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 1,933,168 G→A 37.1% N425N (AAC→AAT)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,1680GA37.1% 135.8 / 143.8 151N425N (AAC→AAT) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (51/44);  new base A (29/27);  total (80/71)
Fisher's exact test for biased strand distribution p-value = 8.67e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.03e-01

Only 100 of 154 total aligned reads displayed.

CGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGAC  >  minE/1933098‑1933238
                                                                      |                                                                      
cGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCg                                                                        >  1:3763480/1‑71 (MQ=255)
  tCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                                                                       >  1:5461608/1‑70 (MQ=255)
   cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                                                                     >  1:3019898/1‑71 (MQ=255)
   cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                                                                     >  1:2278565/1‑71 (MQ=255)
    tttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                                                                    >  1:1110760/1‑71 (MQ=255)
     ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                                                                       >  1:1723802/1‑67 (MQ=255)
      tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                                   <  1:3059724/70‑1 (MQ=255)
          ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                                              <  1:4699661/71‑1 (MQ=255)
           ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCAtt                                                                      <  1:5163388/60‑1 (MQ=255)
           ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCAtt                                                                      <  1:3140496/60‑1 (MQ=255)
           ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGAttt                                                              >  1:4394814/3‑70 (MQ=255)
           ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTc                                                             <  1:2611400/69‑1 (MQ=255)
           gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTc                                                             <  1:1266388/71‑1 (MQ=255)
            cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCa                                                            >  1:5270196/1‑71 (MQ=255)
             aaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCAc                                                           >  1:701376/1‑71 (MQ=255)
             aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                                                                    <  1:1558429/62‑1 (MQ=255)
             aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                                           <  1:333592/71‑1 (MQ=255)
             aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                                           <  1:5395818/71‑1 (MQ=255)
             aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                                           <  1:3734483/71‑1 (MQ=255)
              aCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCa                                                            >  1:3909972/1‑69 (MQ=255)
                 tGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac                                                        >  1:1417998/1‑70 (MQ=255)
                  gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca                                                      >  1:2647253/3‑71 (MQ=255)
                   ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccac                                                     <  1:602000/70‑1 (MQ=255)
                   ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccac                                                     <  1:394704/70‑1 (MQ=255)
                   ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacc                                                       <  1:3514483/68‑1 (MQ=255)
                   aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac                                                     <  1:1624623/71‑1 (MQ=255)
                    tCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac                                                     >  1:4423919/1‑70 (MQ=255)
                     ccAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                                                >  1:2960401/1‑58 (MQ=255)
                      ctggAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccaccg                                                   <  1:2123520/68‑2 (MQ=255)
                       tggAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGAt                                                                <  1:2787113/55‑1 (MQ=255)
                       aGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                                                 <  1:4794449/71‑1 (MQ=255)
                        ggAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                                                 >  1:406378/1‑70 (MQ=255)
                         gAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccacc                                                    <  1:4235684/66‑1 (MQ=255)
                         gAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTa                                                                     >  1:328915/1‑49 (MQ=255)
                         gAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGAttt                                                              >  1:4172145/1‑56 (MQ=255)
                         gAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATga                                               <  1:2335700/71‑1 (MQ=255)
                         gAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATg                                                <  1:2241059/70‑1 (MQ=255)
                          aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                                              >  1:4831013/1‑55 (MQ=255)
                          aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                                              >  1:2858329/1‑55 (MQ=255)
                           aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                                             <  1:5458297/71‑1 (MQ=255)
                            gCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                                              <  1:33644/53‑1 (MQ=255)
                            gCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                                              <  1:3897859/53‑1 (MQ=255)
                            gCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                                             >  1:4574801/1‑70 (MQ=255)
                              gTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                                                                     >  1:3597298/1‑44 (MQ=255)
                                 gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                                           >  1:3773649/1‑51 (MQ=255)
                                 gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                                           >  1:4741048/1‑51 (MQ=255)
                                 gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                                                           >  1:2181999/1‑51 (MQ=255)
