Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,158,617	T→C	L43P (CTG→CCG)	oxyR →	oxidative and nitrosative stress transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,158,617	0	T	C	100.0%	191.8 / NA	52	L43P (CTG→CCG)	oxyR	oxidative and nitrosative stress transcriptional regulator
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (24/28); total (24/28)

ATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCAAGCCAGCAGGGCGAGAC  >  NC_000913/4158483‑4158752

atggatAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGc                                                                                                                                     >  2:702522/1‑139 (MQ=255)

  ggatAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGt                                                                                                                                   <  1:801086/139‑1 (MQ=255)

    atAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGa                                                                                                                                 >  2:237420/1‑139 (MQ=255)

          aaTATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGc                                                                                                                           >  1:81309/1‑139 (MQ=255)

             atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTgg                                                                                                                        >  1:926858/1‑139 (MQ=255)

             atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTgg                                                                                                                        >  2:1039471/1‑139 (MQ=255)

             atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTgg                                                                                                                        >  2:870177/1‑139 (MQ=255)

              ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGa                                                                                                                       >  1:453180/1‑139 (MQ=255)

              ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGa                                                                                                                       >  2:93940/1‑139 (MQ=255)

              ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGa                                                                                                                       >  2:94539/1‑139 (MQ=255)

              ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGa                                                                                                                       >  2:1015851/1‑139 (MQ=255)

               tCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAg                                                                                                                      >  2:451281/1‑139 (MQ=255)

                cGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGc                                                                                                                     >  1:980160/1‑139 (MQ=255)

                    aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGAc                                                                                                                 <  2:926858/139‑1 (MQ=255)

                      cTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGt                                                                                                                                   <  2:995240/119‑1 (MQ=255)

                      cTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGt                                                                                                                                   >  1:995240/1‑119 (MQ=255)

                       ttGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAg                                                                                                              <  1:1039471/139‑1 (MQ=255)

                        tGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAg                                                                                                              >  2:635015/1‑138 (MQ=255)

                        tGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAg                                                                                                              <  1:635015/138‑1 (MQ=255)

                         gAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGGAAATTCGTAAGCTGGAAGATGACCCGGGCGTGATGTTGCTGGAGCGGACCATcc                                                                                                            >  2:53701/1‑139 (MQ=255)

                               cTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAg                                                                                                      <  1:1015851/139‑1 (MQ=255)

                               cTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAg                                                                                                      >  2:1040705/1‑139 (MQ=255)

                                tggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgt                                                                                                     <  1:870177/139‑1 (MQ=255)

                                 ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACTCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                                                                                                    >  1:811589/1‑139 (MQ=255)

                                  gtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtgt                                                                                                   >  2:177045/1‑139 (MQ=255)

                                        ttGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCa                                                                                             >  2:905828/1‑139 (MQ=255)

                                            cTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCa                                                                                         <  2:335808/139‑1 (MQ=255)

                                                      ccATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAAtg                                                                               <  1:93940/139‑1 (MQ=255)

                                                         ttttCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAAtgctg                                                                            >  2:340774/1‑139 (MQ=255)

                                                             cGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCtgg                                                                        <  1:905828/139‑1 (MQ=255)

                                                              ggCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAAtg                                                                               <  2:962499/131‑1 (MQ=255)

                                                              ggCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAAtg                                                                               >  1:962499/1‑131 (MQ=255)

                                                                  tGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCTAGGCGGGAATGCTGCTGGTGGAt                                                                   <  1:783926/139‑1 (MQ=255)

                                                                  tGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                                                                   <  1:368925/139‑1 (MQ=255)

                                                                  tGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                                                                   <  2:359799/139‑1 (MQ=255)

                                                                  tGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                                                                   <  2:848409/139‑1 (MQ=255)

                                                                  tGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                                                                   <  2:684898/139‑1 (MQ=255)

                                                                    cGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGcc                                                                                                            <  2:951043/96‑1 (MQ=255)

                                                                    cGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGcc                                                                                                            >  1:951043/1‑96 (MQ=255)

                                                                    cGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCa                                                                 <  2:980160/139‑1 (MQ=255)

                                                                       cAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGgc                                                              <  2:418084/139‑1 (MQ=255)

                                                                                 ccACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGtg                                                    <  1:836940/139‑1 (MQ=255)

                                                                                                 aCGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAg                                    <  1:633801/139‑1 (MQ=255)

                                                                                                  cGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGt                                   <  1:99728/139‑1 (MQ=255)

                                                                                                            gCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                                                                   >  2:871105/1‑97 (MQ=255)

                                                                                                            gCAAATTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                                                                   <  1:871105/97‑1 (MQ=255)

                                                                                                                aTTCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATgg                     <  1:914093/139‑1 (MQ=255)

                                                                                                                 ttCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGc                    <  1:177045/139‑1 (MQ=255)

                                                                                                                  tCGTAAGCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCa                   <  2:811589/139‑1 (MQ=255)

                                                                                                                        gCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGt                                              >  1:992782/1‑106 (MQ=255)

                                                                                                                        gCTGGAAGATGAGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGt                                              <  2:992782/106‑1 (MQ=255)

                                                                                                                                   aGCCGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCAAGCCAGCAGGGCGAGAc  <  2:453180/139‑1 (MQ=255)

ATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCAAGCCAGCAGGGCGAGAC  >  NC_000913/4158483‑4158752

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A