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
A2 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,103,985 T→G 32.2% intergenic (‑233/‑16) agaR ← / → kbaZ DNA‑binding transcriptional dual regulator/tagatose 6‑phosphate aldolase 1, kbaZ subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,103,9850TG32.2% 104.7 / 85.5 115intergenic (‑233/‑16)agaR/kbaZDNA‑binding transcriptional dual regulator/tagatose 6‑phosphate aldolase 1, kbaZ subunit
Reads supporting (aligned to +/- strand):  ref base T (28/50);  new base G (14/23);  total (42/73)
Fisher's exact test for biased strand distribution p-value = 8.39e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 115 total aligned reads displayed.

TTTATTTTTATCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTGAGACAGCACAAAGCGGGCAAAACAAA  >  minE/2103918‑2104050
                                                                   |                                                                 
tttatttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTg                                                                  <  1:1610025/69‑1 (MQ=255)
   atttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATGTCGCAGTAATCTg                                                                  >  1:1813031/1‑66 (MQ=255)
   atttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATGTCGCAGTAATCTGAAc                                                               >  1:3099514/1‑69 (MQ=255)
   atttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATGTCGCAGTAATCTGAAc                                                               >  1:1665640/1‑69 (MQ=255)
   atttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATGTCGCAGTAATCTGAAc                                                               >  1:3259349/1‑69 (MQ=255)
   atttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATGTCGCAGTAATCTGAAc                                                               >  1:636533/1‑69 (MQ=255)
   atttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATGTCGCAGTAATCTGAAc                                                               >  1:1843005/1‑69 (MQ=255)
   atttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATGTCGCAGTAATCTGAAc                                                               >  1:3088070/1‑69 (MQ=255)
   atttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATGTCGCAGTAATCTGAAc                                                               >  1:2109597/1‑69 (MQ=255)
   atttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATGTCGCAGTAATCTGAAc                                                               >  1:216492/1‑69 (MQ=255)
   atttttatCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATGTCGCAGTAATCTGAAc                                                               >  1:2473651/1‑69 (MQ=255)
           ctcACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGagag                                                        <  1:1775848/68‑1 (MQ=255)
            tcACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGagag                                                        <  1:2260889/67‑1 (MQ=255)
                  tGACGCAGTATCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGa                                                <  1:3133266/69‑1 (MQ=255)
                           aTCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTg                                                                  <  1:623560/42‑1 (MQ=255)
                           aTCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTg                                                                  <  1:1057310/42‑1 (MQ=255)
                            tCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCt                                         >  1:1042804/1‑66 (MQ=255)
                            tCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCt                                         >  1:3377138/1‑66 (MQ=255)
                            tCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCt                                         >  1:2851656/1‑66 (MQ=255)
                            tCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCt                                         >  1:109529/1‑66 (MQ=255)
                             cAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGAc                                      >  1:1626172/1‑68 (MQ=255)
                             cAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGAc                                      >  1:1405270/1‑68 (MQ=255)
                             cAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGAc                                      >  1:2666853/1‑68 (MQ=255)
                              aaCTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACa                                     >  1:2120162/1‑68 (MQ=255)
                                  gAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAAt                                <  1:1129018/69‑1 (MQ=255)
                                  gAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAAt                                <  1:2113233/69‑1 (MQ=255)
                                  gAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAAt                                <  1:428800/69‑1 (MQ=255)
                                  gAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAAt                                <  1:1296346/69‑1 (MQ=255)
                                  gAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAAt                                <  1:828775/69‑1 (MQ=255)
                                  gAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTCACAGAAAt                                <  1:405094/69‑1 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAg                                                   >  1:2652903/1‑48 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGaaa                                 >  1:2550901/1‑66 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATg                               >  1:1925025/1‑68 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATg                               >  1:544669/1‑68 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATg                               >  1:2629987/1‑68 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATg                               >  1:1581709/1‑68 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATg                               >  1:274795/1‑68 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATg                               >  1:1499408/1‑68 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATg                               >  1:855663/1‑68 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATg                               >  1:81524/1‑68 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATg                               >  1:863459/1‑68 (MQ=255)
                                    aaCAAAACGAAAGATTAATATCGCAGTAATCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATg                               >  1:364888/1‑68 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATg                               <  1:1390433/67‑1 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATg                               <  1:2250933/67‑1 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATg                               <  1:3278962/67‑1 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATg                               <  1:834923/67‑1 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGt                             <  1:392353/69‑1 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGt                             <  1:2432733/69‑1 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGt                             <  1:362874/69‑1 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGt                             <  1:2000258/69‑1 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGt                             <  1:3129498/69‑1 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGt                             <  1:678456/69‑1 (MQ=255)
                                     aCAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGt                             <  1:682364/69‑1 (MQ=255)
                                      cAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGt                             <  1:2994852/68‑1 (MQ=255)
                                       aaaaCGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTga                           <  1:2562034/69‑1 (MQ=255)
                                        aaaCGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTga                           <  1:1356194/68‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:3341640/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:2854106/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:3334556/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:280758/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:1017040/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:2485805/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:2064321/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:2053313/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:1822569/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:1704920/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:1677422/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:683162/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGa                                       <  1:1167746/50‑1 (MQ=255)
                                              aaGATTAATGTCGCAGTAATCTGAACTGGACAGGAAAGTGAAACATCTGa                                       <  1:2259303/50‑1 (MQ=255)
                                                gATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAGCATCTGACAGAAATGGTGAGACAGcaca                  <  1:2672048/69‑1 (MQ=255)
                                                gATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTGAGACAGcaca                  <  1:2862496/69‑1 (MQ=255)
                                                        tCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATg                               <  1:2241919/48‑1 (MQ=255)
                                                        tCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGt                             <  1:441046/50‑1 (MQ=255)
                                                                aTCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTGAGACAGCACAAAGCGGGCAAAACaaa  >  1:2505921/1‑69 (MQ=255)
                                                                aTCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTGAGACAGCACAAAGCGGGCAAAACaaa  >  1:2795075/1‑69 (MQ=255)
                                                                aTCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTGAGACAGCACAAAGCGGGCAAAACaaa  >  1:132500/1‑69 (MQ=255)
                                                                aTCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTGAGACAGCACAAAGCGGGCAAAACaaa  >  1:2059466/1‑69 (MQ=255)
                                                                aTCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTGAGACAGCACAAAGCGGGCAAAACaaa  >  1:2029277/1‑69 (MQ=255)
                                                                aTCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTGAGACAGCACAAAGCGGGCAAAACaaa  >  1:18997/1‑69 (MQ=255)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:590052/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:880799/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:1253804/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:1292186/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:1303072/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:834600/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:1527776/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:1550593/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:1656407/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:1776031/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:184008/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:3319798/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:1954829/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:2248278/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:397192/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:2893400/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:2919334/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:342350/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:2928095/44‑1 (MQ=38)
                                                                aTCGGAACTGGAGAGGCAAGTGAAACATCTGACAGAAATGGTga                           <  1:3310104/44‑1 (MQ=38)
                                                                   |                                                                 
TTTATTTTTATCTCACCATGACGCAGTATCAACTGAAACAAAACGAAAGATTAATATCGCAGTAATCTGAACTGGAGAGGAAAGTGAAACATCTGACAGAAATGGTGAGACAGCACAAAGCGGGCAAAACAAA  >  minE/2103918‑2104050

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