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
A5 F1 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,426,288	G→A	intergenic (+206/‑166)	ydaY → / → tmpR	pseudogene, Rac prophage,Phage or Prophage Related/Rac prophage, pseudogene, tail protein family,Phage or Prophage Related, putative alpha helix protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,426,288	0	G	A	100.0%	181.0 / NA	56	intergenic (+206/‑166)	ydaY/tmpR	pseudogene, Rac prophage,Phage or Prophage Related/Rac prophage, pseudogene, tail protein family,Phage or Prophage Related, putative alpha helix protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (26/30); total (26/30)

CTGGGGTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAGTTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGG  >  NC_000913/1426152‑1426423

cTGGGGTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAatt                                                                                                                                       <  1:17368/139‑1 (MQ=255)

cTGGGGTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGCGTGTGTAatt                                                                                                                                       >  1:461602/1‑139 (MQ=255)

    ggTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTa                                                                                                                                   <  1:1028222/139‑1 (MQ=255)

             gcctttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTac                                                                                                                          >  2:583675/1‑139 (MQ=255)

              cctttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                                         <  1:410083/139‑1 (MQ=255)

              cctttAGCTCTGAAAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                                         <  1:1209129/139‑1 (MQ=255)

                        tGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACa                                                                                                               <  1:583675/139‑1 (MQ=255)

                         gACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACag                                                                                                              <  2:426083/139‑1 (MQ=255)

                         gACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACag                                                                                                              <  2:183891/139‑1 (MQ=255)

                         gACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACag                                                                                                              <  1:992669/139‑1 (MQ=255)

                              agaTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAattgt                                                                                                                                     <  2:405317/111‑1 (MQ=255)

                              agaTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAattgt                                                                                                                                     >  1:405317/1‑111 (MQ=255)

                              agaTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtg                                                                                                         >  1:196746/1‑139 (MQ=255)

                              agaTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtg                                                                                                         >  2:1156880/1‑139 (MQ=255)

                              agaTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtg                                                                                                         >  1:947135/1‑139 (MQ=255)

                                aTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtgtg                                                                                                       >  2:978526/1‑139 (MQ=255)

                                 tAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGCGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGa                                                                                                      <  2:461602/139‑1 (MQ=255)

                                   aaTGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATg                                                                                                    <  2:947135/139‑1 (MQ=255)

                                    aTGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATgg                                                                                                   <  1:978526/139‑1 (MQ=255)

                                        atatTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACa                                                                                                               <  1:979306/123‑1 (MQ=255)

                                        atatTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACa                                                                                                               >  2:979306/1‑123 (MQ=255)

                                                    tCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATc                                                                                   >  1:553510/1‑139 (MQ=255)

                                                    tCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATc                                                                                   >  1:910963/1‑139 (MQ=255)

                                                     cATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCg                                                                                  >  1:177879/1‑139 (MQ=255)

                                                      aTCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCga                                                                                 >  1:244662/1‑139 (MQ=255)

                                                       tCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgat                                                                                <  2:553510/139‑1 (MQ=255)

                                                           gTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTTAATCGatgatg                                                                            <  2:389005/139‑1 (MQ=255)

                                                                gattgaGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTa                                                                                                                 <  1:1197644/97‑1 (MQ=255)

                                                                gattgaGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTa                                                                                                                 >  2:1197644/1‑97 (MQ=255)

                                                                gattgaGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCt                                                                       >  2:646546/1‑139 (MQ=255)

                                                                 attgaGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGa                                                                                                      >  1:1062126/1‑107 (MQ=255)

                                                                 attgaGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGa                                                                                                      <  2:1062126/107‑1 (MQ=255)

                                                                      gcgcGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGaa                                                                 <  2:910963/139‑1 (MQ=255)

                                                                           aTGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACag                                                                                                              <  1:689808/89‑1 (MQ=255)

                                                                           aTGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACag                                                                                                              >  2:689808/1‑89 (MQ=255)

                                                                                tttGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCg                                                       <  2:1017014/139‑1 (MQ=255)

                                                                                          tGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtgtg                                                                                                       >  1:204290/1‑81 (MQ=255)

                                                                                          tGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtgtg                                                                                                       <  2:204290/81‑1 (MQ=255)

                                                                                          tGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTa                                             <  1:1156880/139‑1 (MQ=255)

                                                                                          tGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTa                                             >  2:653247/1‑139 (MQ=255)

                                                                                             tCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATc                                          <  2:177879/139‑1 (MQ=255)

                                                                                                ttGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCt                                       <  1:646546/139‑1 (MQ=255)

                                                                                                  gCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCtat                                     <  2:196746/139‑1 (MQ=255)

                                                                                                   cACTGGATGACCAGTATTTTCAGGAGAAGTGTGTGTAATTGTTCATTACGTACACTCGGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCtata                                    >  1:924228/1‑139 (MQ=255)

                                                                                                        gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACAct                                                                                                                       >  1:583023/1‑51 (MQ=255)

                                                                                                        gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACAct                                                                                                                       <  2:583023/51‑1 (MQ=255)

                                                                                                        gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACa                                                                                                               >  2:299278/1‑59 (MQ=255)

                                                                                                        gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACa                                                                                                               <  1:299278/59‑1 (MQ=255)

                                                                                                        gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATc                                          >  1:499683/1‑128 (MQ=255)

                                                                                                        gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATc                                          <  2:499683/128‑1 (MQ=255)

                                                                                                        gATGACCAGTATTTTCAGAAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATctac                               >  1:676793/1‑139 (MQ=255)

                                                                                                        gATGACCAGTATTCTCAGGAGCAGTGTGTGTAATTGTTACTTACGTACACTCTGTTACAGAGCGGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGAAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATctac                               >  1:1072703/1‑139 (MQ=255)

                                                                                                           gACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACtat                            >  2:297898/1‑139 (MQ=255)

                                                                                                               aGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATg                        <  2:244662/139‑1 (MQ=255)

                                                                                                                  aTTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCg                     >  2:405216/1‑139 (MQ=255)

                                                                                                                        aGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCt                                       <  2:460650/115‑1 (MQ=255)

                                                                                                                        aGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCt                                       >  1:460650/1‑115 (MQ=255)

                                                                                                                           aGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCtat                                     >  2:727750/1‑114 (MQ=255)

                                                                                                                           aGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCtat                                     <  1:727750/114‑1 (MQ=255)

                                                                                                                                     gtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCgg  <  1:297898/139‑1 (MQ=255)

CTGGGGTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAGTTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGG  >  NC_000913/1426152‑1426423

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A