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
A3 F1 I2 R1 777 59.2 2955938 92.5% 2734242 106.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 400,720 C→T A68A (GCG→GCA)  ddlA ← D‑alanine‑D‑alanine ligase A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913400,7200CT100.0% 177.3 / NA 55A68A (GCG→GCA) ddlAD‑alanine‑D‑alanine ligase A
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (23/32);  total (23/32)

TCTTCGCCCAGCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAACGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACTTTTATCAATGGCATCGACAAT  >  NC_000913/400586‑400845
                                                                                                                                      |                                                                                                                             
ccTTCGCCCAGCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGcgcaatgcaa                                                                                                                           >  2:682878/2‑139 (MQ=255)
 cTTCGCCCAGCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCgcaatgcaat                                                                                                                          <  2:318354/139‑1 (MQ=255)
 cTTCGCCCAGCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCgcaatgcaat                                                                                                                          <  2:1378599/139‑1 (MQ=255)
 cTTCGCCCAGCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCgcaatgcaat                                                                                                                          <  2:847447/139‑1 (MQ=255)
 cTTCGCCCAGCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCgcaatgcaat                                                                                                                          <  1:496310/139‑1 (MQ=255)
     gCCCAGCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATgg                                                                                                                      <  2:1181637/139‑1 (MQ=255)
          gCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAgg                                                                                                                 <  2:62286/139‑1 (MQ=255)
          gCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAgg                                                                                                                 <  1:609580/139‑1 (MQ=255)
           cGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAgg                                                                                                                 >  2:808254/1‑138 (MQ=255)
           cGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAgg                                                                                                                 <  1:808254/138‑1 (MQ=255)
           cGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGa                                                                                                                >  1:1381593/1‑139 (MQ=255)
            gTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGAt                                                                                                               <  1:1320524/139‑1 (MQ=255)
               ccGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGt                                                                                                            <  2:757949/139‑1 (MQ=255)
                     aCAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCAt                                                                                                      >  1:155937/1‑139 (MQ=255)
                     aCAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCAt                                                                                                      >  1:963026/1‑139 (MQ=255)
                     aCAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCAt                                                                                                      >  1:539059/1‑139 (MQ=255)
                                   gACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATaa                                                                                           <  1:157555/136‑1 (MQ=255)
                                   gACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATaa                                                                                           >  2:157555/1‑136 (MQ=255)
                                          aCCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCAt                                                                                 <  2:539059/139‑1 (MQ=255)
                                                ggCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGcgcaatgca                                                                                                                            <  2:767781/90‑1 (MQ=255)
                                                ggCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGcgcaatgca                                                                                                                            >  1:767781/1‑90 (MQ=255)
                                                ggCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCa                                                                                                       <  1:292343/111‑1 (MQ=255)
                                                ggCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCa                                                                                                       >  2:292343/1‑111 (MQ=255)
                                                     cGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGc                                                                      <  2:155937/139‑1 (MQ=255)
                                                       gCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCa                                                                    <  2:128590/139‑1 (MQ=255)
                                                       gCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCa                                                                    <  2:1182645/139‑1 (MQ=255)
                                                        cTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCAt                                                                   >  2:143982/1‑139 (MQ=255)
                                                            ccGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTgg                                                                                    >  1:1328737/1‑118 (MQ=255)
                                                            ccGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTgg                                                                                    <  2:1328737/118‑1 (MQ=255)
                                                             cGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGccc                                                              <  1:143982/139‑1 (MQ=255)
                                                             cGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGccc                                                              <  2:963026/139‑1 (MQ=255)
                                                             cGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGccc                                                              <  1:682878/139‑1 (MQ=255)
                                                                tttGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCgcaatgcaat                                                                                                                          <  1:205087/76‑1 (MQ=255)
                                                                tttGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCgcaatgcaat                                                                                                                          >  2:205087/1‑76 (MQ=255)
                                                                          gATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATg                                                 <  1:1341584/139‑1 (MQ=255)
                                                                                   aTGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCCTTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCagcagc                                        >  1:610862/1‑139 (MQ=255)
                                                                                   aTGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCagcagc                                        >  1:215112/1‑139 (MQ=255)
                                                                                         aTGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAg                                                                                                  >  2:637600/1‑75 (MQ=255)
                                                                                         aTGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAg                                                                                                  <  1:637600/75‑1 (MQ=255)
                                                                                         aTGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACg                                                                         >  1:602232/1‑100 (MQ=255)
                                                                                         aTGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACg                                                                         <  2:602232/100‑1 (MQ=255)
                                                                                          tGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGc                                                                >  1:446328/1‑108 (MQ=255)
                                                                                          tGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGc                                                                <  2:446328/108‑1 (MQ=255)
                                                                                           gTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGccc                                                              >  1:306637/1‑109 (MQ=255)
                                                                                           gTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGccc                                                              <  2:306637/109‑1 (MQ=255)
                                                                                                ccTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGc                           <  2:266612/139‑1 (MQ=255)
                                                                                                     cACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGccc                                              <  1:1268174/115‑1 (MQ=255)
                                                                                                     cACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGccc                                              >  2:1268174/1‑115 (MQ=255)
                                                                                                         tGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGcc                                                               >  2:697535/1‑94 (MQ=255)
                                                                                                         tGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGcc                                                               <  1:697535/94‑1 (MQ=255)
                                                                                                         tGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGcaca                                     <  1:821658/120‑1 (MQ=255)
                                                                                                         tGCGCAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGcaca                                     >  2:821658/1‑120 (MQ=255)
                                                                                                           cgcAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGccc                                                              <  2:686544/93‑1 (MQ=255)
                                                                                                           cgcAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGccc                                                              >  1:686544/1‑93 (MQ=255)
                                                                                                           cgcAAGGCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACTTTTATCa                <  1:1007329/139‑1 (MQ=255)
                                                                                                                ggCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAgg                                                                                                                 <  2:965911/37‑1 (MQ=255)
                                                                                                                ggCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAgg                                                                                                                 >  1:965911/1‑37 (MQ=255)
                                                                                                                ggCTGGTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACTTTTATCAATGGc           <  1:440935/139‑1 (MQ=255)
                                                                                                                     gTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCa                                                                                                       <  1:1249549/42‑1 (MQ=255)
                                                                                                                     gTCGCCGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACTTTTATCAATGGCATCGa      >  2:746473/1‑139 (MQ=255)
                                                                                                                     gTCGCCGAAGGGAGCAATGCAATATGGGCAGGATCGTCTGCa                                                                                                       >  2:1249549/1‑42 (MQ=255)
                                                                                                                         ccGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACTTTTATCAATGGCATCGACAAt  <  2:782975/139‑1 (MQ=255)
                                                                                                                          cGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATg                                                 <  2:747736/91‑1 (MQ=255)
                                                                                                                          cGAAGGGCGCAATGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATg                                                 >  1:747736/1‑91 (MQ=255)
                                                                                                                                      |                                                                                                                             
TCTTCGCCCAGCGTACCGTGGACAATCGGGAAAATGACATCCACCGTCGGCAACGGCTGACCGTTTTGCGCGTCGATAAGCTGATGCTCATGTTTACCTGGCACCTGCGCAAGGCTGGTCGCCGAAGGGCGCAACGCAATATGGGCAGGATCGTCTGCATTTAGCAGATAATTGCTGGCATCGCTGACGTGCCATTGCCCTTGTTTATCAATGCCCAGCAGCACAACGTCGAAGCGACTTTTATCAATGGCATCGACAAT  >  NC_000913/400586‑400845

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A