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
A4 F21 I0 R1 1009 73.8 4146436 87.4% 3623985 60.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,416,539 T→C 17.7% V244V (GTT→GTC)  yejM → predicted hydrolase, inner membrane

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,416,5390TC17.7% 178.7 / 33.1 79V244V (GTT→GTC) yejMpredicted hydrolase, inner membrane
Reads supporting (aligned to +/- strand):  ref base T (34/31);  new base C (8/6);  total (42/37)
Fisher's exact test for biased strand distribution p-value = 7.77e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.16e-01

TGGTCTGCTTGATGCGCAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGATTACTGTC  >  minE/1416470‑1416608
                                                                     |                                                                     
tGGTCTGCTTGATGCGCAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGtt                                                                       <  1:3425139/70‑1 (MQ=255)
     tGCTTGATGCGCAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTAt                                                                 >  1:2456804/1‑71 (MQ=255)
      gCTTGATGCGCAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATc                                                                >  1:2318205/1‑71 (MQ=255)
       cTTGATGCGCAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATcc                                                               >  1:3805209/1‑71 (MQ=255)
             gcgcAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAg                                                         >  1:2489627/1‑71 (MQ=255)
               gcAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       <  1:2126601/71‑1 (MQ=255)
               gcAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       <  1:2600708/71‑1 (MQ=255)
                cAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       >  1:751323/1‑70 (MQ=255)
                cAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGa                                                      <  1:3139204/71‑1 (MQ=255)
                        tCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGaa                                                     >  1:3928046/1‑64 (MQ=255)
                        tCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTgcgc                                               >  1:1945052/1‑70 (MQ=255)
                        tCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTgcgc                                               >  1:237295/1‑70 (MQ=255)
                        tCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTgcgc                                               >  1:3794758/1‑70 (MQ=255)
                        tCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTgcgc                                               <  1:1045903/70‑1 (MQ=255)
                        tCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGAACTgcgc                                               >  1:1612539/1‑70 (MQ=255)
                           aCGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGAACTGCGCTATc                                           <  1:573043/71‑1 (MQ=255)
                           aCGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGAACTGCGCTATc                                           <  1:1248391/71‑1 (MQ=255)
                            cGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATcg                                          >  1:116779/1‑71 (MQ=255)
                             gCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGaa                                                     >  1:110026/1‑59 (MQ=255)
                             gCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATc                                           <  1:2074312/69‑1 (MQ=255)
                              ccGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       <  1:1606797/56‑1 (MQ=255)
                                gTCTTATTGATCAAGGTAATCCAGACGCCGTTTCCGTTCa                                                                     >  1:3466079/1‑40 (MQ=255)
                                gTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGat                                      <  1:1350112/71‑1 (MQ=255)
                                  cTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGatat                                    >  1:965590/1‑71 (MQ=255)
                                  cTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGatat                                    >  1:2484247/1‑71 (MQ=255)
                                   ttATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       <  1:887602/51‑1 (MQ=255)
                                   ttATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATACGTTAAGCGAACTGCGCTATCGCGATATg                                   >  1:366500/1‑71 (MQ=255)
                                   ttATTGAGCAAGGTAATCCAGACGCCGTTTCCGTCCAGTATCCg                                                              >  1:2070993/1‑44 (MQ=255)
                                   ttATTGAGCAAGGTAATCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGAACTGCGCTATcgc                                         >  1:3841432/1‑65 (MQ=255)
                                    tATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGTGAACTGCGCTATcgc                                         <  1:3959589/64‑1 (MQ=255)
                                    tATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGa                                       >  1:945887/1‑66 (MQ=255)
                                     aTTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       <  1:3739445/49‑1 (MQ=255)
                                     aTTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       <  1:3789826/49‑1 (MQ=255)
                                     aTTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATggg                                 >  1:3720649/1‑71 (MQ=255)
                                     aTTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATggg                                 >  1:3283706/1‑71 (MQ=255)
                                      ttGAGCAAGGTAATCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATgg                                  >  1:3147563/1‑69 (MQ=255)
                                       tGAGCAAGGTAATCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCa                               >  1:3916767/1‑71 (MQ=255)
                                        gAGCAAGGTAATCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGAACTGCGCTAt                                            <  1:1434307/57‑1 (MQ=255)
                                           cAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGa                                       <  1:2249090/59‑1 (MQ=255)
                                           cAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCgg                           >  1:3759098/1‑71 (MQ=255)
                                            aaGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       <  1:1752802/42‑1 (MQ=255)
                                            aaGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCggg                          <  1:2401118/71‑1 (MQ=255)
                                               gTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAg                       <  1:2498552/71‑1 (MQ=255)
