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
A4 F195 I0 R2	483	52.1	1908604	98.1%	1872340	138.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,111,818	G→A	9.3%	R319H (CGC→CAC)	opgH →	OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,111,818	0	G	A	9.3%	125.7 / 4.4	43	R319H (CGC→CAC)	opgH	OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist
Reads supporting (aligned to +/- strand): ref base G (14/25); new base A (2/2); total (16/27)
Fisher's exact test for biased strand distribution p-value = 6.21e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.92e-01

GAATGCCAAACACTTTGATGTCTACATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCGGGCTGGTGCGCCTGATGGAAGCCAACCCGAAC  >  NC_000913/1111681‑1111966

gAATGCCAAACACTTTGATGTCTACATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGc                                                                                                                                           <  2:282806/149‑1 (MQ=255)

      cAAACACTTTGATGTCTACATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTaaaa                                                                                                                                     >  2:419215/1‑149 (MQ=255)

        aaCACTTTGATGTCTACATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTCGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGc                                                                                                                                   <  3:373012/149‑1 (MQ=255)

           acTTTGATGTCTACATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGt                                                                                                                                <  2:477703/149‑1 (MQ=255)

             ttttATGTCTACATTCTTAGTGACAGTTATAACCCGGATATCTCCGTCGCAGAGCGAAAAGCCTGGATGGAGCTTAACGCTGAAGTCGGTAGCCAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTCGAAGCGGTaa                                                                                                                              <  4:63087/149‑1 (MQ=255)

             tttGATGTCTACATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTaa                                                                                                                              <  4:149036/149‑1 (MQ=255)

              ttGATGTCTACATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGACGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAat                                                                                                                             <  2:425936/149‑1 (MQ=255)

                      tACATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGa                                                                                                                     >  4:18826/1‑149 (MQ=255)

                      tACATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGa                                                                                                                     <  2:152346/149‑1 (MQ=255)

                        cATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACt                                                                                                                   <  3:217695/149‑1 (MQ=255)

                           tCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCt                                                                                                                <  1:93282/149‑1 (MQ=255)

                                      gTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTgg                                                                                                     <  3:130949/149‑1 (MQ=255)

                                            aCCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGc                                                                                               >  4:72006/1‑149 (MQ=255)

                                            aCCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGc                                                                                               <  2:347499/149‑1 (MQ=255)

                                             cccGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGaa                                                                                                                                             <  4:224890/102‑1 (MQ=255)

                                             cccGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGaa                                                                                                                                             >  3:224890/1‑102 (MQ=255)

                                              ccGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTGTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCa                                                                                             >  4:389954/1‑149 (MQ=255)

                                               cGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAg                                                                                            >  1:335315/1‑149 (MQ=255)

                                                          gTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACAt                                                                                 <  2:335315/149‑1 (MQ=255)

                                                                gagCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGt                                                                                                                                <  3:76688/96‑1 (MQ=255)

                                                                gagCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGt                                                                                                                                >  4:76688/1‑96 (MQ=255)

                                                                      aaaGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGa                                                                     >  4:425721/1‑149 (MQ=255)

                                                                             ggatggaGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCACCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGAc                                                              >  4:208507/1‑149 (MQ=255)

                                                                              gatggaGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACt                                                             >  3:157547/1‑149 (MQ=255)

                                                                               atggaGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTc                                                            >  1:42992/1‑149 (MQ=255)

                                                                                tggaGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCg                                                           <  1:419215/149‑1 (MQ=255)

                                                                                     cTTATTGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGa                                                                     >  3:348615/1‑134 (MQ=255)

                                                                                     cTTATTGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGa                                                                     <  4:348615/134‑1 (MQ=255)

                                                                                           gCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCgg                                                >  1:260020/1‑149 (MQ=255)

                                                                                             tGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTg                                              <  3:368371/149‑1 (MQ=255)

                                                                                              gAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGa                                             <  1:115230/149‑1 (MQ=255)

                                                                                                 gTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGAttg                                          >  3:457237/1‑149 (MQ=255)

                                                                                                 gTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCACCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGt                                               <  4:5249/144‑1 (MQ=255)

                                                                                                 gTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCACCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGt                                               >  3:5249/1‑144 (MQ=255)

                                                                                                                cAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCGGGCTGGt                           <  1:377454/149‑1 (MQ=255)

                                                                                                                 aGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCgg                                 <  1:161053/142‑1 (MQ=255)

                                                                                                                 aGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCgg                                 >  2:161053/1‑142 (MQ=255)

                                                                                                                  gATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCGGGCTGGTgc                         <  3:389954/149‑1 (MQ=255)

                                                                                                                      ttCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCGGGCTGGTGCGCCt                     <  4:392651/149‑1 (MQ=255)

                                                                                                                        cTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCGGGCTGGTGCGCCTGa                   <  4:160186/149‑1 (MQ=255)

                                                                                                                          aTCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCGAGTACAGCTACATGGTAGTGCTGGATGCTGACTCGGTAATGCCCGGTGATTGTTTGTGCGGGCTGGTGCGCCTGATg                 <  3:296008/149‑1 (MQ=255)

                                                                                                                             gccgccgccGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCGGGCTGGTGCGCCTGATGGaa              <  4:157547/149‑1 (MQ=255)

                                                                                                                             gccgccgccGTCACCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCGGGCTGGTGCGCCTGATGGaa              <  3:208507/149‑1 (MQ=255)

                                                                                                                                         gccgcGTGAAGAGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCGGGCTGGTGCGCCTGATGGAAGCCAACCCGAAc  >  1:354124/1‑149 (MQ=255)

GAATGCCAAACACTTTGATGTCTACATTCTTAGTGACAGTTATAACCCGGATATCTGCGTCGCAGAGCAAAAAGCCTGGATGGAGCTTATCGCTGAAGTCGGTGGCGAAGGTCAGATTTTCTATCGCCGCCGCCGTCGCCGCGTGAAGCGTAAAAGCGGTAATATCGATGACTTCTGCCGTCGCTGGGGCAGCCAGTACAGCTACATGGTGGTGCTGGATGCTGACTCGGTAATGACCGGTGATTGTTTGTGCGGGCTGGTGCGCCTGATGGAAGCCAACCCGAAC  >  NC_000913/1111681‑1111966

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A