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
A16 F57 I0 R4 226 68.5 3221688 95.0% 3060603 125.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 3,723,589 G→C 100% A135P (GCT→CCT)  U712_19195 → putative transporter ywcJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068813,723,5890GC100.0% 201.1 / NA 54A135P (GCT→CCT) U712_19195putative transporter ywcJ
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (34/20);  total (34/20)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TCACTTATACCGCGCTCCGAAAAAAAATTCGCTGGCGAGACACCCTGTACCTGTGGATGTCAAGCTATGCCGGCAATTTGATCGGCGCCATTCTATTTGCCATTCTGATCAGCGCGACAGGGCTTTTTGAGGAGGCTTCTGTTCATTCCTTTTTGATTCATCTGGCAGAGCACAAAATGGAGCCGCCCGCTTCCGAACTGTTTTTCAGAGGGATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTT  >  CP006881/3723455‑3723717
                                                                                                                                      |                                                                                                                                
tCACCTATACCGCTCTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCtt                                                                                                                               <  1:208449/138‑1 (MQ=255)
tCACCTATACCGCGCTCCGTAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCtt                                                                                                                               <  7:346814/138‑1 (MQ=255)
            cgcTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCtt                                                                                                                               <  6:22629/126‑1 (MQ=255)
            cgcTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCtt                                                                                                                               >  5:22629/1‑126 (MQ=255)
            cgcTCCGGAAAAAAATCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCtt                                                                                                                  >  7:68845/1‑139 (MQ=255)
                  ggaaaaaaaTCAGCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGAt                                                                                                            <  2:325675/137‑1 (MQ=255)
                           tcagCTGGCGCGACACCCTATACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTgg                                                                                                    >  2:124025/4‑138 (MQ=255)
                                             tatACTTGTGGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAgcc                                                                                 >  5:112537/3‑139 (MQ=255)
                                                  ttgtgGATGTCAGGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCa                                                                                                  >  8:292607/2‑117 (MQ=255)
                                                  ttgtgGATGTCAGGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCa                                                                                                  <  7:292607/116‑1 (MQ=255)
                                                    gtgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGATCAGCCGGCt                                                                          >  1:312103/1‑139 (MQ=255)
                                                    gtgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCt                                                                          >  7:305348/1‑139 (MQ=255)
                                                    gtgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCt                                                                          >  8:62510/1‑139 (MQ=255)
                                                     tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTGATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGccgccggcgt                                                                         >  1:134972/1‑137 (MQ=255)
                                                     tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCtt                                                                         >  7:267899/1‑139 (MQ=255)
                                                     tgGATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGAGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTTATTAATTTGGGAGAGCCGAAAATGGCGCCGCCGGCtt                                                                         >  7:170732/1‑139 (MQ=255)
                                                       gATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCATAGCACAAAATGGAGCCGCCGGCTTcc                                                                       >  2:323223/1‑139 (MQ=255)
                                                       gATGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTcc                                                                       >  4:162023/1‑139 (MQ=255)
                                                         tGTCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGTAGCCTTCTGTTCATTCCTTTTTGATTCATTTTGCAGAGCACAAAATGGAGCCGCCGGCTTCCGa                                                                     >  1:256948/1‑139 (MQ=255)
                                                           tCAAGCTATGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGaa                                                                    <  3:162023/138‑1 (MQ=255)
                                                                   tGCCGGTAATTTAATCGGCGCCATTCTGTTTCCCTTCCTGAGCCGCGGGACGGGACTTTTGGTGGTGCCTTCTTTTCATTCCTTTTTGATTCATTTGGCTGAGCAAAAAATGGAGCCGCCGGCTTCCGAATTGttttt                                                            <  2:312103/138‑1 (MQ=255)
                                                                   tGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTg                                                                 >  7:393715/1‑133 (MQ=255)
                                                                   tGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTg                                                                 <  8:393715/133‑1 (MQ=255)
                                                                   tGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGttttt                                                            <  4:57478/138‑1 (MQ=255)
                                                                   tGCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGttttt                                                            <  7:365500/138‑1 (MQ=255)
                                                                    gCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGttttt                                                            >  3:68937/1‑137 (MQ=255)
                                                                    gCCGGCAATTTAATCGGCGCCATTCTGTTTGCCATCCTGATCAGCCCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCTTTTGGCAGAGCACAAAATGGAGCCGCCGGCTACCGAATTGTTTTTCa                                                          >  4:188888/1‑139 (MQ=255)
