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
A10 F1 I2 R1 757 38.1 1607544 96.5% 1551279 117.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 986,671 A→G R104R (CGT→CGC)  ompF ← outer membrane porin 1a (Ia,b,F)

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913986,6710AG100.0% 200.9 / NA 56R104R (CGT→CGC) ompFouter membrane porin 1a (Ia,b,F)
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (29/27);  total (29/27)

ATGCAGTATCACCACCAAATTCTGGCAGCATATCGGTGTAACCCAGTGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGACGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCAAGACGGGCATAGGTCAT  >  NC_000913/986547‑986805
                                                                                                                            |                                                                                                                                      
aTGCAGTATCACCACCAAATTCTGGCAGCATATCGGTGTAACCCAGTGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTAcc                                                                                                                          >  1:765831/1‑139 (MQ=255)
 tGCAGTATCACCACCAAATTCTGGCAGCATATCGGTGTAACCCAGTGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCa                                                                                                                         >  2:108218/1‑139 (MQ=255)
         caccacCAAATTCTGGCAGCATATCGGTGTAACCCAGTGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGc                                                                                                                 >  1:442363/1‑139 (MQ=255)
           ccaccaAATTCTGGCAGCATATCGGTGTAACCCAGTGCATCAT‑AACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGTGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTc                                                                                                              >  2:620872/1‑139 (MQ=255)
               caAATTCTGGCAGCATATCGGTGTAACCCAGTGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAgc                                                                                                           <  1:572538/139‑1 (MQ=255)
               caAATTCTGGCAGCATATCGGTGTAACCCAGTGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAgc                                                                                                           <  1:108218/139‑1 (MQ=255)
                                  ggTGTAACCCAGTGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTAccc                                                                                        <  1:737888/139‑1 (MQ=255)
                                     gtAACCCAGTGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTgg                                                                                     <  2:442363/139‑1 (MQ=255)
                                              tGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGgcgc                                                                                                                                     <  2:744365/82‑1 (MQ=255)
                                              tGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGgcgc                                                                                                                                     >  1:744365/1‑82 (MQ=255)
                                              tGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTgg                                                                                     <  1:431853/130‑1 (MQ=255)
                                              tGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTgg                                                                                     >  2:431853/1‑130 (MQ=255)
                                              tGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTatat                                                                            >  2:607552/1‑139 (MQ=255)
                                                  tcatAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTccc                                                                        >  1:701303/1‑139 (MQ=255)
                                                   tcataaCCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGTGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCa                                                                       <  1:620872/135‑1 (MQ=255)
                                                   catAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCa                                                                       <  2:791767/139‑1 (MQ=255)
                                                   catAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGGTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCa                                                                       <  2:701303/139‑1 (MQ=255)
                                                        aCCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGAc                                                                  >  1:563814/1‑139 (MQ=255)
                                                            cacCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGgcgc                                                                                                                                     >  1:608147/1‑68 (MQ=255)
                                                            cacCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGgcgc                                                                                                                                     <  2:608147/68‑1 (MQ=255)
                                                             acCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGt                                                                                 >  2:758308/1‑119 (MQ=255)
                                                             acCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGt                                                                                 <  1:758308/119‑1 (MQ=255)
                                                             acCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATaa                                                             >  1:127167/1‑139 (MQ=255)
                                                             acCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATaa                                                             >  2:671435/1‑139 (MQ=255)
                                                              ccGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAAc                                                            >  1:358953/1‑139 (MQ=255)
                                                               cGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTgg                                                                                     <  1:713080/113‑1 (MQ=255)
                                                               cGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTgg                                                                                     >  2:713080/1‑113 (MQ=255)
                                                               cGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAAcc                                                           >  2:646047/1‑139 (MQ=255)
                                                                 tAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGt                                                                                 <  2:626975/115‑1 (MQ=255)
                                                                 tAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTCTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGt                                                                                 >  1:626975/1‑115 (MQ=255)
                                                                         gCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAgc                                                                                                           >  2:619378/1‑81 (MQ=255)
                                                                         gCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAgc                                                                                                           <  1:619378/81‑1 (MQ=255)
                                                                         gCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCg                                                 >  1:126876/1‑139 (MQ=255)
                                                                         gCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCg                                                 <  2:126876/139‑1 (MQ=255)
                                                                         gCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCg                                                 >  2:139674/1‑139 (MQ=255)
                                                                           cGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTgg                                                                                     <  1:684706/101‑1 (MQ=255)
                                                                           cGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTgg                                                                                     >  2:684706/1‑101 (MQ=255)
                                                                           cGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCa                                                                       >  1:396376/1‑115 (MQ=255)
                                                                           cGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCa                                                                       <  2:396376/115‑1 (MQ=255)
                                                                             tAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATc                                                  >  1:418803/1‑134 (MQ=255)
                                                                             tAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATc                                                  <  2:418803/134‑1 (MQ=255)
                                                                                  gAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGAtt                                        <  1:646047/139‑1 (MQ=255)
                                                                                        aCCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGCTTAGAGtt                                  >  2:243156/1‑139 (MQ=255)
                                                                                                   cGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTaaa                       >  2:206070/1‑139 (MQ=255)
                                                                                                   cGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTAT‑TTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTc                                <  2:220174/129‑1 (MQ=255)
                                                                                                   cGTATTTAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTAT‑TTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTc                                >  1:220174/1‑129 (MQ=255)
                                                                                                      aTTTAAGACCCGCGAATGCCTGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAAcc                    >  2:545615/1‑139 (MQ=255)
                                                                                                        ttAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCaa                  >  1:163375/1‑139 (MQ=255)
                                                                                                         tAAGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCAAg                 <  1:139674/139‑1 (MQ=255)
                                                                                                          aaGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCAAGa                <  2:358953/139‑1 (MQ=255)
                                                                                                          aaGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCAAGa                <  1:545615/139‑1 (MQ=255)
                                                                                                          aaGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCAAGa                <  1:786775/139‑1 (MQ=255)
                                                                                                           aGACCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCAAGAc               <  1:607552/139‑1 (MQ=255)
                                                                                                             aCCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAgttgtt                                                                                            <  2:367431/60‑1 (MQ=255)
                                                                                                             aCCCGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAgttgtt                                                                                            >  1:367431/1‑60 (MQ=255)
                                                                                                               ccGCGAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCAAGACGGGc           <  2:563814/139‑1 (MQ=255)
                                                                                                                 gcgAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCAAGACGGGCAt         >  2:81921/1‑139 (MQ=255)
                                                                                                                  cgAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGa                                     >  2:548582/1‑110 (MQ=255)
                                                                                                                  cgAATGCCAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGa                                     <  1:548582/110‑1 (MQ=255)
                                                                                                                        ccAGGCGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCAAGACGGGCATAGGTCAt  <  1:93412/139‑1 (MQ=255)
                                                                                                                            |                                                                                                                                      
ATGCAGTATCACCACCAAATTCTGGCAGCATATCGGTGTAACCCAGTGCATCATAAACCACACCGTAGTTACGGCCGTAATCGAAAGAACCAACGTCAGCGTATTTAAGACCCGCGAATGCCAGACGCGTTTTGTTACCAGTTTGAGCGTCAGCGCCTTCAGAGTTGTTACCCTGGAAGTTATATTCCCACTGACCATAACCGGTCAGATCGGAATTGATTTGAGTTTCCCCTTTAAAACCAAGACGGGCATAGGTCAT  >  NC_000913/986547‑986805

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A