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
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,352,788	C→T	A281T (GCT→ACT)	sapD ←	antimicrobial peptide ABC transporter ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,352,788	0	C	T	100.0%	107.7 / NA	34	A281T (GCT→ACT)	sapD	antimicrobial peptide ABC transporter ATPase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (19/15); total (19/15)

TTCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTCACCAACTCCTTACTCGGCGCGGTTTC  >  NC_000913/1352652‑1352914

ttCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAgtgc                                                                                                                              >  2:1038697/1‑139 (MQ=255)

    gCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCggg                                                                                                                          >  1:166736/1‑139 (MQ=255)

     cGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGACAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGc                                                                                                                         >  1:433272/1‑139 (MQ=255)

          aaTGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGt                                                                                                                    >  1:358747/1‑139 (MQ=255)

                            gatTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATg                                                                                                  >  1:598955/1‑139 (MQ=255)

                             atTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCCTTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGc                                                                                                 >  2:988723/1‑139 (MQ=255)

                                   cGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATc                                                                                           >  2:897275/1‑139 (MQ=255)

                                    gCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATcg                                                                                          >  2:764541/1‑139 (MQ=255)

                                            cAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCg                                                                                  <  1:826458/139‑1 (MQ=255)

                                            cAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTACCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCg                                                                                  <  1:454692/139‑1 (MQ=255)

                                              aaCGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGaa                                                                                <  2:358747/139‑1 (MQ=255)

                                                  tGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCt                                                                            >  1:547581/1‑139 (MQ=255)

                                                     cGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGt                                                                         >  2:814271/1‑139 (MQ=255)

                                                                  tctcGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCa                                                            >  2:717960/1‑139 (MQ=255)

                                                                   ctcGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAg                                                           <  1:814271/139‑1 (MQ=255)

                                                                     cGTTGTGCATACGGGCAACGTGGCCCCAGACGACAGCCATTCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCg                                                                                  <  2:597236/114‑1 (MQ=255)

                                                                     cGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCg                                                                                  >  1:597236/1‑114 (MQ=255)

                                                                        tgtgCATACGGGCAACGTGGCCCCAGACGCCAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCt                                                      <  1:1038697/139‑1 (MQ=255)

                                                                        tgtgCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGTGCCt                                                      <  1:764541/139‑1 (MQ=255)

                                                                        tgtgCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCt                                                      <  2:433272/139‑1 (MQ=255)

                                                                        tgtgCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCt                                                      <  1:229733/139‑1 (MQ=255)

                                                                           gCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTggg                                                   <  1:717960/139‑1 (MQ=255)

                                                                              tACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAg                                                           <  1:842028/128‑1 (MQ=255)

                                                                              tACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAg                                                           >  2:842028/1‑128 (MQ=255)

                                                                                    cAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGgat                                          >  2:254772/1‑139 (MQ=255)

                                                                                      aCGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGgatga                                        >  1:280835/1‑139 (MQ=255)

                                                                                       cGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGgatgat                                       <  2:598955/139‑1 (MQ=255)

                                                                                                            aTCGGTAACTGTTCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTCACCAACTCCt                  >  2:844474/1‑139 (MQ=255)

                                                                                                                       ttCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGc                                                                                                            <  2:559573/38‑1 (MQ=255)

                                                                                                                       ttCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGc                                                                                                            >  1:559573/1‑38 (MQ=255)

                                                                                                                       ttCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGGGACTTTTATGCGACATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTCACCAACTCCTTACTCGgc          >  1:705726/1‑136 (MQ=255)

                                                                                                                       ttCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTCACCAACTCCTTACTCGGcgcg       <  2:280835/139‑1 (MQ=255)

                                                                                                                       ttCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTCACCAACTCCTTACTCGGcgcg       >  2:934064/1‑139 (MQ=255)

                                                                                                                       ttCCAGCAGTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGACATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTCACCAACTCCTTACTCGgc          <  2:705726/136‑1 (MQ=255)

                                                                                                                            gcagTGGGATAGTGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTCACCAACTCCTTACTCGGCGCGGTTTc  >  1:1002123/1‑139 (MQ=255)

TTCAGCGGGAAATGACAGGCATAGAGATGATTTTTCGCCCCCGTCAAACGTGGCGTCACAATGCATTCTCGTTGTGCATACGGGCAACGTGGCCCCAGACGACAACCAATCGGTAACTGTTCCAGCAGTGGGATAGCGCCGGGCAGCGTATTGAGGCGACTTTTATGCGGCATCGCGCTGCCGAAGTCTGGTATCGCGCGGATCAGCGCCTGGGTATAAGGATGATGTGGCATCGTCACCAACTCCTTACTCGGCGCGGTTTC  >  NC_000913/1352652‑1352914

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A