Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007793	34,324	T→C	intergenic (+133/‑189)	SAUSA300_RS00135 → / → SAUSA300_RS00140	23S rRNA (pseudouridine(1915)‑N(3))‑methyltransferase RlmH/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007793	34,324	0	T	C	100.0%	88.9 / NA	36	intergenic (+133/‑189)	SAUSA300_RS00135/SAUSA300_RS00140	23S rRNA (pseudouridine(1915)‑N(3))‑methyltransferase RlmH/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (35/1);  total (35/1)

CAGAACATATGAGGTTTATGTGAATTGCTGTTATGTTTTTAAGAAGCTTATCATAAGTAATGAGGTTCATGATTTTTGACATAGTTAGCCTCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAATTCTTTCT  >  NC_007793/34234‑34419                                                                                           |                                                                                                cAGAACATATGAGGTTTATGTGAATTGCTGTTATGTTTTTAAGAAGCTTATCATAAGTAATGAGGTTCATGATTTTTGACATAGTTAGCccccagatcgg                                                                                        >  1:4468957/1‑93 (MQ=255)   gAACATATGAGGTTTATGTGAATTGCTGTTATGTTTTTAAGAAGCTTATCATAAGTAATGAGGTTCATGATTTTTGACATAGTTAGCCCCCGCAgatcgg                                                                                      >  1:2893105/1‑95 (MQ=255)   gAACATATGAGGTTTATGTGAATTGCTGTTATGTTTTTAAGAAGCTTATCATAAGTAATGAGGTTCATGATTTTTGACATAGTTAGCCCCCACAgatcgg                                                                                      >  1:5970232/1‑95 (MQ=38)                  ctgtgAATTGCTGTTATGTTTTTAAGAAGCTTATCATAAGTAATGAGGTTCATGATTTTTGACATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAaata                                                                       >  1:1626461/2‑100 (MQ=255)                   tgtgAATTGCTGTTATGTTTTTAAGAAGCTTATCATAAGTAATGAGGTTCATGATTTTTGACATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAaataa                                                                      >  1:849757/1‑100 (MQ=255)                         ctGCTGTTATGTTTTTAAGAAGCTTATCATAAGTAATGAGGTTCATGATTTTTGACATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGa                                                                >  1:1457405/2‑100 (MQ=255)                                                                  ttCATGATTTTTGCCATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATTCTTATAGTGAAGCAAAGTTCt                       <  1:2396790/100‑1 (MQ=255)                                                                            ctGACATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTgaga             >  1:3458835/2‑100 (MQ=255)                                                                             tGACATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGaa            >  1:4825484/1‑100 (MQ=255)                                                                             tGACATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGaa            >  1:3972608/1‑100 (MQ=255)                                                                             tGACATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGaa            >  1:3699808/1‑100 (MQ=255)                                                                              gACATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGaaa           >  1:6465558/1‑100 (MQ=255)                                                                              gACATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGaaa           >  1:2733908/1‑100 (MQ=255)                                                                              gACATAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGaaa           >  1:3247985/1‑100 (MQ=255)                                                                                  tAGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttc       >  1:4353180/1‑100 (MQ=255)                                                                                   aGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttct      >  1:3883190/1‑100 (MQ=255)                                                                                   aGTTAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttct      >  1:2277919/1‑100 (MQ=255)                                                                                   aGTTAGCCCCCGCAGTCTTTCATTTCAAGAAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAACAttct      >  1:6599365/1‑100 (MQ=255)                                                                                    cttAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctt     >  1:5338606/2‑100 (MQ=255)                                                                                     ttAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttcttt    >  1:3700243/1‑100 (MQ=255)                                                                                     ctggCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttcttt    >  1:6098325/4‑100 (MQ=255)                                                                                      tAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttc   >  1:3633180/1‑100 (MQ=255)                                                                                      tAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttc   >  1:3213696/1‑100 (MQ=255)                                                                                      tAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttc   >  1:4641131/1‑100 (MQ=255)                                                                                      tAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttc   >  1:665124/1‑100 (MQ=255)                                                                                      tAGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttc   >  1:6301062/1‑100 (MQ=255)                                                                                      caGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttc   >  1:3104946/2‑100 (MQ=255)                                                                                      caGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttc   >  1:781203/2‑100 (MQ=255)                                                                                       ggCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttct  >  1:1322434/2‑100 (MQ=255)                                                                                       aGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttct  >  1:6269003/1‑100 (MQ=255)                                                                                       aGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttct  >  1:5904356/1‑100 (MQ=255)                                                                                       aGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttct  >  1:186299/1‑100 (MQ=255)                                                                                       aGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttct  >  1:5864091/1‑100 (MQ=255)                                                                                       aGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttct  >  1:2401341/1‑100 (MQ=255)                                                                                       aGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttct  >  1:2471486/1‑100 (MQ=255)                                                                                       aGCCCCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttct  >  1:1163814/1‑100 (MQ=255)                                                                                       aGCCCCCGCAGTCCTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAAttctttct  >  1:6400534/1‑100 (MQ=255)                                                                                           |                                                                                                CAGAACATATGAGGTTTATGTGAATTGCTGTTATGTTTTTAAGAAGCTTATCATAAGTAATGAGGTTCATGATTTTTGACATAGTTAGCCTCCGCAGTCTTTCATTTCAAGTAAATAATAGCGAAATATTCTTTATACTGAATACTTATAGTGAAGCAAAGTTCTAGCTTTGAGAAAATTCTTTCT  >  NC_007793/34234‑34419

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