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
A10 F28 I1 R1 180 66.5 2263572 99.4% 2249990 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,576,951 (C)5→6 coding (111/1341 nt) gntU ← low‑affinity gluconate transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,576,9461.C95.7% 145.8 / 0.3 46coding (116/1341 nt)gntUlow‑affinity gluconate transporter
Reads supporting (aligned to +/- strand):  ref base . (1/1);  new base C (14/30);  total (15/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.03e-01

GACTGCGCCGGTTTCATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAG‑CCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTAAAACAAGCGTTAATGTAGTCACTACTTATTTGCCTT  >  NC_000913/3576807‑3577075
                                                                                                                                            |                                                                                                                                  
gACTGCGCCGGTTTCATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAg                                                                                                                                     >  1:550203/1‑140 (MQ=255)
 aCTGCGCCGGTTTCATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAG‑c                                                                                                                                   <  2:831212/140‑1 (MQ=255)
 aCTGCGCCGGTTTCATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAG‑c                                                                                                                                   <  2:654913/140‑1 (MQ=255)
  cTGCGCCGGTTTCATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAG‑cc                                                                                                                                  <  2:550203/140‑1 (MQ=255)
    gcgcCGGTCTCATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAG‑cccc                                                                                                                                >  1:107227/1‑140 (MQ=255)
       ccGGTTTCATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAG‑cccccca                                                                                                                             >  2:83337/1‑138 (MQ=255)
         ggTTTCATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAG‑ccccccatg                                                                                                                           <  2:51365/140‑5 (MQ=255)
              cATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGacac                                                                                                                      <  1:129912/140‑1 (MQ=255)
              cATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGacac                                                                                                                      <  2:659378/140‑1 (MQ=255)
               aTGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGAcacc                                                                                                                     <  1:654772/140‑1 (MQ=255)
                tGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGAcacca                                                                                                                    <  2:9369/140‑1 (MQ=255)
                tGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGAcacca                                                                                                                    <  2:704427/140‑1 (MQ=255)
                tGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGAcacca                                                                                                                    >  2:473459/1‑140 (MQ=255)
                tGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGAcacca                                                                                                                    <  2:107227/140‑1 (MQ=255)
                tGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCCCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGAcacca                                                                                                                    <  2:1006752/140‑1 (MQ=255)
                     gATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCAtt                                                                                                               <  2:333180/140‑1 (MQ=255)
                     gATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCAtt                                                                                                               <  1:356554/140‑1 (MQ=255)
                     aaTCTTGCCAAACATAGCTCCCAGGGCGACAACCGCCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCAtt                                                                                                               <  2:231017/139‑1 (MQ=255)
                       tCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTaa                                                                                                             >  1:408008/1‑140 (MQ=255)
                            ccAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGAGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAG‑CCCCCAATGGACACCACCATTAAAGCCa                                                                                                        >  1:479699/1‑140 (MQ=255)
                               aaCATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAATAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGa                                                                                                     <  2:14819/140‑1 (MQ=255)
                                 cATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGaaa                                                                                                   <  2:408008/140‑1 (MQ=255)
                                           aGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATAc                                                                                         >  1:1011214/1‑140 (MQ=255)
                                            gggCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATAcg                                                                                        >  1:810715/1‑140 (MQ=255)
                                            gggCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATAcg                                                                                        <  1:732927/140‑1 (MQ=255)
                                             ggCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATAcgc                                                                                       >  1:893186/1‑140 (MQ=255)
                                                gACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGGGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGcc                                                                                    >  2:292534/1‑140 (MQ=255)
                                                  cAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATAcgcg                                                                                      <  1:35482/136‑1 (MQ=255)
                                                  cAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATAcgcg                                                                                      >  2:35482/1‑136 (MQ=255)
                                                    accaccGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCa                                                                                <  1:99518/140‑1 (MQ=255)
                                                    accaccGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCa                                                                                <  1:400759/140‑1 (MQ=255)
                                                       accGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGa                                                                             <  2:893186/140‑1 (MQ=255)
                                                       accGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGa                                                                             >  2:509556/1‑140 (MQ=255)
                                                               gAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAAc                                                                     >  2:428970/1‑140 (MQ=255)
                                                                  gCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAAcagc                                                                  <  1:705809/140‑1 (MQ=255)
                                                                   ccGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAAcagca                                                                 >  1:816192/1‑140 (MQ=255)
                                                                    cGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGAGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAG‑CCCCCAATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAAcagcag                                                                <  2:479699/140‑1 (MQ=255)
                                                                    cGAGGGTGCCTCCCATCCCCTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAAcagcag                                                                <  1:307055/140‑1 (MQ=255)
                                                                      aGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCa                                                                                <  2:135723/122‑1 (MQ=255)
                                                                      aGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCa                                                                                >  1:135723/1‑122 (MQ=255)
                                                                           gCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTaaa                                                         <  2:1020358/140‑1 (MQ=255)
                                                                                       tttttCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTAct                                             <  1:805090/140‑1 (MQ=255)
                                                                                        ttttCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTActg                                            <  2:810715/140‑1 (MQ=255)
                                                                                        ttttCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTActg                                            <  1:165001/140‑1 (MQ=255)
                                                                                               tcgtcgCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTaa                                     >  1:220605/1‑140 (MQ=255)
                                                                                                   cgCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTAAAACa                                 <  1:83337/140‑1 (MQ=255)
                                                                                                       gCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTAAAACAAGCg                             <  1:992899/140‑1 (MQ=255)
                                                                                                             ttATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTAAAACAAGCGTTAATg                       <  1:189767/140‑1 (MQ=255)
                                                                                                             ttATCGAGCGGCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTAAAACAAGCGTTAATg                       <  2:816192/140‑1 (MQ=255)
                                                                                                                       gCATACCAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTAAAACAAGCGTTAATGTAGTCactac             >  2:11596/1‑140 (MQ=255)
                                                                                                                             cAGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTAAAACAAGCGTTAATGTAGTCACTACTTAttt       >  1:224269/1‑140 (MQ=255)
                                                                                                                              aGAAAAAAGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTAAAACAAGCGTTAATGTAGTCACTACTTATTTg      <  2:224269/140‑1 (MQ=255)
                                                                                                                                  aaaaGGCCAGCCCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTAAAACAAGCGTTAATGTAGTCACTACTTATTTGCCtt  <  1:274608/140‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                  
GACTGCGCCGGTTTCATGTAAGATCTTGCCAAACATAGCTCCCAGGGCGACAACCACCGCCAGGAAGCCGAGGGTGCCTCCCATCCCTTTTTCCATCGTCGCTGCGATTTTATCGAGCGGCATACCAGAAAAAAGGCCAG‑CCCCC‑ATGGACACCACCATTAAAGCCAGGAAAGCGTGCATACGCGCCTTCATGACTAAAAACAGCAGCAGTAAAACAGACCCTACTGCTGTTAAAACAAGCGTTAATGTAGTCACTACTTATTTGCCTT  >  NC_000913/3576807‑3577075

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A