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 I3 R1 283 58.3 1819865 98.8% 1798026 150.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,535,254 A→G pseudogene (252/1029 nt) yjhR → pseudogene, helicase family; putative frameshift suppressor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,535,2540AG100.0% 196.2 / NA 55pseudogene (252/1029 nt)yjhRpseudogene, helicase family; putative frameshift suppressor
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (25/30);  total (25/30)

TGGTGGCACATAAGGATGATATAGAGCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTACTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTGTCTCACGCGCTAAAG  >  NC_000913/4535106‑4535396
                                                                                                                                                    |                                                                                                                                              
tggtggCACATAAGGATGATATAGAGCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCt                                                                                                                                              >  2:136161/1‑151 (MQ=255)
tggtggCACATAAGGATGATATAGAGCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCt                                                                                                                                              >  1:42635/1‑151 (MQ=255)
       acaTAAGGATGATATAGAGCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTg                                                                                                                                       <  1:313705/151‑1 (MQ=255)
           aaGGATGATATAGAGCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTgggg                                                                                                                                    >  2:321938/1‑150 (MQ=255)
           aaGGATGATATAGAGCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTgggg                                                                                                                                    >  2:657490/1‑150 (MQ=255)
                 gatATAGAGCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACtgtg                                                                                                                              <  1:562440/150‑1 (MQ=255)
                  atatAGAGCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCa                                                                                                                            <  2:681944/151‑1 (MQ=255)
                  atatAGAGCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCa                                                                                                                            <  2:339199/151‑1 (MQ=255)
                        agCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCtt                                                                                                                      >  2:296555/1‑151 (MQ=255)
                           gcCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCa                                                                                                                   <  1:804275/151‑1 (MQ=255)
                            ccATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTg                                                                                                                     >  2:909516/1‑148 (MQ=255)
                             cATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAgg                                                                                                                 >  2:715278/1‑151 (MQ=255)
                             cATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAgg                                                                                                                 <  1:330219/151‑1 (MQ=255)
                                       aaCCACTGTACAAATTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGaa                                                                                                         >  1:36612/1‑149 (MQ=255)
                                                   aaGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTtct                                                                                           <  1:160118/151‑1 (MQ=255)
                                                    aGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTtctc                                                                                          >  1:360798/1‑151 (MQ=255)
                                                        gttgGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCtttt                                                                                      <  1:489354/151‑1 (MQ=255)
                                                        gttgGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCttt                                                                                       <  1:122251/150‑1 (MQ=255)
                                                           ggTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTtctc                                                                                   >  1:793460/1‑151 (MQ=255)
                                                           ggTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTtct                                                                                    <  2:226069/150‑1 (MQ=255)
                                                              gttgtGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTg                                                                                <  2:383259/151‑1 (MQ=255)
                                                                tgtgACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGt                                                                               <  1:196207/150‑1 (MQ=255)
                                                                   gACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTAc                                                                           >  2:416753/1‑151 (MQ=255)
                                                                      gCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCa                                                                        <  1:442319/151‑1 (MQ=255)
                                                                      gCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGAGGGGACTGTGCAATCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTc                                                                         >  2:262526/1‑150 (MQ=255)
                                                                        cATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCaa                                                                       >  1:510407/1‑150 (MQ=255)
                                                                        cATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCaa                                                                       >  1:780711/1‑150 (MQ=255)
                                                                         aTTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCaaaa                                                                     <  2:65573/151‑1 (MQ=255)
                                                                         aTTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCaaaa                                                                     <  1:259263/151‑1 (MQ=255)
                                                                             tCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACAt                                                                  <  2:250763/150‑1 (MQ=255)
                                                                               ggCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGaa                                                               <  2:715218/151‑1 (MQ=255)
                                                                                        tAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAg                                                       <  1:699688/150‑1 (MQ=255)
                                                                                        tAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGAAGGCAg                                                       <  1:112990/150‑1 (MQ=255)
                                                                                            gCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGttt                                                   <  1:744083/150‑1 (MQ=255)
                                                                                            gCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGttt                                                   <  1:650405/150‑1 (MQ=255)
                                                                                                 cAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTtct                                                                                           <  2:336051/105‑1 (MQ=255)
                                                                                                 cAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTtct                                                                                           >  1:336077/1‑105 (MQ=255)
                                                                                                  aaaaTGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGAt                                             >  1:876331/1‑150 (MQ=255)
                                                                                                       gTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAAc                                       >  2:336182/1‑151 (MQ=255)
                                                                                                                 aaGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATcc                             <  1:757962/151‑1 (MQ=255)
                                                                                                                 aaGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATcc                             <  1:651680/151‑1 (MQ=255)
                                                                                                                  aGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATcc                             >  2:99829/1‑150 (MQ=255)
                                                                                                                  aGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCt                            >  1:310215/1‑151 (MQ=255)
                                                                                                                  aGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCt                            <  1:132243/151‑1 (MQ=255)
                                                                                                                   gCTGGAAATTAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTc                           <  2:444879/151‑1 (MQ=255)
                                                                                                                           ttAATGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGc                   >  1:678998/1‑151 (MQ=255)
                                                                                                                             aaTGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTg                 >  2:871643/1‑151 (MQ=255)
                                                                                                                              aTGGCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTGt                >  1:540675/1‑151 (MQ=255)
                                                                                                                                ggCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTGtct              >  1:378338/1‑151 (MQ=255)
                                                                                                                                ggCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTGtc               <  1:2785/150‑1 (MQ=255)
                                                                                                                                 gCAAAGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGTAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTGtc               >  2:861425/1‑149 (MQ=255)
                                                                                                                                   aaaGACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTGTCTCAc           <  1:420346/151‑1 (MQ=255)
                                                                                                                                      gACGAGCAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTGTCTCAcgcg        <  1:507533/151‑1 (MQ=255)
                                                                                                                                            cAGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTGTCTCACGCGCTAAAg  <  1:253186/151‑1 (MQ=255)
                                                                                                                                             aGGGTTTGCTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTGTCTCACGCGCTaa    >  2:583313/1‑148 (MQ=255)
                                                                                                                                                    |                                                                                                                                              
TGGTGGCACATAAGGATGATATAGAGCGCCATTACGGGGAACCACTGTACAAAGTTGTTGGTGTTGTGACGCCATTTTCGGCGCAGGTTAATGCTATCAAAATGTCATTGCGTAAGCTGGAAATTAATGGCAAAGACGAGCAGGGTTTACTGACAGTGGGGACTGTGCACTCCTTGCAGGGGGCGGAAAGGGCGATTGTTCTCTTTTCTCCTGTCTACTCAAAACATGAAGATGGCAGGTTTCTTGATAGCAACAGCACTATCCTCAATGTTGCTGTCTCACGCGCTAAAG  >  NC_000913/4535106‑4535396

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ 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