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 1,299,765 G→A 37.5% L66L (CTG→TTG)  yeeX ← conserved hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,299,7650GA37.5% 60.5 / 64.0 101L66L (CTG→TTG) yeeXconserved hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (36/27);  new base A (10/28);  total (46/55)
Fisher's exact test for biased strand distribution p-value = 3.70e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 130 total aligned reads displayed.

GATGATGCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGTT  >  minE/1299700‑1299831
                                                                 |                                                                  
gatgatGCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCcagcagcag                                                                 <  1:419008/69‑1 (MQ=255)
gatgatGCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCcagcagcag                                                                 <  1:2489788/69‑1 (MQ=255)
gatgatGCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCcagcagcag                                                                 <  1:1104750/69‑1 (MQ=255)
gatgatGCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCcagcagcag                                                                 <  1:577052/69‑1 (MQ=255)
gatgatGCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCcagcagcag                                                                 <  1:22000/69‑1 (MQ=255)
gatgatGCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCcagcagcag                                                                 <  1:2695404/69‑1 (MQ=255)
gatgatGCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCcagcagcag                                                                 <  1:2685337/69‑1 (MQ=255)
gatgatGCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCcagcagcag                                                                 <  1:3139533/69‑1 (MQ=255)
 atgatgCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCcagcagcag                                                                 <  1:2655956/68‑1 (MQ=255)
              ttGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTg                                                     <  1:2016274/67‑1 (MQ=255)
              ttGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTg                                                     <  1:1377169/67‑1 (MQ=255)
               tGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTg                                                     <  1:3121752/66‑1 (MQ=255)
                       cGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACgg                                           <  1:1849212/68‑1 (MQ=255)
                       cGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACgg                                           <  1:636863/68‑1 (MQ=255)
                       cGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACgg                                           <  1:1616038/68‑1 (MQ=255)
                       cGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACgg                                           <  1:1065084/68‑1 (MQ=255)
                             tCCCCGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTg                                                     <  1:336868/52‑1 (MQ=255)
                              ccctGGCTTGATGTATTCGCTCATGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:697197/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:208344/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:699955/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:212110/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:2591689/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:2161299/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:2373546/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:2925727/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:2756682/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:1658269/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:2972659/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:950029/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:142145/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:1298166/68‑1 (MQ=255)
                              ccctGGCTTGATGTAATCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    <  1:1157241/68‑1 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:2856577/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:497013/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:2939067/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:565796/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:526826/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:3340060/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:2573904/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:3418780/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:2517367/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:1069394/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:2111429/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:715895/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:1682300/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCttttt                                   >  1:175058/1‑68 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    >  1:3093003/1‑67 (MQ=255)
                               cccGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCtttt                                    >  1:279607/1‑67 (MQ=255)
                                 cGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTtctc                                <  1:700289/69‑1 (MQ=255)
                                 cGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTtctc                                <  1:2033814/69‑1 (MQ=255)
                                          gTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTg                       <  1:1033187/69‑1 (MQ=255)
                                          gTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTg                       <  1:2897198/69‑1 (MQ=255)
                                          gTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTg                       <  1:805962/69‑1 (MQ=255)
                                          gTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTg                       <  1:198031/69‑1 (MQ=255)
                                          gTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTg                       <  1:2951194/69‑1 (MQ=255)
                                          gTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTg                       <  1:911266/69‑1 (MQ=255)
                                           tAATCGCTCAGGTTGTCCAGGAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGa                      >  1:363318/1‑69 (MQ=255)
                                           tAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGa                      >  1:2915210/1‑69 (MQ=255)
                                           tAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGa                      >  1:1407257/1‑69 (MQ=255)
                                            aaTCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGaa                     >  1:1631963/1‑69 (MQ=255)
                                            aaTCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGaa                     >  1:526434/1‑69 (MQ=255)
                                            aaTCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGaa                     >  1:2253623/1‑69 (MQ=255)
                                              tCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTc                                               <  1:1085169/41‑1 (MQ=255)
                                              tCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTc                                               <  1:516564/41‑1 (MQ=255)
                                              tCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTc                                               <  1:2762281/41‑1 (MQ=255)
                                              tCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTc                                               <  1:2938209/41‑1 (MQ=255)
                                              tCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTc                                               <  1:384345/41‑1 (MQ=255)
                                              tCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTc                                               <  1:254358/41‑1 (MQ=255)
                                              tCGCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTc                                               <  1:138700/41‑1 (MQ=255)
                                                gCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTc                 >  1:2532140/1‑69 (MQ=255)
                                                gCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTc                 >  1:2872522/1‑69 (MQ=255)
                                                gCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTc                 >  1:1717345/1‑69 (MQ=255)
                                                gCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTc                 >  1:1720084/1‑69 (MQ=255)
                                                gCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTc                 >  1:2508234/1‑69 (MQ=255)
                                                gCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCt                                       >  1:309712/1‑47 (MQ=255)
                                                gCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCt                                       >  1:1216229/1‑47 (MQ=255)
                                                gCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCt                                       >  1:317042/1‑47 (MQ=255)
                                                gCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCt                                       >  1:81895/1‑47 (MQ=255)
                                                gCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCt                                       >  1:1160106/1‑47 (MQ=255)
                                                gCTCAGGTTGTCCAGCAACAGGACGCGCTTCTGGTTGTCACGGATCt                                       >  1:201975/1‑47 (MQ=255)
                                                        tggccAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCa         >  1:2798582/4‑69 (MQ=255)
                                                        tGTCCATCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCa         >  1:440266/1‑69 (MQ=255)
                                                        tGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCa         >  1:387432/1‑69 (MQ=255)
                                                              gcagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGt   <  1:976549/69‑1 (MQ=255)
                                                              gcagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGt   <  1:2754760/69‑1 (MQ=255)
                                                              gcagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGt   <  1:1905040/69‑1 (MQ=255)
                                                              gcagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGt   <  1:1182883/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:3268532/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:3142064/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:2998468/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:2815970/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:2700375/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:2635407/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:2126129/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:2045828/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:781738/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:1552362/69‑1 (MQ=255)
                                                               cagcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:1506946/69‑1 (MQ=255)
                                                                agcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:381763/68‑1 (MQ=255)
                                                                agcagGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGtt  <  1:1619287/68‑1 (MQ=255)
                                                                 |                                                                  
GATGATGCCCTGGATTGCTTCAACGCTCATCCCCGGCTTGATGTAATCGCTCAGGTTGTCCAGCAGCAGGACGCGCTTCTGGTTGTCACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGTT  >  minE/1299700‑1299831

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