Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,144,279	T→C	S338S (AGT→AGC)	yegE →	putative diguanylate cyclase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,144,279	0	T	C	100.0%	143.6 / NA	40	S338S (AGT→AGC)	yegE	putative diguanylate cyclase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (15/25);  total (15/25)

CGCAAACACATTTCCGAAAGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGTCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATAAACACCTATTCAA  >  NC_000913/2144145‑2144391                                                                                                                                       |                                                                                                                 cGCAAACACATTTCCGAAAGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAgg                                                                                                              >  2:1018809/1‑139 (MQ=255)         caTTTCCGAAAGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTg                                                                                                      >  1:551632/1‑139 (MQ=255)            ttCCGAAAGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTgagc                                                                                                   >  2:978825/1‑139 (MQ=255)                 aaaGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACt                                                                                              <  1:835694/139‑1 (MQ=255)                    gCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCAc                                                                                           <  2:563379/139‑1 (MQ=255)                    gCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGCCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTTCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCAc                                                                                           >  1:846337/1‑139 (MQ=255)                       aaaCCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCtt                                                                                        >  2:122518/1‑139 (MQ=255)                              cTTTCGGAACGCGATGGAATATTCCTCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCaa                                                                                 <  1:755995/139‑1 (MQ=255)                              cTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCaa                                                                                 <  1:509051/139‑1 (MQ=255)                                   ggAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGAc                                                                            <  1:122518/139‑1 (MQ=255)                                   ggAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGAc                                                                            <  2:1138413/139‑1 (MQ=255)                                        gcgATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGc                                                                       >  2:379178/1‑139 (MQ=255)                                               aaTATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCggagga                                                                <  2:846337/139‑1 (MQ=255)                                                atatTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGAt                                                               <  1:251670/139‑1 (MQ=255)                                                         tATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATaaa                                                      >  2:171113/1‑139 (MQ=255)                                                                         gTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAg                                                                                    >  2:394643/1‑93 (MQ=255)                                                                         gTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAg                                                                                    <  1:394643/93‑1 (MQ=255)                                                                            ggCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGaaa                                   >  2:692391/1‑139 (MQ=255)                                                                              cACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGc                                                                                                        <  1:315229/68‑1 (MQ=255)                                                                              cACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGc                                                                                                        >  2:315229/1‑68 (MQ=255)                                                                                   aGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATaa                                                       <  1:945784/112‑1 (MQ=255)                                                                                   aGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATaa                                                       >  2:945784/1‑112 (MQ=255)                                                                                   aGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGAt                            <  2:1066429/139‑1 (MQ=255)                                                                                   aGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGAt                            >  1:37865/1‑139 (MQ=255)                                                                                        cAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCg                       <  1:1113887/139‑1 (MQ=255)                                                                                        cAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCg                       <  1:1018809/139‑1 (MQ=255)                                                                                           tGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTg                    <  2:551632/139‑1 (MQ=255)                                                                                              cTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCCACAGGTTGAAAAGCTGATAAGCGGTGaaa                 >  2:758738/1‑139 (MQ=255)                                                                                                gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTATAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  1:758738/139‑1 (MQ=255)                                                                                                gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  2:278441/139‑1 (MQ=255)                                                                                                gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  2:131110/139‑1 (MQ=255)                                                                                                gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  2:1149636/139‑1 (MQ=255)                                                                                                gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  2:951807/139‑1 (MQ=255)                                                                                                gCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATa               <  1:928883/139‑1 (MQ=255)                                                                                                        acaaAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCaa                                                                                 >  2:421760/1‑65 (MQ=255)                                                                                                        acaaAGCGCTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCaa                                                                                 <  1:421760/65‑1 (MQ=255)                                                                                                             gcgcTCTGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATAAACACCTATTCaa  <  1:587775/139‑1 (MQ=255)                                                                                                                ctctGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCg                       >  1:32278/1‑115 (MQ=255)                                                                                                                ctctGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCg                       <  2:32278/115‑1 (MQ=255)                                                                                                                   tGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGAt                                                               <  2:1003507/72‑1 (MQ=255)                                                                                                                   tGCCAGTTTCTCGGGTACAGCCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGAt                                                               >  1:1003507/1‑72 (MQ=255)                                                                                                                                       |                                                                                                                 CGCAAACACATTTCCGAAAGCGAAACCCACTTTCGGAACGCGATGGAATATTCCGCTATCGGTATGGCGTTAGTGGGCACCGAGGGACAATGGCTGCAAACCAACAAAGCGCTCTGCCAGTTTCTCGGGTACAGTCAGGAAGAGCTGCGCGGACTCACCTTTCAGCAACTGACCTGGCCGGAGGATCTCAATAAAGATCTCCAACAGGTTGAAAAGCTGATAAGCGGTGAAATAAACACCTATTCAA  >  NC_000913/2144145‑2144391

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