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 180 66.5 2263572 99.4% 2249990 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,637,700 C→T R335R (CGC→CGT)  creC → sensory histidine kinase CreC

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,637,7000CT100.0% 185.4 / NA 54R335R (CGC→CGT) creCsensory histidine kinase CreC
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (24/30);  total (24/30)

GCTCGTTTTACTGACAACATTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGCCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTACTGGATAACGCCA  >  NC_000913/4637566‑4637833
                                                                                                                                      |                                                                                                                                      
gCTCGTTTTACTGACAACATTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGt                                                                                                                                   <  1:782574/140‑1 (MQ=255)
    gTTTTACTGACAACATTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGc                                                                                                                               <  1:643136/140‑1 (MQ=255)
     ttttACTGACAACATTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCg                                                                                                                              >  2:624374/1‑140 (MQ=255)
      tttACTGACAACATTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGa                                                                                                                             <  1:372511/140‑1 (MQ=255)
            gACAACATTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAgcgcg                                                                                                                       <  2:274620/140‑1 (MQ=255)
            gACAACATTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAgcgcg                                                                                                                       <  2:860993/140‑1 (MQ=255)
            gACAACATTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAgcgcg                                                                                                                       <  1:109241/140‑1 (MQ=255)
             acaacaTTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAgcgcgc                                                                                                                      >  1:629279/1‑140 (MQ=255)
              caacaTTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAgcgcg                                                                                                                       <  1:219358/138‑1 (MQ=255)
              caacaTTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAgcgcg                                                                                                                       >  2:219358/1‑138 (MQ=255)
                         cGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTg                                                                                                          >  1:184247/1‑140 (MQ=255)
                         cGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTg                                                                                                          >  1:253571/1‑140 (MQ=255)
                           cAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGc                                                                                                        >  2:271908/1‑140 (MQ=255)
                               aTGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑aa                                                                                                   <  2:629279/140‑1 (MQ=255)
                                        tGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATc                                                                                          >  2:356584/1‑140 (MQ=255)
                                         gCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCa                                                                                         <  2:898220/140‑1 (MQ=255)
                                         gCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCa                                                                                         <  1:841133/140‑1 (MQ=255)
                                          cAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCAc                                                                                        <  2:184247/140‑1 (MQ=255)
                                          cAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCAc                                                                                        <  2:1090325/140‑1 (MQ=255)
                                           aGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCAct                                                                                       <  1:205021/140‑1 (MQ=255)
                                            ggCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCActc                                                                                      >  1:53950/1‑140 (MQ=255)
                                              cATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTg                                                                                    <  1:894452/140‑1 (MQ=255)
                                               aTTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGc                                                                                   >  1:986154/1‑140 (MQ=255)
                                                   gTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGt                                                                               >  2:1105667/1‑140 (MQ=255)
                                                             tactacGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCAcc                                                                     >  1:1107298/1‑140 (MQ=255)
                                                              actacGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCg                                                                    <  1:1105667/140‑1 (MQ=255)
                                                              actacGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCg                                                                    >  1:1130959/1‑140 (MQ=255)
                                                                   gCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGtt                                                               <  2:53950/140‑1 (MQ=255)
                                                                   gCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGtt                                                               <  2:253571/140‑1 (MQ=255)
                                                                       ggCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACg                                                           >  2:450445/1‑140 (MQ=255)
                                                                                 gagaATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGa                                                 <  1:271908/140‑1 (MQ=255)
                                                                                  agaATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGaa                                                <  2:1107298/140‑1 (MQ=255)
                                                                                    aaTCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGt                                                          >  1:559615/1‑128 (MQ=255)
                                                                                    aaTCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGt                                                          <  2:559615/128‑1 (MQ=255)
                                                                                      tCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCgg                                            >  2:413728/1‑140 (MQ=255)
                                                                                      tCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCgg                                            >  1:625673/1‑140 (MQ=255)
                                                                                      tCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCgg                                            >  1:1108828/1‑140 (MQ=255)
                                                                                             gAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACt                                     <  2:512048/140‑1 (MQ=255)
                                                                                                   gTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCa                               <  2:986154/140‑1 (MQ=255)
                                                                                                      cTGACTGCTGTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGgc                            <  1:749845/140‑1 (MQ=255)
                                                                                                           tgctgTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTgg                       <  1:918419/140‑1 (MQ=255)
                                                                                                              tgTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGaa                    <  1:55474/140‑1 (MQ=255)
                                                                                                              tgTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGaa                    >  1:437866/1‑140 (MQ=255)
                                                                                                              tgTTGATGTGGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGaa                    <  1:413728/140‑1 (MQ=255)
                                                                                                                     gtgGCGGCATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTACt             >  2:910969/1‑140 (MQ=255)
                                                                                                                       ggcggcATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTa               <  2:492446/136‑1 (MQ=255)
                                                                                                                       ggcggcATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTa               >  1:492446/1‑136 (MQ=255)
                                                                                                                       ggcggcATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTACTgg           >  2:506894/1‑140 (MQ=255)
                                                                                                                        gcggcATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTACTGGa          >  1:159599/1‑140 (MQ=255)
                                                                                                                          ggcATTATTCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTACTGGATa        >  1:65265/1‑140 (MQ=255)
                                                                                                                                attCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTACTGGATAACGCCa  <  2:250892/140‑1 (MQ=255)
                                                                                                                                attCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTACTGGATAACGCCa  <  1:910969/140‑1 (MQ=255)
                                                                                                                                  tCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAGAAAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTACTGGATAACGcc   <  2:280970/138‑1 (MQ=255)
                                                                                                                                  tCCGTCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAGAAAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTACTGGATAACGcc   >  1:280970/1‑138 (MQ=255)
                                                                                                                                      |                                                                                                                                      
GCTCGTTTTACTGACAACATTCTGACGCAAAATGCGCGTATGCAGGCATTGGTAGAAACGTTACTACGCCAGGCAAGACTGGAGAATCGTCAGGAAGTCGTTCTGACTGCTGTTGATGTGGCGGCATTATTCCGCCGCGTCAGCGAAGCGCGCACCGTGCAGTTGGCAG‑AAAAAAAAATCACTCTGCATGTTACGCCCACCGAGGTTAACGTTGCTGCTGAACCGGCGTTACTGGAGCAGGCGCTGGGAAATTTACTGGATAACGCCA  >  NC_000913/4637566‑4637833

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