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
A12 F1 I2 R1 766 55.6 2631458 94.7% 2491990 109.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,736,276 C→T intergenic (+119/+77) xylR → / ← bax xylose divergent operon transcriptional activator/putative glucosaminidase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,736,2760CT100.0% 201.4 / NA 62intergenic (+119/+77)xylR/baxxylose divergent operon transcriptional activator/putative glucosaminidase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (26/36);  total (26/36)

CGAGGTCATGTTGTAGCG‑ATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGCTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGCGAACAGGTAGT  >  NC_000913/3736142‑3736408
                                                                                                                                       |                                                                                                                                    
cGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCg                                                                                                                                   <  2:1201812/139‑1 (MQ=255)
  aGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTa                                                                                                                                 <  1:500747/139‑1 (MQ=255)
  aGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTa                                                                                                                                 >  2:551711/1‑139 (MQ=39)
   ggTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAg                                                                                                                                >  2:861711/1‑139 (MQ=255)
     tCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCt                                                                                                                              >  1:1095908/1‑139 (MQ=39)
        tgttgtAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                           <  1:725506/139‑1 (MQ=39)
        tgttgtAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                           <  1:954814/139‑1 (MQ=39)
        tgttgtAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                           <  1:246853/139‑1 (MQ=255)
         gttgtAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCCACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAAc                                                                                                                          >  2:775645/1‑139 (MQ=39)
             taacgaatgatgAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGcc                                                                                                                      <  1:766110/133‑1 (MQ=255)
                  aatgatgAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTgaga                                                                                                                 >  2:1314610/2‑139 (MQ=255)
                   atgatgAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCGGGTTCGTAGCTCAACTGCCTGAGAc                                                                                                                <  1:735148/139‑1 (MQ=255)
                    tgatgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACa                                                                                                               >  1:272656/1‑139 (MQ=255)
                    tgatgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACa                                                                                                               <  2:330912/139‑1 (MQ=255)
                    tgatgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACa                                                                                                               >  2:828555/1‑139 (MQ=255)
                     gatgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACaa                                                                                                              <  2:1095908/139‑1 (MQ=255)
                     gatgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACaa                                                                                                              <  1:775645/139‑1 (MQ=255)
                      atgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACaaa                                                                                                             <  1:828555/139‑1 (MQ=255)
                       tgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACaa                                                                                                              <  2:967018/137‑1 (MQ=255)
                       tgaGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACaa                                                                                                              >  1:967018/1‑137 (MQ=255)
                           aaTTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTaaa                                                                                                        <  2:272656/139‑1 (MQ=255)
                                            cAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGa                                                                                       <  2:509007/139‑1 (MQ=255)
                                                       gCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATa                                                                            <  1:551711/139‑1 (MQ=255)
                                                              tGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCa                                                                     >  1:1263505/1‑139 (MQ=255)
                                                                      gcggcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAGTg                                                             <  1:861711/139‑1 (MQ=255)
                                                                       cggcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                           >  1:1135189/1‑76 (MQ=255)
                                                                       cggcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCaa                                                                                                                           <  2:1135189/76‑1 (MQ=255)
                                                                       cggcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACaa                                                                                                              <  1:745701/89‑1 (MQ=255)
                                                                       cggcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACaa                                                                                                              >  2:745701/1‑89 (MQ=255)
                                                                       cggcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGa                                                                              <  2:658426/121‑1 (MQ=255)
                                                                       cggcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGa                                                                              >  1:658426/1‑121 (MQ=255)
                                                                       cggcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGc                                                            >  2:823942/1‑139 (MQ=255)
                                                                         gcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACaa                                                                                    >  1:437574/1‑113 (MQ=255)
                                                                         gcgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACaa                                                                                    <  2:437574/113‑1 (MQ=255)
                                                                          cgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATa                                                                            >  2:1292935/1‑120 (MQ=255)
                                                                          cgTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATa                                                                            <  1:1292935/120‑1 (MQ=255)
                                                                                   cTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAg                                                                                   <  1:28359/104‑1 (MQ=255)
                                                                                   cTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAg                                                                                   >  2:28359/1‑104 (MQ=255)
                                                                                           aCCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGAt                                        >  1:16131/1‑139 (MQ=255)
                                                                                                cccGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGa                                                                              >  1:77720/1‑96 (MQ=255)
                                                                                                cccGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGa                                                                              <  2:77720/96‑1 (MQ=255)
                                                                                                      aGGCATGATAAAACGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGt                             <  2:960608/139‑1 (MQ=255)
                                                                                                                 aaCGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTAc                  >  1:168982/1‑139 (MQ=255)
                                                                                                                 aaCGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTAc                  >  1:305809/1‑139 (MQ=255)
                                                                                                                   cGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCg                                  <  1:507990/121‑1 (MQ=255)
                                                                                                                   cGCACCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCg                                  >  2:507990/1‑121 (MQ=255)
                                                                                                                      aCCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGt                             <  2:1184373/123‑1 (MQ=255)
                                                                                                                      aCCAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGt                             >  1:1184373/1‑123 (MQ=255)
                                                                                                                       ccAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGAt                                                                             <  2:324426/74‑1 (MQ=255)
                                                                                                                       ccAACAACGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGAt                                                                             >  1:324426/1‑74 (MQ=255)
                                                                                                                        caacaaCGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGCGa           <  1:1314610/139‑1 (MQ=255)
                                                                                                                         aacaacGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGCGaa          <  2:1255490/139‑1 (MQ=255)
                                                                                                                          acaacGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGCGAAc         <  2:241115/139‑1 (MQ=255)
                                                                                                                             acGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGCGAACAgg      <  2:305809/139‑1 (MQ=255)
                                                                                                                             acGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGCGAACAgg      <  2:168982/139‑1 (MQ=255)
                                                                                                                              cGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATc                                                                                              <  2:705237/50‑1 (MQ=255)
                                                                                                                              cGCTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATc                                                                                              >  1:705237/1‑50 (MQ=255)
                                                                                                                                cTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAgg                                                                  <  2:525260/76‑1 (MQ=255)
                                                                                                                                cTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAgg                                                                  >  1:525260/1‑76 (MQ=255)
                                                                                                                                cTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGaaa                                                               <  2:42988/79‑1 (MQ=255)
                                                                                                                                cTTCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGaaa                                                               >  1:42988/1‑79 (MQ=255)
                                                                                                                                 ttCAGGTTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTGCATTGCGAACAGGTAgt  <  1:823942/139‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                    
CGAGGTCATGTTGTAGCG‑ATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGCTCGTAGCTCAACTGCCTGAGACAAAGTAAAAAGCCTTATCCGACTGACAAGTCGGATAAGGCTCAAGGAAATGCAATTACATATGCGCCGCGATTAACCGTTGGTTATCCTGGTACATTGCGAACAGGTAGT  >  NC_000913/3736142‑3736408

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A