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
A11 F28 I1 R1	134	60.5	2175152	94.0%	2044642	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,130,735	T→C	E48E (GAA→GAG)	wcaD ←	putative colanic acid polymerase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,130,735	0	T	C	100.0%	211.1 / NA	58	E48E (GAA→GAG)	wcaD	putative colanic acid polymerase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (24/34); total (24/34)

GATCACAATATAGACAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGTTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAGGTAGCTACAGATTCTGATAGAAG  >  NC_000913/2130600‑2130871

gATCACAATATAGACAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTa                                                                                                                                      >  2:338182/1‑140 (MQ=255)

 aTCACAATATAGACAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTaa                                                                                                                                     >  2:926986/1‑140 (MQ=255)

  tCACAATATAGACAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTaaa                                                                                                                                    <  1:189465/140‑1 (MQ=255)

       atatAGACAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAAcag                                                                                                                               <  1:338182/140‑1 (MQ=255)

        tataGACAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAAcagc                                                                                                                              <  1:167375/140‑1 (MQ=255)

        tataGACAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAAcagc                                                                                                                              <  1:859034/140‑1 (MQ=255)

        tataGACAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAAcagc                                                                                                                              <  1:739266/140‑1 (MQ=255)

        tataGACAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCACCAATTTTTTAACGCTGATGCGCTCTAAAAAcagc                                                                                                                              <  1:1062226/140‑1 (MQ=255)

             aCAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTaa                                                                                                                         >  2:481483/1‑140 (MQ=255)

                aaCAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACaa                                                                                                                      >  1:931001/1‑140 (MQ=255)

                 aCAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGCGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAg                                                                                                                     >  1:178172/1‑140 (MQ=255)

                   aGCATAGTTGAAGTGTCGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGAc                                                                                                                   <  1:980224/140‑1 (MQ=255)

                   aGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGAc                                                                                                                   <  1:919465/140‑1 (MQ=255)

                   aGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGAc                                                                                                                   <  1:926986/140‑1 (MQ=255)

                    gCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAATCAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACa                                                                                                                  >  2:8330/1‑140 (MQ=255)

                             aaGTGACGTATTTACTGGCATCCAGCGACTGACCAATCAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTaaaaaa                                                                                                         <  1:8330/140‑1 (MQ=255)

                             aaGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGTGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTaaaaaa                                                                                                         <  1:376914/140‑1 (MQ=255)

                               gTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGt                                                                                                       <  1:131635/140‑1 (MQ=255)

                                    gTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGa                                                                                                  >  2:683058/1‑140 (MQ=255)

                                    gTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGa                                                                                                  <  2:443597/140‑1 (MQ=255)

                                      aTTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATg                                                                                                <  1:788189/140‑1 (MQ=255)

                                        ttACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGt                                                                                              <  1:683058/140‑1 (MQ=255)

                                              gCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATggg                                                                                        >  2:480371/1‑140 (MQ=255)

                                               cATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATgggg                                                                                       <  1:480371/140‑1 (MQ=255)

                                                 tCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTg                                                                                             <  1:99461/132‑1 (MQ=255)

                                                 tCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTg                                                                                             >  2:99461/1‑132 (MQ=255)

                                                          tGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGcc                                                                            >  2:143731/1‑140 (MQ=255)

                                                          tGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGcc                                                                            >  1:775595/1‑140 (MQ=255)

                                                            aCCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCGATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCaa                                                                          >  1:88190/1‑140 (MQ=255)

                                                                      tAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGAt                                                                >  2:330204/1‑140 (MQ=255)

                                                                      tAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGAt                                                                >  2:210092/1‑140 (MQ=255)

                                                                        gTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGAttt                                                              <  1:210092/140‑1 (MQ=255)

                                                                        gTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGAttt                                                              <  2:180350/140‑1 (MQ=255)

                                                                           aaaCGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGa                                                           <  1:913408/140‑1 (MQ=255)

                                                                           aaaCGCCGCGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGa                                                           <  2:178172/140‑1 (MQ=255)

                                                                               gCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGtt                                                       >  2:912264/1‑140 (MQ=255)

                                                                                  gTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAAc                                                    <  1:912264/140‑1 (MQ=255)

                                                                                   tGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAAcc                                                   >  1:1029181/1‑140 (MQ=255)

                                                                                   tGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGCGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAAcc                                                   >  2:707794/1‑140 (MQ=255)

                                                                                    gAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACca                                                  <  2:775595/140‑1 (MQ=255)

                                                                                                 aTCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAg                                     >  2:13878/1‑140 (MQ=255)

                                                                                                       aaGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGgc                                 >  1:941237/1‑138 (MQ=255)

                                                                                                       aaGGCAATCATCAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGgc                                 <  2:941237/138‑1 (MQ=255)

                                                                                                             atcatcAATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAg                         >  2:355775/1‑140 (MQ=255)

                                                                                                              tcatcaATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGgcag                               <  2:928651/133‑1 (MQ=255)

                                                                                                              tcatcaATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGgcag                               >  1:928651/1‑133 (MQ=255)

                                                                                                              tcatcaATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGgc                                 <  1:907401/131‑1 (MQ=255)

                                                                                                              tcatcaATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGgc                                 >  2:907401/1‑131 (MQ=255)

                                                                                                              tcatcaATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAgg                        >  1:10629/1‑140 (MQ=255)

                                                                                                              tcatcaATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAgg                        >  2:296636/1‑140 (MQ=255)

                                                                                                              tcatcaATTTTTTAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAgg                        <  1:143731/140‑1 (MQ=255)

                                                                                                                         ttAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAGGTAGCTACAGAt             <  1:961250/140‑1 (MQ=255)

                                                                                                                          tAACGCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAGGTAGCTACAGAtt            <  1:635422/140‑1 (MQ=255)

                                                                                                                              gCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAGGTAGCTACAGATTCTGa        <  1:13878/140‑1 (MQ=255)

                                                                                                                              gCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAGGTAGCTACAGATTCTGa        <  1:330204/140‑1 (MQ=255)

                                                                                                                              gCTGATGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAGGTAGCTACAGATTCTGa        <  1:1009368/140‑1 (MQ=255)

                                                                                                                                  aTGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAGGTAGCTACAGATTCTGATAGa    <  1:296636/140‑1 (MQ=255)

                                                                                                                                  aTGCGCTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAGGTAGCTACAGATTCTGATAGa    <  1:906838/140‑1 (MQ=255)

                                                                                                                                    gcgcTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAGGTAGCTACAGATTCTGATAGAAg  <  2:1029181/140‑1 (MQ=255)

GATCACAATATAGACAAACAGCATAGTTGAAGTGACGTATTTACTGGCATCCAGCGACTGACCAAACAGATAGTTAAACGCCGTGAGTCCCGCGCCAATCCCTAAGGCAATCATCAATTTTTTAACGCTGATGCGTTCTAAAAACAGCAGTAACAAGACAGGTAAAAAAGTGACGATGGTGATGGGGAAACTTTCGCCAAGCTGGGCGATTTTGACGTTAACCAGCAGATAAATCAGCGGCAGCAACAGGTAGCTACAGATTCTGATAGAAG  >  NC_000913/2130600‑2130871

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A