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
A13 F1 I2 R1	762	35.5	1545288	95.5%	1475750	117.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,158,581	C→T	T31M (ACG→ATG)	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	4,158,581	0	C	T	100.0%	182.4 / NA	56	T31M (ACG→ATG)	oxyR	oxidative and nitrosative stress transcriptional regulator
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (29/27); total (29/27)

CTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGA  >  NC_000913/4158448‑4158715

cTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTa                                                                                                                                   <  1:557807/139‑1 (MQ=255)

   ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCg                                                                                                                                >  2:103622/1‑139 (MQ=255)

   ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCg                                                                                                                                >  2:187637/1‑139 (MQ=255)

   ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCg                                                                                                                                >  2:64713/1‑139 (MQ=255)

   ccTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCAGCAGATTCCTACCACGTTAGCCAGCCGATGCTTAGCg                                                                                                                                >  2:491324/1‑139 (MQ=255)

     tATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCggg                                                                                                                              >  2:426155/1‑139 (MQ=255)

       tCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCa                                                                                                                            <  2:452917/139‑1 (MQ=255)

       tCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCa                                                                                                                            <  1:682604/139‑1 (MQ=255)

        cGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCaa                                                                                                                           >  2:62121/1‑139 (MQ=255)

                    tCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTCGCATTGGCTGAACACCGCCATTTCCGGCGTGCGGCAGATGCCTGCCACGTAAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTg                                                                                                               <  1:491324/139‑1 (MQ=255)

                             tGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGTCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAg                                                                                                      <  1:251380/139‑1 (MQ=255)

                                     ggatAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGt                                                                                              <  2:469297/139‑1 (MQ=255)

                                       atAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCATGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGa                                                                                            >  1:612845/1‑139 (MQ=255)

                                            gAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTg                                                                                       >  2:450810/1‑139 (MQ=255)

                                             aaTATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGc                                                                                      >  2:187786/1‑139 (MQ=255)

                                                atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGa                                                                                                          <  2:621329/116‑1 (MQ=255)

                                                atTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGa                                                                                                          >  1:621329/1‑116 (MQ=255)

                                                 ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCTTTCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGa                                                                                  >  2:555010/1‑139 (MQ=255)

                                                 ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGc                                                                                                     <  1:58989/120‑1 (MQ=255)

                                                 ttCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGc                                                                                                     >  2:58989/1‑120 (MQ=255)

                                                     tGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGt                                                                                                                     >  2:185767/1‑100 (MQ=255)

                                                     tGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGt                                                                                                                     <  1:185767/100‑1 (MQ=255)

                                                     tGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGGGCgg                                                                              >  2:592524/1‑139 (MQ=255)

                                                       aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCATGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGAc                                                                            <  2:612845/139‑1 (MQ=255)

                                                       aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGAc                                                                            <  2:351554/139‑1 (MQ=255)

                                                       aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGAc                                                                            >  2:336112/1‑139 (MQ=255)

                                                                 ccTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTaaa                                                                  <  1:187637/139‑1 (MQ=255)

                                                                 ccTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTaaa                                                                  <  1:64713/139‑1 (MQ=255)

                                                                  cTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAg                                                                 >  1:142977/1‑139 (MQ=255)

                                                                    ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                                                               >  1:636415/1‑139 (MQ=255)

                                                                    ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                                                               >  1:186679/1‑139 (MQ=255)

                                                                    ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                                                               >  2:443092/1‑139 (MQ=255)

                                                                    ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAgtg                                                               >  1:174325/1‑139 (MQ=255)

                                                                      tggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGtgtt                                                             >  1:657050/1‑139 (MQ=255)

                                                                      tggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGtgtt                                                             >  2:712063/1‑139 (MQ=255)

                                                                           ttGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCa                                                        >  2:461054/1‑139 (MQ=255)

                                                                             ggCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCAcc                                                      <  1:623792/139‑1 (MQ=255)

                                                                             ggCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCAcc                                                      <  1:461054/139‑1 (MQ=255)

                                                                                       cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAg                                                                                 >  1:270162/1‑102 (MQ=255)

                                                                                       cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAg                                                                                 <  2:270162/102‑1 (MQ=255)

                                                                                       cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCa                                                                          >  2:192769/1‑109 (MQ=255)

                                                                                       cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCa                                                                          <  1:192769/109‑1 (MQ=255)

                                                                                       cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGaa                                            >  2:418875/1‑139 (MQ=255)

                                                                                        gCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAAt                                           >  2:185782/1‑139 (MQ=255)

                                                                                              ttCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTa                                                                    >  2:766702/1‑108 (MQ=255)

                                                                                              ttCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTa                                                                    <  1:766702/108‑1 (MQ=255)

                                                                                                     tGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                              <  1:62121/139‑1 (MQ=255)

                                                                                                     tGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                              <  1:426155/139‑1 (MQ=255)

                                                                                                     tGCGGCAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                              <  1:185782/139‑1 (MQ=255)

                                                                                                          cAGATTCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGgc                         <  1:443092/139‑1 (MQ=255)

                                                                                                               tCCTGCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTa                    <  2:142977/139‑1 (MQ=255)

                                                                                                                   gCCACGTTAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGt                <  2:657050/139‑1 (MQ=255)

                                                                                                                          tAGCCAGCCGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGt         <  2:235419/139‑1 (MQ=255)

                                                                                                                           agccagccGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGa                                                                                            >  2:224135/1‑55 (MQ=255)

                                                                                                                           agccagccGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGa                                                                                            <  1:224135/55‑1 (MQ=255)

                                                                                                                                gccGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTg   >  2:1274/1‑139 (MQ=255)

                                                                                                                                 ccGATGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGa  <  1:10717/139‑1 (MQ=255)

CTACCTATCGCCATGAACTATCGTGGCGATGGAGGATGGATAATGAATATTCGTGATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGA  >  NC_000913/4158448‑4158715

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A