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 1,933,156 C→T 30.9% E429E (GAG→GAA)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,1560CT30.9% 197.3 / 112.3 149E429E (GAG→GAA) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base C (50/53);  new base T (23/23);  total (73/76)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01

Only 100 of 149 total aligned reads displayed.

TCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGT  >  minE/1933088‑1933223
                                                                    |                                                                   
tcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTc                                                                   <  1:5644894/71‑1 (MQ=255)
  gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGc                                                                 >  1:5584112/1‑71 (MQ=255)
   tcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCt                                                                <  1:1432638/71‑1 (MQ=255)
       cTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                            >  1:2133253/1‑71 (MQ=255)
          cGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCg                                                         >  1:3763480/1‑71 (MQ=255)
            tCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                                                        >  1:5461608/1‑70 (MQ=255)
             cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                                                      >  1:2278565/1‑71 (MQ=255)
             cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                                                      >  1:3019898/1‑71 (MQ=255)
              tttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                                                     >  1:1110760/1‑71 (MQ=255)
               ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGc                                                           >  1:4955044/1‑64 (MQ=255)
                tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                    <  1:3059724/70‑1 (MQ=255)
                tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                                                     <  1:3032305/69‑1 (MQ=255)
                  gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCg                                                                  >  1:4927850/1‑54 (MQ=255)
                  gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCg                                                                  >  1:3878992/1‑54 (MQ=255)
                    ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                               <  1:4699661/71‑1 (MQ=255)
                     ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCAtt                                                       <  1:5163388/60‑1 (MQ=255)
                     ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCAtt                                                       <  1:3140496/60‑1 (MQ=255)
                     ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTc                                              <  1:1364007/69‑1 (MQ=255)
                      taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTaaa                                                             <  1:2479176/54‑1 (MQ=255)
                      taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTaaa                                                             <  1:2442884/54‑1 (MQ=255)
                      cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCa                                             >  1:5270196/1‑71 (MQ=255)
                       aaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCAc                                            >  1:701376/1‑71 (MQ=255)
                       aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                                                     <  1:1558429/62‑1 (MQ=255)
                       aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                                                     <  1:2697084/62‑1 (MQ=255)
                       aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                            <  1:333592/71‑1 (MQ=255)
                       aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                            <  1:5395818/71‑1 (MQ=255)
                        aCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCa                                             >  1:3909972/1‑69 (MQ=255)
                         ccTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                                                        >  1:2076823/1‑57 (MQ=255)
                           tGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac                                         >  1:1417998/1‑70 (MQ=255)
                            gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca                                       >  1:571443/3‑71 (MQ=255)
                            gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca                                       >  1:2647253/3‑71 (MQ=255)
                            gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca                                       >  1:410670/3‑71 (MQ=255)
                            gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca                                       >  1:3179684/3‑71 (MQ=255)
                            gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca                                       >  1:5457012/3‑71 (MQ=255)
                            gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                                                    <  1:2515325/42‑1 (MQ=255)
                            gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                                                    <  1:5614661/42‑1 (MQ=255)
                            gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                                                    <  1:5621368/42‑1 (MQ=255)
                            gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                            <  1:545302/50‑1 (MQ=255)
                            gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                       >  1:3731627/1‑71 (MQ=255)
                             ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacc                                        <  1:3514483/68‑1 (MQ=255)
                             aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                    <  1:178907/57‑1 (MQ=255)
                             aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac                                      <  1:1624623/71‑1 (MQ=255)
                              tCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCg                                                         >  1:3529392/1‑51 (MQ=255)
                              tCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac                                      >  1:4423919/1‑70 (MQ=255)
                               ccAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                                 >  1:4631645/1‑58 (MQ=255)
                               ccAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                                 >  1:2960401/1‑58 (MQ=255)
                                 tggAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGAt                                                 <  1:2787113/55‑1 (MQ=255)
                                 aGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                                  <  1:43334/71‑1 (MQ=255)
                                 aGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                                  <  1:4794449/71‑1 (MQ=255)
                                   gAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGc                                                           <  1:4036985/44‑1 (MQ=255)
