Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	70,918	C→T	6.9%	R178W (CGG→TGG)	araC →	ara regulon transcriptional activator; autorepressor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	70,918	0	C	T	6.9%	183.5 / 3.1	58	R178W (CGG→TGG)	araC	ara regulon transcriptional activator; autorepressor
Reads supporting (aligned to +/- strand):  ref base C (27/26);  new base T (2/2);  total (30/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01

TTCAGCGACCTGTTTGGGCAAATCATTAACGCCGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCGCCAGCAGTTAGGGATTAGCGTCTTAAGC  >  NC_000913/70774‑71061                                                                                                                                                 |                                                                                                                                                ttCAGCGACCTGTTTGGGCAAATCATTAACGCCGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCggg                                                                                                                                              >  1:145227/1‑148 (MQ=255) ttCAGCGACCTGTTTGGGCAAATCATTAACGCCGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCggg                                                                                                                                              >  6:348762/1‑148 (MQ=255)   cAGCGACCTGGTTGTGCAAATCATTATCGCCGGGCACGGGGAAGGGCTCTATTCGGAGCTGAGGGCGTTAAATCTGCTTGAGCATTTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCAATCCACCGATGGATAATCGGGt                                                                                                                                             <  6:342073/147‑1 (MQ=255)       gACCTGTTTGGGCAAATCATTAACGCCGGGCTAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATATCTCTGCTTGAGCAATTGGTTCTGCGGCGCATGGAAGCGATTAACGAGGCGCTCCATCCACCGATGGATAATCGGGTAcgcg                                                                                                                                        <  3:101427/148‑1 (MQ=255)       gACCTGTTTGGGCAAATCATTAACGCCGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTAcgcg                                                                                                                                        <  2:145227/148‑1 (MQ=255)                 ggCAAATCATTAACGCCGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGATTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTc                                                                                                                               <  5:302424/147‑1 (MQ=255)                          ttAACGCCGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAg                                                                                                                     >  5:293874/1‑148 (MQ=255)                           tAACGCCGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGc                                                                                                                    >  4:227650/1‑148 (MQ=255)                           tAACGCCGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATAGGGTACGCGAGGCTTGTCAGTACATCAGc                                                                                                                    >  7:345911/1‑148 (MQ=255)                             aCGCCGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGa                                                                                                                  <  3:155205/148‑1 (MQ=255)                                ccGGGGAAGGGGAAGGGCGAATAGCTGAGCTGCTGGCGATACATCTGCGTGTGCATCTGTAACTGCGGCTCATGGAAGCGATTAAAGAGTCTCTCCATCCACGTATGTATAATCGTGTACGAGAGGCTTTTCAGTACATCAGCGATCa                                                                                                               <  6:373575/148‑1 (MQ=255)                                ccGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCa                                                                                                               >  4:343801/1‑148 (MQ=255)                                ccGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCa                                                                                                               >  4:64271/1‑148 (MQ=255)                                       aGGGGAAGGGCGCTATTCGGATCTGCTGGCGATAAATCTGCTTTATCATTTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCTATCACCTGGCa                                                                                                        <  8:345911/148‑1 (MQ=255)                                          ggAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTAcgcg                                                                                                                                        <  6:370960/113‑1 (MQ=255)                                          ggAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTAcgcg                                                                                                                                        >  5:370960/1‑113 (MQ=255)                                          ggAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGAc                                                                                                     <  3:64271/148‑1 (MQ=255)                                            aaGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAg                                                                                                   >  2:105441/1‑148 (MQ=255)                                                 cgcTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAAtt                                                                                              <  5:320193/148‑1 (MQ=255)                                                    tATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTAcgcg                                                                                                                                        >  8:159424/1‑103 (MQ=255)                                                    tATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTAcgcg                                                                                                                                        <  7:159424/103‑1 (MQ=255)                                                     aTTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGa                                                                                          >  6:379340/1‑148 (MQ=255)                                                      ttCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGat                                                                                         <  5:348762/148‑1 (MQ=255)                                                      ttCGGAGCGGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGGCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTg                                                                                           <  8:104396/146‑1 (MQ=255)                                                        cGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGata                                                                                        <  3:343801/147‑1 (MQ=255)                                                                      aTAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGcac                                                                         <  2:392302/148‑1 (MQ=255)                                                                       tAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGca                                                                          >  1:153831/1‑146 (MQ=255)                                                                               cTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCAt                                                                    <  1:405208/144‑1 (MQ=255)                                                                                 tGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGc                                                              >  1:314840/1‑148 (MQ=255)                                                                                   aGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCt                                                                                                                                   >  1:253395/1‑77 (MQ=255)                                                                                   aGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCt                                                                                                                                   <  2:253395/77‑1 (MQ=255)                                                                                        ttGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATTGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGc                                                       >  3:362539/1‑148 (MQ=255)                                                                                        ttGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATTGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGc                                                       >  3:356967/1‑148 (MQ=255)                                                                                        ttGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGc                                                       <  5:379340/148‑1 (MQ=255)                                                                                                    cgcATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGt                                           <  2:314840/148‑1 (MQ=255)                                                                                                     gcATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATTGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTc                                          <  4:356967/148‑1 (MQ=255)                                                                                                     gcATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATTGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTc                                          <  4:362539/148‑1 (MQ=255)                                                                                                         ggAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACAt                                      >  8:232905/1‑148 (MQ=255)                                                                                                                 ttAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCg                              >  7:269235/1‑148 (MQ=255)                                                                                                                 ttAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCg                              >  7:66351/1‑148 (MQ=255)                                                                                                                 ttAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCg                              >  7:96666/1‑148 (MQ=255)                                                                                                                 ctAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCg                              <  3:163078/147‑1 (MQ=255)                                                                                                                     cGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTg                                                                                                           >  1:203560/1‑67 (MQ=255)                                                                                                                     cGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTg                                                                                                           <  2:203560/67‑1 (MQ=255)                                                                                                                           gCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCGCCAGCAGTTa                    <  7:232905/148‑1 (MQ=255)                                                                                                                             tccatccaCCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCa                                                                                                 <  3:165935/69‑1 (MQ=255)                                                                                                                             tccatccaCCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCa                                                                                                 >  4:165935/1‑69 (MQ=255)                                                                                                                               catccaCCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCGCCAGCAGTTAGGGa                >  1:365775/1‑148 (MQ=255)                                                                                                                                atccaCCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCGCCAGCAGTTAGGGAt               >  4:325490/1‑148 (MQ=255)                                                                                                                                  ccaCCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCGCCAGCAGtt                     >  4:132975/1‑140 (MQ=255)                                                                                                                                  ccaCCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCGCCAGCAGtt                     <  3:132975/140‑1 (MQ=255)                                                                                                                                  ccaCCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCGCCAGCAGTTAGGGAt               >  7:201049/1‑146 (MQ=255)                                                                                                                                     ccGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGcc                                                                                   >  2:4825/1‑75 (MQ=255)                                                                                                                                     ccGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGcc                                                                                   <  1:4825/75‑1 (MQ=255)                                                                                                                                       gATGGATAATCGGGTACGCGAGGCTTGTCAGTACACCAGCGATCACCTGGCAGACAGCAATTTTGa                                                                                          >  7:400961/1‑66 (MQ=255)                                                                                                                                       gATGGATAATCGGGTACGCGAGGCTTGTCAGTACACCAGCGATCACCTGGCAGACAGCAATTTTGa                                                                                          <  8:400961/66‑1 (MQ=255)                                                                                                                                        aTGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCGCCAGCAGTTAGGGATTAGCGTCt       >  4:213347/1‑148 (MQ=255)                                                                                                                                             tAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCGCCAGCAGTTAGGGATTAGCGTCTTAAGc  >  2:126853/1‑148 (MQ=255)                                                                                                                                                 |                                                                                                                                                TTCAGCGACCTGTTTGGGCAAATCATTAACGCCGGGCAAGGGGAAGGGCGCTATTCGGAGCTGCTGGCGATAAATCTGCTTGAGCAATTGTTACTGCGGCGCATGGAAGCGATTAACGAGTCGCTCCATCCACCGATGGATAATCGGGTACGCGAGGCTTGTCAGTACATCAGCGATCACCTGGCAGACAGCAATTTTGATATCGCCAGCGTCGCACAGCATGTTTGCTTGTCGCCGTCGCGTCTGTCACATCTTTTCCGCCAGCAGTTAGGGATTAGCGTCTTAAGC  >  NC_000913/70774‑71061

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