGGATCGGGATAATGATAtttttttcttccggggacaaataag                                                                                                                                                       >  1:242194/1‑230 (MQ=255)                                                                                        aTTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTACAAAAAGGGGGGTGTAGGGGAGAACCTAA‑GAGCCCAAGCGGATCGGCGG‑AAAAAAAACGTC‑GAAAAAGGGGAACGGATTAATGATATTTTTTTCTTC‑GGGGGAAATATAAGtt                                                                                                                                                    >  1:256860/1‑251 (MQ=255)                                                                                                                           cTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTTCAAAACGGGGGGTGTAGGCGA‑TACCTAATGTGCCTAAGCGGATCGGCGG‑AAAAGAAACGGC‑GGAAACGGGGAACGGATTTATGATATTTTTTTCTTC‑GGGCGGAATATAAg                                                                                                                                                      >  1:173131/1‑214 (MQ=255)                                                                                                                           cTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTACCAAACGGGGGTTGTAGGCGG‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAAACGTC‑GAAATCGGGGATCGGATTAATGATTTTTTTTTCTTC‑CGGCGGAAAATAAATTTCTAGCATGCC‑GGGTTCTTTTatatctttctcttt                                                                                                                >  1:372694/1‑241 (MQ=255)                                                                                                                           cTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAGTTTCTAGccc                                                                                                                                            <  1:164994/224‑3 (MQ=255)                                                                                                                           cTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTgaaga                                                                                                                    <  1:7685/247‑1 (MQ=255)                                                                                                                             cATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTCCAAAACGGGGGTTGTAGGCGG‑GACCCAATGTGCCCTAGCGTATCGGCGT‑AAAAGAAACGGCGGAAACCGGG‑ATCGGGTTAATTATATTTTTTACTTC‑GGGCGGAAAATAAATTTCTAGCATGCC‑GGGTTTTTTTATATTTTAGAAGTCAg                                                                                                              >  1:384506/1‑251 (MQ=255)                                                                                                                             cATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTACAAAACGGGGGTTGTTGGGGG‑TACCTAATGTGCCTAAGCGTATCGGCGG‑AAAAAAAACGGC‑GGAAACGGGGATCGGATTAATGATATTTTTTTCTTT‑GGGCGGAATATAAGTTTCTTGCATGCC‑GGGTTTTTTCATATTGAAGAAGTCAg                                                                                                              >  1:510147/1‑251 (MQ=255)                                                                                                                             cATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTACAAAACGGGGGTTGTAGGCGG‑TACCTAATGTGGCTAAGCGGATCGGCGG‑AAAAGAAACGTC‑GAAAACGGGGAACGGATTAATGATATTTTTTTCTTC‑TGGCGGAATATAAGTTTCTTGCATGCC‑GGGTTTTTTCATATTTAAGAAGGCAg                                                                                                              >  1:153170/1‑251 (MQ=255)                                                                                                                                 tatGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTACAAAACGGGGGTTGTAGGGGG‑TACCCAATTTGCCTTAGCGTATCGGCGG‑AAAAAAAACGGC‑GAAAACGGGGATCGGGTTAATGATATTTTTTTCTTCTGGGGGAAA‑ATAAGTTTTTAGCATGCC‑GGTTTTTTTTATATTTTAGAAGTCAggggg                                                                                                          >  1:52839/1‑249 (MQ=255)                                                                                                                                  atGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTTTTTTTTTACAAAACGGGTGTTGTAGGCGA‑TACCCAATGTGCCTAAGCGGATCGGCGTGAAAAAAACCG‑C‑GAAATCGGGGATCGGATTAATGATATTTTTTACTTC‑GGGGGAAATATAAGTTTCTAGCATGCC‑GGGTTCTTTTATAttttag                                                                                                                     >  1:339307/1‑235 (MQ=255)                                                                                                                                       gTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTACAAAACGGGGGTTGTAGGGGG‑TAACTAATGTGCCTCAGCGGATCGGCGC‑AAAAGAAACGTA‑CAAATCGGGAATCGGGTTTATGATATTTTTTACTTC‑CGGCGGAATATAAGATTTTAGCATTCC‑GGGTTCTTTTTTATTTAAGAAATCAGGGACttta                                                                                                      >  1:566428/1‑247 (MQ=255)                                                                                                                                       gTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAg                                                                                                                                                      <  1:199352/202‑1 (MQ=255)                                                                                                                                                 gggCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTTCCAAAAGGGGGTTGTTGGGGA‑TACCTAAAGTGCCTAAGCGTATCGGCGT‑AAAAAAACCGGC‑GGAATCGGGGATCGGGTTAATGATATTTTTTTCTTC‑GGGCGGAAAATAAAGTTCTAGCATGCC‑GGTTTTTTTTATATTTAAGAAGTCAGGGAATTTACTgggcccaaaa                                                                                          >  1:344520/1‑243 (MQ=255)                                                                                                                                                 gggCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTTCAAAACGGGGGTTGTTGGCGA‑TACCTTATGTGCCCTAGCGGATTGGCGG‑AAAAGAACCGGC‑GCAAACGGGGATCGGGTTAATTATAATTTTTTCTTT‑GGGGGGAAAATAAGATTTTAGCATTCCGGGTTTTTTTC‑TATTTAAGAAGTCAGGGGCTTTACTGGTCCAAATa                                                                                          >  1:311220/1‑251 (MQ=255)                                                                                                                                                 gggCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGAGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTGAAGAAGTCAGGGAc                                                                                                          <  1:282481/235‑1 (MQ=255)                                                                                                                                                       ggTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTGAAGAAGTCAGGGACTTCACTGGTCCAAATAACAt                                                                                      <  1:231244/249‑1 (MQ=255)                                                                                                                                                                           ccTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATAATTTCTACTTC‑GGGCGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTGAAGAAGTCAGGGACTTCACTGGTc                                                                                                <  1:284393/219‑1 (MQ=255)                                                                                                                                                                                  aTTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTACAAAACGGGGGTTGTAGGGGA‑TACCTAAAGTGCCTAAGCGTATCGGCGT‑AAAAAAAACGGC‑GAAAACGGGAAACGGATTAATGATATTTTTTACTTC‑GGGCGGAAAATAAGTTTTTAGCATGCC‑GGGTTTTTTTATATTTAAGAAGGCAGGGACTTTACTGGGCCAAAt                                                                                           >  1:93714/1‑217 (MQ=255)                                                                                                                                                                                   ttGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTGAAGAAGTCAGGGACTTCACTGGTCCAAATAACATCTGCCATAATCTGACCGGATTCTTTTTCCg                                                        <  1:275755/251‑1 (MQ=255)                                                                                                                                                                                            aaGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTTACAAAACGGGGGTTGTTGGCGG‑TAACTAATGTGCCTTAGCGTATTGGCGT‑AAAAGAAACGTC‑GAAAACGGGGATCGGGTTAATTGTATTTTTTACTTT‑TGGCGGAATAAAAGTTTCTTGCATGCC‑GGGTTTTTTTATATTGAAGAAGTCAGGGAGTTCACTGGGCCAAATAACATCTGCCATAATTTGACCGGATTTTTTTTCCTTGGGAAttt                                               >  1:272261/1‑251 (MQ=255)                                                                                                                                                                                                     cGCCCATTGTGCCGGCGGTTCTTTTTTTACAAAACGGGGGGTTTAGGCGG‑TACCTAATGTGGCTAAGCg                                                                                                                                                                                                                                >  1:436682/1‑69 (MQ=255)                                                                                                                                                                                                                               tCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTGAAGAAGTCAGGGACTTCACTGGTCCAAATAACATCTGCCATAATCTGACCGGATTCTTTTTCCGTGGCAATTTTTGCCATGAGTTTGCCCGCACCGGCAGATTGATAg            <  1:13163/251‑1 (MQ=255)                                                                                                                                                                                                                                          gtgtTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTGAAGAAGTCAGGGACTTCACTGGTCCAAATAACATCTGCCATAATCTGACCGGATTCTTTTTCCGTGGCAAttt                                               >  1:10764/1‑205 (MQ=255)                                                                                                                                                                                                                                          gtgtTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTGAAGAAGTCAGGGACTTCACTGGTCCAAATAACATCTGCCATAATCTGACCGGATTCTTTTTCCGTGGCAATTTTTGCCATGAGTTTGCCCGCACCGGCAGATTGATAGTCCATCGCaa  <  1:314560/250‑1 (MQ=255)                                                                                                                                                                                                                                          gtgtTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTGAAGAAGTCAGGGACTTCACTGGTCCAAATAACATCTGCCATAATCTGACCGGATTCTTTTTCCGTGGCAATTTTTGCCATGAGTTTGCCCGCACCGGCAGATTGATAGTCCATCGCaa  <  1:69753/250‑1 (MQ=255)                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                              CCAGTAAGTCACCGGAAGCGGTATCATCCACGACCTGACCGGCGCCTTTACCGATTTTGGTTTTATTTTCTTTTAACTTTTCAAAGAATTCCCAACCGAAAGTCGATTTCAATAATGACACACTCATATATGAAGTACCGGATAGGGCAGGGTTGGCAATACCGAATGCGCCTTTAAATTGCGGAGTAAGAATATCCGCCCATTGTGCCGGCGGTTCTTTTTTCACAAAGCGGGTGTTGTAGGCGA‑TACCTAATGTGCCTAAGCGTATCGGCGT‑AAAAGAACCGTC‑GAAATCGGGAATCGGATTAATGATATTTTCTACTTC‑GGGCGAAATATAAGTTTCTAGCATGCC‑GGTTTCTTTCATATTGAAGAAGTCAGGGACTTCACTGGTCCAAATAACATCTGCCATAATCTGACCGGATTCTTTTTCCGTGGCAATTTTTGCCATGAGTTTGCCCGCACCGGCAGATTGATAGTCCATCGCAA  >  1/1147293‑1147775

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