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
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,176,858	C→T	141 (TAG→TAA)	yqiB ←	DUF1249 protein YqiB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,176,858	0	C	T	100.0%	117.3 / NA	37	141 (TAG→TAA)	yqiB	DUF1249 protein YqiB
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (19/18); total (19/18)

TTTACCCCTAACAGGGCTTCGTGCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGCTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGATGCTTTTCGTCGCGTTGATGCAACTTTTTATTAGGATAATCATACCGCGCTTTGA  >  NC_000913/3176724‑3176988

tttACCCCTAACAGGGCTTCGTGCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTtaat                                                                                                                                >  1:922957/1‑139 (MQ=255)

 ttACCCCTAACAGGGCTTCGTGCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTtaata                                                                                                                               >  1:1089544/1‑139 (MQ=255)

 ttACCCCTAACAGGGCTTCGTGCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTtaata                                                                                                                               >  1:861539/1‑139 (MQ=255)

       cTAACAGGGCTTCGTGCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCgg                                                                                                                         <  1:25172/139‑1 (MQ=255)

          aCAGGGCTTCGTGCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAAt                                                                                                                      >  2:864700/1‑139 (MQ=255)

              ggCTTCGTGCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGcc                                                                                                                  >  2:904993/1‑139 (MQ=255)

              ggCTTCGTGCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGcc                                                                                                                  >  2:795071/1‑139 (MQ=255)

              ggCTTCGTGCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGcc                                                                                                                  <  2:1089544/139‑1 (MQ=255)

                      gCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTcc                                                                                                          <  2:922957/139‑1 (MQ=255)

                      gCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTcc                                                                                                          <  1:795071/139‑1 (MQ=255)

                                  aCAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACa                                                                                              <  1:471951/139‑1 (MQ=255)

                                  aCAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACa                                                                                              <  1:904993/139‑1 (MQ=255)

                                      gTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTAt                                                                                          <  1:864700/139‑1 (MQ=255)

                                            gtCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAAc                                                                                    <  1:452300/139‑1 (MQ=255)

                                              cGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCa                                                                                  >  1:1069588/1‑139 (MQ=255)

                                                               cTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATaaa                                                                                                                             <  1:545793/79‑1 (MQ=255)

                                                               cTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATaaa                                                                                                                             >  2:545793/1‑79 (MQ=255)

                                                                  aCTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTaa                                                              >  2:1084901/1‑139 (MQ=255)

                                                                        gCCTCACCAGCCAGAGGAAGTGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGAt                                                        >  1:234613/1‑139 (MQ=255)

                                                                            cACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTcc                                                                                                          <  2:366211/85‑1 (MQ=255)

                                                                            cACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTcc                                                                                                          >  1:366211/1‑85 (MQ=255)

                                                                                         aaGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGATGCTTTTCGTCGCGTTGa                                       >  1:490509/1‑139 (MQ=255)

                                                                                                aaCAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTcc                                                                                                          <  1:169604/65‑1 (MQ=255)

                                                                                                aaCAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTcc                                                                                                          >  2:169604/1‑65 (MQ=255)

                                                                                                     gCTTTCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGATGCTTTTCGTCGCGTTGATGCAACTTTtta                           <  2:234613/139‑1 (MQ=255)

                                                                                                       tttCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCAtg                                                                                                       <  2:172844/61‑1 (MQ=255)

                                                                                                       tttCCAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCAtg                                                                                                       >  1:172844/1‑61 (MQ=255)

                                                                                                         tCCAAATGGTGTCCTTAGGTTTCACGACGTTAATACACCTGAATCGCCATCTCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGATGCTTTTCGTCGCGTTGATGCAACTTGTTATTAg                       <  2:469343/139‑1 (MQ=255)

                                                                                                           cAAATGGTGTCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGATGCTTTTCGTCGCGTTGATGCAACTTTTTATTAGGa                     <  2:490509/139‑1 (MQ=255)

                                                                                                                    tCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTcc                                                                                                          <  1:897082/45‑1 (MQ=255)

                                                                                                                    tCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTcc                                                                                                          <  2:951928/45‑1 (MQ=255)

                                                                                                                    tCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTcc                                                                                                          >  2:897082/1‑45 (MQ=255)

                                                                                                                    tCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTcc                                                                                                          >  1:951928/1‑45 (MQ=255)

                                                                                                                    tCCTTAGGTTTCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGATGCTTTTCGTCGCGTTGATGCAACTTTTTATTAGGATAATCATAc            >  1:557611/1‑139 (MQ=255)

                                                                                                                              tCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGATGCTTTTCGTCGCGTTGATg                                     <  2:682342/104‑1 (MQ=255)

                                                                                                                              tCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGATGCTTTTCGTCGCGTTGATg                                     >  1:682342/1‑104 (MQ=255)

                                                                                                                              tCACGACGTTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGATGCTTTTCGTCGCGTTGATGCAACTTTTTATTAGGATAATCATACCGCGCTTTGa  >  2:766733/1‑139 (MQ=255)

TTTACCCCTAACAGGGCTTCGTGCTTTTGTGCAAACAGGTGAGTGTCGGTAATTTGTAAAATCCTGACTCTGGCCTCACCAGCCAGAGGAAGGGTTAACAGGCTTTCCAAATGGTGTCCTTAGGTTTCACGACGCTAATAAACCGGAATCGCCATCGCTCCATGTGCTAAACAGTATCGCAACCAGTCCGCTAAAAACTGATTAATTTGATGCTTTTCGTCGCGTTGATGCAACTTTTTATTAGGATAATCATACCGCGCTTTGA  >  NC_000913/3176724‑3176988

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