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
A10 F1 I2 R1	757	38.1	1607544	96.5%	1551279	117.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	937,983	G→A	204 (TAG→TAA)	lolA →	lipoprotein chaperone

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	937,983	0	G	A	100.0%	67.6 / NA	22	204 (TAG→TAA)	lolA	lipoprotein chaperone
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (10/12); total (10/12)

CAGTTTAGCGCGGTGGAGCAGGACGATCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAGAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGCCAGCAACATTTGCTGGCTG  >  NC_000913/937849‑938102

cAGTTTAGCGCGGTGGAGCAGGACGATCAGCGCAGCAGTTATCAACTGAAATCCCAGCATAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGc                                                                                                                     >  1:58031/1‑139 (MQ=255)

      aGCGCGGTGGAGCAGGACGATCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCtga                                                                                                               >  1:182035/1‑139 (MQ=255)

      aGCGCGGTGGAGCAGGACGATCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCtga                                                                                                               <  2:399055/139‑1 (MQ=255)

             tGGAGCAGGACGATCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCa                                                                                                        >  1:252047/1‑139 (MQ=255)

                        gATCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTc                                                                                             <  1:760520/139‑1 (MQ=255)

                          tCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTaaag                                                                                                                       <  1:562925/111‑1 (MQ=255)

                                      ttATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGataa                                                                               <  2:182035/139‑1 (MQ=255)

                                                aaaTCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGAtttt                                                                                       >  2:750199/1‑121 (MQ=255)

                                                aaaTCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGAtttt                                                                                       <  1:750199/121‑1 (MQ=255)

                                                       aGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTc                                                                                             <  1:546082/108‑1 (MQ=255)

                                                       aGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTc                                                                                             >  2:546082/1‑108 (MQ=255)

                                                                   cTGTGGATGCAGCGAAATTTACCTTCACCCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATg                                                   >  2:165438/1‑139 (MQ=255)

                                                                                 aaaTTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTa                                    <  2:50994/139‑1 (MQ=255)

                                                                                             a‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATc                        >  2:408382/1‑139 (MQ=255)

                                                                                                        aaGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTc                                                                       >  2:423414/1‑82 (MQ=255)

                                                                                                        aaGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTc                                                                       <  1:423414/82‑1 (MQ=255)

                                                                                                                    tAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGCCAGCAACATTTgctggctg  <  1:165438/139‑1 (MQ=255)

                                                                                                                            cAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGataata                                                                             <  2:788506/56‑1 (MQ=255)

                                                                                                                            cAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGataata                                                                             >  1:788506/1‑56 (MQ=255)

                                                                                                                             aaCGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACtttt                                                                        >  2:100308/1‑60 (MQ=255)

                                                                                                                             aaCGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACtttt                                                                        <  1:100308/60‑1 (MQ=255)

                                                                                                                                    gTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGca                                 <  2:415595/92‑1 (MQ=255)

                                                                                                                                    gTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGCCAGCAACATTTgct       <  1:412546/118‑1 (MQ=255)

CAGTTTAGCGCGGTGGAGCAGGACGATCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCA‑CCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAGAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGCCAGCAACATTTGCTGGCTG  >  NC_000913/937849‑938102

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A