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 F1 I1 R1	760	58.2	3022526	90.8%	2744453	102.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,838,137	G→A	395 (TAG→TAA)	setC →	putative arabinose efflux transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,838,137	0	G	A	100.0%	121.2 / NA	39	395 (TAG→TAA)	setC	putative arabinose efflux transporter
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/22); total (17/22)

GGCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAGCTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCAGAGGGAAAAATGGGTTCCACCAGAAAGG  >  NC_000913/3838009‑3838266

ggCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTc                                                                                                                         >  2:932671/1‑139 (MQ=255)

ggCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTc                                                                                                                         <  1:52647/139‑1 (MQ=255)

               ggCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAAt                                                                                                          >  1:1077846/1‑139 (MQ=255)

                        gACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGgc                                                                                                 <  2:1077846/139‑1 (MQ=255)

                         aCGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGgcg                                                                                                <  1:932671/139‑1 (MQ=255)

                           ggAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCa                                                                                              >  1:281805/1‑139 (MQ=255)

                                                     ccATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGc                                                                    >  2:867181/1‑139 (MQ=255)

                                                            ttgttCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCg                                                                                                     <  2:997498/99‑1 (MQ=255)

                                                            ttgttCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCg                                                                                                     >  1:997498/1‑99 (MQ=255)

                                                            ttgttCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATg                                                             <  1:1228639/139‑1 (MQ=255)

                                                             tgttCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGc                                                            <  2:476912/139‑1 (MQ=255)

                                                               ttCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCt                                                          <  1:867181/139‑1 (MQ=255)

                                                                        gcGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGcatacata                                                 <  1:1135286/139‑1 (MQ=255)

                                                                         cGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATaa                                                >  2:129027/1‑139 (MQ=255)

                                                                          gATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATaaa                                               <  2:281805/139‑1 (MQ=255)

                                                                             aGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGa                                            <  2:1411401/139‑1 (MQ=255)

                                                                               ggATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGgcg                                                                                                >  1:323646/1‑85 (MQ=255)

                                                                               ggATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGgcg                                                                                                <  2:323646/85‑1 (MQ=255)

                                                                                   gTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAAc                                      <  1:129027/139‑1 (MQ=255)

                                                                                           ttGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTg                                                                     <  1:1510240/100‑1 (MQ=255)

                                                                                           ttGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTg                                                                     >  2:1510240/1‑100 (MQ=255)

                                                                                            tGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCa                                                                                                                               >  1:230362/1‑41 (MQ=255)

                                                                                            tGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAACTCa                                                                                                                               <  2:230362/41‑1 (MQ=255)

                                                                                                 tgatTTGCCTGCTGTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCAGAGGGa                        >  1:923706/1‑139 (MQ=255)

                                                                                                             tgTTTATTAAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCAGAGGGAAAAATGGGTTcc            >  1:269154/1‑139 (MQ=255)

                                                                                                                 tattaAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCt                                                                                >  2:216315/1‑67 (MQ=255)

                                                                                                                 tattaAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCt                                                                                <  1:216315/67‑1 (MQ=255)

                                                                                                                   ttaAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCAttttt                                                                      >  1:569365/1‑75 (MQ=255)

                                                                                                                   ttaAAGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCAttttt                                                                      <  2:569365/75‑1 (MQ=255)

                                                                                                                       aGATATTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCAGAGGGAAAAATGGGTTCCACCAGAAAgg  <  2:927185/139‑1 (MQ=255)

                                                                                                                         atatTTAACTCACCAGTCTGGGCTAAGAAAAATCGGc                                                                                                      <  2:13805/37‑1 (MQ=255)

                                                                                                                         atatTTAACTCACCAGTCTGGGCTAAGAAAAATCGGc                                                                                                      >  1:13805/1‑37 (MQ=255)

                                                                                                                         atatTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGTGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATaaa                                               >  2:310091/1‑92 (MQ=255)

                                                                                                                         atatTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGTGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATaaa                                               <  1:310091/92‑1 (MQ=255)

                                                                                                                         atatTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTc                                                                               <  2:274331/60‑1 (MQ=255)

                                                                                                                         atatTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTc                                                                               >  1:274331/1‑60 (MQ=255)

                                                                                                                           atTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCt                                                                                <  2:1186772/57‑1 (MQ=255)

                                                                                                                           atTTAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCt                                                                                >  1:1186772/1‑57 (MQ=255)

                                                                                                                             ttAACTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCAGAGGGAAAAATGGGTTccac          <  1:176287/125‑1 (MQ=255)

GGCTGGATTATCGCCGGCTCTGTTGACGGAATTATGGTTGAAATCTGGAGCTACCATGCGTTGTTCTGGCTGGCGATAGGGATGTTGGGTATTGCGATGATTTGCCTGCTGTTTATTAAAGATATTTAGCTCACCAGTCTGGGCTAAGAAAAATCGGCGTGGCGCAAACAGAGCCATCCTCGCCATTTTTGCTATCATGCCTGCATACATAAACGACAAAACAGTATGCAGAGGGAAAAATGGGTTCCACCAGAAAGG  >  NC_000913/3838009‑3838266

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A