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
A6 F1 I0 R1	2892	75.3	5698161	66.1%	3766484	59.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	2,130,599	C→G	32.8%	L102L (CTG→CTC)	mtr ←	tryptophan transporter of high affinity

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,130,599	0	C	G	32.8%	152.4 / 102.4	119	L102L (CTG→CTC)	mtr	tryptophan transporter of high affinity
Reads supporting (aligned to +/- strand): ref base C (40/40); new base G (20/19); total (60/59)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.48e-01

Only 100 of 120 total aligned reads displayed.

ACGTTTAGTGACATCTCTGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTG  >  minE/2130531‑2130668

       gTGACATCTCTGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATag                                                              <  1:4904743/71‑1 (MQ=255)

          aCATCTCTGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATagag                                                            <  1:1318336/70‑1 (MQ=255)

          aCATCTCTGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATagag                                                            <  1:4527283/70‑1 (MQ=255)

          aCATCTCTGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATaga                                                             >  1:309727/1‑69 (MQ=255)

             tctcTGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGat                                                                  <  1:730225/61‑1 (MQ=255)

             tctcTGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGat                                                                  <  1:2468780/61‑1 (MQ=255)

               tctGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGatat                                                                >  1:1895592/1‑61 (MQ=255)

               tctGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGatat                                                                >  1:1395357/1‑61 (MQ=255)

               tctGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGatat                                                                >  1:4725327/1‑61 (MQ=255)

               tctGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGat                                                                  <  1:1504521/59‑1 (MQ=255)

               tctGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGat                                                                  <  1:4985590/59‑1 (MQ=255)

               tctGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGcaca                                                        >  1:4181047/1‑69 (MQ=255)

               tctGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGcaca                                                        >  1:5024971/1‑69 (MQ=255)

                 tGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACaa                                                       <  1:3376644/68‑1 (MQ=255)

                     aaGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAAt                                                <  1:1850097/71‑1 (MQ=255)

                       ggTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATgg                                              <  1:2725584/71‑1 (MQ=255)

                        gtgtGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGa                                             <  1:1183978/71‑1 (MQ=255)

                         tgtgATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAg                                                                     <  1:4441807/46‑1 (MQ=255)

                         tgtgATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGcaca                                                        <  1:2728283/59‑1 (MQ=255)

                             aTGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAAt                                                >  1:838448/1‑63 (MQ=255)

                             aTGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGc                                        >  1:3914307/1‑71 (MQ=255)

                              tGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGata                                                                 <  1:1572467/45‑1 (MQ=255)

                                cAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATgg                                              <  1:3606152/62‑1 (MQ=255)

                                 aGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGtt                                    <  1:4577236/71‑1 (MQ=255)

                                 aGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGtt                                    <  1:5352501/71‑1 (MQ=255)

                                 aGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGtt                                    <  1:2573442/71‑1 (MQ=255)

                                  tgaTCGCACCATTAGCAGAGATATAGGCATAAGTGAGGATATAGAGAACgaa                                                      >  1:2113700/3‑52 (MQ=255)

                                  tgaTCGCACCATTAGCAGAGATATAGGCATAAGTGAGGATATAGAGAACgaa                                                      >  1:4315429/3‑52 (MQ=255)

                                  tgaTCGCACCATTAGCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACggt                                             <  1:4399599/59‑2 (MQ=255)

                                  tgaTCGCACCATTAGCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGtaa                                           <  1:2464514/61‑1 (MQ=255)

                                  gAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGa                                             <  1:126007/61‑1 (MQ=255)

                                  gAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGa                                             <  1:2594640/61‑1 (MQ=255)

                                  gAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGa                                             <  1:814313/61‑1 (MQ=255)

                                  gAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGtt                                    >  1:4628389/1‑70 (MQ=255)

                                   gaTCGCACCATTAGCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAg                                                     >  1:1433660/2‑52 (MQ=255)

                                    aTCGCACCATTAGCAGAGATATAGGCATAAGTGAGGATATag                                                              <  1:545485/42‑1 (MQ=16)

                                    aTCGCACCATTAGCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGat                                 <  1:4173012/71‑2 (MQ=255)

                                    aTCGCACCATTAGCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGat                                 <  1:1718479/71‑2 (MQ=255)

                                    aTCGCACCATTAGCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGat                                 <  1:4250176/71‑2 (MQ=255)

                                    aTCGCACCATTAGCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGat                                 <  1:5186317/71‑2 (MQ=255)

                                     tCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGaa                                            <  1:1585121/59‑1 (MQ=255)

                                     tCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGAc                                 >  1:4458215/1‑70 (MQ=255)

                                     tCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGAc                                 >  1:2932335/1‑70 (MQ=255)

                                     tCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGAc                                 >  1:2605545/1‑70 (MQ=255)

                                      cGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGaaa                                           >  1:3769785/1‑59 (MQ=255)

                                      cGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGaaa                                           >  1:3640919/1‑59 (MQ=255)

                                      cGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGaaa                                           >  1:4121676/1‑59 (MQ=255)

                                       gAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCa                               >  1:1514809/1‑70 (MQ=255)

                                       gAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCAc                              >  1:1087905/1‑71 (MQ=255)

