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
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,766,316	G→A	1378 (TAG→TAA)	rhsA →	Rhs protein with putative toxin 55 domain, putative polysaccharide synthesis/export protein, putative neighboring cell growth inhibitor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,766,316	0	G	A	100.0%	183.1 / NA	57	1378 (TAG→TAA)	rhsA	Rhs protein with putative toxin 55 domain, putative polysaccharide synthesis/export protein, putative neighboring cell growth inhibitor
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (26/31); total (26/31)

AAAAAACCCGACAGATGTGACGTACTTCAGGAACTAATTGATTGTGGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAGCCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCACAATTCC  >  NC_000913/3766185‑3766447

aaaaaaCCCGACAGATGTGACGTACTTCAGGAACTAATTGATTGTGGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTtgt                                                                                                                              <  1:222548/139‑1 (MQ=255)

 aaaaaCCCGACAGATGTGACGTACTTCAGGAACTAATTGATTGTGGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTtgtg                                                                                                                             <  2:64924/139‑1 (MQ=255)

   aaaCCCGACAGATGTGACGTACTTCAGGAACTAATTGATTGTGGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGa                                                                                                                           <  2:339077/139‑1 (MQ=255)

             gATGTGACGTACTTCAGGAACTAATTGATTGTGGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCa                                                                                                                 <  2:108131/139‑1 (MQ=255)

                  gACGTACTTCAGGAACTAATTGATTGTGGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTc                                                                                                            <  1:540432/139‑1 (MQ=255)

                                 cTAATTGATTGTGGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTtgtg                                                                                                                             <  2:1091693/107‑1 (MQ=255)

                                 cTAATTGATTGTGGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTtgtg                                                                                                                             >  1:1091693/1‑107 (MQ=255)

                                   aaTTGATTGTGGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCagaaaa                                                                                           >  1:194637/1‑139 (MQ=255)

                                          tgtgGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGGTAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGc                                                                                    >  1:735172/1‑139 (MQ=255)

                                          tgtgGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGc                                                                                    <  2:106028/139‑1 (MQ=255)

                                              gtgATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGt                                                                                >  1:51679/1‑139 (MQ=255)

                                                 atatTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTaaa                                                                             <  2:334171/139‑1 (MQ=255)

                                                     tAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGt                                                                         <  2:194637/139‑1 (MQ=255)

                                                      aGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGa                                                                                                                           >  1:305782/1‑88 (MQ=255)

                                                      aGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGa                                                                                                                           <  2:305782/88‑1 (MQ=255)

                                                        tGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCa                                                                                                                 >  2:68176/1‑96 (MQ=255)

                                                        tGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCa                                                                                                                 <  1:68176/96‑1 (MQ=255)

                                                        tGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATg                                                                      >  2:757667/1‑139 (MQ=255)

                                                         gCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATgg                                                                     >  1:1009779/1‑139 (MQ=255)

                                                         gCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATgg                                                                     >  1:260655/1‑139 (MQ=255)

                                                           tAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCa                                                                                                                 >  2:441482/1‑93 (MQ=255)

                                                           tAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCa                                                                                                                 <  1:441482/93‑1 (MQ=255)

                                                             aaGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCagaaaagaaa                                                                                       <  1:935922/117‑1 (MQ=255)

                                                             aaGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCagaaaagaaa                                                                                       >  2:935922/1‑117 (MQ=255)

                                                             aaGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCTAGTAAAGAATATGGTTta                                                                 >  1:748179/1‑139 (MQ=255)

                                                              aGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTtat                                                                <  1:332127/139‑1 (MQ=255)

                                                                 tGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTtatata                                                             >  2:906774/1‑139 (MQ=255)

                                                                  gCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATCACCCTTTTGGa                                                                                                                           <  2:646078/76‑1 (MQ=38)

                                                                  gCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGa                                                                                                                           >  1:646078/1‑76 (MQ=255)

                                                                  gCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAatacatac                                                                                                  <  2:575960/101‑1 (MQ=255)

                                                                  gCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAatacatac                                                                                                  >  1:575960/1‑101 (MQ=255)

                                                                   cAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAAt                                                           <  2:120803/139‑1 (MQ=255)

                                                                   cAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAAt                                                           <  1:1018709/139‑1 (MQ=255)

                                                                           acacaGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTaa                                                   <  1:757667/139‑1 (MQ=255)

                                                                                       tGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGt                                                                         <  2:7199/105‑1 (MQ=255)

                                                                                       tGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGt                                                                         >  1:7199/1‑105 (MQ=255)

                                                                                       tGGAATTGTCGTCACTCCAGACAGTCAAACAATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAatga                                       >  1:815646/1‑139 (MQ=255)

                                                                                              gtcgtcACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTg                                                                                                                   <  2:767309/56‑1 (MQ=255)

                                                                                              gtcgtcACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTg                                                                                                                   >  1:767309/1‑56 (MQ=255)

                                                                                               tcgtcACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCaga                                                                                              >  2:14439/1‑76 (MQ=255)

                                                                                               tcgtcACTCCAGACAGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCaga                                                                                              <  1:14439/76‑1 (MQ=255)

                                                                                                        cAGACAGTCAAACAATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAATGATGATGAATTATTTCGCt                      <  2:815646/139‑1 (MQ=255)

                                                                                                             aGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCagaaaaga                                                                                         <  2:523325/67‑1 (MQ=255)

                                                                                                             aGTCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCagaaaaga                                                                                         >  1:523325/1‑67 (MQ=255)

                                                                                                               tCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCa                                                                                                                 >  2:324730/1‑41 (MQ=255)

                                                                                                               tCAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCa                                                                                                                 <  1:324730/41‑1 (MQ=255)

                                                                                                                cAAACGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTtgat              >  1:22707/1‑139 (MQ=255)

                                                                                                                  aaCGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATgg                                                                     <  2:14845/82‑1 (MQ=255)

                                                                                                                  aaCGATAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATgg                                                                     >  1:14845/1‑82 (MQ=255)

                                                                                                                       tAAAAAAAGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATcaca       <  2:44684/139‑1 (MQ=255)

                                                                                                                         aaaaaaGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGt                                                                         <  2:55193/71‑1 (MQ=255)

                                                                                                                         aaaaaaGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGt                                                                         >  1:55193/1‑71 (MQ=255)

                                                                                                                         aaaaaaGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAATGATGATGAATTATTTCg                        >  1:874097/1‑120 (MQ=255)

                                                                                                                         aaaaaaGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAATGATGATGAATTATTTCg                        <  2:874097/120‑1 (MQ=255)

                                                                                                                         aaaaaaGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCACAAt     >  2:103498/1‑139 (MQ=255)

                                                                                                                            aaaGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCACAATTcc  <  2:260655/139‑1 (MQ=255)

                                                                                                                            aaaGATAACCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCACAATTcc  <  2:1009779/139‑1 (MQ=255)

AAAAAACCCGACAGATGTGACGTACTTCAGGAACTAATTGATTGTGGTGATATTAGTGCTAAAGATGCAAAAAGCACACAGAAAGCCTGGAATTGTCGTCACTCCAGACAGTCAAACGATAAAAAAAGATAGCCCTTGTGGAGGTTCCTGCAATGTCAAATACATACCAGAAAAGAAAGGCAAGTAAAGAGTATGGTTTATATAATCAATGTAAGAAACTAAATGATGATGAATTATTTCGCTTACTTGATGATCACAATTCC  >  NC_000913/3766185‑3766447

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A