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 F8 I0 R2 296 77.6 4260404 88.1% 3753415 61.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 581,876 G→A 24.7% P638P (CCG→CCA)  clpA → ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE581,8760GA24.7% 164.5 / 54.5 85P638P (CCG→CCA) clpAATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity
Reads supporting (aligned to +/- strand):  ref base G (32/32);  new base A (7/14);  total (39/46)
Fisher's exact test for biased strand distribution p-value = 2.15e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.33e-01

TCCATTGGTCTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCAGGTGG  >  minE/581808‑581946
                                                                    |                                                                      
tCCATTGGTCTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCgg                                                                       >  1:458860/1‑70 (MQ=255)
tCCATTGGTCTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCgg                                                                       >  1:1290599/1‑70 (MQ=255)
  cATTGGTCTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAAt                                                                    <  1:1815843/71‑1 (MQ=255)
     tGGTCTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTcc                                                                 >  1:2466040/1‑71 (MQ=255)
     tGGTCTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTcc                                                                 >  1:420277/1‑71 (MQ=255)
     tGGTCTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTcc                                                                 >  1:3220148/1‑71 (MQ=255)
      ggTCTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCg                                                                >  1:560108/1‑71 (MQ=255)
       gTCTTATCCACCAGGATAATAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCg                                                                >  1:4109279/1‑70 (MQ=255)
       gTCTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCg                                                                >  1:2274362/1‑70 (MQ=255)
         cTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTaa                                                             >  1:2234994/1‑71 (MQ=255)
            aTCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCg                                                          >  1:588943/1‑71 (MQ=255)
            aTCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCAGAATTCCGTAACCg                                                          >  1:2380099/1‑71 (MQ=255)
            aTCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCAGAATTCCGTAACCg                                                          >  1:1365201/1‑71 (MQ=255)
            aTCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCAGAATTCCGTAACCg                                                          >  1:1799867/1‑71 (MQ=255)
            aTCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCAGAATTCCGTAACCg                                                          >  1:2677859/1‑71 (MQ=255)
            aTCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCAGAATTCCGTAACCg                                                          >  1:3719387/1‑71 (MQ=255)
            aTCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCAGAATTCCGTAACCg                                                          >  1:4180253/1‑71 (MQ=255)
            aTCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAA‑AAGATCTTTACACCGGAATTCCGTAACCGt                                                         >  1:1972853/1‑71 (MQ=255)
             tCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGt                                                         <  1:501135/71‑1 (MQ=255)
             tCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGt                                                         <  1:3528878/71‑1 (MQ=255)
             tCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCAGAATTCCGTAACCGt                                                         <  1:894570/71‑1 (MQ=255)
              ccaccaGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGt                                                         <  1:780786/70‑1 (MQ=255)
               caccaGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGtct                                                       >  1:4056054/1‑71 (MQ=255)
                 ccaGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGtctc                                                      >  1:3355035/1‑70 (MQ=255)
                 ccaGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGtctc                                                      >  1:143179/1‑70 (MQ=255)
                 ccaGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGtctc                                                      >  1:2882744/1‑70 (MQ=255)
                 ccaGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGtctc                                                      >  1:3107084/1‑70 (MQ=255)
                   aGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGac                                                   <  1:4097581/71‑1 (MQ=255)
                   aGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGac                                                   <  1:927473/71‑1 (MQ=255)
                   aGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGa                                                    >  1:1449170/1‑70 (MQ=255)
                   aGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGa                                                    >  1:393440/1‑70 (MQ=255)
                     gATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGacaa                                                 <  1:2685271/71‑1 (MQ=255)
                       tAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGacaaca                                               >  1:271580/1‑71 (MQ=255)
                       tAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGacaaca                                               >  1:2753794/1‑71 (MQ=255)
                       tAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGacaaca                                               >  1:620415/1‑71 (MQ=255)
                       tAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCAGAATTCCGTAACCGTCTCGacaaca                                               <  1:950102/71‑1 (MQ=255)
                       tAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCAGAATTCCGTAACCGTCTCGacaaca                                               <  1:912387/71‑1 (MQ=255)
                              aCCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTg                                        <  1:1832983/71‑1 (MQ=255)
                                    gcgatgGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGa                                                    >  1:2029742/1‑53 (MQ=255)
                                     cgatgGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGat                                 >  1:3053081/1‑71 (MQ=255)
                                     cgatgGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGa                                  >  1:1930019/1‑70 (MQ=255)
                                     cgatgGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGa                                  >  1:330724/1‑70 (MQ=255)
                                     cgatgGAAGAGATCAAGAAGATCTTTACACCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGa                                  <  1:1784748/70‑1 (MQ=255)
                                     cgatgGAAGAGATCAAGAAGATCTTTAAACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGat                                 >  1:1825074/1‑71 (MQ=255)
