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
A1 F1 I1 R1 773 79.9 4112934 92.2% 3792125 104.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,589,820 T→C S70G (AGC→GGC)  ugpE ← sn‑glycerol‑3‑phosphate ABC transporter permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,589,8200TC100.0% 215.3 / NA 61S70G (AGC→GGC) ugpEsn‑glycerol‑3‑phosphate ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (29/32);  total (29/32)

AGAAGAAGAGGTTACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCTATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGCCACGTACA  >  NC_000913/3589685‑3589948
                                                                                                                                       |                                                                                                                                
agaagaagaGGTTACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGTCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                               <  2:522690/139‑1 (MQ=255)
agaagaagaGGTTACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                               <  1:846655/139‑1 (MQ=255)
       gagGTTACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCt                                                                                                                        >  1:177306/1‑139 (MQ=255)
           ttACGTAGCGGAAAACGAAACCAGTCAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTAccc                                                                                                                    <  2:1148673/139‑1 (MQ=255)
            tACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                               <  1:565125/127‑1 (MQ=255)
            tACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                               >  2:565125/1‑127 (MQ=255)
              cGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGt                                                                                                                 <  2:1057789/139‑1 (MQ=255)
               gTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGtt                                                                                                                >  2:1164044/1‑139 (MQ=255)
               gTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGtt                                                                                                                <  2:1161183/139‑1 (MQ=255)
                   cGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCAcc                                                                                                            <  2:926247/139‑1 (MQ=255)
                    ggAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCg                                                                                                                  >  2:1288263/1‑132 (MQ=255)
                    ggAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCg                                                                                                                  <  1:1288263/132‑1 (MQ=255)
                    ggAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCAccc                                                                                                           >  2:1437863/1‑139 (MQ=255)
                     gAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCa                                                                                                          >  1:316594/1‑139 (MQ=255)
                               ccAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTgg                                                                                                >  2:1807697/1‑139 (MQ=255)
                                cAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGa                                                                                               <  1:103196/139‑1 (MQ=255)
                                       tGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTc                                                                                        >  2:717708/1‑139 (MQ=255)
                                               gCCGAGAGCTTCAAGACGGTAATTTTGTCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGATCGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGAt                                                                                <  1:613345/139‑1 (MQ=255)
                                                 cGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTAACCCGTTCACCCAGATGTTTTGGATGGTTTCCATCAGAtgg                                                                              >  1:1183795/1‑138 (MQ=255)
                                                   agagCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTg                                                                                                                           <  1:1782056/92‑1 (MQ=255)
                                                   agagCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTg                                                                                                                           >  2:1782056/1‑92 (MQ=255)
                                                     agCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGc                                                                          <  1:553094/139‑1 (MQ=255)
                                                         tCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGtt                                                                                           <  2:856976/118‑1 (MQ=255)
                                                         tCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGtt                                                                                           >  1:856976/1‑118 (MQ=255)
                                                             gaCGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATg                                                                  <  1:1164044/139‑1 (MQ=255)
                                                               cGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                               >  1:413931/1‑76 (MQ=255)
                                                               cGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                               <  2:413931/76‑1 (MQ=255)
                                                               cGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAg                                                                >  2:1646474/1‑139 (MQ=255)
                                                                    aTTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGt                                                                                                                            <  2:926663/74‑1 (MQ=255)
                                                                    aTTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGt                                                                                                                            >  1:926663/1‑74 (MQ=255)
                                                                        tGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCgg                                                       >  2:1496887/1‑139 (MQ=255)
                                                                          ccGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGAtg                                                                               <  1:1285341/113‑1 (MQ=255)
                                                                          ccGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGAtg                                                                               >  2:1285341/1‑113 (MQ=255)
                                                                            gAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGcgcg                                                   >  1:1491606/1‑139 (MQ=255)
                                                                              gCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGc                                                 >  1:1357523/1‑139 (MQ=255)
                                                                                      cTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACgg                                         <  1:1611394/139‑1 (MQ=255)
                                                                                      cTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACgg                                         <  1:1437863/139‑1 (MQ=255)
                                                                                           cGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGt                                    >  2:1121031/1‑139 (MQ=255)
                                                                                                tCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTAGCCCGTTCACCCAGATGTTGTGGATATTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACg                                          <  2:1259234/128‑1 (MQ=255)
                                                                                                tCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTATTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACg                                          >  1:1259234/1‑128 (MQ=255)
                                                                                                           ttAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGt                                                                                                                 >  2:338310/1‑46 (MQ=255)
                                                                                                           ttAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGt                                                                                                                 <  1:338310/46‑1 (MQ=255)
                                                                                                           ttAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGAtgttgt                                                                                                  >  2:968039/1‑61 (MQ=255)
                                                                                                           ttAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGAtgttgt                                                                                                  <  1:968039/61‑1 (MQ=255)
                                                                                                           ttAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTcgccg                    >  1:1160009/1‑139 (MQ=255)
                                                                                                                 aaCATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACaa              <  1:416003/139‑1 (MQ=255)
                                                                                                                 aaCATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACaa              <  1:1807697/139‑1 (MQ=255)
                                                                                                                  aCATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGcc                                                                         >  1:808907/1‑79 (MQ=255)
                                                                                                                  aCATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGcc                                                                         <  2:808907/79‑1 (MQ=255)
                                                                                                                    aTCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACg           <  2:1160009/139‑1 (MQ=255)
                                                                                                                     tCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCa                                                           >  2:1682400/1‑90 (MQ=255)
                                                                                                                     tCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCa                                                           <  1:1682400/90‑1 (MQ=255)
                                                                                                                     tCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGc          >  1:36460/1‑139 (MQ=255)
                                                                                                                          cAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGCCACGt     <  2:1491606/139‑1 (MQ=255)
                                                                                                                           aGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGCCACGTa    <  2:177306/139‑1 (MQ=255)
                                                                                                                             aaCGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGAtgtgtg                                                                           <  2:1743440/66‑1 (MQ=255)
                                                                                                                             aaCGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGAtgtgtg                                                                           >  1:1743440/1‑66 (MQ=255)
                                                                                                                             aaCGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGAt                                                                                <  1:1254115/61‑1 (MQ=255)
                                                                                                                             aaCGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGAt                                                                                >  2:1254115/1‑61 (MQ=255)
                                                                                                                             aaCGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGCCACGTACa  >  1:388838/1‑139 (MQ=255)
                                                                                                                                    cgcCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCgggg                                                                     <  2:1061726/65‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                
AGAAGAAGAGGTTACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCTATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGCCACGTACA  >  NC_000913/3589685‑3589948

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A