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
A13 F1 I2 R1	762	35.5	1545288	95.5%	1475750	117.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,549,088	G→A	G94E (GGG→GAG)	fimH →	minor component of type 1 fimbriae

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,549,088	0	G	A	100.0%	104.5 / NA	33	G94E (GGG→GAG)	fimH	minor component of type 1 fimbriae
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (18/15); total (18/15)

GAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGGCGCTTTATTTGACGCCTGTGAGCAGTGCGGGCGGGGT  >  NC_000913/4548954‑4549223

gAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGAcc                                                                                                                                     <  1:749235/139‑1 (MQ=255)

 aaTGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCg                                                                                                                                    <  2:762838/139‑1 (MQ=255)

       gggCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGGAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTACTTTTTCCGAGCCCGTAAAat                                                                                                                              >  2:548706/1‑139 (MQ=255)

            aaaCCTGGTCGTGCATCTTTCGACGCAAATCTTTTGCCATAACGCTTGTCAGGAAACCATGACAAACTATGTCACACTGCAACGAGGCTCGGCTTATTGCGGCGCGTTAACTAATTTTTCCGAGACCGTAAAATATAGt                                                                                                                         <  2:261287/139‑1 (MQ=255)

              aCCTGGTCGTGGATCTTTCGACGCAAATCTTTTCCCATAACGATTATCCGTAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTgg                                                                                                                       <  2:524080/139‑1 (MQ=255)

               ccTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGc                                                                                                                      <  1:101496/139‑1 (MQ=255)

                        ggATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTAt                                                                                                             <  1:15326/139‑1 (MQ=255)

                        ggATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTAt                                                                                                             >  2:321273/1‑139 (MQ=255)

                        ggATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTAGCAGTAGCTAt                                                                                                             >  1:501191/1‑139 (MQ=255)

                           tCTTTCTAAGCAAATCTTATGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCCCGGCTTATGGCGGCGTGGTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCa                                                                                                          <  2:228474/139‑1 (MQ=255)

                                               gCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAAc                                                                                      <  2:461782/139‑1 (MQ=255)

                                                      cGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCcgcgc                                                                               <  1:45963/139‑1 (MQ=255)

                                                          tATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCgttg                                                                           >  1:360695/1‑139 (MQ=255)

                                                                 aaaCCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCCCGCGTTGTTTATaa                                                                    >  1:475923/1‑139 (MQ=255)

                                                                       ttACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACAACCAGCGAAACGCCGCGCGTTGTTTATAATTCgag                                                              >  1:425499/1‑139 (MQ=255)

                                                                         aCAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCgttgtt                                                                         <  1:649883/126‑1 (MQ=255)

                                                                         aCAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCgttgtt                                                                         >  2:649883/1‑126 (MQ=255)

                                                                         aCAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACAACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGaa                                                            <  2:425499/139‑1 (MQ=255)

                                                                                 tGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAg                                                    >  1:112287/1‑139 (MQ=255)

                                                                                    cacaCTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCg                                                 >  1:158579/1‑139 (MQ=255)

                                                                                       acTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTgg                                              >  2:739747/1‑139 (MQ=255)

                                                                                         tGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTa                                                                                                                                  <  1:760316/53‑1 (MQ=255)

                                                                                         tGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTa                                                                                                                                  >  2:760316/1‑53 (MQ=255)

                                                                                         tGCAACGAGGCTCGGCTGATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGcc                                            >  1:483146/1‑139 (MQ=255)

                                                                                              cGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTgg                                       >  2:299887/1‑139 (MQ=255)

                                                                                                 ggCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCgg                                          <  2:174025/133‑1 (MQ=255)

                                                                                                 ggCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCgg                                          >  1:174025/1‑133 (MQ=255)

                                                                                                   cTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTa                                                                                                                                  <  1:704072/43‑1 (MQ=255)

                                                                                                   cTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTa                                                                                                                                  >  2:704072/1‑43 (MQ=255)

                                                                                                   cTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGGCGCtt                                  <  2:483146/139‑1 (MQ=255)

                                                                                                   cTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGGCGCtt                                  >  1:402345/1‑139 (MQ=255)

                                                                                                             ggcggcGTGTTATCTAATTTTTCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGGCGCTTTATTTGACGc                        >  2:532064/1‑139 (MQ=255)

                                                                                                                              tttttCCGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGGCGCTTTATTTGACGCCTGTGAGCAGTgcgggc       >  1:606488/1‑139 (MQ=255)

                                                                                                                                   ccGAGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGGCGCTTTATTTGACGCCTGTGAGCAGTGCGGGCGGGGt  >  2:477114/1‑139 (MQ=255)

GAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGGCGCTTTATTTGACGCCTGTGAGCAGTGCGGGCGGGGT  >  NC_000913/4548954‑4549223

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A