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 527,734 A→G 30.9% I163V (ATA→GTA)  ybhM → conserved inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE527,7340AG30.9% 115.6 / 65.3 129I163V (ATA→GTA) ybhMconserved inner membrane protein
Reads supporting (aligned to +/- strand):  ref base A (34/55);  new base G (26/14);  total (60/69)
Fisher's exact test for biased strand distribution p-value = 7.21e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 133 total aligned reads displayed.

GACGTTGACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATAAGCTCCTTG  >  minE/527667‑527800
                                                                   |                                                                  
gaCGTTGACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGat                                                                   >  1:1071480/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGat                                                                   >  1:687836/1‑63 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:2369377/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:700832/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:647276/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:553772/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:367479/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:3334694/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:2927403/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:2423454/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:1898785/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:1879210/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:1695565/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:1235990/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:1161743/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:1158457/1‑69 (MQ=255)
      gACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAg                                                             >  1:1244944/1‑69 (MQ=255)
         aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                           <  1:2659799/68‑1 (MQ=255)
         aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                           <  1:1552153/68‑1 (MQ=255)
         aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                           <  1:1589361/68‑1 (MQ=255)
         aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                           <  1:547475/68‑1 (MQ=255)
         aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                           <  1:302683/68‑1 (MQ=255)
         aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                           <  1:1930780/68‑1 (MQ=255)
         aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                           <  1:1837997/68‑1 (MQ=255)
         aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                           <  1:1102779/68‑1 (MQ=255)
         aGGGTTGGCCCTGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACCCATTTGGGTAATAAGtt                                                           <  1:187487/68‑1 (MQ=255)
                 cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                                   <  1:2177748/68‑1 (MQ=255)
                 cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                                   <  1:2349869/68‑1 (MQ=255)
                 cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                                   <  1:2755049/68‑1 (MQ=255)
                 cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                                   <  1:2859500/68‑1 (MQ=255)
                 cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                                   <  1:344994/68‑1 (MQ=255)
                 cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                                   <  1:3420785/68‑1 (MQ=255)
                 cccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                                   <  1:1643985/68‑1 (MQ=255)
                  ccTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATg                                                   <  1:2727689/67‑1 (MQ=255)
                    tGGTAATCATCGTGAATGCCACATTAATGAGTGAACGACGCATTTGGGTAATAAGtt                                                           <  1:1449069/57‑1 (MQ=255)
                     ggTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATtgt                                              <  1:782974/69‑1 (MQ=255)
                        aaTCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                           <  1:1426815/69‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTgtgt                                            <  1:3256932/64‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTgtgt                                            <  1:3260118/64‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                           <  1:424589/65‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                           <  1:2460480/65‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                           <  1:2381019/65‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                           <  1:1213268/65‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                           <  1:312777/65‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                           <  1:1339303/65‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                           <  1:1517019/65‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                           <  1:928884/65‑1 (MQ=255)
                            atcGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGtt                                           <  1:1942648/65‑1 (MQ=255)
                                 gAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAgg                                  <  1:327641/69‑1 (MQ=255)
                                 gAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAgg                                  <  1:2993460/69‑1 (MQ=255)
                                 gAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAgg                                  <  1:1299411/69‑1 (MQ=255)
                                  aaTGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAgg                                  <  1:419438/68‑1 (MQ=255)
                                     gCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCAt                               >  1:217995/1‑68 (MQ=255)
                                           ttAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATtgt                                              <  1:1323638/47‑1 (MQ=255)
                                           ttAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        >  1:2054550/1‑69 (MQ=255)
                                            tAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTgtgt                                            <  1:2116701/48‑1 (MQ=255)
                                             aaTGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCa                      >  1:2113230/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:2901394/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:2202599/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:1862499/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:1839682/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:175952/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:3363000/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:312778/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:1865200/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:2805143/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:1889108/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:2020757/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:2489278/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:1113526/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:2398609/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:2097296/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:1033804/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:545570/1‑69 (MQ=255)
                                               tGAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTATCATg                    >  1:2402898/1‑69 (MQ=255)
                                               cgAGTGAACGACCCATTTGGGTAATAAGTTGCTTAATGATTGTCTTATGGTCAGGCATTATCTCGCATg                    >  1:1888704/2‑69 (MQ=255)
                                                    gAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGa               <  1:1367786/69‑1 (MQ=255)
                                                    gAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGa               <  1:2178182/69‑1 (MQ=255)
                                                        ggCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATa           <  1:984164/69‑1 (MQ=255)
                                                        ggCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATa           <  1:3404028/69‑1 (MQ=255)
                                                        ggCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATa           <  1:2061904/69‑1 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTAtctc                         >  1:2528304/1‑47 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        >  1:600190/1‑48 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        >  1:1520109/1‑48 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        >  1:904275/1‑48 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        <  1:703673/48‑1 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        <  1:1301441/48‑1 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        >  1:2058802/1‑48 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        <  1:650787/48‑1 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        <  1:3308632/48‑1 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        >  1:2233354/1‑48 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        >  1:2253155/1‑48 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        >  1:1245365/1‑48 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        >  1:2670623/1‑48 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        >  1:2902370/1‑48 (MQ=255)
                                                                tGGATAATAAGTTGCTTAATGATTCTGTTATGGTCAGGCATTATCTCg                        <  1:1818928/48‑1 (MQ=255)
                                                                 ggATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCg                        <  1:850972/47‑1 (MQ=255)
                                                                  gATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATAAGCTCCTTg  <  1:746890/68‑1 (MQ=255)
                                                                  gATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATAAGCTCCTTg  <  1:3121497/68‑1 (MQ=255)
                                                                  gATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATAAGCACCTTg  <  1:2895188/68‑1 (MQ=255)
                                                                   |                                                                  
GACGTTGACAGGGTTGGCCCTGGTAATCATCGTGAATGCGGCATTAATGAGTGAACGGCCCATTTGGATAATAAGTTGCTTAATGATTGTGTTATGGTCAGGCATTATCTCGCATGGACGAAATAAGCTCCTTG  >  minE/527667‑527800

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