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
A11 F28 I1 R1 161 75.5 2581324 99.3% 2563254 138.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,503,862 (C)5→4 coding (624/2496 nt) fryA ← putative PTS multiphosphoryl transfer protein FryA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,503,8580C.100.0% 199.5 / NA 46coding (628/2496 nt)fryAputative PTS multiphosphoryl transfer protein FryA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (28/18);  total (28/18)

CGCGGCTTCAGTTCCGGCCAGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCGCCCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCAGTTG  >  NC_000913/2503719‑2503993
                                                                                                                                           |                                                                                                                                       
cgcgGCTTCAGTTCCGGCCAGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATcgccgc                                                                                                                                         >  1:939285/1‑140 (MQ=255)
  cgGCTTCAGTTCCGGCCAGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCGccc                                                                                                                                       >  1:277426/1‑140 (MQ=255)
  cgGCTTCAGTTCCGGCCAGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCGccc                                                                                                                                       <  1:908607/140‑1 (MQ=255)
       tCAGTTCCGGCCAGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCGccccagcc                                                                                                                                  <  2:939285/140‑5 (MQ=255)
         aGTTCCGGCCAGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGcccc                                                                                                                               <  2:277426/140‑1 (MQ=255)
              cGGCCAGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATg                                                                                                                          <  1:67912/140‑1 (MQ=255)
               ggCCAGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGc                                                                                                                         >  1:235645/1‑140 (MQ=255)
                gCCAGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCt                                                                                                                        >  1:952657/1‑140 (MQ=255)
                   aGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGtt                                                                                                                     <  2:564996/140‑1 (MQ=255)
                   aGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGtt                                                                                                                     <  1:185913/140‑1 (MQ=255)
                          atGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCt                                                                                                                        <  1:1081095/130‑1 (MQ=255)
                          atGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCt                                                                                                                        >  2:1081095/1‑130 (MQ=255)
                             cagcaACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAg                                                                                                           <  2:952657/140‑1 (MQ=255)
                               gcaACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGc                                                                                                         >  1:553695/1‑140 (MQ=255)
                                caACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCg                                                                                                        >  2:1242185/1‑140 (MQ=255)
                                caACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCg                                                                                                        >  2:555644/1‑140 (MQ=255)
                                  aCTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGAc                                                                                                      >  1:243693/1‑140 (MQ=255)
                                    tGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACgg                                                                                                    <  1:555644/140‑1 (MQ=255)
                                     gTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGa                                                                                                   >  1:748198/1‑140 (MQ=255)
                                      ttCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGat                                                                                                  >  2:774298/1‑140 (MQ=255)
                                      ttCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGat                                                                                                  >  2:349044/1‑140 (MQ=255)
                                              tatCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTg                                                                                          >  1:896729/1‑140 (MQ=255)
                                                            cTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATcc                                                                            >  1:844512/1‑140 (MQ=255)
                                                                 acGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAAt                                                                       <  2:748198/140‑1 (MQ=255)
                                                                 acGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAAt                                                                       <  2:235645/140‑1 (MQ=255)
                                                                   gTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATtcat                                                                                 >  1:1052331/1‑128 (MQ=255)
                                                                   gTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATtcat                                                                                 <  2:1052331/128‑1 (MQ=255)
                                                                    ttCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAg                                                                    <  2:553695/140‑1 (MQ=255)
                                                                     tCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGc                                                                   >  1:312779/1‑140 (MQ=255)
                                                                        cgcAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGAc                                                                >  1:1285864/1‑140 (MQ=255)
                                                                              tAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATgg                                                          <  2:1285864/140‑1 (MQ=255)
                                                                                     tGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGgcg                                                       >  2:708779/1‑136 (MQ=255)
                                                                                     tGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGgcg                                                       <  1:708779/136‑1 (MQ=255)
                                                                                       gcagaggcagaAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAgg                                                 >  2:350602/1‑140 (MQ=255)
                                                                                             gcagaAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGtt                                           <  1:349044/140‑1 (MQ=255)
                                                                                                      ttGGCGCAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCg                                  <  1:774298/140‑1 (MQ=255)
                                                                                                            cAAACCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGCTATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGtca                            <  2:896729/140‑1 (MQ=255)
                                                                                                              aaCCTGCTCCATATTGCTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGtcacg                          >  1:346001/1‑140 (MQ=255)
                                                                                                                             gCTGATGATCGCCG‑CCCCAGCCCCAGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCt            >  2:1077458/1‑139 (MQ=255)
                                                                                                                             gCTGATGATCGCCG‑CCCCAGCCCCAGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCt            <  1:1077458/139‑1 (MQ=255)
                                                                                                                              cTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTgg          >  2:446281/1‑140 (MQ=255)
                                                                                                                              cTGATGATCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTgg          >  1:288695/1‑140 (MQ=255)
                                                                                                                                 atgatCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTc       >  2:330271/1‑140 (MQ=255)
                                                                                                                                  tgatCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCa      <  1:446281/140‑1 (MQ=255)
                                                                                                                                  tgatCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACACTCACGCAATTGCTGGTTCa      >  2:191930/1‑140 (MQ=255)
                                                                                                                                   gatCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCAg     >  2:382034/1‑140 (MQ=255)
                                                                                                                                   gatCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCAg     >  1:764572/1‑140 (MQ=255)
                                                                                                                                   gatCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCAg     >  2:588738/1‑140 (MQ=255)
                                                                                                                                   gatCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCAg     >  2:657111/1‑140 (MQ=255)
                                                                                                                                    atCGCCG‑CCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCAGt    >  1:540199/1‑140 (MQ=255)
                                                                                                                                      cgccg‑cCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCAGTTg  >  1:978055/1‑140 (MQ=255)
                                                                                                                                      cgccg‑cCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCAGTTg  <  1:350602/140‑1 (MQ=255)
                                                                                                                                      cgccg‑cCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCAGTTg  <  1:657111/140‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                       
CGCGGCTTCAGTTCCGGCCAGGTGATATGCAGCAACTGTTCGCTGATATCGCGAATGTCGCTAACACGTTCGCGCAGATAATCGCTGGCAGAGGCAGAAAGTTTGGCGCAAACCTGCTCCATATTGCTGATGATCGCCGCCCCCAGCCCCTGATGCTGTTCTGTCATCAGGCGACGGATATTGCCTGCAAATTCATCATCCTGAATCAGCGACAAATGGGCGCTGAGGATAGTTTTGCTTTCGCCGTCACGCTCACGCAATTGCTGGTTCAGTTG  >  NC_000913/2503719‑2503993

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