                                         aCCATTAGCAGAGATATAGGCATAAGTGATGATATAGAGAACGAAGGCAACggt                                             <  1:2002172/54‑2 (MQ=255)

                                         aCCATTAGCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGc                                                   <  1:2124470/48‑1 (MQ=255)

                                          ccACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGtt                           <  1:648042/71‑1 (MQ=255)

                                             cTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCa                               >  1:1605069/1‑64 (MQ=255)

                                             cTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGt                            <  1:1466945/67‑1 (MQ=255)

                                             cTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGt                            <  1:2089049/67‑1 (MQ=255)

                                             cTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTc                          >  1:2427702/1‑69 (MQ=255)

                                               ggCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAgg                                                    >  1:4455261/1‑41 (MQ=255)

                                               ggCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGc                      >  1:4944555/1‑71 (MQ=255)

                                               agCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGCaa                                                 >  1:5219831/2‑44 (MQ=255)

                                               agCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGCaa                                                 >  1:2620165/2‑44 (MQ=255)

                                               agCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGa                                  <  1:1761793/58‑1 (MQ=255)

                                                gCAGAGATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGATAATGTTCCAgg                      >  1:3911616/1‑69 (MQ=255)

                                                gCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGcc                     >  1:5184729/1‑71 (MQ=255)

                                                  agagATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGtaa                                           >  1:3960139/1‑47 (MQ=255)

                                                  agagATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGtaa                                           >  1:1194759/1‑47 (MQ=255)

                                                  agagATATAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGtaa                                           >  1:2682723/1‑47 (MQ=255)

                                                    agatatAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGATAATGTTcc                         >  1:2351582/3‑63 (MQ=255)

                                                    agatatAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGATAATGTTcc                         >  1:2284749/3‑63 (MQ=255)

                                                    agatatAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGATAATGTTcc                         >  1:4209174/3‑63 (MQ=255)

                                                    agatatAGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGATAATGTTcc                         >  1:5092420/3‑63 (MQ=255)

                                                    agatatAGGCATAAGTGAGGATATAAAGAACGAAGGCAACGGTAATACCGCTGATAATGTTcc                         >  1:5638411/3‑63 (MQ=255)

                                                      atatAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCa                        >  1:1084562/1‑62 (MQ=255)

                                                      atatAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCa                        >  1:3938836/1‑62 (MQ=255)

                                                      atatAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCa                        >  1:2791634/1‑62 (MQ=255)

                                                      atatAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGcc               >  1:1800618/1‑71 (MQ=255)

                                                        ataGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGccc              <  1:3340983/70‑1 (MQ=255)

                                                         taGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAg            >  1:17965/1‑71 (MQ=255)

                                                         taGGCATAAGTGAGGATATAGAGAACGAAGGCAACggt                                             <  1:1024268/38‑2 (MQ=16)

                                                         taGGCATAAGTGAGGATATAGAGAACGAAGGCAACggt                                             <  1:3971318/38‑2 (MQ=16)

                                                         taGGCATAAGTGAGGATATAGAGAACGAAGGCAACggt                                             <  1:3792709/38‑2 (MQ=16)

                                                         taGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGat                                 <  1:1651353/50‑2 (MQ=255)

                                                         taGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGat                                 <  1:652054/50‑2 (MQ=255)

                                                         taGGCATAAGTGAGGATATAGAGAACGAAGGCAACGGTAATACCGCTGATAATGTTcc                         >  1:4705894/1‑58 (MQ=255)

                                                          aGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGc                                        >  1:3726080/1‑42 (MQ=255)

                                                          aGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGc                                        >  1:2967980/1‑42 (MQ=255)

                                                          aGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGAc                                 <  1:2449244/49‑1 (MQ=255)

                                                           ggCATAAGTGAGGATATAGAGAACGAAGGCAACggt                                             <  1:5040106/36‑2 (MQ=16)

                                                           ggCATAAGTGAGGATATAGAGAACGAAGGCAACGGtaa                                           >  1:2596250/1‑38 (MQ=12)

                                                           ggCATAAGTGAGGATATAGAGAACGAAGGCAACGGtaa                                           >  1:1600465/1‑38 (MQ=12)

                                                            gCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCa          >  1:3476297/1‑70 (MQ=255)

                                                              aTAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAAt       <  1:5670630/71‑1 (MQ=255)

                                                               tAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGt                            <  1:2542552/49‑1 (MQ=255)

                                                               tAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGt                            <  1:3513886/49‑1 (MQ=255)

                                                               tAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGt                            <  1:1523296/49‑1 (MQ=255)

                                                                aGGTCAGGATATAGAGCACAAAGGCGATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCt     >  1:2905092/1‑71 (MQ=255)

                                                                 ggTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTc                          >  1:2629588/1‑49 (MQ=255)

                                                                 ggTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTc                          >  1:4955361/1‑49 (MQ=255)

                                                                 ggTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCttt                  <  1:1562379/57‑1 (MQ=255)

                                                                 ggTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACAACGTTc                          >  1:5291231/1‑49 (MQ=255)

                                                                    cAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCCGCAAATCTTTg  >  1:2796383/1‑70 (MQ=255)

ACGTTTAGTGACATCTCTGCGAAGGTGTGATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTG  >  minE/2130531‑2130668

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A