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 F50 I1 R1	170	39.5	1266514	99.2%	1256381	150.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	929,067	G→A	L43L (CTC→CTT)	cydC ←	glutathione/cysteine ABC transporter export permease/ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	929,067	0	G	A	100.0%	111.3 / NA	29	L43L (CTC→CTT)	cydC	glutathione/cysteine ABC transporter export permease/ATPase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/12); total (17/12)

AACACGCGGAAAGTCGCGTCGTGACTTACCAGACGTTCAAAATAGCGCCCGGCAGTACGGGTGATTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAGAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGCCAGATAGGGTAGCAAAGCGCGCATTTAAATC  >  NC_000913/928921‑929202

aaCACGCGGAAAGTCGCGTCGTGACTTACCAGACGTTCAAAATAGCGCCCGGCAGTACGGGTGATTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAgg                                                                                                                                      >  1:437211/1‑150 (MQ=255)

 acacGCGGAAAGTCGCGTCGTGACTTACCAGACGTTCAAAATAGCGCCCGGCAGTACGGGTGATTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGaa                                                                                                                                    <  2:441605/151‑1 (MQ=255)

        gAAAGTCGCGTCGTGACTTACCAGACGTTCAAAATAGCGCCCGGCAGTACGGGTGATTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCg                                                                                                                             >  1:599396/1‑151 (MQ=255)

                          tACCAGACGTTCAAAATAGCGCCCGGCAGTACGGGTGATTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGAcc                                                                                                            <  2:520486/150‑1 (MQ=255)

                                  gTTCAAAATAGCGCCCGGCAGTACGGGTGATTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGc                                                                                                   >  1:168081/1‑151 (MQ=255)

                                  gTTCAAAATAGCGCCCGGCAGTACGGGTGATTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGc                                                                                                   >  2:6010/1‑151 (MQ=255)

                                          tAGCGCCCGGCAGTACGGGTGATTGCTGCGCCACGCACGCCAGCAGCGGGCAGCACATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGACCCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCg                                                                                           >  1:437376/1‑151 (MQ=255)

                                               cccGGCAGTACGGGTGATTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTcaca                                                                                      <  1:447607/151‑1 (MQ=255)

                                                     aGTACGGGTGATTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGcc                                                                                >  1:495528/1‑151 (MQ=255)

                                                               aTTGCTGCGCCACGCACGCCCGCAGCGGGTATCATATAGTTGAAGCTTTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAACGGAACCAGCCTGGAAGTGTCAACAGACCGATACGGGCGAGCAGCGTCACAATTGCCAGCACAATAc                                                                      <  2:420759/151‑1 (MQ=255)

                                                               aTTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATAc                                                                      <  2:415477/151‑1 (MQ=255)

                                                                 tgctgcGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATAcc                                                                     >  2:438401/1‑150 (MQ=255)

                                                                         cacgcacgCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTaa                                                            <  2:277233/151‑1 (MQ=255)

                                                                          acgcacgcCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAAc                                                           >  1:488205/1‑151 (MQ=255)

                                                                            gcacgcCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACAt                                                         >  1:633142/1‑151 (MQ=255)

                                                                               cgcCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCa                                                      <  1:628432/151‑1 (MQ=255)

                                                                               cgcCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCa                                                      <  2:325455/151‑1 (MQ=255)

                                                                                    gCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTAt                                                 >  1:252576/1‑151 (MQ=255)

                                                                                         gggTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGt                                            >  1:133524/1‑151 (MQ=255)

                                                                                                         aaGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGcc                                >  1:153340/1‑147 (MQ=255)

                                                                                                          aGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGCCAGAt                            >  1:441422/1‑150 (MQ=255)

                                                                                                             tGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGCCAGATAggg                        >  1:519513/1‑151 (MQ=255)

                                                                                                                  aGTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGCCAGATAGGGTAGCa                   <  1:186119/151‑1 (MQ=255)

                                                                                                                   gTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGCCAGATAGGGTAGCaa                  <  1:340041/151‑1 (MQ=255)

                                                                                                                   gTCCGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGCCAGATAGGGTAGCaa                  <  1:189359/151‑1 (MQ=255)

                                                                                                                     ccGGCAACCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGCCAGATAGGGTAGCaaa                 <  2:133521/150‑1 (MQ=255)

                                                                                                                          aaCCCCCGCAACCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGCCAGATAGGGTAGCAAAgcgcgc           >  2:164682/1‑151 (MQ=255)

                                                                                                                                   aaCCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATGCCAAGACTTAACATCCGTTTATGACGTTTATACAGTGCCAGATAGGGTAGCAAAGCGCGCATTTAAAt   >  1:270721/1‑150 (MQ=255)

                                                                                                                                   aaCCGCTGAGGCCGAAAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGCCAGATAGGGTAGCAAAGCGCGCATTTAAAtc  >  2:526220/1‑151 (MQ=255)

AACACGCGGAAAGTCGCGTCGTGACTTACCAGACGTTCAAAATAGCGCCCGGCAGTACGGGTGATTGCTGCGCCACGCACGCCCGCAGCGGGTAGCATATAGTTGAAGCTGTACAGTCCGGCAACCCCCGCAACCGCTGAGGCCGAGAGGAACCAGCCGGAAAGTGTCAACAGACCGATACTGGCGAGCAGCGTCACAATTGCCAGCACAATACCAAGACTTAACATCCATTTATGACGTTTATACAGTGCCAGATAGGGTAGCAAAGCGCGCATTTAAATC  >  NC_000913/928921‑929202

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A