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
A1 F1 I1 R1	773	79.9	4112934	92.2%	3792125	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,263,255	A→G	R82R (CGT→CGC)	lolB ←	lipoprotein localization factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,263,255	0	A	G	100.0%	240.5 / NA	67	R82R (CGT→CGC)	lolB	lipoprotein localization factor
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (31/36); total (31/36)

GGTCAATTTGCCAATCATCTCTTCGGCGTCATCGGCGGTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCTTGCTGATGCTGACGCCATT  >  NC_000913/1263123‑1263388

ggTCAATTTGCCAATCATCTCTTCGGCGTCATCGGCGGTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAg                                                                                                                                 <  1:1086454/139‑1 (MQ=255)

         gCCAATCATCTCTTCGGCGTCATCGGCGGTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTgg                                                                                                                        >  2:1049488/1‑139 (MQ=255)

           cAATCATCTCTTCGGCGTCATCGGCGGTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGcc                                                                                                                      <  1:305487/139‑1 (MQ=255)

                            tCATCGGCGGTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCATTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGAt                                                                                                                             >  1:1691433/1‑115 (MQ=255)

                            tCATCGGCGGTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGAt                                                                                                                             <  2:1691433/115‑1 (MQ=255)

                              aTCGGCGGTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAg                                                                                                   <  1:1049488/139‑1 (MQ=255)

                              aTCGGCGGTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAg                                                                                                   <  2:1021488/139‑1 (MQ=255)

                                 ggcggTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCgg                                                                                                <  1:1346638/139‑1 (MQ=255)

                                     gTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGt                                                                                            <  2:1066669/139‑1 (MQ=255)

                                        taACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTaca                                                                                         <  2:511306/139‑1 (MQ=255)

                                               gACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTttg                                                                                  <  1:738345/139‑1 (MQ=255)

                                                aCCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTttgt                                                                                 >  1:1371129/1‑139 (MQ=255)

                                                     tATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAAGGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTc                                                                            >  1:1134968/1‑139 (MQ=255)

                                                          tCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGaaa                                                                       >  2:1999441/1‑139 (MQ=255)

                                                          tCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTACGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGaaa                                                                       >  2:529911/1‑139 (MQ=255)

                                                            gACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGtt                                                                                                                  <  1:1239389/94‑1 (MQ=255)

                                                            gACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGtt                                                                                                                  >  2:1239389/1‑94 (MQ=255)

                                                                    gCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGGCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGaa                                                             <  2:89863/139‑1 (MQ=255)

                                                                       cGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGTCGGTTTGCTGCCAGAAAAAGCGGGCGt                                                                                            >  1:10339/1‑105 (MQ=255)

                                                                       cGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGTCGGTTTGCTGCCAGAAAAAGCGGGCGt                                                                                            <  2:10339/105‑1 (MQ=255)

                                                                        gTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAAcgcg                                                         >  2:1945583/1‑139 (MQ=255)

                                                                           aCCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTa                                                                                                                                  >  2:793058/1‑63 (MQ=255)

                                                                           aCCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTa                                                                                                                                  <  1:793058/63‑1 (MQ=255)

                                                                           aCCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCa                                                                           >  1:1992037/1‑118 (MQ=255)

                                                                           aCCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCa                                                                           <  2:1992037/118‑1 (MQ=255)

                                                                            cccGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGATATATAAGCGAACGcgccgc                                                     <  2:1371129/139‑1 (MQ=255)

                                                                            cccGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccgc                                                     <  1:1139375/139‑1 (MQ=255)

                                                                                gTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGt                                                 <  1:1945583/139‑1 (MQ=255)

                                                                                gTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGt                                                 <  1:1999441/139‑1 (MQ=255)

                                                                                    aGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGa                                             >  2:166409/1‑139 (MQ=255)

                                                                                      cATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATa                                           >  2:1544498/1‑139 (MQ=255)

                                                                                      cATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATa                                           <  2:1969664/139‑1 (MQ=255)

