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
A15 F58 I0 R3 247 66.2 2815674 94.9% 2672074 126.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 3,723,549 A→G 100% L121L (CTA→CTG)  U712_19195 → putative transporter ywcJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068813,723,5490AG100.0% 226.2 / NA 60L121L (CTA→CTG) U712_19195putative transporter ywcJ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (34/26);  total (34/26)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CTTACGGAGGCGGAGATTTATTTACTGGCAACACTTTTTATTTCACTTATACCGCGCTCCGAAAAAAAATTCGCTGGCGAGACACCCTGTACCTGTGGATGTCAAGCTATGCCGGCAATTTGATCGGCGCCATTCTATTTGCCATTCTGATCAGCGCGACAGGGCTTTTTGAGGAGGCTTCTGTTCATTCCTTTTTGATTCATCTGGCAGAGCACAAAATGGAGCCGCCCGCTTCCGAACTGTTTTTCAGAGGGATGCTGTGCAATTGG  >  CP006881/3723413‑3723681
                                                                                                                                        |                                                                                                                                    
cTTACGGAGGCGGAGATTTATTTACCGTCAACACCTTTTATTTCACCTATACCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGtt                                                                                                                                    >  5:326551/1‑139 (MQ=255)
   aCGGAGGCGGAGATTTATTTACCGGCAACACCTTTTATTTCACCTATACCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTg                                                                                                                                  <  1:227470/138‑1 (MQ=255)
   aCGGAGGCGGAGATTTATTTACCGGCAACACCTTTTATTTCACCTATACCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTg                                                                                                                                  <  8:77018/138‑1 (MQ=255)
   aCGGAGGCGGAGATTTATTTACCGGCAACACCTTTTATTTCACCTATACCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTg                                                                                                                                  <  4:127469/138‑1 (MQ=255)
   aCGGAGGCGGAGATTTATTTACCGGCAACACCTTTTATTTCACCTATACCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTg                                                                                                                                  <  2:72367/138‑1 (MQ=255)
       aGGCGGAGATTTATTTACCGGCAACACCTTTTATTTCACCTATACCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCAtc                                                                                                                             <  4:26293/139‑2 (MQ=255)
                       accggCAACACCTTTTATTTCACCTATACCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTATGTTTGCCATCCTGATCAGCGCGAcgg                                                                                                             >  3:344931/4‑137 (MQ=255)
                        ccggCAACACCTTTTATTTCACCTATACCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACggg                                                                                                            <  3:222685/137‑1 (MQ=255)
                                            acctataCCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTg                                                                                        >  5:240799/4‑139 (MQ=255)
                                              ctataCCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGtt                                                                                      <  4:212722/138‑1 (MQ=255)
                                                  aCCGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCAtt                                                                                  >  6:258807/1‑139 (MQ=255)
                                                   ccGCGCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCAtt                                                                                  <  5:137240/138‑1 (MQ=255)
                                                      cgcTCCGGAAAAAAATCAGCTGGCGCGCCACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCtt                                                                              >  5:343092/1‑139 (MQ=255)
                                                      cgcTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAg                                                                                                                     <  4:30662/100‑1 (MQ=255)
                                                      cgcTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAg                                                                                                                     >  3:30662/1‑100 (MQ=255)
                                                      cgcTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTgagga                                                                                                <  7:313712/121‑1 (MQ=255)
                                                      cgcTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTgagga                                                                                                >  8:313712/1‑121 (MQ=255)
                                                      cgcTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCGTTCTGTTCATTCCtt                                                                              >  3:225123/1‑139 (MQ=255)
                                                        cTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTgagga                                                                                                >  5:152482/1‑119 (MQ=255)
                                                        cTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTgagga                                                                                                <  6:152482/119‑1 (MQ=255)
                                                        cTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCAGTCCtttt                                                                            >  8:187605/1‑139 (MQ=255)
                                                           cggaaaaaaaTCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTgaggag                                                                                               >  8:344786/4‑117 (MQ=255)
                                                           cggaaaaaaaTCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTgaggag                                                                                               <  7:344786/114‑1 (MQ=255)
                                                           cggaaaaaaaTCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGa                                                                         >  1:296098/4‑139 (MQ=255)
                                                                      cagCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCa                                                              <  8:241308/137‑1 (MQ=255)
                                                                       agCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTAAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCa                                                              <  2:147344/137‑1 (MQ=255)
                                                                            gcgcGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGca                                                         <  6:326551/138‑1 (MQ=255)
                                                                                   acCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATgg                                                 >  4:278246/1‑139 (MQ=255)
