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
A5 F1 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,014,259	Δ1 bp	intergenic (‑20/+28)	yqeB ← / ← yqeC	XdhC‑CoxI family protein with NAD(P)‑binding Rossman fold/putative selenium‑dependent hydroxylase accessory protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,014,258	0	C	.	100.0%	212.8 / NA	51	intergenic (‑19/+29)	yqeB/yqeC	XdhC‑CoxI family protein with NAD(P)‑binding Rossman fold/putative selenium‑dependent hydroxylase accessory protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (23/28); total (23/28)

GCGCGCACTAACATTTGTGCAGAATGGCGGGGAGTCGAGCCTCGGCTATCAACAATTTGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATATCCTTTCAGTAACCCGGAATACCCGGGCCGCTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCGTGTTGTTGCAGCGGTTGAAGGAGCTCGCTTTGTGCA  >  NC_000913/3014121‑3014392

gcgcgcACTAACATTTGTGCAGAATGGCGGGGAGTCGAGCCTCGGCTATCAACAATTTGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATATct                                                                                                                                       <  2:50983/139‑2 (MQ=255)

                gtgCAGAATGGCGGGGAGTCGAGCCTCGGCTATCAACAATTTGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCg                                                                                                                          <  1:1108015/135‑1 (MQ=255)

                gtgCAGAATGGCGGGGAGTCGAGCCTCGGCTATCAACAATTTGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCg                                                                                                                          >  2:1108015/1‑135 (MQ=255)

                gtgCAGAATGGCGGGGAGTCGAGCCTCGGCTATCAACAATTTGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAAt                                                                                                                      >  1:307109/1‑139 (MQ=255)

                      aaTGGCGGGGAGTCGAGCCTCGGCTATCAACAATTTGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCgg                                                                                                                >  2:937572/1‑139 (MQ=255)

                           cGGGGAGTCGAGCCTCGGCTATCAACAATTTGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCgt                                                                                                           >  1:566982/1‑138 (MQ=255)

                                            gCTATCAACAATTTGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTgcg                                                                                          <  1:1210560/139‑1 (MQ=255)

                                                        ttGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAgg                                                                              <  2:165690/139‑1 (MQ=255)

                                                        ttGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAgg                                                                              <  1:210196/139‑1 (MQ=255)

                                                        ttGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAgg                                                                              <  2:503661/139‑1 (MQ=255)

                                                         tGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGa                                                                             <  1:937572/139‑1 (MQ=255)

                                                          gcgcCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGAt                                                                            >  1:132557/1‑139 (MQ=255)

                                                           cgcCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATg                                                                           <  2:307109/139‑1 (MQ=255)

                                                           cgcCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATg                                                                           <  2:729006/139‑1 (MQ=255)

                                                           cgcCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATg                                                                           <  2:132557/139‑1 (MQ=255)

                                                                tAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCtt                                                                      <  2:566982/139‑1 (MQ=255)

                                                                        ggACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCg                                                              >  2:458745/1‑139 (MQ=255)

                                                                            aaTTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCcca                                                          >  2:1101562/1‑139 (MQ=255)

                                                                                   ctctTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGa                                                                                     <  2:4525/105‑1 (MQ=255)

                                                                                   ctctTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGa                                                                                     >  1:4525/1‑105 (MQ=255)

                                                                                   ctctTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGAt                                                   <  1:203503/139‑1 (MQ=255)

                                                                                        cGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAg                                                                                                                                 <  2:1051577/56‑1 (MQ=255)

                                                                                        cGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAg                                                                                                                                 >  1:1051577/1‑56 (MQ=255)

                                                                                        cGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTgcg                                                                                          <  2:235586/95‑1 (MQ=255)

                                                                                        cGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTgcg                                                                                          >  1:235586/1‑95 (MQ=255)

                                                                                        cGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCAGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCct                                              <  2:332960/139‑1 (MQ=255)

