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	2,130,629	G→A	20.5%	G92G (GGC→GGT)	mtr ←	tryptophan transporter of high affinity

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,130,629	0	G	A	20.5%	287.0 / 64.3	141	G92G (GGC→GGT)	mtr	tryptophan transporter of high affinity
Reads supporting (aligned to +/- strand): ref base G (55/57); new base A (14/15); total (69/72)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.35e-01

Only 100 of 142 total aligned reads displayed.

ATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCAAAACTCGAACCGATTCTG  >  minE/2130560‑2130698

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

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

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

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

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

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

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

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

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

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

              cACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTc                                                        <  1:4121138/71‑1 (MQ=255)

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

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

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

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

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

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

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

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

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

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

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

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

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

                         atatAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGcc                                             <  1:3590723/71‑1 (MQ=255)

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

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

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

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

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

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

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

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

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

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

                                  tAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATc                                    >  1:389185/1‑71 (MQ=255)

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

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

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

                                     gTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCtt                                  <  1:4258585/70‑1 (MQ=255)

                                        aGGATATAGAGAACGAAGGCAACGGTAATACCGCTGATAATGTTCCAGGTGTTACCGATTAAATCTTTGGt                              >  1:3723559/1‑71 (MQ=255)

                                          gATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGa                            <  1:2813722/71‑1 (MQ=255)

                                          gATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGa                            >  1:5392089/1‑71 (MQ=255)

                                           atatAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGAt                           <  1:2089740/71‑1 (MQ=255)

                                            tataGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATg                          >  1:1344534/1‑71 (MQ=255)

                                              taGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTg                             >  1:2056723/1‑66 (MQ=255)

                                              taGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTg                             >  1:1008746/1‑66 (MQ=255)

                                              taGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGa                            <  1:5029024/67‑1 (MQ=255)

                                              taGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGa                            <  1:5022463/67‑1 (MQ=255)

                                              taGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGa                            <  1:3855934/67‑1 (MQ=255)

                                                gagCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCATATCttt                                 <  1:11791/60‑1 (MQ=255)

                                                gagCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCttt                                 <  1:4053417/60‑1 (MQ=255)

                                                gagCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCttt                                 <  1:1267016/60‑1 (MQ=255)

                                                gagCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGgtg                       >  1:836607/1‑70 (MQ=255)

                                                   cacaAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCaa                   <  1:4613688/71‑1 (MQ=255)

                                                   cacaAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCaa                   <  1:2050087/71‑1 (MQ=255)

                                                    acgaaGGCAACGGTAATACCGCTGATAATGTTCCAGGTGTTACCGATTAAATCTTTGGTGATGGTGTTaa                   <  1:5010047/67‑1 (MQ=255)

                                                    acgaaGGCAACGGTAATACCGCTGATAATGTTCCAGGTGTTACCGATTAAATCTTTGGTGATGGTGTTaa                   <  1:4131665/67‑1 (MQ=255)

                                                    acaAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCttt                                                <  1:2357421/41‑1 (MQ=255)

                                                    acaAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCaa                   <  1:3226932/70‑1 (MQ=255)

                                                     cgaaGGCAACGGTAATACCGCTGATAATGTTCCAGGTGTTACCGATTAAATCTTTGGTGATGGTGTTaaaa                 >  1:1372428/3‑71 (MQ=255)

                                                     cgaaGGCAACGGTAATACCGCTGATAATGTTCCAGGTGTTACCGATTAAATCTTTGGTGATGGTGTTaaaa                 >  1:190574/3‑71 (MQ=255)

                                                     cgaaGGCAACGGTAATACCGCTGATAATGTTCCAGGTGTTACCGATTAAATCTTTGGTGATGGTGTTaaaa                 <  1:223424/69‑1 (MQ=255)

                                                     caAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATg                          <  1:3569765/62‑1 (MQ=255)

                                                     caAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATg                          <  1:307056/62‑1 (MQ=255)

                                                     caAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCaaaa                 <  1:4942605/71‑1 (MQ=255)