                                                                                              gtgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGCCGGGACTTTTTGAGGAGCCTTCTGTTCATTACTTTTTGATTCATTTGGAAGAGCACAAAATTGAGCCGCCGGCt                                      >  3:193716/1‑139 (MQ=255)
                                                                                              gtgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTTATTCATTTTGCAGAGCACAAAATGGAGacgccggcg                                      >  3:26336/1‑138 (MQ=255)
                                                                                              gtgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCt                                      >  5:110736/1‑139 (MQ=255)
                                                                                              gtgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCt                                      >  3:309739/1‑139 (MQ=255)
                                                                                               tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCtt                                     >  8:79147/1‑139 (MQ=255)
                                                                                               tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCtt                                     >  7:33034/1‑139 (MQ=255)
                                                                                               tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCtt                                     >  2:298669/1‑139 (MQ=255)
                                                                                               tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCtt                                     >  6:283976/1‑139 (MQ=255)
                                                                                               tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCtt                                     >  3:236028/1‑139 (MQ=255)
                                                                                               tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCtt                                     >  5:141791/1‑139 (MQ=255)
                                                                                               tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCtt                                     >  3:260695/1‑139 (MQ=255)
                                                                                               tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTAATTCCTTTTTGATTCATTTTGCAGAGCACAAAATGGAGCCGCCGGCtt                                     >  2:165183/1‑139 (MQ=255)
                                                                                               tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCGGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCtt                                     >  4:190124/1‑139 (MQ=255)
                                                                                               tgGATGTCAAGCTATGCAGGCAATTTAATCGGCGCCATTCGGTTTGCCATCCTGATCAGCGCGACGGGACTTGGTGAGGAGCCTTCGGGTCATTCCTTTTTGATTCATGTGGCAGCGCACCAAATGGAGCCGCCGGCtt                                     >  6:317737/1‑139 (MQ=255)
                                                                                                 gATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCAtc                                                                                                                             <  6:751/49‑2 (MQ=255)
                                                                                                 gATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCAtc                                                                                                                             >  5:751/1‑48 (MQ=255)
                                                                                                 gATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTGTGTTCATTCGTTTTTGATTAATTTTGCAGAGGACAAAATGGAGccgccggcgtgc                                   >  2:329218/1‑135 (MQ=255)
                                                                                                 gATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTGCTTTTTGATTCATTTGGAAGAGCACAAAATGGAGCCGCCGGCTTcc                                   >  5:291013/1‑139 (MQ=255)
                                                                                                 gATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTcc                                   >  3:286933/1‑139 (MQ=255)
                                                                                                 gATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTAATTTTGCAGAGCACAAAATGGAGCCGCCGGCGTcc                                   >  1:338500/1‑139 (MQ=255)
                                                                                                             tGCCGGCAATTTAATGGGCGCCTTTCTGTTTGCCATCCTGATCCGCGCGACGGTACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTAATTTGGCAGAGAACAAAATGGAGCCGCCGGCTTCCGAATTGttttt                        <  6:110736/138‑1 (MQ=255)
                                                                                                             tGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGttttt                        <  7:187605/138‑1 (MQ=255)
                                                                                                             tGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGttttt                        <  1:298669/138‑1 (MQ=255)
                                                                                                              gCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGttttt                        >  8:55276/1‑137 (MQ=255)
                                                                                                              gCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGttttt                        >  8:330812/1‑137 (MQ=255)
                                                                                                                   cAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAgga                 <  4:236028/139‑2 (MQ=255)
                                                                                                                      tttAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATg              <  4:309739/139‑1 (MQ=255)
                                                                                                                      tttAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATg              <  7:330812/139‑1 (MQ=255)
                                                                                                                          aTCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCtg           <  4:336969/138‑1 (MQ=255)
                                                                                                                          aTCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCtg           <  5:258807/138‑1 (MQ=255)
                                                                                                                          aTCGGCGCCATTCTGTTTGCCATCCTGAGCAGCGCGACGGGACTTTTTGATGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGCCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCtg           <  7:332742/138‑1 (MQ=255)
                                                                                                                                  cATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTgg  <  2:296098/139‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                    
CTTACGGAGGCGGAGATTTATTTACTGGCAACACTTTTTATTTCACTTATACCGCGCTCCGAAAAAAAATTCGCTGGCGAGACACCCTGTACCTGTGGATGTCAAGCTATGCCGGCAATTTGATCGGCGCCATTCTATTTGCCATTCTGATCAGCGCGACAGGGCTTTTTGAGGAGGCTTCTGTTCATTCCTTTTTGATTCATCTGGCAGAGCACAAAATGGAGCCGCCCGCTTCCGAACTGTTTTTCAGAGGGATGCTGTGCAATTGG  >  CP006881/3723413‑3723681

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A