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 F21 I0 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,933,109 G→T 13.5% A445D (GCC→GAC) ‡ lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,1090GT13.5% 248.5 / 14.6 81A445D (GCC→GAC) ‡lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (34/36);  new base T (2/9);  total (36/45)
Fisher's exact test for biased strand distribution p-value = 1.00e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.80e-01

ATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTC  >  minE/1933042‑1933179
                                                                   |                                                                      
aTGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGc                                                                       >  1:1187514/1‑69 (MQ=255)
 tGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAAc                                                                    >  1:462003/1‑71 (MQ=255)
     ccAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGa                                                                >  1:1081700/1‑71 (MQ=255)
      cAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGAt                                                               <  1:1971145/71‑1 (MQ=255)
       aGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                              <  1:746536/71‑1 (MQ=255)
         tGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                              >  1:563076/1‑69 (MQ=255)
           cGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAg                                                           <  1:2388968/70‑1 (MQ=255)
               gACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                      >  1:429908/1‑71 (MQ=255)
                aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                      <  1:2875832/70‑1 (MQ=255)
                aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCg                                                     <  1:1330031/71‑1 (MQ=255)
                 cGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                    <  1:2198952/71‑1 (MQ=255)
                 cGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                    <  1:3680084/71‑1 (MQ=255)
                  gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGAt                                                               >  1:2021538/1‑59 (MQ=255)
                  gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGAt                                                               >  1:1103000/1‑59 (MQ=255)
                  gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGtt                                                   <  1:2438942/71‑1 (MQ=255)
                  gTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCAGCAACCTGATCCAGGAAGCGtt                                                   >  1:3385580/1‑71 (MQ=255)
                   tAATCTTCATCGTAGAACATCGCTTCTTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCg                                                     <  1:2984257/68‑1 (MQ=255)
                   tAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCg                                                     <  1:1175115/68‑1 (MQ=255)
                    aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGAt                                                               >  1:3235053/1‑57 (MQ=255)
                    aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGAt                                                               >  1:2283533/1‑57 (MQ=255)
                    aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                 >  1:2933978/1‑71 (MQ=255)
                     aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcg                                                >  1:3277849/1‑71 (MQ=255)
                     aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                 <  1:3570258/70‑1 (MQ=255)
                        ttCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTcc                                                             >  1:3735240/1‑55 (MQ=255)
                          cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGa                                           >  1:646527/1‑71 (MQ=255)
                           aTCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCg                                                     >  1:379081/1‑60 (MQ=255)
                           aTCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGa                                           <  1:1915100/70‑1 (MQ=255)
                           aTCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGAt                                          >  1:3545562/1‑71 (MQ=255)
                           aTCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGAt                                          >  1:384461/1‑71 (MQ=255)
                            tCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATc                                         >  1:3267113/1‑71 (MQ=255)
                            tCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATc                                         <  1:610835/71‑1 (MQ=255)
                             catAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTcc                                                             <  1:261850/48‑1 (MQ=255)
                              gTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcgc                                               >  1:1102500/1‑63 (MQ=255)
                              gTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcgc                                               >  1:2320695/1‑63 (MQ=255)
                               tAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTcc                                                             <  1:3324889/48‑1 (MQ=12)
                               tAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTcc                                                             <  1:3013944/48‑1 (MQ=12)
                               tAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCt                                                                  <  1:489204/43‑1 (MQ=255)
                               tAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCt                                                                  <  1:488882/43‑1 (MQ=255)
                               tAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTc                                      >  1:1165781/1‑71 (MQ=255)
                               tAGAACATCGCTTCGTCGTCACCTGCGGCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTc                                      <  1:3782300/71‑1 (MQ=255)
                                aGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGa                                           <  1:581029/65‑1 (MQ=255)
                                aGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTct                                     >  1:1747131/1‑70 (MQ=255)
                                aGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTcc                                     >  1:335065/1‑71 (MQ=255)
                                 gAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTg                                                  >  1:1739927/1‑57 (MQ=255)
                                  aaCATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCtgc                                   <  1:1624122/71‑1 (MQ=255)
                                   aCATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCtgcg                                  <  1:1128480/71‑1 (MQ=255)
                                   aCATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCtgc                                   <  1:3332342/70‑1 (MQ=255)
                                   aCATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCtgc                                   <  1:139504/70‑1 (MQ=255)
                                   aCATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcgcg                                  <  1:2525895/71‑1 (MQ=255)
                                     aTCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcg                                    <  1:1647274/67‑1 (MQ=255)
                                     aTCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcg                                    <  1:1610090/67‑1 (MQ=255)
                                      tCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcg                                    <  1:1253598/66‑1 (MQ=255)
                                       cGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCa                                                            >  1:2153386/1‑41 (MQ=255)
                                         cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAg                                                           <  1:34124/40‑1 (MQ=255)
                                         cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGa                                           <  1:3738862/56‑1 (MQ=255)
                                            cgtcgtCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                    >  1:1621701/1‑44 (MQ=255)
                                            cgtcgtCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGc                         >  1:2262898/1‑71 (MQ=255)
                                             gtcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGc                         <  1:1384504/70‑1 (MQ=255)
                                             gtcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                        <  1:2906310/71‑1 (MQ=255)
                                              tcgtcACCTGCGTCTTTCGCTGCAACCTGATCCAGGAAGCg                                                     <  1:1332519/41‑1 (MQ=255)
                                              tcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCg                                                     <  1:1229593/41‑1 (MQ=255)
                                               cgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCg                                                     <  1:3714435/40‑1 (MQ=255)
                                                   aCCTGCGTCTTTCTCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTa                   >  1:3859545/1‑70 (MQ=255)
                                                   aCCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTaa                  <  1:3903421/71‑1 (MQ=255)
                                                   aCCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTa                   <  1:2483047/70‑1 (MQ=255)
                                                   aCCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGAGTCATTCAGCTCGCTa                   <  1:2476857/70‑1 (MQ=255)
                                                    ccTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTaaa                 <  1:3922048/71‑1 (MQ=255)
                                                     cTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                >  1:1897727/1‑71 (MQ=255)
                                                       tcGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTa                   <  1:2827202/65‑1 (MQ=255)
                                                       gCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc              >  1:2650001/1‑71 (MQ=255)
                                                       gCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGc               >  1:1698278/1‑70 (MQ=255)
                                                         gTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCa                           >  1:1552691/1‑56 (MQ=255)
                                                         gTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt            <  1:2317057/71‑1 (MQ=255)
                                                          tCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGtt           <  1:3289036/71‑1 (MQ=255)
                                                           cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGtt           <  1:2592423/70‑1 (MQ=255)
                                                           cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa          >  1:242409/1‑71 (MQ=255)
                                                             ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc        >  1:313799/1‑71 (MQ=255)
                                                              tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc        <  1:1573752/70‑1 (MQ=255)
                                                              tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc         <  1:3486576/69‑1 (MQ=255)
                                                               cgcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGa      >  1:1126789/1‑71 (MQ=255)
                                                                gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt     >  1:2037557/1‑71 (MQ=255)
                                                                  ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAtt    <  1:403066/70‑1 (MQ=255)
                                                                   gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTc  <  1:2295148/71‑1 (MQ=255)
                                                                   |                                                                      
ATGTTCCAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTC  >  minE/1933042‑1933179

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