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
A11 F83 I0 R1 128 58.1 2217184 91.0% 2017637 142.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 699,559 A→G 8.2% intergenic (‑382/+15) asnB ← / ← umpH asparagine synthetase B/UMP phosphatase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913699,5590AG 8.2% 144.3 / 3.4 57intergenic (‑382/+15)asnB/umpHasparagine synthetase B/UMP phosphatase
Reads supporting (aligned to +/- strand):  ref base A (20/31);  new base G (4/2);  total (24/33)
Fisher's exact test for biased strand distribution p-value = 2.27e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.02e-01

TGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGACCTGCCTGGAA  >  NC_000913/699424‑699696
                                                                                                                                         |                                                                                                                                         
tGCCGGATGCGGCGTGAACGCCTTATCCCGCCTACAAAAGCATGAAAATTCAATATATTGCAGGCGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTgg                                                                                                                                    >  1:4889/1‑143 (MQ=255)
tGCCGGATGCGGCGTGAACGCCTCATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATACGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTgg                                                                                                                                    <  1:314256/143‑1 (MQ=255)
  ccGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGtt                                                                                                                                  <  1:459324/143‑1 (MQ=255)
   ctgATGCGGCGTGAACGCGTTCTCCGGCCTACCAAAGCCTGAAAATTCAATATATGGCAGGAGCTGCGTAGGCCCGATCAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTg                                                                                                                                 <  1:70797/141‑1 (MQ=25)
       tGCGGCGTGAACGCCTGATCCGGCCGACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTAt                                                                                                                             <  2:598416/143‑1 (MQ=255)
          ggcgTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGATCCAACCACGTCCGCAGACGTGGTTGCTATTCa                                                                                                                          <  2:240602/143‑1 (MQ=255)
          ggcgTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGCCCGCAGACGTGGTTGCTATTCa                                                                                                                          >  2:766270/1‑143 (MQ=255)
             gTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGAt                                                                                                                       <  2:925253/143‑1 (MQ=255)
                aaCGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAAc                                                                                                                    >  2:740849/1‑143 (MQ=255)
                     cTTATCCGGCCTACAAAAGCATGAAAATGCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGa                                                                                                               <  2:435052/143‑1 (MQ=255)
                      ttATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGGACCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGAt                                                                                                              <  2:1020306/143‑1 (MQ=255)
                          ccGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCa                                                                                                          <  1:318353/143‑1 (MQ=255)
                           tggCCTACAAAAGCATGATACTGCGATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAg                                                                                                         <  2:758770/142‑1 (MQ=255)
                            ggCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGGCTGCTTCGCCTAGCTCATATGGTGCAGCTAGAGG‑‑AGTCATCAGAGCCAACCACGTCCGCAGACGTAGTTGCTATTCAGATAACGTCGATTTCAGc                                                                                                        >  1:515005/1‑143 (MQ=255)
                            ggCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGGTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGCTTTCAGc                                                                                                        >  1:438079/1‑143 (MQ=255)
                             gCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCg                                                                                                       <  1:868732/143‑1 (MQ=255)
                              ccTACAAAAGCATGAAAATTCAATATATTGCAGGGGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGa                                                                                                      <  1:74607/143‑1 (MQ=255)
                              ccTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGa                                                                                                      >  2:752464/1‑143 (MQ=255)
                                tACAAAAGCATGAAAATTCAATATATTGCAGGAGCTACGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACt                                                                                                    >  1:716858/1‑143 (MQ=255)
                                    aaaGCATGAAAATTCAATATATGGCAGGGGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACg                                                                                                <  2:6744/143‑1 (MQ=255)
                                          tGAAAATTGAATAGATTGCAGGAGCTGCGTAGGCCTGATAGGCGTAGGGCATTAG‑‑GCTGTGTGGGGTTTGTCAGCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTaaa                                                                                          <  2:283180/143‑1 (MQ=255)
                                           gAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACGATGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAAt                                                                                         <  1:157804/143‑1 (MQ=255)
                                           gAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAA‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTCTTCAGATAACGTCGATTTCAGCGACTGCCGGGTAAAt                                                                                         >  1:570897/1‑143 (MQ=255)
                                                    atatatGGCAGAAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTggg                                                                                <  2:982136/143‑1 (MQ=255)
                                                      atatTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGc                                                                              >  1:160148/1‑143 (MQ=255)
                                                       tcttGCAGGGGGTGCGGGGGCGTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCg                                                                             <  2:1009123/141‑1 (MQ=38)
                                                         ttGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGCGTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAACTCCGGCTGGGGCGGa                                                                           >  1:469244/1‑143 (MQ=255)
