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
A40 F60 I1 R1	21	90.3	3067138	99.1%	3039533	138.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,270,659	T→G	intergenic (+114/‑67)	mepS → / → pdeN	peptidoglycan DD‑endopeptidase/peptidoglycan LD‑carboxypeptidase/putative c‑di‑GMP phosphodiesterase PdeN

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,270,659	0	T	G	100.0%	190.5 / NA	49	intergenic (+114/‑67)	mepS/pdeN	peptidoglycan DD‑endopeptidase/peptidoglycan LD‑carboxypeptidase/putative c‑di‑GMP phosphodiesterase PdeN
Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (20/29); total (20/29)

CGCCGGGTTCTCAGCCGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGATCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAATGAT  >  NC_000913/2270522‑2270793

cGCCGGGTTCTCAGCCGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGcc                                                                                                                                      <  2:1060831/140‑1 (MQ=255)

cGCCGGGTTCTCAGCCGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGcc                                                                                                                                      <  2:122532/140‑1 (MQ=255)

     ggTTCTCAGCCGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCt                                                                                                                                 >  2:213879/1‑140 (MQ=255)

          tcAGCCGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGt                                                                                                                            <  1:297568/140‑1 (MQ=255)

           cAGCCGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTc                                                                                                                           <  1:127260/140‑1 (MQ=255)

             gCCGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCtat                                                                                                                               >  2:652933/1‑134 (MQ=255)

             gCCGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCtat                                                                                                                               <  1:652933/134‑1 (MQ=255)

              ccGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCgg                                                                                                                        <  1:287953/140‑1 (MQ=255)

               cGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGt                                                                                                                       <  1:213879/140‑1 (MQ=255)

               cGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGt                                                                                                                       <  1:257794/140‑1 (MQ=255)

                 cAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCa                                                                                                                                     >  1:854937/1‑124 (MQ=255)

                 cAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCa                                                                                                                                     <  2:854937/124‑1 (MQ=255)

                 cAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTCAGCCAGGCTATAGTCCGGTCa                                                                                                                     >  1:1327977/1‑140 (MQ=255)

                  aGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCAt                                                                                                                    >  2:181754/1‑140 (MQ=255)

                      aataaACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGtt                                                                                                                <  2:1497689/140‑1 (MQ=255)

                       ataaACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTa                                                                                                               <  2:1440249/140‑1 (MQ=255)

                        taaACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTCAGCCAGGCTATAGTCCGGTCATTGTTAt                                                                                                              <  2:1327977/140‑1 (MQ=255)

                              gTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTa                                                                                                        >  2:185440/1‑140 (MQ=255)

                              gTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTa                                                                                                        >  1:104174/1‑140 (MQ=255)

                                                    aTCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGaa                                                                                  >  1:67313/1‑140 (MQ=255)

                                                      ccTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAAt                                                                                >  1:384011/1‑140 (MQ=255)

                                                        tGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTa                                                                              >  2:205683/1‑140 (MQ=255)

                                                         gACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTaa                                                                             <  2:67313/140‑1 (MQ=255)

                                                            gAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACgg                                                                          <  1:185440/140‑1 (MQ=255)

                                                              gTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGaa                                                                        <  2:104174/140‑1 (MQ=255)

                                                              gTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGaa                                                                        <  1:181754/140‑1 (MQ=255)

                                                                tAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATc                                                                      <  1:205683/140‑1 (MQ=255)

                                                                             tGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATAcgc                                                          <  2:1420549/139‑1 (MQ=255)

                                                                             tGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATAcgc                                                          >  1:1420549/1‑139 (MQ=255)

                                                                                ttAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTc                                                      <  1:982223/140‑1 (MQ=255)

                                                                                  aGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTccc                                                    >  1:61198/1‑140 (MQ=255)

                                                                                       gTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAAttt                                               >  2:274784/1‑140 (MQ=255)

                                                                                         gCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTc                                                      >  1:162093/1‑131 (MQ=255)

                                                                                         gCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTc                                                      <  2:162093/131‑1 (MQ=255)

                                                                                             ttttGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATCCGCGCTCCCAATTTTGGACg                                         >  2:1268259/1‑140 (MQ=255)

                                                                                             ttttGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATCCGCGCTCCCAATTTTGGACg                                         <  1:1268259/140‑1 (MQ=255)

                                                                                                               gagaAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTg                       <  1:1399397/140‑1 (MQ=255)

                                                                                                                agaAAATGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGc                      >  2:193210/1‑140 (MQ=255)

                                                                                                                  aaaaTGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCAt                    <  1:193210/140‑1 (MQ=255)

                                                                                                                  aaaaTGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCAt                    >  2:826846/1‑140 (MQ=255)

                                                                                                                  aaaaTGATGTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCAt                    >  2:849541/1‑140 (MQ=255)

                                                                                                                       gatgTTTCCGCGTCTTGAGCCAGGTTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCAttgttg               <  1:1204634/140‑1 (MQ=255)

                                                                                                                       gatgTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCAttgttg               >  2:965680/1‑140 (MQ=255)

                                                                                                                         tgTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCa             <  2:517708/140‑1 (MQ=255)

                                                                                                                          gTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTAc                          <  2:586640/126‑1 (MQ=255)

                                                                                                                          gTTTCCGCGTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTAc                          >  1:586640/1‑126 (MQ=255)

                                                                                                                                 cgTCTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAAt     <  2:61198/140‑1 (MQ=255)

                                                                                                                                    cTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAATGAt  <  1:849541/140‑1 (MQ=255)

                                                                                                                                    cTTGAGCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAATGAt  <  1:826846/140‑1 (MQ=255)

CGCCGGGTTCTCAGCCGCAGCTAATAAACCGTTTGGATGCAATCCCTTGGCTATCCTGACGAGTTAACTGAAAGCACTGCTTAGGCAGTGCTTTTTTGTTTTCATTCATCAGAGAAAATGATGTTTCCGCGTCTTGATCCAGGCTATAGTCCGGTCATTGTTATCTTTTAAATGTTGTCGTAATTTCAGGAAATTAACGGAATCATGTTCATACGCGCTCCCAATTTTGGACGTAAGCTCCTGCTTACCTGCATTGTTGCAGGCGTAATGAT  >  NC_000913/2270522‑2270793

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