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 1,933,150 A→G 34.0% N431N (AAT→AAC)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,1500AG34.0% 158.7 / 138.3 156N431N (AAT→AAC) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base A (52/51);  new base G (25/28);  total (77/79)
Fisher's exact test for biased strand distribution p-value = 7.37e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.48e-01

Only 100 of 162 total aligned reads displayed.

TCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCC  >  minE/1933080‑1933219
                                                                      |                                                                     
tCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                                                       <  1:3810493/71‑1 (MQ=255)
  gCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCAtt                                                                     >  1:5288223/1‑71 (MQ=255)
   cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTc                                                                    <  1:2975721/71‑1 (MQ=255)
     tcgtcgTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttt                                                                    <  1:102543/69‑2 (MQ=255)
      cgtcgtCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGtttaa                                                                  <  1:5573518/70‑4 (MQ=255)
      cgtcgtCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttta                                                                   <  1:1583054/69‑3 (MQ=255)
       gtcgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGtttaa                                                                  >  1:2656606/1‑66 (MQ=255)
       gtcgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGtttaa                                                                  >  1:3920543/1‑66 (MQ=255)
           tcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCt                                                            <  1:5443102/71‑1 (MQ=255)
           tcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCt                                                            <  1:1432638/71‑1 (MQ=255)
               cTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                        >  1:2133253/1‑71 (MQ=255)
                  cGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc                                                      <  1:3043267/70‑1 (MQ=255)
                     cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                                                  >  1:2278565/1‑71 (MQ=255)
                       ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGc                                                       >  1:4955044/1‑64 (MQ=255)
                       ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                                                    >  1:1723802/1‑67 (MQ=255)
                        tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                <  1:3059724/70‑1 (MQ=255)
                        tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                                                 <  1:3032305/69‑1 (MQ=255)
                          gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCg                                                              >  1:3878992/1‑54 (MQ=255)
                            ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                           <  1:234870/71‑1 (MQ=255)
                             ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCAtt                                                   <  1:3140496/60‑1 (MQ=255)
                             ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTc                                          <  1:1364007/69‑1 (MQ=255)
                             gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                           <  1:5256005/70‑1 (MQ=255)
                             gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTc                                          <  1:1266388/71‑1 (MQ=255)
                              taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTaaa                                                         <  1:2442884/54‑1 (MQ=255)
                              cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                                                       <  1:440975/41‑1 (MQ=255)
                              cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                                                       <  1:3350585/41‑1 (MQ=255)
                               aaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCAc                                        >  1:701376/1‑71 (MQ=255)
                               aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                        <  1:3734483/71‑1 (MQ=255)
                                aCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCa                                         >  1:3909972/1‑69 (MQ=255)
                                 ccTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                                                    >  1:2076823/1‑57 (MQ=255)
                                 ccTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                <  1:227153/61‑1 (MQ=255)
                                  cTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGac                                     <  1:1620121/71‑1 (MQ=255)
                                  cTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTc                                                                    >  1:2684931/1‑40 (MQ=255)
                                  cTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTc                                                                    >  1:4158752/1‑40 (MQ=255)
                                   tGATCCAGGAAGCGTTGCGCTTGATCTTCCGCGTCATTc                                                                    <  1:1818849/39‑1 (MQ=255)
                                   tGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac                                     >  1:1417998/1‑70 (MQ=255)
                                    gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca                                   >  1:2647253/3‑71 (MQ=255)
                                    gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca                                   >  1:5457012/3‑71 (MQ=255)
                                    gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca                                   >  1:3179684/3‑71 (MQ=255)
                                    gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                                                <  1:2515325/42‑1 (MQ=255)
                                    gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                                                <  1:5614661/42‑1 (MQ=255)
                                    gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                   >  1:3731627/1‑71 (MQ=255)
                                     ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccac                                  <  1:394704/70‑1 (MQ=255)
                                     ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccac                                  <  1:602000/70‑1 (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                                  >  1:2465566/1‑70 (MQ=255)
                                       ccAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                             >  1:4631645/1‑58 (MQ=255)
                                         tggAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGAt                                             <  1:2787113/55‑1 (MQ=255)
                                         aGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                              <  1:4794449/71‑1 (MQ=255)