                                                       aaGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCaaaa                 >  1:2756128/1‑69 (MQ=255)

                                                        aGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAAt                                     >  1:5260916/1‑48 (MQ=255)

                                                        aGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAAt                                     >  1:3630603/1‑48 (MQ=255)

                                                        aGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATc                                    <  1:4152227/49‑1 (MQ=255)

                                                        aGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATc                                    <  1:721850/49‑1 (MQ=255)

                                                        aGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATc                                    <  1:1220998/49‑1 (MQ=255)

                                                        aGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCAAAACTc              <  1:2801628/71‑1 (MQ=255)

                                                        aGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCAAAACTc              >  1:4489128/1‑71 (MQ=255)

                                                        aGGCAATGGAAATGCCGTTAACCACGTTCCAGCCTTTGCCCAGCAAAt                                     >  1:2848161/1‑48 (MQ=255)

                                                        aGGCAACGGTAATACCGCTGATAATGTTCCAGGTGTTACCGATTAAATCTTTGGTGATGGTGTTAAAACtg              <  1:2681888/71‑2 (MQ=255)

                                                        aGGCAACGGTAATACCGCTGATAATGTTCCAGGTGTTACCGATTAAATCTTTGGTGATGGTGTTAAAACtg              <  1:3774747/71‑2 (MQ=255)

                                                         ggCAACGGTAATACCGCTGATAATGTTCCAGGTGTTACCGATTAAATCTTTGGTGATGGTGTTAAAACtgg             <  1:2852568/71‑3 (MQ=255)

                                                          gCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGa                            >  1:4735662/1‑55 (MQ=255)

                                                          gCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGa                            >  1:3868890/1‑55 (MQ=255)

                                                            aaTGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCtt                                  <  1:3966389/47‑1 (MQ=255)

                                                            aaTGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGt                              >  1:5610506/1‑51 (MQ=255)

                                                            aaTGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGt                              >  1:5439009/1‑51 (MQ=255)

                                                            aaTGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGt                              >  1:940966/1‑51 (MQ=255)

                                                            aaTGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGt                              >  1:4753208/1‑51 (MQ=255)

                                                             aTGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCaaa                                      >  1:5349269/1‑42 (MQ=255)

                                                             aTGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCaaa                                      >  1:1236361/1‑42 (MQ=255)

                                                             aTGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCt                                   <  1:4840014/45‑1 (MQ=255)

                                                             aTGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTgg                               <  1:1796894/49‑1 (MQ=255)

                                                             aTGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTgg                               <  1:1938430/49‑1 (MQ=255)

                                                              tGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCtt                                  >  1:644446/1‑45 (MQ=255)

                                                               ggAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGc                                         >  1:3105797/1‑37 (MQ=255)

                                                               ggAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGc                                         >  1:883130/1‑37 (MQ=255)

                                                               ggAAATGCCGTTGACCACGTTCCAGCCTTTGCCAAGCAAATCttt                                 >  1:1344116/1‑45 (MQ=255)

                                                                 aaaTGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCAAAACTCGAACCGAtt     <  1:4854646/71‑1 (MQ=255)

                                                                 aaaTGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCAAAACTCGAACCGAtt     >  1:2521635/1‑71 (MQ=255)

                                                                  aaTGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCAAAACTCg             <  1:2759106/62‑1 (MQ=255)

                                                                    tGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCaa                   <  1:1296079/54‑1 (MQ=255)

                                                                    tGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCAAAACTCGAACCGATTc    <  1:2190586/69‑1 (MQ=255)

                                                                    tGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCAAAACTCGAACCGATTc    <  1:1520045/69‑1 (MQ=255)

ATGCAGAATCGAACCACTGGCAGAAATATAGGCATAGGTCAGGATATAGAGCACAAAGGCAATGGAAATGCCGTTGACCACGTTCCAGCCTTTGCCCAGCAAATCTTTGGTGATGGTGTCAAAACTCGAACCGATTCTG  >  minE/2130560‑2130698

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A