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
A10 F1 I2 R1	757	38.1	1607544	96.5%	1551279	117.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,089,069	(T)_7→6	coding (789/2019 nt)	pgaB ←	poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine (PGA) N‑deacetylase outer membrane export lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,089,063	0	T	.	100.0%	142.2 / NA	34	coding (795/2019 nt)	pgaB	poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine (PGA) N‑deacetylase outer membrane export lipoprotein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (16/18); total (16/18)

TTTTCCTGTACGGTAATAATTTGCTGGGCAAACTCTTTTAATGAGGGATTATTGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAGTTTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTCCGTCATTTTTACAGCATCCAGACGAATTCTTTCCC  >  NC_000913/1088926‑1089190

ttttCCTGTACGGTAATAATTTGCTGGGCAAACTCTTTTAATGAGGGATTATTGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAGtt                                                                                                                                >  1:22185/1‑139 (MQ=255)

             taataaTTTGCTGGGCAAACTCTTTTAATGAGGGATTATTGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCctct                                                                                                                  >  1:131742/1‑139 (MQ=255)

                   tttGCTGGGCAAACTCTTTTAATGAGGGATTATTGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCt                                                                                                            <  2:560247/139‑1 (MQ=255)

                              aaCTCTTTTAATGAGGGATTATTGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCAttcgc                                                                                                 >  1:271956/1‑139 (MQ=255)

                                 tctTTTAATGAGGGATTATTGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCAttcgcttc                                                                                              <  1:550434/139‑1 (MQ=255)

                                     ttATTGAGGGATTATTGTCTATTAATACCCGCGTAATGGAATCCAATTGCGACGCATTTGCGAAACCTGATTCAAGGTTGAAGAACATGACATAACCGAG‑TTTGTTAGTTCCTGTATCGCTATTCCATTCGCTTCGCCa                                                                                          <  1:432355/139‑1 (MQ=255)

                                       aaTGAGGGATTATTGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATa                                                                                        <  2:131742/139‑1 (MQ=255)

                                            gggATTATTGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGcc                                                                                   <  2:271956/139‑1 (MQ=255)

                                             ggATTATTGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCca                                                                                  >  1:428896/1‑139 (MQ=255)

                                               attattGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCAt                                                                                         <  2:398121/130‑1 (MQ=255)

                                               attattGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCAt                                                                                         >  1:398121/1‑130 (MQ=255)

                                                        gATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACgt                                                                       <  2:720151/139‑1 (MQ=255)

                                                         aTTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACgtg                                                                      <  2:428896/139‑1 (MQ=255)

                                                         aTTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACgtg                                                                      >  2:205063/1‑139 (MQ=255)

                                                              tACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGAt                                                                 <  1:558577/139‑1 (MQ=255)

                                                              tACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGAt                                                                 <  2:22185/139‑1 (MQ=255)

                                                                    cgGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCt                                                           >  2:609563/1‑139 (MQ=255)

                                                                    cgGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCt                                                           >  2:306367/1‑139 (MQ=255)

                                                                           gaatCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAAC‑‑‑‑GGATTTACCTCAACCTTTGTa                                                <  2:27670/139‑1 (MQ=255)

                                                                               ccAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTa                                                <  1:362796/139‑1 (MQ=255)

                                                                                 aaTTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACg                                              >  2:664611/1‑139 (MQ=255)

                                                                                               tGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTCCGTCa                                <  1:664611/139‑1 (MQ=255)

                                                                                                    aaCCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTCCGTCAttttt                           >  1:339498/1‑139 (MQ=255)

                                                                                                     aCCTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTCCGTCATTTTTa                          >  2:17435/1‑139 (MQ=255)

                                                                                                       cTGATTCAAGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTCCGTCATTTTTACa                        <  1:638634/139‑1 (MQ=255)

                                                                                                              aaGGGTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTCCGTCATTTTTACAGCATCCa                 >  2:325383/1‑139 (MQ=255)

                                                                                                                gggTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTcc                                    >  1:389683/1‑118 (MQ=255)

                                                                                                                gggTGAAGAACATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTcc                                    <  2:389683/118‑1 (MQ=255)

                                                                                                                         aCATGTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTCCGTCATTTTTACAGCATCCAGACGAATTCtt      <  1:17435/139‑1 (MQ=255)

                                                                                                                             gTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCt                                                           <  2:346039/82‑1 (MQ=255)

                                                                                                                             gTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCt                                                           >  1:346039/1‑82 (MQ=255)

                                                                                                                             gTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTCCGTCATTTTTACAGCATCCAGACGAATTCTTTccc  >  2:297858/1‑139 (MQ=255)

                                                                                                                             gTCATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTCCGTCATTTTTACAGCATCCAGACGAATTCTTTccc  >  2:772281/1‑139 (MQ=255)

                                                                                                                               cATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCt                                                     >  1:9537/1‑86 (MQ=255)

                                                                                                                               cATAACCGAG‑TTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCt                                                     <  2:9537/86‑1 (MQ=255)

TTTTCCTGTACGGTAATAATTTGCTGGGCAAACTCTTTTAATGAGGGATTATTGGCGATTAATACCCGCGGAATGGAATCCAATTGCGACGCATTTGCCAAACCTGATTCAAGGGTGAAGAACATGTCATAACCGAGTTTTTTTAATTCCTCTATCGCTATGCCATTCGCTTCGCCATAAGGCCAAACAAAAACGTGTGGATTTACCTCAACCTTTGTACGCAGGTATTCCGTCATTTTTACAGCATCCAGACGAATTCTTTCCC  >  NC_000913/1088926‑1089190

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A