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 I1 R1	66	20.9	912876	97.7%	891879	114.4

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%	100.0 / NA	27	L105L (CTA→CTG)	ygbE	DUF3561 family inner membrane protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/13); total (14/13)

ATACCGCGACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGTAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCATCAATGAATGCAGCGCAATCCCCACCACTACCGCGACGGGCATCAGCGCCAGAA  >  NC_000913/2872888‑2873156

aTACCGCGACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCagcagc                                                                                                                                    <  1:43186/139‑1 (MQ=255)

    cgcgACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCcaca                                                                                                                                >  1:269037/1‑139 (MQ=255)

    cgcgACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCcaca                                                                                                                                >  2:329775/1‑139 (MQ=255)

       gACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATaa                                                                                                                             >  1:90038/1‑139 (MQ=255)

                       gTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACAt                                                                                                             <  1:171237/139‑1 (MQ=255)

                          ccACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAAGATAATCTCAGTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAAt                                                                                                          >  2:280746/1‑139 (MQ=255)

                            acaTTTGTCGATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGc                                                                                                        <  2:269037/139‑1 (MQ=255)

                              aTTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCt                                                                                                      <  1:400738/139‑1 (MQ=255)

                                            aCGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACATAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAgggc                                                                                        <  1:280746/139‑2 (MQ=255)

                                                  aCCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGACTACTGTCACCAGGGTGAAAAc                                                                                  >  1:21771/1‑139 (MQ=255)

                                                        ggCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGt                                                                                        <  2:439846/127‑1 (MQ=255)

                                                        ggCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGt                                                                                        >  1:439846/1‑127 (MQ=255)

                                                            tGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGaaaa                                                                                   <  2:443865/128‑1 (MQ=255)

                                                            tGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGaaaa                                                                                   >  1:443865/1‑128 (MQ=255)

                                                            tGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTgtag                                                                        >  2:34565/1‑139 (MQ=255)

                                                            tGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTgtag                                                                        >  1:394113/1‑139 (MQ=255)

                                                                 aaCATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTgtagcgtag                                                                   <  2:90038/139‑1 (MQ=255)

                                                                   cATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCt                                                                 >  2:365024/1‑139 (MQ=255)

                                                                            attattAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCa                                                        <  1:365024/139‑1 (MQ=255)

                                                                            attattAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCa                                                        <  1:34565/139‑1 (MQ=255)

                                                                             ttattaGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTgtagcgtagc                                                                  <  1:367867/128‑1 (MQ=255)

                                                                             ttattaGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTgtagcgtagc                                                                  >  2:323589/1‑128 (MQ=255)

                                                                             ttattaGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTgtagcgtagc                                                                  >  2:367867/1‑128 (MQ=255)

                                                                             ttattaGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTgtagcgtagc                                                                  <  1:323589/128‑1 (MQ=255)

                                                                                      aCGGTATCAATTATGAACAGAGGAGACGAGAAAGAAAAAATTAGCCAAGCAGCCACATAAAAAGAACGCCAAACAAAATGCCTAATGTTACCAGGGTGAAAACAACACTTTAGCGTAGCTTTCCGTCCATCaatgaatg                                              <  2:81149/139‑1 (MQ=255)

                                                                                             gAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCATCAATGAATGCAGCGCa                                       <  2:240072/139‑1 (MQ=255)

                                                                                              aaTTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCATCAATGAATGCAGCGCaa                                      >  1:217205/1‑139 (MQ=255)

                                                                                                                                  cccAGCAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCATCAATGAATGCAGCGCAATCCCCACCACTACCGCGACGGGCATCAGCGCCagaa  >  1:298988/1‑139 (MQ=255)

ATACCGCGACAACGCGGGCAAATGTACCACATTTGTCCATTGTTACGTATACCCAGGGCGTGCAGAACATAATCTCATTATTAGTTACGGTTTGAATTATGAACAGAGGAGACGGGAAAGTACAAATTAGCCCAGTAGCCACATAAACAGTGCGCCAAACATAATGCCTACTGTCACCAGGGTGAAAACAATACTGTAGCGTAGCTTTCCGTCCATCAATGAATGCAGCGCAATCCCCACCACTACCGCGACGGGCATCAGCGCCAGAA  >  NC_000913/2872888‑2873156

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `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