                                       atgGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTg                                        <  1:2831696/62‑1 (MQ=255)
                                          gAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCt                            <  1:3505136/71‑1 (MQ=255)
                                          gAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCt                            <  1:602758/71‑1 (MQ=255)
                                          gAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCt                            <  1:3119735/71‑1 (MQ=255)
                                          gAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCt                            <  1:1042302/71‑1 (MQ=255)
                                          gAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCt                            <  1:1739661/71‑1 (MQ=255)
                                            agagATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACAtt                                             >  1:3763745/1‑52 (MQ=255)
                                             gagaTCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACAtt                                             <  1:2156931/51‑1 (MQ=255)
                                             gagaTCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTc                         <  1:1525410/71‑1 (MQ=255)
                                             gagaTCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTc                         <  1:2712426/71‑1 (MQ=255)
                                              agaTCAAGAAGATCTTTACACCGGAATTCCGTAACCGtctc                                                      <  1:3012659/41‑1 (MQ=255)
                                              agaTCAAGAAGATCTTTACACCGGAATTCCGTAACCGtctc                                                      <  1:156238/41‑1 (MQ=255)
                                              agaTCAAGAAGATCTTTACACCGGAATTCCGTAACCGtctc                                                      <  1:1952072/41‑1 (MQ=255)
                                              agaTCAAGAAGATCTTTACACCGGAATTCCGTAACCGtctc                                                      <  1:3621918/41‑1 (MQ=255)
                                                aTCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGAGAACATTATCTGGTTTGatc                                <  1:1032987/61‑1 (MQ=255)
                                                aTCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGatc                                <  1:985728/61‑1 (MQ=255)
                                                aTCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGatc                                <  1:4090827/61‑1 (MQ=255)
                                                aTCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAAc                      >  1:1922511/1‑71 (MQ=255)
                                                  cAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAAc                      >  1:1956348/1‑69 (MQ=255)
                                                  cAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAAc                      >  1:2231199/1‑69 (MQ=255)
                                                  cAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAAc                      >  1:3835095/1‑69 (MQ=255)
                                                     gaagaTCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGatcatc                             >  1:680341/1‑59 (MQ=255)
                                                     gaagaTCTTTACACCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGatca                               <  1:4092782/57‑1 (MQ=255)
                                                     gaagaTCTTTACACCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGatca                               <  1:3083830/57‑1 (MQ=255)
                                                     gaagaTCTTTACACCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGatca                               <  1:1797244/57‑1 (MQ=255)
                                                        gaTCTTTACACCGGAATTCCGTAACCGTCTCGacaaca                                               >  1:2558559/1‑38 (MQ=255)
                                                        gaTCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGatca                               <  1:792510/54‑1 (MQ=255)
                                                         aTCTTTACACCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGatca                               <  1:1857271/53‑1 (MQ=255)
                                                             ttACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCa          >  1:937898/1‑70 (MQ=255)
                                                              tACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATcc           <  1:358586/68‑1 (MQ=255)
                                                              tACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATcc           <  1:2984058/68‑1 (MQ=255)
                                                              tACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATcc           <  1:2808284/68‑1 (MQ=255)
                                                              tACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATc            <  1:3691525/67‑1 (MQ=255)
                                                               acacCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATccacca       >  1:1138513/1‑71 (MQ=255)
                                                               acacCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATc        <  1:2419083/70‑1 (MQ=255)
                                                               acacCAGAATTCCGTAACCGGCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATc        <  1:1839295/70‑1 (MQ=255)
                                                                cacCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCa       <  1:1281126/70‑1 (MQ=255)
                                                                cacCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCa       <  1:2286868/70‑1 (MQ=255)
                                                                cacCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCa       <  1:3203805/70‑1 (MQ=255)
                                                                cacCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCa       <  1:3262317/70‑1 (MQ=255)
                                                                cacCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCa       <  1:1258815/70‑1 (MQ=255)
                                                                 acCAGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCAgg     <  1:2739546/71‑1 (MQ=255)
                                                                  ccGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCAggt    <  1:958964/71‑1 (MQ=255)
                                                                    ggAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCAggttg  <  1:1076096/71‑3 (MQ=255)
                                                                    ggAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCAggtgg  <  1:680391/71‑1 (MQ=255)
                                                                    ggAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCAggtgg  >  1:2419495/1‑71 (MQ=255)
                                                                    ggAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCAggtgg  >  1:987609/1‑71 (MQ=255)
                                                                    |                                                                      
TCCATTGGTCTTATCCACCAGGATAACAGCACCGATGCGATGGAAGAGATCAAGAAGATCTTTACACCGGAATTCCGTAACCGTCTCGACAACATTATCTGGTTTGATCATCTGTCAACCGACGTGATCCATCAGGTGG  >  minE/581808‑581946

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