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 F1 I1 R1 57 49.8 2216334 94.8% 2101084 113.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,595,427 A→G pseudogene (2561/3861 nt) yneO ← pseudogene, AidA homolog

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,595,4270AG100.0% 223.7 / NA 59pseudogene (2561/3861 nt)yneOpseudogene, AidA homolog
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (27/32);  total (27/32)

GTTTGCGCCTTCACCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTACCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCATTCATGGC  >  NC_000913/1595292‑1595557
                                                                                                                                       |                                                                                                                                    
gTTTGCGCCTTCACCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCt                                                                                                                                   >  1:649767/1‑139 (MQ=255)
       ccTTCACCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGtt                                                                                                                            <  2:899615/139‑1 (MQ=255)
          tCACCAGTTTAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACg                                                                                                                         <  1:592235/139‑1 (MQ=255)
            aCCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGc                                                                                                                       <  2:799061/139‑1 (MQ=255)
            aCCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGc                                                                                                                       <  1:942848/139‑1 (MQ=255)
            aCCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGc                                                                                                                       <  1:340460/139‑1 (MQ=255)
               aGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCtt                                                                                                                    <  2:894937/139‑1 (MQ=255)
               aGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCtt                                                                                                                    <  1:642538/139‑1 (MQ=255)
                   gAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCa                                                                                                                >  1:585791/1‑139 (MQ=255)
                    aaCGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAg                                                                                                               <  2:212907/139‑1 (MQ=255)
                    aaCGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAg                                                                                                               >  2:560340/1‑139 (MQ=255)
                       gCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGgtg                                                                                                            >  2:133632/1‑139 (MQ=255)
                                     cgtcgtGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGACATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTGGT‑‑CACCCGCGcc                                                                                            >  1:582555/1‑139 (MQ=255)
                                                      ttGAGCGTCGTCAGAGGGTTATTCGTCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGa                                                                           <  1:715039/139‑1 (MQ=255)
                                                       tGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGAc                                                                          <  1:560340/139‑1 (MQ=255)
                                                        gAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACg                                                                         <  2:585791/139‑1 (MQ=255)
                                                         aGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGc                                                                        >  1:415544/1‑139 (MQ=255)
                                                           cgtcgtCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGa                                                                           >  2:183203/1‑134 (MQ=255)
                                                           cgtcgtCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGa                                                                           <  1:183203/134‑1 (MQ=255)
                                                                         tATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGc                                                                        >  1:28896/1‑123 (MQ=255)
                                                                         tATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGc                                                                        <  2:28896/123‑1 (MQ=255)
                                                                          aTTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTa                                                                                                                           >  2:67122/1‑73 (MQ=255)
                                                                          aTTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTa                                                                                                                           <  1:67122/73‑1 (MQ=255)
                                                                                cATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTc                                                 >  1:234813/1‑139 (MQ=255)
                                                                                    ggATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCgcag                                             <  2:415544/139‑1 (MQ=255)
                                                                                          ttCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACg                                                                         >  1:460561/1‑105 (MQ=255)
                                                                                          ttCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACg                                                                         <  2:460561/105‑1 (MQ=255)
                                                                                                   ttAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTAt                              <  2:1089552/139‑1 (MQ=255)
                                                                                                     aGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTa                                                                                                          >  2:1056544/1‑63 (MQ=255)
                                                                                                     aGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTa                                                                                                          <  1:1056544/63‑1 (MQ=255)
                                                                                                     aGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCg                            >  2:186637/1‑139 (MQ=255)
                                                                                                       gCACGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGaa                          <  1:667346/139‑1 (MQ=255)
                                                                                                          cGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGAc                                                                          <  1:476631/88‑1 (MQ=255)
                                                                                                          cGTCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGAc                                                                          >  2:476631/1‑88 (MQ=255)
                                                                                                           gTCGATAAGCATGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAatg                      >  2:209626/1‑139 (MQ=255)
                                                                                                            tCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTAt                                                                              <  1:772324/82‑1 (MQ=255)
                                                                                                            tCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTAt                                                                              >  2:772324/1‑82 (MQ=255)
                                                                                                            tCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGAc                                                                          >  1:744537/1‑86 (MQ=255)
                                                                                                            tCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGAc                                                                          <  2:744537/86‑1 (MQ=255)
                                                                                                            tCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAg                                                     <  1:821069/107‑1 (MQ=255)
                                                                                                            tCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAg                                                     >  2:821069/1‑107 (MQ=255)
                                                                                                            tCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAg                                                     >  2:306056/1‑107 (MQ=255)
                                                                                                            tCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAg                                                     <  1:306056/107‑1 (MQ=255)
                                                                                                            tCGATAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAatga                     >  1:12341/1‑139 (MQ=255)
                                                                                                               aTAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATgg                  <  2:649767/139‑1 (MQ=255)
                                                                                                                tAAGCACGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGt                 <  2:383883/139‑1 (MQ=255)
                                                                                                                      cGTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGTCACACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCt             <  2:537100/139‑1 (MQ=255)
                                                                                                                       gTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGAc                                                                          >  2:1011717/1‑75 (MQ=255)
                                                                                                                       gTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGAc                                                                          <  1:1011717/75‑1 (MQ=255)
                                                                                                                       gTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACg                                                                         >  1:187139/1‑76 (MQ=255)
                                                                                                                       gTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACg                                                                         >  1:341096/1‑76 (MQ=255)
                                                                                                                       gTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACg                                                                         <  2:341096/76‑1 (MQ=255)
                                                                                                                       gTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACg                                                                         <  2:187139/76‑1 (MQ=255)
                                                                                                                       gTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCa          >  2:567930/1‑139 (MQ=255)
                                                                                                                       gTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCa          >  2:130728/1‑139 (MQ=255)
                                                                                                                       gTCGCCCGTCCCGTTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCa          >  1:1058389/1‑139 (MQ=255)
                                                                                                                               tcccgtTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCATTCATGGc  <  2:12341/139‑1 (MQ=255)
                                                                                                                                   gtTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAAc                                                                                      <  1:178912/51‑1 (MQ=255)
                                                                                                                                   gtTTGCCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAAc                                                                                      >  2:178912/1‑51 (MQ=255)
                                                                                                                                       |                                                                                                                                    
GTTTGCGCCTTCACCAGTTGAACGCCGACATGGCTATCGTCGTGTTCCAGCAAATTGAGCGTCGTCAGAGGGTTATTCGCCATGGGATCATTCCACGGTTTAGGCACGTCGATAAGCACGTCGCCCGTCCCGTTTACCTGATAGTTACGGCCTTTCCAGGTGTAGT‑‑CACCCGCGCCGACAACCAGCGTATCGACGCTGATATATCCCTCCGCGAGCGTCGCAGCAGGAATATCCGTATCGAAAATGATGGTACCTCCATTCATGGC  >  NC_000913/1595292‑1595557

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A