Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007793	1,585,905	G→T	S68Y (TCC→TAC)	SAUSA300_RS07790 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007793	1,585,905	0	G	T	94.4%	40.9 / ‑4.6	18	S68Y (TCC→TAC)	SAUSA300_RS07790	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base T (3/14);  minor base C (1/0);  total (4/14)
Fisher's exact test for biased strand distribution p-value = 2.22e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.78e-01

CTCCTTGTTATCATCAATACCGTGAAATTTTTGTGATTTACACATTTGGAGAACATTGACAATGTCTTTATAACTCTTAGTGCTATCCAATAAGGAAGCAAGATCGAAAGTATGACCAATCACAGAACTTGAACCTGCTAAATAATCTCCGTCGATAACTCCTATTGATGAGAAAAG  >  NC_007793/1585811‑1585987                                                                                               |                                                                                   gatcttggcgtcatctATACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTAGCCAATAAGTAAGCa                                                                               <  1:4391051/90‑1 (MQ=255) gatctTGTCGTCATCTATACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCa                                                                               <  1:2865473/97‑1 (MQ=255) gatctTGTCGTCATCTATACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCa                                                                               <  1:4950536/97‑1 (MQ=255) ctcctTGTCGTCATCTATACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCa                                                                               <  1:5462929/100‑1 (MQ=255) ctcctTGTCGTCATCTATACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCa                                                                               <  1:2790828/100‑1 (MQ=255) ctcctTGTCGTCATCTATACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCa                                                                               <  1:3312560/100‑1 (MQ=255) ctcctTGTCGTCATCTATACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCa                                                                               <  1:415331/100‑1 (MQ=255) ctcctTGTCGTCATCTATACCGAGAATTTTTTGTGATTTAAAAAGGGGGAGAACATTGACAATCTCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCa                                                                               <  1:228697/100‑1 (MQ=255)  atctTGTCGTCATCTATACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCaa                                                                              <  1:641682/98‑1 (MQ=255)            catctATACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCAAGATCAAAAGt                                                                    <  1:1905053/100‑1 (MQ=255)               ctaTACCGAGAATTTTTTGTGATGTACACATTTGGAGAACATTGACAATATCTTTATAACGCTTAGTGCTATCCAATAAGTAAGCAAGATCAAAAGTATg                                                                 <  1:5793291/98‑1 (MQ=255)                 aTACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCAAGATCGGAAgagcaca                                                               >  1:5532923/1‑94 (MQ=255)                 aTACCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGCAGGCAAGATCGGAAgagcaca                                                               >  1:4723013/1‑94 (MQ=255)                   aCCGAGAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCAAGATCAAAAGTATGACCa                                                             >  1:4581521/1‑100 (MQ=255)                        gAATTTTTTGTGATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCAAGATCAAAAGTATGACCAATcac                                                        <  1:5452040/100‑1 (MQ=255)                                tgtgATTTACACATTTGGAGAACATTGACAATATCTTTATAACTCTTAGTGCTATCCAATAAGTAAGCAAGATCAAAAGTATGACCAATCACAGAACTTg                                                <  1:2408189/100‑1 (MQ=255)                                                                       taACTCTTAGTGCTATCCAATAAGTAAGCAAGATCAAAAGTATGACCAATCACAGAACTTGAACCTGCTAAATAATCTCCGTCGATAACTCCTATtgatg         <  1:3610820/100‑1 (MQ=255)                                                                              tAGTGCTATCCAATAAGTAAGCAAGATCAAAAGTATGACCAATCACAGAACTTGAACCTGCTAAATAATCTCCGTCGATAACTCCTATTGATGAGAAAAg  >  1:4956563/1‑100 (MQ=255)                                                                                               |                                                                                   CTCCTTGTTATCATCAATACCGTGAAATTTTTGTGATTTACACATTTGGAGAACATTGACAATGTCTTTATAACTCTTAGTGCTATCCAATAAGGAAGCAAGATCGAAAGTATGACCAATCACAGAACTTGAACCTGCTAAATAATCTCCGTCGATAACTCCTATTGATGAGAAAAG  >  NC_007793/1585811‑1585987

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