Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,558,057	A→T	I78N (ATC→AAC)	hypT ←	DNA‑binding transcriptional dual regulator HypT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,558,057	0	A	T	100.0%	175.0 / NA	50	I78N (ATC→AAC)	hypT	DNA‑binding transcriptional dual regulator HypT
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (26/24);  total (26/24)

TGGACGGTAACAGCCCGAGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGAT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGCCGGTTGCGAGACGTTGCGACTG  >  NC_000913/4557935‑4558191                                                                                                                           |                                                                                                                                        tGGACGGTAACAGCCCGAGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGAtt                                                                                                                       <  1:1030831/140‑1 (MQ=255)   gACGGTAACAGCCCGAGGGAAAGAGAGTGTGCATCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGAtttt                                                                                                                     >  1:144771/1‑140 (MQ=255)       gTAACAGCCCGAGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCt                                                                                                                 >  1:329422/1‑140 (MQ=255)        tAACAGCCCGAGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCtt                                                                                                                >  1:686256/1‑140 (MQ=255)           cAGCCCGAGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGtt                                                                                                             <  1:368789/140‑1 (MQ=255)                cGAGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTgag                                                                                                        <  2:697148/140‑1 (MQ=255)                  aGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTccc                                                                                                                  >  2:31959/1‑128 (MQ=255)                  aGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTccc                                                                                                                  <  1:31959/128‑1 (MQ=255)                  aGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGagag                                                                                                      >  1:70782/1‑140 (MQ=255)                  aGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGagag                                                                                                      >  1:62611/1‑140 (MQ=255)                  aGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGagag                                                                                                      >  2:202724/1‑140 (MQ=255)                   gggAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGt                                                                                                     <  1:329689/140‑1 (MQ=255)                       aaGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCa                                                                                                 <  1:161713/140‑1 (MQ=255)                             gtgtGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAgcggcg                                                                                           <  2:600370/140‑1 (MQ=255)                              tgtgCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGt                                                                                          >  2:294353/1‑140 (MQ=255)                              tgtgCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGt                                                                                          >  1:646154/1‑140 (MQ=255)                              tgtgCAGCGGCTATCTTGATTTTTCGTTGCGCGT‑ATCGCCGCCGCCACCCAGCTCCGCCAGATTGCTCTCTTAATGTTGCAACAAGTGGCGGGTCCTCGGATTGGAAGTTTTTCCCTGGTTTTGAGGGTT‑CCgcggcggt                                                                                         >  2:1056032/1‑138 (MQ=255)                                tgCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTa                                                                                        >  1:146896/1‑140 (MQ=255)                                      ggCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGc                                                                                  <  2:146896/140‑1 (MQ=255)                                       gCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCg                                                                                 >  2:243576/1‑140 (MQ=255)                                        cTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCgg                                                                                >  2:442483/1‑140 (MQ=255)                                        cTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCgg                                                                                <  2:397254/140‑1 (MQ=255)                                        cTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCgg                                                                                <  2:92656/140‑1 (MQ=255)                                        cTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTACAGCGGCGTTACCTGGCgg                                                                                >  2:647637/1‑140 (MQ=255)                                          aTCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGtt                                                                              >  2:64709/1‑140 (MQ=255)                                             ttGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTaaa                                                                           <  1:442483/140‑1 (MQ=255)                                             ttGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTaaa                                                                           <  1:294353/140‑1 (MQ=255)                                             ttGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTaaa                                                                           <  2:329422/140‑1 (MQ=255)                                             ttGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTaaa                                                                           <  2:339654/140‑1 (MQ=255)                                               gATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACa                                                                         >  2:761185/1‑140 (MQ=255)                                                   tttCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTACAGCGGCGTTACCTGGCGGTTAAACAATTc                                                                     <  1:647637/140‑1 (MQ=255)                                                               tAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCTGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGc                                                         <  1:245155/140‑1 (MQ=255)                                                               tAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGc                                                         <  1:761185/140‑1 (MQ=255)                                                                aaTCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGcc                                                        <  2:1048338/140‑1 (MQ=255)                                                                     cTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTc                                                   >  2:284526/1‑140 (MQ=255)                                                                       gccgccACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATc                                                           <  1:753139/130‑1 (MQ=255)                                                                       gccgccACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATc                                                           >  2:753139/1‑130 (MQ=255)                                                                        ccgccACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAg                                                >  2:756032/1‑140 (MQ=255)                                                                                             ttGCTCTCTAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGaa                           >  1:1047217/1‑140 (MQ=255)                                                                                                ctctctAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGc                        >  2:309611/1‑140 (MQ=255)                                                                                                 tctctAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGcc                       <  1:756032/140‑1 (MQ=255)                                                                                                  ctctAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGTGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGc                        <  2:59552/138‑1 (MQ=255)                                                                                                  ctctAACTGTTGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGTGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGc                        >  1:59552/1‑138 (MQ=255)                                                                                                            tGCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGCCGGTTGCgagcc            >  2:675735/1‑138 (MQ=255)                                                                                                             gCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGCCGGTTGCGAGACg           >  1:792232/1‑140 (MQ=255)                                                                                                             gCAACAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGCCGGTTGCGAGACg           <  1:19897/140‑1 (MQ=255)                                                                                                                aCAGATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGCCGGTTGCGAGACGTTg        <  1:850336/140‑1 (MQ=255)                                                                                                                   gATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGCCGGTTGCGAGACGTTGCga     >  2:184043/1‑140 (MQ=255)                                                                                                                   gATGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGCCGGTTGCGAGACGTTGCga     >  1:20643/1‑140 (MQ=255)                                                                                                                    aTGGCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGCCGGTTGCGAGACGTTGCgac    <  2:792232/140‑1 (MQ=255)                                                                                                                      ggCGGTT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGCCGGTTGCGAGACGTTGCgactg  >  1:450504/1‑140 (MQ=255)                                                                                                                           |                                                                                                                                        TGGACGGTAACAGCCCGAGGGAAAGAGAGTGTGCAGCGGCTATCTTGATTTTTCGTTGCGCGTAATCGCTGCCGCCACGCAGCTCTGCCAGATTGCTCTCTAACTGTTGCAACAGATGGCGGAT‑CTGCGAATGGAAGATTTTCCCTTGTTCTGAGAGTTGCAGCGGCGTTACCTGGCGGTTAAACAATTCAACACCAATCGCCTGTTCCAGCGCACGGATGCGGCGGCTGAATGCCGGTTGCGAGACGTTGCGACTG  >  NC_000913/4557935‑4558191

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