                                 gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCaa                                                  >  1:1466576/1‑60 (MQ=255)
                                 gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTc                                        >  1:5641659/1‑70 (MQ=255)
                                 gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCAGTTACCGATTTCACGa                                                         >  1:3826639/1‑53 (MQ=255)
                                 cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                                    >  1:1881319/3‑58 (MQ=255)
                                 cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                                    >  1:1547396/3‑58 (MQ=255)
                                 cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTc                                        >  1:1032166/3‑70 (MQ=255)
                                  agcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCaa                                      <  1:4362054/70‑1 (MQ=255)
                                  agcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCaa                                      <  1:4686757/70‑1 (MQ=255)
                                  agcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCa                                       <  1:3045636/69‑1 (MQ=255)
                                    ccTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                                <  1:1356268/59‑1 (MQ=255)
                                     cTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGc                                   >  1:1817262/1‑71 (MQ=255)
                                      tGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                                    <  1:353530/53‑1 (MQ=255)
                                      tGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                                    <  1:5623186/53‑1 (MQ=255)
                                      tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                                   <  1:2022305/38‑1 (MQ=255)
                                      tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                                              >  1:5161285/1‑43 (MQ=255)
                                      tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                                                <  1:1982/41‑1 (MQ=255)
                                       gATCTTCTGCGTCGTTTAATTCGCTAAAACCATTAACGATTTCACGACCACCGATGAAGAATTCAAAACgg                                 >  1:579612/1‑71 (MQ=255)
                                        aTCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccaccga                                                  >  1:4704987/1‑51 (MQ=255)
                                        aTCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccaccga                                                  >  1:5696095/1‑51 (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)
                                           ttCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCaa                                                  >  1:2649409/1‑50 (MQ=255)
                                             ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt                              <  1:3784642/68‑1 (MQ=255)
                                             ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt                              <  1:181014/68‑1 (MQ=255)
                                              cgcgTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg                           <  1:5053157/70‑1 (MQ=255)
                                                cgTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGAtt                        <  1:1958619/71‑1 (MQ=255)
                                                  tCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGAttt                       <  1:2735161/70‑1 (MQ=255)
                                                    aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                                                 <  1:2417751/42‑1 (MQ=255)
                                                    aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTcc                     <  1:1360530/70‑1 (MQ=255)
                                                     ttCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCaa                                                  <  1:4072196/40‑1 (MQ=255)
                                                      tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCggg                  >  1:4314297/1‑71 (MQ=255)
                                                      tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCggg                  >  1:2018706/1‑71 (MQ=255)
                                                        aGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt                 >  1:3826387/1‑70 (MQ=255)
                                                         attCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGtt                <  1:4205209/68‑1 (MQ=255)
                                                          ttCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTc                      <  1:3011458/62‑1 (MQ=255)
                                                          ttCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTaa              >  1:1234982/2‑71 (MQ=255)
                                                           tCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAc             >  1:3613736/1‑71 (MQ=255)
                                                            cGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCg                    >  1:2196321/1‑63 (MQ=255)
                                                            cGCTAAAACCATTACCGATTTCACGACCACCGATgaaga                                            >  1:451785/1‑39 (MQ=37)
                                                            cGCTAAAACCATTACCGATTTCACGACCACCGATgaaga                                            >  1:5382863/1‑39 (MQ=37)
                                                            cGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCaaaa                                    >  1:4452849/1‑46 (MQ=255)
                                                             gCTAAAGCCGTTACCGATTTCACGACCACCAATga                                               >  1:3170531/1‑35 (MQ=255)
                                                             gCTAAAACCATTACCGATTTTACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAAcat           <  1:4925232/71‑3 (MQ=255)
                                                             gCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAAcat           <  1:321381/71‑3 (MQ=255)
                                                             gCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAAca            <  1:5627787/70‑2 (MQ=255)
                                                                aaaaCCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAAcatcat        >  1:2585388/1‑69 (MQ=255)
                                                                  aGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGc                                   <  1:5349877/42‑1 (MQ=255)
                                                                   gCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac     >  1:2357625/1‑71 (MQ=255)
                                                                   gCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac     >  1:3650974/1‑71 (MQ=255)
                                                                   gCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac     >  1:1998655/1‑71 (MQ=255)
                                                                      |                                                                      
CGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGAC  >  minE/1933098‑1933238

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