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 F108 I1 R1	11	40.8	1469306	91.3%	1341476	142.5

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	95.0%	95.1 / NA	40	I204S (ATC→AGC)	wcaA	putative glycosyl transferase
Reads supporting (aligned to +/- strand): ref base A (2/0); new base C (18/20); total (20/20)
Fisher's exact test for biased strand distribution p-value = 4.87e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.10e-01

TAGAGGGTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGATCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATCGAACAAACACTCTTTGAAACGCCATGCCCAGGTAAAGACCT  >  NC_000913/2132655‑2132922

tAGCGGGTAAACAGCTGATATTGTGTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGTAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGc                                                                                                                               <  1:294926/143‑1 (MQ=255)

tAGAGGGTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGCGATCTGCACTTCATCCAGCCTGACATGCAGCCTCTGCGACGc                                                                                                                               >  1:603717/1‑143 (MQ=255)

     ggTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAGGTGGAAGTACCCGGAGCCTTTTTTCCGTGCCGTGGTGATCTACCTTACACAGAAACTGACATACAAGATCtacataaacactt                                                                                                                          >  2:5937/1‑131 (MQ=255)

            aGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGCTTGATGTGCAGGCTCTGCGTCGCCTCTTCTACttt                                                                                                                   >  2:506801/1‑143 (MQ=255)

            aGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGAAAGAACTGCGTCGCCACTTATACttg                                                                                                                   >  2:422252/1‑142 (MQ=255)

                 atatTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATACGCCGGCTCTGCGTCGCCTCGTCTCCTTTCCACg                                                                                                              >  2:634554/1‑143 (MQ=255)

                      ttttGCTGGCGTGGTTGTATTTGTCTTTGTGCTTGTGGTAAAAGTGGAAGTACCCGGAGAAGGTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCg                                                                                                         <  2:345141/143‑1 (MQ=255)

                       tttGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGACAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTACGTGGCCTCTTCTACTATCGACggaccga                                                                                                        >  1:393374/1‑138 (MQ=255)

                            tGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTAc                                                                                                   <  2:260008/143‑1 (MQ=255)

                              gcgcTGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTTATCTGCATTTCACCGTGATTGATATGCAGGCTCTGTGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTc                                                                                                 <  2:582421/143‑1 (MQ=255)

                                   gTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTAc                                                                                                   >  2:612339/1‑136 (MQ=255)

                                   gTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTAc                                                                                                   <  1:612339/136‑1 (MQ=255)

                                            ttCTTTGTGCTTGCGGTAGAAGCGGAAGTACCCGGAGGAGCTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCa                                                                                   <  2:43355/142‑1 (MQ=255)

                                              cTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACCGTTCGCCCGACTccaccacccacccccgg                                                                                 >  1:554816/1‑134 (MQ=255)

                                               tttGTGCTTGCGGTAAAAGTGGAAGTACCCGTAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGa                                                                                >  1:263991/1‑143 (MQ=255)

                                                  gtgCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCACGGTCCTCTCCCACCATCCGCCggcaca                                                                             >  1:111962/1‑139 (MQ=255)

                                                      ttGCGGTAAAATTGTAAGTACTCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTc                                                                         <  2:503417/143‑1 (MQ=255)

                                                      ttGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTc                                                                         >  2:248305/1‑143 (MQ=255)

                                                      ttGCGGAAAAAGAAGAAGGAACCGGAAAATAGTTTCGGAGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTc                                                                         <  2:157798/143‑1 (MQ=255)

                                                        gCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCCTTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACAATCCGCAGGAAGCTGTCGt                                                                       >  2:545392/1‑143 (MQ=255)

                                                           gTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTCCTCCACCACCCTCCGCACGACGATGTCGGAAt                                                                    >  2:732121/1‑143 (MQ=255)

                                                                aGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTGCTCCACCACCATCCGCAGGCAGATGAAGTAACCCcgt                                                               >  1:650640/1‑143 (MQ=255)

                                                                aGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCtgt                                                               >  2:310175/1‑143 (MQ=255)

                                                                    taaGTACCCGGAGAGTTTTTTCGGTGACTAGGTGATCTTCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTGCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCg                                                           <  1:670228/142‑1 (MQ=255)

                                                                      cgttcccGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCGTCTACTTTCCACGGTTCGCCGTACTCCACCACCTTCCGCAGGAAGATGTCGTAATCCTGTGCCGCt                                                         <  1:491273/139‑1 (MQ=255)