                                                                                      cATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATa                                           <  2:1134968/139‑1 (MQ=255)

                                                                                        ttCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACt                                         >  2:1646373/1‑139 (MQ=255)

                                                                                         tCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccgc                                                     >  1:569763/1‑126 (MQ=255)

                                                                                         tCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccgc                                                     <  2:569763/126‑1 (MQ=255)

                                                                                           aGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATc                                                                                                                            <  1:1646398/53‑1 (MQ=255)

                                                                                           aGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATc                                                                                                                            >  2:1646398/1‑53 (MQ=255)

                                                                                           aGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccgc                                                     <  2:1556469/124‑1 (MQ=255)

                                                                                           aGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccgc                                                     >  1:1556469/1‑124 (MQ=255)

                                                                                                  gTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGAtt                               >  2:1285960/1‑139 (MQ=255)

                                                                                                   ttCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccgc                                                     <  2:1239370/116‑1 (MQ=255)

                                                                                                   ttCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccgc                                                     >  1:1239370/1‑116 (MQ=255)

                                                                                                        tgctgcCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccgc                                                     >  1:1610908/1‑111 (MQ=255)

                                                                                                        tgctgcCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccgc                                                     <  2:1610908/111‑1 (MQ=255)

                                                                                                        tgctgcCCAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCAc                         >  2:463787/1‑139 (MQ=255)

                                                                                                             cccAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTtg                                                                                                                <  1:1154951/47‑1 (MQ=255)

                                                                                                             cccAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTtg                                                                                                                >  2:1154951/1‑47 (MQ=255)

                                                                                                             cccAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccg                                                      >  2:132265/1‑105 (MQ=255)

                                                                                                             cccAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGcgccg                                                      <  1:132265/105‑1 (MQ=255)

                                                                                                             cccAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCtt                    >  1:708168/1‑139 (MQ=255)

                                                                                                               cAATGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCTtgc                  >  1:425993/1‑139 (MQ=255)

                                                                                                                 aTGGGTTAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCTtgctg                <  2:708168/139‑1 (MQ=255)

                                                                                                                      ttAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCTtgctgatgct           <  1:1285960/139‑1 (MQ=255)

                                                                                                                      ttAGTGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCTtgctgatgct           <  1:1544498/139‑1 (MQ=255)

                                                                                                                          tGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCTtgctg                >  1:158123/1‑130 (MQ=255)

                                                                                                                          tGAGCAGCAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCTtgctg                <  2:158123/130‑1 (MQ=255)

                                                                                                                            agcagcAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAg                                                                                                   >  2:1877729/1‑45 (MQ=255)

                                                                                                                            agcagcAGGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAg                                                                                                   <  1:1877729/45‑1 (MQ=255)

                                                                                                                              cagcagGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTac                                                                                          <  2:262607/52‑1 (MQ=255)

                                                                                                                              cagcagGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTac                                                                                          >  1:262607/1‑52 (MQ=255)

                                                                                                                              cagcagGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTc                                                                            <  2:1810548/66‑1 (MQ=255)

                                                                                                                              cagcagGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTc                                                                            >  1:1810548/1‑66 (MQ=255)

                                                                                                                               agcagGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCTTGCTGATGCTGACGCCAtt  >  2:176224/1‑139 (MQ=255)

                                                                                                                               agcagGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCTTGCTGATGCTGACGCCAtt  <  1:1646373/139‑1 (MQ=255)

                                                                                                                                 cagGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGt                                                                                            <  1:957468/47‑1 (MQ=255)

                                                                                                                                 cagGCGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGt                                                                                            >  2:957468/1‑47 (MQ=255)

GGTCAATTTGCCAATCATCTCTTCGGCGTCATCGGCGGTATAACGCTGACCTTTATTGTCGACTAACTGCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTTGGTCAGAAATATAAGCGAACGCGCCGCGAGTCTGATACTGATTAAGATTGCGCACGTCTTGCTGATGCTGACGCCATT  >  NC_000913/1263123‑1263388

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A