Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,903,497	T→C	I139T (ATC→ACC)	manY →	mannose‑specific enzyme IIC component of PTS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,903,497	0	T	C	100.0%	152.0 / NA	40	I139T (ATC→ACC)	manY	mannose‑specific enzyme IIC component of PTS
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (17/23);  total (17/23)

CAGAGCATTGGTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGATCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTGAATATCGCCGGTG  >  NC_000913/1903349‑1903640                                                                                                                                                     |                                                                                                                                                caGAGCATTGGTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGAccc                                                                                                                                               >  2:422021/1‑151 (MQ=255)    agCATTGGTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACg                                                                                                                                            >  2:542328/1‑151 (MQ=255)       aTTGGTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGttt                                                                                                                                         >  2:292493/1‑151 (MQ=255)          ggTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTttctt                                                                                                                                      >  2:128761/1‑151 (MQ=255)              cAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGATCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTctct                                                                                                                                  >  1:103793/1‑151 (MQ=255)               aGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTg                                                                                                                                 >  2:156469/1‑151 (MQ=255)                   aTCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTc                                                                                                                              <  2:454258/150‑1 (MQ=255)                       cACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTgca                                                                                                                         <  1:64381/151‑1 (MQ=255)                            gCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTgcaagcaa                                                                                                                    <  2:53206/151‑1 (MQ=255)                             cAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGTATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAAt                                                                                                                   <  1:540300/151‑1 (MQ=255)                             cAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAAt                                                                                                                   <  2:46453/151‑1 (MQ=255)                             cAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAAt                                                                                                                   >  2:49097/1‑151 (MQ=255)                                 cccTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCgt                                                                                                               <  2:113608/151‑1 (MQ=255)                                 cccTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCg                                                                                                                <  1:49340/150‑1 (MQ=255)                                           gCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTc                                                                                                     >  2:380418/1‑151 (MQ=255)                                                     aGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCAt                                                                                           <  2:394626/151‑1 (MQ=255)                                                      ggTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATc                                                                                          <  1:543153/151‑1 (MQ=255)                                                      ggTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATc                                                                                          <  2:64786/151‑1 (MQ=255)                                                         aCTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGtt                                                                                       >  2:239798/1‑151 (MQ=255)                                                            gACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTgc                                                                                     <  2:313309/150‑1 (MQ=255)                                                                           tACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTAcc                                                                     >  2:424172/1‑151 (MQ=255)                                                                            aCTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTAcc                                                                     >  2:439519/1‑150 (MQ=255)                                                                            aCTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCa                                                                    <  1:425616/151‑1 (MQ=255)                                                                             cTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCATGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTAcc                                                                     >  2:555286/1‑149 (MQ=255)                                                                               aTTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTCCCAGc                                                                  <  1:343234/150‑1 (MQ=255)                                                                               aTTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAg                                                                   <  1:391756/149‑1 (MQ=255)                                                                               aTTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAg                                                                   <  2:433121/149‑1 (MQ=255)                                                                                    cGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTa                                                            <  2:185753/151‑1 (MQ=255)                                                                                        gCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAg                                                         <  2:297346/150‑1 (MQ=255)                                                                                                gCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTg                                                >  2:521564/1‑151 (MQ=255)                                                                                                       gCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCg                                          >  2:172746/1‑150 (MQ=255)                                                                                                               ggCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGaa                                 <  2:371053/151‑1 (MQ=255)                                                                                                               ggCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGaa                                 <  1:455742/151‑1 (MQ=255)                                                                                                                    ctgATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAgtggt                            >  2:470932/1‑151 (MQ=255)                                                                                                                     tgATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAgtggtg                           >  2:542290/1‑151 (MQ=255)                                                                                                                      gATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGa                          <  2:316217/151‑1 (MQ=255)                                                                                                                       aTAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGAc                         <  2:312755/151‑1 (MQ=255)                                                                                                                          aaggCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGGAGTGGTGACCa                       >  1:426498/3‑150 (MQ=255)                                                                                                                           cGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAAt                     <  1:424087/151‑1 (MQ=255)                                                                                                                                        gCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTGAATATCg        >  2:443868/1‑151 (MQ=255)                                                                                                                                               ccTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTGAATATCGCCGGTg  <  1:292440/150‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                CAGAGCATTGGTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGATCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTGAATATCGCCGGTG  >  NC_000913/1903349‑1903640

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