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
A4 F28 I1 R1	159	82.1	2830106	99.3%	2810295	139.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,280,942	G→A	pseudogene (242/402 nt)	agaW →	N‑acetyl‑D‑galactosamine specific PTS truncated enzyme IIC component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,280,942	0	G	A	100.0%	185.6 / NA	55	pseudogene (242/402 nt)	agaW	N‑acetyl‑D‑galactosamine specific PTS truncated enzyme IIC component
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (20/35); total (20/35)

TTGGTCGGGCTGGTACTTGGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTGCGACCT  >  NC_000913/3280812‑3281077

ttGGTCGGGCTGGTACTTGGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGtt                                                                                                                                <  1:712610/140‑1 (MQ=255)

  ggTCGGGCTGGTACTTGGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACa                                                                                                                                       >  2:1380389/1‑131 (MQ=255)

    tCGGGCTGGTACTTGGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGcc                                                                                                                            <  1:37573/140‑1 (MQ=255)

     cGGGCTGGTACTTGGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCa                                                                                                                           <  1:988990/140‑1 (MQ=255)

        gCTGGTACTTGGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATta                                                                                                                        >  1:1352498/1‑140 (MQ=255)

           ggTACTTGGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATtacta                                                                                                                     <  2:1143656/140‑1 (MQ=255)

             tACTTGGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTactact                                                                                                                   >  2:389530/1‑140 (MQ=255)

                  ggCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGCTTATCGGGACTATCGTCGACACGGCGTTTGCCATTACTACTGGCgg                                                                                                              >  2:1225923/1‑139 (MQ=255)

                  ggCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGt                                                                                                              >  1:1331609/1‑140 (MQ=255)

                          gCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCg                                                                                                      <  1:1283041/140‑1 (MQ=255)

                            aTACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGAt                                                                                                    <  2:1331609/140‑1 (MQ=255)

                              aCCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGt                                                                                                  <  1:1225923/140‑1 (MQ=255)

                              aCCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGGACTATCGTCGACACGGCGGTTGCCCTTACTACTGGCGTGAAAACCGAAGt                                                                                                  >  2:1368763/1‑140 (MQ=255)

                                cGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCg                                                                                                <  2:477877/140‑1 (MQ=255)

                                cGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCg                                                                                                >  1:894325/1‑140 (MQ=255)

                                  gAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCa                                                                                              >  1:123048/1‑140 (MQ=255)

                                  gAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCa                                                                                              >  1:962019/1‑140 (MQ=255)

                                    aTTATAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGt                                                                                            <  2:981537/140‑1 (MQ=255)

                                               cggTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGccc                                                                                 >  2:1137489/1‑139 (MQ=255)

                                                ggTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGt                                                                                >  1:1148361/1‑140 (MQ=255)

                                                      cTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCttt                                                                          <  2:142618/140‑1 (MQ=255)

                                                         gAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGc                                                                       <  2:28610/140‑1 (MQ=255)

                                                            cTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGc                                                                       <  1:568617/137‑1 (MQ=255)

                                                            cTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGc                                                                       >  2:568617/1‑137 (MQ=255)

                                                            cTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGt                                                                    <  1:389530/140‑1 (MQ=255)

                                                              ggTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACCCGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCg                                                                  <  2:496816/140‑1 (MQ=255)

                                                              ggTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCg                                                                  <  2:853325/140‑1 (MQ=255)

                                                              ggTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCg                                                                  >  1:128979/1‑140 (MQ=255)

                                                               gtgtGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGc                                                                 <  2:1148361/140‑1 (MQ=255)

                                                                  tgGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGt                                                              <  2:128979/140‑1 (MQ=255)

                                                                   ggATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTa                                                             <  1:1348389/140‑1 (MQ=255)

                                                                   ggATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTa                                                             <  2:196102/140‑1 (MQ=255)

                                                                       ggggCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGa                                                         <  2:1106690/140‑1 (MQ=255)

                                                                       ggggCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGa                                                         <  1:1368763/140‑1 (MQ=255)

                                                                           cTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATggg                                                     <  2:313593/140‑1 (MQ=255)

                                                                             ggCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGa                                                   <  2:920332/140‑1 (MQ=255)

                                                                              gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCTGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGAt                                                  <  2:168169/140‑1 (MQ=255)

                                                                              gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTa                                                             >  2:520108/1‑129 (MQ=255)

                                                                              gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTa                                                             <  1:520108/129‑1 (MQ=255)

                                                                              gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGa                                                         >  1:266410/1‑133 (MQ=255)

                                                                              gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGa                                                         <  2:266410/133‑1 (MQ=255)

                                                                              gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGa                                                   >  1:828917/1‑139 (MQ=255)

                                                                              gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGa                                                   <  2:828917/139‑1 (MQ=255)

                                                                              gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGAt                                                  >  1:1056677/1‑140 (MQ=255)

                                                                              gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGAt                                                  >  2:1322636/1‑140 (MQ=255)

                                                                              gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGAt                                                  >  1:984560/1‑140 (MQ=255)

                                                                               ccccGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGAtt                                                 >  2:572832/1‑140 (MQ=255)

                                                                                    cTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCTTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCtt                                            <  2:1284594/140‑1 (MQ=255)

                                                                                            cgcACAGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTtct                                    <  2:962019/140‑1 (MQ=255)

                                                                                              cacaGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTtc                                     >  2:1000769/1‑137 (MQ=255)

                                                                                              cacaGCCGCCTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTtc                                     <  1:1000769/137‑1 (MQ=255)

                                                                                                      ccTAACGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTc                          <  1:572832/140‑1 (MQ=255)

                                                                                                         aaCGTGATTATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTGCCTGTTCTCGGTGATGTCCgg                       <  2:1352498/140‑1 (MQ=255)

                                                                                                                 tATCGGTACTATCGTCGACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGt               <  1:541226/140‑1 (MQ=255)

                                                                                                                            tcgtcgACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCCCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTGCGAc    >  2:855552/1‑140 (MQ=255)

                                                                                                                             cgtcgACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGtc              >  2:75884/1‑129 (MQ=255)

                                                                                                                             cgtcgACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGtc              <  1:75884/129‑1 (MQ=255)

                                                                                                                             cgtcgACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTCCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTGCGAcc   <  2:984560/140‑1 (MQ=255)

                                                                                                                              gtcgACACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTGCGACCt  >  2:573332/1‑140 (MQ=255)

TTGGTCGGGCTGGTACTTGGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTGCGACCT  >  NC_000913/3280812‑3281077

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A