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 468,912 C→G 35.3% T312T (ACC→ACG)  sucB → dihydrolipoyltranssuccinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE468,9120CG35.3% 117.2 / 108.9 132T312T (ACC→ACG) sucBdihydrolipoyltranssuccinase
Reads supporting (aligned to +/- strand):  ref base C (37/48);  new base G (25/21);  total (63/69)
Fisher's exact test for biased strand distribution p-value = 2.74e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.16e-01

Only 100 of 141 total aligned reads displayed.

CTCGGCATGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACGGTGGTGTGTTCGGTTCCCTGATG  >  minE/468844‑468975
                                                                    |                                                               
cTCGGCATGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGAcc                                                                 >  1:2034396/1‑69 (MQ=255)
  cGGCATGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGt                                                               <  1:3409189/69‑1 (MQ=255)
  cGGCATGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGt                                                               <  1:312063/69‑1 (MQ=255)
  cGGCATGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGt                                                               <  1:263998/69‑1 (MQ=255)
      aTGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGAcc                                                                 >  1:351953/1‑63 (MQ=255)
      aTGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGAcc                                                                 >  1:2719872/1‑63 (MQ=255)
      aTGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGAcc                                                                 >  1:2360415/1‑63 (MQ=255)
      aTGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGAcc                                                                 >  1:635981/1‑63 (MQ=255)
      aTGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGAcc                                                                 >  1:7170/1‑63 (MQ=255)
         gCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGAt                                                        >  1:943191/1‑69 (MQ=255)
         gCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGAt                                                        >  1:3366453/1‑69 (MQ=255)
         gCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGAt                                                        >  1:2686793/1‑69 (MQ=255)
         gCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGAt                                                        >  1:2212954/1‑69 (MQ=255)
         gCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGAt                                                        >  1:1061835/1‑69 (MQ=255)
                            tCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACtt                                       >  1:3050523/1‑67 (MQ=255)
                            tCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      >  1:1727959/1‑68 (MQ=255)
                            tCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      >  1:2251091/1‑68 (MQ=255)
                            tCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      >  1:2870345/1‑68 (MQ=255)
                            tCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      >  1:596849/1‑68 (MQ=255)
                            tCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      >  1:3405461/1‑68 (MQ=255)
                            tCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      >  1:721142/1‑68 (MQ=255)
                            tCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      >  1:1471688/1‑68 (MQ=255)
                              aaaGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcacc                                   <  1:194396/69‑1 (MQ=255)
                              aaaGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcacc                                   <  1:2282806/69‑1 (MQ=255)
                              aaaGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcacc                                   <  1:1034059/69‑1 (MQ=255)
                              aaaGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcacc                                   <  1:2407891/69‑1 (MQ=255)
                              aaaGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcacc                                   <  1:2555404/69‑1 (MQ=255)
                              aaaGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcacc                                   <  1:2577654/69‑1 (MQ=255)
                              aaaGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcacc                                   <  1:845816/69‑1 (MQ=255)
                              aaaGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTCACCGTTGAAGATCTGACCGGTGGTAACTtcacc                                   <  1:1229416/69‑1 (MQ=255)
                                agagCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGt                                                               <  1:1739757/39‑1 (MQ=255)
                                    cTGGCTGTTAAAGGCCGTGACGGCAATCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:1856544/69‑1 (MQ=255)
                                    cTGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:414539/69‑1 (MQ=255)
                                    cTGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:2539807/69‑1 (MQ=255)
                                    cTGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:2769601/69‑1 (MQ=255)
                                    cTGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:2336190/69‑1 (MQ=255)
                                    cTGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:932571/69‑1 (MQ=255)
                                    cTGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:3404601/69‑1 (MQ=255)
                                    cTGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:1859582/69‑1 (MQ=255)
                                    cTGGCTGTTAAAGGCCGTGACGGCAAGATGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:2901684/69‑1 (MQ=255)
                                     tGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:1351823/68‑1 (MQ=255)
