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 116 72.9 2471836 99.3% 2454533 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,465,380 C→T L267L (CTG→CTA)  treB ← trehalose‑specific PTS enzyme IIBC component

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,465,3800CT100.0% 215.3 / NA 60L267L (CTG→CTA) treBtrehalose‑specific PTS enzyme IIBC component
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (24/36);  total (24/36)

GAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATCAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATG  >  NC_000913/4465248‑4465515
                                                                                                                                    |                                                                                                                                       
gAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAAc                                                                                                                                  <  1:333043/140‑1 (MQ=255)
 aaGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGaa                                                                                                                                   >  1:893874/1‑138 (MQ=255)
 aaGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGaa                                                                                                                                   <  2:893874/138‑1 (MQ=255)
 aaGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACa                                                                                                                                 <  1:12387/140‑1 (MQ=255)
     cAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACg                                                                                                                             >  2:536090/1‑140 (MQ=255)
     cAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACg                                                                                                                             >  1:172041/1‑140 (MQ=255)
      aaaCAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACACCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACgg                                                                                                                            >  1:267284/1‑140 (MQ=255)
       aaCAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACggg                                                                                                                           <  2:296585/140‑1 (MQ=255)
        aCAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGt                                                                                                                          <  2:633482/140‑1 (MQ=255)
        aCAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGt                                                                                                                          <  2:532771/140‑1 (MQ=255)
          aaTGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTac                                                                                                                        <  1:561707/140‑1 (MQ=255)
          aaTGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTac                                                                                                                        <  2:625246/140‑1 (MQ=255)
          aaTGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTac                                                                                                                        <  2:1216260/140‑1 (MQ=255)
               tgcGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTaccacca                                                                                                                   <  1:1091654/140‑1 (MQ=255)
                         ggAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATagag                                                                                                         <  2:862539/140‑1 (MQ=255)
                          gAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAgg                                                                                                        <  1:667510/140‑1 (MQ=255)
                           aGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGt                                                                                                       >  1:248568/1‑140 (MQ=255)
                                aGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATcc                                                                                                  <  2:102423/140‑1 (MQ=255)
                                     ccGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCAc                                                                                             <  1:1034580/140‑1 (MQ=255)
                                       ggTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGa                                                                                           <  2:223084/140‑1 (MQ=255)
                                        gTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGAt                                                                                          <  1:1062558/140‑1 (MQ=255)
                                                  gACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAgg                                                                                <  1:164782/140‑1 (MQ=255)
                                                  gACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAgg                                                                                <  1:53666/140‑1 (MQ=255)
                                                  gACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAgg                                                                                <  2:745081/140‑1 (MQ=255)
                                                  gACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAgg                                                                                <  1:623448/140‑1 (MQ=255)
                                                  gACGTACCGCAAAGGCAACACCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAgg                                                                                <  2:267284/140‑1 (MQ=255)
                                                   aCGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGc                                                                               <  1:209601/140‑1 (MQ=255)
                                                    cGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCg                                                                              <  1:912187/140‑1 (MQ=255)
                                                       aCCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGt                                                                           >  2:1224086/1‑140 (MQ=255)
                                                                       cATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAgc                                                           <  2:522868/140‑1 (MQ=255)
                                                                        aTCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAgcg                                                          <  1:1140458/140‑1 (MQ=255)
                                                                         tCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAgcgc                                                         >  1:1030413/1‑140 (MQ=255)
                                                                          cGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGcc                                                        >  2:845632/1‑140 (MQ=255)
                                                                             cAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCAAGt                                                     <  2:1030413/140‑1 (MQ=255)
                                                                                   tGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCt                                               >  1:141971/1‑140 (MQ=255)
                                                                                   tGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCt                                               >  2:560129/1‑140 (MQ=255)
                                                                                   tGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCt                                               >  2:1200143/1‑140 (MQ=255)
                                                                                          aaaCGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTg                                        <  1:536090/140‑1 (MQ=255)
                                                                                                          gcATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTgcgc                        >  2:1055764/1‑140 (MQ=255)
                                                                                                           cATGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGcc                       <  1:376140/140‑1 (MQ=255)
                                                                                                            aTGGGCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCt                      <  1:1161792/140‑1 (MQ=255)
                                                                                                               ggCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGAt                   >  1:653659/1‑140 (MQ=255)
                                                                                                               ggCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGAt                   >  2:434134/1‑140 (MQ=255)
                                                                                                               ggCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGAt                   >  1:526594/1‑140 (MQ=255)
                                                                                                               ggCGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGAt                   >  2:1189075/1‑140 (MQ=255)
                                                                                                                 cGAGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAg                 <  1:1100768/140‑1 (MQ=255)
                                                                                                                   aGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGcc               >  2:638265/1‑140 (MQ=255)
                                                                                                                   aGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGcc               >  2:1067974/1‑140 (MQ=255)
                                                                                                                   aGGAACACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGcc               >  1:924098/1‑140 (MQ=255)
                                                                                                                      aaCACCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTAc            >  1:197299/1‑140 (MQ=255)
                                                                                                                        cacCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGcc               >  1:1031700/1‑135 (MQ=255)
                                                                                                                        cacCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGcc               <  2:1031700/135‑1 (MQ=255)
                                                                                                                         acCGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACttt         >  2:357022/1‑140 (MQ=255)
                                                                                                                          ccGCGAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTg        >  1:385886/1‑140 (MQ=255)
                                                                                                                           cgcgAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTgg       <  2:330901/140‑1 (MQ=255)
                                                                                                                           cgcgAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTgg       <  2:141971/140‑1 (MQ=255)
                                                                                                                           cgcgAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTgg       <  1:560129/140‑1 (MQ=255)
                                                                                                                           cgcgAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTgg       <  1:845632/140‑1 (MQ=255)
                                                                                                                            gcgAGGATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGc      <  1:357022/140‑1 (MQ=255)
                                                                                                                                ggATTAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATg  >  1:140422/1‑140 (MQ=255)
                                                                                                                                    |                                                                                                                                       
GAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCCAATCATGCGACCAAACGGACCAATCAGCGCATGGGCGAGGAACACCGCGAGGATCAGCGAACAGACGGGTACCACCACCAGATAGAGGTAATCCGGCACGATGCGTTTAAGGCGAGTTTCAATAACGCCCAGCGCCAGTCCGGCTAACAGTGCCGGGATCACCTGCGCCTGATAGCCTACTTTGGCGATG  >  NC_000913/4465248‑4465515

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