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
A4 F1 I2 R1 780 68.3 3343050 93.5% 3125751 102.9

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% 206.8 / NA 58S70G (AGC→GGC) ugpEsn‑glycerol‑3‑phosphate ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (29/29);  total (29/29)

AAGAAGAGGTTACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCTATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGCCACGTACAGCGGGAA  >  NC_000913/3589687‑3589955
                                                                                                                                     |                                                                                                                                       
aagaagaGGTTACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGCTAAGCAACATCCGCCAGAACGGCGCGCCATTCg                                                                                                                                    >  2:581829/1‑139 (MQ=255)
     gagGTTACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCt                                                                                                                               >  1:355845/1‑139 (MQ=255)
        gTTACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTAcc                                                                                                                            <  2:491748/139‑1 (MQ=255)
          tACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTAcccc                                                                                                                          >  2:1369819/1‑139 (MQ=255)
           aCGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                                      <  2:342963/126‑1 (MQ=255)
           aCGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                                      >  1:342963/1‑126 (MQ=255)
            cGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGt                                                                                                                        <  1:677677/139‑1 (MQ=255)
             gTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                                      >  2:1596554/1‑124 (MQ=255)
             gTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                                      <  1:1596554/124‑1 (MQ=255)
             gTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGtt                                                                                                                       <  2:449958/139‑1 (MQ=255)
             gTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGtt                                                                                                                       >  2:954654/1‑139 (MQ=255)
                gCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCAc                                                                                                                    >  1:1131983/1‑139 (MQ=255)
                 cGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCAcc                                                                                                                   >  1:821349/1‑139 (MQ=255)
                  ggAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCAccc                                                                                                                  >  1:373846/1‑139 (MQ=255)
                          aaaCCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGAtgttg                                                                                                          <  2:1131983/139‑1 (MQ=255)
                           aaCCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGtt                                                                                                                       >  2:485065/1‑125 (MQ=255)
                           aaCCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCGGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGtt                                                                                                                       <  1:485065/125‑1 (MQ=255)
                                  cAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGa                                                                                                      >  1:1014986/1‑135 (MQ=255)
                                  cAATGGCAAATGCCGAGAGCATCGAGACGGTAATTATGCCGAGCGTAATGCTGAACGCCATCTCAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCAGCCAGATGTTGTGGa                                                                                                      <  2:1014986/135‑1 (MQ=255)
                                   aaTGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGttt                                                                                                 <  2:355845/139‑1 (MQ=255)
                                     tGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTc                                                                                               <  1:468764/139‑1 (MQ=255)
                                             gCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCt                                                                                                                               >  2:167392/1‑99 (MQ=255)
                                             gCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCt                                                                                                                               <  1:167392/99‑1 (MQ=255)
                                                gagaGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGAtgtg                                                                                    <  2:373846/139‑1 (MQ=255)
                                                 agagCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGAtgtgt                                                                                   >  2:1658610/1‑139 (MQ=255)
                                                    gCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGcc                                                                                <  1:1197010/139‑1 (MQ=255)
                                                      aTCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                                      <  1:1520619/83‑1 (MQ=255)
                                                      aTCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                                      >  2:1520619/1‑83 (MQ=255)
                                                      aTCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCAc                                                                                                                    <  1:331074/101‑1 (MQ=255)
                                                      aTCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCAc                                                                                                                    >  2:331074/1‑101 (MQ=255)
                                                      aTCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCcag                                                                                            >  1:70653/1‑125 (MQ=255)
                                                      aTCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCcag                                                                                            <  2:70653/125‑1 (MQ=255)
                                                       tCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGtt                                                                                                                       <  2:758113/97‑1 (MQ=255)
                                                       tCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGtt                                                                                                                       >  1:758113/1‑97 (MQ=255)
                                                               gTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGtt                                                                                                                       >  1:971967/1‑89 (MQ=255)
                                                               gTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGtt                                                                                                                       <  2:971967/89‑1 (MQ=255)
                                                                          gAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGcgcg                                                          >  1:1319573/1‑139 (MQ=255)
                                                                                    cTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACgg                                                <  2:1319573/139‑1 (MQ=255)
                                                                                            cATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGcc                                                                                >  2:390626/1‑99 (MQ=255)
                                                                                            cATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGcc                                                                                <  1:390626/99‑1 (MQ=255)
                                                                                            cATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTa                                        >  1:1109778/1‑139 (MQ=255)
                                                                                                    aGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGt                                >  1:903887/1‑139 (MQ=255)
                                                                                                    aGCTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGt                                >  2:1010796/1‑139 (MQ=255)
                                                                                                      cTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                                      <  1:1421163/35‑1 (MQ=37)
                                                                                                      cTGTTAAGCAACATCCGCCAGAACGGCGCGCCAtt                                                                                                                                      >  2:1421163/1‑35 (MQ=37)
                                                                                                      cTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGc                                                                                 >  2:243387/1‑88 (MQ=255)
                                                                                                      cTGTTAAGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGc                                                                                 <  1:243387/88‑1 (MQ=255)
                                                                                                            aGCAACATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGa                        >  2:570/1‑139 (MQ=255)
                                                                                                               aaCATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACaa                     <  1:570/139‑1 (MQ=255)
                                                                                                               aaCATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACaa                     <  1:1369819/139‑1 (MQ=255)
                                                                                                                aCATCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACaaa                    <  2:1424403/139‑1 (MQ=255)
                                                                                                                   tCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGc                 >  2:36807/1‑139 (MQ=255)
                                                                                                                   tCCGCCAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGc                 >  2:289116/1‑139 (MQ=255)
                                                                                                                       ccAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCa                                                       >  2:1316765/1‑97 (MQ=255)
                                                                                                                       ccAGAACGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCa                                                       <  1:1316765/97‑1 (MQ=255)
                                                                                                                            aCGGCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGCCACGTACAg        <  2:1109778/139‑1 (MQ=255)
                                                                                                                              ggCGCGCCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGCCACGTACAGCg      <  2:331270/139‑1 (MQ=255)
                                                                                                                                  cgcCATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGCCACGTACAGCGGGaa  <  1:581829/139‑1 (MQ=255)
                                                                                                                                     |                                                                                                                                       
AAGAAGAGGTTACGTAGCGGAAAACGAAACCAGACAATGGCAAATGCCGAGAGCATCGAGACGGTAATTTTGCCGAGCGTAATGCTGAACGCCATCACAAAGCTGTTAAGCAACATCCGCCAGAACGGCGCGCTATTCGTGCCTACCCCGTTCACCCAGATGTTGTGGATGTTTTCCAGCAGATGTGTGCCGGGGATGAGCGTCATCGGCGCGGCATAGACGGCCTGTTTATCCAGCGTCGCCGCGACAAACGCCACGTACAGCGGGAA  >  NC_000913/3589687‑3589955

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