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
A7 F28 I1 R1	148	57.0	1973990	96.6%	1906874	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,562,458	A→G	R8R (CGT→CGC)	ddpA ←	putative D,D‑dipeptide ABC transporter periplasmic binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,562,458	0	A	G	97.8%	153.0 / ‑3.2	45	coding (24/1551 nt)	ddpA	putative D,D‑dipeptide ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (17/27); minor base . (1/0); total (18/27)
Fisher's exact test for biased strand distribution p-value = 4.00e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01

AGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCAGAGGGTAACTCGCTGCCTGGGGTAATTCGAAGTGCCACC  >  NC_000913/1562322‑1562589

aGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGa                                                                                                                                  >  2:70624/1‑140 (MQ=255)

       attatCTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGCACGGCGGCGTGCGCAACCGGGGAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGata                                                                                                                           >  1:79164/1‑140 (MQ=255)

        ttatCTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGatat                                                                                                                          <  2:918165/140‑1 (MQ=255)

          atCTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCg                                                                                                                        <  1:70624/140‑1 (MQ=255)

            cTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGata                                                                                                                           >  1:167848/1‑135 (MQ=255)

            cTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGata                                                                                                                           <  2:167848/135‑1 (MQ=255)

            cTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGAt                                                                                                                      <  1:895406/140‑1 (MQ=255)

            cTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGAt                                                                                                                      <  1:843836/140‑1 (MQ=255)

              aTTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGTGAGCAATGTGGGGCGAAACGATATCGAtct                                                                                                                    >  2:296412/1‑140 (MQ=255)

                tGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGAt                                                                                                                      <  2:796422/136‑1 (MQ=255)

                tGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGAt                                                                                                                      >  1:796422/1‑136 (MQ=255)

                  ttACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTc                                                                                                                >  2:600235/1‑140 (MQ=255)

                    aCCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCAt                                                                                                              >  1:554087/1‑140 (MQ=255)

                     ccgccgGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATg                                                                                                             >  2:169588/1‑140 (MQ=255)

                       gccgGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATC‑TTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACa                                                                                                          <  1:567880/140‑1 (MQ=255)

                        ccgGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACa                                                                                                          <  1:155826/140‑1 (MQ=255)

                        ccgGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACa                                                                                                          <  1:589813/140‑1 (MQ=255)

                         cgGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAg                                                                                                         >  2:558472/1‑140 (MQ=255)

                         cgGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAg                                                                                                         >  2:333917/1‑140 (MQ=255)

                         cgGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATATCTTCATGACAg                                                                                                         >  2:433312/1‑140 (MQ=255)

                                  ggTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGAt                                                                                                >  1:554042/1‑140 (MQ=255)

                                   gTTTGTGGATAGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGAtt                                                                                               <  1:927630/140‑1 (MQ=255)

                                      tgtgGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAAc                                                                                            >  1:473456/1‑140 (MQ=255)

                                             cggcggCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTg                                                                                     <  1:537648/140‑1 (MQ=255)

                                                cggcCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCtg                                                                                  <  2:424757/140‑1 (MQ=255)

                                                    cTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCtgtgtg                                                                              <  2:554042/140‑1 (MQ=255)

                                                       aCCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCa                                                                           <  1:600235/140‑1 (MQ=255)

                                                         cAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAgg                                                                         <  1:702271/140‑1 (MQ=255)

                                                         cAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAgg                                                                         <  2:77706/140‑1 (MQ=255)

                                                                 aGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATaa                                                                 >  2:629414/1‑140 (MQ=255)

                                                                   cATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATaaaa                                                               >  1:798551/1‑140 (MQ=255)

                                                                      atCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACaa                                                            <  1:629414/140‑1 (MQ=255)

                                                                                  ggcggcGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCa                                                >  1:654380/1‑140 (MQ=255)

                                                                                   ggggcgTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAg                                               <  2:79164/138‑1 (MQ=255)

                                                                                   gcggcgTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAA‑‑TGGG‑CGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGa                                            >  2:802108/1‑140 (MQ=255)

                                                                                    cggcgTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGc                                              <  2:798551/140‑1 (MQ=255)

                                                                                       cgTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATATCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAg                                           <  1:433312/140‑1 (MQ=255)

                                                                                         tGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCa                                         <  1:733142/140‑1 (MQ=255)

                                                                                            gcAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCagag                                      >  2:641054/1‑140 (MQ=255)

                                                                                                     aaaTTTGTGGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCAGAGGGTAACTCg                             <  1:169588/140‑1 (MQ=255)

                                                                                                            tgGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCAGAGGGTAACTCGCTGCCTg                      <  1:333917/140‑1 (MQ=255)

                                                                                                            tgGCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCAGAGGGTAACTCGCTGCCTg                      <  1:558472/140‑1 (MQ=255)

                                                                                                             ggCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCAGAGGGTAACTCGCTGCCTgg                     >  1:350721/1‑140 (MQ=255)

                                                                                                              gCAAGGACGAGCGCGAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCAGAGGGTAACTCGCTGCCTggg                    <  2:473456/140‑1 (MQ=255)

                                                                                                                           cgAGCAATGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCAGAGGGTAACTCGCTGCCTGGGGTAATTCGAAGTg       <  1:641054/140‑1 (MQ=255)

                                                                                                                                aaTGTGGGGCGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCAGAGGGTAACTCGCTGCCTGGGGTAATTCGAAGTGccacc  <  1:576042/140‑1 (MQ=255)

AGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGAAACGATATCGATCTCTTCATGACAGTTTCCTGATTAACTGACGTGCTGTGTGCCAGGGGATATAAAACAAGAGAATTGATCAGCGAGCAGAGGGTAACTCGCTGCCTGGGGTAATTCGAAGTGCCACC  >  NC_000913/1562322‑1562589

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A