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 2,551,684 A→G 51.2% E97E (GAA→GAG)  yibD → predicted glycosyl transferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,551,6840AG51.2% 6.2 / 115.9 129E97E (GAA→GAG) yibDpredicted glycosyl transferase
Reads supporting (aligned to +/- strand):  ref base A (25/38);  new base G (38/28);  total (63/66)
Fisher's exact test for biased strand distribution p-value = 5.30e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.17e-01

Only 100 of 129 total aligned reads displayed.

GCGCGTAATCGTGGGATTGAAGTGGCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGGACGACCTCGACGTGGCGCAG  >  minE/2551619‑2551750
                                                                 |                                                                  
gcgcGTAATCGTGGGATTGAAGTGGCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:3400281/69‑1 (MQ=255)
gcgcGTAATCGTGGGATTGAAGTGGCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:2848704/69‑1 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:1054263/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:823367/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:301661/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:2792118/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:2646307/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:2569854/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:2252834/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:2200924/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:1243912/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:1233291/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaaa                                              >  1:1051977/1‑69 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaa                                               >  1:2058892/1‑68 (MQ=255)
                   aaGTGGCAACGGGAAAATATGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGaa                                               >  1:2881817/1‑68 (MQ=255)
                      tGGCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAAc                                             >  1:2528599/1‑67 (MQ=255)
                      tGGCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACg                                            >  1:2190972/1‑68 (MQ=255)
                       ggCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCt                                          <  1:2483499/69‑1 (MQ=255)
                       ggCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCt                                          <  1:36192/69‑1 (MQ=255)
                       ggCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCt                                          <  1:2145043/69‑1 (MQ=255)
                       ggCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCt                                          <  1:3133803/69‑1 (MQ=255)
                       ggCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCt                                          <  1:2646666/69‑1 (MQ=255)
                       ggCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCt                                          <  1:1135565/69‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:1373979/45‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:946619/45‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:2582592/45‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:2969995/45‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:1076649/45‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:1067466/45‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:381598/45‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:696165/45‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:811601/45‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:1974323/45‑1 (MQ=255)
                        gCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTc                                                                 <  1:2027962/45‑1 (MQ=255)
                         cAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCtg                                         <  1:1518111/68‑1 (MQ=255)
                          aaCGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCtgat                                       <  1:2444638/69‑1 (MQ=255)
                          aaCGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCtgat                                       <  1:2902768/69‑1 (MQ=255)
                             gggCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGAc                                    <  1:2801579/69‑1 (MQ=255)
                             gggCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGAc                                    <  1:1999067/69‑1 (MQ=255)
                                    tatGTCGCTTTTGTCTATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:3241447/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCccac                                                         >  1:852730/1‑41 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:1843996/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:289795/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:2225858/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:3210853/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:422689/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:57065/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:762812/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:825379/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:1374436/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:1119970/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:2637824/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:2148759/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:2334168/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:237555/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:418890/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:374166/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:499446/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:3394330/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:696143/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:254688/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:1160811/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:791160/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:2271697/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:2915555/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:940707/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:1112340/1‑68 (MQ=255)
                                    tatGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGc                              >  1:119165/1‑68 (MQ=255)
                                    tatGTAGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACAATGTACGaaa                                              >  1:1399172/1‑52 (MQ=39)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACTAAACGCTGATGACCATGGCGTTAGAGga                     <  1:1891474/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:2420532/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:163316/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:593762/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:857690/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:524072/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:49231/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:2491482/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:2764047/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:3067318/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:2844763/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:1960301/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:2940864/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:3006589/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:3155983/69‑1 (MQ=255)
                                            ttttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:3308462/69‑1 (MQ=255)
                                             tttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:1942363/68‑1 (MQ=255)
                                             tttGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGgac                    <  1:7075/69‑1 (MQ=255)
                                             tttGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGgac                    <  1:1801921/69‑1 (MQ=255)
                                             tttGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGgac                    <  1:853604/69‑1 (MQ=255)
                                             tttGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGgac                    <  1:2575141/69‑1 (MQ=255)
                                             tttGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGgac                    <  1:873047/69‑1 (MQ=255)
                                              ttGTCGATGCTGACGATGAGGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGga                     <  1:2120757/67‑1 (MQ=255)
                                                gTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGgacg                   <  1:889128/67‑1 (MQ=255)
                                                  cGATGCTGACGATGAAGTCTAACCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGgacg                   <  1:1905726/65‑1 (MQ=255)
                                                               gAAGTCTATCCGACCATGTACGAAACGCTGATGACCATGGCGTTAGAGGACGACCTCGACGTGGCGCAg  >  1:1657825/1‑69 (MQ=255)
                                                               gAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGGACGACCTCGACGTGGCGCAg  >  1:3329175/1‑69 (MQ=255)
                                                               gAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGGACGACCTCGACGTGGCGCAg  >  1:3333463/1‑69 (MQ=255)
                                                               gAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGGACGACCTCGACGTGGCGCAg  >  1:3097189/1‑69 (MQ=255)
                                                               gAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGGACGACCTCGACGTGGCGCAg  >  1:399023/1‑69 (MQ=255)
                                                               gAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGGACGACCTCGACGTGGCGCAg  >  1:37498/1‑69 (MQ=255)
                                                                 |                                                                  
GCGCGTAATCGTGGGATTGAAGTGGCAACGGGCAAATATGTCGCTTTTGTCGATGCTGACGATGAAGTCTATCCCACCATGTACGAAACGCTGATGACCATGGCGTTAGAGGACGACCTCGACGTGGCGCAG  >  minE/2551619‑2551750

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