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
A7 F28 I1 R1	252	48.5	1661298	98.8%	1641362	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,278,414	G→A	intergenic (‑177/+156)	yejG ← / ← bcr	protein YejG/multidrug efflux pump Bcr

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,278,414	0	G	A	100.0%	183.2 / NA	52	intergenic (‑177/+156)	yejG/bcr	protein YejG/multidrug efflux pump Bcr
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (29/23); total (29/23)

TTTAACACATCATCAACAATCCGTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCGTTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTTGTGGTTGACATGCATCAACAAAGGAAGCCTT  >  NC_000913/2278285‑2278545

tttAACACATCATCAACAATCCGTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGAt                                                                                                                           <  1:823334/140‑1 (MQ=255)

         tcatcaACAATCCGTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCaa                                                                                                                  <  2:698996/140‑1 (MQ=255)

         tcatcaACAATCCGTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCaa                                                                                                                  <  1:259883/140‑1 (MQ=255)

          catcaACAATCCGTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAAc                                                                                                                 >  1:270042/1‑140 (MQ=255)

          catcaACAATCCGTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAAc                                                                                                                 >  1:720134/1‑140 (MQ=255)

              aacaaTCCGTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCttt                                                                                                             <  2:720134/140‑1 (MQ=255)

                     cGTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCttttt                                                                                                           <  2:68255/135‑1 (MQ=255)

                     cGTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCttttt                                                                                                           >  1:68255/1‑135 (MQ=255)

                      gTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTAc                                                                                                     <  2:521915/140‑1 (MQ=255)

                       tCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACa                                                                                                    >  1:323241/1‑140 (MQ=255)

                                 gATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGAtgtg                                                                                            >  1:115502/1‑138 (MQ=255)

                                 gATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGAtgtg                                                                                            <  2:115502/138‑1 (MQ=255)

                                  aTCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGTGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACt                                                                                         >  2:727275/1‑140 (MQ=255)

                                  aTCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTaa                                                                                                         <  2:83586/124‑1 (MQ=255)

                                  aTCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTaa                                                                                                         >  1:83586/1‑124 (MQ=255)

                                  aTCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACt                                                                                         >  1:391460/1‑140 (MQ=255)

                                  aTCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACt                                                                                         >  1:411952/1‑140 (MQ=255)

                                    cGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACttt                                                                                       >  1:517226/1‑140 (MQ=255)

                                            ttGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATaa                                                                               >  1:286634/1‑140 (MQ=255)

                                             tGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATaaa                                                                              >  2:384609/1‑140 (MQ=255)

                                              gATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAAt                                                                             >  2:107298/1‑140 (MQ=255)

                                              gATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAAt                                                                             >  1:597228/1‑140 (MQ=255)

                                                 gCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGa                                                                          >  2:503046/1‑140 (MQ=255)

                                                     cGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGAtttt                                                                      >  2:707331/1‑140 (MQ=255)

                                                     cGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGAtttt                                                                      >  1:478620/1‑140 (MQ=255)

                                                     cGCCTGCGTGGCCTCTATGGCTCCGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGAtttt                                                                      >  1:123526/1‑140 (MQ=255)

                                                        cTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACa                                                                   <  2:411952/140‑1 (MQ=255)

                                                        cTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACa                                                                   <  2:396978/140‑1 (MQ=255)

                                                         tGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACat                                                                  <  1:373088/140‑1 (MQ=255)

                                                             tGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACataaaa                                                              <  1:107298/140‑1 (MQ=255)

                                                              ggCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACataaaat                                                             <  2:270042/140‑1 (MQ=255)

                                                              ggCCTCTATGGCTCCGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACataaaat                                                             <  2:123526/140‑1 (MQ=255)

                                                               gCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACataaaata                                                            <  1:148099/140‑1 (MQ=255)

                                                                  tctATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAAc                                                         >  2:59735/1‑140 (MQ=255)

                                                                           ctGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCgg                                                <  2:517226/140‑1 (MQ=255)

                                                                              aTTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCggggg                                             <  2:671719/140‑1 (MQ=255)

                                                                              aTTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCggggg                                             >  1:341626/1‑140 (MQ=255)

                                                                              aTTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCggggg                                             >  1:671719/1‑140 (MQ=255)

                                                                                         atCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGAtt                                  >  2:749638/1‑140 (MQ=255)

                                                                                          tCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGAttt                                 <  2:355677/140‑1 (MQ=255)

                                                                                           cTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTtg                                <  1:384609/140‑1 (MQ=255)

                                                                                             gCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTtgtg                              >  2:179827/1‑140 (MQ=255)

                                                                                             gCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTtgtg                              >  2:176630/1‑140 (MQ=255)

                                                                                              cGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTtg                                <  1:759822/137‑1 (MQ=255)

                                                                                              cGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTtg                                >  2:759822/1‑137 (MQ=255)

                                                                                              cGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTTGTgg                             >  2:625273/1‑140 (MQ=255)

                                                                                              cGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTTGTgg                             >  1:26075/1‑140 (MQ=255)

                                                                                                  cGTGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTTGTGGTTGa                         >  1:55224/1‑140 (MQ=255)

                                                                                                    tGGTCACGTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTTGTGGTTGACa                       <  1:59735/140‑1 (MQ=255)

                                                                                                           gTTTGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTTGTGGTTGACATGCATca                <  1:503046/140‑1 (MQ=255)

                                                                                                              tGCGGGGCTATATGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTTGTGGTTGACATGCATcaaca             >  2:619035/1‑140 (MQ=255)

                                                                                                                         atGTACCCATTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTTGTGGTTGACATGCATCAACAAAGGAAGCCtt  <  1:176630/140‑1 (MQ=255)

TTTAACACATCATCAACAATCCGTCTTTATACAGATCGTAAAGATTGATGCCTCGCCTGCGTGGCCTCTATGGCTCTGATTTAAGTAATATCTGCGGGCGTGGTCACGTTTGCGGGGCTATATGTACCCGTTTCTGCGATCTAACTCAACCTTTTTAACTACAATGATGTGACTTTTTACATAAATTGATTTTACATAAAATAAACATATATCGGGGGAATGATAGATTTGTGGTTGACATGCATCAACAAAGGAAGCCTT  >  NC_000913/2278285‑2278545

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A