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
A2 F107 I1 R1	11	42.4	1464626	94.8%	1388465	142.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,132,787	A→C	I204S (ATC→AGC)	wcaA ←	putative glycosyl transferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,132,787	0	A	C	94.1%	90.1 / NA	34	I204S (ATC→AGC)	wcaA	putative glycosyl transferase
Reads supporting (aligned to +/- strand): ref base A (2/0); new base C (17/15); total (19/15)
Fisher's exact test for biased strand distribution p-value = 4.92e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GGATCTGGTAGAGGGTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGATCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATCGAACAAACACTCTTTGAAACGCCATGCCCAGGTAAAGACC  >  NC_000913/2132647‑2132921

ggATCTGGTAGAGGGTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGCCTTTTTTCGGTGACGAGGTCCTCTGCATATCAACGTGAATAATAAGCAAGAta                                                                                                                                      >  1:32841/1‑142 (MQ=255)

agATATGGTAGGGGGTAAACAGCTGATATGCGTTGCTGGCGCGGTCGAATTTGTCCTTGTGCTTGCTGTTAAAGTGGAAGTACCCGGACAATTTTTTCGGTGACGAGGAGATCGGCATTTCACCGTGATTGATATGCAGGCTc                                                                                                                                      <  1:296650/142‑1 (MQ=255)

 gATCTGGTAGAGGGTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGCTCTGCATTTCACCGTGATTGATATGCAGGAGCt                                                                                                                                     >  1:658398/1‑143 (MQ=255)

      ggTAGAGGTTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTc                                                                                                                                <  1:84555/143‑1 (MQ=255)

      ggTAGAGGGTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGTTCTGCATTCCACCGTGATCGATATGCAGGCCCTGCGTc                                                                                                                                >  2:150323/1‑143 (MQ=255)

       gTAGAGGGTAAACGGCGGATCGTGTTTGCTGGCGCGGTCGAATGTGTCTTTGTTCTTGCGGTAAAAGGGGAAGTTCTCGGTGAATTTTTTCGGGGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCg                                                                                                                               <  2:489867/143‑1 (MQ=255)

       gTAGAGGGTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCg                                                                                                                               <  1:622407/143‑1 (MQ=255)

           agGGTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTTAACTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCctc                                                                                                                           >  1:570175/1‑143 (MQ=255)

             ggTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCtctt                                                                                                                         <  1:404192/143‑1 (MQ=255)

                   cggcggagagtgtgtGCTGGCGCGGTCGAATTTGTCTGTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACtt                                                                                                                   <  2:693998/129‑1 (MQ=255)

                    aGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTGTACttt                                                                                                                  >  2:546320/1‑143 (MQ=255)

                                     ggCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTATTCGGTGACGAGGTGATCTGCATTTCACCGTGATGGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGtccc                                                                                                 >  1:206625/1‑140 (MQ=255)

                                       cgcgGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGtcctcc                                                                                               >  2:278925/1‑143 (MQ=255)

                                           gTCTAATTTGTCTTTGTGCTTTCTGGAAAAGTGCAAGTACCCGGAGAATTTTTTCGGTGACGATGTGATCTGCCTTTCACTGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTccacca                                                                                           <  2:291393/143‑1 (MQ=255)

                                            tCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACGTTCCACGGTTCGCCGTACTccaccac                                                                                          >  1:367799/1‑143 (MQ=255)

                                              gAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGACGTACTccaccacca                                                                                        >  2:96506/1‑143 (MQ=255)

                                              gAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAAGCTCTGCGTCGCCTCTTCTACTGTCCCCGGTTCGCCGTACTccaccacga                                                                                        >  2:101264/1‑141 (MQ=255)

                                                   tGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGc                                                                                   >  1:233489/1‑143 (MQ=255)

                                                       tttGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCCCCATCCGCAGGa                                                                               >  1:211205/1‑143 (MQ=255)

                                                        ttGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGTTCTGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCCCAggcc                                                                              >  2:663633/1‑141 (MQ=255)

                                                                      aaaGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCt                                                                <  1:184276/143‑1 (MQ=255)

                                                                        aggggACGTCCCCGGAGAATTTTTGCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCtgt                                                              <  1:187253/140‑1 (MQ=255)

                                                                          tgctaGTACTCGGAGAATTTTTTCGGTGACGATGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCTACTGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGc                                                            <  2:109651/139‑1 (MQ=255)

                                                                               gTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCtt                                                       >  1:595965/1‑143 (MQ=255)

                                                                                  cccGGAGAATTTTTTCGGTGACGAGTTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTGCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCa                                                    <  1:481625/143‑1 (MQ=255)

                                                                                  cccGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCCCCTGCAGCTCTCGTAATCCCGcgccgcctcca                                                    >  2:719281/1‑138 (MQ=255)

                                                                                        gaATTTTTTCGGTGACGAGGTGATCTGCATTTCCCCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCgg                                              <  1:730447/143‑1 (MQ=255)

                                                                                            tttgtgggTGAGGAGGTGATCTGCATTTCACCTGGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATc                                          <  2:19948/137‑1 (MQ=255)

                                                                                                   gTGACGAGGTGATCTGCATTTCACCGTGATTGCTATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCTACCACCCTCCGCCGGACGATGTTGTGCTCCTTTCCCGCTTTCAGTTCGGTATCGaacaaa                                   <  2:54079/143‑1 (MQ=255)

                                                                                                   gTGACGAGGTGATCTGCATTTAACCGAGATTGCTATGCAGGCTCTGCGACGCCTCTTCTACTTTCAACGGTTCGCCGTACTGCACCACCATCCGCAGGAAGATGGCGAAATCCGATGCCGCTGTCAGTTCGGTATGGaacacc                                   >  2:381881/1‑141 (MQ=255)

                                                                                                     gagcgggTGATCTGCATTTCACGGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCGTGTGCCGCTTTCAGTTCGGTATCGaacaaaca                                 <  2:382548/138‑1 (MQ=255)

                                                                                                      aCGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTGGCGAACAAacac                                >  1:399636/1‑143 (MQ=255)

                                                                                                        gAGGTGATCTGCATTTCACAGTGATTGATATGCAGGCTCTGCGTCGCCTCATCTACTTTCCACGGTTCACCGTACTCCACCACCATCCGCAGGACGATGTCGTAATCCTGTGCGGCTTTCAATGCGGAAACGaacaaacggac                              >  2:249062/1‑139 (MQ=255)

                                                                                                                                    tatGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATCGAACAAACACTCTTTGAAACGCCATGCCCAGGCAAAGatc  >  1:193338/1‑141 (MQ=255)

GGATCTGGTAGAGGGTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGATCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATCGAACAAACACTCTTTGAAACGCCATGCCCAGGTAAAGACC  >  NC_000913/2132647‑2132921

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A