Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,639,608	G→A	C233C (TGC→TGT)	arcA ←	DNA‑binding transcriptional dual regulator ArcA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,639,608	0	G	A	97.0%	87.1 / ‑4.0	33	C233C (TGC→TGT)	arcA	DNA‑binding transcriptional dual regulator ArcA
Reads supporting (aligned to +/- strand):  ref base G (0/1);  new base A (18/14);  total (18/15)
Fisher's exact test for biased strand distribution p-value = 4.55e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.67e-01

GCTCAACTCTGCCGATAGCGCGCTGTTGTTGGGAACCAGTGTGCTGGTGGTGGCGCTGGCCGGCATGATGTTTGTGACCCGTAATATCGACTGGTATGCGTTTTCACTGCCGAAAATGAAAGCCAGTAAAGAAGTTACAACGGACGATGAGTTACGTATCTGGAAATAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCGCAGAAGCGATAACCTTCACCGTGAATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGCGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGGGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATGGCGCGGAACTCGCTGCGCGGCAGCTTGTACTGCTCGCCATCAGGG  >  NC_000913/4639362‑4639848                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                   gCTCAACTCTGCCGATAGCGCGCTGTTGTTGGGAACCAGTGTGCTGGTGGTGGCGCTGGCCGGCATGATGTTTGTGACTCGTAATATCGACTGGTATGCGTTTTCACTGCCGAAAATGAAAGCCAGTAAAGAAGTTACAATGGACGATCAATTACGTATCTGGAAATAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGa                                                                                                                                                                                                                                                <  1:82751/251‑1 (MQ=255)    cAACTCTGCCGATAGCGCGCTGGTGGTGGGAACCAGTGTGCTGGTGGTGGCGCTGGCCGGCATGATGTTTGTGACTCGTAATATCGACTGGTATGCGTTTTCACTGCCGAAAATGAAAGCCAGTAAAGAAGTTACAATGGACGAACAATTACGTATCTGGAAATAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGc                                                                                                                                                                                                                                             <  1:733/251‑1 (MQ=255)                                   aCCAGTGTGCTGGCGTTTGCGCTGGCCGGCATGATTTTTGTGACTCGTAATATCGACTGGTATGCGTTTTCACTTCCGAAAAGGAAAGCCAGTAAAGAAGTTACAATGGACGATCAATTACGTATCTGGAAATAAGGTTTAAAAATAAAAACGTCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGTGATAACCTTCACCGTGGATGGTGGCgatga                                                                                                                                                                                                               <  1:302611/250‑1 (MQ=255)                                                     gcgcTGGCCGGCATGATGTTTGTGACTCGTAATATCGACTGGTATGCGTTTTCACTGCCGAAAATGAAAGCCAGTAAAGAAGTTACAATGGACGATCAATTACGTATCTGGAAATAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTtccggcgtatccggcgt                                                                                                                                                                                            >  1:307787/1‑251 (MQ=255)                                                                    atgTTTGTGACTCGTAATATCGACTGGTATGCGTTTTCACTGCCGAAAATGAAAGCCAGTAAAGAAGTTACAATGGACGATCAGTTACGTATCTGGAAATAAGGTTGAAAAATAAAA‑CGGCGCTAAAAAGAGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGtttt                                                                                                                                                                            >  2:307759/1‑250 (MQ=255)                                                                               ccGTAATATCGACTGGTATGCGTTTTCACTGCCGAAAATGAAAGCCAGTAAAGAAGTTACAACGGACGATGAGTTACGTATCTGGAAATAAGGTTGAAAATTAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCGCAGAAGCGATAACCTTCACCGTGAATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATAcggc                                                                                                                                                                  <  2:189924/251‑1 (MQ=255)                                                                                    atatCGACTGGTATGCGTTTTCACTGCCGAAAATGAAAGCCAGTAAAGAAGTTACAATGGACGATCAATTACGTATCTGGAAATAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGAAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTCGATTCGAAATGTTTACGAATACGGCGGATc                                                                                                                                                             >  2:412443/1‑251 (MQ=255)                                                                                                  gCGTTTTCACTGCCGAAAATGAAAGCCAGTAAAGAAGTTACAATGGACGATCAATTACGTATCTGGAAATAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAg                                                                                                                                                <  2:124786/250‑1 (MQ=255)                                                                                                                  aaaTGACAGCCAGTAAAGAAGTTACAATGGCCTATCCCTTACGTATCTGGCAATGAGGTTGAAGAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGACGCGATAACCTTCACCGTGGATGGTGGCGATTCTTTCCGGCGTATCCGGCGTAGCTTCGATATGTTTACGGATCCGGCGGCACGTCACGGCTACAGTaaagttgtgtgggttt                                                                                                                               >  2:76371/1‑236 (MQ=255)                                                                                                                        aaGCCAGTAAAGAAGTGACAATGGATGATCAATTACGTATCTGGAAATAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAATCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGa                                                                                                                                                                                         <  1:263024/187‑1 (MQ=255)                                                                                                                           ccAGTAAAGAAGTTACAATGGACGAGCAATTACGTATCTGGAAAGAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGTTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTTGATGGTGGCGATGATTGCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCTTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACgg                                                                                                                      <  1:193828/251‑1 (MQ=255)                                                                                                                                                   atcaattACGTATCTGGAAATAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGAGTAGATTCGAAATGTTTCCGAATACGGCGGATCGTCCCGTCTACAGTACGGTCGTGGGGTTTCAGCTCACGGCGCGG‑CCTTTTCTTCAGCCGTTc                                                                                              >  2:159024/6‑250 (MQ=255)                                                                                                                                                            gTATCTGGAAATAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATCCGGCGGATCGTAACGTATACAGGACGGGCGTGTGGGTTCAGCTAACGGC‑CGGTCAttttttttcgccgttaaacaagagac                                                                                    >  2:457157/1‑229 (MQ=255)                                                                                                                                                                            ttGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCCGTTCAGCACGAGACTGAATTTTGCCTgggg                                                                    >  1:454547/1‑250 (MQ=255)                                                                                                                                                                             tGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGGGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCCGTTCAGCACGAGACTGAATTTTGCCTggggt                                                                   >  1:321264/1‑249 (MQ=255)                                                                                                                                                                                aaaaTAAAAACGGCGCTAAAAAGAGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTCCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTGCTTCAGCAGTTCAGCTCGAGACTGAATTTTGCCTGGGTTTTc                                                                <  2:458224/251‑1 (MQ=255)                                                                                                                                                                                      aaaaCGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCAAGATCACCACAGAAGCGCTAACCTTCACCGTGGATGGTGGCGATGATTTCAGGCGTATCCGGCGTAGATTCGAGATGTTTACGAATACGGCGGATACTCAAGTCTAAAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGGCCTTTTTTTCCGCCGTTCAGCACGAGACTGAATTTTGCCTGGGGTTTCCCAGac                                                          >  2:214464/1‑250 (MQ=255)                                                                                                                                                                                            gcgcTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGTATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAg                                                    <  1:428747/251‑1 (MQ=255)                                                                                                                                                                                            gcgcTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGa                                                      >  1:437562/1‑249 (MQ=255)                                                                                                                                                                                            gcgcTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAg                                                    <  2:25784/251‑1 (MQ=255)                                                                                                                                                                                                  aaaaGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGGGTGGTTTCAGCTCCCGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATggg                                             >  1:45983/1‑250 (MQ=255)                                                                                                                                                                                                   aaaGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATGgcg                                            >  1:253364/1‑251 (MQ=255)                                                                                                                                                                                                        gcCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATGGCGCGGaa                                       <  1:350759/251‑1 (MQ=255)                                                                                                                                                                                                               tttttGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGTAGCGATAACCTTCAACGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGGCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCATCAGTTCAACACGAGACTGTATTTTGCCTGGGTTTTTCCAGAAGTGAAGACTTGG‑GCGGAACTCGCTg                                >  2:373147/1‑251 (MQ=255)                                                                                                                                                                                                               tttttGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATGGCGCGGAACTCGCTg                                >  1:344047/1‑251 (MQ=255)                                                                                                                                                                                                                ttttGACGGTGGTAAAGCCGATTAAACTTCCAGATCACCACATAAGCGAGAACCTTCACCGTGGATTGTGGCGATGATTGCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTGCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATGGCGAGGAACTCGCTg                                <  2:107003/250‑1 (MQ=255)                                                                                                                                                                                                                     aCGGTGGTAAAGCCGATTAATCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACgaga                                                                                     <  1:413133/193‑4 (MQ=255)                                                                                                                                                                                                                                   gATTAATCTTCCAGATCAACACAGAAGCGTTAACCTTCACCGTGGATGGTGGCGATGGTTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATGGTCACGTCTACATTTATGTCGTGTGGGTTTATCTAACGGC‑AGGGCATTTTCTTTAGAAGTTCAGCACGGGAGTGGATTTTGCCTGGGTTTTCACAGATGTGAGT‑CATAGCGCGAAACtagcggacaggaagtttgcatataac            >  2:55671/1‑226 (MQ=255)                                                                                                                                                                                                                                        aTCTTCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATGGCGCGGAACTCGCTGCGCGGCAGCTTGTACTGCTCGCCAt       >  1:365049/1‑251 (MQ=255)                                                                                                                                                                                                                                            tCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCCGTTCAGCACGAGACTGAATTTTGCCTGGGGTTTCACAGAAGTGAAG‑AATGGCGCGGGACTCGCTGcgcgaggttggaaaggcgtcgtgtagggg   >  2:480796/1‑226 (MQ=255)                                                                                                                                                                                                                                            tCCAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATGGCGCGGAACTCGCTGcgcg                            <  1:480796/226‑1 (MQ=255)                                                                                                                                                                                                                                             ccAGATCCCCACAGTAGCGATATCCTTCACCGTGGATGGGGGCGATGATTTCCGGCGTATTCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTCATTTTCGTCAGCAGTTCAGCACGAGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATGGCGCGGAACTCGCTGCGCGGCAGCTTGTACTGCTCGCCATCAgt   <  2:13888/250‑2 (MQ=255)                                                                                                                                                                                                                                             ccAGATCACCACAGAAGCGATAACCTTCACCGTGGATGGTGGCGATGATTTCCGACGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGCCACGTCTACAGTACGGTCGTGTGGTTTCAGCTCACGGC‑CGGTTATTTTCTTCAGCAGTTCAGCACGCGACTGCATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATGGCGCGGCACTCGCTGCGCGGCAGCTTGTACTGCTCGCCACCAggg  >  1:224873/1‑251 (MQ=255)                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                   GCTCAACTCTGCCGATAGCGCGCTGTTGTTGGGAACCAGTGTGCTGGTGGTGGCGCTGGCCGGCATGATGTTTGTGACCCGTAATATCGACTGGTATGCGTTTTCACTGCCGAAAATGAAAGCCAGTAAAGAAGTTACAACGGACGATGAGTTACGTATCTGGAAATAAGGTTGAAAAATAAAAACGGCGCTAAAAAGCGCCGTTTTTTTTGACGGTGGTAAAGCCGATTAATCTTCCAGATCACCGCAGAAGCGATAACCTTCACCGTGAATGGTGGCGATGATTTCCGGCGTATCCGGCGTAGATTCGAAATGTTTACGAATACGGCGGATCGTCACGTCTACAGTACGGTCGTGCGGTTTCAGCTCACGGC‑CGGTCATTTTCTTCAGCAGTTCAGCACGGGACTGAATTTTGCCTGGGTTTTCACAGAAGTGAAG‑CATGGCGCGGAACTCGCTGCGCGGCAGCTTGTACTGCTCGCCATCAGGG  >  NC_000913/4639362‑4639848

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