Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007793	1,590,408	T→C	N67S (AAT→AGT)	SAUSA300_RS07850 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007793	1,590,408	0	T	C	98.2%	140.2 / NA	55	N67S (AAT→AGT)	SAUSA300_RS07850	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (39/15);  total (39/16)
Fisher's exact test for biased strand distribution p-value = 2.91e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

TAAATACAAACACTGTTAAAACAAAAATAAATAGAAACAAAATATTTGCTTTTAGACCTGTAAGCAACTGAATTAAATTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAACTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAGGAGTATTGA  >  NC_007793/1590331‑1590504                                                                              |                                                                                                 tAAATACAAGCACTGTTAAAACAAAAATAATTAGAAACCAAATATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACatt                                                                            >  1:1796445/1‑100 (MQ=255)      aCAAGCACTGTTAAAACAAAAATAATTAGAAACCAAATATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTaa                                                                       >  1:1006507/1‑100 (MQ=255)      aCAAGCACTGTTAAAACAAAAATAATTAGAAACCAAATATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTaa                                                                       >  1:4737058/1‑100 (MQ=255)        aagcacTGTTAAAACAAAAATAATTAGAAACCAAATATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTaaaa                                                                     >  1:2611818/4‑100 (MQ=255)        aagcacTGTTAAAACAAAAATAATTAGAAACCAAATATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTaaaa                                                                     >  1:228781/4‑100 (MQ=255)          gcacTGTTAAAACAAAAATAATTAGAAACCAAATATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAAt                                                                   >  1:5147093/2‑100 (MQ=255)               gTTAAAACAAAAATAATTAGAAACCAAATATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATtataa                                                              >  1:542338/1‑100 (MQ=255)                             aattaGAAACCAAATATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCat                                                <  1:5204338/97‑1 (MQ=255)                                taGAAACCAAATATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATc                                             <  1:2684838/100‑1 (MQ=255)                                    aaCCAAATATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAAc                                         >  1:2339413/1‑100 (MQ=255)                                     accaaaTATTTGCTTTTAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACa                                        >  1:4058947/4‑100 (MQ=255)                                                   tttAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGaaa                          >  1:4574330/1‑100 (MQ=255)                                                   tctAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGaaa                          >  1:5330861/3‑100 (MQ=255)                                                    ttAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGaaaa                         >  1:5553951/1‑100 (MQ=255)                                                    ctAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGaaaa                         >  1:4950522/2‑100 (MQ=255)                                                     tAGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGaaaaa                        >  1:3738604/1‑100 (MQ=255)                                                      aGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGaaaaaa                       >  1:6414946/1‑100 (MQ=255)                                                      aGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGaaaaaa                       >  1:6421865/1‑100 (MQ=255)                                                      aGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGaaaaaa                       >  1:1589454/1‑100 (MQ=255)                                                      aGACCTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGaaaaaa                       >  1:2842433/1‑100 (MQ=255)                                                       ctccTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAAt                      >  1:4250992/3‑100 (MQ=255)                                                         tcTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCa                    >  1:1945867/2‑100 (MQ=255)                                                         ccTGTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCa                    >  1:1480974/1‑100 (MQ=255)                                                           agTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaat                  >  1:408398/2‑100 (MQ=255)                                                            gTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAACGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaata                 >  1:823049/1‑100 (MQ=255)                                                            gTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaata                 >  1:2676545/1‑100 (MQ=255)                                                            gTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaata                 >  1:4286162/1‑100 (MQ=255)                                                            gTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaata                 >  1:2085249/1‑100 (MQ=255)                                                            gTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaata                 >  1:1674377/1‑100 (MQ=255)                                                            gTAAGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGCATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaata                 >  1:2022988/1‑100 (MQ=255)                                                              taGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaataac               >  1:2716370/2‑99 (MQ=255)                                                              aaGCAACTGTAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaataat               >  1:4109064/1‑100 (MQ=255)                                                              aaGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAaaaaaagatcggaag               >  1:5908352/1‑91 (MQ=255)                                                              aaGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaataat               >  1:1783482/1‑100 (MQ=255)                                                              aaGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaataat               >  1:5563286/1‑100 (MQ=255)                                                              aaGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaataat               >  1:2214922/1‑100 (MQ=255)                                                              aaGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaataat               >  1:5952962/1‑100 (MQ=255)                                                              aaGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCaataat               >  1:6619211/1‑100 (MQ=255)                                                               aGCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGGAAAAATCAataata              >  1:4865290/1‑100 (MQ=255)                                                                gCAACTGAAGTAAATTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATAc             <  1:4827636/100‑1 (MQ=255)                                                                gCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATAc             >  1:4152261/1‑100 (MQ=255)                                                                gCAACTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGCTTCAATAGAAAAAATCAATAATAc             <  1:1856120/100‑1 (MQ=255)                                                                   aCTGAAGTAAACTCAAATTTTTTAAATCACCATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAgg          <  1:4533224/100‑1 (MQ=255)                                                                   aCTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAgg          <  1:5983330/100‑1 (MQ=255)                                                                   aCTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAgg          <  1:3815335/100‑1 (MQ=255)                                                                   aCTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAgg          <  1:6423153/100‑1 (MQ=255)                                                                   aCTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAgg          <  1:5538684/100‑1 (MQ=255)                                                                   aCTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAgg          <  1:4872154/100‑1 (MQ=255)                                                                   aCTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAgg          <  1:2451610/100‑1 (MQ=255)                                                                   aCTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAgg          <  1:4194137/100‑1 (MQ=255)                                                                   aCTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAgg          <  1:2739568/100‑1 (MQ=255)                                                                   aCTGAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAgg          <  1:3468449/100‑1 (MQ=255)                                                                      gAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAGGAGt       <  1:2287657/100‑1 (MQ=255)                                                                      gAAGTAAACTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAGGAGt       <  1:2411416/100‑1 (MQ=255)                                                                           aaaCTCAAACTTTTTAAATCAACATTATTAAAAATTATAAAAGTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAGGAGTATTGa  >  1:1998058/1‑100 (MQ=255)                                                                              |                                                                                                 TAAATACAAACACTGTTAAAACAAAAATAAATAGAAACAAAATATTTGCTTTTAGACCTGTAAGCAACTGAATTAAATTCAAATTTTTTAAATCAACATTATTAAAAATTATAAAACTATAAAACCATATCAAACATGTTTCAATAGAAAAAATCAATAATACAGGAGTATTGA  >  NC_007793/1590331‑1590504

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