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
A5 F91 I0 R1 918 53.4 2573728 94.2% 2424451 136.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 409,081 C→T 70.6% G529D (GGC→GAC)  aceE ← pyruvate dehydrogenase E1 component

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_002947409,0810CT70.6% 65.7 / 33.4 51G529D (GGC→GAC) aceEpyruvate dehydrogenase E1 component
Reads supporting (aligned to +/- strand):  ref base C (10/5);  new base T (20/16);  total (30/21)
Fisher's exact test for biased strand distribution p-value = 5.43e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.63e-01

TACGAGGTACCGGCAGCGATGAACGACGACATGGCGCCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCACGAAGGCCATGGTGGTGGAGATTTCGCGGTCGCCCGA  >  NC_002947/408934‑409229
                                                                                                                                                   |                                                                                                                                                    
tACGAGGTACCGGCAGCGATGAACGACGACATGGCGCCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGccc                                                                                                                                                    <  2:205104/150‑1 (MQ=255)
    aGGTACCGGCAGCGATGAACGACGACATGGCGCCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACt                                                                                                                                                >  1:762681/1‑150 (MQ=255)
        gccGGCAGCGATGAACGACGACATGGCGCCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCg                                                                                                                                            <  1:431081/149‑1 (MQ=255)
                 gATGAACGACGACATGGCGCCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGcc                                                                                                                                   >  1:274323/1‑150 (MQ=255)
                    gAACGACGACATGGCGCCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCtt                                                                                                                                 >  2:313198/1‑149 (MQ=255)
                    gAACGACGACATGGCGCCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCtt                                                                                                                                 <  1:313198/149‑1 (MQ=255)
                    gAACGACGACATGGCGCCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTc                                                                                                                                >  2:1064158/1‑150 (MQ=255)
                             cATGGCGCCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGaa                                                                                                                       <  1:963960/150‑1 (MQ=255)
                                   gcCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAAc                                                                                                                                        >  1:306734/1‑127 (MQ=255)
                                   gcCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAAc                                                                                                                                        <  2:306734/127‑1 (MQ=255)
                                      ggCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCGCCTTGCCTTCGCGGTAGAACATCACCTGGGCGTTATCGACTGGCTCGTAGGGCTGGCAGACCGAGAAGTAGATGTCCCAATGGCGGAACATTCCTTCCATACCGAAGGTACGGGc                                                                                                              >  2:75845/1‑150 (MQ=255)
                                         ttCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAAAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTc                                                                                                           >  2:1001636/1‑150 (MQ=255)
                                             ttGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTcc                                                                                                       >  1:411356/1‑150 (MQ=255)
                                               gATGCCTTCCTCGAGGATCTGGCCCGTCTTGTCTTCGCGGTAGATCATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCgg                                                                                                     <  1:75845/150‑1 (MQ=255)
                                                 tGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGga                                                                                                   >  2:821376/1‑150 (MQ=255)
                                                 tGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGga                                                                                                   >  1:756146/1‑150 (MQ=255)
                                                    cTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGgatga                                                                                                >  2:1028294/1‑150 (MQ=255)
                                                     ttCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGgatgat                                                                                               >  2:559606/1‑150 (MQ=255)
                                                       ccTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCg                                                                                             <  1:967161/150‑1 (MQ=255)
                                                         tCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCggg                                                                                           >  2:318032/1‑150 (MQ=255)
                                                         tCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCggg                                                                                           >  2:1010266/1‑150 (MQ=255)
                                                          cGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGa                                                                                          <  2:762681/150‑1 (MQ=255)
                                                           gAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGAc                                                                                         >  1:794465/1‑150 (MQ=255)
                                                           gAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGa                                                                                          <  2:77943/149‑1 (MQ=255)
                                                           gAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGa                                                                                          >  1:77943/1‑149 (MQ=255)
                                                                   ggCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCt                                                                                 <  1:334751/150‑1 (MQ=255)
