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 2,795,810 T→C 40.5% A100A (GCT→GCC)  dgkA → diacylglycerol kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,795,8100TC40.5% 45.1 / 84.5 116A100A (GCT→GCC) dgkAdiacylglycerol kinase
Reads supporting (aligned to +/- strand):  ref base T (24/45);  new base C (29/18);  total (53/63)
Fisher's exact test for biased strand distribution p-value = 4.85e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.00e-01

Only 100 of 116 total aligned reads displayed.

GGTTGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGTTATGGT  >  minE/2795747‑2795865
                                                               |                                                       
ggTTGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGt                                                    >  1:2009101/1‑69 (MQ=255)
ggTTGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGt                                                    >  1:370319/1‑69 (MQ=255)
ggTTGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGt                                                    >  1:2232713/1‑69 (MQ=255)
ggTTGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGt                                                    >  1:1387072/1‑69 (MQ=255)
 gTTGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTg                                                   >  1:414339/1‑69 (MQ=255)
   tGACCTAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCt                                                 <  1:2032651/69‑1 (MQ=255)
   tGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCt                                                 <  1:692907/69‑1 (MQ=255)
   tGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCt                                                 <  1:1867340/69‑1 (MQ=255)
   tGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCt                                                 <  1:3394617/69‑1 (MQ=255)
   tGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCt                                                 <  1:2176530/69‑1 (MQ=255)
   tGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCt                                                 <  1:2298835/69‑1 (MQ=255)
   tGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCt                                                 <  1:2801525/69‑1 (MQ=255)
   tGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCt                                                 <  1:2531325/69‑1 (MQ=255)
       cGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGAtt                                             <  1:2716873/69‑1 (MQ=255)
       cGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGAtt                                             <  1:2596272/69‑1 (MQ=255)
       cGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGAtt                                             <  1:2702086/69‑1 (MQ=255)
        gAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGAtt                                             <  1:1669261/68‑1 (MQ=255)
             ggCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCAtt                                       <  1:2667484/69‑1 (MQ=255)
             ggCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCAtt                                       <  1:3255607/69‑1 (MQ=255)
                tctGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTAtc                                    <  1:1586865/69‑1 (MQ=255)
                tctGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTAtc                                    <  1:593750/69‑1 (MQ=255)
                    aaTACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCAtt                                       >  1:912675/1‑62 (MQ=255)
                    aaTACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCAtt                                       >  1:2909098/1‑62 (MQ=255)
                    aaTACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCAtt                                       >  1:3045541/1‑62 (MQ=255)
                    aaTACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCAtt                                       >  1:3115381/1‑62 (MQ=255)
                    aaTACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCAtt                                       >  1:1068364/1‑62 (MQ=255)
                          aTGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:3000537/68‑1 (MQ=255)
                          aTGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:128099/68‑1 (MQ=255)
                          aTGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:2430836/68‑1 (MQ=255)
                          aTGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:347769/68‑1 (MQ=255)
                          aTGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:3232082/68‑1 (MQ=255)
                          aTGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:3228104/68‑1 (MQ=255)
                          aTGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:290007/68‑1 (MQ=255)
                          aTGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:207964/68‑1 (MQ=255)
                          aTGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:823060/68‑1 (MQ=255)
                          aTGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:302609/68‑1 (MQ=255)
                           tGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTg                           <  1:289025/67‑1 (MQ=255)
                            taGCTTTCCGGACGCGCTAAAGATATGGGATATGCCGCAGTGCTGATTGc                                           >  1:3258656/2‑50 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:2904703/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1367059/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1331839/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:2780125/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1492644/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1502563/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:294159/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1521982/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1565471/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1544581/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:3259407/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:547318/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1118890/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1996311/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1925583/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:2116988/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1787511/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:783812/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:770587/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:2582087/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:231508/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:2359348/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:1217551/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:2476793/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:3363858/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGAtt                        >  1:2548072/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCTAAAGATATGGGATCTGCCGCAGTGCTAATTGCCATTATCGTCGCCGTGAtt                        >  1:388389/1‑69 (MQ=255)
                            gAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGAtt                        <  1:1155618/69‑1 (MQ=255)
                            gAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGAtt                        <  1:1373557/69‑1 (MQ=255)
                            gAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGAtt                        <  1:2632712/69‑1 (MQ=255)
                             aGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTa                       >  1:3146831/1‑69 (MQ=255)
                             aGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTa                       >  1:2480845/1‑69 (MQ=255)
                              gCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTAc                      >  1:2377205/1‑69 (MQ=255)
                              gCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCCGTGCTGATTGCCATTATCGTCGCCGTGATTAc                      >  1:2957406/1‑69 (MQ=255)
                                               aaGATATGGGATCCGCTGCGGTGCTGATTGGCATTATCGTCGCCGTg                           <  1:377848/47‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:2394421/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:1936169/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:889734/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:563909/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:526360/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:459241/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:2966693/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:1238897/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:2664957/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:2986461/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:2921616/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:1930209/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:311242/67‑1 (MQ=255)
                                                 gATATGGGATCTGCCGCAGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATCCTGTTAt     <  1:3206080/67‑1 (MQ=255)
                                                  atatGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGTTATGGt  <  1:1610263/69‑1 (MQ=255)
                                                  atatGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGTTATGGt  <  1:1161502/69‑1 (MQ=255)
                                                  atatGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGTTATGGt  <  1:2850272/69‑1 (MQ=255)
                                                  atatGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGTTATGGt  <  1:2276781/69‑1 (MQ=255)
                                                  atatGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGTTATGGt  <  1:574672/69‑1 (MQ=255)
                                                  atatGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGTTATGGt  <  1:11572/69‑1 (MQ=255)
                                                  atatGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGTTATGGt  <  1:2214218/69‑1 (MQ=255)
                                                   tatGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGTTATGGt  <  1:1413769/68‑1 (MQ=255)
                                                     tGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGtt       >  1:2250697/1‑61 (MQ=255)
                                                     tGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGtt       >  1:1705651/1‑61 (MQ=255)
                                                     tGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGtt       >  1:1818485/1‑61 (MQ=255)
                                                     tGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGtt       >  1:2678533/1‑61 (MQ=255)
                                                     tGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGtt       >  1:2585929/1‑61 (MQ=255)
                                                               |                                                       
GGTTGACCGAATTGGCTCTGAATACCATGAGCTTTCCGGACGCGCAAAAGATATGGGATCCGCTGCGGTGCTGATTGCCATTATCGTCGCCGTGATTACCTGGTGCATTCTGTTATGGT  >  minE/2795747‑2795865

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