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 F28 I1 R1	176	31.5	1082462	98.8%	1069472	138.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,291,948	A→G	D203G (GAC→GGC)	yraK →	putative fimbrial adhesin YraK

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,291,948	0	A	G	100.0%	106.9 / NA	30	D203G (GAC→GGC)	yraK	putative fimbrial adhesin YraK
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (16/14); total (16/14)

TTAATATTGGTGCGAACACCACCTTTACCCTGTATGTCACCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGACTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATTCATCAATGGTCAGAAGTTTACCACCCGCAATGCC  >  NC_000913/3291813‑3292081

ttAATATTGGTGCGAACACCACCTTTACCCTGTATGTCACCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTc                                                                                                                                   >  2:227019/1‑140 (MQ=255)

     atTGGTGCGAACACCACCTTTACCCTGTATGTCACCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGa                                                                                                                              >  1:56592/1‑140 (MQ=255)

         gTGCGAACACCACCTTTACCCTGTATGTCACCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTa                                                                                                                          >  2:461257/1‑140 (MQ=255)

              aaCACCACCTTTACCCTGTATGTCACCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCaa                                                                                                                     <  2:210866/140‑1 (MQ=255)

                   caccTTTACCCTGTATGTCACCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTAt                                                                                                                >  2:117014/1‑140 (MQ=255)

                             cTGTATGTCACCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAggg                                                                                                      >  1:507168/1‑140 (MQ=255)

                                  tGTCACCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAAtc                                                                                                 >  1:381604/1‑140 (MQ=255)

                                      aCCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCAc                                                                                             <  1:117014/140‑1 (MQ=255)

                                      aCCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCAc                                                                                             <  1:227019/140‑1 (MQ=255)

                                      aCCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCAc                                                                                             <  2:381604/140‑1 (MQ=255)

                                          aGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGcc                                                                                         >  1:302476/1‑140 (MQ=255)

                                                       cTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCa                                                                            <  2:507168/140‑1 (MQ=255)

                                                                    ccGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAggg                                                               <  1:212633/140‑1 (MQ=255)

                                                                    ccGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAggg                                                               <  1:461257/140‑1 (MQ=255)

                                                                        aaaCGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGAt                                                           <  1:123868/140‑1 (MQ=255)

                                                                         aaCGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAAt                                                                    >  1:198342/1‑130 (MQ=255)

                                                                         aaCGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAAt                                                                    <  2:198342/130‑1 (MQ=255)

                                                                          aCGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGt                                                         >  1:176684/1‑140 (MQ=255)

                                                                                                 cgcgTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATtca                                  >  2:75543/1‑140 (MQ=255)

                                                                                                   cgTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATtcatc                                >  2:195969/1‑140 (MQ=255)

                                                                                                   cgTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATtcatc                                >  2:7340/1‑140 (MQ=255)

                                                                                                    gTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATtcatca                               <  2:148884/140‑1 (MQ=255)

                                                                                                    gTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATtcatca                               <  1:7340/140‑1 (MQ=255)

                                                                                                         tCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATTCATCAATGGt                          <  1:75543/140‑1 (MQ=255)

                                                                                                         tCGATGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATTCATCAATGGt                          <  1:514666/140‑1 (MQ=255)

                                                                                                            aTGGAATGGGAAGCCCGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATTCATCAATGGTCAg                       >  1:233072/1‑140 (MQ=255)

                                                                                                                         cccGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATTCATCAATGGTCAGAAGTTTACCAccc          >  2:342087/1‑140 (MQ=255)

                                                                                                                          ccGTCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATTCATCAATGGTCAGAAGTTTACCACCCg         >  1:539484/1‑140 (MQ=255)

                                                                                                                             tCTACAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATTCATCAATGGTCAGAAGTTTACCACCCGCaa      >  1:170430/1‑140 (MQ=255)

                                                                                                                                 cAGGTGGCTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATTCATCAATGGTCAGAAGTTTACCACCCGCAatgcc  <  2:233072/140‑1 (MQ=255)

TTAATATTGGTGCGAACACCACCTTTACCCTGTATGTCACCAAGCCATTTCTCGGCTCGATGACCATTCCGAAAACGGATATTGCCGTCATTAAAGGCGCGTGGGTCGATGGAATGGGAAGCCCGTCTACAGGTGACTTCCATGATTTAGTCAAGTTATCGATTCAGGGAAATCTCACCGCCCCACAGTCGTGCAAAATTAATCAGGGCGATGTTATTAAGGTTAATTTTGGATTCATCAATGGTCAGAAGTTTACCACCCGCAATGCC  >  NC_000913/3291813‑3292081

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A