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
A7 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,905,805	G→A	G40S (GGC→AGC)	mntP →	putative Mn(2+) efflux pump, mntR‑regulated

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,905,805	0	G	A	100.0%	204.3 / NA	65	G40S (GGC→AGC)	mntP	putative Mn(2+) efflux pump, mntR‑regulated
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (33/32); total (33/32)

CCCGGTCAGGACATTGTCATGAATATCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCGGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCGGCGGGCG  >  NC_000913/1905670‑1905935

cccGGTCAGGACATTGTCATGAATATCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGcc                                                                                                                                 <  1:933685/139‑1 (MQ=255)

    gTCAGGACATTGTCATGAATATCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTAt                                                                                                                             >  1:1224677/1‑139 (MQ=255)

    gTCAGGACATTGTCATGAATATCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTAt                                                                                                                             >  1:314605/1‑139 (MQ=255)

             ttGTCATGAATATCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGc                                                                                                                    <  2:1224677/139‑1 (MQ=255)

                   tGAATATCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGa                                                                                                              >  1:334827/1‑139 (MQ=255)

                       tatCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAAcc                                                                                                          >  1:568610/1‑139 (MQ=255)

                          cACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAGACCCTg                                                                                                       >  2:1466705/1‑139 (MQ=255)

                          cACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTg                                                                                                       >  1:56802/1‑139 (MQ=255)

                               cTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGAcgcc                                                                                                  >  1:1034555/1‑139 (MQ=255)

                               cTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGAcgcc                                                                                                  >  1:979730/1‑139 (MQ=255)

                                     ttcttcTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                            <  2:979730/139‑1 (MQ=255)

                                     ttcttcTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                            <  2:568610/139‑1 (MQ=255)

                                       cttcttGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCGGCTGATCg                                                                                          >  2:933613/1‑139 (MQ=255)

                                       cttcttGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCg                                                                                          >  2:710302/1‑139 (MQ=255)

                                       cttcttGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCg                                                                                          >  1:305830/1‑139 (MQ=255)

                                             gCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTggg                                                                                    >  2:1210314/1‑139 (MQ=255)

                                               gTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGa                                                                                  >  1:440083/1‑139 (MQ=255)

                                                  tGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATg                                                                               <  1:1210314/139‑1 (MQ=255)

                                                            atggatgCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTag                                                                     >  1:800034/1‑139 (MQ=255)

                                                             tggatgCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGAATTGCGAACCAGCCTTATTTTTGGTGCCGTAGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTagc                                                                    >  2:426184/1‑139 (MQ=255)

                                                                atgCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTagccag                                                                 <  2:122229/139‑1 (MQ=255)

                                                                 tgCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTgggg                                                                                   >  2:1225299/1‑120 (MQ=255)

                                                                 tgCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTgggg                                                                                   <  1:1225299/120‑1 (MQ=255)

                                                                   cATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGa                                                                                                              >  2:1516513/1‑91 (MQ=255)

                                                                   cATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGa                                                                                                              <  1:1516513/91‑1 (MQ=255)

                                                                   cATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                            >  1:1128062/1‑109 (MQ=255)

                                                                   cATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                            <  2:1128062/109‑1 (MQ=255)

                                                                   cATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCg                                                              >  1:257203/1‑139 (MQ=255)

                                                                   cATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCAGCTGGGGAATGGGCATGTTAGCCAGCCg                                                              >  1:234185/1‑139 (MQ=255)

                                                                     tttGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGt                                                            <  1:710302/139‑1 (MQ=255)

                                                                      ttGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGtt                                                           <  2:334827/139‑1 (MQ=255)

                                                                          tgcATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                            <  1:810895/102‑1 (MQ=255)

                                                                          tgcATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                            >  2:810895/1‑102 (MQ=255)

                                                                            cATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCt                                                     >  1:23800/1‑139 (MQ=255)

                                                                                 aTCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAAt                                                <  2:1034555/139‑1 (MQ=255)

                                                                                  tCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGa                                                                                                              >  1:1420265/1‑76 (MQ=255)

                                                                                  tCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGa                                                                                                              <  2:1420265/76‑1 (MQ=255)

                                                                                  tCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATg                                               >  2:1237161/1‑139 (MQ=255)

                                                                                   cGGTAAAGTTGCCACCCTCCAAAAACCCAAATTATCTTAAGCAATGCGAACCACCCTTATTTTTGGCGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTTTCCTTGAAtcg                                              <  2:234185/139‑3 (MQ=255)

                                                                                   cGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATgg                                              <  2:314605/139‑1 (MQ=255)

                                                                                         aGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCAc                                        <  2:489215/139‑1 (MQ=255)

                                                                                         aGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCAc                                        <  2:257203/139‑1 (MQ=255)

                                                                                            tGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTgg                                     >  2:532625/1‑139 (MQ=255)

                                                                                                      cATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTtg                           <  1:1530429/139‑1 (MQ=255)

                                                                                                        tAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                            <  1:220380/72‑1 (MQ=255)

                                                                                                        tAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                            >  2:220380/1‑72 (MQ=255)

                                                                                                         aaaCCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGtgc                        <  2:23800/139‑1 (MQ=255)

                                                                                                         aaaCCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGtgc                        <  2:440083/139‑1 (MQ=255)

                                                                                                           aCCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGtgctg                      >  1:279889/1‑139 (MQ=255)

                                                                                                               aaaTTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTg                                                                                                                     <  1:634081/40‑1 (MQ=255)

                                                                                                               aaaTTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTg                                                                                                                     >  2:634081/1‑40 (MQ=255)

                                                                                                                aaTTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGAcg                                                                                                    <  2:1160725/56‑1 (MQ=255)

                                                                                                                aaTTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGAcg                                                                                                    >  1:1160725/1‑56 (MQ=255)

                                                                                                                        gAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTcg         <  2:800034/139‑1 (MQ=255)

                                                                                                                         aaGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAGACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTcgg        <  1:1466705/139‑1 (MQ=255)

                                                                                                                         aaGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTcgg        <  2:279889/139‑1 (MQ=255)

                                                                                                                            cATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTcggcgg     >  1:236322/1‑139 (MQ=255)

                                                                                                                             aTTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCggcggg    <  1:1170528/139‑1 (MQ=255)

                                                                                                                             aTTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCggcggg    <  2:236322/139‑1 (MQ=255)

                                                                                                                               tGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGAt                                   >  1:1241283/1‑106 (MQ=255)

                                                                                                                               tGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGAt                                   <  2:1241283/106‑1 (MQ=255)

                                                                                                                               tGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCggcgggcg  <  1:210530/139‑1 (MQ=255)

                                                                                                                               tGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCggcgggcg  >  1:736967/1‑139 (MQ=255)

                                                                                                                                 cGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATgg                                                                              >  1:1214855/1‑61 (MQ=255)

                                                                                                                                 cGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATgg                                                                              <  2:1214855/61‑1 (MQ=255)

CCCGGTCAGGACATTGTCATGAATATCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCGGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCGGCGGGCG  >  NC_000913/1905670‑1905935

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `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