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
A12 F28 I1 R1 227 52.0 1764248 99.3% 1751898 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,238,041 T→C I417V (ATT→GTT)  mglA ← D‑galactose/methyl‑galactoside ABC transporter ATP binding subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,238,0410TC100.0% 219.5 / NA 61I417V (ATT→GTT) mglAD‑galactose/methyl‑galactoside ABC transporter ATP binding subunit
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (30/31);  total (30/31)

ATAATAATAATCCCCTTGCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTATCCAGTAAACCAACTT  >  NC_000913/2237905‑2238172
                                                                                                                                        |                                                                                                                                   
ataataataATCCCCTTGCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCaacaat                                                                                                                                  >  2:608009/1‑140 (MQ=255)
 taataataaTCCCCTTGCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATc                                                                                                                                 <  1:822633/140‑1 (MQ=255)
    taataatCCCCTTGCCTTTCTTCACCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCAcc                                                                                                                              <  1:807025/140‑1 (MQ=255)
       taatCCCCTTGCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCttt                                                                                                                           >  2:11883/1‑140 (MQ=255)
         atCCCCTTGCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTg                                                                                                                         <  1:711662/140‑1 (MQ=255)
         atCCCCTTGCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTg                                                                                                                         <  2:756484/140‑1 (MQ=255)
            cccTTGCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTg                                                                                                                      <  1:410868/140‑1 (MQ=255)
            cccTTGCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGAGACCAACAATCACCTTTTGCTg                                                                                                                      <  1:652172/140‑1 (MQ=255)
              cTTGCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGAt                                                                                                                    <  1:765229/140‑1 (MQ=255)
                 gCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTg                                                                                                                      <  2:138642/135‑1 (MQ=255)
                 gCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTg                                                                                                                      >  1:757030/1‑135 (MQ=255)
                 gCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTg                                                                                                                      >  1:138642/1‑135 (MQ=255)
                 gCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTg                                                                                                                      <  2:757030/135‑1 (MQ=255)
                   cTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTacca                                                                                                               <  2:152105/140‑1 (MQ=255)
                      tcttcGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCg                                                                                                            >  2:677631/1‑140 (MQ=255)
                                ttCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAAc                                                                                                  >  2:127534/1‑140 (MQ=255)
                                              gATAAATTTCAAACTTCCCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGa                                                                                    <  2:651060/140‑1 (MQ=255)
                                               aTAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGAt                                                                                   >  1:226644/1‑140 (MQ=255)
                                               aTAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGAt                                                                                   >  2:720942/1‑140 (MQ=255)
                                                     ttCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCg                                                                             <  1:654219/140‑1 (MQ=255)
                                                              cGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGGACCAATTTGCGTCCGATGACCCGGCGTTTTTa                                                                    >  2:780467/1‑140 (MQ=255)
                                                                      cATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATc                                                            <  1:127534/140‑1 (MQ=255)
                                                                          aaTACCGCGCCTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGaat                                                        <  1:608009/140‑1 (MQ=255)
                                                                             aCCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGaatcaa                                                     >  2:8714/1‑140 (MQ=255)
                                                                               cgcgcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGATCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGaatcaatc                                                   >  1:861267/1‑140 (MQ=255)
                                                                               cgcgcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGaatcaatc                                                   <  1:11883/140‑1 (MQ=255)
                                                                                 cgcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGaat                                                        >  1:112736/1‑133 (MQ=255)
                                                                                 cgcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGaat                                                        <  2:112736/133‑1 (MQ=255)
                                                                                 cgcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCAc                                                 >  2:785307/1‑140 (MQ=255)
                                                                                 cgcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCAc                                                 >  1:67017/1‑140 (MQ=255)
                                                                                 cgcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCAc                                                 >  2:160215/1‑140 (MQ=255)
                                                                                   cgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGTTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCAccc                                               >  2:107596/1‑140 (MQ=255)
                                                                                   cgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGaat                                                        <  1:101883/131‑1 (MQ=255)
                                                                                   cgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGaat                                                        >  2:101883/1‑131 (MQ=255)
                                                                                    gTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCa                                              <  1:8714/140‑1 (MQ=255)
                                                                                      cGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCAc                                                 <  1:619819/135‑1 (MQ=255)
                                                                                      cGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCAc                                                 >  2:619819/1‑135 (MQ=255)
                                                                                           cATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGaatcaat                                                    >  2:158421/1‑127 (MQ=255)
                                                                                           cATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGaatcaat                                                    <  1:158421/127‑1 (MQ=255)
                                                                                            aTCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGTTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTAt                                      <  1:107596/140‑1 (MQ=255)
                                                                                               gAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGc                                   >  1:686170/1‑140 (MQ=255)
                                                                                                aGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCt                                  >  1:672547/1‑140 (MQ=255)
                                                                                                 gCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCtt                                 >  1:602884/1‑140 (MQ=255)
                                                                                                   aTTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCtttt                               >  1:451940/1‑140 (MQ=255)
                                                                                                        tatTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATcc                          <  1:4472/140‑1 (MQ=255)
                                                                                                        tatTTCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATcc                          <  1:780467/140‑1 (MQ=255)
                                                                                                           ttCTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCcgcg                       <  1:160215/140‑1 (MQ=255)
                                                                                                             cTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAg                     >  2:502192/1‑140 (MQ=255)
                                                                                                             cTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAg                     <  1:677631/140‑1 (MQ=255)
                                                                                                             cTGGTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAg                     <  2:861267/140‑1 (MQ=255)
                                                                                                               ggTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTAGGTATCGCtt                                 <  2:398904/126‑1 (MQ=255)
                                                                                                               ggTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTAGGTATCGCtt                                 >  1:398904/1‑126 (MQ=255)
                                                                                                                gTTGCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTa                  <  1:241695/140‑1 (MQ=255)
                                                                                                                   gCGTTAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTATcc               >  1:60122/1‑140 (MQ=255)
                                                                                                                      ttAGTAGCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTATCCAGt            <  2:60122/140‑1 (MQ=255)
                                                                                                                        agtagCCAGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTATCCAGTaa          >  1:693036/1‑140 (MQ=255)
                                                                                                                               aGCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTATCCAGTAAACCAACt   >  2:429703/1‑140 (MQ=255)
                                                                                                                                gCGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTATCCAGTAAACCAACtt  >  1:17491/1‑140 (MQ=255)
                                                                                                                                 cGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTa                  >  1:847496/1‑123 (MQ=255)
                                                                                                                                 cGACCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTa                  <  2:847496/123‑1 (MQ=255)
                                                                                                                                   aCCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTATCCa              >  2:246795/1‑125 (MQ=255)
                                                                                                                                   aCCAACAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTATCCa              <  1:246795/125‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                   
ATAATAATAATCCCCTTGCCTTTCTTCGCCAGTTCGGCAATTAACTGATAAATTTCAAACTTCGCCCCGACATCAATACCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCGAATCAATCACCCACTGGGTATCGCTTTTCATCCGCGAGTTATCCAGTAAACCAACTT  >  NC_000913/2237905‑2238172

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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