Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	1,275,296	A→G	intergenic (‑120/‑206)	ychN ← / → ychP	conserved hypothetical protein/predicted invasin

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	1,275,296	0	A	G	100.0%	233.6 / NA	62	intergenic (‑120/‑206)	ychN/ychP	conserved hypothetical protein/predicted invasin
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (11/51);  total (11/51)

CAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAAGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCGG  >  W3110S.gb/1275243‑1275346                                                      |                                                   cAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTaa                                         <  1:1130214/65‑1 (MQ=255) cAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTaa                                         <  1:367380/65‑1 (MQ=255) cAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTaa                                         <  1:84743/65‑1 (MQ=255) cAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTaa                                         <  1:950625/65‑1 (MQ=255)   gtCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:958233/2‑65 (MQ=255)   ataggTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:392466/4‑65 (MQ=255)   aTCGGTCACATTTTTAAGGGTTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:120808/1‑65 (MQ=255)   aTCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:12991/1‑65 (MQ=255)   aTCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:1437964/1‑65 (MQ=255)   aTCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:2294984/1‑65 (MQ=255)   aTCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:1530216/1‑65 (MQ=255)   aTCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:158137/1‑65 (MQ=255)   aTCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:592789/1‑65 (MQ=255)   aTCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:2702138/1‑65 (MQ=255)   aTCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATc                                       >  1:2089248/1‑65 (MQ=255)    tCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCg                                      <  1:2156549/65‑1 (MQ=255)    tCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCg                                      <  1:2044619/65‑1 (MQ=255)    tCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCg                                      <  1:2681387/65‑1 (MQ=255)    tCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCg                                      <  1:1912886/65‑1 (MQ=255)    tCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCg                                      <  1:1657241/65‑1 (MQ=255)    tCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCg                                      <  1:1636285/65‑1 (MQ=255)    tCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCg                                      <  1:558721/65‑1 (MQ=255)    tCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCg                                      <  1:861470/65‑1 (MQ=255)    tCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCg                                      <  1:930380/65‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:2397377/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:2273434/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:252145/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:2915979/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:372583/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:988887/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:102424/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:866631/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:2188409/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:1313615/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:1318277/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:1370504/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:1489223/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:1610472/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:1616126/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:1630566/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:1760487/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:184289/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:2075695/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:2022464/64‑1 (MQ=255)                            cTGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:1933128/64‑1 (MQ=255)                             tGAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:2932016/63‑1 (MQ=255)                              gAAAGCGCGAGAAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGtttt               <  1:2221136/62‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:1766862/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:2846342/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:2806376/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:3061763/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:3037886/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:813905/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:299135/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:1480153/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:2087879/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:881344/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:2364297/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:1294504/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:95983/65‑1 (MQ=255)                                        gaAAATACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:1276319/65‑1 (MQ=255)                                         aaaaTACGACAAAGGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCgg  <  1:498915/64‑1 (MQ=255)                                                      |                                                   CAATCGGTCACATTTTTAAGGATTTTCCTGAAAGCGCGAGAAAATACGACAAAAGTTGCCAGTAATCGTTATTCTTTAAGGCTATGGTTTTTCATTATTACCGG  >  W3110S.gb/1275243‑1275346

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