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 2,556,062 G→A 27.9% L52L (CTG→TTG)  gpmI ← phosphoglycero mutase III, cofactor‑independent

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,556,0620GA27.9% 139.2 / 51.8 125L52L (CTG→TTG) gpmIphosphoglycero mutase III, cofactor‑independent
Reads supporting (aligned to +/- strand):  ref base G (40/50);  new base A (7/28);  total (47/78)
Fisher's exact test for biased strand distribution p-value = 1.35e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 125 total aligned reads displayed.

GGCACCCAGGTTAACGTGGCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATCCATTACCGGGGTTTTAG  >  minE/2555997‑2556127
                                                                 |                                                                 
ggcACCCAGGTTAACGTGGCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGAcc                                                                <  1:2128298/69‑1 (MQ=255)
ggcACCCAGGTTAACGTGGCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGAcc                                                                <  1:3127461/69‑1 (MQ=255)
ggcACCCAGGTTAACGTGGCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGAcc                                                                <  1:1251680/69‑1 (MQ=255)
ggcACCCAGGTTAACGTGGCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGAcc                                                                <  1:383657/69‑1 (MQ=255)
   aCCCAGGTTAACGTGGCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGa                                                             <  1:3224584/69‑1 (MQ=255)
   aCCCAGGTTAACGTGGCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGa                                                             <  1:3220645/69‑1 (MQ=255)
                 ggCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:546546/69‑1 (MQ=255)
                 ggCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:3412995/69‑1 (MQ=255)
                 ggCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:1484382/69‑1 (MQ=255)
                 ggCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:3363033/69‑1 (MQ=255)
                 ggCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:1982304/69‑1 (MQ=255)
                 ggCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:2571122/69‑1 (MQ=255)
                 ggCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:2781869/69‑1 (MQ=255)
                 ggCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:2811691/69‑1 (MQ=255)
                 ggCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:2922796/69‑1 (MQ=255)
                  gCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:1020677/68‑1 (MQ=255)
                  gCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAggg                                               <  1:3358985/68‑1 (MQ=255)
                  gCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGt                                              >  1:439819/1‑69 (MQ=255)
                  gCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGt                                              >  1:2658587/1‑69 (MQ=255)
                  gCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGt                                              >  1:3290956/1‑69 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:2921573/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:2821266/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:949251/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:3185947/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:926513/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:1156243/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:2234571/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:488810/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:2052628/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:1265203/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:1904969/67‑1 (MQ=255)
                            gAGTTACCCATCTGACGGGCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGAc                                      <  1:1684523/67‑1 (MQ=255)
                                 aCCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTa                                             >  1:2170516/1‑55 (MQ=255)
                                 aCCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTgg                                >  1:1382051/1‑68 (MQ=255)
                                        tGACGGTCAGGGAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAg                         >  1:1240647/1‑68 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGTAAGCGTCGATTAGGGTATGCGGACGATTGGCCca                            >  1:2150933/1‑65 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACg                                     >  1:217991/1‑56 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCcaca                          >  1:357521/1‑67 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCca                            >  1:1706628/1‑65 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCca                            >  1:3229747/1‑65 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCca                            >  1:1513099/1‑65 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCca                            >  1:2908922/1‑65 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCca                            >  1:3382383/1‑65 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCca                            >  1:269218/1‑65 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCca                            >  1:2155364/1‑65 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAg                         >  1:3309125/1‑68 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAg                         >  1:1545932/1‑68 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAg                         >  1:2640976/1‑68 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAg                         >  1:2113321/1‑68 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAg                         >  1:2208030/1‑68 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAg                         >  1:2848839/1‑68 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTg                                 >  1:867632/1‑60 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCcaca                          >  1:1829709/1‑67 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAg                         >  1:2414116/1‑68 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAg                         >  1:1817891/1‑68 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAg                         >  1:2753173/1‑68 (MQ=255)
                                        tGACGGTCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAg                         >  1:1833849/1‑68 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:1624832/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:69827/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:32827/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:158722/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:1300081/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:173103/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:614162/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:1451066/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:546337/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:384119/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:1291837/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:406537/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:1728870/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:3075527/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:313151/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:1214367/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:2252390/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:918672/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:2860366/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:2803702/69‑1 (MQ=255)
                                              tCAGGCAGACCGACTTCCAAACCGGAAGCGCCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:284330/69‑1 (MQ=255)
                                              gcAGGCAGACCGACTTCCAAACCGGAAGCGTCGATCAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:292557/68‑1 (MQ=255)
                                               cAGGCAGACCGACTTCCAGACCGGAAGCGTCGTTTAggg                                               <  1:2620230/39‑1 (MQ=255)
                                               cAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  >  1:545903/1‑68 (MQ=255)
                                                    aGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:724766/63‑1 (MQ=255)
                                                    aGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:2002584/63‑1 (MQ=255)
                                                    aGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:2433407/63‑1 (MQ=255)
                                                    aGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:456240/63‑1 (MQ=255)
                                                    aGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:2575398/63‑1 (MQ=255)
                                                    aGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:2616017/63‑1 (MQ=255)
                                                    aGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:2805420/63‑1 (MQ=255)
                                                    aGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:1806452/63‑1 (MQ=255)
                                                    aGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:2929518/63‑1 (MQ=255)
                                                    aGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:916566/63‑1 (MQ=255)
                                                     gACCGACTTCCAGACCGGAAGCGTCTATTAGGGTATGCGGACGATTGGCCCACAGTGCATcc                  <  1:2208505/62‑1 (MQ=255)
                                                      tccGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTTGCCCACAGTGCATcc                  <  1:328185/60‑1 (MQ=255)
                                                        cGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATCCATTACCgggg        >  1:2058765/1‑69 (MQ=255)
                                                        cGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATCCATTACCgggg        >  1:2618778/1‑69 (MQ=255)
                                                          aCTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATCCATTACCGGGGt       >  1:445449/1‑68 (MQ=255)
                                                          aCTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATCCATTACCGGGGt       >  1:3057291/1‑68 (MQ=255)
                                                              ccAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATCCATTACCGGGGTTTTAg  >  1:861566/1‑69 (MQ=255)
                                                              ccAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATCCATTACCGGGGTTTTAg  >  1:1769063/1‑69 (MQ=255)
                                                              ccAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATCCATTACCGGGGTTTTAg  >  1:1968837/1‑69 (MQ=255)
                                                                 |                                                                 
GGCACCCAGGTTAACGTGGCCTACTTCGGAGTTACCCATCTGACGGTCAGGCAGACCGACTTCCAGACCGGAAGCGTCGATTAGGGTATGCGGACGATTGGCCCACAGTGCATCCATTACCGGGGTTTTAG  >  minE/2555997‑2556127

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A