                                                                   ggCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCAACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCt                                                                                 >  2:66228/1‑150 (MQ=255)
                                                                      ccTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACAt                                                                                                                                      >  1:379297/1‑94 (MQ=255)
                                                                      ccTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACAt                                                                                                                                      <  2:379297/94‑1 (MQ=255)
                                                                              tCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAAtgtcc                                                                      <  1:1028294/150‑1 (MQ=255)
                                                                                            cATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAAtgtccttgtc                                                                 >  1:535001/1‑141 (MQ=255)
                                                                                            cATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAAtgtccttgtc                                                                 <  2:535001/141‑1 (MQ=255)
                                                                                            cATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAg                                                        <  1:559606/150‑1 (MQ=255)
                                                                                               cACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGc                                                                              <  2:752160/125‑1 (MQ=255)
                                                                                               cACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGc                                                                              >  1:752160/1‑125 (MQ=255)
                                                                                                aCCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTgc                                                    >  1:10405/1‑150 (MQ=255)
                                                                                                           aTCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTg                                                     >  1:417639/1‑138 (MQ=255)
                                                                                                           aTCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTg                                                     <  2:417639/138‑1 (MQ=255)
                                                                                                           aTCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAAt                                                                          >  1:229273/1‑117 (MQ=255)
                                                                                                           aTCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAAt                                                                          <  2:229273/117‑1 (MQ=255)
                                                                                                              gACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACAGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCAc                                      >  2:436404/1‑150 (MQ=255)
                                                                                                               aCTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGgatgat                                                                                               <  1:747985/92‑1 (MQ=255)
                                                                                                               aCTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGgatgat                                                                                               >  2:747985/1‑92 (MQ=255)
                                                                                                                 tGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCACGaa                                   >  2:777922/1‑150 (MQ=255)
                                                                                                                  ggCTCGTAGAGCTGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCACGAAg                                  <  1:777922/150‑1 (MQ=255)
                                                                                                                              tGGCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCACGAAGGCCAtggtggtg                      <  1:821376/150‑1 (MQ=255)
                                                                                                                                gCCGACCGACGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCACGAAGGCCATGGTGGTGga                    >  1:738660/1‑150 (MQ=255)
                                                                                                                                   gaccgacGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGAGACGACGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCACGAAGGCCATGGTGGTGGAGAt                 >  1:81033/1‑150 (MQ=255)
                                                                                                                                     ccgacGAGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCACGAAGGCCATGGTGGTGGAGAttt               <  2:10405/150‑1 (MQ=255)
                                                                                                                                      cgacgaGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTAGACCAGCTGCGCCAGAATACGCACGAAGGCCATGGTGGTGGAGATTTc              >  1:718246/1‑150 (MQ=255)
                                                                                                                                        cctaGTAGATGTCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCACGAAGGCCATGGTGGTGGAGATTTcgc            <  1:964932/147‑1 (MQ=255)
                                                                                                                                                  gCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCACGAAGGCCATGGTGGTGGAGATTTCGCGGTCGCCCGa  >  1:760178/1‑150 (MQ=255)
                                                                                                                                                   |                                                                                                                                                    
TACGAGGTACCGGCAGCGATGAACGACGACATGGCGCCGGCTTCGTTGATGCCTTCCTCGAGGATCTGGCCCTTCTTGTCTTCGCGGTAGAACATCACCTGGTCTTTATCGACTGGCTCGTAGAGCTGGCCGACCGACGAGTAGATGCCCAACTGGCGGAACATGCCTTCCATACCGAAGGTACGGGCTTCGTCCGGGATGATCGGGACGATGCGCTGGCCAATGTCCTTGTCCTTGACCAGCTGCGCCAGAATACGCACGAAGGCCATGGTGGTGGAGATTTCGCGGTCGCCCGA  >  NC_002947/408934‑409229

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A