                                          ggAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                              >  1:406378/1‑70 (MQ=255)
                                           gAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGc                                                       <  1:4036985/44‑1 (MQ=255)
                                           gAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccacc                                 <  1:4235684/66‑1 (MQ=255)
                                           gAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATg                             <  1:2011664/70‑1 (MQ=255)
                                            aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc                                                      >  1:2189832/1‑44 (MQ=255)
                                            aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                           >  1:2858329/1‑55 (MQ=255)
                                            aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                           >  1:4831013/1‑55 (MQ=255)
                                             aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGa                                      >  1:2620785/1‑59 (MQ=255)
                                             aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                          <  1:5458297/71‑1 (MQ=255)
                                             aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                          <  1:1850030/71‑1 (MQ=255)
                                              gCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                           <  1:33644/53‑1 (MQ=255)
                                              gCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                          >  1:4574801/1‑70 (MQ=255)
                                                gTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                                                  >  1:3597298/1‑44 (MQ=255)
                                                 ttGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACt                      <  1:5328050/71‑1 (MQ=255)
                                                   gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                        >  1:3773649/1‑51 (MQ=255)
                                                   gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCaa                               >  1:1466576/1‑60 (MQ=255)
                                                   gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTc                     >  1:5641659/1‑70 (MQ=255)
                                                   cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                 >  1:1547396/3‑58 (MQ=255)
                                                   cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                 >  1:1140282/3‑58 (MQ=255)
                                                   cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                 >  1:1881319/3‑58 (MQ=255)
                                                   cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATga                            >  1:4404693/3‑63 (MQ=255)
                                                   cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTc                     >  1:1032166/3‑70 (MQ=255)
                                                   cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTc                     >  1:4696600/3‑70 (MQ=255)
                                                    agcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCaa                   <  1:4362054/70‑1 (MQ=255)
                                                    agcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCaa                   <  1:3293834/70‑1 (MQ=255)
                                                     gcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCa                    >  1:300300/1‑69 (MQ=255)
                                                      ccTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATga                            <  1:4215128/60‑1 (MQ=255)
                                                      ccTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATga                            <  1:2214339/60‑1 (MQ=255)
                                                      ccTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                             <  1:1356268/59‑1 (MQ=255)
                                                       cTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGc                >  1:1817262/1‑71 (MQ=255)
                                                        tGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                 <  1:5623186/53‑1 (MQ=255)
                                                        tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                <  1:2022305/38‑1 (MQ=255)
                                                        tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                           >  1:5161285/1‑43 (MQ=255)
                                                        tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                             <  1:2914738/41‑1 (MQ=255)
                                                        tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                             <  1:1982/41‑1 (MQ=255)
                                                         gATCTTCTGCGTCGTTTAATTCGCTAAAACCATTAACGATTTCACGACCACCGATGAAGAATTCAAAACgg              >  1:579612/1‑71 (MQ=255)
                                                         gATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                        >  1:3852919/1‑45 (MQ=255)
                                                          aTCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccaccga                               >  1:5696095/1‑51 (MQ=255)
                                                          aTCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccaccga                               >  1:4704987/1‑51 (MQ=255)
                                                          aTCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGt             >  1:5260041/1‑71 (MQ=255)
                                                            cTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGac                                     >  1:5594233/1‑45 (MQ=255)
                                                            cTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGac                                     >  1:21220/1‑45 (MQ=255)
                                                            cTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCa                                         >  1:2730274/1‑41 (MQ=255)
                                                             ttCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTcgg          >  1:5093520/1‑69 (MQ=255)
                                                               ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTc            <  1:4732972/67‑1 (MQ=255)
                                                               ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt           <  1:3784642/68‑1 (MQ=255)
                                                                cgcgTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg        <  1:5053157/70‑1 (MQ=255)
                                                                  cgTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGAtt     <  1:1958619/71‑1 (MQ=255)
                                                                      |                                                                     
TCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCC  >  minE/1933080‑1933219

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