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 F28 I1 R1	161	50.8	1735388	98.6%	1711092	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,226,987	T→C	intergenic (+19/+84)	ycgJ → / ← pliG	PF05666 family protein YcgJ/inhibitor of g‑type lysozyme

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,226,987	0	T	C	100.0%	188.4 / NA	53	intergenic (+19/+84)	ycgJ/pliG	PF05666 family protein YcgJ/inhibitor of g‑type lysozyme
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (31/22); total (31/22)

TATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAGTTTTGTTTTTACGGGCG  >  NC_000913/1226850‑1227122

tATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTc                                                                                                                                       >  2:180475/1‑140 (MQ=255)

   tttGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTAt                                                                                                                                    <  1:113086/140‑1 (MQ=255)

   tttGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTAt                                                                                                                                    <  2:165228/140‑1 (MQ=255)

    ttGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTAtt                                                                                                                                   <  1:180475/140‑1 (MQ=255)

       cGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGt                                                                                                                                >  1:113479/1‑140 (MQ=255)

               aaGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAAcc                                                                                                                        >  2:260736/1‑140 (MQ=255)

               aaGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAAcc                                                                                                                        <  1:260736/140‑1 (MQ=255)

                      aTTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAg                                                                                                                 >  2:316499/1‑140 (MQ=255)

                      aTTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAg                                                                                                                 <  2:113479/140‑1 (MQ=255)

                      aTTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAg                                                                                                                 >  1:439864/1‑140 (MQ=255)

                           gTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACa                                                                                                            <  1:226304/140‑1 (MQ=255)

                               tgatgaTCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCg                                                                                                               <  2:469208/133‑1 (MQ=255)

                               tgatgaTCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCg                                                                                                               >  1:469208/1‑133 (MQ=255)

                               tgatgaTCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACagaga                                                                                                        >  1:845517/1‑140 (MQ=255)

                               tgatgaTCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACagaga                                                                                                        >  1:95403/1‑140 (MQ=255)

                                   gatCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAgaggag                                                                                                    <  2:845517/140‑1 (MQ=255)

                                             ttGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTa                                                                                          <  1:409599/140‑1 (MQ=255)

                                              tGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTaa                                                                                         >  1:490754/1‑140 (MQ=255)

                                                gtgtGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACg                                                                                       >  1:744848/1‑140 (MQ=255)

                                                gtgtGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACg                                                                                       >  2:105240/1‑140 (MQ=255)

                                                   tgGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGttt                                                                                    >  2:214802/1‑140 (MQ=255)

                                                       tGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGa                                                                                <  2:170080/140‑1 (MQ=255)

                                                         gTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACg                                                                              <  2:744848/140‑1 (MQ=255)

                                                           aaGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGttt                                                                                    <  2:317399/132‑1 (MQ=255)

                                                           aaGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGttt                                                                                    >  1:317399/1‑132 (MQ=255)

                                                             gCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGga                                                                          <  1:214802/140‑1 (MQ=255)

                                                              cGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGgag                                                                         >  2:220489/1‑140 (MQ=255)

                                                                gAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGagag                                                                       <  2:490754/140‑1 (MQ=255)

                                                                 aGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGga                                                                          >  1:428126/1‑136 (MQ=255)

                                                                 aGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGga                                                                          <  2:428126/136‑1 (MQ=255)

                                                                  gTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTc                                                                     >  1:846969/1‑140 (MQ=255)

                                                                    ggAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTccc                                                                   <  2:846969/140‑1 (MQ=255)

                                                                    ggAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTccc                                                                   >  1:214148/1‑140 (MQ=255)

                                                                           tcaatcaaACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGt                                                            >  2:822906/1‑140 (MQ=255)

                                                                           tcaatcaaACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGATTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGt                                                            >  2:837688/1‑140 (MQ=255)

                                                                                caaACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACa                                                       <  1:316499/140‑1 (MQ=255)

                                                                                  aaCCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACAtt                                                     <  1:837688/140‑1 (MQ=255)

                                                                                         acaAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGtt                                                           <  1:304171/127‑1 (MQ=255)

                                                                                         acaAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGtt                                                           >  2:304171/1‑127 (MQ=255)

                                                                                             aGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTg                                          >  2:225573/1‑140 (MQ=255)

                                                                                                 gTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGa                                         <  1:360181/137‑1 (MQ=255)

                                                                                                 gTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGa                                         >  2:360181/1‑137 (MQ=255)

                                                                                                         tgtgTCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGtt                              >  1:618086/1‑140 (MQ=255)

                                                                                                            gtCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTtata                           >  2:98785/1‑140 (MQ=255)

                                                                                                            gtCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTtata                           >  1:316157/1‑140 (MQ=255)

                                                                                                             tCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAata                                      <  2:738594/128‑1 (MQ=255)

                                                                                                             tCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAata                                      >  1:738594/1‑128 (MQ=255)

                                                                                                             tCGTGAGTGATGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTatat                          >  1:251359/1‑140 (MQ=255)

                                                                                                                  agtgaTGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATAtttttt                     >  1:663883/1‑140 (MQ=255)

                                                                                                                    tgaTGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACACTTACTTAATTTGAATATCGACGTTATATTTTTTAg                   >  1:772301/1‑140 (MQ=255)

                                                                                                                       tGTCTTGTTTACATTATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAgttt                >  1:333920/1‑140 (MQ=255)

                                                                                                                                    ttATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAGTTTTGTTTTTACGGGc   <  1:105240/140‑1 (MQ=255)

                                                                                                                                     tATGCTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAGTTTTGTTTTTACGGGcg  >  2:714074/1‑140 (MQ=255)

TATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAGTTTTGTTTTTACGGGCG  >  NC_000913/1226850‑1227122

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