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
A12 F133 I1 R1 102 83.9 4092546 96.1% 3932936 99.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,631,700 T→C L323P (CTT→CCT)  slt → lytic murein transglycosylase, soluble

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,631,7000TC100.0% 257.8 / NA 71L323P (CTT→CCT) sltlytic murein transglycosylase, soluble
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (38/33);  total (38/33)

GCAACGATGTCACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCTTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTGGCAGGCGGAT  >  NC_000913/4631604‑4631794
                                                                                                |                                                                                              
gCAACGATGTCACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTgg                                                                                             >  1:256199/1‑100 (MQ=255)
gCAACGATGTCACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTgg                                                                                             >  1:283796/1‑100 (MQ=255)
 cAACGATGTCACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGc                                                                                            >  1:91061/1‑100 (MQ=255)
  aaCGATGTCACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCa                                                                                           >  1:1286144/1‑100 (MQ=255)
  aaCGATGTCACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCa                                                                                           >  2:1349114/1‑100 (MQ=255)
       tGTCACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGc                                                                                      <  2:1352995/100‑1 (MQ=255)
         tCACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGa                                                                                    >  2:472494/1‑100 (MQ=255)
          cACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGAt                                                                                   <  2:2016083/100‑1 (MQ=255)
          cACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGAt                                                                                   >  1:1756198/1‑100 (MQ=255)
            ccGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGAtcg                                                                                 >  1:1217759/1‑100 (MQ=255)
              gacgaGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGAtcgtc                                                                               >  1:1107220/1‑100 (MQ=255)
                cgaGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTcgc                                                                             <  1:354331/100‑1 (MQ=255)
                 gaGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTcgcg                                                                            >  1:1394976/1‑100 (MQ=255)
                      ggCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTg                                                                       >  2:1907171/1‑100 (MQ=255)
                        cGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGaa                                                                     >  2:992138/1‑100 (MQ=255)
                        cGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGaa                                                                     >  2:572920/1‑100 (MQ=255)
                        cGAAATGACGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGaa                                                                     >  1:1075425/1‑100 (MQ=255)
                         gAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAAt                                                                    >  2:648150/1‑100 (MQ=255)
                          aaaTGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATa                                                                   <  1:1765335/100‑1 (MQ=255)
                                    aTGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCtggctggc                                                         <  2:735571/100‑1 (MQ=255)
                                    aTGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCtggctggc                                                         <  2:735526/100‑1 (MQ=255)
                                       aCGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGcgcg                                                      >  2:555309/1‑100 (MQ=255)
                                         gCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTc                                                    <  1:1907189/100‑1 (MQ=255)
                                          ccATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCt                                                   >  2:1044004/1‑100 (MQ=255)
                                          ccATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCt                                                   <  1:1057970/100‑1 (MQ=255)
                                             ttATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGcc                                                <  2:1574257/100‑1 (MQ=255)
                                             ttATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGcc                                                <  1:992142/100‑1 (MQ=255)
                                             ttATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGcc                                                <  2:1217753/100‑1 (MQ=255)
                                                tGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTAt                                             >  1:100858/1‑100 (MQ=255)
                                                tGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTAt                                             <  1:627261/100‑1 (MQ=255)
                                                tGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTAt                                             <  2:1494427/100‑1 (MQ=255)
                                                   gcTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGa                                          <  1:1174820/100‑1 (MQ=255)
                                                    cTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGaa                                         <  1:1219489/100‑1 (MQ=255)
                                                      cGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGc                                       >  2:904234/1‑100 (MQ=255)
                                                      cGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGc                                       <  2:1394967/100‑1 (MQ=255)
                                                      cGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGc                                       <  1:1278309/100‑1 (MQ=255)
                                                       gCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCg                                      <  1:1349123/100‑1 (MQ=255)
                                                        cAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCga                                     >  1:1674485/1‑100 (MQ=255)
                                                           tCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCgaaag                                  <  2:1546791/100‑1 (MQ=255)
                                                           tCTACTTCGCGTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCgaaag                                  <  2:406436/100‑1 (MQ=255)
                                                                ttCGCTTATTGAACGTCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCgaaagagaaa                             <  2:414266/100‑1 (MQ=255)
                                                                ttCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCgaaagagaaa                             >  2:513206/1‑100 (MQ=255)
                                                                ttCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCgaaagagaaa                             <  1:648152/100‑1 (MQ=255)
                                                                 tCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCgaaagagaaag                            <  1:536229/100‑1 (MQ=255)
                                                                 tCGCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCgaaagagaaag                            <  1:1044009/100‑1 (MQ=255)
                                                                   gCTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGAt                          >  2:2009072/1‑100 (MQ=255)
                                                                    cTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATg                         <  2:1363107/100‑1 (MQ=255)
                                                                    cTTATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATg                         >  2:384881/1‑100 (MQ=255)
                                                                     ttATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGa                        <  2:256198/100‑1 (MQ=255)
                                                                      tATTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGaa                       >  2:1289093/1‑100 (MQ=255)
                                                                       aTTGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAAt                      <  2:283795/100‑1 (MQ=255)
                                                                         tGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATgg                    >  1:1034549/1‑100 (MQ=255)
                                                                         tGAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATgg                    >  1:1592402/1‑100 (MQ=255)
                                                                          gAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGc                   >  2:1961664/1‑100 (MQ=255)
                                                                          gAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGc                   >  2:1440145/1‑100 (MQ=255)
                                                                          gAACGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGc                   >  2:435371/1‑100 (MQ=255)
                                                                           aaCGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCg                  <  2:31703/100‑1 (MQ=255)
                                                                           aaCGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCg                  >  2:692766/1‑100 (MQ=255)
                                                                            aCGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGt                 <  2:2002480/100‑1 (MQ=255)
                                                                             cGCCGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGtt                <  1:1289099/100‑1 (MQ=255)
                                                                               ccGTGTACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTAc              >  1:1366012/1‑100 (MQ=255)
                                                                                  tgtACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTgg           <  2:1756184/100‑1 (MQ=255)
                                                                                  tgtACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTgg           >  2:68304/1‑100 (MQ=255)
                                                                                   gtACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTGGc          >  1:1221467/1‑100 (MQ=255)
                                                                                   gtACGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTGGc          <  1:472495/100‑1 (MQ=255)
                                                                                     aCGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTGGCAg        >  1:826220/1‑100 (MQ=255)
                                                                                     aCGAATGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTGGCAg        >  2:1182889/1‑100 (MQ=255)
                                                                                        aaTGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTGGCAGGCg     <  1:2023774/100‑1 (MQ=255)
                                                                                        aaTGGCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTGGCAGGCg     >  1:328781/1‑100 (MQ=255)
                                                                                           ggCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTGGCAGGCGGAt  >  1:784783/1‑100 (MQ=255)
                                                                                           ggCGCCTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTGGCAGGCGGAt  >  2:288601/1‑100 (MQ=255)
                                                                                                |                                                                                              
GCAACGATGTCACCGACGAGCAGGCGAAATGGCGCGATGACGCCATTATGCGCTCGCAATCTACTTCGCTTATTGAACGCCGTGTACGAATGGCGCTTGGCACCGGCGATCGTCGCGGCCTGAATACCTGGCTGGCGCGTCTGCCTATGGAAGCGAAAGAGAAAGATGAATGGCGTTACTGGCAGGCGGAT  >  NC_000913/4631604‑4631794

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A