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 F50 I1 R1	300	54.7	1718999	98.4%	1691495	149.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,002,538	A→G	V244V (GTA→GTG)	elfG →	putative fimbrial‑like adhesin protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,002,538	0	A	G	98.0%	167.3 / ‑6.8	50	V244V (GTA→GTG)	elfG	putative fimbrial‑like adhesin protein
Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (29/20); minor base T (1/0); total (30/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACGACTACAGGTACACCGGTTTTAGTGTATTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTAGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATCCCCAGGCGATTAAGACGTCACGTC  >  NC_000913/1002404‑1002683

aCGACTACAGGTACACCGGTTTTAGTGTATTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTg                                                                                                                                   <  2:711864/151‑1 (MQ=255)

             cacCGGTTTTAGTGTATTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGc                                                                                                                      >  2:744973/1‑151 (MQ=255)

             cacCGGTTTTAGTGTATTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGc                                                                                                                      <  1:437365/151‑1 (MQ=255)

              acCGGTTTTAGTGTATTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGc                                                                                                                      >  2:656834/1‑150 (MQ=255)

                      tAGTGTATTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTg                                                                                                              <  2:566569/150‑1 (MQ=255)

                       aatgtATTACCTGTCTGGTACGATCAATTCAATTGGGTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGGTGATTTAGTTGATGTCTTAGCTGCCAATTTTCGTGTTGTTGGGCATAAAACTCTTGGGGCCAGAACGGCAGAACTTg                                                                                                              >  1:830693/3‑149 (MQ=255)

                       aGTGTATTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGc                                                                                                             <  2:440833/150‑1 (MQ=255)

                          gtATTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAAt                                                                                                          <  2:488039/150‑1 (MQ=255)

                          gtATTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAAt                                                                                                          <  1:701904/150‑1 (MQ=255)

                            aTTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTcc                                                                                                       >  1:184508/1‑151 (MQ=255)

                              tACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTcc                                                                                                       >  2:615967/1‑149 (MQ=255)

                               aCCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGt                                                                                                    >  2:57934/1‑151 (MQ=255)

                               aCCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGt                                                                                                    >  2:207545/1‑151 (MQ=255)

                                ccTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTc                                                                                                   >  1:795120/1‑151 (MQ=255)

                                 cTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTc                                                                                                   >  2:24583/1‑150 (MQ=255)

                                  tGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTc                                                                                                   >  1:161755/1‑149 (MQ=255)

                                   gTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAgg                                                                                                >  1:726772/1‑151 (MQ=255)

                                   gTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAgg                                                                                                >  2:727481/1‑151 (MQ=255)

                                        gTACGGACAATCCGCATGGCGCAGGGTCCGTCATTGCCGGAGAGACCCTTGAAGATGATTTAGGCGATGTCTTCGCTGACAGTTTCCGTGTTGTGGGGCATAAACCTGTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGgtgga                                                                                            >  1:359627/1‑148 (MQ=255)

                                            gATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACg                                                                                       >  2:355624/1‑151 (MQ=255)

                                             aTCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACgg                                                                                      >  1:479474/1‑151 (MQ=255)

                                                aaTTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGaa                                                                                   <  2:76252/151‑1 (MQ=255)

                                                aaTTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGa                                                                                    >  2:397600/1‑150 (MQ=255)

                                                                   ccGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGt                                                                <  2:425745/151‑1 (MQ=255)

                                                                    cGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTc                                                               <  2:295850/151‑1 (MQ=255)

                                                                     gTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTc                                                               >  2:393225/1‑150 (MQ=255)

                                                                          tGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCt                                                          >  2:181335/1‑150 (MQ=255)

                                                                           gCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTg                                                         <  1:25923/150‑1 (MQ=255)

                                                                            ccGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAg                                                       <  2:225737/151‑1 (MQ=255)

                                                                                  agaCAATGGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGAGTAGTTAATGTCAACCTGAGTCTGAc                                                 <  1:314096/151‑1 (MQ=255)

                                                                                     cAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACgg                                               >  2:185534/1‑150 (MQ=255)

                                                                                     cAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGc                                              <  1:243744/151‑1 (MQ=255)

                                                                                           aaGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACca                                         >  1:478112/1‑150 (MQ=255)

                                                                                           aaGTTGATTTAGGTGATGTCTTCGCTGCCAAGTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACcac                                        <  1:9889/151‑1 (MQ=255)

                                                                                            aGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACcaca                                       <  2:317530/151‑1 (MQ=255)

                                                                                                 aTTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGAccc                                  >  2:821449/1‑151 (MQ=255)

                                                                                                   ttAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGAcccc                                 >  2:231882/1‑150 (MQ=255)

                                                                                                    tAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGAcccc                                 >  1:345161/1‑149 (MQ=255)

                                                                                                      ggTGATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCt                             >  2:9139/1‑151 (MQ=255)

                                                                                                         gATGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGCCTGACGGCAACCACAGACCCCAGCTATc                          >  2:608392/1‑151 (MQ=255)

                                                                                                          aTGTCTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATcc                         <  2:482443/151‑1 (MQ=255)

                                                                                                              cTTCGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATcccc                       >  1:504409/1‑149 (MQ=255)

                                                                                                                 cGCTGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATCCCCAGGCg                  <  1:49426/151‑1 (MQ=255)

                                                                                                                    tGCCAATTTCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATCCCCAGGCGAtt               >  2:277775/1‑151 (MQ=255)

                                                                                                                           ttCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATCCCCAGGCGATTAAGacgt        >  2:258443/1‑151 (MQ=255)

                                                                                                                            tCCGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATCCCCAGGCGATTAAGacgt        <  2:637855/150‑1 (MQ=255)

                                                                                                                             ccGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATCCCCAGGCGATTAAGacgtc       <  1:370479/150‑1 (MQ=255)

                                                                                                                             ccGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATCCCCAGGCGATTAAGacgtc       <  1:160600/150‑1 (MQ=255)

                                                                                                                              cGTGTTGTGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATCCCCAGGCGATTAAGacgtcac     >  1:196109/1‑151 (MQ=255)

                                                                                                                                 gttgtGGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATCCCCAGGCGATTAAGacgtcacgtc  >  2:456118/1‑151 (MQ=255)

ACGACTACAGGTACACCGGTTTTAGTGTATTACCTGTCTGGTACGATCAATTCACTTGGCTCATGTTCCGTCAATGCCGGAGAGACAATTGAAGTTGATTTAGGTGATGTCTTCGCTGCCAATTTCCGTGTTGTAGGGCATAAACCTCTTGGGGCCAGAACGGCAGAACTTGCAATTCCAGTCAGGTGTAACACGGGAAACGCGGGATTAGTTAATGTCAACCTGAGTCTGACGGCAACCACAGACCCCAGCTATCCCCAGGCGATTAAGACGTCACGTC  >  NC_000913/1002404‑1002683

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A