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
A4 F1 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,257,675	G→A	G112G (GGC→GGT)	yhaO ←	putative transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,257,675	0	G	A	100.0%	120.9 / NA	38	G112G (GGC→GGT)	yhaO	putative transporter
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (19/19); total (19/19)

TCTGACAGCAACCCTTCCGTCACGCCGAAGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATGCCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATACATTGCCGGGTAACCAATCACCGATGAGAGCAA  >  NC_000913/3257550‑3257806

tCTGACAGCAACCCTTCCGTCACGCCGAAGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTAc                                                                                                                        >  1:358776/1‑139 (MQ=255)

tCTGACAGCAACCCTTCCGTCACGCCGAAGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTAc                                                                                                                        >  2:717409/1‑139 (MQ=255)

  tGACAGCAACCCTTCCGTCACGCCGAAGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCt                                                                                                                      <  1:139303/139‑1 (MQ=255)

          aCCCTTCCGTCACGCCGAAGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATAccc                                                                                                                                  <  2:72755/119‑1 (MQ=255)

          aCCCTTCCGTCACGCCGAAGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATAccc                                                                                                                                  >  1:72755/1‑119 (MQ=255)

               tCCGTCACGCCGAAGGTATGCAGTTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACAACCAAATCTCCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTaa                                                                                                         <  2:358776/139‑1 (MQ=255)

                    cACGCCGAAGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACg                                                                                                    <  2:59536/139‑1 (MQ=255)

                        ccGAAGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCg                                                                                                >  2:502512/1‑139 (MQ=255)

                         cGAAGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTGCGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCgg                                                                                               <  1:502512/139‑1 (MQ=255)

                           aaGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGt                                                                                             <  2:577938/139‑1 (MQ=255)

                                        aGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGt                                                                                             >  1:574432/1‑126 (MQ=255)

                                        aGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGt                                                                                             <  2:574432/126‑1 (MQ=255)

                                                    cGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGc                                                                    <  1:717409/139‑1 (MQ=255)

                                                    cGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGc                                                                    >  1:391894/1‑139 (MQ=255)

                                                    cGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGc                                                                    <  2:391894/139‑1 (MQ=255)

                                                           gATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTa                                                             >  1:370422/1‑139 (MQ=255)

                                                             tGGCGGTGGAATAGACGTACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAg                                                                 >  1:266216/1‑133 (MQ=255)

                                                             tGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAg                                                                 <  2:266216/133‑1 (MQ=255)

                                                                             gAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACg                                                                                                    <  2:891073/82‑1 (MQ=255)

                                                                             gAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACg                                                                                                    >  1:891073/1‑82 (MQ=255)

                                                                                            cAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTa                                                                                     >  1:804881/1‑82 (MQ=255)

                                                                                            cAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTa                                                                                     <  2:804881/82‑1 (MQ=255)

                                                                                            cAGCATTACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATACATTGcc                            >  2:845871/1‑139 (MQ=255)

                                                                                                 ttACGAAATAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATACATTGCCGGGTa                       >  2:457287/1‑139 (MQ=255)

                                                                                                         tAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGt                                                                                             >  2:396513/1‑61 (MQ=255)

                                                                                                         tAGAGCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGt                                                                                             <  1:396513/61‑1 (MQ=255)

                                                                                                            agCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATa                                   <  2:220845/116‑1 (MQ=255)

                                                                                                            agCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATa                                   >  1:220845/1‑116 (MQ=255)

                                                                                                            agCGCACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATACATTGCCGGGTAACCAATCACCg            >  2:726185/1‑139 (MQ=255)

                                                                                                              cgcACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGc                                                                <  1:42490/85‑1 (MQ=255)

                                                                                                              cgcACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGc                                                                >  2:42490/1‑85 (MQ=255)

                                                                                                              cgcACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCg                                                               >  1:222622/1‑86 (MQ=255)

                                                                                                              cgcACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCg                                                               <  2:222622/86‑1 (MQ=255)

                                                                                                               gcACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATACATTGCCGGGt                        <  1:587395/124‑1 (MQ=255)

                                                                                                               gcACCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATACATTGCCGGGt                        >  2:587395/1‑124 (MQ=255)

                                                                                                                 aCCTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATACATTGCCGGGTAACCAATCACCGATgag       >  1:511727/1‑139 (MQ=255)

                                                                                                                   cTAACAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATACATTGCCGGGTAACCAATCACCGATGagag     <  2:511727/139‑1 (MQ=255)

                                                                                                                      aCAGGATACCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATACATTGCCGGGTAACCAATCACCGATGAGAGCaa  <  2:50745/139‑1 (MQ=255)

TCTGACAGCAACCCTTCCGTCACGCCGAAGGTATGCAGGTAGGAAGCACTATCGTTGGTGATGGCGGTGGAATAGACGAACATCCAAATCACCAGCATTACGAAATAGAGCGCACCTAACAGGATGCCCCAGTTTTTACCTAAATAACCGCTAATGACGCTCGGGTAATCTTTACATTCTGGTGATTCTGCCAGCGTATTAATAAACAATCGCTGAAACAGATACATTGCCGGGTAACCAATCACCGATGAGAGCAA  >  NC_000913/3257550‑3257806

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