                                   gAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccacc                                     <  1:4235684/66‑1 (MQ=255)
                                   gAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATga                                <  1:2335700/71‑1 (MQ=255)
                                   gAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATg                                 <  1:2241059/70‑1 (MQ=255)
                                   gAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATg                                 <  1:2011664/70‑1 (MQ=255)
                                    aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                               >  1:2858329/1‑55 (MQ=255)
                                     aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGa                                          >  1:2620785/1‑59 (MQ=255)
                                     aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                              <  1:391826/71‑1 (MQ=255)
                                     aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                              <  1:1850030/71‑1 (MQ=255)
                                           gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                            >  1:3773649/1‑51 (MQ=255)
                                           gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                            >  1:2181999/1‑51 (MQ=255)
                                           gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                            >  1:3602863/1‑51 (MQ=255)
                                           gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                            >  1:4741048/1‑51 (MQ=255)
                                           gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCaa                                   >  1:1466576/1‑60 (MQ=255)
                                           gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTc                         >  1:5641659/1‑70 (MQ=255)
                                           cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                     >  1:1547396/3‑58 (MQ=255)
                                           cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                     >  1:1881319/3‑58 (MQ=255)
                                           cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                     >  1:1140282/3‑58 (MQ=255)
                                           cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATga                                >  1:4404693/3‑63 (MQ=255)
                                           cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTc                         >  1:1032166/3‑70 (MQ=255)
                                            agcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCaa                       <  1:3293834/70‑1 (MQ=255)
                                            agcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCaa                       <  1:4362054/70‑1 (MQ=255)
                                            agcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCaa                       <  1:4686757/70‑1 (MQ=255)
                                            agcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCa                        <  1:3045636/69‑1 (MQ=255)
                                             gcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCa                        >  1:1285278/1‑69 (MQ=255)
                                              ccTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATga                                <  1:4215128/60‑1 (MQ=255)
                                              ccTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATga                                <  1:2214339/60‑1 (MQ=255)
                                              ccTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                 <  1:1356268/59‑1 (MQ=255)
                                                tGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                     <  1:353530/53‑1 (MQ=255)
                                                tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                               >  1:5161285/1‑43 (MQ=255)
                                                tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                                 <  1:1982/41‑1 (MQ=255)
                                                tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                                 <  1:2914738/41‑1 (MQ=255)
                                                tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCg                   >  1:3995602/1‑71 (MQ=255)
                                                 gATCTTCTGCGTCGTTTAATTCGCTAAAACCATTAACGATTTCACGACCACCGATGAAGAATTCAAAACgg                  >  1:579612/1‑71 (MQ=255)
                                                 gATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                            >  1:3852919/1‑45 (MQ=255)
                                                  aTCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccaccga                                   >  1:4704987/1‑51 (MQ=255)
                                                  aTCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGt                 >  1:5260041/1‑71 (MQ=255)
                                                    cTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGac                                         >  1:21220/1‑45 (MQ=255)
                                                    cTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTc                >  1:162298/1‑70 (MQ=255)
                                                    cTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCa                                             >  1:2730274/1‑41 (MQ=255)
                                                     ttCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTcgg              >  1:5093520/1‑69 (MQ=255)
                                                       ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGt                 <  1:3795329/66‑1 (MQ=255)
                                                       ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt               <  1:181014/68‑1 (MQ=255)
                                                        cgcgTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg            <  1:5053157/70‑1 (MQ=255)
                                                             cATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTc                <  1:1971917/61‑1 (MQ=255)
                                                              aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                                  <  1:2417751/42‑1 (MQ=255)
                                                               ttCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCaa                                   <  1:4072196/40‑1 (MQ=255)
                                                               ttCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCaa                                   <  1:687521/40‑1 (MQ=255)
                                                                tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCggg   >  1:2018706/1‑71 (MQ=255)
                                                                  aGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt  >  1:5368628/1‑70 (MQ=255)
                                                                  aGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt  >  1:3826387/1‑70 (MQ=255)
                                                                    |                                                                   
TCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGT  >  minE/1933088‑1933223

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A