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
A12 F28 I1 R1	176	31.5	1082462	98.8%	1069472	138.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,245,118	T→C	Y551C (TAC→TGC)	cirA ←	ferric dihyroxybenzoylserine outer membrane transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,245,118	0	T	C	100.0%	131.9 / NA	37	Y551C (TAC→TGC)	cirA	ferric dihyroxybenzoylserine outer membrane transporter
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/16); total (21/16)

CGGTATAGTGCCCAGAAACATAGAATGACCAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGTAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTAACGTTGTAGTAGCTAAATACCGGTATGCGCCGTCCGTTAGCGCCCGTCTC  >  NC_000913/2244981‑2245251

cGGTATAGTGCCCAGAAACATAGAATGACCAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAg                                                                                                                                     <  1:309888/140‑1 (MQ=255)

    ataGTGCCCAGAAACATAGAATGACCAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGgtgt                                                                                                                                 <  2:247405/140‑1 (MQ=255)

             aGAAACATAGAATGACCAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCg                                                                                                                        >  2:9392/1‑140 (MQ=255)

             aGAAACATAGAATGACCAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCg                                                                                                                        >  1:326550/1‑140 (MQ=255)

             aGAAACATAGAATGACCAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCg                                                                                                                        >  1:323960/1‑140 (MQ=255)

               aaaCATAGAATGACCAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGAc                                                                                                                      <  2:344417/140‑1 (MQ=255)

                       aaTGACCAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCa                                                                                                              >  1:183409/1‑140 (MQ=255)

                         tGACCAGTCTTCCAGCGCCAGTGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGa                                                                                                                       >  2:456487/1‑129 (MQ=255)

                         tGACCAGTCTTCCAGCGCCAGTGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGa                                                                                                                       <  1:456487/129‑1 (MQ=255)

                         tGACCAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCAtt                                                                                                            >  1:501064/1‑140 (MQ=255)

                            ccAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCAt                                                                                                         >  1:42289/1‑140 (MQ=255)

                             cAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAg                                                                                                                    <  1:247354/128‑1 (MQ=255)

                             cAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAg                                                                                                                    >  2:247354/1‑128 (MQ=255)

                                tCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGtt                                                                                                     >  2:161811/1‑140 (MQ=255)

                                tCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGtt                                                                                                     >  2:12155/1‑140 (MQ=255)

                                  ttCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGa                                                                                                   <  2:183409/140‑1 (MQ=255)

                                     cagcgccagcgGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACg                                                                                                >  1:536769/1‑140 (MQ=255)

                                          ccagcgGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAAtt                                                                                           >  2:205574/1‑140 (MQ=255)

                                                 tttCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGtt                                                                                    <  1:12155/140‑1 (MQ=255)

                                                         ccagCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTcc                                                                            <  2:42289/140‑1 (MQ=255)

                                                          cagCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCa                                                                           <  2:323960/140‑1 (MQ=255)

                                                               tACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGccc                                                                      >  1:76011/1‑140 (MQ=255)

                                                                  cGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGa                                                                   >  2:370398/1‑140 (MQ=255)

                                                                  cGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGa                                                                   >  2:363804/1‑140 (MQ=255)

                                                                            aTGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCtt                                                         >  2:56164/1‑140 (MQ=255)

                                                                                aaCGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGtt                                                     >  1:491803/1‑140 (MQ=255)

                                                                                 aCGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTa                                                    <  1:317619/140‑1 (MQ=255)

                                                                                          cGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGtt                                                     >  1:60223/1‑130 (MQ=255)

                                                                                          cGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGtt                                                     <  2:60223/130‑1 (MQ=255)

                                                                                          cGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTAACGTTgtag                                           <  2:209903/140‑1 (MQ=255)

                                                                                               aGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTAACGTTGTAGTAGCt                                      <  1:56164/140‑1 (MQ=255)

                                                                                                      tgtttTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTAACGTTgt                                             <  1:246397/126‑1 (MQ=255)

                                                                                                      tgtttTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTAACGTTgt                                             >  2:246397/1‑126 (MQ=255)

                                                                                                      tgtttTCGCCGTTGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTAACGTTGTAGTAGCTAAATAcc                               <  1:249997/140‑1 (MQ=255)

                                                                                                                  tGCTGACATCACGACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTAACGTTGTAGTAGCTAAATACCGGTATGCGccgt                   <  2:326550/140‑1 (MQ=255)

                                                                                                                              gACCATCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTAACGTTGTAGTAGCTAAATACCGGTATGCGCCGTCCGTTAGCGccc       >  2:513160/1‑140 (MQ=255)

                                                                                                                                   tCGTTGCAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTAACGTTGTAGTAGCTAAATACCGGTATGCGCCGTCCGTTAGCGCCCGtctc  >  1:223110/1‑140 (MQ=255)

CGGTATAGTGCCCAGAAACATAGAATGACCAGTCTTCCAGCGCCAGCGGTTTCCAGTCCAGCGTACCGTTAGCAGTATGGAACGGCAGATCGGATAGCGGTTTGTTTTCGCCGTTGCTGACATCACGACCATCGTTGTAGGTGTAGTTGATCGACAGTTTCCATTCATCGTTGAACGGAATTTTCAGTTCGGTTTCCACGCCCTGAATACGAGCTTTGTTAACGTTGTAGTAGCTAAATACCGGTATGCGCCGTCCGTTAGCGCCCGTCTC  >  NC_000913/2244981‑2245251

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A