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
A2 F28 I1 R1 155 60.3 2039550 99.3% 2025273 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,918,146 A→G Y414H (TAT→CAT)  gudD ← D‑glucarate dehydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,918,1460AG98.2% 189.7 / ‑4.3 57Y414H (TAT→CAT) gudDD‑glucarate dehydratase
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base G (25/31);  total (25/32)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.84e-01

CCGGCTCCAGATAGAGCCGGTTTTGGTTTTCTGTCTTAACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATACAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGGCGCTGATTGCCTTCCTGCCAAATCCAG  >  NC_000913/2918010‑2918282
                                                                                                                                        |                                                                                                                                        
ccGGCTCCAGATAGAGCCGGTTTTGGTTTTCTGTCTTAACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAg                                                                                                                                       <  2:869191/140‑1 (MQ=255)
   gCTCCAGATAGAGCCGGTTTTGGTTTTCTGTCTTAACTCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCCGCTc                                                                                                                                    >  2:493460/1‑140 (MQ=255)
        aGATAGAGCCGGTTTTGGTTTTCTGTCTTAACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAAACAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATggg                                                                                                                               <  1:295606/140‑1 (MQ=255)
             gagCCGGTTTTGGTTTTCTGTCTTAACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTtc                                                                                                                          <  2:279198/140‑1 (MQ=255)
                 cGGTTTTGGTTTTCTGTCTTAACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGTCCGTGTTTCTGATGCAGCTCATGGGCTTtcatca                                                                                                                      >  2:518485/1‑140 (MQ=255)
                   gttttggttttCTGTCTTAACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACt                                                                                                                    >  1:1018846/1‑140 (MQ=255)
                    ttttggttttCTGTCTTGACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATggg                                                                                                                               <  1:821323/128‑1 (MQ=255)
                    ttttggttttCTGTCTTGACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATggg                                                                                                                               >  2:821323/1‑128 (MQ=255)
                       tggttttCTGTCTTAACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGAt                                                                                                                <  2:1018846/140‑1 (MQ=255)
                              cTGTCTTAACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGTCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATc                                                                                                         <  1:518485/140‑1 (MQ=255)
                                               gCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGcc                                                                                        >  2:842569/1‑140 (MQ=255)
                                                        cTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACAcc                                                                                             <  1:272803/126‑1 (MQ=255)
                                                        cTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACAcc                                                                                             >  2:272803/1‑126 (MQ=255)
                                                        cTTGCTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGttttt                                                                               >  2:724289/1‑140 (MQ=255)
                                                           gTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTg                                                                            <  1:621616/140‑1 (MQ=255)
                                                           gTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTg                                                                            >  1:975477/1‑140 (MQ=255)
                                                            ttATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTgg                                                                           <  2:481009/140‑1 (MQ=255)
                                                               tCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCAc                                                                        <  2:520165/140‑1 (MQ=255)
                                                               tCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATACAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCAc                                                                        <  2:290577/140‑1 (MQ=255)
                                                                      tCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCAc                                                                        <  2:187283/133‑1 (MQ=255)
                                                                      tCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCAc                                                                        >  1:187283/1‑133 (MQ=255)
                                                                            cagGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCg                                                           <  2:369914/140‑1 (MQ=255)
                                                                            cagGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCg                                                           <  1:493460/140‑1 (MQ=255)
                                                                                    aGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGAt                                                   >  1:144378/1‑140 (MQ=255)
                                                                                     gATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGc                                                              >  1:180598/1‑128 (MQ=255)
                                                                                     gATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGc                                                              <  2:180598/128‑1 (MQ=255)
                                                                                       tACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGAtctc                                                <  1:724289/140‑1 (MQ=255)
                                                                                         cTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCaa                                              >  2:620970/1‑140 (MQ=255)
                                                                                          tGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCaaa                                             <  1:683645/140‑1 (MQ=255)
                                                                                          tGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCaaa                                             >  2:165538/1‑140 (MQ=255)
                                                                                            cATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAAc                                            >  2:996345/1‑139 (MQ=255)
                                                                                            cATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAAc                                            <  1:996345/139‑1 (MQ=255)
                                                                                            cATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCCTTCATCACTTGATCCATATCGCTTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACg                                           >  1:800895/1‑140 (MQ=255)
                                                                                               tCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGtt                                        >  1:373031/1‑140 (MQ=255)
                                                                                               tCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGtt                                        >  2:808568/1‑140 (MQ=255)
                                                                                                cccATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTc                                       >  2:254914/1‑140 (MQ=255)
                                                                                                cccATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTc                                       >  2:439940/1‑140 (MQ=255)
                                                                                                cccATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTc                                       >  2:820045/1‑140 (MQ=255)
                                                                                                 ccATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCt                                      >  2:746838/1‑140 (MQ=255)
                                                                                                  catcgcatcgTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCtt                                     <  1:702730/140‑1 (MQ=255)
                                                                                                      gcatcgTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGt                                 <  1:254914/140‑1 (MQ=255)
                                                                                                      gcatcgTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGt                                 <  2:373031/140‑1 (MQ=255)
                                                                                                      gcatcgTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGt                                 <  1:439940/140‑1 (MQ=255)
                                                                                                          cgTCACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAgg                             <  1:820045/140‑1 (MQ=255)
                                                                                                             cACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGgcgc                          >  2:15560/1‑140 (MQ=255)
                                                                                                             cACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGgcgc                          <  1:165538/140‑1 (MQ=255)
                                                                                                             cACGCGCGCCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAACCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGgcgc                          <  2:578996/140‑1 (MQ=255)
                                                                                                                 cgcgcCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTC‑TTGGTCAGGCGCTGAtt                     >  2:92104/1‑140 (MQ=255)
                                                                                                                    gcCAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGGCGCTGATTGc                   >  2:836076/1‑140 (MQ=255)
                                                                                                                      cAAGCCCGTGTTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGGCGCTGATTGCCt                 <  1:842569/140‑1 (MQ=255)
                                                                                                                             gtgtTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGGCGCTGATTGCCTTCCTGcc          <  2:781949/140‑1 (MQ=255)
                                                                                                                              tgtTTCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGGCGCTGATTGCCTTCCTGCCa         >  1:110356/1‑140 (MQ=255)
                                                                                                                                  tCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGGCGCTGATTGCCTTCCTGCCAAATc     <  2:11347/140‑1 (MQ=255)
                                                                                                                                  tCTGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGGCGCTGATTGCCTTCCTGCCAAATc     <  2:975477/140‑1 (MQ=255)
                                                                                                                                    tGATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTC‑TTGGTCAGGCGCTGATTGCCTTCCTGCCAAATCCAg  <  1:92104/140‑1 (MQ=255)
                                                                                                                                     gATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGGCGCTGATTGCCTTCCTGCCAAATCCAg  <  1:836076/140‑1 (MQ=255)
                                                                                                                                     gATGCAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGGCGCTGATTGCCTACCTGCCAAATCCAg  <  2:339733/140‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                        
CCGGCTCCAGATAGAGCCGGTTTTGGTTTTCTGTCTTAACGCACCATGCACGGGCGCTTGTTATCGAACGTCCAGCCAGGAATCAGATACTGCATTCCCATCGCATCGTCACGCGCGCCAAGCCCGTGTTTCTGATACAGCTCATGGGCTTTCATCACTTGATCCATATCGATTTCTACACCCAGCCCCGGTTTTTCTGGCACCTGTACCAGCCCGCCTTTGATCTCAAACGGTTCTTTGGTCAGGCGCTGATTGCCTTCCTGCCAAATCCAG  >  NC_000913/2918010‑2918282

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