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 F50 I1 R1	170	39.5	1266514	99.2%	1256381	150.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,003,303	A→G	R292R (CGT→CGC)	rarD ←	putative chloramphenical resistance permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,003,303	0	A	G	100.0%	119.4 / NA	33	R292R (CGT→CGC)	rarD	putative chloramphenical resistance permease
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (20/13); total (20/13)

TACCGTTAGATGTTGGGATAAATATACGTAACATAAATTTTACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTACGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCGTCGGGCCAATGTACTGGAAA  >  NC_000913/4003160‑4003447

tACCGTTAGATGTTGGGATAAATATACGTAACATAAATTTTACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCt                                                                                                                                              <  1:80396/148‑1 (MQ=255)

           gTTGGGATAAATATACGTAACATAAATTTTACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGca                                                                                                                                <  2:466941/151‑1 (MQ=255)

                   aaaTATACGTAACATAAATTTTACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATcac                                                                                                                        >  2:140978/1‑151 (MQ=255)

                       ataCGTAACATAAATTTTACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACaaa                                                                                                                     >  1:356262/1‑150 (MQ=255)

                          cGTAACATAAATTTTACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAAtt                                                                                                                 >  1:582374/1‑151 (MQ=255)

                             aaCATAAATTTTACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCCCTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCTCAAAAAtt                                                                                                                 <  2:82918/148‑1 (MQ=255)

                             aaCATAAATTTTACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGcc                                                                                                              >  1:445410/1‑151 (MQ=255)

                                    aTTTTACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGcc                                                                                                        >  2:50710/1‑150 (MQ=255)

                                      tttACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCAcc                                                                                                     >  1:288521/1‑151 (MQ=255)

                                         aCATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCaa                                                                                                  <  1:126931/151‑1 (MQ=255)

                                                                         aaTATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCAcc                                                                  >  1:454049/1‑151 (MQ=255)

                                                                         aaTATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCAcc                                                                  <  1:140981/151‑1 (MQ=255)

                                                                               cccACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGttt                                                            >  1:530353/1‑151 (MQ=255)

                                                                                  aCTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTc                                                         <  1:225824/151‑1 (MQ=255)

                                                                                       cATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCAt                                                    >  1:464955/1‑151 (MQ=255)

                                                                                          gCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATaaa                                                 <  2:399162/151‑1 (MQ=255)

                                                                                               agTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTc                                            <  2:464947/151‑1 (MQ=255)

                                                                                                        atTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCAcagcc                                      >  1:114836/1‑148 (MQ=255)

                                                                                                          tttttCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCAcagccagc                                   >  1:63980/1‑149 (MQ=255)

                                                                                                           ttttCAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAgg                                >  2:296925/1‑151 (MQ=255)

                                                                                                               cAGAATATATTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACa                            <  2:253832/151‑1 (MQ=255)

                                                                                                                     atatTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCg                      >  2:406960/1‑151 (MQ=255)

                                                                                                                     atatTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCg                      >  2:597662/1‑151 (MQ=255)

                                                                                                                     atatTTATTTTTTATTTGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCg                      >  1:440713/1‑151 (MQ=255)

                                                                                                                           attttttatttGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCGTCggg                 <  2:107659/150‑1 (MQ=255)

                                                                                                                           attttttatttGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCGTCggg                 <  1:583332/150‑1 (MQ=255)

                                                                                                                             tttttatttGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCGTCGGGcc               >  1:176989/1‑150 (MQ=255)

                                                                                                                                 tatttGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCGTCGGGCCAATGt          >  1:611633/1‑151 (MQ=255)

                                                                                                                                  atttGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGGACATCAGCGTCGGGCCAATGTa         <  2:36628/151‑1 (MQ=255)

                                                                                                                                  atttGGACGTTCTGCGCTCCGGATAAATCGCATCCATCTTAAAAATCGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGTCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCGTCGGGCCAATGt          >  2:355134/1‑150 (MQ=255)

                                                                                                                                    ttGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCGTCGGGCCAATGTACt       >  2:593652/1‑151 (MQ=255)

                                                                                                                                     tGGACGTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCGTCGGGCCAATGTACt       <  1:314876/150‑1 (MQ=255)

                                                                                                                                          gTTCTGCGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCGTCGGGCCAATGTACTGGaaa  >  2:126788/1‑150 (MQ=255)

TACCGTTAGATGTTGGGATAAATATACGTAACATAAATTTTACATCCTTGTATGAGTCTCCGGTCAGCATGGCAATATGCCCACTCTCATGCAAGAGTCGGCATATTTTTTCAGAATATATTTATTTTTTATTTGGACGTTCTACGCTGCGTATAAATCGCATCCATCACAAAAATTGCCAGCGCCACCCAAATAAAGGCGAAAGTCACCATCTTATCGGCACCCGGTTTTTCACCATAAAACGTCACAGCCAGCAGGAACATCAGCGTCGGGCCAATGTACTGGAAA  >  NC_000913/4003160‑4003447

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A