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
A8 F1 I2 R1	765	53.2	2691310	93.4%	2513683	103.8

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%	204.8 / NA	63	476 (TAG→TAA)	rmuC	DNA recombination protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (32/31); total (32/31)

GATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGTTTT  >  NC_000913/4018644‑4018893

gATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGTCg                                                                                                                 >  2:859906/1‑139 (MQ=255)

    tGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTa                                                                                                             <  1:903076/139‑1 (MQ=255)

               gCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTtgg                                                                                                                              <  1:809976/111‑1 (MQ=255)

               gCGGTGAGCCAGGATGAAGAGCATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCATCAGTCGCGCTAACCCAtttgg                                                                                                                              >  2:809976/1‑108 (MQ=255)

                    gAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCg                                                                                             <  2:372527/139‑1 (MQ=255)

                     aGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGa                                                                                            >  1:1002138/1‑139 (MQ=255)

                             tGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCAtt                                                                                                                                 >  2:355612/1‑94 (MQ=255)

                             tGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCAtt                                                                                                                                 <  1:355612/94‑1 (MQ=255)

                              gAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGTCGGGTAGAAATCTAGGGCATCGACGCCCAATc                                                                                   <  1:859906/139‑1 (MQ=255)

                              gAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATc                                                                                   <  1:75680/139‑1 (MQ=255)

                                     aTCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGa                                                                                            >  2:234202/1‑123 (MQ=255)

                                     aTCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGa                                                                                            <  1:234202/123‑1 (MQ=255)

                                      tCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATc                                                                                   <  1:1286004/131‑1 (MQ=255)

                                      tCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATc                                                                                   >  2:1286004/1‑131 (MQ=255)

                                         aCTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGagtag                                                                                                                         <  1:1105461/90‑1 (MQ=255)

                                         aCTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGagtag                                                                                                                         >  2:1105461/1‑90 (MQ=255)

                                         aCTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGc                                                                                                                   <  2:1075039/96‑1 (MQ=255)

                                         aCTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGc                                                                                                                   >  1:1075039/1‑96 (MQ=255)

                                           ttCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTg                                                                      >  2:1138846/1‑139 (MQ=255)

                                                   gtTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCa                                                                                      >  2:1191498/1‑115 (MQ=255)

                                                   gtTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCa                                                                                      <  1:1191498/115‑1 (MQ=255)

                                                       cGGGGCAGCCGAATGATGAAGCTTAGCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAAtttttt                                                          <  1:868410/139‑1 (MQ=255)

                                                         gAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTtga                                                        >  1:504745/1‑139 (MQ=255)

                                                             agcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAg                                                    <  2:504745/139‑1 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCAtt                                                                                                                                 <  1:289391/61‑1 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCAtt                                                                                                                                 >  2:289391/1‑61 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggg                                                                                                                              <  2:14346/64‑1 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggg                                                                                                                              >  1:14346/1‑64 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTggaa                                                                                                                             >  2:877064/1‑63 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGa                                                                                                                             <  1:877064/65‑1 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAg                                                                                                                    >  1:1182519/1‑74 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAg                                                                                                                    <  2:1182519/74‑1 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCa                                                                                      <  2:626890/104‑1 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCa                                                                                      >  1:626890/1‑104 (MQ=255)

                                                              gcCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGc                                                   <  1:190378/139‑1 (MQ=255)

                                                                         aaGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTgaga                                        <  2:1002138/139‑1 (MQ=255)

                                                                         aaGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTgaga                                        <  2:1252867/139‑1 (MQ=255)

                                                                         aaGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTgaga                                        >  2:1184298/1‑139 (MQ=255)

                                                                              tATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTa                                                                                                             >  1:824623/1‑65 (MQ=255)

                                                                              tATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTa                                                                                                             <  2:824623/65‑1 (MQ=255)

                                                                                tCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCggg                                                                                                               <  2:1129560/61‑1 (MQ=255)

                                                                                tCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCggg                                                                                                               >  1:1129560/1‑61 (MQ=255)

                                                                                tCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACa                                                                 <  1:182149/107‑1 (MQ=255)

                                                                                tCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACa                                                                 >  2:182149/1‑107 (MQ=255)

                                                                                tCAACGCGATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGa                                 <  1:1138846/139‑1 (MQ=255)

                                                                                     gcgATGATGAATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGt                            >  2:472240/1‑139 (MQ=255)

                                                                                         tgatgaATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAg                                                    <  2:907944/111‑1 (MQ=255)

                                                                                         tgatgaATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGc                                                   <  2:612548/112‑1 (MQ=255)

                                                                                         tgatgaATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGc                                                   >  1:612548/1‑112 (MQ=255)

                                                                                         tgatgaATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGAAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAg                                                    >  1:907944/1‑111 (MQ=255)

                                                                                            tgaATATAATCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGa                     >  1:159930/1‑139 (MQ=255)

                                                                                                     tCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTc                           >  1:1322335/1‑124 (MQ=255)

                                                                                                     tCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTc                           <  2:1322335/124‑1 (MQ=255)

                                                                                                     tCAGCAGTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCa            >  2:1273339/1‑139 (MQ=255)

                                                                                                        gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACg                                                                                          >  2:921135/1‑58 (MQ=255)

                                                                                                        gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACg                                                                                          <  1:921135/58‑1 (MQ=255)

                                                                                                        gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACtt         >  2:1282828/1‑139 (MQ=255)

                                                                                                        gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACtt         >  1:759209/1‑139 (MQ=255)

                                                                                                        gcagTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATC‑AGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACttt        >  2:1017699/1‑139 (MQ=255)

                                                                                                          agTCGCGCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTg       <  2:159930/139‑1 (MQ=255)

                                                                                                             cgcgCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCa                                                                                      >  2:758842/1‑57 (MQ=255)

                                                                                                             cgcgCTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCa                                                                                      <  1:758842/57‑1 (MQ=255)

                                                                                                               cgcTAACCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGtttt  >  1:1067108/1‑139 (MQ=255)

GATTTGGCTGAACAGGCGGTGAGCCAGGATGAAGAGTATCGACTTCGGTCGGTTCCGGAGCAGCCGAATGATGAAGCTTATCAACGCGATGATGAATATAATCAGCAGTCGCGCTAGCCCATTGGGAGTAGTTAAGCCGGGTAGAAATCTAGGGCATCGACGCCCAATCTGTTACACTTCTGGAACAATTTTTTGATGAGCAGGCATTGAGATGGTGGATAAGTCACAAGAAACGACGCACTTTGGTTTT  >  NC_000913/4018644‑4018893

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