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
A14 F1 I1 R1 770 68.5 3470224 91.7% 3182195 103.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,504,391 T→C E32G (GAA→GGA)  fryA ← putative PTS enzyme: Hpr, enzyme I and IIA components

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,504,3910TC100.0% 210.5 / NA 57E32G (GAA→GGA) fryAputative PTS enzyme: Hpr, enzyme I and IIA components
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (27/30);  total (27/30)

CGCCGCGCCTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTTCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAGGAG  >  NC_000913/2504256‑2504508
                                                                                                                                       |                                                                                                                      
cgccgcgccTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGc                                                                                                                     >  1:1183300/1‑139 (MQ=255)
      gccTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                               <  1:1439829/139‑1 (MQ=255)
           ctctTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                               >  2:86961/1‑134 (MQ=255)
           ctctTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                               <  1:86961/134‑1 (MQ=255)
                 aTCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCAc                                                                                                    <  1:217195/139‑1 (MQ=255)
                                           aaCTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACg                                                                          >  2:1029369/1‑139 (MQ=255)
                                             cTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAg                                                                        <  2:1279039/139‑1 (MQ=255)
                                                   ttAAATAGAGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAATAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑Ta                                                                 <  1:1029369/139‑1 (MQ=255)
                                                        tAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACg                                                                          <  1:675100/126‑1 (MQ=255)
                                                        tAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACg                                                                          >  2:675100/1‑126 (MQ=255)
                                                          gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                               <  2:1555964/87‑1 (MQ=255)
                                                          gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                               >  1:1555964/1‑87 (MQ=255)
                                                          gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGtt                                                          <  2:565333/139‑1 (MQ=255)
                                                          gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGtt                                                          >  1:1678237/1‑139 (MQ=255)
                                                          gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGtt                                                          >  1:530192/1‑139 (MQ=255)
                                                          gggTGCCAGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCa                                                                                                     <  1:1506218/97‑1 (MQ=255)
                                                          gggTGCCAGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCa                                                                                                     >  2:1506218/1‑97 (MQ=255)
                                                           ggtgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACg                                                                          <  1:227355/123‑1 (MQ=255)
                                                           ggtgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACg                                                                          >  2:227355/1‑123 (MQ=255)
                                                            gtgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGtt                                                          >  2:446301/1‑137 (MQ=255)
                                                            gtgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGtt                                                          <  1:446301/137‑1 (MQ=255)
                                                            gtgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAg                                                        >  2:1675451/1‑139 (MQ=255)
                                                             tgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCAc                                                                                                             >  1:197531/1‑86 (MQ=255)
                                                             tgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCAc                                                                                                             <  2:197531/86‑1 (MQ=255)
                                                              gccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCAc                                                                                                    <  1:1322345/94‑1 (MQ=255)
                                                              gccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCAc                                                                                                    >  2:1322345/1‑94 (MQ=255)
                                                               ccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGTCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCa                                                     <  1:1076772/139‑1 (MQ=255)
                                                               ccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCa                                                     >  2:1261043/1‑139 (MQ=255)
                                                                  gtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAg                                                  >  1:240086/1‑139 (MQ=255)
                                                                    gccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGa                                                >  2:908027/1‑139 (MQ=255)
                                                                       aaTCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACag                                             <  1:1675451/139‑1 (MQ=255)
                                                                             cgcCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCAc                                                                                                    <  2:842302/79‑1 (MQ=255)
                                                                             cgcCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCAc                                                                                                    >  1:842302/1‑79 (MQ=255)
                                                                             cgcCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACg                                                                                 <  2:183567/98‑1 (MQ=255)
                                                                             cgcCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACg                                                                                 >  1:183567/1‑98 (MQ=255)
                                                                                cAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑Ta                                                                 <  2:1307009/110‑1 (MQ=255)
                                                                                cAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑Ta                                                                 >  1:1307009/1‑110 (MQ=255)
                                                                                   cGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTCCCCACG‑CGGACCAACATGTTAGACCG‑TAGGCAAAGGGCCGAAAAAATGaaacc                                >  1:1114980/1‑136 (MQ=255)
                                                                                    gAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGAATCg                                <  1:1261043/139‑1 (MQ=255)
                                                                                                    ccTTTGCGTTCTGGCGATGGTTAATAAGAGTGATTCCGCTTTGCCACTGGCTg                                                                                                       >  2:1033595/1‑53 (MQ=255)
                                                                                                    ccTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTg                                                                                                       <  1:1033595/53‑1 (MQ=255)
                                                                                                       ttGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCggg             <  2:240086/139‑1 (MQ=255)
                                                                                                        tGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGt            <  2:1678237/139‑1 (MQ=255)
                                                                                                        tGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGt            <  2:530192/139‑1 (MQ=255)
                                                                                                              cTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGt            <  1:474229/133‑1 (MQ=255)
                                                                                                              cTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCa      >  2:1369714/1‑139 (MQ=255)
                                                                                                              cTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATGGAATCGTTAACATAACCGCTCCGGGt            >  2:474229/1‑133 (MQ=255)
                                                                                                               tGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAg     <  1:908027/139‑1 (MQ=255)
                                                                                                                  cGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAGgag  <  1:1510041/139‑1 (MQ=255)
                                                                                                                               aaGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGa                                    >  2:468636/1‑92 (MQ=255)
                                                                                                                               aaGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGa                                    <  1:468636/92‑1 (MQ=255)
                                                                                                                                 gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGc                                                      >  1:745849/1‑72 (MQ=255)
                                                                                                                                 gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGc                                                      <  2:745849/72‑1 (MQ=255)
                                                                                                                                 gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCa                                                     >  1:956939/1‑73 (MQ=255)
                                                                                                                                 gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCa                                                     <  2:956939/73‑1 (MQ=255)
                                                                                                                                    aTTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAAtt                                      >  2:1637194/1‑85 (MQ=255)
                                                                                                                                    aTTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAAtt                                      <  1:1637194/85‑1 (MQ=255)
                                                                                                                                       |                                                                                                                      
CGCCGCGCCTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTTCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATG‑TAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAGGAG  >  NC_000913/2504256‑2504508

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A