                                     tGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:1546993/68‑1 (MQ=255)
                                     tGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:291885/68‑1 (MQ=255)
                                     tGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:593063/68‑1 (MQ=255)
                                     tGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:195486/68‑1 (MQ=255)
                                     tGGCTGTTAAAGGCCGTGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccatcacc                             <  1:1965936/68‑1 (MQ=255)
                                       gCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 <  1:1245295/62‑1 (MQ=255)
                                       gCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 <  1:2740626/62‑1 (MQ=255)
                                       gCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 <  1:1924962/62‑1 (MQ=255)
                                       gCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 <  1:3360326/62‑1 (MQ=255)
                                       gCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 <  1:2475712/62‑1 (MQ=255)
                                       gCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 <  1:2440764/62‑1 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      <  1:196037/52‑1 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      <  1:3220628/52‑1 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      <  1:2366500/52‑1 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      <  1:2437742/52‑1 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      <  1:523406/52‑1 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      <  1:74645/52‑1 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      <  1:1804330/52‑1 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      <  1:2530486/52‑1 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTtc                                      <  1:1355750/52‑1 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACggtgg                     >  1:2519356/1‑69 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACggtgg                     >  1:1455461/1‑69 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACggtgg                     >  1:3302796/1‑69 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACggtgg                     >  1:16422/1‑69 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACggtgg                     >  1:2012171/1‑69 (MQ=255)
                                            cAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACggtg                      >  1:550432/1‑68 (MQ=255)
                                             aaaGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACggtggt                    >  1:3313947/1‑69 (MQ=255)
                                             aaaGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACggtggt                    >  1:1602633/1‑69 (MQ=255)
                                             aaaGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACggtgg                     >  1:3372166/1‑68 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGCCCGGTGGTAACTtcaccat                                 >  1:1422084/1‑48 (MQ=38)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:432671/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:478478/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:541096/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:549581/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:601737/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:691624/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:2556312/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:2102383/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:1034052/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:1154329/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:1796727/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:188382/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:1888427/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:2197994/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:2376408/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:103060/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:2613672/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:2917648/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcaccat                                 >  1:304935/1‑48 (MQ=255)
                                                     tGACGGCAAGCTGACGGTTGAAGATCTGACCGGTGGTAACTtcacca                                  >  1:779885/1‑47 (MQ=255)
                                                         ggCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACGGTGGTGTGTTCGGTTc         <  1:351440/68‑1 (MQ=255)
                                                         ggCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACGGTGGTGTGTTCGGTTc         <  1:2056307/68‑1 (MQ=255)
                                                         ggCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACGGTGGTGTGTTCGGTTc         <  1:2872781/68‑1 (MQ=255)
                                                          gCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACGGTGGTGTGTTCGGTTc         <  1:779924/67‑1 (MQ=255)
                                                             aGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACGGTGGTGTGTTCGGTTCCCTg     <  1:2657174/68‑1 (MQ=255)
                                                              gCTGACCGTTGAAGATCTGACCGGTGGTAACTtcacc                                   <  1:2468627/37‑1 (MQ=255)
                                                              gCTGACCGTTGAAGATCTGACCGGTGGTAACTtcacc                                   <  1:1071875/37‑1 (MQ=255)
                                                              gCTGAACGTTGAAGATCTGACCGGTGGTAACTtctcc                                   <  1:862557/37‑1 (MQ=37)
                                                               cTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACGGTGGTGTGTTCGGTTCCCTGATg  >  1:3230053/1‑69 (MQ=255)
                                                                    |                                                               
CTCGGCATGGCAGACATCGAGAAGAAAATCAAAGAGCTGGCAGTCAAAGGCCGTGACGGCAAGCTGACCGTTGAAGATCTGACCGGTGGTAACTTCACCATCACCAACGGTGGTGTGTTCGGTTCCCTGATG  >  minE/468844‑468975

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