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
A11 F1 I1 R1	757	76.1	3598070	93.4%	3360597	108.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,612,289	G→A	54 (TAG→TAA)	ytjA →	uncharacterized protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,612,289	0	G	A	100.0%	162.1 / NA	50	54 (TAG→TAA)	ytjA	uncharacterized protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (25/25); total (25/25)

TAATCGCCGCCGCACTTGGGTTTGGTGGTCTGGCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAGATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGAAGGCAGAGGTGGGGCAGCG  >  NC_000913/4612165‑4612421

tAATCGCCGCCGCACTTGGGTTTGGTGGTCTGGCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAAttt                                                                                                                                  <  1:1120927/129‑1 (MQ=255)

tAATCGCCGCCGCACTTGGGTTTGGTGGTCTGGCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTGGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAAttt                                                                                                                                  >  2:1120927/1‑129 (MQ=255)

   tCGCCGCCGCACTTGGGTTTGGTGGTCTGGCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGa                                                                                                                     <  1:1281255/139‑1 (MQ=255)

                                gCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGAc                                                                                        >  1:613699/1‑139 (MQ=255)

                                     tACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGa                                                                                         >  2:543045/1‑133 (MQ=255)

                                     tACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGa                                                                                         <  1:543045/133‑1 (MQ=255)

                                     tACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCt                                                                                   >  1:1578193/1‑139 (MQ=255)

                                        cGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATcc                                                                                                          <  2:1363548/113‑1 (MQ=255)

                                        cGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATcc                                                                                                          >  1:1363548/1‑113 (MQ=255)

                                         gCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTg                                                                               <  2:613699/139‑1 (MQ=255)

                                          cTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTCGc                                                                                    >  2:956228/1‑133 (MQ=255)

                                          cTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTCGc                                                                                    <  1:956228/133‑1 (MQ=255)

                                             cAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGa                                                                                                                     >  2:891383/1‑97 (MQ=255)

                                             cAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGa                                                                                                                     <  1:891383/97‑1 (MQ=255)

                                                   cAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGc                                                                     <  2:1578193/139‑1 (MQ=255)

                                                   cAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGc                                                                     <  2:1631906/139‑1 (MQ=255)

                                                     gCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGc                                                                                                     >  1:34394/1‑105 (MQ=255)

                                                     gCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGc                                                                                                     <  2:34394/105‑1 (MQ=255)

                                                     gCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGa                                                                   >  1:1505115/1‑139 (MQ=255)

                                                                cTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGA‑CCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGaata                                                                >  1:448931/1‑130 (MQ=255)

                                                                cTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGA‑CCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGaata                                                                <  2:448931/130‑1 (MQ=255)

                                                                cTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCAAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTg                                                        >  1:131938/1‑139 (MQ=255)

                                                                   tGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGt                                                     <  1:23905/139‑1 (MQ=255)

                                                                   tGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCAAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGt                                                     <  2:131938/139‑1 (MQ=255)

                                                                    gtcgtcGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGCCTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGtt                                                    >  1:381429/1‑139 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAAttt                                                                                                               >  1:1190264/1‑57 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAAttt                                                                                                               >  2:402466/1‑57 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAAttt                                                                                                               <  1:402466/57‑1 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAAttt                                                                                                               <  2:1190264/57‑1 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATcc                                                                                                          >  2:572926/1‑62 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATcc                                                                                                          <  1:572926/62‑1 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTa                                                                       >  1:1361710/1‑97 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTa                                                                       <  2:1361710/97‑1 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGc                                                                     <  1:1394455/99‑1 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGc                                                                     >  1:1089735/1‑99 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGc                                                                     <  2:1089735/99‑1 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGc                                                                     >  2:1394455/1‑99 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGa                                                                   <  1:1380248/101‑1 (MQ=255)

                                                                                           ggTGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGa                                                                   >  2:1380248/1‑101 (MQ=255)

                                                                                             tGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGt                                             >  1:740076/1‑121 (MQ=255)

                                                                                             tGAGTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGt                                             <  2:740076/121‑1 (MQ=255)

                                                                                                gTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCa                                                                                              >  2:501936/1‑69 (MQ=255)

                                                                                                gTTTGTTCATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCa                                                                                              <  1:501936/69‑1 (MQ=255)

                                                                                                       cATGGGCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGAAGGc                 <  2:16460/139‑1 (MQ=255)

                                                                                                          gggCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGAAGGCaga              >  1:327343/1‑139 (MQ=255)

                                                                                                           ggCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAAttt                                                                                                               >  1:1664555/1‑41 (MQ=255)

                                                                                                           ggCCGAAAACGACCCTAAATTTCAGACCATTAAGAAAAttt                                                                                                               <  2:1664555/41‑1 (MQ=255)

                                                                                                                      aCCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTgg                                                                                     <  2:1504304/56‑1 (MQ=255)

                                                                                                                      aCCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTgg                                                                                     >  1:1504304/1‑56 (MQ=255)

                                                                                                                      aCCCTAAATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGAAGGCAGAGGTGGGGCAGCg  >  2:822181/1‑139 (MQ=255)

TAATCGCCGCCGCACTTGGGTTTGGTGGTCTGGCCGGTACCGCTGCAGGCGCAGCTAAAATTGTCTTTGTCGTCGGGATTATTCTGTTCCTGGTGAGTTTGTTCATGGGCCGAAAACGACCCTAGATTTCAGACCATTAAGAAAATTTTATCCAAAGCCAGTCCAGCGGACTGGCTTTTGCGGTTTTAGCGAATAATAAATTGCGTTACTTTGTCATTCTTTCACAACAAAAACAGGAAGGCAGAGGTGGGGCAGCG  >  NC_000913/4612165‑4612421

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A