Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	3	39,051	A→G	S173G (AGT→GGT)	unknown →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	3	39,051	0	A	G	100.0%	93.1 / NA	34	S173G (AGT→GGT)	unknown	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (13/21);  total (13/21)

TATAAAAAATTCTTGGAAATCAGAGAAAGATCAATGGATACCTTGGGAAATTGCTTATTCACTAAGAAGTGAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATAGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCCTCTCTAGTCGACACTATCAAAAAACAATTTAAAATCCCACCGCACTTTCCCCAAAAGTGCGGTGTTTTTTTCCAACGTTTTTACGGCGATAATCTCACATT  >  3/38813‑39287                                                                                                                                                                                                                                               |                                                                                                                                                                                                                                             tataAAAAATTCTTGGAAATCAGAGAAAGATCAATGGATACCTTGGGAAATTGCTTATTCACTAAGAAGTAAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAAtt                                                                                                                                                                                                                                  <  1:322967/251‑1 (MQ=255)        aaTTCTTGGAAATCAGAGAAAGATCAATGGATACCTTGGGAAATTGCTTATTCACTAAGAAGTAAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCatatat                                                                                                                                                                                                                           <  1:511625/251‑1 (MQ=255)          ttCTTGGAAATCAGAGAAAGATCAATGGATACCTTGGGAAATTGCTTATTCACTAAGAAGTAAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGc                                                                                                                                                                                                                         <  1:802729/251‑1 (MQ=255)                              aTCAATGGATACCTTGGGAAATTGCTTATTCACTAAGAAGTAAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAg                                                                                                                                                                                                     >  1:504667/1‑251 (MQ=255)                               tCAATGGATACCTTGGGAAATTGCTTATTCACTAAGAAGTAAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGt                                                                                                                                                                                                    >  1:573053/1‑251 (MQ=255)                                  aTGGATACCTTGGGAAATTGCTTATTCACTAAGAAGTAAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTa                                                                                                                                                                                                 >  1:498206/1‑251 (MQ=255)                                         ccTTGGGAAATTGCTTATTCACTAAGAAGTAAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTg                                                                                                                                                                                                            <  1:541095/233‑1 (MQ=255)                                         ccTTGGGAAATTGCTTATTCACTAAGAAGTAAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTAtctc                                                                                                                                                                                             <  1:227813/248‑1 (MQ=255)                                                                  gaagTAAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCa                                                                                                                                                                 >  1:505853/1‑251 (MQ=255)                                                                    agtaaGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTc                                                                                                                                                                                                                                 >  1:491308/5‑185 (MQ=255)                                                                                                                aTTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGAc                                                                                                                   <  1:163921/251‑1 (MQ=255)                                                                                                                      cGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAatat                                                                                                                              <  1:151500/234‑1 (MQ=255)                                                                                                                          cTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGt                                                                                                                                                                                                    <  1:171029/160‑1 (MQ=255)                                                                                                                            aCCTGATAGATATGGTTATTATGATTACGCAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGaa                                                                                                                                                           <  1:455996/199‑1 (MQ=255)                                                                                                                                gatagataTGGTTATTATGATTGCGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGc                                                                                                                                                                                 >  1:197783/1‑173 (MQ=255)                                                                                                                                gatagataTGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCctct                                                                                                    >  1:578159/1‑250 (MQ=255)                                                                                                                                      tatGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCCTCTCTAGTCg                                                                                             <  1:648272/251‑1 (MQ=255)                                                                                                                                              ttatGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTg                                                                                                                                                                                                            >  1:99756/1‑132 (MQ=255)                                                                                                                                                             ttCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCCTCTCTAGTCGACACTATCAAAAAACAATTTaaa                                                                      >  1:658457/1‑251 (MQ=255)                                                                                                                                                                     gCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGc                                                                                                                                                                     <  1:7785/148‑1 (MQ=255)                                                                                                                                                                                                 cTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTataa                                                                                                                                 <  1:204832/156‑1 (MQ=255)                                                                                                                                                                                                        aaCCTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTAtctc                                                                                                                                                                                             <  1:721905/89‑1 (MQ=255)                                                                                                                                                                                                          ccTGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCCTCTCTAGTCGACACTATCAAAAAACAATTTAAAATCCCACCGCACTTTCCCCAAAAGTGCGGTGTTTTTTTCCAACGt                         >  1:713793/1‑251 (MQ=255)                                                                                                                                                                                                            tGCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCCTCTCTAGTCGac                                                                                           <  1:687599/183‑1 (MQ=255)                                                                                                                                                                                                             gCATACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGc                                                                                                                                                                     <  1:636715/108‑1 (MQ=255)                                                                                                                                                                                                                tACACCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCCTCTCTAGTCGACACTATCAAAAAACAATTTAAAATCCCACCGCACTTTCCCCAAAAGTGCGGTGTTTTTTTCCAACGTTTTTAc                   <  1:721616/251‑1 (MQ=255)                                                                                                                                                                                                                  cacCATATACTACATATAAACTAAGGAATGGTTGTTCTAAtt                                                                                                                                                                                                                                  <  1:141918/42‑1 (MQ=255)                                                                                                                                                                                                                  cacCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCatata                                                                                                                                                                                                                            <  1:61971/48‑1 (MQ=255)                                                                                                                                                                                                                  cacCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTAtctc                                                                                                                                                                                             <  1:892597/79‑1 (MQ=255)                                                                                                                                                                                                                  cacCATATACTACATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCCTCTCTAGTCGACACTATCAAAAAAc                                                                              >  1:308614/1‑190 (MQ=255)                                                                                                                                                                                                                         tactacATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGtaata                                                                                                                       >  1:831146/1‑142 (MQ=255)                                                                                                                                                                                                                              cATATAAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAg                                                                                                                                                                                                     >  1:899170/1‑59 (MQ=255)                                                                                                                                                                                                                                 ataAACTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCCTCTCTAGTCGACACTATCAAAAAACAATTTAAAATCCCACCGCACTTTCCCCAAAAGTGCGGTGTTTTTTTCCAACGTTTTTACGGCGATAATCTCACAtt  <  1:467283/251‑1 (MQ=255)                                                                                                                                                                                                                                   aaaCTAAGGAATGGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCCTCTCTAGTCGacac                                                                                         <  1:432969/162‑1 (MQ=255)                                                                                                                                                                                                                                               |                                                                                                                                                                                                                                             TATAAAAAATTCTTGGAAATCAGAGAAAGATCAATGGATACCTTGGGAAATTGCTTATTCACTAAGAAGTGAGCGACGTCCAGATAACCGAAGCAAGCGTAATGCAATTTTATTGGTCGTTCTACCTGATAGATATGGTTATTATGATTACGTAAATTCATATGGCTTTTATTTTGATATTATTCAAAGAAACTTGAATAACCTGCATACACCATATACTACATATAAACTAAGGAATAGTTGTTCTAATTCATATATGCTTCAATGTAACTGGGATAAGTTTATCTCTAATCCGAATGCTTGGATTGAAGCTGCAATAGAAATTAGAGATAAAGGAAATAATTATAATATTGTAATAAGACCATAAACTTCCCTCTCTAGTCGACACTATCAAAAAACAATTTAAAATCCCACCGCACTTTCCCCAAAAGTGCGGTGTTTTTTTCCAACGTTTTTACGGCGATAATCTCACATT  >  3/38813‑39287

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