                                               gTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAg                       <  1:367509/71‑1 (MQ=255)
                                               gTAATCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGaa                                                     <  1:1474566/41‑1 (MQ=255)
                                               gTAATCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCggg                          >  1:2744724/1‑68 (MQ=255)
                                                tAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       <  1:1231061/38‑1 (MQ=255)
                                                tAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTa                                             >  1:215786/1‑48 (MQ=255)
                                                   tCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       <  1:2742743/35‑1 (MQ=255)
                                                   tCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCg                                                       <  1:1215795/35‑1 (MQ=255)
                                                   tCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCg                                                       <  1:2441572/35‑1 (MQ=255)
                                                   tCCAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGAACTGCGCt                                              <  1:547417/44‑1 (MQ=255)
                                                    ccAGACGCCGTTTCCGTCCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAAtgt                  >  1:1108059/1‑71 (MQ=255)
                                                     cAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCgg                           >  1:2165418/1‑61 (MQ=255)
                                                     cAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAAtgtg                 >  1:4124888/1‑71 (MQ=255)
                                                     cAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAAtgtg                 <  1:532727/71‑1 (MQ=255)
                                                     cAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAAt                    >  1:3178929/1‑68 (MQ=255)
                                                       gACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAAtgtg                 <  1:2538857/69‑1 (MQ=255)
                                                       gACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCt               >  1:1335643/1‑71 (MQ=255)
                                                       gACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCt               >  1:4132726/1‑71 (MQ=255)
                                                        aCGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATg                                   <  1:2600461/50‑1 (MQ=255)
                                                        aCGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTg              <  1:2498110/71‑1 (MQ=255)
                                                         cGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATc                                           >  1:877286/1‑41 (MQ=255)
                                                         cGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTg              <  1:3624644/70‑1 (MQ=255)
                                                         cGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGt             >  1:701516/1‑71 (MQ=255)
                                                          gCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGa                                       <  1:3961686/44‑1 (MQ=255)
                                                          gCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAg                       <  1:976658/60‑1 (MQ=255)
                                                             gTTTCCGTCCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGa          >  1:786432/1‑70 (MQ=255)
                                                              tttCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGatat                                    <  1:1605374/43‑1 (MQ=255)
                                                              tttCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGatat                                    <  1:934995/43‑1 (MQ=255)
                                                              tttCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGc                                <  1:1201361/47‑1 (MQ=255)
                                                              tttCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGAtt        <  1:156446/71‑1 (MQ=255)
                                                              tttCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGAt         >  1:3078676/1‑70 (MQ=255)
                                                               ttCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGATTa       >  1:1751494/1‑71 (MQ=255)
                                                                tCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGata                                     >  1:2901484/1‑40 (MQ=255)
                                                                tCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGata                                     >  1:1977493/1‑40 (MQ=255)
                                                                tCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGATTAc      >  1:759184/1‑71 (MQ=255)
                                                                tCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGATTAc      >  1:764117/1‑71 (MQ=255)
                                                                tCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGATTAc      >  1:3557094/1‑71 (MQ=255)
                                                                   gTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGa                                       <  1:3491627/35‑1 (MQ=255)
                                                                    ttCAGTATCCGTTAAGCGAACTGCGCTATCGCGatat                                    >  1:2502545/1‑37 (MQ=255)
                                                                    ttCAGTATCCGTTAAGCGAACTGCGCTATCGCGata                                     >  1:3104308/1‑36 (MQ=255)
                                                                    ttCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGATTa       <  1:3082754/66‑1 (MQ=255)
                                                                    ttCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGATTTCTGTc  <  1:2884023/71‑1 (MQ=255)
                                                                    ttCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGATTACTGTc  <  1:3875254/71‑1 (MQ=255)
                                                                     |                                                                     
TGGTCTGCTTGATGCGCAGGAGTATCAACGCCGTCTTATTGAGCAAGGTAATCCAGACGCCGTTTCCGTTCAGTATCCGTTAAGCGAACTGCGCTATCGCGATATGGGCACCGGGCAGAATGTGCTGTTGATTACTGTC  >  minE/1416470‑1416608

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