                                                                                      gcCATTCTGTTTGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAAtt                                        >  8:283662/1‑139 (MQ=255)
                                                                                               tttGCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGCGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTtgtgt                               >  1:277068/1‑139 (MQ=255)
                                                                                                  gCCATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGcc                            >  6:158524/1‑139 (MQ=255)
                                                                                                    cATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGttttt                                                            >  2:390127/1‑105 (MQ=255)
                                                                                                    cATCCTGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCAAAAAATGGAGCCGCCGGCTTCCGAATTGttttt                                                            <  1:390127/105‑1 (MQ=255)
                                                                                                      tccTGATAAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTAATTTGGAAGAGCACAAAATCGAGCCGCAGGCGACCGAAATGTTTTTCATAGGAATGCTTTGCAATTCGCATGTGTGCCTctc                        >  1:350691/3‑137 (MQ=255)
                                                                                                         tGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCtt                     >  6:387264/1‑139 (MQ=255)
                                                                                                         tGATCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCGTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCtt                     >  8:96833/1‑139 (MQ=255)
                                                                                                           aTCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCtttt                   >  7:360893/1‑139 (MQ=255)
                                                                                                           aTCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCtttt                   <  7:62510/139‑1 (MQ=255)
                                                                                                            tCAGCGCGACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCttttt                  <  7:283662/139‑1 (MQ=255)
                                                                                                                cgcgACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGAt                                                                                                            >  7:265696/1‑45 (MQ=255)
                                                                                                                cgcgACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGAt                                                                                                            <  8:265696/45‑1 (MQ=255)
                                                                                                                cgcgACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGTATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCAtt              >  2:75505/1‑139 (MQ=255)
                                                                                                                cgcgACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCtttt                   <  2:357922/134‑1 (MQ=255)
                                                                                                                cgcgACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCtttt                   >  1:357922/1‑134 (MQ=255)
                                                                                                                cgcgACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCAt               >  6:269046/1‑138 (MQ=255)
                                                                                                                 gcgACGGGACTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTc             <  3:53982/139‑1 (MQ=255)
                                                                                                                    acgggacTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTAAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCaa          >  7:54274/7‑139 (MQ=255)
                                                                                                                     cgggacTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGGTTGTGTGGCTCGCCTTTTTAATTCCAAt         >  4:137063/6‑139 (MQ=255)
                                                                                                                     cgggacTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAAt         <  6:112537/134‑1 (MQ=255)
                                                                                                                     cgggacTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAAt         >  2:270945/6‑139 (MQ=255)
                                                                                                                     cgggacTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAAt         <  8:68845/134‑1 (MQ=255)
                                                                                                                       ggacTTTTTGAGGAGCCTTCTGTTCATGCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGGTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGt       <  8:146070/136‑1 (MQ=255)
                                                                                                                          cTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGt       <  7:620/136‑1 (MQ=255)
                                                                                                                          cTTTTTGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGt       >  8:620/1‑136 (MQ=255)
                                                                                                                             tttGAGGAGCCTTCTGTTCATTCCTTTTTGATTCATTTGGCAGAGCACAAAATGGAGCCGCCGGCTTCCGAATTGTTTTTCAGAGGAATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTctctc  >  7:76789/1‑137 (MQ=255)
                                                                                                                                      |                                                                                                                                
TCACTTATACCGCGCTCCGAAAAAAAATTCGCTGGCGAGACACCCTGTACCTGTGGATGTCAAGCTATGCCGGCAATTTGATCGGCGCCATTCTATTTGCCATTCTGATCAGCGCGACAGGGCTTTTTGAGGAGGCTTCTGTTCATTCCTTTTTGATTCATCTGGCAGAGCACAAAATGGAGCCGCCCGCTTCCGAACTGTTTTTCAGAGGGATGCTGTGCAATTGGCTTGTGTGCCTCGCCTTTTTCATTCCAATGTCTCTT  >  CP006881/3723455‑3723717

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