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
A5 F1 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,018,760	G→A	476 (TAG→TAA)	rmuC →	DNA recombination protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,018,760	0	G	A	100.0%	170.9 / NA	53	476 (TAG→TAA)	rmuC	DNA recombination protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (29/24); total (29/24)

TAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGTTTT  >  NC_000913/4018625‑4018893

tAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAAccc                                                                                                                                    >  2:322490/1‑139 (MQ=255)

      cgggaTTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGACGAGTATCGACTTCGGTCGGGTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGTTGGTGAATATAATCCGGAGTCGCGCTCACCCATTggg                                                                                                                              >  1:839161/4‑139 (MQ=255)

      cgAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggg                                                                                                                              <  1:1036396/139‑1 (MQ=255)

      cgAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggg                                                                                                                              <  2:303057/139‑1 (MQ=255)

        agaTTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCAtt                                                                                                                                 <  1:898126/134‑1 (MQ=255)

        agaTTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCAtt                                                                                                                                 >  2:898126/1‑134 (MQ=255)

                     tttGGCTAAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCggg                                                                                                               <  1:162822/139‑1 (MQ=255)

                       tGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTa                                                                                                             <  1:194228/139‑1 (MQ=255)

                        ggCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCg                                                                                                                 <  1:672231/134‑1 (MQ=255)

                        ggCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCg                                                                                                                 >  2:672231/1‑134 (MQ=255)

                         gCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGa                                                                                                           >  2:574907/1‑139 (MQ=255)

                                   cGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGc                                                                                                 >  1:407510/1‑139 (MQ=255)

                                            aGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGcc                                                                                        <  1:577234/139‑1 (MQ=255)

                                                      gTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTa                                                                              <  1:574907/139‑1 (MQ=255)

                                                         tCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAAt                                                                                    <  2:1096758/130‑1 (MQ=255)

                                                         tCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAAt                                                                                    >  1:1096758/1‑130 (MQ=255)

                                                              ttCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTg                                                                      >  2:33399/1‑139 (MQ=255)

                                                                 ggtcggtTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGaa                                                                   <  1:322490/139‑1 (MQ=255)

                                                                   tcggtTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACa                                                                 >  1:919884/1‑139 (MQ=255)

                                                                   tcggtTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACa                                                                 >  1:740711/1‑139 (MQ=255)

                                                                                agcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAAGCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAg                                                    <  2:839161/139‑1 (MQ=255)

                                                                                 gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGcc                                                                                                                  <  2:703942/76‑1 (MQ=255)

                                                                                 gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCg                                                                                                                 >  1:931965/1‑77 (MQ=255)

                                                                                 gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCg                                                                                                                 <  2:931965/77‑1 (MQ=255)

                                                                                 gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCACTCGCGCTAACCCATTGGGAGTAGTTAAGcc                                                                                                                  >  1:703942/1‑76 (MQ=255)

                                                                                  ccGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCa                                                  <  2:407510/139‑1 (MQ=255)

                                                                                    gAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAgg                                                <  1:739937/139‑1 (MQ=255)

                                                                                            aaGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggg                                                                                                                              <  1:222522/53‑1 (MQ=255)

                                                                                            aaGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggg                                                                                                                              >  2:222522/1‑53 (MQ=255)

                                                                                             aGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAg                                                    >  1:306359/1‑126 (MQ=255)

                                                                                             aGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAg                                                    <  2:306359/126‑1 (MQ=255)

                                                                                               cTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGAtgg                                     >  2:273685/1‑139 (MQ=255)

                                                                                                  aTCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTa                                                                              <  1:913427/95‑1 (MQ=255)

                                                                                                  aTCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTa                                                                              >  2:913427/1‑95 (MQ=255)

                                                                                                  aTCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGAtggtgg                                  >  2:1124691/1‑139 (MQ=255)

                                                                                                   tCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggg                                                                                                                              >  2:949383/1‑46 (MQ=255)

                                                                                                   tCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggg                                                                                                                              <  1:949383/46‑1 (MQ=255)

                                                                                                            tgatgaATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTg                                           >  1:574265/1‑120 (MQ=255)

                                                                                                            tgatgaATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTg                                           <  2:574265/120‑1 (MQ=255)

                                                                                                                   tataATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAacg                 <  2:740711/139‑1 (MQ=255)

                                                                                                                    ataATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAacga                <  2:919884/139‑1 (MQ=255)

                                                                                                                        tCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCa            >  1:1190154/1‑139 (MQ=255)

                                                                                                                          agcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAACCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACt          >  2:324736/1‑139 (MQ=255)

                                                                                                                           gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACGCTTCTGGAACAATTTTTTGATGAGCAGGCATTg                                           >  1:698386/1‑105 (MQ=255)

                                                                                                                           gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTg                                           <  2:698386/105‑1 (MQ=255)

                                                                                                                            tagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACttt        >  1:762161/2‑139 (MQ=255)

                                                                                                                             agTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAAAAACGACGCACTTTg       >  2:815836/1‑139 (MQ=255)

                                                                                                                              gTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTgg      >  1:464646/1‑139 (MQ=255)

                                                                                                                              gTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTgg      >  1:1193908/1‑139 (MQ=255)

                                                                                                                              gTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTgg      >  2:1002325/1‑139 (MQ=255)

                                                                                                                                 gcgcTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAAt                                                                                    >  1:175245/1‑58 (MQ=255)

                                                                                                                                 gcgcTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAAt                                                                                    <  2:175245/58‑1 (MQ=255)

                                                                                                                                 gcgcTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGttt   >  1:365841/1‑139 (MQ=255)

                                                                                                                                  cgcTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAACAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGtttt  >  1:1130998/1‑139 (MQ=255)

TAAACGCGAGATTAATCCGGATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGTTTT  >  NC_000913/4018625‑4018893

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A