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
A1 F1 I2 R1	65	21.2	1002576	96.5%	967485	111.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,873,023	T→C	L105L (CTA→CTG)	ygbE ←	DUF3561 family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,873,023	0	T	C	100.0%	113.0 / NA	30	L105L (CTA→CTG)	ygbE	DUF3561 family inner membrane protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/16); total (14/16)

ATACCGCGACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGTAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCATCAATGAATGCAGCGCAATCCCCACCACTACCGCGACGGGCAT  >  NC_000913/2872888‑2873145

aTACCGCGACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCagcagc                                                                                                                         <  2:426494/139‑1 (MQ=255)

    cgcgACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCcaca                                                                                                                     >  2:377966/1‑139 (MQ=255)

    cgcgACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCcaca                                                                                                                     >  2:256556/1‑139 (MQ=255)

              cgGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTgc                                                                                                           >  1:118463/1‑139 (MQ=255)

               gggCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTgcg                                                                                                          <  1:256556/139‑1 (MQ=255)

               gggCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTgcg                                                                                                          <  1:377966/139‑1 (MQ=255)

                  cAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCa                                                                                                       <  2:441202/139‑1 (MQ=255)

                       gTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACAt                                                                                                  <  1:236562/139‑1 (MQ=255)

                        tACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATa                                                                                                 <  1:371362/139‑1 (MQ=255)

                              aTTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCt                                                                                           <  2:118463/139‑1 (MQ=255)

                                ttGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTAc                                                                                         >  1:241730/1‑139 (MQ=255)

                                              gTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGa                                                                           <  2:241730/139‑1 (MQ=255)

                                                 taCCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGaaaa                                                                        <  2:180490/139‑1 (MQ=255)

                                                  aCCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGc                                                                                             <  2:478876/117‑1 (MQ=255)

                                                  aCCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAAc                                                                       >  2:460890/1‑139 (MQ=255)

                                                  aCCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGACAAACATAATGc                                                                                             >  1:478876/1‑117 (MQ=255)

                                                        ggCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACt                                                                 >  1:200436/1‑139 (MQ=255)

                                                            tGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGt                                                                             <  2:219814/123‑1 (MQ=255)

                                                            tGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGt                                                                             >  1:219814/1‑123 (MQ=255)

                                                            tGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTgtag                                                             >  1:60012/1‑139 (MQ=255)

                                                            tGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTgtag                                                             >  1:54336/1‑139 (MQ=255)

                                                                           cATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAATCAGTGCGCCAAACAt                                                                                                  <  1:268809/87‑1 (MQ=255)

                                                                           cATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACAt                                                                                                  >  2:268809/1‑87 (MQ=255)

                                                                           cATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTcc                                              <  2:200436/139‑1 (MQ=255)

                                                                                                  aTGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCATCAATGAATGCAGCGCAATccc                       <  2:60012/139‑1 (MQ=255)

                                                                                                   tGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCATCAATGAATGCAGCGCAATcccc                      >  2:468390/1‑139 (MQ=255)

                                                                                                          aggagACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGc                                                                                             <  2:234885/61‑1 (MQ=255)

                                                                                                          aggagACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGc                                                                                             >  1:234885/1‑61 (MQ=255)

                                                                                                          aggagACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGc                                                                                             >  1:483484/1‑61 (MQ=255)

                                                                                                          aggagACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGc                                                                                             <  2:483484/61‑1 (MQ=255)

                                                                                                                       gTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCATCAATGAATGCAGCGCAATCCCCACCACTACCGCGACGGGCAt  <  1:103857/139‑1 (MQ=255)

ATACCGCGACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGTAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCATCAATGAATGCAGCGCAATCCCCACCACTACCGCGACGGGCAT  >  NC_000913/2872888‑2873145

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