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
A6 F1 I0 R1 2892 75.3 5698161 66.1% 3766484 59.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,934,161 G→A 24.3% R94R (CGC→CGT)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,934,1610GA24.3% 203.0 / 63.6 116R94R (CGC→CGT) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (42/45);  new base A (24/4);  total (67/49)
Fisher's exact test for biased strand distribution p-value = 4.16e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01

Only 100 of 117 total aligned reads displayed.

GTCCCATTTTTTGAACTGCTCGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGG  >  minE/1934092‑1934227
                                                                     |                                                                  
gTCCCATTTTTTGAACTGCTCGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGc                                                                   >  1:1882190/1‑71 (MQ=255)
     aTTTTTTGAACTGCTCGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGAc                                                                >  1:296627/1‑69 (MQ=255)
     aTTTTTTGAACTGCTCGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCg                                                              >  1:2809910/1‑71 (MQ=255)
     aTTTTTTGAACTGCTCGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCg                                                              >  1:2943895/1‑71 (MQ=255)
     aTTTTTTAAACTGATCGTTATAAACACCTTCTGGCAGGCTATCTCTTGCAACGTACAGTTGAATACGGcca                                                              >  1:4767942/1‑70 (MQ=255)
     aTTTTTTAAACTGATCGTTATAAACACCTTCTGGCAGGCTATCTCTTGCAACGTACAGTTGAATACGGcca                                                              >  1:2388906/1‑70 (MQ=255)
     aTTTTTTAAACTGATCGTTATAAACACCTTCTGGCAGGCTATCTCTTGCAACGTACAGTTGAATACGGcca                                                              >  1:3426560/1‑70 (MQ=255)
     aTTTTTTAAACTGATCGTTATAAACACCTTCTGGCAGGCTATCTCTTGCAACGTACAGTTGAATACGGcca                                                              >  1:3405972/1‑70 (MQ=255)
       tttttGAACTGCTCGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGc                                                             >  1:418436/1‑70 (MQ=255)
        ttttAAACTGATCGTTATAAACACCTTCTGGCAGGCTATCTCTTGCAACGTACAGTTGAATACGGCCAcc                                                            >  1:3243048/1‑70 (MQ=255)
        ttttAAACTGATCGTTATAAACACCTTCTGGCAGGCTATCTCTTGCAACGTACAGTTGAATACGGCCAcc                                                            >  1:3316314/1‑70 (MQ=255)
         tttGAACTGCTCGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCa                                                           <  1:2318093/70‑1 (MQ=255)
           taaaCTGATCGTTATAAACACCTTCTGGCAGGCTATCTCTTGCAACGTACAGTTGAATACGGCCACCGAca                                                        >  1:2601234/3‑70 (MQ=255)
           taaaCTGATCGTTATAAACACCTTCTGGCAGGCTATCTCTTGCAACGTACAGTTGAATACGGCCACCGAca                                                        >  1:3441751/3‑70 (MQ=255)
            gAACTGCTCGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACg                                                        <  1:50296/70‑1 (MQ=255)
             aaCTGCTCGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTc                                                      <  1:2636232/71‑1 (MQ=255)
                    cGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAgg                                               >  1:4000042/1‑71 (MQ=255)
                     gTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAggg                                              >  1:3317548/1‑71 (MQ=255)
                       tataAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGc                                                  <  1:4041612/65‑1 (MQ=255)
                       tataAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGt                                             >  1:218029/1‑70 (MQ=255)
                       tataAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGt                                             >  1:4648808/1‑70 (MQ=255)
                        ataAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTaa                                           >  1:3361187/1‑71 (MQ=255)
                          aaaCGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATg                                                                    <  1:3328117/44‑1 (MQ=255)
                           aaCGCCTTCCGGGAGATCGTCACGGGCAACGTCCAGCTGAATGCGACCGCCa                                                           >  1:1493144/1‑52 (MQ=255)
                             cGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTc                                                      >  1:1558446/1‑55 (MQ=255)
                                 ttCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCg                                                                  <  1:3309639/39‑1 (MQ=255)
                                 ttCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCg                                                                  <  1:4397086/39‑1 (MQ=255)
                                 ttCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCg                                                                  <  1:876855/39‑1 (MQ=255)
                                 ttCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGcc                                                            <  1:1479649/45‑1 (MQ=255)
                                 ttCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGc                                                  <  1:3751635/55‑1 (MQ=255)
                                  tCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGa                                                                 >  1:1827217/1‑39 (MQ=255)
                                  tCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGa                                                                 >  1:2600601/1‑39 (MQ=255)
                                  tCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGc                                 >  1:2419192/1‑71 (MQ=255)
                                   ccGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGAc                                                                >  1:4034452/1‑39 (MQ=255)
                                   ccGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGAc                                                                >  1:30936/1‑39 (MQ=255)
                                   ccGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTTCAGGGTAACGAAAGACGc                                 <  1:4037873/70‑1 (MQ=255)
                                   ccGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGc                                 <  1:315032/70‑1 (MQ=255)
                                   ccGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCt                                >  1:3594207/1‑71 (MQ=255)
                                   ccGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCt                                >  1:43532/1‑71 (MQ=255)
                                   ccGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCt                                >  1:830366/1‑71 (MQ=255)
                                     gggAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCttt                              <  1:2600185/71‑1 (MQ=255)
                                      ggAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTa                             <  1:4818060/71‑1 (MQ=255)
                                         gaTCGTCACGGGCAACGTACAGCTGAATGCGACCGcc                                                            >  1:3085563/1‑37 (MQ=255)
                                         gaTCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAAc                                                         >  1:5595980/1‑40 (MQ=255)
                                           tCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCat                        <  1:1369846/71‑1 (MQ=255)
                                              tCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCataat                     <  1:4953092/71‑1 (MQ=255)
                                              tCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCat                        <  1:4254397/68‑1 (MQ=255)
                                              tCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCat                        <  1:1506555/68‑1 (MQ=255)
