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
A8 F1 I1 R1	771	44.8	2153074	94.1%	2026042	109.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,549,061	A→G	Y85C (TAT→TGT)	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	4,549,061	0	A	G	100.0%	177.9 / NA	51	Y85C (TAT→TGT)	fimH	minor component of type 1 fimbriae
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (24/27); total (24/27)

GTTTATGTAAACCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGGCGCTT  >  NC_000913/4548928‑4549191

gTTTATGTAAACCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTggcg                                                                                                                               <  1:860586/139‑1 (MQ=255)

     tGTAAACCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCgtg                                                                                                                          <  1:910056/139‑1 (MQ=255)

         aaCCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTAt                                                                                                                      >  1:128362/1‑139 (MQ=255)

         aaCCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTAt                                                                                                                      >  2:501158/1‑139 (MQ=255)

          aCCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATc                                                                                                                     >  2:400736/1‑139 (MQ=255)

              tGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAAt                                                                                                                 >  1:872183/1‑139 (MQ=255)

                      tcgtGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCgg                                                                                                         >  2:458163/1‑139 (MQ=255)

                        gtGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       <  1:1068476/139‑1 (MQ=255)

                        gtGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       <  1:458163/139‑1 (MQ=255)

                        gtGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       <  2:128362/139‑1 (MQ=255)

                        gtGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       <  2:872183/139‑1 (MQ=255)

                          gAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGAcc                                                                                                     <  2:927915/139‑1 (MQ=255)

                                 gggCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTggcg                                                                                                                               >  1:255560/1‑106 (MQ=255)

                                 gggCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTggcg                                                                                                                               <  2:255560/106‑1 (MQ=255)

                                        aCCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTgg                                                                                       <  2:995492/139‑1 (MQ=255)

                                        aCCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTgg                                                                                       <  1:890336/139‑1 (MQ=255)

                                        aCCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTgg                                                                                       >  2:890336/1‑139 (MQ=255)

                                            ggTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       >  2:752621/1‑119 (MQ=255)

                                            ggTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       <  1:752621/119‑1 (MQ=255)

                                                     tCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCa                                                                          <  1:560708/139‑1 (MQ=255)

                                                      cTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCAt                                                                         <  1:486915/139‑1 (MQ=255)

                                                      cTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCAt                                                                         <  1:868341/139‑1 (MQ=255)

                                                                       ttGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGaa                                                        <  1:501158/139‑1 (MQ=255)

                                                                                       ccGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCgtg                                                                                                                          <  2:99196/57‑1 (MQ=255)

                                                                                       ccGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCgtg                                                                                                                          >  1:99196/1‑57 (MQ=255)

                                                                                                aTTACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       >  2:1017738/1‑67 (MQ=255)

                                                                                                aTTACAGACAATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       <  1:1017738/67‑1 (MQ=255)

                                                                                                 ttACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCgag                              >  2:514655/1‑139 (MQ=255)

                                                                                                  tACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTggc                                                                                                                                >  2:611932/1‑40 (MQ=255)

                                                                                                  tACAGACTATGTCACACTGCAACGAGGCTCGGCTTGTggc                                                                                                                                <  1:611932/40‑1 (MQ=255)

                                                                                                           tGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       >  2:457478/1‑56 (MQ=255)

                                                                                                           tGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       <  1:457478/56‑1 (MQ=255)

                                                                                                           tGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGAt                       >  2:726826/1‑136 (MQ=255)

                                                                                                           tGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGAt                       <  1:726826/136‑1 (MQ=255)

                                                                                                           tGTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAg                    >  1:845480/1‑139 (MQ=255)

                                                                                                            gTCACACTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGc                   >  2:1017108/1‑139 (MQ=255)

                                                                                                                  cTGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGc             <  1:514655/139‑1 (MQ=255)

                                                                                                                   tGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACTACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGcc            >  2:749046/1‑139 (MQ=255)

                                                                                                                   tGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGcc            >  2:381917/1‑139 (MQ=255)

                                                                                                                   tGCAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGcc            >  2:730005/1‑139 (MQ=255)

                                                                                                                     cAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       >  1:66916/1‑46 (MQ=255)

                                                                                                                     cAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGa                                                                                                       <  2:66916/46‑1 (MQ=255)

                                                                                                                     cAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAatat                                                                                            >  2:4269/1‑57 (MQ=255)

                                                                                                                     cAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAatat                                                                                            <  1:4269/57‑1 (MQ=255)

                                                                                                                     cAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAg                                                                                 >  2:1008482/1‑68 (MQ=255)

                                                                                                                     cAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAg                                                                                 <  1:1008482/68‑1 (MQ=255)

                                                                                                                     cAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCcgcgcg                                              <  1:594241/103‑1 (MQ=255)

                                                                                                                     cAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCcgcgcg                                              >  2:594241/1‑103 (MQ=255)

                                                                                                                     cAACGAGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCgg          >  2:350974/1‑139 (MQ=255)

                                                                                                                          aGGCTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGgcg     <  1:749046/139‑1 (MQ=255)

                                                                                                                             cTCGGCTTGTGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGGCGCtt  <  1:350974/139‑1 (MQ=255)

GTTTATGTAAACCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAAACCATTACAGACTATGTCACACTGCAACGAGGCTCGGCTTATGGCGGCGTGTTATCTAATTTTTCCGGGACCGTAAAATATAGTGGCAGTAGCTATCCATTTCCTACCACCAGCGAAACGCCGCGCGTTGTTTATAATTCGAGAACGGATAAGCCGTGGCCGGTGGCGCTT  >  NC_000913/4548928‑4549191

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A