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
A11 F1 I2 R1	760	67.6	3323148	92.7%	3080558	109.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	382,579	G→A	302 (TAG→TAA)	insD1 →	IS2 transposase TnpB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	382,579	0	G	A	100.0%	138.1 / NA	43	302 (TAG→TAA)	insD1	IS2 transposase TnpB
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (20/23); total (20/23)

TATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGTTTCATCAATAATTACCTGGTCTG  >  NC_000913/382472‑382712

tataACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTg                                                                                                        <  2:1370819/139‑1 (MQ=255)

       aaTGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAAt                                                                                                 <  1:1121244/139‑1 (MQ=255)

       aaTGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAAt                                                                                                 >  1:344054/1‑139 (MQ=255)

        aTGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATc                                                                                                >  1:27785/1‑139 (MQ=255)

         tGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCa                                                                                               >  2:1162164/1‑139 (MQ=255)

         tGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCa                                                                                               <  2:326395/139‑1 (MQ=255)

         tGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCa                                                                                               <  1:723833/139‑1 (MQ=255)

              tCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTAcc                                                                                          <  2:892220/139‑1 (MQ=255)

              tCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTAcc                                                                                          <  2:1033989/139‑1 (MQ=255)

                         cgcTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGa                                                                                       >  2:613536/1‑131 (MQ=255)

                         cgcTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGa                                                                                       <  1:613536/131‑1 (MQ=255)

                           cTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGt                                                                                                           >  1:527985/1‑109 (MQ=255)

                           cTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGt                                                                                                           <  2:527985/109‑1 (MQ=255)

                            tGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAAc                                                                            >  1:955159/1‑139 (MQ=255)

                                       tcgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGAc                                                                 <  2:27785/139‑1 (MQ=255)

                                        cgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACa                                                                >  2:885797/1‑139 (MQ=255)

                                                   tatCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAAt                                                             >  1:1504171/1‑131 (MQ=255)

                                                   tatCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAAt                                                             <  2:1504171/131‑1 (MQ=255)

                                                          ggCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGcc                                              >  1:476571/1‑139 (MQ=255)

                                                              gCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTAcc                                                                                          >  1:552203/1‑91 (MQ=255)

                                                              gCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTAcc                                                                                          <  2:552203/91‑1 (MQ=255)

                                                                     tGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACtt                                   <  1:1464213/139‑1 (MQ=255)

                                                                            ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGc                            >  2:261882/1‑139 (MQ=255)

                                                                              ttAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCgcgc                                               <  2:418157/118‑1 (MQ=255)

                                                                              ttAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCgcgc                                               >  1:418157/1‑118 (MQ=255)

                                                                                 aGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGttt                       >  2:1074272/1‑139 (MQ=255)

                                                                                    gATAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGTTtcat                    <  2:955159/139‑1 (MQ=255)

                                                                                     aTAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGTTtcatc                   <  1:1120014/139‑1 (MQ=255)

                                                                                      tAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGa                                                                                       <  2:21442/70‑1 (MQ=255)

                                                                                      tAACAGATGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGa                                                                                       >  1:21442/1‑70 (MQ=255)

                                                                                            aTGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAgg                                                                                                               >  1:819553/1‑40 (MQ=21)

                                                                                            aTGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAgg                                                                                                               <  2:819553/40‑1 (MQ=255)

                                                                                            aTGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGTTTCATCAATAAtt            >  1:330215/1‑139 (MQ=255)

                                                                                             tGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTAcc                                                                                          >  2:1423726/1‑60 (MQ=255)

                                                                                             tGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTAcc                                                                                          <  1:1423726/60‑1 (MQ=255)

                                                                                             tGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGaa                                                                                >  1:607558/1‑70 (MQ=255)

                                                                                             tGTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGaa                                                                                <  2:607558/70‑1 (MQ=255)

                                                                                              gTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGTTTCATCAATAATTAc          <  2:476571/139‑1 (MQ=255)

                                                                                              gTCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGTTTCATCAATAATTAc          <  1:1162164/139‑1 (MQ=255)

                                                                                               tCTGGAAATATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGTTTCATCAATAATTAcc         >  2:467735/1‑139 (MQ=255)

                                                                                                    aaaTATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACgg                                                                          >  1:96293/1‑69 (MQ=255)

                                                                                                    aaaTATAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACgg                                                                          <  2:96293/69‑1 (MQ=255)

                                                                                                      atatAAGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGTTTCATCAATAATTACCTGGTCTg  <  1:1074272/139‑1 (MQ=255)

TATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAGTTTCATCAATAATTACCTGGTCTG  >  NC_000913/382472‑382712

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