                                              tCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCat                        <  1:1500069/68‑1 (MQ=255)
                                               cACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAgg                                               >  1:5028445/1‑44 (MQ=255)
                                               cACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGa                                    >  1:3729867/1‑55 (MQ=255)
                                                aCGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATac                   >  1:2305793/1‑71 (MQ=255)
                                                aCGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATac                   >  1:3670634/1‑71 (MQ=255)
                                                aCGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATac                   >  1:5192515/1‑71 (MQ=255)
                                                 cttgCAACGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATac                   >  1:4010170/4‑70 (MQ=255)
                                                 cGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGa                                        <  1:5608964/49‑1 (MQ=255)
                                                 cGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGa                                        <  1:5206876/49‑1 (MQ=255)
                                                 cGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGa                                        <  1:1083991/49‑1 (MQ=255)
                                                 cGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGa                                        <  1:3553945/49‑1 (MQ=255)
                                                 cGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATac                   >  1:5431537/1‑70 (MQ=255)
                                                  ttgCAACGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATacga                 >  1:1882957/3‑71 (MQ=255)
                                                  gggCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacga                 <  1:4257391/71‑1 (MQ=255)
                                                    gCAACGTACAGTTGAATCCGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTccc                           >  1:2586352/1‑59 (MQ=255)
                                                    gCAACGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTccc                           >  1:2435601/1‑59 (MQ=255)
                                                    gCAACGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTccc                           >  1:3486407/1‑59 (MQ=255)
                                                     cAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACgg              >  1:1178934/1‑71 (MQ=255)
                                                      aaCGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCa                         <  1:1086633/59‑1 (MQ=255)
                                                       aCGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGt            >  1:3189115/1‑71 (MQ=255)
                                                       aCGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGt            >  1:1821742/1‑71 (MQ=255)
                                                       aCGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGt            <  1:1442921/71‑1 (MQ=255)
                                                        cGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGt            >  1:2923742/1‑70 (MQ=255)
                                                         gTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGaaa                                      <  1:4147612/43‑1 (MQ=255)
                                                         gTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGaaa                                      <  1:2922051/43‑1 (MQ=255)
                                                         gTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGa                                        <  1:5027833/41‑1 (MQ=255)
                                                          tACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGtcat         <  1:459105/71‑1 (MQ=255)
                                                          tACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACg                                  <  1:3633276/46‑1 (MQ=255)
                                                          tACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtcat         >  1:2695632/1‑71 (MQ=255)
                                                          tACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtcat         <  1:192176/71‑1 (MQ=255)
                                                           aCAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacg                  >  1:1351298/1‑61 (MQ=255)
                                                            cAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGaa                                       >  1:256010/1‑39 (MQ=255)
                                                            cAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCt                                >  1:1692253/1‑46 (MQ=255)
                                                            cAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtcatca       >  1:2369524/1‑71 (MQ=255)
                                                            cAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtcatca       >  1:2739834/1‑71 (MQ=255)
                                                            cAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtcatc        <  1:5568952/70‑1 (MQ=255)
                                                             aGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTcatcat      <  1:4756993/71‑1 (MQ=255)
                                                                tGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg   >  1:65613/1‑71 (MQ=255)
                                                                 gAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCttt                              <  1:2181078/43‑1 (MQ=255)
                                                                 gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCgg  >  1:2287907/1‑71 (MQ=255)
                                                                 gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCgg  >  1:2526588/1‑71 (MQ=255)
                                                                 gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg   >  1:1549295/1‑70 (MQ=255)
                                                                 gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg   <  1:3245899/70‑1 (MQ=255)
                                                                  aaTGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCa                         <  1:3626458/47‑1 (MQ=255)
                                                                  aaTACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCgg  <  1:4012404/70‑1 (MQ=255)
                                                                  aaTACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg   <  1:4738092/69‑1 (MQ=255)
                                                                    tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCataa                      <  1:5474961/48‑1 (MQ=255)
                                                                    tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCataa                      <  1:2251878/48‑1 (MQ=255)
                                                                    tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacgacg               >  1:5491071/1‑55 (MQ=255)
                                                                    tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacgacg               >  1:3691850/1‑55 (MQ=255)
                                                                    tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacgac                <  1:63102/54‑1 (MQ=255)
                                                                    tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacgac                <  1:759894/54‑1 (MQ=255)
                                                                     |                                                                  
GTCCCATTTTTTGAACTGCTCGTTATAAACGCCTTCCGGGAGATCGTCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGG  >  minE/1934092‑1934227

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