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
A2 F1 I2 R1 764 42.0 2018750 95.5% 1927906 109.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,781,132 T→C D532G (GAC→GGC)  ypjA ← adhesin‑like autotransporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,781,1320TC100.0% 222.4 / NA 61D532G (GAC→GGC) ypjAadhesin‑like autotransporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (31/30);  total (31/30)

CATTTTTAGCTTCTGAATTCCTGATGTAGAAAGCATCACCATAACTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGTCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCGAGGTTTTAGCCACTACCGTCAGTTCGC  >  NC_000913/2780998‑2781264
                                                                                                                                      |                                                                                                                                    
cATTTTTAGCTTCTGAATTCCTGATGTAGAAAGCATCACCATAACTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTg                                                                                                                                  <  2:532496/139‑1 (MQ=255)
             tGAATTCCTGATGTAGAAAGCATCACCATAACTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAAcg                                                                                                                     >  2:761295/1‑139 (MQ=255)
               aaTTCCTGATGTAGAAAGCATCACCATAACTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAAcgcc                                                                                                                   >  2:246531/1‑139 (MQ=255)
                   ccTGATGTAGAAAGCATCACCATAACTGTTGGTTCCTTCGATAAGTGTTCCGGGGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCa                                                                                                               <  2:853047/139‑1 (MQ=255)
                            gAAAGCATCACCATAACTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGt                                                                                                      <  2:461441/139‑1 (MQ=255)
                             aaaGCATCACCATAACTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTc                                                                                                     >  2:55086/1‑139 (MQ=255)
                                      ccATAACTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTAt                                                                                            <  1:761295/139‑1 (MQ=255)
                                      ccATAACTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTAt                                                                                            <  1:246531/139‑1 (MQ=255)
                                         tAACTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTg                                                                                         >  1:497822/1‑139 (MQ=255)
                                            cTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATAAAGTCTGGTGCTATCTGttt                                                                                      >  1:663805/1‑139 (MQ=255)
                                               ttGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAg                                                                                   >  1:131289/1‑139 (MQ=255)
                                               ttGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAg                                                                                   >  2:972742/1‑139 (MQ=255)
                                               ttGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAAGGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAg                                                                                   >  1:715470/1‑139 (MQ=255)
                                                 ggTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTAt                                                                                            <  2:719650/128‑1 (MQ=255)
                                                 ggTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTAt                                                                                            >  1:719650/1‑128 (MQ=255)
                                                 ggTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGttt                                                                                      <  2:182500/134‑1 (MQ=255)
                                                 ggTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGttt                                                                                      >  1:182500/1‑134 (MQ=255)
                                                 ggTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGcc                                                                                 <  2:12350/139‑1 (MQ=255)
                                                    tCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTAt                                                                                            <  1:842327/125‑1 (MQ=255)
                                                    tCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTAt                                                                                            >  2:842327/1‑125 (MQ=255)
                                                            tAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCt                                                                                                                                   >  2:47169/1‑78 (MQ=255)
                                                            tAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCt                                                                                                                                   <  1:47169/78‑1 (MQ=255)
                                                                   tCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTg                                                                                                                                  >  1:228062/1‑72 (MQ=255)
                                                                   tCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTg                                                                                                                                  <  2:228062/72‑1 (MQ=255)
                                                                     cGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGc                                                                                  <  1:429539/118‑1 (MQ=255)
                                                                     cGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGc                                                                                  >  2:429539/1‑118 (MQ=255)
                                                                      ggAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTa                                                            <  2:715470/139‑1 (MQ=255)
                                                                          gTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGc                                                        <  1:338966/139‑1 (MQ=255)
                                                                            cGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAAcgccg                                                                                                                  >  1:860697/1‑79 (MQ=255)
                                                                            cGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAAcgccg                                                                                                                  <  2:860697/79‑1 (MQ=255)
                                                                            cGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCattatt                                                                                                          <  1:312877/87‑1 (MQ=255)
