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 F28 I2 R2 36 87.2 4157695 97.3% 4045437 63.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA minE 2,674,677 G→A intergenic (‑140/+220) gntT ← / ← gntY gluconate transporter, high‑affinity GNT I system/predicted gluconate transport associated protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,674,6770GA99.2% 368.7 / NA 118intergenic (‑140/+220)gntT/gntYgluconate transporter, high‑affinity GNT I system/predicted gluconate transport associated protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (54/63);  minor base T (0/1);  total (54/64)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 121 total aligned reads displayed.

GAACAGAGATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAGTATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCGGGGTA  >  minE/2674610‑2674743
                                                                   |                                                                  
gAACAGAGATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAatat                                                                 <  1:2068789/71‑1 (MQ=255)
gAACAGAGATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAatat                                                                 <  1:3561404/71‑1 (MQ=255)
 aaCAGAGATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATg                                                                >  1:2109641/1‑71 (MQ=255)
 aaCAGAGATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATg                                                                >  1:343881/1‑71 (MQ=255)
 aaCAGAGATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATg                                                                >  1:1905889/1‑71 (MQ=255)
  aCAGAGATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGACGTCAGGAATATGt                                                               <  1:771660/71‑1 (MQ=255)
    agagATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGttt                                                             <  1:1978648/71‑1 (MQ=255)
    agagATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGttt                                                             <  1:3836159/71‑1 (MQ=255)
    agagATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGttt                                                             <  1:1980528/71‑1 (MQ=255)
      agaTATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTgg                                                           >  1:782198/1‑71 (MQ=255)
           ttGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTAccc                                                      <  1:454461/71‑1 (MQ=255)
           ttGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTAccc                                                      <  1:3737910/71‑1 (MQ=255)
            tGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTgg                                                           >  1:2107037/1‑65 (MQ=255)
            tGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCa                                                     >  1:1071763/1‑71 (MQ=255)
             gCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAt                                                    >  1:898953/1‑71 (MQ=255)
             gCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAt                                                    >  1:557459/1‑71 (MQ=255)
              cGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAt                                                    <  1:3018110/70‑1 (MQ=255)
               ggCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAtgt                                                  <  1:765302/71‑1 (MQ=255)
                gCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAtgtg                                                 <  1:1040112/71‑1 (MQ=255)
                gCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAtgtg                                                 <  1:3115691/71‑1 (MQ=255)
                gCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAtgtg                                                 <  1:3037515/71‑1 (MQ=255)
                gCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAtgtg                                                 <  1:3673911/71‑1 (MQ=255)
                gCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAtgtg                                                 <  1:1246518/71‑1 (MQ=255)
                gCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAtgtg                                                 <  1:4132503/71‑1 (MQ=255)
                 caccacGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAtgtg                                                 >  1:617380/1‑70 (MQ=255)
                     acGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGa                                            <  1:3528416/71‑1 (MQ=255)
                     acGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTAACCATGTGAATGa                                            >  1:409731/1‑71 (MQ=255)
                      cGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAtgtg                                                 <  1:3120498/65‑1 (MQ=255)
                      cGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGa                                            >  1:791674/1‑70 (MQ=255)
                       gACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATa                                          >  1:191567/1‑71 (MQ=255)
                        aCTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATAc                                         <  1:3366353/71‑1 (MQ=255)
                        aCTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATAc                                         >  1:130980/1‑71 (MQ=255)
                            aTACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGtt                                                              >  1:2885122/1‑46 (MQ=255)
                             tACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGt                                     >  1:2528467/1‑70 (MQ=255)
                              aCCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGAt                                           <  1:2206408/63‑1 (MQ=255)
                               cccACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAAc                                  <  1:2802564/71‑1 (MQ=255)
                                ccACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGAt                                           <  1:153858/61‑1 (MQ=255)
                                 cACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAAc                                  >  1:1065268/1‑69 (MQ=255)
                                 cACTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACAt                                <  1:118026/71‑1 (MQ=255)
                                  aCTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATc                               <  1:2830783/71‑1 (MQ=255)
                                   cTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCt                              <  1:1774877/71‑1 (MQ=255)
                                   cTAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCt                              <  1:199276/71‑1 (MQ=255)
                                    tAAAACTAATTATTGTAGTCAGATGTCAGGAATATg                                                                <  1:1753698/36‑1 (MQ=255)
                                    tAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTAccaa                                                     >  1:2532655/1‑45 (MQ=255)
                                    tAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTg                             >  1:533440/1‑71 (MQ=255)
                                    tAAAACTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTg                             >  1:489515/1‑71 (MQ=255)
                                      aaaCTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGc                           <  1:1879069/71‑1 (MQ=255)
                                      aaaCTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATCTGAATGATACGGGTAACATCTg                             <  1:1154146/69‑1 (MQ=255)
                                        aCTAATTATTGTAGTCAGATGTCAGGAATATGTTTgg                                                           >  1:3966141/1‑37 (MQ=255)