                                                           gcgggAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGaaa                                                                         <  2:746439/140‑1 (MQ=255)
                                                            cAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGAGAACGCCGATTTCAGCGACTGACGGGTAAACCCCGCTGCGGCGGAAAg                                                                        >  2:159106/1‑143 (MQ=38)
                                                             aGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAgg                                                                       <  1:1035079/143‑1 (MQ=255)
                                                                     cGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCagtcggt                                                               >  2:359117/1‑137 (MQ=255)
                                                                      gTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGATACGAGTTTGTTATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTc                                                              <  1:462698/143‑1 (MQ=39)
                                                                        aGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGa                                                            <  1:218813/143‑1 (MQ=255)
                                                                          gCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGatc                                                          >  2:195945/1‑142 (MQ=255)
                                                                          gCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGata                                                          >  2:264553/1‑143 (MQ=255)
                                                                                   gcgtctcgcATCAC‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGc                                                 <  2:160148/137‑1 (MQ=255)
                                                                                   gCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGc                                                 <  1:264553/143‑1 (MQ=255)
                                                                                        gcgcATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATACCGTCGCTATCAGCAACTCACAGGTAAATCCAGCTGGGGCGGAAACGCACACTGTCGAGATCGTCCAGatacga                                            >  2:391193/1‑143 (MQ=255)
                                                                                          gcATCAG‑‑GCGGTTTGGCGCTTGCCACCAGAGCCACCCACGTCCGCGGACGTGGTTGCTATTCCGATAACGTCGATTTCAGCGCCTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGaaa                                          <  2:929082/143‑1 (MQ=255)
                                                                                           cATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGCGCGACGAAac                                         >  1:1043983/1‑143 (MQ=255)
                                                                                           cATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAAGCATACTGTCGATATCGTCGAGCGACGAAac                                         >  1:345284/1‑143 (MQ=255)
                                                                                                    cAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGaa                                  <  2:716858/143‑1 (MQ=255)
                                                                                                     aGTTGGGCGTGTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGaaa                                 <  1:766270/143‑1 (MQ=255)
                                                                                                       tttGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATCTCAGCGACTGACGGGTACATCCAGCGGGGGCGGAAAGGCATACTGTCGATATCGTCGAGGGAAGAAACACCAGAAAGc                               >  2:705252/1‑143 (MQ=255)
                                                                                                               ttGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAAt                       <  1:752464/143‑1 (MQ=255)
                                                                                                                tggcatcaGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATc                      <  1:756581/140‑1 (MQ=255)
                                                                                                                tGTCATCAGTGCGAGTCACCGCCGCGGACGGGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAAGCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATc                      <  2:4889/143‑1 (MQ=255)
                                                                                                                ggTCATCAGGGCCACCCACGTCCGCAGCCGTGGTTGCCATTCAGATAACGCCGATTTCAGCGACGGACGGGTACACCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATc                      <  1:210287/142‑1 (MQ=255)
                                                                                                                  tcatcaGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGt                    >  1:378794/1‑143 (MQ=255)
                                                                                                                     tcaGATCCACTCGCGTCCGGAGAAGTGGTTGCTATTCAGATAACGTCGATTTCTGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGtctc                 <  2:438079/143‑1 (MQ=255)
                                                                                                                       aatagcAACCACGTCTGCGGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACAAGAAAGCACCAGAATCGCCGCCa               >  2:105109/6‑143 (MQ=255)
                                                                                                                            cAACCACGTCTGCGGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATAGAGATGAGGCTGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGAcct          >  2:963323/1‑143 (MQ=255)
                                                                                                                             aaCCACGTCTGCGGACGTGGTTGCTATTCAGATAACGTCGATCTCAGCGACTGACGGCTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGATCGACGCACCACCAGAAAGCACCAGCATCGTCTCCAGAcgtg         >  2:749241/1‑143 (MQ=255)
                                                                                                                             aaCCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACCCCAGAAAGACCCAGAATCGTCTCGAGAccgg         >  1:1057353/1‑141 (MQ=255)
                                                                                                                              accaccTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGAcctgc        <  1:1100255/143‑1 (MQ=255)
                                                                                                                               ccACGTCTGCGGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGAcctacc       >  1:1011194/1‑143 (MQ=255)
                                                                                                                                    tctgCAGTCGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGGCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGACCTGCCTGGaa  <  1:193778/140‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                         
TGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAG‑‑GCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGACTGACGGGTAAATCCAGCTGGGGCGGAAAGGCATACTGTCGATATCGTCGAGCGACGAAACACCAGAAAGCACCAGAATCGTCTCCAGACCTGCCTGGAA  >  NC_000913/699424‑699696

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A