Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	AE015451	4,808,179	0	G	.	58.3%	‑5.0 / 19.9	12	intergenic (‑288/‑267)	PP_4234/dsbD‑II	Aldehyde oxidase and xanthine dehydrogenase/thiol/disulfide interchange protein 2
Reads supporting (aligned to +/- strand):  ref base G (3/2);  new base . (4/3);  total (7/5)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.37e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GGACATGCTTGATCCTCTGGGCAGTTGGGGCCTGCCCTTTCTTTTGATTCTTGGCCTGGCTTGAGAAAAGCTGACCTTGGCGTCAACTTTACAGCAATTGGGTGGGTAGAGGCAAAGTCAAGCTGACAATGTGTCGCGGTGTGTATAGGGCAATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCGAGCGCCGCCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGAAAATCCAACAACAAAGACCCTGCAAACCCAGAACAAACTCTTACTACTCCTGACCCACCCCCAACACCCGCGTTAACCTTCATTTAATCAACCCCAGCCAGCATGGCCCCATTCCCAGATCTGCCAAGGCGAAGACATGCGCGTTCTCCTGCTCTTCCT  >  AE015451/4807886‑4808468                                                                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                                                                  ggACATGCTTGATCCTCTGGGCAGTTGGGGCCTGCCCTTTCTTTTGATTCTTGGCCTGGCTTGAGAAAAGCTGACCTTGGCGTCAACTTTACAGCAATTGGGTGGGTAGAGGCAAAGTCAAGCTGACAATGTGTCGCGGTGTGTATAGGGCAATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCGAGCGCCGCCcgcgcggcgct                                                                                                                                                                                                                                                                                            <  1:828162/301‑8 (MQ=255)                     gCAGTTGGGGCCTGCCCTTTCTTTTGATTCTTGGCCTGGCTTGAGAAAAGCTGACCTTGGCGTCAACTTTACAGCAATTGGGTGGGTAGAGGCAAAGTCAAGCTGACAATGTGTCGCGGTGTGTATAGGGCAATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCGAGCGCCGCCcgcgcggcgcttcgcgggtaaccccg                                                                                                                                                                                                                                                                             >  1:397310/1‑274 (MQ=255)                                    ccTTTCTTTTGATTCTTGGCCTGGCTTGAGAAAAGCTGACCTTGGCGTCAACTTTACAGCAATTGGGTGGGTAGAGGCAAAGTCAAGCTGACAATGTGTCGCGGTGTGTATAGGGCAATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCGAGCGCCGCCcgcgcggcgctcgatct                                                                                                                                                                                                                                                                                      >  2:224377/1‑259 (MQ=255)                                    ccTTTCTTTTGATTCTTGGCCTGGCTTGAGAAAAGCTGACCTTGGCGTCAACTTTACAGCAATTGGGTGGGTAGAGGCAAAGTCAAGCTGACAATGTGTCGCGGTGTGTATAGGGCAATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCGAGCGCCGCCcgcgcggcgctcgatct                                                                                                                                                                                                                                                                                      <  1:224382/272‑14 (MQ=255)                                                                                                                    aGTCAAGCTGACAATGTGTCGCGGTGTGTATAGGGCAATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCGAGCGCCGCCCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTcc                                                                                                                                                                                                                     <  1:227982/243‑1 (MQ=255)                                                                                                                    aGTCAAGCTGACAATGTGTCGCGGTGTGTATAGGGCAATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCGAGCGCCGCCCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTcc                                                                                                                                                                                                                     >  2:227977/1‑243 (MQ=255)                                                                                                                                   gtgtCGCGGTGTGTATAGGGCAATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCAcagctcgga                                                                                                                                                                                                           >  2:689625/1‑230 (MQ=255)                                                                                                                                   gtgtCGCGGTGTGTATAGGGCAATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCAc                                                                                                                                                                                                                   <  1:689650/230‑1 (MQ=255)                                                                                                                                                                                                                                    aTTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTc                                                                                                                                                                                                                 >  2:920785/1‑135 (MQ=21)                                                                                                                                                                                                                                    aTTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTc                                                                                                                                                                                                                 <  1:920811/135‑1 (MQ=21)                                                                                                                                                                                                                                             gcCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGAAAATCCAACAACAAAGACCCTGCAAACCCAGAACAAACTCTTACTACTCCTGACCCACCCCCAACACCCGCGTTAACCTTc                                                                                >  1:472587/1‑255 (MQ=255)                                                                                                                                                                                                                                                                          aaacaaacgtaggagcgggtttacccgcGAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGAAAATCCAACAACAAAGACCCTGCAAACCCAGAACAAACTCTTACTACTCCTGACCCACCCCCAACACCCGCGTTAACCTTCATTTAATCAACCCCAGCCAGCATGGCCCCATTCCCAGATCTGCCAAGGCGa                             >  2:579856/24‑291 (MQ=255)                                                                                                                                                                                                                                                                           aacaaacgtaggagcgggtttacccgcGAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGAAAATCCAACAACAAAGACCCTGCAAACCCAGAACAAACTCTTACTACTCCTGACCCACCCCCAACACCCGCGTTAACCTTCATTTAATCAACCCCAGCCAGCATGGCCCCATTCCCAGATCTGCCAAGGCGAAGACATGcgcg                  <  1:623885/279‑1 (MQ=255)                                                                                                                                                                                                                                                                             caaacgtaggcgagcgtttacgcgcgAAGCGCCGCGCGGGCAGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGAAAATCCAACAACAAAGACCCTGCAAACCCAGAACAGACTCTTACTACTCCTGACCCACCCCCAACACCCGCGTTAACCTTCATTTAATCAACCCCAGCCAGCATGGCCCCATTCCCAGATCTGCCAAGGCGAAGACATg                      <  2:185028/273‑1 (MQ=255)                                                                                                                                                                                                                                                                             caaacgtaggagcgggtttacccgcGAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGAAAATCCAACAACAAAGACCCTGCAAACCCAGAACAAACTCTTACTACTCCTGACCCACCCCCAACACCCGCGTTAACCTTCATTTAATCAACCCCAGCCAGCATGGCCCCATTCCCAGATCTGCCAAGGCGAAGACATGCGCGt                 >  1:705343/21‑300 (MQ=255)                                                                                                                                                                                                                                                                                            gtttacccgcGAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGAAAATCCAACAACAAAGACCCTGCAAACCCAGAACAAACTCTTACTACTCCTGACCCCCCCCCAACACCCGCGTTAACCTTCATTTAATCAACCCCAGCCAGCATGGCCCCATTCCCAGATCTTCCAAGGCGAAGACATGCGCGTTCGCCTGCTCTTCCt  >  1:434094/6‑300 (MQ=255)                                                                                                                                                                                                                                                                                              ttacccgcGAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAGCGCCGCCTCCCCTCGAAAATCCAACCACAAAGACCCTGCAAACCCAGAACAAACTCTTACTACTCCTGaccc                                                                                                         <  2:743493/192‑1 (MQ=255)                                                                                                                                                                                                                                                                                                   cgcgAAGCGCCGCGCGGGCGACGCTCGATCTCACAGGCGCTGAAAATCCTCCAGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGAAAGTCCAACGACAAAGGCCCTGCAAGCCCAGAACAAACTCTTACTACTCCTGacccaccc                                                                                                     <  2:366369/194‑1 (MQ=255)                                                                                                                                                                                                                                                                                                      gAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGGAAATCCAACAACAAAGACCCTGCAAACCCAGAACAAACTCTTACTACTCCTGACCCACCCCCAACACCCGCGTTAACCTTCATTTAATCAACCccagc                                                               <  2:95015/229‑1 (MQ=255)                                                                                                                                                                                                                                                                                                      gAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGAAAATCCAACAACAAAGACCCTGCAAACCCAGAACAAACTCTTACTACTCCTGACCCACCCCCAACACCCGCGTTAACCTTCATTTAATCAACCccagc                                                               >  1:95017/1‑229 (MQ=255)                                                                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                                                                  GGACATGCTTGATCCTCTGGGCAGTTGGGGCCTGCCCTTTCTTTTGATTCTTGGCCTGGCTTGAGAAAAGCTGACCTTGGCGTCAACTTTACAGCAATTGGGTGGGTAGAGGCAAAGTCAAGCTGACAATGTGTCGCGGTGTGTATAGGGCAATGGGCGGAATTCGCGCTTTGGCGGGTAGGTGTTTGGCGGGAGGTTTTCAGCGCCTGGGAGGTGTTCGCCGGGGGATTTTCAGCGCCTGGGAGGTGTTCGCCGGGAGAGTTTCAGCGCCTGGGAGATCGAGCGCCGCCCGCGAAGCGCCGCGCGGGCGGCGCTCGATCTCACAGGCGCTGAAAATCCTCCGGCAAACACCTCAAAATTCCAACGCCGTCCACTCAAAATTCCAACGCCGCCCCCTCAAAATTCCAACGCCGCCTCCCCTCGAAAATCCAACAACAAAGACCCTGCAAACCCAGAACAAACTCTTACTACTCCTGACCCACCCCCAACACCCGCGTTAACCTTCATTTAATCAACCCCAGCCAGCATGGCCCCATTCCCAGATCTGCCAAGGCGAAGACATGCGCGTTCTCCTGCTCTTCCT  >  AE015451/4807886‑4808468

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