                                                                            cGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCattatt                                                                                                          >  2:312877/1‑87 (MQ=255)
                                                                                   gCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCaa                                               <  2:497822/139‑1 (MQ=255)
                                                                                    cAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATc                                                 >  1:30638/1‑136 (MQ=255)
                                                                                    cAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATc                                                 <  2:30638/136‑1 (MQ=255)
                                                                                        tAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATAAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGgta                                          <  2:663805/139‑1 (MQ=255)
                                                                                         aaTGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGttt                                                                                      >  1:418885/1‑94 (MQ=255)
                                                                                         aaTGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGttt                                                                                      <  2:418885/94‑1 (MQ=255)
                                                                                           tGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACgccgcc                                                                                                                <  1:905903/66‑1 (MQ=255)
                                                                                           tGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACgccgcc                                                                                                                >  2:905903/1‑66 (MQ=255)
                                                                                              gccgccGGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTAttt                                    >  1:809196/1‑139 (MQ=255)
                                                                                               ccgccgGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGcc                                                                                 >  2:984651/1‑93 (MQ=255)
                                                                                               ccgccgGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGcc                                                                                 <  1:984651/93‑1 (MQ=255)
                                                                                               ccgccgGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATc                                                 <  2:541481/125‑1 (MQ=255)
                                                                                               ccgccgGATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATc                                                 >  1:541481/1‑125 (MQ=255)
                                                                                                     gATTGTTGCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCg                             <  1:55086/139‑1 (MQ=255)
                                                                                                       ttgttgCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCGAg                           >  2:502885/1‑139 (MQ=255)
                                                                                                           tgCTCAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCGAGGttt                       <  2:131289/139‑1 (MQ=255)
                                                                                                               cAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCaa                                               >  1:847911/1‑111 (MQ=255)
                                                                                                               cAACATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCaa                                               <  2:847911/111‑1 (MQ=255)
                                                                                                                 aCATGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCGAGGTTTTAGCCa                 <  1:502885/139‑1 (MQ=255)
                                                                                                                    tGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCg                             <  2:248560/124‑1 (MQ=255)
                                                                                                                    tGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCg                             >  1:248560/1‑124 (MQ=255)
                                                                                                                    tGCTTAGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCGAGGTTTTAGCCACTa              >  2:398131/1‑139 (MQ=255)
                                                                                                                         aGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTg                                                                                                <  1:773087/52‑1 (MQ=255)
                                                                                                                         aGCCTCACCACCGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTg                                                                                                >  2:773087/1‑52 (MQ=255)
                                                                                                                               accaccGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTgg                                                                        >  1:689807/1‑70 (MQ=255)
                                                                                                                               accaccGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTgg                                                                        <  2:689807/70‑1 (MQ=255)
                                                                                                                               accaccGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCGAGGTTTTAGCCACTACCGTCAGTTCg   >  2:141952/1‑139 (MQ=255)
                                                                                                                               accaccGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCGAGGTTTTAGCCACTACCGTCAGTTCg   >  2:274879/1‑139 (MQ=255)
                                                                                                                                ccaccGCCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCGAGGTTTTAGCCACTACCGTCAGTTCGc  >  2:297996/1‑139 (MQ=255)
                                                                                                                                      |                                                                                                                                    
CATTTTTAGCTTCTGAATTCCTGATGTAGAAAGCATCACCATAACTGTTGGTTCCTTCGATAAGTGTTCCGGAGGTCGTGGAAGCAATTAATGCGCCGCCGGATTGTTGCTCAACATGCTTAGCCTCACCACCGTCCTGAACCTCCAGAACGCCGCCATTATTAAGTCTGGTGCTATCTGTTTTAGCCTCCTTCTGGACAATCAGCTTACCGCCAGTATCAATGGTAGTATTTTTCGCCGAGGTTTTAGCCACTACCGTCAGTTCGC  >  NC_000913/2780998‑2781264

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