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 F28 I1 R1 224 87.5 2960670 99.3% 2939945 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,318,389 T→C intergenic (‑100/‑248) metY ← / → argG tRNA‑Met/argininosuccinate synthetase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,318,3890TC100.0% 201.1 / NA 59intergenic (‑100/‑248)metY/argGtRNA‑Met/argininosuccinate synthetase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (28/31);  total (28/31)

ATGAGCCCGACGAGCTACCAGGCTGCTCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGTGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCTTAAGCGCATTATTTTACAAAAAACACACTAAACT  >  NC_000913/3318253‑3318523
                                                                                                                                        |                                                                                                                                      
aTGAGCCCGACGAGCTACCAGGCTGCTCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGAt                                                                                                                                     >  2:675664/1‑140 (MQ=255)
aTGAGCCCGACGAGCTACCAGGCTGCTCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGAt                                                                                                                                     >  2:313846/1‑140 (MQ=255)
aTGAGCCCGACGAGCTACCAGGCTGCTCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGAt                                                                                                                                     >  2:1076244/1‑140 (MQ=255)
         acgaGCTACCAGGCTGCTCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGAt                                                                                                                                     <  1:1031030/131‑1 (MQ=255)
         acgaGCTACCAGGCTGCTCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGAt                                                                                                                                     >  2:1031030/1‑131 (MQ=255)
                 ccAGGCTGCTCCTCCCCGCGCATGAAACGTGTCAAATTCTACTCATTTTGGGTAAAAAATACAAATACAGCCGGGATTTGGTGCTCCGGGAGGGGACGTAAAATATGCAGGAATTATAGCGATCCACGCCACATTTTGTc                                                                                                                    <  2:1410547/140‑1 (MQ=255)
                 ccAGGCTGCTCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTc                                                                                                                    <  1:254785/140‑1 (MQ=255)
                    ggCTGCTCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTg                                                                                                                      >  2:664255/1‑135 (MQ=255)
                    ggCTGCTCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTg                                                                                                                      <  1:664255/135‑1 (MQ=255)
                      ctgctCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGt                                                                                                               <  1:313846/140‑1 (MQ=255)
                       tgctCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGtt                                                                                                              <  2:885213/140‑1 (MQ=255)
                       tgctCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGtt                                                                                                              >  1:390001/1‑140 (MQ=255)
                        gctCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTg                                                                                                                      >  2:1422895/1‑131 (MQ=255)
                        gctCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTg                                                                                                                      <  1:1422895/131‑1 (MQ=255)
                        gctCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGttt                                                                                                             <  1:1033284/140‑1 (MQ=255)
                           ccACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTAtt                                                                                                          >  2:631714/1‑140 (MQ=255)
                              ccccTCGCCAGAAACGTGGCAATTTTTACTCTTTTTGGGAAAAAAATGCAAATACTCCTGGGATTTGGTGTACCTAGACGGGTCGTAAAATCTGCAGTCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCt                                                                                                       <  2:722051/140‑1 (MQ=255)
                              ccccGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGCCGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGATTATTGCt                                                                                                       >  1:722051/1‑140 (MQ=255)
                              ccccGCGCCTGAAACGTGGCAAATTCTACCCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCt                                                                                                       <  1:298527/140‑1 (MQ=255)
                                   cgcCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGt                                                                                                               >  1:47543/1‑127 (MQ=255)
                                   cgcCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGt                                                                                                               <  2:47543/127‑1 (MQ=255)
                                   cgcCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCa                                                                                                  >  2:860311/1‑140 (MQ=255)
                                   cgcCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCa                                                                                                  >  1:1109119/1‑140 (MQ=255)
                                   cgcCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCa                                                                                                  >  1:762970/1‑140 (MQ=255)
                                      cTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCAtgt                                                                                               <  1:860311/140‑1 (MQ=255)
                                       tGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCAtgtg                                                                                              <  1:307257/140‑1 (MQ=255)
                                        gAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGtga                                                                                             >  2:1072512/1‑140 (MQ=255)
                                              tGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTgaatgaat                                                                                       <  2:1109119/140‑1 (MQ=255)
                                                gCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAatat                                                                                     >  2:1345052/1‑140 (MQ=255)
                                                             gTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGTATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGGATGAATATCCAGTTCACTTTc                                                                        >  2:1343876/1‑140 (MQ=255)
