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	129	74.0	2524844	99.2%	2504645	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,762,824	T→C	K239K (AAA→AAG)	abpB ←	CP4‑57 prophage; putative helicase YfjK

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,762,824	0	T	C	100.0%	185.7 / NA	53	K239K (AAA→AAG)	abpB	CP4‑57 prophage; putative helicase YfjK
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (30/23); total (30/23)

CGTCTTAACATCTAGCGCGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGTTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATGACGAAGAGGTCAATGTCGACGATGTCGTCACGCTCG  >  NC_000913/2762692‑2762959

cGTCTTAACATCTAGCGCGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTa                                                                                                                                  <  2:328160/140‑1 (MQ=255)

             aGCGCGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTa                                                                                                                                  <  2:645223/127‑1 (MQ=255)

             aGCGCGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTa                                                                                                                                  >  1:645223/1‑127 (MQ=255)

             aGCGCGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAg                                                                                                                     >  1:1025640/1‑140 (MQ=255)

             aGCGCGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAg                                                                                                                     >  2:753334/1‑140 (MQ=255)

             aGCGCGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAg                                                                                                                     >  1:286202/1‑140 (MQ=255)

             aGCGCGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAg                                                                                                                     >  1:644978/1‑140 (MQ=255)

              gcgcGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAg                                                                                                                     >  2:415839/1‑139 (MQ=255)

              gcgcGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAg                                                                                                                     <  1:415839/139‑1 (MQ=255)

               cgcgACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCt                                                                                                                   >  1:986141/1‑140 (MQ=255)

                gcgACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTc                                                                                                                  >  2:623427/1‑140 (MQ=255)

                   aCTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATTCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGAt                                                                                                               >  1:596185/1‑140 (MQ=255)

                           gAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACtcgtt                                                                                                       <  2:190045/140‑1 (MQ=255)

                             aGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACtcgttcg                                                                                                     <  2:986141/140‑1 (MQ=255)

                              gTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACtcgttcgt                                                                                                    >  1:491616/1‑140 (MQ=255)

                              gTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACtcgttcgt                                                                                                    >  1:493623/1‑140 (MQ=255)

                               tCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTc                                                                                                   <  2:493623/140‑1 (MQ=255)

                               tCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTc                                                                                                   <  1:623427/140‑1 (MQ=255)

                               tCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTc                                                                                                   >  1:1196460/1‑140 (MQ=255)

                                 ggTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACtcgttcg                                                                                                     <  2:949504/136‑1 (MQ=255)

                                 ggTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACtcgttcg                                                                                                     >  1:949504/1‑136 (MQ=255)

                                   tAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTtga                                                                                               <  1:1249005/140‑1 (MQ=255)

                                                aTGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTccc                                                                                  >  2:556834/1‑140 (MQ=255)

                                                 tGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTcccc                                                                                 >  1:1203393/1‑140 (MQ=255)

                                                 tGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTcccc                                                                                 >  1:286171/1‑140 (MQ=255)

                                                  gCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCg                                                                                <  2:1203393/140‑1 (MQ=255)

                                                    ggATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCt                                                                              >  2:524227/1‑140 (MQ=255)

                                                       tatCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCtttt                                                                           <  1:524227/140‑1 (MQ=255)

                                                         tCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCtttt                                                                           <  1:1016922/138‑1 (MQ=255)

                                                         tCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCtttt                                                                           >  2:1016922/1‑138 (MQ=255)

                                                         tCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCa                                                                         >  2:289994/1‑140 (MQ=255)

                                                             aGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTg                                                                     >  1:440735/1‑140 (MQ=255)

                                                                    cGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAAc                                                              >  1:772786/1‑140 (MQ=255)

                                                                     gagaCCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACg                                                             <  2:772786/140‑1 (MQ=255)

                                                                       gaCCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGcc                                                           <  1:753334/140‑1 (MQ=255)

                                                                       gaCCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGcc                                                           <  2:459037/140‑1 (MQ=255)

                                                                        aCCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCa                                                          <  2:286202/140‑1 (MQ=255)

                                                                        aCCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCa                                                          <  2:440735/140‑1 (MQ=255)

                                                                            cgAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACtt                                                      >  2:354657/1‑140 (MQ=255)

                                                                                tGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTaa                                                  <  2:491616/140‑1 (MQ=255)

                                                                                     ttAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTc                                             >  2:559709/1‑140 (MQ=255)

                                                                                       aacgaacgGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGt                                           <  1:289994/140‑1 (MQ=255)

                                                                                       aacgaacgGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGt                                           <  1:559709/140‑1 (MQ=255)

                                                                                             cgGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATg                                      <  1:990388/139‑1 (MQ=255)

                                                                                             cgGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATg                                      >  2:990388/1‑139 (MQ=255)

                                                                                               gTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATGACg                                   >  2:990582/1‑140 (MQ=255)

                                                                                                         gTAAAACTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATGACGAAGAGGTCaa                         <  2:1025640/140‑1 (MQ=255)

                                                                                                            aaaCTGCCTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATGACGAAGAGGTCAATGt                      >  1:143660/1‑140 (MQ=255)

                                                                                                                  ccTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATGACGAAGAGGTCAATGTcgacga                >  2:102203/1‑140 (MQ=255)

                                                                                                                   cTGGAGACCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATGACGAAGAGGTCAATGTCGACGAt               >  1:571624/1‑140 (MQ=255)

                                                                                                                       agaCCTTAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATGACGAAGAGGTCAATGTCGACGATgtcg           >  1:251662/1‑140 (MQ=255)

                                                                                                                            ttAAGCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATGACGAAGAGGTCAATGTCGACGATGTCGTCACg      <  2:571624/140‑1 (MQ=255)

                                                                                                                                gCAGCTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATGACGAAGAGGTCAATGTCGACGATGTCGTCACGCTCg  >  1:345569/1‑140 (MQ=255)

CGTCTTAACATCTAGCGCGACTGTATTGAAGTCGGTAGAAACGAAAGTATGCGGATATCCAAGTTTTTCGAGACCGCGAATGCTGTTAACGAACGGTCCCGTCAGGTAAAACTGCCTGGAGACCTTAAGCAGTTTGCTTAACGCAATGTTGAGCTCGATGACTCGTTCGTCTTGATGATCAATGTCCCCGCTTTTCAGTTGTCGGAACGCCAACTTGTAAAACTCGTCAATGACGAAGAGGTCAATGTCGACGATGTCGTCACGCTCG  >  NC_000913/2762692‑2762959

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