                                         cTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGa                                            >  1:3425362/1‑51 (MQ=255)
                                         cTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGa                                            >  1:2363887/1‑51 (MQ=255)
                                         cTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGa                                            >  1:1173043/1‑51 (MQ=255)
                                         cTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGa                                            >  1:1086690/1‑51 (MQ=255)
                                         cTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATAc                                         <  1:218968/54‑1 (MQ=255)
                                         cTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGtt                        <  1:2967376/71‑1 (MQ=255)
                                         cTAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGtt                        <  1:1463409/71‑1 (MQ=255)
                                          tAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCAtgtg                                                 <  1:188395/45‑1 (MQ=255)
                                          tAATTATTGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACAt                                <  1:919110/62‑1 (MQ=255)
                                            attattGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGttt                       <  1:4111907/69‑1 (MQ=255)
                                            attattGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGttt                       >  1:1787109/1‑69 (MQ=255)
                                            attattGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGtt                        >  1:1047245/1‑68 (MQ=255)
                                            attattGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGtt                        >  1:1042445/1‑68 (MQ=255)
                                            attattGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTga                     <  1:174330/71‑1 (MQ=255)
                                             ttattGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAAc                                  <  1:3371377/57‑1 (MQ=255)
                                             ttattGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAAc                                  <  1:3446112/57‑1 (MQ=255)
                                               attGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTga                     >  1:1405643/1‑68 (MQ=255)
                                                ttGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATa                                          >  1:2483521/1‑46 (MQ=255)
                                                ttGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACa                                 <  1:1411663/55‑1 (MQ=255)
                                                ttGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGaa                  <  1:535288/70‑1 (MQ=255)
                                                 tGTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAAt                 >  1:843176/1‑70 (MQ=255)
                                                  gTAGTCAGATGTCAGGATTATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATc                <  1:523573/70‑1 (MQ=255)
                                                  gTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATAc                                         <  1:3864125/45‑1 (MQ=255)
                                                  gTAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATc                <  1:3619003/70‑1 (MQ=255)
                                                   tAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGTTACGGGTAACATCTGGCGTTTGAGAATc                <  1:3456739/69‑1 (MQ=255)
                                                   tAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGttt                       <  1:2940297/62‑1 (MQ=255)
                                                   tAGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTCGCGttt                       <  1:537295/62‑1 (MQ=255)
                                                    aGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATc                               >  1:3798551/1‑53 (MQ=255)
                                                    aGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATc                               >  1:3877057/1‑53 (MQ=255)
                                                    aGTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCAc              >  1:2392682/1‑70 (MQ=255)
                                                     gTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCa            <  1:2525438/71‑1 (MQ=255)
                                                     gTCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCa            <  1:3011050/71‑1 (MQ=255)
                                                      tCAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCAc              >  1:400129/1‑68 (MQ=255)
                                                       cAGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCa            >  1:2437898/1‑69 (MQ=255)
                                                        aGATGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCagag         >  1:2199559/1‑71 (MQ=255)
                                                          aTGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCg       <  1:3914844/71‑1 (MQ=255)
                                                          aTGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCg       >  1:2797583/1‑71 (MQ=255)
                                                          aTGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCg       <  1:331445/71‑1 (MQ=255)
                                                           tGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCgg      >  1:1347856/1‑71 (MQ=255)
                                                           tGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCgg      >  1:2984289/1‑71 (MQ=255)
                                                           tGTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCgg      <  1:3378881/71‑1 (MQ=255)
                                                            gTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTaa                                   >  1:2959972/1‑41 (MQ=255)
                                                            gTCAGGAATATGTTTGGTACCCATGTGAATGATACGGGTaa                                   >  1:2959912/1‑41 (MQ=255)
                                                              cAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACAt                                >  1:367329/1‑42 (MQ=255)
                                                              cAGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACAt                                >  1:20805/1‑42 (MQ=255)
                                                               aGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTgag                    >  1:2916679/1‑53 (MQ=255)
                                                               aGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGc        <  1:2306866/65‑1 (MQ=255)
                                                               aGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCGGGGta  <  1:4013292/71‑1 (MQ=255)
                                                               aGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCGGGGta  <  1:99178/71‑1 (MQ=255)
                                                               aGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCGGGGt   >  1:810881/1‑70 (MQ=255)
                                                               aGGAATATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCGGGGt   <  1:2597988/70‑1 (MQ=255)
                                                                   |                                                                  
GAACAGAGATATTGCGGCACCACGACTGATACCCACTAAAACTAATTATTGTAGTCAGATGTCAGGAGTATGTTTGGTACCCATGTGAATGATACGGGTAACATCTGGCGTTTGAGAATCACCAGAGCGGGGTA  >  minE/2674610‑2674743

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