                                                             gTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCa                                                                                  <  2:60593/130‑1 (MQ=255)
                                                             gTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCa                                                                                  >  1:60593/1‑130 (MQ=255)
                                                               tttGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCAt                                                                      >  2:421797/1‑140 (MQ=255)
                                                               tttGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCAt                                                                      <  2:390001/140‑1 (MQ=255)
                                                                        aaaaTGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAAt                                                             >  2:1188818/1‑140 (MQ=255)
                                                                            tGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACtt                                                         <  1:421797/140‑1 (MQ=255)
                                                                                 aTACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGcc                                                    <  2:582292/140‑1 (MQ=255)
                                                                                   aCTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCtt                                                  <  1:1072512/140‑1 (MQ=255)
                                                                                      gctgGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTtctc                                               <  1:605197/140‑1 (MQ=255)
                                                                                      gctgGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTtctc                                               <  1:675664/140‑1 (MQ=255)
                                                                                       ctgGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTcc                                              >  2:650569/1‑140 (MQ=255)
                                                                                           gATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGct                                          <  1:650569/140‑1 (MQ=255)
                                                                                           gATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGct                                          <  2:963209/140‑1 (MQ=255)
                                                                                           gATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGct                                          <  1:870916/140‑1 (MQ=255)
                                                                                           gATTGGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGct                                          <  1:1076244/140‑1 (MQ=255)
                                                                                            aTTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGctc                                         >  2:660927/1‑140 (MQ=255)
                                                                                             tttGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGctct                                        >  1:870796/1‑140 (MQ=255)
                                                                                               tGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATTTCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGct                                          <  1:120014/136‑1 (MQ=255)
                                                                                               tGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATTTCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGct                                          >  2:120014/1‑136 (MQ=255)
                                                                                                  tgtACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCtt                                   <  1:1188818/140‑1 (MQ=255)
                                                                                                    tACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGctct                                        <  2:807263/133‑1 (MQ=255)
                                                                                                    tACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGctct                                        >  1:807263/1‑133 (MQ=255)
                                                                                                    tACCGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCTTaa                                 <  2:870796/140‑1 (MQ=255)
                                                                                                       cGAGACGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCTTAAgcg                              <  2:1140924/140‑1 (MQ=255)
                                                                                                         agaCGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCTTAAGCGCa                            >  1:1466438/1‑140 (MQ=255)
                                                                                                           aCGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGct                                          >  1:370742/1‑124 (MQ=255)
                                                                                                           aCGGGACGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGct                                          <  2:370742/124‑1 (MQ=255)
                                                                                                                aCGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCTTAAGCGCATTAtttt                     >  2:1197426/1‑140 (MQ=255)
                                                                                                                 cGTAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCTTAGGCGCATTATTTTa                    >  2:562763/1‑140 (MQ=255)
                                                                                                                   tAAAATCTGCAGGCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCTTAAGCGCATTATTTTACa                  >  2:237449/1‑140 (MQ=255)
                                                                                                                               gCATTATAGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCTTAAGCGCATTATTTTACAAAAAACACACTa      <  1:631714/140‑1 (MQ=255)
                                                                                                                                   tataGCGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCTTAAGCGCATTATTTTACAAAAAACACACTAAAct  <  2:991085/140‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                      
ATGAGCCCGACGAGCTACCAGGCTGCTCCACCCCGCGCCTGAAACGTGGCAAATTCTACTCGTTTTGGGTAAAAAATGCAAATACTGCTGGGATTTGGTGTACCGAGACGGGACGTAAAATCTGCAGGCATTATAGTGATCCACGCCACATTTTGTCAACGTTTATTGCTAATCATGTGAATGAATATCCAGTTCACTTTCATTTGTTGAATACTTTTGCCTTCTCCTGCTCTCCCTTAAGCGCATTATTTTACAAAAAACACACTAAACT  >  NC_000913/3318253‑3318523

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A