                                                                                                        tgtgAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGAt                                                   <  2:24838/118‑1 (MQ=255)

                                                                                                        tgtgAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGAt                                                   >  1:24838/1‑118 (MQ=255)

                                                                                                          tgAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCGTGTTGTTGCa                            <  1:458745/139‑1 (MQ=255)

                                                                                                          tgAAAATATTCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCGTGTTGTTGCa                            <  1:1101562/139‑1 (MQ=255)

                                                                                                                  ttCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACaa                                                                                                 >  2:1100948/1‑62 (MQ=255)

                                                                                                                  ttCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACaa                                                                                                 <  1:1100948/62‑1 (MQ=255)

                                                                                                                  ttCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTgcg                                                                                          <  1:571909/69‑1 (MQ=255)

                                                                                                                  ttCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTgcg                                                                                          >  2:571909/1‑69 (MQ=255)

                                                                                                                  ttCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGAt                                                   >  2:455332/1‑108 (MQ=255)

                                                                                                                  ttCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGAt                                                   <  1:455332/108‑1 (MQ=255)

                                                                                                                  ttCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGAt                                                   <  2:782246/108‑1 (MQ=255)

                                                                                                                  ttCATACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGAt                                                   >  1:782246/1‑108 (MQ=255)

                                                                                                                      tACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCgtg                                    <  1:442244/119‑1 (MQ=255)

                                                                                                                      tACCAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCgtg                                    >  2:442244/1‑119 (MQ=255)

                                                                                                                        ccAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCGTGTTGTTGCAGCGGTTGaa                   <  2:938784/134‑1 (MQ=255)

                                                                                                                        ccAACCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCGTGTTGTTGCAGCGGTTGaa                   >  1:938784/1‑134 (MQ=255)

                                                                                                                          aaCCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCgggg                                                                                                              >  1:427853/1‑40 (MQ=255)

                                                                                                                          aaCCTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGc                                                                                                              <  2:427853/41‑1 (MQ=255)

                                                                                                                            ccTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGAt                                                   >  2:1085717/1‑98 (MQ=255)

                                                                                                                            ccTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGAt                                                   <  1:1085717/98‑1 (MQ=255)

                                                                                                                            ccTCAATGGAGAT‑CTGTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGTATGTTCTTGTATATCGCCCAGCCAGACTCCCTCTACGTCGGGTTGTTGCAGCGGCTGAAGGAGTTcac          >  1:164815/1‑137 (MQ=255)

                                                                                                                             cTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGcc                                                            >  2:452854/1‑88 (MQ=255)

                                                                                                                             cTCAATGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGcc                                                            <  1:452854/88‑1 (MQ=255)

                                                                                                                                aaTGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCGTGTTGTTGCAGCGGTTGAAGGAGCTCGCTTtg      >  1:254325/1‑139 (MQ=255)

                                                                                                                                 aTGGATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCGTGTTGTTGCAGCGGTTGAAGGAGCTCGCTTtgt     >  1:559238/1‑139 (MQ=255)

                                                                                                                                    gATAT‑CTTTCAGTAACCCGGAATACCCGGGCCGTTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCGTGTTGTTGCAGCGGTTGAAGGAGCTCGCTTTGTGCa  <  2:254325/139‑1 (MQ=255)

GCGCGCACTAACATTTGTGCAGAATGGCGGGGAGTCGAGCCTCGGCTATCAACAATTTGCGCCATAGCAAACGGACAATTTTGCTCTTCGAGTTTTGCAGCCTCTGTGAAAATATTCATACCAACCTCAATGGATATCCTTTCAGTAACCCGGAATACCCGGGCCGCTAATTCACAAATCTGCGCGCGATTGCAGGATGTTCTTGTATATCGCCCAGCCAGATTGCCTCTACGTCGTGTTGTTGCAGCGGTTGAAGGAGCTCGCTTTGTGCA  >  NC_000913/3014121‑3014392

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A