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
A3 F50 I2 R1 257 49.9 1554294 99.0% 1538751 150.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,942,711 A→G intergenic (‑144/+207) gcvA ← / ← ygdI glycine cleavage system transcriptional activator; autorepressor/DUF903 family verified lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,942,7110AG100.0% 172.3 / NA 51intergenic (‑144/+207)gcvA/ygdIglycine cleavage system transcriptional activator; autorepressor/DUF903 family verified lipoprotein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (29/22);  total (29/22)

GACATGGCTATTAAACTTTGATGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAACGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCTGTACATTTACCCTGTCTGT  >  NC_000913/2942563‑2942856
                                                                                                                                                    |                                                                                                                                                 
gACATGGCTATTAAACTTTGATGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCg                                                                                                                                                 >  1:187230/1‑151 (MQ=255)
   aTGGCTATTAAACTTTGATGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGaa                                                                                                                                               >  2:24648/1‑150 (MQ=255)
    tGGCTATTAAACTTTGATGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGaaa                                                                                                                                              >  2:425781/1‑150 (MQ=255)
        tATTAAACTTTGATGTTAAATGACTTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGGGCCGGAGCGCAAAGttt                                                                                                                                         >  1:59909/1‑151 (MQ=255)
            aaaCTTTGATGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATc                                                                                                                                     >  2:290058/1‑151 (MQ=255)
             aaCTTTGATGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCg                                                                                                                                    >  2:381980/1‑151 (MQ=255)
                 ttGATGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGa                                                                                                                                  <  1:459366/149‑1 (MQ=255)
                   gATGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGc                                                                                                                              <  2:707827/151‑1 (MQ=255)
                    aTGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCg                                                                                                                             >  2:299959/1‑151 (MQ=255)
                     tGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCgt                                                                                                                            >  2:97221/1‑151 (MQ=255)
                      gTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCgt                                                                                                                            <  2:552417/150‑1 (MQ=255)
                        tAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGtt                                                                                                                         >  1:385360/1‑151 (MQ=255)
                          aaTGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCt                                                                                                                       <  1:627912/151‑1 (MQ=255)
                           aTGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTg                                                                                                                      <  1:758243/151‑1 (MQ=255)
                                tttAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGa                                                                                                                  >  2:291794/1‑150 (MQ=255)
                                       aTTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACtt                                                                                                              >  2:106657/1‑147 (MQ=255)
                                       aTTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACtt                                                                                                              <  1:106625/147‑1 (MQ=255)
                                         tAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGc                                                                                                         >  2:418120/1‑150 (MQ=255)
                                                 acTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGtt                                                                                                 <  2:330250/150‑1 (MQ=255)
                                                       tAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGAtgt                                                                                          >  2:331289/1‑151 (MQ=255)
                                                        aaCCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCTGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGAtgtt                                                                                         >  1:482476/1‑151 (MQ=255)
                                                         aCCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGAtgttg                                                                                        >  2:467361/1‑151 (MQ=255)
                                                              ttAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGAtgttgtgtt                                                                                    >  2:234710/1‑150 (MQ=255)
                                                                aGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGAtgttgtgttgtt                                                                                 <  2:759459/151‑1 (MQ=255)
                                                                aGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGAtgttgtgttgtt                                                                                 >  2:415759/1‑151 (MQ=255)
                                                                     ttttAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGATTTATCGGAAAGCGTGATCTGGTGAACTTTTGGTTTACGGTTGGGATgttgtgttgttgtgtt                                                                            >  1:446049/1‑151 (MQ=255)
                                                                       ttAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGttt                                                                           <  1:57016/150‑1 (MQ=255)
                                                                        tAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTg                                                                          <  1:527458/150‑1 (MQ=255)
                                                                        tAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTg                                                                          <  2:453443/150‑1 (MQ=255)
                                                                          aTCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCa                                                                        >  1:568041/1‑150 (MQ=255)
                                                                            cTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGCTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAAtt                                                                     >  1:452975/1‑151 (MQ=255)
                                                                                  cATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTg                                                               <  1:299926/151‑1 (MQ=255)
                                                                                        aaaTTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGAtt                                                          <  1:104362/150‑1 (MQ=255)
                                                                                           ttGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTc                                                         >  2:551664/1‑148 (MQ=255)
                                                                                             gTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGAc                                                     <  1:274759/150‑1 (MQ=255)
                                                                                                cGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATg                                                 >  2:573143/1‑151 (MQ=255)
                                                                                                   tGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGt                                               <  2:356229/150‑1 (MQ=255)
                                                                                                   tGAGCGTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGGCTGCGATTCAGCCCATGGt                                               <  1:586130/150‑1 (MQ=255)
                                                                                                                     tACCTATAGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTc                            >  2:422304/1‑151 (MQ=255)
                                                                                                                           taGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTc                       <  2:623424/150‑1 (MQ=255)
                                                                                                                            aGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCt                     <  1:422253/151‑1 (MQ=255)
                                                                                                                            aGTGGCGGCACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCt                     <  2:21535/151‑1 (MQ=255)
                                                                                                                            aGTGGCGGCACGTCCGGAGCCGAAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACGTTTGGGTTACGGTTGTGATGTTGTGTTGGTGTGTTTGGAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTGACTTTTTTCACGTcc                      <  1:264961/150‑1 (MQ=255)
                                                                                                                               ggcggcACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCTGt                   >  2:461959/1‑150 (MQ=255)
                                                                                                                                gcggcACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCTGTAc                 >  2:87134/1‑151 (MQ=255)
                                                                                                                                  ggcACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCTGTACAt               >  2:364053/1‑151 (MQ=255)
                                                                                                                                   gcACTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCTGTACAtt              <  1:405871/151‑1 (MQ=255)
                                                                                                                                      cTTCCTGAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCTGTACATTTAc           >  1:342419/1‑151 (MQ=255)
                                                                                                                                            gAGCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCTGTACATTTACCctgtc     <  1:319279/151‑1 (MQ=255)
                                                                                                                                              gCCGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCTGTACATTTACCctgtctg   >  2:448521/1‑151 (MQ=255)
                                                                                                                                               ccGGAGCGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCTGTACATTTACCctgtctgt  >  1:748317/1‑151 (MQ=255)
                                                                                                                                                    |                                                                                                                                                 
GACATGGCTATTAAACTTTGATGTTAAATGAATTTAACAATTAGATCACACTATGTAACCTATTAGTTTTTTTAATCTGAGCCATTATAAATTGTCCGTTGAGCTTCTACCAGCAAATACCTATAGTGGCGGCACTTCCTGAGCCGGAACGAAAAGTTTTATCGGAATGCGTGTTCTGGTGAACTTTTGGCTTACGGTTGTGATGTTGTGTTGTTGTGTTTGCAATTGGTCTGCGATTCAGACCATGGTAGCAAAGCTACCTTTTTTCACTTCCTGTACATTTACCCTGTCTGT  >  NC_000913/2942563‑2942856

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A