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 193 39.9 1341687 91.8% 1231668 149.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 588,485 G→A R824C (CGC→TGC)  nfrA ← bacteriophage N4 receptor, outer membrane subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913588,4850GA100.0% 163.7 / NA 42R824C (CGC→TGC) nfrAbacteriophage N4 receptor, outer membrane subunit
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (12/30);  total (12/30)

TCGGGTGCCATTCGTCGCTGTATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCGCAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCCAGCAGCATATTGCGTCCGATGCGGTACTCGGCTTCCAGTTGTCCGT  >  NC_000913/588338‑588631
                                                                                                                                                   |                                                                                                                                                  
tCGTGTGCCATTCTTCGCTGAATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAACAGATCTGATCGCGCAGCGGCTTCCAGcaca                                                                                                                                                  <  1:511095/150‑1 (MQ=255)
    gTGCCATTCGTCGCTGTATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCg                                                                                                                                             <  1:201078/151‑1 (MQ=255)
      gCCATTCGTCGCTGTATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGt                                                                                                                                           <  2:288438/151‑1 (MQ=255)
          ttCGTCGCTGTATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCg                                                                                                                                       >  2:561157/1‑151 (MQ=255)
             gtcgCTGTATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGAc                                                                                                                                    >  2:97848/1‑151 (MQ=255)
                  tGTATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCAAGCACAGACCGGTGCCGGACATCgg                                                                                                                               >  2:162357/1‑151 (MQ=255)
                   gTATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCgg                                                                                                                               <  1:270430/150‑1 (MQ=255)
                   gTATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGa                                                                                                                              <  1:386848/151‑1 (MQ=255)
                    tATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGa                                                                                                                              <  1:429489/150‑1 (MQ=255)
                         gccgccATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTc                                                                                                                        >  2:167485/1‑151 (MQ=255)
                            gccATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCAcc                                                                                                                     <  1:212924/151‑1 (MQ=255)
                               aTTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGc                                                                                                                  <  2:59249/151‑1 (MQ=255)
                                     gAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCatcatc                                                                                                            >  1:634870/1‑151 (MQ=255)
                                          aGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCAcccc                                                                                                       <  2:637675/151‑1 (MQ=255)
                                          aGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCAcccc                                                                                                       >  1:55006/1‑151 (MQ=255)
                                          aGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCAcccc                                                                                                       <  2:221552/151‑1 (MQ=255)
                                               cTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGtttt                                                                                                  >  2:429804/1‑151 (MQ=255)
                                                 ggCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTtc                                                                                                 <  1:481771/150‑1 (MQ=255)
                                                 ggCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTtc                                                                                                 <  2:92522/150‑1 (MQ=255)
                                                      gcagcaTGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGt                                                                                           <  1:241339/151‑1 (MQ=255)
                                                      gcagcaTGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGt                                                                                           <  1:14284/151‑1 (MQ=255)
                                                           aTGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCgg                                                                                      <  2:362887/151‑1 (MQ=255)
                                                                aTCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCaaa                                                                                  <  1:527984/150‑1 (MQ=255)
                                                                  cGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGAc                                                                               <  1:465996/151‑1 (MQ=255)
                                                                   ggATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGAcg                                                                              <  2:498272/151‑1 (MQ=255)
                                                                     aTGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGAcgcg                                                                            <  1:498399/151‑1 (MQ=255)
                                                                     aTGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGAcgcg                                                                            <  1:260005/151‑1 (MQ=255)
                                                                      tGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCgg                                                                           >  2:594125/1‑151 (MQ=255)
                                                                          ccATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCtat                                                                       <  2:561955/151‑1 (MQ=255)
                                                                                   ccGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTg                                                                 >  2:275406/1‑148 (MQ=255)
                                                                                     gTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGc                                                            <  1:275406/151‑1 (MQ=255)
                                                                                       tCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCa                                                           <  2:104190/150‑1 (MQ=255)
                                                                                          gCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTc                                                       <  2:319935/151‑1 (MQ=255)
                                                                                           cGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCg                                                      <  2:301723/151‑1 (MQ=255)
                                                                                                      gTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCcagcag                                           <  2:25051/151‑1 (MQ=255)
                                                                                                      gTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCcagca                                            <  1:240473/150‑1 (MQ=255)
                                                                                                      gTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCcagc                                             <  1:418141/149‑1 (MQ=255)
                                                                                                                   gAAAAAGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCCAGCAGCATATTGCGTCCg                              >  1:393648/1‑151 (MQ=255)
                                                                                                                        aGATCTGATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCCAGCAGCATATTGCGTCCGATGCg                         <  2:37361/151‑1 (MQ=255)
                                                                                                                              gATCGCGCAGCGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCCAGCAGCATATTGCGTCCGATGCGGTACTc                   <  1:262048/151‑1 (MQ=255)
                                                                                                                                        cGGCTTCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCCAGCAGCATATTGCGTCCGATGCGGTACTCGGCTTCCAGt         <  2:615326/151‑1 (MQ=255)
                                                                                                                                            ttCCAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCCAGCAGCATATTGCGTCCGATGCGGTACTCGGCTTCCAGTTGTc     >  2:307544/1‑151 (MQ=255)
                                                                                                                                               cAGCACAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCCAGCAGCATATTGCGTCCGATGCGGTACTCGGCTTCCAGTTGTCCGt  >  1:154799/1‑151 (MQ=255)
                                                                                                                                                   |                                                                                                                                                  
TCGGGTGCCATTCGTCGCTGTATTTGCCGCCATTAAAGAATGAGGCGCTGGCGCGCAGCATGGTATCGGATGCGCCATTTTGGCCGTTCAGCGGCAACTGCTGTTCGACGGCGATGAAAAAGATCTGATCGCGCAGCGGCTTCCAGCGCAGACCGGTGCCGGACATCGGATTTTTCACCGGCATCATCACCCCGTTTTCTCCGGTATCGGCAAAGACGCGGCTATAAACTGAGAGCAGGTCGCCTTCCAGCAGCATATTGCGTCCGATGCGGTACTCGGCTTCCAGTTGTCCGT  >  NC_000913/588338‑588631

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A