Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007793	895,247	0	T	A	76.9%	22.7 / 2.4	13	intergenic (‑118/‑916)	SAUSA300_RS04395/SAUSA300_RS04400	hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (0/3);  new base A (1/9);  total (1/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TACAAAGTAATTTTACAATTATTATTTATGTAAATCAATTAAATAATTATTAACAAAGATATAAAATATTATTATTACAATATATTAATTTTGAGCTGGAAATATTCGTTATTTATGCTATAATCATTTTAGACACAGCAATGTGTTCAAATTTTCATCTATTCGTAAGTTAGCCTTCGGGC  >  NC_007793/895163‑895344                                                                                     |                                                                                                  tACAAAGTAATTTTACAATTATTATTTATGTAAATCAATTAAATAATTATTAACAAAGATATAAAATATTATTATTACAATATATTAATTTTGAGCTggg                                                                                    <  1:6202637/100‑2 (MQ=255)  aCAAAGTAATTTTAGAATTATTATTTATGTAAATCAATTAAATAATTATTAACAAATCCATAAAATTTTATCATTGAAATATAATAATTTTGAGCTAGaa                                                                                   >  1:4361186/1‑100 (MQ=255)           ttttATAATTATTATTTATGTAAATCAATTAAATAATTATTAACAAAGATATAAAATATTATTATTACAATATATTAATTTTGAGCTGGAAATATTCGtt                                                                          <  1:2924713/100‑1 (MQ=255)              tagagttattattTATGTAAATCAATTAAATAATTATTAACAAATCCATAAAATTTTATCATTGAAATATAATAATTTTGAGCTAGAAATATTCGtcatt                                                                       <  1:4394826/95‑1 (MQ=255)               agaaTTATTATTTATGTAAATCAATTAAATAATTATTAACAAATCCATAAAATTTTATCATTGAAATATAATAATTTTGAGCTAGAAATATTCGtcattt                                                                      <  1:4776130/98‑1 (MQ=255)                      ttatttatGTAAATCAATTAAATAATTATTAACAAATCCATAAAATTTTATCATTGAAATATAATAATTTTGAGCTAGAAATATTCGTCATTTATGCtat                                                               <  1:564969/100‑1 (MQ=255)                               tAAATCAATTAAATAATTATTAACAAATCCATAAAATTTTATCATTGAAATATAATAATTTTGAGCTAGAAATATTCGTCATTTATGCTATAATCGtttt                                                      <  1:5112944/100‑1 (MQ=255)                                             aatTATTAACAAATCCATAAAATTTTATCATTGAAATATAATAATTTTGAGCTAGAAATATTCGTCATTTATGCTATAATCGTTTTAGACACAGCAAtgt                                        <  1:1682216/100‑1 (MQ=255)                                             aatTATTAACAAATCCATAAAATTTTATCATTGAAATATAATAATTTTGAGCTAGAAATATTCGTCATTTATGCTATAATCGTTTTAGACACAGCAAtgt                                        <  1:5350578/100‑1 (MQ=255)                                                 attaACAAATCCATAAAATTTTATCATTGAAATATAATAATTTTGAGCTAGAAATATTCGTCATTTATGCTATAATCGTTTTAGACACAGCAAtgtgcct                                    <  1:5961437/100‑4 (MQ=255)                                                 attaACAAATCCATAAAATTTTATCATTGAAATATAATAATTTTGAGCTAGAAATATTCGTCATTTATGCTATAATCGTTTTAGACACAGCAATGTGTTc                                    <  1:1033480/100‑1 (MQ=255)                                                                          attgaaaTATAATAATTTTGAGCTAGAAATATTCGTCATTTATGCTATAATCGTTTTAGACACAGCAATGTGTTCAAATTTTCACCTATTCGTAAGTTat           <  1:4588691/95‑2 (MQ=25)                                                                          attaCAATATATTAATTTTGAGCTGGAAATATTCGTTATTTATGCTATAATCATTTTAGACACAGCAATGTGTTCAAATTTTCATCTATTCGTAAGTTAg           <  1:2409232/100‑1 (MQ=255)                                                                                   catTAATTTTGAGCTGGAAATATTCGTTATTTATGCTATAATCATTTTAGACACAGCAATGTGTTCAAATTTTCATCTATTCGTAAGTTAGCCTTCGGGc  >  1:739248/2‑100 (MQ=255)                                                                                     |                                                                                                  TACAAAGTAATTTTACAATTATTATTTATGTAAATCAATTAAATAATTATTAACAAAGATATAAAATATTATTATTACAATATATTAATTTTGAGCTGGAAATATTCGTTATTTATGCTATAATCATTTTAGACACAGCAATGTGTTCAAATTTTCATCTATTCGTAAGTTAGCCTTCGGGC  >  NC_007793/895163‑895344

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