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 F1 I1 R1	748	32.0	1685426	92.6%	1560704	103.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,842,931	T→C	D38G (GAC→GGC)	hycI ←	protease involved in processing C‑terminal end of HycE

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,842,931	0	T	C	100.0%	123.2 / NA	35	D38G (GAC→GGC)	hycI	protease involved in processing C‑terminal end of HycE
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (20/15); total (20/15)

CTCGGCGATATCATCCGGGTCGATGATGCGGATCTCGCCGGGGTTTAGCCCCATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGTCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGC  >  NC_000913/2842795‑2843045

ctcGGCGATATCATCCGGGTCGATGATGCGGATCTCGCCGGGGTTTAGCCCCATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCa                                                                                                                  >  2:718711/1‑139 (MQ=255)

 tcGGCGATATCATCCGGGTCGATGATGCGGATCTCGCCGGGGTTTAGCCCCATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCaa                                                                                                                 >  1:670318/1‑139 (MQ=255)

  cGGCGATATCATCCGGGTCGATGATGCGGATCTCGCCGGGGTTTAGCCCCATATCCGTGGCGTCGCCAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGCTGTCGTTTTCCGGTGCGCTACCGCCGCCAAt                                                                                                                >  1:603135/1‑139 (MQ=255)

                  gTCGATGATGCGGATCTCGCCGGGGTTTAGCCCCATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCt                                                                                                >  2:799893/1‑139 (MQ=255)

                      atgatgCGGATCTCGCCGGGGTTTAGCCCCATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTcg                                                                                            >  2:343076/1‑139 (MQ=255)

                            cGGATCTCGCCGGGGTTTAGCCCCATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCGCGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTcggcgcgg                                                                                      >  1:521954/1‑139 (MQ=255)

                            cGGATCTCGCCGGGGTTTAGCCCCATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTcggcgcgg                                                                                      <  2:521954/139‑1 (MQ=255)

                                     ccGGGGTTTAGCCCCATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATcac                                                                                                             <  2:366769/107‑1 (MQ=255)

                                     ccGGGGTTTAGCCCCATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATcac                                                                                                             >  1:366769/1‑107 (MQ=255)

                                                  ccATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCcagcag                                                                <  2:670318/139‑1 (MQ=255)

                                                    atatCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCCGCGCACTTTTCCGCCAGCAGCg                                                              >  2:608565/1‑139 (MQ=255)

                                                             gCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAAt                                                                                                                >  2:31227/1‑80 (MQ=255)

                                                             gCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAAt                                                                                                                <  1:31227/80‑1 (MQ=255)

                                                                tCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAAt                                                                                                                >  1:95561/1‑77 (MQ=255)

                                                                tCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAAt                                                                                                                <  2:95561/77‑1 (MQ=255)

                                                                      aTCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCGc                                            <  1:799893/139‑1 (MQ=255)

                                                                              tCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCGCCCATCATg                                    >  1:585475/1‑139 (MQ=255)

                                                                                gtgtCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTgcg                                                      >  1:304423/1‑119 (MQ=255)

                                                                                gtgtCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTgcg                                                      >  1:29692/1‑119 (MQ=255)

                                                                                gtgtCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTgcg                                                      <  2:29692/119‑1 (MQ=255)

                                                                                gtgtCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTgcg                                                      <  2:304423/119‑1 (MQ=255)

                                                                                 tgtCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAg                                                                                                      <  1:230618/70‑1 (MQ=255)

                                                                                 tgtCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAg                                                                                                      >  2:230618/1‑70 (MQ=255)

                                                                                     gggCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCGCCCATCATGCTATTGc                             <  2:196351/139‑1 (MQ=255)

                                                                                      ggCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCGCCCATCATGCTATTGcc                            >  2:807891/1‑139 (MQ=255)

                                                                                        cgcAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCg                                             >  1:694591/1‑120 (MQ=255)

                                                                                        cgcAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCg                                             <  2:694591/120‑1 (MQ=255)

                                                                                         gcAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCGCCCATCATGCTATTGCCAac                         <  1:537340/139‑1 (MQ=255)

                                                                                             ttCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCaccacc                                                                                                         <  2:497469/55‑1 (MQ=255)

                                                                                             ttCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCaccacc                                                                                                         >  1:497469/1‑55 (MQ=255)

                                                                                               cACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTa                                                                                                   <  2:224568/59‑1 (MQ=255)

                                                                                               cACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTa                                                                                                   >  1:224568/1‑59 (MQ=255)

                                                                                                       gCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCTTCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACgt           >  2:428108/1‑139 (MQ=255)

                                                                                                       gCGACGATGTCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACgt           >  1:594207/1‑139 (MQ=255)

                                                                                                                tCGTTTTCCGGTGCGCTACCGCCGCCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGc  <  2:585475/139‑1 (MQ=255)

CTCGGCGATATCATCCGGGTCGATGATGCGGATCTCGCCGGGGTTTAGCCCCATATCCGTGGCGTCGACAATCAGCAGTCGTGTCGGGCGCAGTTCACGGATAGCGACGATGTCGTTTTCCGGTGCGCTACCGCCGTCAATCACCACCCAGTTACCTTTCGGCGCGGCGGCGCACTTTTCCGCCAGCAGCGGACCTGCGCCATCATCGCCCATCATGCTATTGCCAACACAGAGTAAAACGTCAGTCACGC  >  NC_000913/2842795‑2843045

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A