Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007793	1,631,272	A→G	S8S (AGT→AGC)	SAUSA300_RS08060 ←	integrase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007793	1,631,272	0	A	G	96.5%	66.2 / ‑4.4	29	S8S (AGT→AGC)	SAUSA300_RS08060	integrase
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base G (2/26);  total (2/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.82e-01

GATATGGACAACCCAAATCACTAAAATAAATACTACAATTCAATTCATCTTCTATTTCTTCAAATAGAGCAAACTCCTTACCTCTATCCATAGTTATACTTTTGGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTG  >  NC_007793/1631175‑1631366                                                                                                  |                                                                                               gATATGGACAACCCAAATCACTAAAATAAATACTACAATTCAATTCATCTTCTATTTGTTCAAATAGAGCGAACTCCTTACCTCTATCCATAGTTATGCt                                                                                              <  1:2617824/100‑1 (MQ=255) gATATGGACAACCCAAATCACTAAAATAAATACTACAATTCAATTCATCTTCTATTTGTTCAAATAGAGCGAACTCCTTACCTCTATCCATAGTTATGCt                                                                                              <  1:3891819/100‑1 (MQ=255)  atatGGACAACCCAAATCACTAAAATAAATACTACAATTCAATTCATCTTCTATTTGTTCAAATAGAGCGAACTCCTTACCTCTATCCATAGTTATGCtt                                                                                             <  1:432788/100‑1 (MQ=255)   tatGGACAACCCAAATCACTAAAATAAATACTACAATTCAATTCATCTTCTATTTGTTCAAATAGAGCGAACTCCTTACCTCTATCCATAGTTATGCttg                                                                                            <  1:2683990/100‑2 (MQ=255)   tatGGACAACCCAAATCACTAAAATAAATACTACAATTCAATTCATCTTCTATTTGTTCAAATAGAGCGAACTCCTTACCTCTATCCATAGTTATGCtta                                                                                            <  1:3014015/100‑2 (MQ=255)                                           attcaTCTTCTATTTGTTCAAATAGAGCGAACTCCTTCCCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACa                                                    <  1:1251272/100‑1 (MQ=255)                                                 cttctATTTGTTCAAATAGAGCGAACTCCTTACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTAc                                              <  1:119011/100‑1 (MQ=255)                                                  ttctATTTGTTCAAATAGAGCGAACTCCTTACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTAcg                                             <  1:5443369/100‑2 (MQ=255)                                                   tctATTTGTTCAAATAGAGCGAACTCCTTACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACag                                            <  1:4227015/100‑2 (MQ=255)                                                    ctATTTGTTCAAATAGAGCGAACTCCTTACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTATAAACTACAtc                                           <  1:5680591/100‑2 (MQ=255)                                                    ctATTTCTTCAAATAGAGCAAGCTCCTTACCTCTATCCATAGTTATACTTTTGGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACAtt                                           <  1:175097/100‑1 (MQ=255)                                                         tgttcAAATAGAGCGAACTCCTTACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGAtt                                      <  1:4513611/98‑1 (MQ=255)                                                                 tAGAGCGAACTCCTTACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACgtgca                              <  1:5498284/100‑3 (MQ=255)                                                                   gagCGAACTCCTTACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTAtt                            <  1:755429/100‑1 (MQ=255)                                                                         aCTCCTTACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATct                      <  1:468387/100‑1 (MQ=255)                                                                            tccgatctctATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATctact                   <  1:3418249/94‑1 (MQ=255)                                                                            ccTTACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATctact                   >  1:2124762/1‑100 (MQ=255)                                                                               ttccgatctCCATTGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGc                <  1:101705/92‑1 (MQ=255)                                                                               tACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAACCTACATTGGATTTACGTGTATTTAATCTACTAGc                <  1:1850951/100‑1 (MQ=255)                                                                               tACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGc                <  1:5272553/100‑1 (MQ=255)                                                                               tACCTCTATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGc                <  1:5637289/100‑1 (MQ=255)                                                                                 ccgatctCCATAGTTACGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCat              <  1:2107646/94‑1 (MQ=255)                                                                                  ctctATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCata             <  1:2996173/100‑1 (MQ=255)                                                                                   tctATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCatat            <  1:4731479/100‑1 (MQ=255)                                                                                    ctATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACACTGGATTTACGTGTATTTAATCTACTAGCAtata           <  1:1705578/100‑1 (MQ=255)                                                                                    cgaTCTATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCAtata           <  1:5531081/98‑1 (MQ=255)                                                                                     tATCCATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATaa          <  1:3815778/100‑1 (MQ=255)                                                                                        ccATAGTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAata       >  1:1980261/1‑100 (MQ=255)                                                                                             gTTATGCTTTTTGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTg  <  1:2124652/100‑1 (MQ=255)                                                                                                  |                                                                                               GATATGGACAACCCAAATCACTAAAATAAATACTACAATTCAATTCATCTTCTATTTCTTCAAATAGAGCAAACTCCTTACCTCTATCCATAGTTATACTTTTGGGTAATAATGGTTTCATAATATTTATAATCTCATTACAAACTACATTGGATTTACGTGTATTTAATCTACTAGCATATAAATATCTTG  >  NC_007793/1631175‑1631366

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