                                                                                gaATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCAGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACAATCCGCAGGAAGCTGTCGTAATCATGTACCGcatcaagctcga                                               >  1:171011/1‑132 (MQ=255)

                                                                                    tttttCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATc                                           <  1:603678/143‑1 (MQ=255)

                                                                                     ttttCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCGCGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATCg                                          <  1:310175/143‑1 (MQ=255)

                                                                                     ttttCGGAGACGAAGTGATCTGCATCTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATCg                                          <  2:442070/143‑1 (MQ=255)

                                                                                                  ggTGATCTGCATTTCACCGTGATTGATATGCAGGCTCTCCGTCGCCTCTTCTTCTGTCGACGGTTCGCCGTACTCCACCGCCATCCCCTGGAAGATGTCGTATTCCTTTGCCGCTTTCAGTTCGGTATCGAACAAACACTCtt                             <  1:346220/143‑1 (MQ=255)

                                                                                                      aTCTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTNATCCTGTGCCGCTTTCAGTTCGGCATCTCACAAacacacaaagaa                         >  1:383161/1‑135 (MQ=255)

                                                                                                        cTGCATTTCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCCCCATCCGCAGCAAGATGTCGTAATCCTCTGCCGCGTTTGGTTCGGTATCGAGCAAGCACTCGTTGagca                       >  1:146130/1‑140 (MQ=255)

                                                                                                         tGCATTTCACCGTGATTGAGATGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATCGAACAAACACTCTTTGAAACg                      <  1:288206/143‑1 (MQ=255)

                                                                                                           gttctcgtcGTGATTGATATGCAGGCTCTGCGGCTCATCTTCTACTGTCCGCGGTTCGCCGTACTCCACCGCCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATCGAACAAACACTCTTTGAAACGcc                    <  1:570959/135‑1 (MQ=255)

                                                                                                             tttCACCGTGATTGATATGCAGGCTCTGCGTCGCCTCTTCTCCTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTCTCAGTGCGGCATCGAACCAACACTCCTTGAGACGCCAt                  >  1:118856/1‑143 (MQ=255)

                                                                                                                   cgcgattggtgcgCAGGCTCTGCGTCTCCTCCTTTACTTTCTACGGTTCGCCGTGCTCCACCACCATCCGTAGGAATATGTCGTAATCCTGTGCCGCTTTCCGTTCGGTATCGAACAAACCCTCTTTGAAACGCCATGCCCAg            <  1:175502/131‑1 (MQ=255)

                                                                                                                   cGTGATTGATTTGCATGCTTCGCGTCTCCTCTTCTACTTTCCACGGTTCGTCGTGCTCCACCACGATCCGCACGAAGATTCCGTAATCCTGTGCCGCTTTCAGTTCGGTATCGAACAAACACTCTTTGAAACGCCATGCCCAg            <  1:308173/143‑1 (MQ=255)

                                                                                                                        ttgacATGCAGGCTCTTCGTCTCTTCTTATACTGTCCACGTTTCGCCTTACTCCACCACTATCCTCATGAAGATTTCGTAATCCTGTGCCGCTGTCAGTTCGGTATTGAACAAACACTTTTTGAAACGCCATGCCCAGGTaaa       <  1:731206/143‑1 (MQ=255)

                                                                                                                           atatGCAGGCTCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGCCTATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTAACGAACAAACACTCTTTGAAACGCCATGCCCAGGTAAAGAc    >  2:225431/1‑143 (MQ=255)

                                                                                                                             attcAGGCTTTGCGTCGCCTCTTCTCCTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATCGAACAAACACTCTTTGAAACGCCATGCCCAGGTAAAGACCt  <  1:248305/140‑1 (MQ=255)

TAGAGGGTAAACAGCTGATATTTTTTGCTGGCGCGGTCGAATTTGTCTTTGTGCTTGCGGTAAAAGTGGAAGTACCCGGAGAATTTTTTCGGTGACGAGGTGATCTGCATTTCACCGTGATTGATATGCAGGATCTGCGTCGCCTCTTCTACTTTCCACGGTTCGCCGTACTCCACCACCATCCGCAGGAAGATGTCGTAATCCTGTGCCGCTTTCAGTTCGGTATCGAACAAACACTCTTTGAAACGCCATGCCCAGGTAAAGACCT  >  NC_000913/2132655‑2132922

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A